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 F104 I0 R1 106 58.2 1336546 90.2% 1205564 141.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,929,941 A→T 58.7% intergenic (‑1024/‑144) USA300HOU_1794 ← / → USA300HOU_1796 hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,929,9410AT58.7% 41.8 / 108.8 92intergenic (‑1024/‑144)USA300HOU_1794/USA300HOU_1796hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (18/19);  new base T (34/19);  total (54/38)
Fisher's exact test for biased strand distribution p-value = 1.93e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.88e-02

TGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGT  >  CP000730/1929802‑1930079
                                                                                                                                                 |                                                                                                                                          
tgttataATAATAGAGTCGTCTATCTCTCAGGCGTCAA‑‑TGGACGAATAGAGGAGGTCCATTAC‑T‑TTGCTAATC‑CT‑‑TTTCGTTCGCATCATAGCACCAGTCAGCAGTGGCTGTGCTGTGGCGTATTATACTTATTGGCTTAg                                                                                                                                          <  2:270883/138‑1 (MQ=255)
tggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTCCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAg                                                                                                                                          >  1:649279/4‑141 (MQ=255)
  gtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTa                                                                                                                                        >  1:496047/2‑141 (MQ=255)
  gtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGCCATCAGTGGCTGTGCTGTTGCGTATTATACTGATTGGCTTAGTa                                                                                                                                        >  1:74474/2‑141 (MQ=255)
  atatAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGt                                                                                                                                         >  1:652215/1‑141 (MQ=255)
  atatAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGt                                                                                                                                         >  1:352569/1‑141 (MQ=255)
   tataATAATAGAGTCGCCTATCTCTCAGGCGTCGATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTTTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaa                                                                                                                                       >  2:280738/1‑140 (MQ=255)
    ataataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaa                                                                                                                                      <  1:445057/141‑3 (MQ=255)
    ataataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaa                                                                                                                                      >  2:493284/1‑139 (MQ=255)
    ataataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTTTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaa                                                                                                                                      >  1:354903/1‑139 (MQ=255)
    ataataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑C‑TT‑‑TGCTA‑ATCATTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAAc                                                                                                                                     >  2:388492/1‑141 (MQ=255)
     taataaTAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaac                                                                                                                                     <  2:29742/141‑4 (MQ=255)
     aaataatAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTTTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaac                                                                                                                                     <  1:99481/140‑4 (MQ=255)
      aataatAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaaag                                                                                                                                    >  2:647690/1‑137 (MQ=255)
      aataatAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACg                                                                                                                                    >  2:111394/1‑141 (MQ=255)
       ataGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTGAGTAGACg                                                                                                                                    >  2:122135/1‑141 (MQ=255)
       ataGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACg                                                                                                                                    <  2:290132/141‑1 (MQ=255)
        taatagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa                                                                                                                                  >  1:566730/4‑141 (MQ=255)
        taatagAGCCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa                                                                                                                                  <  2:376500/138‑1 (MQ=255)
        gaatagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGGACATTAC‑T‑TTGCTAATC‑AT‑‑TTGCGTTCACATCATAGCACCAGTGATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTGGTAAACgga                                                                                                                                  >  2:96135/4‑139 (MQ=255)
         agtagAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCa                                                                                                                                  <  1:206125/141‑1 (MQ=255)
         aatagGGTCGCCTATATCTCAGGCGTCAATT‑‑GACGAACAGAGGCGGTGCA‑TTACT‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCCGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAATGCaa                                                                                                                                 <  1:469100/139‑1 (MQ=255)
         aatagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaa                                                                                                                                 <  1:613537/139‑1 (MQ=255)
          atagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaac                                                                                                                                >  2:498300/2‑140 (MQ=255)
           tagAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAAt                                                                                                                                <  1:407826/141‑1 (MQ=255)
           tagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGCGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaaca                                                                                                                               <  1:292403/141‑3 (MQ=255)
           tagAGTCGCCTATCCCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAAt                                                                                                                                <  1:53886/141‑1 (MQ=255)
            agctgctccTATCCCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAAGC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaa                                                                                                                              <  1:77642/134‑4 (MQ=255)
            agagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaa                                                                                                                              >  2:571661/1‑138 (MQ=255)
            agagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaa                                                                                                                              >  1:270264/1‑138 (MQ=255)
            agagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaa                                                                                                                              >  2:297534/1‑138 (MQ=255)
            agagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaa                                                                                                                              <  1:277141/141‑4 (MQ=255)
            agagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑C‑TTTGCGAATCAT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaa                                                                                                                              >  2:629138/1‑138 (MQ=255)
             gagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaa                                                                                                                             <  1:617180/141‑5 (MQ=255)
               gTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACaa                                                                                                                            <  2:400338/141‑1 (MQ=255)
               gTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaata                                                                                                                           <  1:14081/141‑7 (MQ=255)
                tCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataa                                                                                                                          >  1:162660/1‑134 (MQ=255)
                tCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataa                                                                                                                          <  1:618995/141‑8 (MQ=255)
                tCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataa                                                                                                                          >  2:500234/1‑134 (MQ=255)
                tCGCCTATCTCCCAGGCCTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataa                                                                                                                          <  1:8777/141‑8 (MQ=255)
                 cGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataat                                                                                                                         >  2:379385/1‑133 (MQ=255)
                 cGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataat                                                                                                                         >  1:261191/1‑133 (MQ=255)
                 cGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGGGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataat                                                                                                                         >  1:358919/1‑133 (MQ=255)
                  gCCTATCTCTCAGGCGTCAATT‑‑GACGCGATGAGGGTGTGCA‑TTACT‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaacaatt                                                                                                                        <  2:300611/141‑10 (MQ=255)
                  cccTATCTCTCGGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TTGCAAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatt                                                                                                                        <  2:59850/140‑10 (MQ=255)
                   ccTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTTTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatta                                                                                                                       >  2:173791/1‑131 (MQ=255)
                   ccTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatta                                                                                                                       >  1:81893/1‑131 (MQ=255)
                   ccTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatta                                                                                                                       >  2:641759/1‑131 (MQ=255)
                   ccTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCACCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatta                                                                                                                       <  1:97113/141‑11 (MQ=255)
                   ccTAGCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatta                                                                                                                       <  1:602673/141‑11 (MQ=255)
                    cTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaa                                                                                                                      >  1:144924/1‑130 (MQ=255)
                     tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatttag                                                                                                                     >  2:164795/1‑129 (MQ=255)
                     tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaat                                                                                                                     >  1:508557/1‑129 (MQ=255)
                     tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTATTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaat                                                                                                                     >  2:13627/1‑129 (MQ=255)
                     tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaat                                                                                                                     >  1:93114/1‑129 (MQ=255)
                      ttctctcAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAT‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACGTCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaata                                                                                                                    <  1:450432/140‑14 (MQ=255)
                      aTCTCTCAGGCGTCAATT‑‑GCCGAAGAGAGGAGGTGCA‑TTACT‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGGGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaatg                                                                                                                    >  1:172730/1‑128 (MQ=255)
                      aTCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaata                                                                                                                    >  2:580444/1‑128 (MQ=255)
                      aTCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaata                                                                                                                    >  1:168804/1‑128 (MQ=255)
                      aTCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaata                                                                                                                    >  1:568979/1‑128 (MQ=255)
                      aTCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TTGCTAATC‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaata                                                                                                                    >  2:577827/1‑128 (MQ=255)
                           tcAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑AAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTCGACGCAATACAAAATAGGTTACag                                                                                                                >  2:170845/1‑140 (MQ=255)
