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 F18 I0 R1 150 105.7 2655328 79.3% 2105675 226.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 2,173,361 Δ2 bp 100% pseudogene (1‑2/442 nt) gatC ← pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,173,3610C.84.6% 163.9 / 18.3 52pseudogene (2/442 nt)gatCpseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC
Reads supporting (aligned to +/- strand):  ref base C (1/7);  new base . (40/4);  total (41/11)
Fisher's exact test for biased strand distribution p-value = 1.82e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: Variant not supported by required number of reads on each strand.
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.
*NC_0009132,173,3620C.84.6% 161.1 / 16.9 52pseudogene (1/442 nt)gatCpseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC
Reads supporting (aligned to +/- strand):  ref base C (1/7);  new base . (40/4);  total (41/11)
Fisher's exact test for biased strand distribution p-value = 1.82e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: Variant not supported by required number of reads on each strand.
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

AGTTGGGTGTGCAAACCAATAGTTTGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCACCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCGCGAGGATGCCGATAATCAGCCCCATCACAAAACCCA  >  NC_000913/2173135‑2173599
                                                                                                                                                                                                                                   ||                                                                                                                                                                                                                                             
aGTTGGGTGTGCAAACCAATAGTTTGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATaccaccgccgaatgtc                                                                                                                                                                                                                                     >  1:1170379/1‑228 (MQ=255)
         tgCAAACCAATAGTTTGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGGACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGGTAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAgcagca                                                                                                                                                                                                                          >  1:974760/1‑238 (MQ=255)
         tgCAAACCAATAGTTTGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCaa                                                                                                                                                                                                                         >  1:452316/1‑239 (MQ=255)
             aaCCAATAGTTTGGGTCGCGATCCAAAGGGTGATGCCAATAATGAAGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGcc                                                                                                                                                                                                                     <  1:962771/239‑1 (MQ=255)
                        tGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCCCACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCCGAAGCAAAGCCGGATCACGGcc                                                                                                                                                                                                          >  1:1231745/1‑239 (MQ=255)
                          cGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGGGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCaa                                                                                                                                                                                                        >  1:883102/1‑239 (MQ=255)
                                      ggtggTGATGCATATAATGTTGCCCCCAGAAATTAAGGGGCGGAGGAGTGCTCCCCGAGGACCGGC‑GACCGCCATCGCCACAAAGCACACGAGGGTGGCAAAATCGCCAACCGGCAGCACCTGATGACCCGGCACACAACCAGCAATAAAATGGGTGAGTGGGAAAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCt                                                                                                                                                                                            <  2:217440/236‑1 (MQ=255)
                                            gATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTAGGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGAccg                                                                                                                                                                                       >  1:557018/1‑238 (MQ=255)
                                              tGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGCccgccg                                                                                                                                                                                    >  1:458764/1‑239 (MQ=255)
                                              tGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGAccgccg                                                                                                                                                                                    >  1:303194/1‑239 (MQ=255)
                                              tGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGAccgccg                                                                                                                                                                                    >  1:1320409/1‑239 (MQ=255)
                                              tGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACCCCTGAccgccg                                                                                                                                                                                    >  1:892550/1‑239 (MQ=255)
                                              tGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGGGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGAATGTCCCAGCAGCAACGCCCGACCAAAGCCAAACAGGAAACCCTGAcccccg                                                                                                                                                                                    >  2:773050/1‑239 (MQ=255)
                                                   aTAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCCCACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGCAACCACCC‑‑CCGTATGTCCCACCAGCAACCCCCGACAAAAGCCAATAAGGAACCCCTAACCCCCCAACt                                                                                                                                                                                >  2:59160/1‑238 (MQ=255)
                                                   aTAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGaa                                                                                                                                                                                  >  1:420948/1‑236 (MQ=255)
                                                         ttgaCACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGCCAGCACCTGATTACCCGGCACACAAACAGCACTTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCCGGCACTCCTGACCGCCGAACTTCTCCTg                                                                                                                                                                         >  1:1100346/2‑239 (MQ=255)
