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 882 254.4 12957588 98.0% 12698436 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,315,433 T→C H14R (CAC→CGC)  phnL ← ATP‑binding component of phosphonate transport

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,315,4330TC97.5% 807.6 / 6.3 245H14R (CAC→CGC) phnLATP‑binding component of phosphonate transport
Reads supporting (aligned to +/- strand):  ref base T (2/4);  new base C (81/157);  total (83/162)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.53e-01

Only 100 of 248 total aligned reads displayed.

CGGAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGTGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTATC  >  NC_000913/4315344‑4315522
                                                                                         |                                                                                         
cGGAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCa                                                                                        <  1:930874/93‑1 (MQ=255)
  gAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAgg                                                                                      >  2:3990728/1‑93 (MQ=255)
   aaTGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGa                                                                                     <  2:4295259/93‑1 (MQ=255)
     tGGCCGTGGAGCA‑CACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGa                                                                                  >  2:5347421/1‑93 (MQ=255)
      ggCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGa                                                                                  <  2:3708088/93‑1 (MQ=255)
      ggCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGa                                                                                  <  1:3394732/93‑1 (MQ=255)
       gCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGTGCAGGATGaa                                                                                 <  1:1446015/93‑1 (MQ=255)
       gCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGaa                                                                                 <  2:6475564/93‑1 (MQ=255)
       gCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGaa                                                                                 <  1:847243/93‑1 (MQ=255)
        ccGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGTGCAGGATGAAg                                                                                <  2:4647581/93‑1 (MQ=255)
        ccGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAg                                                                                <  1:4472965/93‑1 (MQ=255)
        ccGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAg                                                                                <  2:552441/93‑1 (MQ=255)
         cGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAgg                                                                               <  1:1004575/93‑1 (MQ=255)
         cGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAgg                                                                               <  1:5124702/93‑1 (MQ=255)
         cGTAGAGCCCCACGCATTCTTCCGCGTTGACGGTGAGCGCGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAgg                                                                               <  1:6394839/93‑1 (MQ=255)
           tGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGtt                                                                             <  1:2944126/93‑1 (MQ=255)
           tGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGtt                                                                             <  1:3538529/93‑1 (MQ=255)
           tGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGtt                                                                             >  2:2961511/1‑93 (MQ=255)
            ggAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGTGCAGGATGAAGGttt                                                                            <  2:3344755/93‑1 (MQ=255)
            ggAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGttt                                                                            >  2:1662613/1‑93 (MQ=255)
            ggAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGttt                                                                            <  1:2091252/93‑1 (MQ=255)
            ggAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGttt                                                                            <  1:5060587/93‑1 (MQ=255)
               gCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTAc                                                                         <  2:2691566/93‑1 (MQ=255)
                caccacGCATTCGCCCGCGTTGACTGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACt                                                                        <  2:5608542/93‑1 (MQ=255)
                 accacGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGTCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTg                                                                       >  1:1879211/1‑93 (MQ=255)
                 accacGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTg                                                                       <  1:2916726/93‑1 (MQ=255)
                   cacGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGAc                                                                     <  1:233943/93‑1 (MQ=255)
                    ccGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACg                                                                    <  2:2485277/92‑1 (MQ=255)
                    acGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACg                                                                    <  1:777736/93‑1 (MQ=255)
                    acGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACg                                                                    >  1:5481709/1‑93 (MQ=255)
                    acGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACg                                                                    >  1:3479088/1‑93 (MQ=255)
                     cGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATCAAGGTTTTACTGACGt                                                                   <  2:2407404/93‑1 (MQ=255)
                      gCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGtt                                                                  >  1:874003/1‑93 (MQ=255)
                       cATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGttt                                                                 >  1:5422033/1‑93 (MQ=255)
                        aTTCTCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGtttt                                                                <  1:2142874/93‑1 (MQ=255)
                        aTTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGtttt                                                                <  2:3671954/93‑1 (MQ=255)
                          tCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGt                                                              <  2:3478555/93‑1 (MQ=255)
