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 I1 R1 1357 179.3 9500450 96.1% 9129932 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,205,438 T→C intergenic (‑328/‑287) purH ← / → rrsE phosphoribosylaminoimidazolecarboxamideformyltra nsferase/16S ribosomal RNA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,205,4380TC99.4% 555.1 / ‑5.5 177intergenic (‑328/‑287)purH/rrsEphosphoribosylaminoimidazolecarboxamideformyltra nsferase/16S ribosomal RNA
Reads supporting (aligned to +/- strand):  ref base T (1/0);  new base C (86/90);  total (87/90)
Fisher's exact test for biased strand distribution p-value = 4.92e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01

Only 100 of 184 total aligned reads displayed.

TAAAGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCTCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAG  >  NC_000913/4205348‑4205512
                                                                                          |                                                                             
taAAGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCcccc                                                                             >  1:2341053/1‑93 (MQ=255)
 aaaGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCa                                                                            >  1:2242260/1‑93 (MQ=255)
  aaGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCAt                                                                           <  1:2704921/93‑1 (MQ=255)
  aaGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCAt                                                                           >  2:3155830/1‑93 (MQ=255)
      gggCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGac                                                                       >  1:593724/1‑93 (MQ=255)
      gggCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGac                                                                       >  1:682065/1‑93 (MQ=255)
       ggCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGTACTCCCTATAATGCGCCCCCATCGaca                                                                      >  2:2422944/1‑93 (MQ=255)
       ggCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGaca                                                                      <  2:2050241/93‑1 (MQ=255)
        gCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGaca‑c                                                                    <  1:3754681/93‑1 (MQ=255)
        gCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGaca‑c                                                                    <  2:4418071/93‑1 (MQ=255)
        gCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGaca‑c                                                                    <  1:1838248/93‑1 (MQ=255)
         cTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑cg                                                                   <  1:206355/93‑1 (MQ=255)
          ttttGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑cgg                                                                  <  1:3967961/93‑1 (MQ=255)
          ttttGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑cgg                                                                  <  2:1128253/93‑1 (MQ=255)
          ttttGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑cgg                                                                  >  2:2964818/1‑93 (MQ=255)
          ttttGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑cgg                                                                  <  2:4430943/93‑1 (MQ=255)
           tttGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑cggc                                                                 <  1:1716596/93‑1 (MQ=255)
            ttGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑cggcg                                                                <  1:2978433/93‑1 (MQ=255)
             tGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑cggcgg                                                               >  1:4267073/1‑93 (MQ=255)
              tcTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGa                                                              <  1:746582/92‑1 (MQ=255)
              gCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGa                                                              <  1:2531846/93‑1 (MQ=255)
                tgaggAATGCAGCATTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCTCCCCCATCGACA‑CGGCGGAtg                                                            <  1:3658108/90‑1 (MQ=38)
                tGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGGGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGAtg                                                            >  1:4622820/1‑93 (MQ=255)
                tGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGAtg                                                            <  1:3115507/93‑1 (MQ=255)
                tGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGAtg                                                            <  2:959687/93‑1 (MQ=255)
                 ggggAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGAtgt                                                           >  2:2006605/1‑93 (MQ=255)
                 ggggAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGAtgt                                                           <  2:174282/93‑1 (MQ=255)
                  gggAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGAtgtg                                                          >  2:77344/1‑93 (MQ=255)
                  gggAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGAtgtg                                                          >  1:532449/1‑93 (MQ=255)
                     aaTGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAAt                                                       <  2:2177156/93‑1 (MQ=255)
                     aaTGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAAt                                                       <  2:4742058/93‑1 (MQ=255)
                         cagcagTTAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑Ct                                                  <  1:1377643/93‑1 (MQ=255)
                          agcagTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑Ctt                                                 <  2:2734526/93‑1 (MQ=255)
                           gcagTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTc                                                <  1:783316/93‑1 (MQ=255)
                           gcagTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTc                                                <  2:4315677/93‑1 (MQ=255)
                           gcagTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTc                                                <  2:3991063/93‑1 (MQ=255)
