Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A1 F1 I2 R1	593	264.2	13311096	97.8%	13018251	93.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,152,247	+C	intergenic (+10/+29)	yghB → / ← yqhC	hypothetical protein/putative ARAC‑type regulatory protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,152,244	1	.	C	99.5%	796.1 / ‑4.1	216	intergenic (+7/+32)	yghB/yqhC	hypothetical protein/putative ARAC‑type regulatory protein
Reads supporting (aligned to +/- strand): ref base . (0/1); new base C (129/86); total (129/87)
Fisher's exact test for biased strand distribution p-value = 4.03e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 253 total aligned reads displayed.

TGATGATCCTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTT‑C‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCGAA  >  NC_000913/3152152‑3152332

  atgatCCTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTtt‑c‑c                                                                                        >  1:1942849/1‑93 (MQ=255)

   tgatCCTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTtt‑c‑cc                                                                                       <  1:3021359/93‑1 (MQ=255)

   tgatCCTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTtt‑c‑cc                                                                                       >  2:2766572/1‑93 (MQ=255)

    gatCCTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTtt‑c‑ccc                                                                                      <  1:1028094/93‑2 (MQ=255)

    gatCCTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTtt‑c‑ccc                                                                                      <  2:3218162/93‑2 (MQ=255)

     atCCTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTtt‑c‑cccg                                                                                     >  2:2568514/1‑91 (MQ=255)

       ccTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACCCCTGACGATTtt‑c‑cccggt                                                                                   >  2:2313356/1‑89 (MQ=255)

         tGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTtcc‑ccgttcc                                                                                  >  1:274330/1‑93 (MQ=255)

         tGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTtcc‑ccgttcc                                                                                  >  1:5961609/1‑93 (MQ=255)

         tGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTtcc‑ccgttcc                                                                                  >  2:3059080/1‑93 (MQ=255)

         tGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTtcc‑ccgttcc                                                                                  >  2:1959201/1‑93 (MQ=255)

           ccAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTtcc‑ccgttcccg                                                                                >  2:5122471/1‑93 (MQ=255)

            cAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTtcc‑ccgttccccg                                                                               >  1:3422865/1‑91 (MQ=255)

             caatGCCTTTTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGt                                                                              <  2:6547768/90‑1 (MQ=255)

             aaTTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGt                                                                              >  1:4275124/1‑93 (MQ=255)

             aaTTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGt                                                                              <  2:4656930/93‑1 (MQ=255)

             aaTTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGt                                                                              <  1:3302397/93‑1 (MQ=255)

             aaTTCCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGt                                                                              <  2:1217160/93‑1 (MQ=255)

                 gCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCt                                                                          <  1:6037091/93‑1 (MQ=255)

                  ccTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTg                                                                         <  2:1164821/93‑1 (MQ=255)

                    ttGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTa                                                                       >  1:2790126/1‑93 (MQ=255)

                     tGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTAc                                                                      <  1:1422201/93‑1 (MQ=255)

                     tGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTAc                                                                      >  1:5560228/1‑93 (MQ=255)

                      gTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTAcc                                                                     >  2:1824032/1‑93 (MQ=255)

                        tAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCgg                                                                   >  1:2215781/1‑93 (MQ=255)

                         aaCCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCggg                                                                  >  2:640610/1‑93 (MQ=255)

                         aaCCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGGTGCTGTAACggg                                                                  >  1:4890748/1‑93 (MQ=255)

                          aCCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGa                                                                 >  1:4545869/1‑93 (MQ=255)

                          aCCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGGTCCCGGGTGCTGTACCGGGa                                                                 >  1:4622457/1‑93 (MQ=255)

                            cGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAAAAACGGTAAGGCCGGCCATTTTTCC‑CCGTTCCCGGTTGCGTTACCGGGaa                                                                >  2:1330526/1‑93 (MQ=255)

                             gCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACg                                                              >  2:214038/1‑93 (MQ=255)

                              cTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGt                                                             >  1:832157/1‑93 (MQ=255)

                               tGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTa                                                            >  1:3264522/1‑93 (MQ=255)

                                 gCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTAtt                                                          >  2:585337/1‑93 (MQ=255)

                                  cTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATCCTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGGACGTAttt                                                         <  2:4388990/93‑1 (MQ=255)

                                    tGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTaa                                                       <  2:1043178/93‑1 (MQ=255)

                                     gTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAAt                                                      >  1:6499024/1‑93 (MQ=255)