                                                          tgaCACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGCTAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGAATGTCCCAGCAGCAACGCCGGAACAAGGCCAAACAGGAACTCCTGACCCCCGAACTTccccgga                                                                                                                                                                        >  2:356044/1‑236 (MQ=255)
                                                              ccccggaaatAAGGTGGGGAAAAGTTTTCCAGGATGCCCGGC‑CACCGCCATCCCCAAGAAGAAGCCGATGGTGGAAAGATCGCAAAGCGGCAGCACCTGATTCCCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGAT‑CC‑CCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAAc                                                                                                                                                                    <  1:356044/230‑1 (MQ=255)
                                                                        agggggCGGAAAAGCTTCCCACGATGCAGGGC‑GACCGCCATCGCCACGAAGAAGCCGAGGGGGGAAAGACCGCCAAACGGCAGCACCTGATTACCCGGCAACAAAACAGCAATTAAAATGGTGAGGGGGATAAAAACCAGGCTGGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGc                                                                                                                                                          <  1:1138684/234‑1 (MQ=255)
                                                                        aaGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAAAGACTACGaa                                                                                                                                                           >  1:710847/1‑237 (MQ=255)
                                                                          ggTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTTCCGATACCA‑‑CCGCCGCATGTCCCAGCAGGAACGCCGGACCAACGCCAATACGGAACTCCTGACCCCCGACCTTCCCCCGTAaacaaccaacagcc                                                                                                                                                         >  2:564610/1‑230 (MQ=255)
                                                                              cGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGCCACCGAGACTGCtt                                                                                                                                                    >  1:1232278/1‑239 (MQ=255)
                                                                                     attttCCACTGAGCACGGCGGCCCGCACTCGCCACAAAAAGGCGGGTGGGGAAAAGATGGCAAAGCGGCAGCCGCATATTCCCCGCCCCACAACCAGCAAATAAATGGGGGAGTGGAATAAAAACCGGGCTGGCAGAT‑CC‑CCCCGCCGTATGTCCCAGCAGCAACGCCGGACAAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGAt                                                                                                                                              <  2:883102/237‑1 (MQ=255)
                                                                                      aTTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATgg                                                                                                                                            >  1:1123662/1‑239 (MQ=255)
                                                                                           cACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGGGtt                                                                                                                                       >  1:1294336/1‑239 (MQ=255)
                                                                                           cACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGtt                                                                                                                                       >  1:256616/1‑239 (MQ=255)
                                                                                           cACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACAGCCGAACTTCGCCTGTAACCGCCTCCGAGCCTGCTTAGCGATGGGCGtt                                                                                                                                       >  1:935863/1‑239 (MQ=255)
                                                                                                          cccGCCATCCCCAAGAAGAAGCGGATGGGGGCAAGATCGCCAAAGGGCAGACCCGGATTCCCCGGCACAAAAACAGCAATTAAAATGGTGAGGGGGATAAAAATCGGGCTTGCCGAT‑CC‑CCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCatga                                                                                                                          <  1:59160/237‑1 (MQ=255)
                                                                                                           ccGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCatgatg                                                                                                                        >  1:489673/1‑239 (MQ=255)
                                                                                                           ccGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAACGGGGGGTGGGCTAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTAGGTCCCAGCAGCAACGCCGGATCAAGGCCAACCAGCAACTCCGGTCCCCCGCACTTCACCCTGAAACCACTCAGAGCCTGCTTTCCGACGGACGTTAAAccctaccagatg                                                                                                                        >  2:423543/1‑229 (MQ=255)
                                                                                                                        aaagaacCCGATGGTGGCAAGACCCCCAAACGGCAGCACCTGATCCCCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATCCCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCAccc                                                                                                           <  1:773050/238‑1 (MQ=255)
                                                                                                                               ccGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCAt                                                                                                    >  1:1222457/1‑239 (MQ=255)
                                                                                                                                 gagggtggAAAGACCCCCAAACGGAAGCCCCTGATTCCCCGGCACAAAAACAGAAATAAAAAGGGGGAGTGGGATAAAAATCAGGTTTGCCGAT‑CC‑CCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCAtt                                                                                                   <  1:292307/235‑1 (MQ=255)
                                                                                                                                               cGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTgc                                                                                     >  1:1171213/1‑238 (MQ=255)
                                                                                                                                                                 gATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATAATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCa                                                                    >  1:468092/1‑237 (MQ=255)
                                                                                                                                                                  aTTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGGAGCAACGCCGGACCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACCACGAGCCCGCTTACGGCCGGGCGTTAAACCATCCCTGATGGGATTAATCACACGTGGCATTAGCAGCATCACTCCCCCCGTGTTTTCCGCCaac                                                                  >  2:372938/1‑236 (MQ=255)
                                                                                                                                                                      cccGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCaa                                                             >  1:1308391/1‑239 (MQ=255)