                            gagtcagtcATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTca                                               <  2:293184/92‑1 (MQ=255)
                             agtcagtcATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTcac                                              <  1:4229649/93‑1 (MQ=255)
                             agtcagtcATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTcac                                              >  1:3596276/1‑93 (MQ=255)
                             agtcagtcATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTcac                                              <  2:2342527/93‑1 (MQ=255)
                              gtcagtcaTTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTcaca                                             <  2:2904816/93‑1 (MQ=255)
                              atcagtcaTTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTcaca                                             <  1:2713446/92‑1 (MQ=255)
                               tcagtcaTTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCT‑CTTcacac                                            <  1:3614225/93‑1 (MQ=255)
                                cagtcaTTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTcacaca                                           >  2:3135668/1‑93 (MQ=255)
                                 agtcaTTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGTGAACCCATCGACA‑CGGCGGGAGTGAATCA‑CTTCACGCaa                                          >  1:4433958/1‑93 (MQ=25)
                                 agtcaTTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACaa                                          >  1:2999262/1‑93 (MQ=255)
                                 agtcaTTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACaa                                          >  2:1788870/1‑93 (MQ=255)
                                 agtcaTTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACaa                                          >  2:4196934/1‑93 (MQ=255)
                                  gtcaTTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGGACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACaaa                                         >  2:198748/1‑93 (MQ=255)
                                  gtcaTTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACaaa                                         <  2:456441/93‑1 (MQ=255)
                                   tcaTTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAc                                        <  1:4295420/93‑1 (MQ=255)
                                    caTTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑a                                      <  2:619758/93‑1 (MQ=255)
                                      tttttCTGCAATTTTTCTATTGCTGCCTGCGGAGAACTCCCTATAATGCGCCCCCATGGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGc                                    <  1:4705008/93‑1 (MQ=255)
                                      tttttCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGc                                    <  2:4124948/93‑1 (MQ=255)
                                      tttttCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGc                                    <  2:3102047/93‑1 (MQ=255)
                                      tttttCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGc                                    <  1:3556423/93‑1 (MQ=255)
                                        tttCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCcg                                  <  1:2496206/93‑1 (MQ=255)
                                         ttCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCcgg                                 >  1:95995/1‑93 (MQ=255)
                                          tCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCcggt                                <  1:6275/93‑1 (MQ=255)
                                           cTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCcggtt                               <  1:2184863/93‑1 (MQ=255)
                                           cTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCcggtt                               <  2:194847/93‑1 (MQ=255)
                                            tGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCcggttc                              >  1:3416703/1‑93 (MQ=255)
                                             gCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCcggttcg                             >  1:2201250/1‑93 (MQ=255)
                                              cAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCcggttcgg                            >  2:4458594/1‑93 (MQ=255)
                                               aaTTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTTACACAAAC‑AGCcgggtcggt                           >  2:4645962/1‑93 (MQ=255)
                                               aaTTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTGACACAAAC‑AACcggttcggt                           >  1:518408/1‑93 (MQ=255)
                                               aaTTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCcggttcggt                           >  2:2262341/1‑93 (MQ=255)
                                                  ttttCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGa                        <  1:4117941/93‑1 (MQ=255)
                                                  ttttCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGa                        <  2:1371214/93‑1 (MQ=255)
                                                   tttCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGaa                       <  1:118462/93‑1 (MQ=255)
                                                   tttCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGaa                       <  2:2835885/93‑1 (MQ=255)
                                                   tttCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGaa                       <  1:334185/93‑1 (MQ=255)
                                                    ttCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAag                      >  2:2916092/1‑93 (MQ=255)
                                                      cTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAagag                    >  2:4117828/1‑93 (MQ=255)
                                                      cTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCA‑CGACACCGGCGG‑TGTGAATCACCTTCAC‑CAAACAACCCGGTCGGGTTGaaaga                    >  1:186719/1‑90 (MQ=12)
                                                       tATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAgaga                   >  2:3702360/1‑93 (MQ=255)
                                                       tATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAgaga                   >  2:316484/1‑93 (MQ=255)
                                                       tATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAgaga                   >  1:692163/1‑93 (MQ=255)