                                       tAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGGTCCCGGTTGCTGGACCGGGAACGTATTTAATTc                                                    >  1:6238018/1‑93 (MQ=255)

                                         ggCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTccc                                                  <  1:2497272/93‑1 (MQ=255)

                                            aCGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTg                                               >  2:2039307/1‑93 (MQ=255)

                                            aCGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTg                                               >  1:2807942/1‑93 (MQ=255)

                                             cGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGc                                              <  2:5992593/93‑1 (MQ=255)

                                             cGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGGATTTAATTCCCCTGc                                              >  1:1375346/1‑93 (MQ=255)

                                              gCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCa                                             >  1:1484694/1‑93 (MQ=255)

                                              gCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCa                                             >  1:5210896/1‑93 (MQ=255)

                                               cTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCAt                                            <  2:5046839/93‑1 (MQ=255)

                                               cTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTACGCTGCAt                                            >  1:5376563/1‑93 (MQ=255)

                                                tGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATc                                           >  1:1744883/1‑93 (MQ=255)

                                                 gTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCg                                          >  2:6618885/1‑93 (MQ=255)

                                                 gTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCg                                          >  1:5129670/1‑93 (MQ=255)

                                                 gTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCg                                          >  1:2007552/1‑93 (MQ=255)

                                                  tttGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGc                                         >  2:5276328/1‑93 (MQ=255)

                                                  tttGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGc                                         >  2:1389348/1‑93 (MQ=255)

                                                    tgtgGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGccc                                       <  1:3710309/93‑1 (MQ=255)

                                                    tgtgGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCCTTCCCCGGTTCTGTACCCGGGACGTATTTTATTTCCCTCCATCGccc                                       >  2:4529911/1‑93 (MQ=255)

                                                       ggtgATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCa                                    >  2:6506480/1‑93 (MQ=255)

                                                       ggtgATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCa                                    <  2:4055872/93‑1 (MQ=255)

                                                        gtgATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCAt                                   <  2:6043087/93‑1 (MQ=255)

                                                         tgATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCAtt                                  <  2:3320903/93‑1 (MQ=255)

                                                          gATT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTc                                 <  2:3400080/93‑1 (MQ=255)

                                                           aTT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCt                                >  1:1099370/1‑93 (MQ=255)

                                                           aTT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCt                                >  1:2251310/1‑93 (MQ=255)

                                                           aTT‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCt                                >  1:4026415/1‑93 (MQ=255)

                                                            tt‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCtt                               <  1:5817345/93‑1 (MQ=255)

                                                            tt‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCtt                               <  1:5269731/93‑1 (MQ=255)

                                                            tt‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCtt                               >  2:1563205/1‑93 (MQ=255)

                                                             t‑AAAAAAAAATACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTg                              >  2:6476321/1‑93 (MQ=255)

                                                               aaaaaaaaaTACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGc                             <  1:6450207/93‑1 (MQ=255)

                                                                aaaaaaaaTACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGcc                            >  2:2693267/1‑93 (MQ=255)

                                                                 aaaaaaaTACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCg                           >  2:5471843/1‑93 (MQ=255)

                                                                      aaTACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCt                      <  1:4095385/93‑1 (MQ=255)

                                                                      aaTACTGTAACGCCTGACGATTTT‑CGCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCt                      <  2:6421893/93‑1 (MQ=255)

                                                                       aTACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCtt                     >  2:4901671/1‑93 (MQ=255)

                                                                       aTACTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGACCGCATTCTTGCCGCATCtt                     >  2:298320/1‑93 (MQ=255)

                                                                          cTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTccc                  <  2:3619183/93‑1 (MQ=255)

                                                                          cTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTccc                  <  1:5053074/93‑1 (MQ=255)

                                                                          cTGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGGATTTAATTTCCCTGCATCGCCCGCATTCTTGCCGCATCTTccc                  >  1:3586965/1‑93 (MQ=255)

                                                                           tGTAGCGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTcccc                 <  2:3917492/93‑1 (MQ=255)

                                                                           tGTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTATACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTcccc                 <  2:5706962/93‑1 (MQ=255)

                                                                            gTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTccccc                <  2:6198598/93‑1 (MQ=255)

                                                                            gTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTccccc                >  2:1753385/1‑93 (MQ=255)

                                                                            gTAACGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTccccc                <  2:4924245/93‑1 (MQ=255)

