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
A2 F1 I2 R1 764 42.0 2018750 95.5% 1927906 109.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,519,014 G→A pseudogene (294/504 nt) insB1 → IS1 transposase B,IS, phage, Tn, Transposon‑related functions, extrachromosomal, transposon related

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,519,0140GA100.0% 170.1 / NA 59pseudogene (294/504 nt)insB1IS1 transposase B,IS, phage, Tn, Transposon‑related functions, extrachromosomal, transposon related
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (29/30);  total (29/30)

CGTCAGCGCTGGCTGTTTTACGCGTATGACAGGATACGGAGGACGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAGATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAGCGACATAATCTGAATCTGAGACAACATCTGGCAAGGCTGGGACGGAAGTTA  >  NC_000913/4518883‑4519149
                                                                                                                                   |                                                                                                                                       
cGTCAGCGCTGGCTGTTTTACGCGTATGACAGGATACGGAGGACGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACgg                                                                                                                                  >  1:799103/1‑139 (MQ=255)
        ctggctgTTTTACGCGTATGACAGGATACGGATGACGGTTGTGGCGCACGTCTTCGGTGAACGCACCCTCGCCACACTGGCGCGACTTCTGAGCCTGCTGTCGGCCTATGAGGTCGTGGTAGAAATGACGGAtggctgg                                                                                                                          >  1:600141/1‑139 (MQ=18)
           gctgTTTTACGCGTATGACAGGATACGGAGGACGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCg                                                                                                                       <  1:104677/139‑1 (MQ=255)
           gctgTTTTACGCGTATGACAGGATACGGAGGACGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCg                                                                                                                       <  1:812654/139‑1 (MQ=255)
            ctgTTTTACGCGTATGACAGGATACGGAGGACGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGc                                                                                                                      <  1:192633/139‑1 (MQ=255)
               ttttACGCGTATGACAGGATACGGAGGACGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGcc                                                                                                                        >  2:837239/1‑134 (MQ=255)
               ttttACGCGTATGACAGGATACGGAGGACGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGcc                                                                                                                        <  1:837239/134‑1 (MQ=255)
               ttttACGCGTATGACAGGATACGGAGGACGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGt                                                                                                                   >  1:22231/1‑139 (MQ=255)
                     gcgTATGACAGGATACGGAGGACGGTTGTGGCGCACGTCTTCGGTGTACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAAt                                                                                                             <  1:502461/139‑1 (MQ=255)
                         aTGACAGGCTCCGGAAGACGGTTGTTGCGCACGTATTCGGTGAACGCACTATGGCGACGCTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGc                                                                                                        >  2:322374/1‑139 (MQ=11)
                           gACAGGCTCCGGAAGACGGTTGTTGCGCACGTATTCGGTGAACGCACTATGGCGACGCTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCGTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCt                                                                                                      >  2:668972/1‑139 (MQ=11)
                                 aTACGGAGGACGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCa                                                                                                           <  1:332066/129‑1 (MQ=255)
                                 aTACGGAGGACGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCa                                                                                                           >  2:332066/1‑129 (MQ=255)
                                  tccGGAAGACGGTTGTTGCGCACGTATTCGGTGAACGCACTATGGCGACGCTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGAtggctgg                                                                                                                          <  1:751072/110‑1 (MQ=11)
                                  tccGGAAGACGGTTGTTGCGCACGTATTCGGTGAACGCACTATGGCGACGCTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGAtggctgg                                                                                                                          >  2:751072/3‑112 (MQ=11)
                                      gaagaCGGTTGTTGCGCACGTATTCGGTGAACGCACTATGGCGACGCTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGc                                                                                           <  1:329951/136‑1 (MQ=11)
                                          aCGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCg                                                                                                                       >  1:475775/1‑108 (MQ=255)
                                          aCGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCg                                                                                                                       <  2:475775/108‑1 (MQ=255)
                                          aCGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCg                                                                                                                       <  2:762988/108‑1 (MQ=255)
                                          aCGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCg                                                                                                                       >  1:762988/1‑108 (MQ=255)
                                            ggTTGTTGCGCACGTATTCGGTGAACGCACTATGGCGACGCTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGAtggc                                                                                                                             >  2:410177/1‑99 (MQ=14)
                                            ggTTGTTGCGCACGTATTCGGTGAACGCACTATGGCGACGCTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGAtggc                                                                                                                             <  1:410177/99‑1 (MQ=14)
                                                     gcACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGc                                                                             <  2:22231/139‑1 (MQ=255)
                                                        cGTCTTCGGTGAACGCACTCTGGCCACCCGGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGTCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGc                                                                             <  1:109778/136‑1 (MQ=255)
                                                        cGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGc                                                                             >  2:109778/1‑136 (MQ=255)
                                                                     cGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAgc                                                             >  1:828361/1‑139 (MQ=255)
                                                                     cGCACTATGGCGACGCTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCa                                                                                                           <  1:295360/92‑1 (MQ=18)
                                                                     cGCACTATGGCGACGCTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCa                                                                                                           >  2:295360/1‑92 (MQ=17)
                                                                        aCTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCa                                                          <  2:828361/139‑1 (MQ=255)