                                                       tATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAgaga                   >  1:3236130/1‑93 (MQ=255)
                                                       tATTGCGGCCTGCGGAGAACTCCCTATAATGCCCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACCAAC‑AACCGGTTCGGTTGAAgaga                   >  1:2811946/1‑93 (MQ=17)
                                                        aTTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGaa                  >  1:2933760/1‑93 (MQ=255)
                                                            cGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAAt              >  2:587347/1‑93 (MQ=255)
                                                            cGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAAt              >  2:421733/1‑93 (MQ=255)
                                                            cGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAAt              <  1:3570102/93‑1 (MQ=255)
                                                             ggCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGCTCGGTTGAAGAGAAAAATc             >  1:1430394/1‑93 (MQ=255)
                                                              gCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATcc            >  2:1712754/1‑93 (MQ=255)
                                                              gCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATcc            <  1:1058970/93‑1 (MQ=255)
                                                               ccTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCt           >  1:1171748/1‑93 (MQ=255)
                                                               ccTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCt           >  2:4270333/1‑93 (MQ=255)
                                                                 tGCGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCTGa         <  2:665807/93‑1 (MQ=255)
                                                                   cGGAGAACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGCATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCTGaaa       >  1:828397/1‑93 (MQ=255)
                                                                     gagaACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCTGAAAtt     <  2:2450640/93‑1 (MQ=21)
                                                                     gagaACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCTGAAAtt     >  2:2745505/1‑93 (MQ=21)
                                                                     gagaACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCTGAAAtt     >  1:193011/1‑93 (MQ=21)
                                                                      agaACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTc    <  2:692858/93‑1 (MQ=18)
                                                                      agaACTCCCTATAATGCGCCCCCATCGACA‑CGGAGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTc    >  1:1693688/1‑93 (MQ=16)
                                                                       gaACTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCa   >  2:2571304/1‑93 (MQ=17)
                                                                        aaCTCCCTCTAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAg  >  1:2619031/1‑93 (MQ=9)
                                                                        aaCTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAg  <  1:1655304/93‑1 (MQ=14)
                                                                        aaCTCCCTATAATGCGCCCCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAg  >  2:91471/1‑93 (MQ=14)
                                                                                          |                                                                             
TAAAGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCTCCATCGACA‑CGGCGGATGTGAATCA‑CTTCACACAAAC‑AGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAG  >  NC_000913/4205348‑4205512

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ 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
TATAAAGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCTGAAAGAGGA  >  NC_000913/4205346‑4205531
                                                                                            |                                                                                             
TATAAAGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCC                                                                                              <  SRR4302544.4373452/94‑1 (MQ=60)
 ATAAAGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCC                                                                                             >  SRR4302544.586221/1‑94 (MQ=60)
 ATAAAGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCC                                                                                             >  SRR4302544.2363232/1‑94 (MQ=60)
  TAAAGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCA                                                                                            >  SRR4302544.2263353/1‑94 (MQ=60)
   AAAGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCAT                                                                                           <  SRR4302544.2782819/94‑1 (MQ=60)
    AAGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATC                                                                                          <  SRR4302544.2730927/94‑1 (MQ=60)
    AAGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATC                                                                                          <  SRR4302544.3021500/94‑1 (MQ=60)
       CGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGAC                                                                                       >  SRR4302544.599551/1‑94 (MQ=60)
       CGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGAC                                                                                       >  SRR4302544.688847/1‑94 (MQ=60)
       CGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGAC                                                                                       <  SRR4302544.3615148/94‑1 (MQ=60)
        GGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACA                                                                                      >  SRR4302544.4371917/1‑94 (MQ=60)
          GCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACG                                                                                    <  SRR4302544.3791959/94‑1 (MQ=60)
          GCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACG                                                                                    <  SRR4302544.1856088/94‑1 (MQ=60)
           CTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGG                                                                                   <  SRR4302544.208465/94‑1 (MQ=60)
           CTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGG                                                                                   >  SRR4302544.3433285/1‑94 (MQ=60)
            TTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGC                                                                                  <  SRR4302544.4007428/94‑1 (MQ=60)
             TTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCG                                                                                 <  SRR4302544.1733472/94‑1 (MQ=60)
             TTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCG                                                                                 >  SRR4302544.4169399/1‑94 (MQ=60)
              TTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGG                                                                                >  SRR4302544.4723399/1‑94 (MQ=60)
              TTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGG                                                                                <  SRR4302544.3006998/94‑1 (MQ=60)
              TTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGG                                                                                >  SRR4302544.4310625/1‑94 (MQ=60)
                TCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGAT                                                                              <  SRR4302544.753898/94‑1 (MQ=60)
                GCTGGGGAATTCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGAT                                                                              <  SRR4302544.2731016/94‑1 (MQ=60)
                GCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGAT                                                                              <  SRR4302544.2556171/94‑1 (MQ=60)
                 CTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGGGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATG                                                                             >  SRR4302544.4668679/1‑94 (MQ=60)
                 CTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATG                                                                             >  SRR4302544.4316441/1‑94 (MQ=60)
                  TGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGT                                                                            <  SRR4302544.3145140/94‑1 (MQ=60)
                  TGAGGAATGCAGCATTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCTCCCCCATCGACACGGCGGATGT                                                                            <  SRR4302544.3694601/94‑1 (MQ=60)
                   GGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTG                                                                           >  SRR4302544.537726/1‑94 (MQ=60)
                      GAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAAT                                                                        <  SRR4302544.3003113/94‑1 (MQ=60)
                         TGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCAC                                                                     >  SRR4302544.521728/1‑94 (MQ=60)
                          GCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACT                                                                    >  SRR4302544.1993450/1‑94 (MQ=60)
                           CAGCAGTTAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTT                                                                   <  SRR4302544.1391385/94‑1 (MQ=60)
                            AGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTC                                                                  >  SRR4302544.2914648/1‑94 (MQ=60)
                             GCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCA                                                                 <  SRR4302544.639920/94‑1 (MQ=60)
                             GCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCA                                                                 >  SRR4302544.3598381/1‑94 (MQ=60)
                             GCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCA                                                                 <  SRR4302544.790902/94‑1 (MQ=60)
                              CAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCAC                                                                >  SRR4302544.3630883/1‑94 (MQ=60)
                               AGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACA                                                               <  SRR4302544.4272743/94‑1 (MQ=60)
                                ATCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACAC                                                              <  SRR4302544.2739550/94‑1 (MQ=60)
                                 TCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCTCTTCACACA                                                             <  SRR4302544.3649773/94‑1 (MQ=60)
                                  CAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGTGAACCCATCGACACGGCGGGAGTGAATCACTTCACGCAA                                                            >  SRR4302544.4478686/1‑94 (MQ=60)
                                  CAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAA                                                            >  SRR4302544.3028018/1‑94 (MQ=60)
                                    GTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAAC                                                          >  SRR4302544.869395/1‑94 (MQ=60)
                                     TCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACA                                                         <  SRR4302544.4339265/94‑1 (MQ=60)
                                     TCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACA                                                         <  SRR4302544.3555195/94‑1 (MQ=60)
                                       ATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGC                                                       >  SRR4302544.25317/1‑94 (MQ=60)
                                       ATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGC                                                       >  SRR4302544.3839072/1‑94 (MQ=60)
                                        TTTTTCTGCAATTTTTCTATTGCTGCCTGCGGAGAACTCCCTATAATGCGCCCCCATGGACACGGCGGATGTGAATCACTTCACACAAACAGCC                                                      <  SRR4302544.4751503/94‑1 (MQ=60)
                                        TTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCC                                                      <  SRR4302544.722987/94‑1 (MQ=60)
                                        TTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCC                                                      <  SRR4302544.2178308/94‑1 (MQ=60)
