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
A12 F28 I1 R1	123	51.0	1731148	99.3%	1719029	138.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,462,889	(C)_9→10	intergenic (+243/‑123)	fadL → / → yfdF	long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor/protein YfdF

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,462,880	1	.	C	87.5%	169.8 / 16.7	56	intergenic (+234/‑132)	fadL/yfdF	long‑chain fatty acid outer membrane channel/bacteriophage T2 receptor/protein YfdF
Reads supporting (aligned to +/- strand): ref base . (2/5); new base C (22/27); total (24/32)
Fisher's exact test for biased strand distribution p-value = 6.86e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01

TTGCAAACAGCCTGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACT‑‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATATTTGTAACAAATCAATCAAAATGGAATAAAAT  >  NC_000913/2462743‑2463010

ttGCAAACAGCCTGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACT‑‑cc                                                                                                                                  >  1:803551/1‑140 (MQ=255)

ttGCAAACAGCCTGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACT‑‑cc                                                                                                                                  >  1:21857/1‑140 (MQ=255)

  gCAAACAGCCTGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACT‑‑cccc                                                                                                                                <  2:613728/140‑1 (MQ=255)

    aaaCAGCCTGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACT‑‑cccccc                                                                                                                              <  2:502266/140‑1 (MQ=255)

      aCAGCCTGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACT‑‑cccccccc                                                                                                                            <  2:827770/140‑1 (MQ=255)

         gCCTGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACT‑‑cccccccccct                                                                                                                         <  2:803551/140‑3 (MQ=255)

          ccTGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACT‑‑CCCCCCCCCTgg                                                                                                                        <  1:251512/140‑1 (MQ=255)

              ttGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTa                                                                                                                     <  2:627799/140‑1 (MQ=255)

                 gCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCCGGCTATtg                                                                                                                  <  1:297748/140‑1 (MQ=255)

                  cAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTCTtgt                                                                                                                 >  2:475681/1‑140 (MQ=255)

                   aGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATtgtg                                                                                                                <  1:325552/140‑1 (MQ=255)

                   aGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATtgtg                                                                                                                <  2:21857/140‑1 (MQ=255)

                   aGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATtgtg                                                                                                                <  2:519517/140‑1 (MQ=255)

                     cTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTgcg                                                                                                              <  2:134368/140‑1 (MQ=255)

                        gCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTc                                                                                                           >  2:717931/1‑140 (MQ=255)

                        gCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTc                                                                                                           >  1:456514/1‑140 (MQ=255)

                              tCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCCCATacct                                                                                                     >  2:385299/1‑138 (MQ=255)

                                aaaTCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTACCAGGA‑TAGTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTc                                                                                                   <  2:620340/140‑1 (MQ=255)

                                         aGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACT‑‑‑CCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGAt                                                                                        <  1:456673/140‑1 (MQ=255)

                                               aTCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGt                                                                                    >  2:46216/1‑140 (MQ=255)

                                                tCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGtt                                                                                   >  1:688635/1‑140 (MQ=255)

                                                     aGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGAt                                                                                        >  2:90078/1‑130 (MQ=255)

                                                     aGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGAt                                                                                        <  1:90078/130‑1 (MQ=255)

                                                      gACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTCCCCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCtaaa                                                                              >  1:758443/1‑140 (MQ=255)

                                                      gACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCtaaat                                                                             >  2:548278/1‑140 (MQ=255)

                                                        cAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCtaaataa                                                                           >  2:218643/1‑140 (MQ=255)

                                                          aaCCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTaaataaat                                                                         >  2:169069/1‑140 (MQ=255)

                                                           aCCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATg                                                                        >  2:412940/1‑140 (MQ=255)

                                                           aCCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATg                                                                        >  2:64873/1‑140 (MQ=255)

                                                            ccTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACT‑‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAg                                                                      <  2:341354/140‑1 (MQ=255)

                                                             cTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAg                                                                      <  2:688635/140‑1 (MQ=255)

                                                                aaGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTCCCCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCg                                                                    <  1:520536/140‑1 (MQ=255)

                                                                    gAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGttttt                                                               <  1:218643/140‑1 (MQ=255)

                                                                       aGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGa                                                            <  2:374435/140‑1 (MQ=255)