                            gCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTAc                                                            <  2:6395397/93‑1 (MQ=255)
                              ccGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGt                                                          <  1:5213285/93‑1 (MQ=255)
                              ccGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGt                                                          <  1:2203316/93‑1 (MQ=255)
                              ccGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGt                                                          >  1:2504530/1‑93 (MQ=255)
                              ccGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGt                                                          <  2:1730243/93‑1 (MQ=255)
                               cgcgTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGtt                                                         <  1:1792509/93‑1 (MQ=255)
                                gcgTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTa                                                        >  2:3956492/1‑93 (MQ=255)
                                 cgTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTaa                                                       >  2:6214853/1‑93 (MQ=255)
                                 cgTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTaa                                                       >  1:4899332/1‑93 (MQ=255)
                                  gTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAAt                                                      >  2:1089323/1‑93 (MQ=255)
                                    tGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCa                                                    <  2:2120199/93‑1 (MQ=255)
                                     gACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGGTTTACTGACGTTTTGTACGTTAATCAt                                                   >  1:4757166/1‑93 (MQ=255)
                                     gACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGCTTTATTGCCGTTTTGTACGTTAATCAt                                                   >  1:6280559/1‑93 (MQ=255)
                                      aCGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCAtt                                                  <  1:3802842/93‑1 (MQ=255)
                                      aCGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCAtt                                                  <  1:989213/93‑1 (MQ=255)
                                      aCGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCAtt                                                  >  2:6437219/1‑93 (MQ=255)
                                      aCGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCAtt                                                  <  2:4945870/93‑1 (MQ=255)
                                      aCGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCAtt                                                  <  1:1746250/93‑1 (MQ=255)
                                      aCGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCAtt                                                  <  1:5913765/93‑1 (MQ=255)
                                        ggTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGTGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCAtttt                                                <  2:2158615/93‑1 (MQ=255)
                                        ggTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCAtttt                                                >  2:5220591/1‑93 (MQ=255)
                                         gTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCAttttt                                               <  1:6137195/93‑1 (MQ=255)
                                          tGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTc                                              <  2:4459417/93‑1 (MQ=255)
                                          tGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTc                                              <  1:3880844/93‑1 (MQ=255)
                                          tGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTc                                              <  2:144291/93‑1 (MQ=255)
                                          tGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTc                                              <  1:5721805/93‑1 (MQ=255)
                                            aGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGc                                            <  1:3723351/93‑1 (MQ=255)
                                            aGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGc                                            <  1:461522/93‑1 (MQ=255)
                                             gCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGcc                                           >  1:3650003/1‑93 (MQ=255)
                                               gAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTc                                         <  2:2438236/93‑1 (MQ=255)
                                               gAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTc                                         <  1:4181676/93‑1 (MQ=255)
                                                aGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCg                                        >  1:646309/1‑93 (MQ=255)
                                                    gcgATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGt                                    <  1:6047538/93‑1 (MQ=255)
                                                      gATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTc                                  >  2:5008773/1‑93 (MQ=255)
                                                      gATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTc                                  <  2:2279831/93‑1 (MQ=255)
                                                        ttGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCgg                                <  2:1487667/93‑1 (MQ=255)
                                                         tGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCggg                               <  1:5700203/93‑1 (MQ=255)
                                                           aGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGgtg                             <  2:757471/93‑1 (MQ=255)
                                                                  gCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATg                      >  2:1436368/1‑93 (MQ=255)
                                                                     ggCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGa                   <  2:3915384/93‑1 (MQ=255)
                                                                     ggCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGa                   <  2:507451/93‑1 (MQ=255)
                                                                     ggCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGa                   >  2:5361379/1‑93 (MQ=255)
                                                                       cgcACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACg                 >  1:1601356/1‑93 (MQ=255)
                                                                       cgcACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACg                 <  2:3062922/93‑1 (MQ=255)
