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 F52 I0 R1 95 95.8 2129336 92.9% 1978153 141.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,929,873 C→A 54.2% intergenic (‑956/‑212) USA300HOU_1794 ← / → USA300HOU_1796 hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,929,8730CA54.2% ‑3.1 / 306.4 213intergenic (‑956/‑212)USA300HOU_1794/USA300HOU_1796hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (41/56);  new base A (58/57);  total (100/113)
Fisher's exact test for biased strand distribution p-value = 2.70e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.08e-02

Only 100 of 214 total aligned reads displayed.

ATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAG  >  CP000730/1929735‑1930013
                                                                                                                                                |                                                                                                                                            
  tCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTG‑TAA‑G‑G‑TGA‑TGCTTAt                                                                                                                                          >  2:774601/1‑141 (MQ=255)
   cAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTAtt                                                                                                                                         >  1:851058/1‑141 (MQ=255)
     aTCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTAtttt                                                                                                                                       >  2:186300/1‑141 (MQ=255)
          tCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTc                                                                                                                                  <  2:1004804/141‑1 (MQ=255)
          tCAGCTAGAAGCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTc                                                                                                                                  <  2:442873/141‑1 (MQ=255)
             gCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTcaca                                                                                                                               <  1:207966/141‑1 (MQ=255)
              cTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCAcat                                                                                                                              >  1:764043/1‑141 (MQ=255)
                  taTCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTTTCCGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATa                                                                                                                          <  2:519442/140‑1 (MQ=255)
                          aaCTTATGAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGt                                                                                                                  <  2:405118/141‑1 (MQ=255)
                          aaCTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCGGGGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGt                                                                                                                  <  1:201705/141‑1 (MQ=255)
                                tCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAg                                                                                                            >  1:275736/1‑141 (MQ=255)
                                   attggaattagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGc                                                                                                        <  2:1060862/127‑1 (MQ=255)
                                   atcggaagtagatatgCTTGTATATTCACAGATGGTAGAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGc                                                                                                        >  1:752347/15‑141 (MQ=255)
                                    tcggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCt                                                                                                       >  2:416146/14‑141 (MQ=255)
                                    tcggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCt                                                                                                       >  2:274635/14‑141 (MQ=255)
                                    aaGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGc                                                                                                        <  1:348002/141‑1 (MQ=255)
                                      ttaactagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgt                                                                                                     <  2:558935/130‑1 (MQ=255)
                                      ggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgt                                                                                                     <  1:985514/130‑1 (MQ=255)
                                      ggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGT‑AA‑C‑AGGATGAATTGAGGAGGTTCATTGC‑T‑T‑TTC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgt                                                                                                     <  1:1046653/130‑1 (MQ=255)
                                       gaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgtg                                                                                                    <  2:603360/131‑1 (MQ=255)
                                        aagtagatatgattGTATATTCACAGAGGATATAAGAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGAAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGc                                                                                                   >  2:970568/13‑141 (MQ=255)
                                          gtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctg                                                                                                 >  2:877495/8‑139 (MQ=255)
                                            gACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCAt                                                                                                >  1:178970/1‑141 (MQ=255)
                                            gACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCAt                                                                                                >  2:399780/1‑141 (MQ=255)
                                            agatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctgtt                                                                                               >  1:767931/6‑137 (MQ=255)
                                            agatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctgtt                                                                                               >  1:84295/6‑137 (MQ=255)
                                             gatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctgttg                                                                                              >  2:438364/5‑136 (MQ=255)
                                             gatacgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctgttg                                                                                              >  1:720912/6‑136 (MQ=255)
                                              atatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctgttgc                                                                                             <  1:344168/138‑7 (MQ=255)
                                               tatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCg                                                                                            <  2:185909/139‑1 (MQ=255)
                                                   cTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGttt                                                                                         >  1:584821/1‑141 (MQ=255)
                                                   cTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtgtt                                                                                        >  1:322164/1‑141 (MQ=255)
                                                    ttgttgatTTGCCGATGAGATAAGAGTAGAGTCTCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGtttt                                                                                        <  2:954764/135‑1 (MQ=255)