                                                                                cGCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCg            <  2:62959/93‑1 (MQ=255)

                                                                                 gCCTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCgc           >  1:2150402/1‑92 (MQ=255)

                                                                                  ccTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTc          <  1:608031/93‑1 (MQ=255)

                                                                                   cTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTca         <  1:4486825/93‑1 (MQ=255)

                                                                                   cTGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTca         <  2:2880953/93‑1 (MQ=255)

                                                                                    tGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTcac        <  1:4410512/93‑1 (MQ=255)

                                                                                    tGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTcac        <  2:3544186/93‑1 (MQ=255)

                                                                                    tGACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTcac        <  1:158693/93‑1 (MQ=255)

                                                                                    tGACGATTTTCC‑CCGTTCCCGGGTGCTGTACCGGGGACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCCGCGTcac        >  1:4749489/1‑93 (MQ=255)

                                                                                     gACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTcaca       >  2:3797775/1‑93 (MQ=255)

                                                                                     gACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTcaca       >  1:376820/1‑93 (MQ=255)

                                                                                     gACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTcaca       >  1:6355101/1‑93 (MQ=255)

                                                                                     gACGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTcaca       >  1:717743/1‑93 (MQ=255)

                                                                                      aCGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCacac      >  2:2247046/1‑93 (MQ=255)

                                                                                       cGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACAcc     <  2:784482/93‑1 (MQ=255)

                                                                                       cGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACAcc     <  1:2521268/93‑1 (MQ=255)

                                                                                       cGATTTTCC‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACAcc     <  1:3068418/93‑1 (MQ=255)

                                                                                         ttttc‑C‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCGaa  <  2:6117651/92‑1 (MQ=255)

TGATGATCCTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATT‑AAAAAAAAATACTGTAACGCCTGACGATTTT‑C‑CCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCGAA  >  NC_000913/3152152‑3152332

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 20 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

BRESEQ :: bam2aln output

TGATCCTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTT‑CCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCGAAGTAACGTT  >  NC_000913/3152155‑3152340

TGATCCTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTT‑CCCC                                                                                              <  SRR4302547.3081439/94‑1 (MQ=60)

 GATCCTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTT‑CCCcg                                                                                             <  SRR4302547.1048291/94‑3 (MQ=60)

  ATCCTGCCAATTGCCTTGTTAACCGCTGGGTTGTTAGGCAAGCTGTTTGTGGTGATTAAAAAAAAATAGTGTAACGCCTGACGATTTTT‑CCCGT                                                                                             >  SRR4302547.4102374/1‑94 (MQ=60)

     CTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCC                                                                                          >  SRR4302547.6042536/1‑94 (MQ=60)

     CTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCC                                                                                          >  SRR4302547.6085236/1‑94 (MQ=60)

     CTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCC                                                                                          >  SRR4302547.279460/1‑94 (MQ=60)

      TGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCC                                                                                         >  SRR4302547.1671692/1‑94 (MQ=60)

        CCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCCG                                                                                       >  SRR4302547.3492558/1‑94 (MQ=60)

         CAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGT                                                                                      >  SRR4302547.4362395/1‑94 (MQ=60)

         CAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGT                                                                                      >  SRR4302547.4362917/1‑94 (MQ=60)

          AATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTT                                                                                     <  SRR4302547.4761033/94‑1 (MQ=60)

          AATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTT                                                                                     <  SRR4302547.4925210/94‑1 (MQ=60)

          AATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTT                                                                                     <  SRR4302547.3368882/94‑1 (MQ=60)

          AATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTG                                                                                     >  SRR4302547.6774474/1‑94 (MQ=60)

            TTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGC                                                                                   >  SRR4302547.6685799/1‑94 (MQ=60)

            TTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGC                                                                                   <  SRR4302547.4668532/94‑1 (MQ=60)

              GCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTG                                                                                 <  SRR4302547.6162363/94‑1 (MQ=60)

              GCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTT‑CCCcgttccccgcttctg                                                                                >  SRR4302547.2383061/1‑79 (MQ=60)

               CCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGT                                                                                <  SRR4302547.4580642/94‑1 (MQ=60)

               CCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGT                                                                                <  SRR4302547.3098652/94‑1 (MQ=60)

                CTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTA                                                                               >  SRR4302547.2846004/1‑94 (MQ=60)

                 TTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTAC                                                                              >  SRR4302547.5674913/1‑94 (MQ=60)