                                                                        gcACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCGCGTGGTTCGGGTGTCGGATGCGACGc                <  2:2026350/93‑1 (MQ=255)
                                                                          aCGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTg              >  1:4020963/1‑93 (MQ=255)
                                                                           cGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGa             <  2:2329719/93‑1 (MQ=255)
                                                                            gCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGAc            >  2:629649/1‑93 (MQ=255)
                                                                              cGTTTTGCTGGTGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGAcgc          >  1:5613332/1‑93 (MQ=255)
                                                                              cGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGAcgc          >  1:3280703/1‑93 (MQ=255)
                                                                              cGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACACTGAcgc          >  2:5899524/1‑93 (MQ=255)
                                                                               gTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGAcgcg         >  1:1275268/1‑93 (MQ=255)
                                                                               gTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGAcgcg         >  2:2074536/1‑93 (MQ=255)
                                                                               gTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGAcgcg         >  2:2936149/1‑93 (MQ=255)
                                                                               gTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGAcgcg         >  2:2996854/1‑93 (MQ=255)
                                                                               gTTTTACTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGAcgcg         <  1:1994271/93‑1 (MQ=255)
                                                                                  ttGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCt      <  2:4812613/93‑1 (MQ=255)
                                                                                    gCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTa    <  2:5696179/93‑1 (MQ=255)
                                                                                    gCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTa    <  1:2652584/93‑1 (MQ=255)
                                                                                     cTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTAt   >  1:4249233/1‑93 (MQ=255)
                                                                                     cTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTAt   >  2:1925306/1‑93 (MQ=255)
                                                                                      tGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTATc  >  1:1043097/1‑93 (MQ=255)
                                                                                      tGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTATc  <  1:4335701/93‑1 (MQ=255)
                                                                                         |                                                                                         
CGGAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGTGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTATC  >  NC_000913/4315344‑4315522

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CTGCCGGAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGTGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTATCCGA  >  NC_000913/4315340‑4315525
                                                                                             |                                                                                            
CTGCCGGAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGC                                                                                              >  SRR4302537.5122883/1‑94 (MQ=60)
 TGCCGGAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCG                                                                                             <  SRR4302537.3050956/94‑1 (MQ=60)
  GGCGGAATGGCCGGGGAGGCCCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGC                                                                                            <  SRR4302537.4437374/94‑1 (MQ=60)
  GCCGGAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGC                                                                                            <  SRR4302537.166853/94‑1 (MQ=60)
   CCGGAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCA                                                                                           >  SRR4302537.2017906/1‑94 (MQ=60)
    CGGAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAG                                                                                          >  SRR4302537.4776830/1‑94 (MQ=60)
    CGGAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAG                                                                                          <  SRR4302537.937288/94‑1 (MQ=60)
    CGGAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAG                                                                                          <  SRR4302537.4506575/94‑1 (MQ=60)
     GGAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGG                                                                                         >  SRR4302537.5230529/1‑94 (MQ=60)
      GAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGA                                                                                        <  SRR4302537.4564051/94‑1 (MQ=60)
      GAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGA                                                                                        >  SRR4302537.702352/1‑94 (MQ=60)
       AATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGAT                                                                                       <  SRR4302537.1753053/94‑1 (MQ=60)
         TGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGA                                                                                     >  SRR4302537.6424094/1‑94 (MQ=60)
          GGNCNTNGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAA                                                                                    <  SRR4302537.2852813/94‑1 (MQ=60)
          GGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAA                                                                                    <  SRR4302537.3418780/94‑1 (MQ=60)
           GCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGTGCAGGATGAAG                                                                                   <  SRR4302537.1456090/94‑1 (MQ=60)
           GCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAG                                                                                   <  SRR4302537.220902/94‑1 (MQ=60)
           GCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAG                                                                                   <  SRR4302537.853045/94‑1 (MQ=60)
            CCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGG                                                                                  <  SRR4302537.4503910/94‑1 (MQ=60)
             CGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGT                                                                                 >  SRR4302537.1992302/1‑94 (MQ=60)
             CGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGT                                                                                 <  SRR4302537.1011508/94‑1 (MQ=60)
             CGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGT                                                                                 >  SRR4302537.203446/1‑94 (MQ=60)
             CGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGT                                                                                 <  SRR4302537.5160018/94‑1 (MQ=60)
             CGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGT                                                                                 >  SRR4302537.575620/1‑94 (MQ=60)
             CGTAGAGCCCCACGCATTCTTCCGCGTTGACGGTGAGCGCGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGT                                                                                 <  SRR4302537.6438391/94‑1 (MQ=60)
              GTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTT                                                                                <  SRR4302537.3386064/94‑1 (MQ=60)
              GTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTT                                                                                <  SRR4302537.4317062/94‑1 (MQ=60)
              GTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTT                                                                                >  SRR4302537.4082297/1‑94 (MQ=60)
               TGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTT                                                                               <  SRR4302537.3563521/94‑1 (MQ=60)
               TGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTT                                                                               <  SRR4302537.2964791/94‑1 (MQ=60)
                GGATCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTT                                                                              <  SRR4302537.5329269/94‑1 (MQ=60)
                GGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTT                                                                              <  SRR4302537.5095428/94‑1 (MQ=60)
                GGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTT                                                                              <  SRR4302537.2105997/94‑1 (MQ=60)
                GGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTT                                                                              >  SRR4302537.4808513/1‑94 (MQ=60)
                   GCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACT                                                                           <  SRR4302537.2366660/94‑1 (MQ=60)
                    CACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGTCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTG                                                                          >  SRR4302537.1892284/1‑94 (MQ=60)
                     ACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGA                                                                         <  SRR4302537.6133134/94‑1 (MQ=60)
                     ACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGA                                                                         >  SRR4302537.910294/1‑94 (MQ=60)
                     ACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGA                                                                         <  SRR4302537.2937216/94‑1 (MQ=60)
                      CCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGAC                                                                        >  SRR4302537.5641753/1‑94 (MQ=60)
                       CACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGTGCAGGATGAAGGTTTTACTGACG                                                                       >  SRR4302537.3805554/1‑94 (MQ=60)
                       CACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACG                                                                       >  SRR4302537.3503705/1‑94 (MQ=60)
                       CACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACG                                                                       >  SRR4302537.5519135/1‑94 (MQ=60)
                       CACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACG                                                                       <  SRR4302537.808015/94‑1 (MQ=60)
                       CACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACG                                                                       <  SRR4302537.235597/94‑1 (MQ=60)
                        ACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGT                                                                      <  SRR4302537.1422534/94‑1 (MQ=60)
                        ACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGT                                                                      <  SRR4302537.783074/94‑1 (MQ=60)
                         CGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTT                                                                     <  SRR4302537.5857350/94‑1 (MQ=60)
                         CGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTT                                                                     <  SRR4302537.5014939/94‑1 (MQ=60)
                         CGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTT                                                                     >  SRR4302537.880015/1‑94 (MQ=60)
                          GCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTT                                                                    >  SRR4302537.5458979/1‑94 (MQ=60)
                           CATCCGCCCGCGTTGACGGTGGGCGAGGCCCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTT                                                                   <  SRR4302537.1397478/94‑1 (MQ=60)
                            ATTCTCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTG                                                                  <  SRR4302537.2157950/94‑1 (MQ=60)
                            ATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTG                                                                  <  SRR4302537.3688761/94‑1 (MQ=60)
                              TCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTA                                                                <  SRR4302537.2520868/94‑1 (MQ=60)
                                GCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACG                                                              <  SRR4302537.6467849/94‑1 (MQ=60)
                                 CCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGT                                                             >  SRR4302537.2522149/1‑94 (MQ=60)
                                 CCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGGTTTACTTACGTTTTGTACGT                                                             >  SRR4302537.841670/1‑94 (MQ=60)
