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
A5 F18 I0 R1 92 69.8 1533550 93.9% 1440003 141.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,929,928 T→A 50.2% intergenic (‑1011/‑157) USA300HOU_1794 ← / → USA300HOU_1796 hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,929,9280TA50.2% 9.7 / 222.6 138intergenic (‑1011/‑157)USA300HOU_1794/USA300HOU_1796hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (36/32);  new base A (41/28);  total (78/60)
Fisher's exact test for biased strand distribution p-value = 4.93e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-02

Only 100 of 141 total aligned reads displayed.

TTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATT  >  CP000730/1929794‑1930068
                                                                                                                                            |                                                                                                                                                   
ttcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTAt                                                                                                                                              <  2:641712/135‑1 (MQ=255)
 ttGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCCGTGCCATTGCGTTTTTTTCTTAt                                                                                                                                              >  2:295084/1‑141 (MQ=255)
 tcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTAtt                                                                                                                                             <  1:588051/136‑1 (MQ=255)
 tcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCGGTCATCAGTGGCGGTGCTGTTGCGTATTATACTTAtt                                                                                                                                             >  1:23374/6‑141 (MQ=255)
  tGCCGATGATATAATAGAAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACGAGGCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTAtt                                                                                                                                             >  1:244006/1‑141 (MQ=255)
  cacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACTAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTg                                                                                                                                            >  1:46857/5‑141 (MQ=255)
  cacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTg                                                                                                                                            >  2:254977/5‑141 (MQ=255)
  cacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTg                                                                                                                                            >  2:672549/5‑141 (MQ=255)
    cagatggtATAATAATATAGTGGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCAGCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGc                                                                                                                                          <  2:183178/139‑1 (MQ=255)
    cagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGc                                                                                                                                          >  1:692460/3‑141 (MQ=255)
    cagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGc                                                                                                                                          >  1:493152/3‑141 (MQ=255)
     agatggtATAATAATCGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGTAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACGAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGACt                                                                                                                                         >  2:214743/2‑141 (MQ=255)
        tggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGGGGCGGTCCTGTTGCGTATTATACTTATTGGCTTAg                                                                                                                                      >  2:61134/4‑141 (MQ=255)
        aggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑C‑TTTGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCttag                                                                                                                                      <  2:690362/138‑4 (MQ=255)
          gtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGTGAGTTGGGGCA‑TTA‑C‑TTTGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCttatta                                                                                                                                    >  1:720412/2‑136 (MQ=255)
          gtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCttcgta                                                                                                                                    >  2:210700/2‑136 (MQ=255)
           tataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGGGGAGGTGCATTCC‑T‑T‑TGCTAA‑TCATTTTCACATCGCCGGA‑AGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaa                                                                                                                                   >  1:177596/1‑140 (MQ=255)
           tataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTggtctagtaa                                                                                                                                   >  2:15738/1‑133 (MQ=255)
           tataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaa                                                                                                                                   <  1:309208/141‑2 (MQ=255)
           tataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaa                                                                                                                                   <  1:642279/141‑2 (MQ=255)
           tataATAAGAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaa                                                                                                                                   <  2:747866/141‑2 (MQ=255)
             taataaTGGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaac                                                                                                                                 <  2:251347/141‑4 (MQ=255)
             taataaTAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaac                                                                                                                                 <  2:657295/141‑4 (MQ=255)
              aataatAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACg                                                                                                                                >  1:81441/1‑141 (MQ=255)
              aataatAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACg                                                                                                                                >  2:173057/1‑141 (MQ=255)
               ataatagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGc                                                                                                                               <  1:608995/137‑1 (MQ=255)
               ataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGc                                                                                                                               <  2:740733/141‑1 (MQ=255)
               ataCTAGAGTCGCCCACTTCTCACGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTT‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGc                                                                                                                               <  2:597991/141‑1 (MQ=255)
                taatagAGTCGCCTATCTCTCGGGCGGCAATT‑‑GACGAAGCGAGAAGGAATAGTTC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa                                                                                                                              <  1:362513/138‑1 (MQ=255)
                  gtagAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCa‑‑a                                                                                                                           <  1:103884/141‑1 (MQ=255)
                  atagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑ac                                                                                                                          <  1:230485/140‑2 (MQ=255)