                  TGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACC                                                                             >  SRR4302547.4519387/1‑94 (MQ=60)

                  TGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACC                                                                             <  SRR4302547.1450680/94‑1 (MQ=60)

                    TTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGG                                                                           >  SRR4302547.2260397/1‑94 (MQ=60)

                    TTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGG                                                                           <  SRR4302547.3404410/94‑1 (MQ=60)

                     TAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGGTGCTGTAACGGG                                                                          >  SRR4302547.4992039/1‑94 (MQ=60)

                      AACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGA                                                                         >  SRR4302547.4639868/1‑94 (MQ=60)

                      AACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGGTCCCGGGTGCTGTACCGGGA                                                                         >  SRR4302547.4718177/1‑94 (MQ=60)

                       ACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAA                                                                        <  SRR4302547.4025007/94‑1 (MQ=60)

                        CCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTT‑CCCcggtacccggtgtcttaacagggaa                                                                      >  SRR4302547.5755803/1‑69 (MQ=60)

                          GCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGT                                                                     >  SRR4302547.848038/1‑94 (MQ=60)

                           CTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTA                                                                    >  SRR4302547.6129242/1‑94 (MQ=60)

                           CTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTA                                                                    >  SRR4302547.3329824/1‑94 (MQ=60)

                            TGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTAT                                                                   >  SRR4302547.2567022/1‑94 (MQ=60)

                            TGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTAT                                                                   >  SRR4302547.5026246/1‑94 (MQ=60)

                              GCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTT                                                                 <  SRR4302547.421862/94‑1 (MQ=60)

                                 TGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAAT                                                              >  SRR4302547.6634294/1‑94 (MQ=60)

                                 TGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAAT                                                              >  SRR4302547.3343946/1‑94 (MQ=60)

                                 TGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAAT                                                              <  SRR4302547.4702085/94‑1 (MQ=60)

                                  GTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTTCCGGTTGCTGTACCGGGGACGGATTTAATT                                                             >  SRR4302547.3599778/1‑94 (MQ=60)

                                   TTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTC                                                            >  SRR4302547.1497224/1‑94 (MQ=60)

                                   TTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGGTCCCGGTTGCTGGACCGGGAACGTATTTAATTC                                                            >  SRR4302547.6367614/1‑94 (MQ=60)

                                    TAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCC                                                           >  SRR4302547.4562992/1‑94 (MQ=60)

                                    TAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCC                                                           >  SRR4302547.1932247/1‑94 (MQ=60)

                                    TAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCC                                                           <  SRR4302547.223970/94‑1 (MQ=60)

                                     TGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCC                                                          >  SRR4302547.1091617/1‑94 (MQ=60)

                                      GGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCC                                                         <  SRR4302547.2547720/94‑1 (MQ=60)

                                       GCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCT                                                        <  SRR4302547.3676735/94‑1 (MQ=60)

                                        CACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTG                                                       >  SRR4302547.2864135/1‑94 (MQ=60)

                                         ACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGC                                                      >  SRR4302547.4474407/1‑94 (MQ=60)

                                         ACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGGATTTAATTCCCCTGC                                                      >  SRR4302547.1402921/1‑94 (MQ=60)

                                         ACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGGTGCTGTACCGGGGACGTATTTAATTCCCCCGC                                                      >  SRR4302547.1402922/1‑94 (MQ=60)

                                          CGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCA                                                     >  SRR4302547.5318137/1‑94 (MQ=60)

                                          CGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCA                                                     >  SRR4302547.1514316/1‑94 (MQ=60)

                                           GCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGACCGTATTTAATTCCCCTGCAT                                                    <  SRR4302547.2219871/94‑1 (MQ=60)

                                           GCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCAT                                                    >  SRR4302547.2854354/1‑94 (MQ=60)

                                           GCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTACGCTGCAT                                                    >  SRR4302547.5487541/1‑94 (MQ=60)

                                            CTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGGACGGATTTTATTCCCCTGCATC                                                   >  SRR4302547.3481572/1‑94 (MQ=60)

                                            CTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCCTC                                                   >  SRR4302547.5012062/1‑94 (MQ=60)

                                            CTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATC                                                   >  SRR4302547.2862267/1‑94 (MQ=60)

                                            CTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATC                                                   >  SRR4302547.1779276/1‑94 (MQ=60)

                                            CTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATC                                                   <  SRR4302547.2465309/94‑1 (MQ=60)