                                                                       aGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGa                                                            <  2:381759/140‑1 (MQ=255)

                                                                          cATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAg                                                         <  2:456514/140‑1 (MQ=255)

                                                                              ttttCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTa                                                     <  1:412940/140‑1 (MQ=255)

                                                                              ttttCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTa                                                     <  1:548278/140‑1 (MQ=255)

                                                                               tttCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTAt                                                    <  1:784684/140‑1 (MQ=255)

                                                                                   aGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCa                                                <  1:169069/140‑1 (MQ=255)

                                                                                   aGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCa                                                >  2:344524/1‑140 (MQ=255)

                                                                                     gCGTTCTGGTCGTCCTTCTCAAAGAGTTTTTTTTTCCTCATTTCCAGGA‑TTCTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCAtt                                              <  2:855338/140‑1 (MQ=255)

                                                                                     gCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGATTCCC‑‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCAtt                                              <  1:385299/140‑1 (MQ=255)

                                                                                      cGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTa                                             <  1:279492/140‑1 (MQ=255)

                                                                                       gTTCTGCTCATCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAg                                            <  2:231018/140‑1 (MQ=255)

                                                                                        ttCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGt                                                        <  1:577734/127‑1 (MQ=255)

                                                                                        ttCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGt                                                        >  2:577734/1‑127 (MQ=255)

                                                                                        ttCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAgg                                           <  1:64873/140‑1 (MQ=255)

                                                                                         tCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTCCCCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAgg                                           <  2:758443/140‑1 (MQ=255)

                                                                                                   cTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATAtt                                >  2:531756/1‑140 (MQ=255)

                                                                                                     tctcAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACT‑‑CCCCCCCCCCGGGTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAATCTATTTCATTTGGGAATATATAttttt                             >  2:642258/1‑138 (MQ=255)

                                                                                                         aaaGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATATTTGTAAc                          >  1:523512/1‑140 (MQ=255)

                                                                                                          aaGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAatatatat                                 >  2:218220/1‑132 (MQ=255)

                                                                                                          aaGAGTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAatatatat                                 <  1:218220/132‑1 (MQ=255)

                                                                                                              gTTTACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCTCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTTTTTCATTAGGTAATATATATTTGTAACAaatc                     >  2:402966/1‑140 (MQ=255)

                                                                                                               tttACTTTTCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATATTTGTAACAaatca                    >  1:11060/1‑140 (MQ=255)

                                                                                                                ttACTTTTCTGCATTTCCAGGA‑TACT‑‑TCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATATTTGTAACAaatcaat                  >  2:825546/1‑140 (MQ=255)

                                                                                                                      ttCTGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATATTTGTAACAAATCAATCaaaa             <  2:523512/140‑1 (MQ=255)

                                                                                                                         tGCATTTCCAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATATTTGTAACAAATCAATCAAAATgg          >  1:257374/1‑140 (MQ=255)

                                                                                                                           cATTTCCAGGA‑TACT‑‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATATTTGTAACAAATCAATCAAAATGGAAt       <  1:825546/140‑1 (MQ=255)

                                                                                                                                ctaGGA‑TACTC‑CCCCCCCCCTGGCTATTGGGCGCTCATACACGCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGCCTATTTCATTAGGTAATATATATTGGTAACAAATCAATCAAAATGGAATaaaa   >  2:512353/3‑140 (MQ=255)

                                                                                                                                 cAGGA‑TACTC‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATATTTGTAACAAATCAATCAAAATGGAATAAAAt  <  1:749004/140‑1 (MQ=255)

TTGCAAACAGCCTGTTGGCAGCTTGCCCTTTCAAATCAATAAGCGGTATCCACAGACAAACCTGAAGGGAAAGGCATATTTTCAGGCGTTCTGCTCGTCCTTCTCAAAGAGTTTACTTTTCTGCATTTCCAGGA‑TACT‑‑CCCCCCCCCTGGCTATTGTGCGCTCATACACTCAAATTAAAGATAGGTTCTAAATAAATGAGCGTTTTTTGATAGTCTATTTCATTAGGTAATATATATTTGTAACAAATCAATCAAAATGGAATAAAAT  >  NC_000913/2462743‑2463010

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A