                                        TTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCC                                                      <  SRR4302544.3590505/94‑1 (MQ=60)
                                         TTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCG                                                     <  SRR4302544.1405892/94‑1 (MQ=60)
                                          TTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGG                                                    >  SRR4302544.96877/1‑94 (MQ=60)
                                          TTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGG                                                    <  SRR4302544.2520122/94‑1 (MQ=60)
                                            TCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTT                                                  <  SRR4302544.6334/94‑1 (MQ=60)
                                             CTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTC                                                 >  SRR4302544.3449361/1‑94 (MQ=60)
                                             CTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTC                                                 <  SRR4302544.2205529/94‑1 (MQ=60)
                                              TGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCG                                                <  SRR4302544.610171/94‑1 (MQ=60)
                                              TGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCG                                                >  SRR4302544.4154650/1‑94 (MQ=60)
                                              TGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCG                                                >  SRR4302544.2221993/1‑94 (MQ=60)
                                               GCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGG                                               >  SRR4302544.3324265/1‑94 (MQ=60)
                                                TAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGT                                              <  SRR4302544.3708649/94‑1 (MQ=60)
                                                CAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTGACACAAACAACCGGTTCGGT                                              >  SRR4302544.523529/1‑94 (MQ=60)
                                                CAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGT                                              <  SRR4302544.782553/94‑1 (MQ=60)
                                                    TTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAA                                          <  SRR4302544.2261215/94‑1 (MQ=58)
                                                    TTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAA                                          <  SRR4302544.4158831/94‑1 (MQ=58)
                                                     TTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAG                                         <  SRR4302544.337656/94‑1 (MQ=55)
                                                     TTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAG                                         <  SRR4302544.119535/94‑1 (MQ=55)
                                                     TTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAG                                         <  SRR4302544.119536/94‑1 (MQ=55)
                                                     TTTCTATTGCGCCCTGCGGAGACCTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAG                                         <  SRR4302544.119537/94‑1 (MQ=30)
                                                      TTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGA                                        <  SRR4302544.692263/94‑1 (MQ=53)
                                                      TTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGACTCCATCGACACGGCGGCTGTGAATTACTTCACACAAACAGCCGGTTCGGTTGAAGA                                        >  SRR4302544.1572847/1‑94 (MQ=48)
                                                        CTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGA                                      >  SRR4302544.3267104/1‑94 (MQ=48)
                                                        CTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGA                                      >  SRR4302544.699061/1‑94 (MQ=48)
                                                        CTATTGCGGCCTGCGGAGAACTCCCTATAATGCCCCCCCATCGACACGGCGGATGTGAATCACTTCACACCAACAACCGGTTCGGTTGAAGAGA                                      >  SRR4302544.2839082/1‑94 (MQ=42)
                                                         TATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAA                                     >  SRR4302544.2961947/1‑94 (MQ=45)
                                                         TATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAA                                     >  SRR4302544.3139179/1‑94 (MQ=45)
                                                          ATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAA                                    >  SRR4302544.2349035/1‑94 (MQ=43)
                                                              CGGCCTGCGGAGAACTCCCTATAATGCGCTCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATC                                <  SRR4302544.1943321/94‑1 (MQ=31)
                                                              CGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATC                                <  SRR4302544.3604337/94‑1 (MQ=33)
                                                              CGGCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGCTCGGTTGAAGAGAAAAATC                                >  SRR4302544.1444623/1‑94 (MQ=31)
                                                                GCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCT                              <  SRR4302544.1069486/94‑1 (MQ=28)
                                                                GCCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCT                              >  SRR4302544.1183436/1‑94 (MQ=28)
                                                                 CCTGCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTG                             <  SRR4302544.1835525/94‑1 (MQ=25)
                                                                    GCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGCATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAA                          >  SRR4302544.836533/1‑94 (MQ=14)
                                                                    GCGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAA                          >  SRR4302544.1866794/1‑94 (MQ=15)