                                  CCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTT                                                            <  SRR4302537.5249131/94‑1 (MQ=60)
                                  CCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTT                                                            <  SRR4302537.2218856/94‑1 (MQ=60)
                                   CGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTA                                                           <  SRR4302537.163414/94‑1 (MQ=60)
                                   CGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTA                                                           >  SRR4302537.2841794/1‑94 (MQ=60)
                                   CGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTA                                                           <  SRR4302537.1805020/94‑1 (MQ=60)
                                    GCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAA                                                          <  SRR4302537.5980381/94‑1 (MQ=60)
                                    GCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAA                                                          >  SRR4302537.4933150/1‑94 (MQ=60)
                                       TTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCA                                                       <  SRR4302537.178741/94‑1 (MQ=60)
                                        TGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCAT                                                      <  SRR4302537.3956367/94‑1 (MQ=60)
                                        TGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCAT                                                      <  SRR4302537.3425082/94‑1 (MQ=60)
                                        TGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGGTTTACTGACGTTTTGTACGTTAATCAT                                                      >  SRR4302537.4790026/1‑94 (MQ=60)
                                        TGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGCTTTATTGCCGTTTTGTACGTTAATCAT                                                      >  SRR4302537.6323636/1‑94 (MQ=60)
                                          ACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTT                                                    <  SRR4302537.996051/94‑1 (MQ=60)
                                          ACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTT                                                    <  SRR4302537.3829514/94‑1 (MQ=60)
                                          ACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTT                                                    <  SRR4302537.1758430/94‑1 (MQ=60)
                                          ACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTT                                                    <  SRR4302537.5954353/94‑1 (MQ=60)
                                           CGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTT                                                   <  SRR4302537.5469987/94‑1 (MQ=60)
                                           CGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTT                                                   <  SRR4302537.1487715/94‑1 (MQ=60)
                                           CGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTT                                                   <  SRR4302537.5350309/94‑1 (MQ=60)
                                            TGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTT                                                  <  SRR4302537.3090242/94‑1 (MQ=60)
                                            GGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTT                                                  <  SRR4302537.4408353/94‑1 (MQ=60)
                                            GGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTT                                                  >  SRR4302537.860799/1‑94 (MQ=60)
                                            GGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTT                                                  <  SRR4302537.2753510/94‑1 (MQ=60)
                                             GTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTC                                                 <  SRR4302537.6179391/94‑1 (MQ=60)
                                              TGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCG                                                <  SRR4302537.3907990/94‑1 (MQ=60)
                                              TGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCG                                                <  SRR4302537.5760975/94‑1 (MQ=60)
                                               GAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGAGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGC                                               <  SRR4302537.98527/94‑1 (MQ=60)
                                                AGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCC                                              <  SRR4302537.464700/94‑1 (MQ=60)
                                                AGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCC                                              >  SRR4302537.3675692/1‑94 (MQ=60)
                                                AGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCC                                              <  SRR4302537.3749515/94‑1 (MQ=60)
                                                AGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCC                                              >  SRR4302537.4363335/1‑94 (MQ=60)
                                                 GCGAGGCGCGATTGAGGACGGGCAGGCGCACGCTGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCT                                             <  SRR4302537.2169154/94‑1 (MQ=60)
                                                   GAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCG                                           <  SRR4302537.4210869/94‑1 (MQ=60)
                                                   GAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCG                                           >  SRR4302537.650713/1‑94 (MQ=60)
                                                   GAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCG                                           <  SRR4302537.1024662/94‑1 (MQ=60)
                                                   GAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCG                                           <  SRR4302537.1113723/94‑1 (MQ=60)
                                                     GGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTG                                         <  SRR4302537.562873/94‑1 (MQ=60)
                                                     GGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGCTTTGTATGTTAATCATTTTTCGCCTCGTG                                         >  SRR4302537.3474456/1‑94 (MQ=60)
                                                        GCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTT                                      <  SRR4302537.6089068/94‑1 (MQ=60)
                                                         CGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTC                                     <  SRR4302537.3897431/94‑1 (MQ=60)