                                             TGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCG                                                  >  SRR4302547.5235371/1‑94 (MQ=60)

                                             TGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCG                                                  <  SRR4302547.983088/94‑1 (MQ=60)

                                             TGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCG                                                  >  SRR4302547.2047497/1‑94 (MQ=60)

                                               TTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGCTCCCGGTTTCTGTTCCGGGCAGGCATTTAATTCCCCcgcacagcc                                                >  SRR4302547.5821848/1‑85 (MQ=53)

                                                TTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCC                                               <  SRR4302547.6581850/94‑1 (MQ=60)

                                                 TGTGGTGATTAAAAACAAATACTGTAGCGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTGCCGGGAACGTATTTAATTCCCCTGCATCGCCCG                                              <  SRR4302547.4815995/94‑1 (MQ=60)

                                                 TGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCG                                              <  SRR4302547.3786053/94‑1 (MQ=60)

                                                  GTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGC                                             >  SRR4302547.4899801/1‑94 (MQ=60)

                                                    GGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCAT                                           >  SRR4302547.3269681/1‑94 (MQ=60)

                                                     GTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATT                                          <  SRR4302547.2613359/94‑1 (MQ=60)

                                                      TGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTC                                         <  SRR4302547.4014345/94‑1 (MQ=60)

                                                      TGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTC                                         >  SRR4302547.168298/1‑94 (MQ=60)

                                                      TGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCCTTCCCGGTTTCTGGACCGGGAACGTATTTAAattccctgcctcccccgcactt                                         >  SRR4302547.2513323/1‑72 (MQ=60)

                                                       GATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCT                                        >  SRR4302547.2296762/1‑94 (MQ=60)

                                                       GATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCT                                        >  SRR4302547.5451012/1‑94 (MQ=60)

                                                       GATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCT                                        >  SRR4302547.1121452/1‑94 (MQ=60)

                                                       GATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCT                                        >  SRR4302547.4108216/1‑94 (MQ=60)

                                                         TTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTG                                      <  SRR4302547.5937699/94‑1 (MQ=60)

                                                         TTAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTG                                      <  SRR4302547.5378311/94‑1 (MQ=60)

                                                          TAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGC                                     >  SRR4302547.756559/1‑94 (MQ=60)

                                                          TAAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGATGCTGTACCGGGAACGTATTTAATTCCCCAGCATCGCCCGCATTCTTGC                                     >  SRR4302547.4140122/1‑94 (MQ=60)

                                                          TAAAAAAAAATACTGGAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGGATTTAATTCCCCTGCATCGCCCGCATTCTTGC                                     >  SRR4302547.4140123/1‑94 (MQ=60)

                                                           AAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCC                                    <  SRR4302547.6584584/94‑1 (MQ=60)

                                                           AAAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCCATCCCGGTTTCTGTAGCGGGCACGTATTTAATTttcctttatcgccagcatttctgcc                                    >  SRR4302547.2529840/1‑69 (MQ=34)

                                                            AAAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGGACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCG                                   >  SRR4302547.113666/1‑94 (MQ=60)

                                                             AAAAAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGC                                  >  SRR4302547.5936948/1‑94 (MQ=60)

                                                                AAAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATC                               >  SRR4302547.146956/1‑94 (MQ=60)

                                                                 AAATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCT                              >  SRR4302547.5302518/1‑94 (MQ=60)

                                                                  AATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTT                             <  SRR4302547.4178664/94‑1 (MQ=60)

                                                                   ATACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTC                            <  SRR4302547.3717610/94‑1 (MQ=60)

                                                                     ACTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGGATTTAATTTCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCC                          >  SRR4302547.3660143/1‑94 (MQ=60)

                                                                      CTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCC                         <  SRR4302547.5157390/94‑1 (MQ=60)

                                                                      CTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCC                         <  SRR4302547.1552876/94‑1 (MQ=60)

                                                                      CTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCC                         <  SRR4302547.2151615/94‑1 (MQ=60)

                                                                      CTGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCC                         >  SRR4302547.6626225/1‑94 (MQ=60)

                                                                      CTGTAACGCCCGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCC                         >  SRR4302547.2261956/1‑94 (MQ=60)

                                                                       TGTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCC                        <  SRR4302547.5796906/94‑1 (MQ=60)

                                                                        GTAACTCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCG                       <  SRR4302547.2813922/94‑1 (MQ=60)

                                                                        GTAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCG                       <  SRR4302547.2878996/94‑1 (MQ=60)