                                                                     CGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAAT                         >  SRR4302544.2370203/1‑94 (MQ=12)
                                                                     CGGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAAT                         <  SRR4302544.1681505/94‑1 (MQ=12)
                                                                      GGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATT                        >  SRR4302544.194952/1‑94 (MQ=10)
                                                                      GGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATT                        >  SRR4302544.263989/1‑94 (MQ=10)
                                                                      GGAGAACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATT                        >  SRR4302544.3672115/1‑94 (MQ=10)
                                                                       GAGAACTCCCTATAATGCGCCCCCATCGACACGGAGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTC                       >  SRR4302544.1710401/1‑94 (MQ=7)
                                                                         GAACTCCCTCTAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAG                     >  SRR4302544.2644162/1‑94 (MQ=2)
                                                                          CACTCCCTATAATGCGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGG                    <  SRR4302544.1453538/94‑1 (MQ=0)
                                                                          AACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGG                    <  SRR4302544.1671628/94‑1 (MQ=0)
                                                                          AACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGG                    <  SRR4302544.4499020/94‑1 (MQ=0)
                                                                          AACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGG                    >  SRR4302544.1395439/1‑94 (MQ=0)
                                                                           ACTCCCTATAATGCGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGG                   <  SRR4302544.3273666/94‑1 (MQ=0)
                                                                           ACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGG                   >  SRR4302544.2664431/1‑94 (MQ=0)
                                                                           ACTCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGG                   >  SRR4302544.2328029/1‑94 (MQ=0)
                                                                             TCCCTATAATGCGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTT                 >  SRR4302544.1515555/1‑94 (MQ=0)
                                                                             TCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTT                 <  SRR4302544.155425/94‑1 (MQ=0)
                                                                             TCCCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTT                 <  SRR4302544.4505261/94‑1 (MQ=0)
                                                                              CCCTATAATGCGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTG                >  SRR4302544.101341/1‑94 (MQ=0)
                                                                               CCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGA               <  SRR4302544.329627/94‑1 (MQ=0)
                                                                               CCTATAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGA               >  SRR4302544.4726811/1‑94 (MQ=0)
                                                                                  ATAATGCGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTC            >  SRR4302544.3752135/1‑94 (MQ=0)
                                                                                   TAATGCGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCT           >  SRR4302544.605219/1‑94 (MQ=0)
                                                                                   TAATGCGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCT           <  SRR4302544.2745576/94‑1 (MQ=0)
                                                                                   TAATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCT           <  SRR4302544.4441170/94‑1 (MQ=0)
                                                                                    AATGCGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATACTGAAATTCAGGGTTGACTCTG          <  SRR4302544.4585179/94‑1 (MQ=0)
                                                                                    AATGCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCTG          <  SRR4302544.4598554/94‑1 (MQ=0)
                                                                                      TGCGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCTGAA        <  SRR4302544.2655448/94‑1 (MQ=0)
                                                                                       GCGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCTGAAA       >  SRR4302544.1979148/1‑94 (MQ=0)
                                                                                        CGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCTGAAAG      >  SRR4302544.2085467/1‑94 (MQ=0)
                                                                                        CGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCTGAAAG      >  SRR4302544.1432621/1‑94 (MQ=0)
                                                                                        CGCCCCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCTGAAAG      <  SRR4302544.4213511/94‑1 (MQ=0)
                                                                                         GCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCTGAAAGA     <  SRR4302544.3513083/94‑1 (MQ=0)
                                                                                         GCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCTGAAAGA     >  SRR4302544.1090368/1‑94 (MQ=0)
                                                                                            TCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCTGAAAGAGGA  >  SRR4302544.1953764/1‑94 (MQ=0)
                                                                                            TCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCTGAAAGAGGA  <  SRR4302544.4009643/94‑1 (MQ=0)
                                                                                            |                                                                                             
TATAAAGCGGGCTTTTGCTGGGGAATGCAGCAGTCAGTCATTTTTCTGCAATTTTTCTATTGCGGCCTGCGGAGAACTCCCTATAATGCGCCTCCATCGACACGGCGGATGTGAATCACTTCACACAAACAGCCGGTTCGGTTGAAGAGAAAAATCCTGAAATTCAGGGTTGACTCTGAAAGAGGA  >  NC_000913/4205346‑4205531

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