                                                                                                                                                                      cccGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGCATCAATGCCAATCAGGAACTCCTGACCGCCGAAATTCGCCTGTAAACGACTACGAGCCGGCTTAGCGATGTGCGTTAAACCATCCATGATGGGTTTAGTCACCCTCGGCCTTAGCAACAACACGGCCGCCGGTTTTACGGCCAgacgaaa                                                             >  2:1223906/1‑233 (MQ=255)
                                                                                                                                                                       ccGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCTTGGCATTAGATGCATCACTGCCGCGGTTTTTACCACACGCTGCCAt                                                            >  1:499088/1‑239 (MQ=255)
                                                                                                                                                                        cGGCAAAAAAACAACAATAAAAGTGGTGGGTGGAATAAAAATCAGGCTTGCCGA‑ACC‑CCCCGCCGTAGGCCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATa                                                           <  1:1175044/239‑1 (MQ=255)
                                                                                                                                                                         ggCACACACACAGCAATTAAAATGGCGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAAAGCCGGATCAAGGCCAATCAGGAACTCCTGACCGACGAACTTCGCCTGAAACCGACCACGAACCTGCCTAACGGTGGGCGGTAAACCATCCATGATGGGCTTAATCACCAGTGCCATTAGCAGCATACCGTCCGCCGTTTTTTCCGCCACCTGccaaaa                                                          >  2:954078/1‑234 (MQ=255)
                                                                                                                                                                         ggCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATac                                                          >  1:826687/1‑239 (MQ=255)
                                                                                                                                                                            acacaAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATAGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCACTaca                                                         >  1:808639/1‑237 (MQ=255)
                                                                                                                                                                                     gCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCTTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCCCCAGCTGCAATa                                                           >  1:94959/1‑226 (MQ=255)
                                                                                                                                                                                        aTTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCATGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACacccaa                                           >  1:1068376/1‑234 (MQ=255)
                                                                                                                                                                                              aTGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATaca                                                         >  1:147777/1‑219 (MQ=255)
                                                                                                                                                                                                ggTGAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGc                                                                                                                                                                                                                      >  1:494346/1‑60 (MQ=255)
                                                                                                                                                                                                ggTGAGTGGGATAAAAATCAGGCTTGCCGATAC‑‑CCCCGCCGTATGTCCCAGCAGCAACGc                                                                                                                                                                                                                      <  2:494346/60‑1 (MQ=255)
                                                                                                                                                                                                   gAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCGCGAGGa                                >  1:912115/1‑239 (MQ=255)
                                                                                                                                                                                                   gAGTGGGATAAAAATCAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGACCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCACCTGACAAACACCTTTGACATCGAAACCCGcgacga                                >  2:1066539/1‑239 (MQ=255)
                                                                                                                                                                                                     gggggAAAAAAAGTCGGGTTGCCCACACC‑CCCCCTCGTTTGCCCCAGGAACACCGCCGGATAAAGGCACATCAGGAACCCCTGGCCGCCGAACGTCGCTTGTAAACGACTACGAGCCTGCTTGGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCGCGAGGa                                <  2:1060680/236‑1 (MQ=255)
                                                                                                                                                                                                                   aGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCGCGAGGATGCCGATAATCAGcc                 >  1:509828/1‑238 (MQ=255)
                                                                                                                                                                                                                   aGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCACCTGCAAAACACCTTTTAAATCGTAACCCCCAAGAGTCCCGATAAACAAccc                >  2:490046/1‑239 (MQ=255)
                                                                                                                                                                                                                           cccaacccccCCGCCGTATGCCCCGGAAGCACGGCCGAATAAGGGCCAATCGGAACCCCCTGCCCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCGCGAGGATGCCGATAATCAGCCCCATcac          <  1:490046/235‑1 (MQ=255)
                                                                                                                                                                                                                                   ccccGGCGTATGCCCCAGACGCAACGCGTGATCAAGGCCAATCGGGATCTCCTGGCCGACGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCGCGAGGATGCCGATAATCAGCCCCATCACAAAACCCa  <  1:132013/239‑1 (MQ=255)
                                                                                                                                                                                                                                   ||                                                                                                                                                                                                                                             
AGTTGGGTGTGCAAACCAATAGTTTGCGTCGCGATCCACAGGGTGATGCTCATAATGATGACACCCGAGATTAAGGTGCGGAACAGATTTCCACGATGCACGGC‑GACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAATCAGGCTTGCCGATACCACCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCCGTGGCATTAGCAGCATCACTGCCGCCGTTTTTACCGCCAGCTGCAATACACCTTTGACATCGTAACCCGCGAGGATGCCGATAATCAGCCCCATCACAAAACCCA  >  NC_000913/2173135‑2173599

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A