                  atagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑ac                                                                                                                          <  2:371298/140‑2 (MQ=255)
                  atagAGTCGCCTAGCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTACACTTATTGGCTTAGTAAACGCa‑‑ac                                                                                                                          <  1:492174/140‑2 (MQ=255)
                    agagTTCCCTATCGCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGCCGCA‑‑ATa                                                                                                                         <  2:515252/141‑1 (MQ=255)
                    agagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATGCTTATTGGCTTAGTAAACGCa‑‑acaa                                                                                                                        <  1:98392/141‑4 (MQ=255)
                    agagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAAAGCa‑‑acaa                                                                                                                        >  2:283390/1‑138 (MQ=255)
                    agagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaa                                                                                                                        >  1:13729/1‑138 (MQ=255)
                     gagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaaa                                                                                                                       <  2:521906/141‑5 (MQ=255)
                     gagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaaa                                                                                                                       >  1:719709/1‑137 (MQ=255)
                       gTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAC‑G‑C‑T‑CTGCGTTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAACTAGACGCA‑‑ATACaa                                                                                                                      <  1:402258/141‑1 (MQ=255)
                       gTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACaa                                                                                                                      <  1:193340/141‑1 (MQ=255)
                       gTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaaata                                                                                                                     >  1:742323/1‑135 (MQ=255)
                        tCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaaataa                                                                                                                    >  1:653965/1‑134 (MQ=255)
                        gcGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACaa‑‑a                                                                                                                   <  1:79128/140‑1 (MQ=255)
                         cGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaaataat                                                                                                                   >  2:149529/1‑133 (MQ=255)
                          gCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaaataatt                                                                                                                  >  2:412835/1‑132 (MQ=255)
                          gCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaaataatt                                                                                                                  <  1:317320/141‑10 (MQ=255)
                           ccTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATa                                                                                                                >  2:263200/1‑141 (MQ=255)
                           ccTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTGTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATa                                                                                                                >  1:639477/1‑141 (MQ=255)
                           ccTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaaataatta                                                                                                                 >  2:184971/1‑131 (MQ=255)
                            cTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTTAGTAGATGCA‑‑ATACAA‑‑AATAg                                                                                                               >  2:712681/1‑141 (MQ=255)
                            cTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaaataattaa                                                                                                                >  1:140733/1‑130 (MQ=255)
                            cTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaaataattaa                                                                                                                <  1:627713/141‑12 (MQ=255)
                            cTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑G‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaaataattaa                                                                                                                >  1:32603/1‑130 (MQ=255)
                             tATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAgg                                                                                                              >  1:454/1‑141 (MQ=255)
                             tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTCGCGTATTATACTTATTGGCTTAGCAAACGCa‑‑acaaataattaat                                                                                                               <  1:467103/141‑13 (MQ=255)
                             tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTT‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaagtaattaat                                                                                                               >  1:286993/1‑129 (MQ=255)
                              ttctctcAGGCGTTAATTTTGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTTTTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTCCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGt                                                                                                             <  2:51561/140‑1 (MQ=255)
                              aTCTCCCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCTAA‑TCATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa‑‑acaaataattaata                                                                                                              <  1:416478/141‑14 (MQ=255)
                                ctatctggggTCCATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGa                                                                                                           <  2:269466/132‑1 (MQ=255)
                                   tcAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑at                                                                                                       <  2:36661/141‑1 (MQ=255)
                                    cAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAccga                                                                                                       >  1:322778/1‑138 (MQ=255)
                                    cAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ata                                                                                                      >  1:259031/1‑141 (MQ=255)
                                    cAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ata                                                                                                      >  2:495019/1‑141 (MQ=255)
                                    cAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCTAC‑TCATTTTA‑GTTCACATCCTAGCACCAGTCATCAGTGGCTGTGCTGTTCCGTATTATACTTATTGGCTTAGTAAACGCA‑‑ACACAT‑‑AAttaataggcgac                                                                                                      >  2:111110/1‑130 (MQ=255)
                                           cAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑Gc                                                                                             <  1:668149/141‑1 (MQ=255)