                                                                        aCTATGGCGACGCTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCg                                                                                                                       <  1:526474/77‑1 (MQ=18)
                                                                           atGGCGACGCTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTAATCAGCAAGCGATATACGCAGCGAATTGa                                                      <  1:322374/138‑1 (MQ=11)
                                                                                  cgcTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTAATCAGCAAGCGATATACGCAGCGAATTGAGCggtat                                               >  2:290321/3‑135 (MQ=11)
                                                                                  cacTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAGCGACa                                                <  2:799103/139‑1 (MQ=255)
                                                                                    cTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAATCGTTACACTCAGCGCATTGAGCGACATa                                              >  2:607020/1‑139 (MQ=255)
                                                                                    cTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAGCGACATa                                              >  1:525371/1‑139 (MQ=255)
                                                                                    cTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGa                                                                                                                                 >  2:958978/1‑55 (MQ=255)
                                                                                    cTGGAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGa                                                                                                                                 <  1:958978/55‑1 (MQ=255)
                                                                                       gAGCGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTAATCAGCAAGCGATATACGCAGCGAATTGAGCGGTATaacct                                          >  1:88778/1‑139 (MQ=11)
                                                                                          cGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAg                                                                                            <  1:488351/86‑1 (MQ=21)
                                                                                          cGTCTTCTGAGCCTGCTGT‑GGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAg                                                                                            >  2:488351/1‑86 (MQ=21)
                                                                                             cttctGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTa                                                                                                                  <  2:286569/62‑1 (MQ=255)
                                                                                             cttctGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTa                                                                                                                  >  1:286569/1‑62 (MQ=255)
                                                                                             cttctGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAGCGACATaatctgaatc                                     >  1:60220/1‑139 (MQ=255)
                                                                                              ttctGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAg                                                     <  2:43429/122‑1 (MQ=255)
                                                                                              ttctGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAg                                                     >  1:43429/1‑122 (MQ=255)
                                                                                                 tGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCg                                                                                                                       >  1:473623/1‑53 (MQ=255)
                                                                                                 tGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCg                                                                                                                       <  2:473623/53‑1 (MQ=255)
                                                                                                        gctgTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAGCGACATAATCTGAATCTGAGACAACAt                          >  2:388785/1‑139 (MQ=255)
                                                                                                        gctgTCGGCCTTTGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGCATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAGCGACACAATCTGAATCTGAGacaacct                          <  1:607020/139‑3 (MQ=255)
                                                                                                                  tttGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAGCGACATAATCTGAATCTGAGACAACATCTGGCAAGGc                <  1:287786/139‑1 (MQ=255)
                                                                                                                   ttGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAGCGACATAATCTGAATCTGAGACAACATCTGGCAAGGCt               <  2:60220/139‑1 (MQ=255)
                                                                                                                   ttGAGGTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACACCTGAAGGGaa                                                                                              >  2:622775/1‑60 (MQ=18)
                                                                                                                   ttGAGGTCATGGTATAAACGACGGATGGCTGGCCGCTGTATGAATCACACCTGAAGGGaa                                                                                              <  1:622775/60‑1 (MQ=18)
                                                                                                                       ggTCGTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAGCGACATAATCTGAATCTGAGACAACATCTGGCAAGGCTGGGa           <  1:570407/139‑1 (MQ=255)
                                                                                                                           gTGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAGCGACATAATCTGAATCTGAGACAACATCTGGCAAGGCTGGGACGGa       >  1:712212/1‑139 (MQ=255)
                                                                                                                            tGGTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAGCGACATAATCTGAATCTGAGACAACATCTGGCAAGGCTGGGACGGaa      >  1:739526/1‑139 (MQ=255)
                                                                                                                             ggTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCt                                                                                                      <  2:562490/42‑1 (MQ=255)
                                                                                                                             ggTATAAATGACGGATGGCTGGCCGCTGTATGAATCACGCCt                                                                                                      >  1:562490/1‑42 (MQ=255)
                                                                                                                                ataAATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAGCGACATAATCTGAATCTGAGACAACATCTGGCAAGGCTGGGACGGAAGTTa  <  2:739526/139‑1 (MQ=255)
                                                                                                                                   |                                                                                                                                       
CGTCAGCGCTGGCTGTTTTACGCGTATGACAGGATACGGAGGACGGTTGTGGCGCACGTCTTCGGTGAACGCACTCTGGCCACACTGGAGCGTCTTCTGAGCCTGCTGTCGGCCTTTGAGGTCGTGGTATAGATGACGGATGGCTGGCCGCTGTATGAATCACGCCTGAAGGGAAAGCTGCACGTTATCAGCAAGCGTTACACTCAGCGCATTGAGCGACATAATCTGAATCTGAGACAACATCTGGCAAGGCTGGGACGGAAGTTA  >  NC_000913/4518883‑4519149

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A