                               gCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAg                                                                                                            >  2:526166/1‑141 (MQ=255)
                                   cAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGc                                                                                                        >  1:464158/1‑141 (MQ=255)
                                    aaTTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCa                                                                                                       <  2:454536/141‑1 (MQ=255)
                                      tttGGACGCAGACAGGAGGTGTA‑TCA‑G‑GTGACGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGGCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCAcc                                                                                                     <  2:63656/141‑1 (MQ=255)
                                                    ggaggTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCt                                                                                       >  2:26504/1‑141 (MQ=255)
                                                             ttaA‑G‑GTGATGCGT‑CT‑‑TTTCGTTCACATCCTAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATCGGCTAAGTAGACGCAATACAAAATCGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCg                                                                               <  1:86504/140‑1 (MQ=255)
                                                                  g‑gTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCaaa                                                                           <  1:280709/141‑1 (MQ=255)
                                                                       aTGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTGATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGt                                                                       >  2:190265/1‑141 (MQ=255)
                                                                              aT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGcccctcgagagggc                                                                 >  2:624889/1‑128 (MQ=255)
                                                                              aT‑‑TTTCGTTCACATCATAGCACCAATCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAAAAGTGAgggg                                                                 >  1:248261/1‑141 (MQ=255)
                                                                                    tctgtcatatcataGCACCAGTCATCATTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTg                                                             <  2:663060/137‑1 (MQ=255)
                                                                                       ttCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGgtg                                                          <  1:338440/141‑1 (MQ=255)
                                                                                        tCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTGCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAAGCCCCTCGCTACCGCAAATAGTGAGGGGATTGgtgt                                                         <  2:97926/141‑1 (MQ=255)
                                                                                            atcatAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTCAGTAGACGCAATACAAAATAGGTGACATTTAGCCGCACCAATAAGAATCCCCTCACTTCCGCAAATAGTGAGGGGGTTGGTGTATaa                                                     >  2:135692/1‑141 (MQ=255)
                                                                                                        gTCACCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAACATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTAt                                         <  1:133167/141‑1 (MQ=255)
                                                                                                               gTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGtt                                  <  2:352569/141‑1 (MQ=255)
                                                                                                               gTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGtt                                  <  2:652215/141‑1 (MQ=255)
                                                                                                                   cTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCt                              >  1:226948/1‑141 (MQ=255)
                                                                                                                    tgtgCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATCGCCGCACCAATAAAAATCCCCTCACTACCGCATATAGTGAGGGGTTTGGTGTATAAGTAAATACTTATTTTCGTTGTCtt                             >  2:658784/1‑141 (MQ=255)
                                                                                                                    tgtgCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCGGTCCCGGCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGGCtt                             >  1:153638/1‑141 (MQ=255)
                                                                                                                    tgtgCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCtt                             >  2:615313/1‑141 (MQ=255)
                                                                                                                          aTTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATtat                       <  1:358101/141‑1 (MQ=255)
                                                                                                                                   ttttCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAAt              <  2:507327/141‑1 (MQ=255)
                                                                                                                                     ttCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAGATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTGAATACTTATTTTGGTTGTCTTAATTCTACTGCTAtttt            >  2:228367/1‑141 (MQ=255)
                                                                                                                                      tCTTATTGGCTAAGTAGACGCAAGACAAAATAGGTGACATATAGCCGCAGCAATAAAAATCCCCTCACTACCGCAAATTGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAAtttt           <  2:344274/141‑1 (MQ=255)
                                                                                                                                       cTTATTGGCTAAGTGGACGTAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAAttttt          >  1:366889/1‑141 (MQ=255)
                                                                                                                                        ttATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTc         >  2:514281/1‑141 (MQ=255)
                                                                                                                                           ttGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTACTTTTTCttt      >  2:78355/1‑141 (MQ=255)
                                                                                                                                             ggCTAAGTGCGCGCAATACAAGATAGGTGACATATAGCCGCACCAATAAAAATCTCCTCGCTCCCGCAAATAGTGAGGGGCTTGGTGTATAAGCAAATCCTGATTTTCGTTGTCTTCATTATACTGCTATTTTTTCttttc    <  2:345156/141‑2 (MQ=255)
                                                                                                                                               cTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGt  >  1:23970/1‑141 (MQ=255)
                                                                                                                                                 |                                                                                                                                          
TGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GTGATGCTT‑AT‑‑TTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATTTTTCTTTTTGT  >  CP000730/1929802‑1930079

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