                                           cAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATACGTGAC‑ATAT‑AGCC‑Gc                                                                                             >  1:517510/1‑141 (MQ=255)
                                            aaTTTAGACGCAGATAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGTC‑GCa                                                                                            <  1:547667/141‑1 (MQ=255)
                                               ttAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCa                                                                                         <  1:742979/141‑1 (MQ=255)
                                               ttAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCa                                                                                         <  1:123006/141‑1 (MQ=255)
                                                 aGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑GTAT‑AGCC‑GCACCAAt                                                                                       <  1:568180/141‑1 (MQ=255)
                                                 aGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAAt                                                                                       >  1:292570/1‑141 (MQ=255)
                                                   aCGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATaa                                                                                     <  1:27185/141‑1 (MQ=255)
                                                        gagagGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AACAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATc                                                                                <  2:582040/141‑1 (MQ=255)
                                                            ggaggTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCt                                                                            >  1:653597/1‑141 (MQ=255)
                                                               ggTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGGTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCAc                                                                         >  1:511171/1‑141 (MQ=255)
                                                               ggTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCAc                                                                         >  2:321042/1‑141 (MQ=255)
                                                                      taA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGc                                                                   <  1:576517/141‑1 (MQ=255)
                                                                                      tATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAggg                                                       <  1:756786/141‑1 (MQ=255)
                                                                                       aTTTTC‑GTTCACATGATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGGGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAgggg                                                      <  1:247488/141‑1 (MQ=255)
                                                                                       aTTTTC‑GTCCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAgggg                                                      <  1:165511/141‑1 (MQ=255)
                                                                                       aTTTTC‑GATCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTATTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAgggg                                                      >  1:484195/1‑141 (MQ=255)
                                                                                        ttttC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGa                                                     <  1:273750/141‑1 (MQ=255)
                                                                                              gTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGgt                                                >  1:90260/1‑141 (MQ=255)
                                                                                               ttCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTCCATTGCCAAGTCGCCGGG‑‑CCTCAA‑‑AAGAGGGGAC‑ATAT‑AGCA‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGgtg                                               >  1:754183/1‑141 (MQ=255)
                                                                                                     tcatAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTATATAAg                                         >  1:693435/1‑141 (MQ=255)
                                                                                                        tAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTaa                                      >  1:686362/1‑141 (MQ=255)
                                                                                                         aGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTaaa                                     >  2:692661/1‑141 (MQ=255)
                                                                                                          gCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCAACAAATAATTAATAGGCGACTTTATAAGCCAGCATCGA‑AAAAATCCCCACACTACTGC‑AATAGTGTGGGGATTGGTGcattaa                                         >  2:23121/1‑138 (MQ=255)
                                                                                                           cACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATa                                   >  2:432630/1‑141 (MQ=255)
                                                                                                            aCCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATAc                                  >  1:699499/1‑141 (MQ=255)
                                                                                                                  catcaGTGGCTGGGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTAttt                            <  1:727494/141‑1 (MQ=255)
                                                                                                                     caGTGGCTGTGTCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATAATTATTTTCg                         <  2:260684/141‑1 (MQ=255)
                                                                                                                        tGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCACATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTg                      >  1:121964/1‑141 (MQ=255)
                                                                                                                         ggCTGTGCCATTGCGTTTTTTTCTTATTGGCGAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGt                     <  2:578995/141‑1 (MQ=255)
                                                                                                                                ccATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑AGACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTAGGGGGATTGGTGTATAAGTAAAGACTTATTATAGTTGTCTTAAtt              >  2:498752/1‑141 (MQ=255)
                                                                                                                                 cATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATta             <  2:389378/141‑1 (MQ=255)
                                                                                                                                   ttGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCGCTCACTACCGCAAATAGTGAGGGGATTGGTGTGTAAGTAAATACTTATTTTCGTTGTCTTAATtata           >  2:339613/1‑141 (MQ=255)
                                                                                                                                         tgttttCTCGTTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCGCCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTa     <  2:711883/139‑1 (MQ=255)
                                                                                                                                            tttCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAAtt  <  2:699499/141‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                                   
TTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGATGC‑TTATTTTC‑GTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCA‑‑ATACAA‑‑AATAGGTGAC‑ATAT‑AGCC‑GCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCTAATT  >  CP000730/1929794‑1930068

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A