                                                    ttGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCATGCGTCAATT‑TAGCCGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGtttt                                                                                        <  2:866725/141‑1 (MQ=255)
                                                    ttGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGtttt                                                                                        <  2:974418/141‑1 (MQ=255)
                                                    ttGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGtttt                                                                                        <  2:16197/141‑1 (MQ=255)
                                                     tGTATATTTGCCGAGGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTTAATT‑AAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGttttt                                                                                       <  1:933634/141‑1 (MQ=255)
                                                     cgtatattcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCCTCAGTGGCTGTGCTGTTGCGtattat                                                                                      >  2:536012/13‑139 (MQ=255)
                                                      gtatattcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtattata                                                                                     <  2:782078/130‑4 (MQ=255)
                                                      gTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGtttttt                                                                                      <  1:157319/141‑1 (MQ=255)
                                                        atattcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATAAGTGGCTGTGCTGTTGCGtattatact                                                                                   >  1:214158/10‑136 (MQ=255)
                                                         tattcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtattatactt                                                                                  >  2:172044/9‑135 (MQ=255)
                                                            tcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGATGTGCTGTTGCGTATTATACTTAtt                                                                               >  2:920493/6‑141 (MQ=255)
                                                             tGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGACGCCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTACGTATTTCTCTTAtt                                                                               >  2:175705/1‑141 (MQ=255)
                                                              caagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTgg                                                                             <  1:863092/138‑1 (MQ=255)
                                                              acagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATTGAAGAGGCATGGACG‑GGCAT‑‑TAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTgg                                                                             <  1:823026/138‑1 (MQ=255)
                                                                cGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGc                                                                            >  1:1050144/1‑141 (MQ=255)
                                                                 gatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCtt                                                                          >  2:326619/1‑140 (MQ=255)
                                                                 gatgatATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCt                                                                           >  1:542007/1‑141 (MQ=255)
                                                                  atggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCtta                                                                         >  1:64641/5‑139 (MQ=255)
                                                                  atgatATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTa                                                                          <  2:931290/141‑1 (MQ=255)
                                                                   tggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAg                                                                        >  1:1029701/4‑141 (MQ=255)
                                                                   tggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑G‑T‑TGC‑TAATCATTTTCGTTCACATTATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAg                                                                        >  2:583068/4‑141 (MQ=255)
                                                                   gggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCttag                                                                        <  1:804605/138‑4 (MQ=255)
                                                                    ggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGt                                                                       <  1:655840/139‑1 (MQ=255)
                                                                    ggtataAGAATCGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGt                                                                       <  2:33520/139‑1 (MQ=255)
                                                                    ggtataAAAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGt                                                                       <  2:614834/139‑1 (MQ=255)
                                                                     gtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGACTTAGTa                                                                      >  1:59171/2‑141 (MQ=255)
                                                                     gtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCA‑TTA‑C‑TTTGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTa                                                                      <  2:539936/140‑1 (MQ=255)
                                                                     gtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGAAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTa                                                                      <  1:200143/140‑1 (MQ=255)
                                                                     agataataGTAGAGTCGCCTATCTCGCAGGCGACAATT‑TAGACGCAGAGAGGAGGGGTA‑TTA‑G‑G‑TGA‑TGCTTATTTTCGGTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGt                                                                       <  1:395164/139‑1 (MQ=255)
                                                                       ataataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaa                                                                    >  2:144909/1‑139 (MQ=255)
                                                                        taataaTAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCA‑TTA‑C‑TTTGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaac                                                                   <  2:810339/141‑4 (MQ=255)
                                                                          ataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGc                                                                 <  2:944018/141‑1 (MQ=255)
                                                                              tagAGTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaaca                                                             >  2:737965/1‑139 (MQ=255)
                                                                                gagTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaa                                                           >  1:218811/1‑137 (MQ=255)
                                                                                 agTCGCCTATCTCTCAGGCGGCAATT‑‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTT‑TGC‑TAATCATTTTCGTTCACATCGTAGCACCAGGCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCAAcacat                                                          >  1:610664/1‑140 (MQ=255)