                                                                         TAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGG                      >  SRR4302547.2008113/1‑94 (MQ=60)

                                                                         TAACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGGATTTAATTCCCCTGCATCGCCCGCAATCTTGCCGCATCTTCCCCCCG                      >  SRR4302547.61610/1‑94 (MQ=60)

                                                                          AACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGC                     >  SRR4302547.5197253/1‑94 (MQ=60)

                                                                          AACGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGC                     <  SRR4302547.2027282/94‑1 (MQ=60)

                                                                            CGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGC                   >  SRR4302547.2193321/1‑94 (MQ=60)

                                                                            CGCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGGATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGC                   >  SRR4302547.1337115/1‑94 (MQ=60)

                                                                             GCCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTC                  >  SRR4302547.6118408/1‑94 (MQ=60)

                                                                              CCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCA                 <  SRR4302547.619336/94‑1 (MQ=60)

                                                                              CCTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCA                 <  SRR4302547.6217802/94‑1 (MQ=60)

                                                                               CTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCAC                >  SRR4302547.5522318/1‑94 (MQ=60)

                                                                               CTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCAC                >  SRR4302547.2759770/1‑94 (MQ=60)

                                                                               CTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCAC                <  SRR4302547.4579506/94‑1 (MQ=60)

                                                                               CTGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGGATTTAATTTCCCTGCATCGCCCGCATTCTTTCCGCATCTTCCCCCGGCGTCAC                >  SRR4302547.4700814/1‑94 (MQ=60)

                                                                               CTGACGA‑TTTTCCCCGTTCCCGGGTGCTGTACCGGGGACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCCGCGTCAC                >  SRR4302547.4847903/1‑94 (MQ=60)

                                                                                TGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACA               <  SRR4302547.4501429/94‑1 (MQ=60)

                                                                                TGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACA               >  SRR4302547.731049/1‑94 (MQ=60)

                                                                                TGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACA               >  SRR4302547.6487586/1‑94 (MQ=60)

                                                                                TGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACA               >  SRR4302547.938899/1‑94 (MQ=60)

                                                                                TGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACA               >  SRR4302547.383805/1‑94 (MQ=60)

                                                                                TGACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACA               <  SRR4302547.161597/94‑1 (MQ=60)

                                                                                 GACGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTTCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACAC              >  SRR4302547.378014/1‑94 (MQ=60)

                                                                                   CGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGTGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCG            <  SRR4302547.2929353/94‑1 (MQ=60)

                                                                                   CGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCG            <  SRR4302547.3129406/94‑1 (MQ=60)

                                                                                   CGA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCG            <  SRR4302547.2572226/94‑1 (MQ=60)

                                                                                    GA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCCTCTTCCCCCGGCGTCACACCGA           >  SRR4302547.312879/1‑94 (MQ=60)

                                                                                    GA‑TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCGA           >  SRR4302547.5377846/1‑94 (MQ=60)

                                                                                     ggttttcCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCGA           <  SRR4302547.5429545/87‑1 (MQ=60)

                                                                                       TTTTCCCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGAATCTTCCCCCGGCGTCACACCGAAG         <  SRR4302547.6541089/94‑1 (MQ=60)

                                                                                        TTC‑CCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCGAAGTA       >  SRR4302547.2099439/1‑94 (MQ=60)

                                                                                        TTC‑CCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCGAAGTA       <  SRR4302547.4409597/94‑1 (MQ=60)

                                                                                         TC‑CCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCGAAGTAA      <  SRR4302547.3395718/94‑1 (MQ=60)

                                                                                          C‑CCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCGACGTAAC     >  SRR4302547.4698506/1‑94 (MQ=60)

                                                                                              CGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCGAAGTAACGTT  >  SRR4302547.337892/1‑94 (MQ=60)

                                                                                              CGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCGAAGTAACGTT  <  SRR4302547.5688913/94‑1 (MQ=60)

TGATCCTGCCAATTGCCTTGTTAACCGCTGGCTTGTTAGGCACGCTGTTTGTGGTGATTAAAAAAAAATACTGTAACGCCTGACGA‑TTTT‑CCCGTTCCCGGTTGCTGTACCGGGAACGTATTTAATTCCCCTGCATCGCCCGCATTCTTGCCGCATCTTCCCCCGGCGTCACACCGAAGTAACGTT  >  NC_000913/3152155‑3152340

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 2 ≤` `ATCG/ATCG` `< 13 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`