                                                          GATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCG                                    <  SRR4302537.2315512/94‑1 (MQ=60)
                                                          GATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCG                                    <  SRR4302537.57594/94‑1 (MQ=60)
                                                           ATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGG                                   >  SRR4302537.3783322/1‑94 (MQ=60)
                                                            TTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGG                                  <  SRR4302537.3036986/94‑1 (MQ=60)
                                                             TGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGT                                 <  SRR4302537.5726514/94‑1 (MQ=60)
                                                             TGAGGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGT                                 <  SRR4302537.5739209/94‑1 (MQ=60)
                                                                GGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTC                              >  SRR4302537.4846271/1‑94 (MQ=60)
                                                                GGACGGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTC                              <  SRR4302537.6501328/94‑1 (MQ=60)
                                                                    GGGCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGAT                          <  SRR4302537.2136953/94‑1 (MQ=60)
                                                                      GCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGC                        <  SRR4302537.3574843/94‑1 (MQ=60)
                                                                      GCAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGC                        >  SRR4302537.6004667/1‑94 (MQ=60)
                                                                       CAGGCGCACTCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCG                       <  SRR4302537.5137959/94‑1 (MQ=60)
                                                                       CAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCTCCTCGTGGTTCGGGTGTCGGATGCG                       >  SRR4302537.6198763/1‑94 (MQ=60)
                                                                       CAGGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCG                       >  SRR4302537.1861182/1‑94 (MQ=60)
                                                                       CAGGCGCACGCCGGTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCG                       <  SRR4302537.915964/94‑1 (MQ=60)
                                                                         GGCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGAC                     <  SRR4302537.3563314/94‑1 (MQ=60)
                                                                          GCGCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACG                    >  SRR4302537.1612551/1‑94 (MQ=60)
                                                                            GCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCT                  <  SRR4302537.3914377/94‑1 (MQ=60)
                                                                            GCACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCT                  <  SRR4302537.80784/94‑1 (MQ=60)
                                                                             CACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTG                 <  SRR4302537.6320108/94‑1 (MQ=60)
                                                                             CACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTG                 >  SRR4302537.4049118/1‑94 (MQ=60)
                                                                             CACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTG                 >  SRR4302537.5142960/1‑94 (MQ=60)
                                                                              ACGCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGA                >  SRR4302537.3645595/1‑94 (MQ=60)
                                                                                GCCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACG              >  SRR4302537.2530897/1‑94 (MQ=60)
                                                                                 CCGTTTTGCTGGTGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGC             >  SRR4302537.5651712/1‑94 (MQ=60)
                                                                                 CCGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGC             >  SRR4302537.3303866/1‑94 (MQ=60)
                                                                                  CGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCG            >  SRR4302537.2940894/1‑94 (MQ=60)
                                                                                  CGTTTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCG            >  SRR4302537.1284137/1‑94 (MQ=60)
                                                                                   GTTTTACTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGT           <  SRR4302537.2008135/94‑1 (MQ=60)
                                                                                     TTTGCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCT         <  SRR4302537.1872570/94‑1 (MQ=60)
                                                                                        GCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTAT      <  SRR4302537.4248925/94‑1 (MQ=60)
                                                                                        GCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTAT      <  SRR4302537.2671131/94‑1 (MQ=60)
                                                                                        GCTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTAT      >  SRR4302537.4278757/1‑94 (MQ=60)
                                                                                         CTGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTATC     >  SRR4302537.1050299/1‑94 (MQ=60)
                                                                                          TGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTATCC    >  SRR4302537.595673/1‑94 (MQ=60)
                                                                                          TGGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTATCC    <  SRR4302537.4365806/94‑1 (MQ=60)
                                                                                           GGCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTATCCG   <  SRR4302537.2966881/94‑1 (MQ=60)
                                                                                            GCGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTATCCGA  <  SRR4302537.5584158/94‑1 (MQ=60)
                                                                                             |                                                                                            
CTGCCGGAATGGCCGTGGAGCACCACGCATTCGCCCGCGTTGACGGTGAGCGAGGCGCGATTGAGGACGGGCAGGCGCACGCCGTTTTGCTGGTGCAGGATGAAGGTTTTACTGACGTTTTGTACGTTAATCATTTTTCGCCTCGTGGTTCGGGTGTCGGATGCGACGCTGACGCGTCTTATCCGA  >  NC_000913/4315340‑4315525

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