                                                                                  gTCGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaata                                                         >  1:40418/1‑135 (MQ=255)
                                                                                    cGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACaaaa                                                        >  1:138422/1‑141 (MQ=255)
                                                                                    cGCCTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGGAAACGCaacaaataat                                                       >  2:344020/1‑133 (MQ=255)
                                                                                     gCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAAt                                                       >  1:598935/1‑141 (MQ=255)
                                                                                      ccTATCTCTCAGGCGTCAATT‑‑‑GACGAAGATAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatta                                                     <  2:42778/141‑11 (MQ=255)
                                                                                      ccTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTT‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatta                                                     <  2:985247/141‑11 (MQ=255)
                                                                                       cTATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaa                                                    >  1:975657/1‑130 (MQ=255)
                                                                                        tATCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCA‑TTA‑C‑T‑TTACTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGGATTATACTTATTGGCTTAGTAAACGCaacaaataattaaa                                                   >  1:438285/1‑129 (MQ=255)
                                                                                         aTCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGt                                                   >  2:846315/1‑141 (MQ=255)
                                                                                         aTCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGt                                                   >  1:1023345/1‑141 (MQ=255)
                                                                                         aTCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGACATTGCGTTTTTTTCTTATTGGTTAAGTAGACGCACTATAAAATAggg                                                   >  2:958987/1‑140 (MQ=255)
                                                                                         aTCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaata                                                  >  2:695494/1‑128 (MQ=255)
                                                                                         aTCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGC‑TAATCATGTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAAAGCaacaaataattaata                                                  >  1:712638/1‑128 (MQ=255)
                                                                                         aTCTCTCAGGCGTCAATT‑‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGC‑TAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGACTTAGTAAACGCaacaaataattaata                                                  >  2:89379/1‑128 (MQ=255)
                                                                                           ctttcAGGCGTCAATT‑TAGACGCAGAGAGTAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGa                                                 <  1:286633/138‑1 (MQ=255)
                                                                                            tctcAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGAc                                                >  2:238397/1‑141 (MQ=255)
                                                                                            tctcAGGCGTCAATT‑TACACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGCGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGAc                                                <  2:709455/141‑1 (MQ=255)
                                                                                               cAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACata                                             <  2:178970/141‑1 (MQ=255)
                                                                                                     tCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCg                                       >  1:904700/1‑141 (MQ=255)
                                                                                                         tt‑tAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCACTAGAAAATAGGTGACATATAGCCGCAcc                                   >  1:487394/1‑141 (MQ=255)
                                                                                                         tt‑tAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCCTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCAcc                                   <  2:836007/141‑1 (MQ=255)
                                                                                                             aGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAAt                                <  1:794324/141‑1 (MQ=255)
                                                                                                              gatgCAGAGTGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATa                               <  2:672060/138‑1 (MQ=255)
                                                                                                                   agagagGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGCCATATAGCAGCCCCAATAAAAAt                          >  1:132380/1‑141 (MQ=255)
                                                                                                                      gaggagGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATccc                       <  1:699398/141‑1 (MQ=255)
                                                                                                                       aggaggTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGTACCAATAAAAATcccc                      <  1:528252/141‑1 (MQ=255)
                                                                                                                        ggaggGGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCt                     <  2:292634/141‑1 (MQ=255)
                                                                                                                           ggTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCAc                  <  1:23388/141‑1 (MQ=255)
                                                                                                                           ggTGTA‑TAA‑G‑G‑TGA‑TGCTTACTGTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCAc                  <  2:308173/141‑1 (MQ=255)
                                                                                                                                   aa‑G‑G‑TGG‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCa           >  2:350452/1‑141 (MQ=255)
                                                                                                                                   aa‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCCCCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCa           <  2:1030728/141‑1 (MQ=255)
                                                                                                                                    a‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCCTTGCGTTTTTTTGTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCaa          >  2:908138/1‑141 (MQ=255)
                                                                                                                                                cTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAg  >  2:468686/1‑141 (MQ=255)
                                                                                                                                                |                                                                                                                                            
ATTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATT‑TAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGA‑TGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAG  >  CP000730/1929735‑1930013

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A