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
A10 F1 I1 R1 759 65.2 3386260 90.7% 3071337 101.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,424,386 G→A *229* (TAG→TAA)  ulaF → L‑ribulose 5‑phosphate 4‑epimerase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,424,3860GA100.0% 193.0 / NA 59*229* (TAG→TAA) ulaFL‑ribulose 5‑phosphate 4‑epimerase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (32/27);  total (32/27)

AAAATGGCGTGGATTGCCCGCGGCATTAACCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAGAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGCT  >  NC_000913/4424270‑4424517
                                                                                                                    |                                                                                                                                     
aaaaTGGCGTGGATTGCCCGCGGCATTAACCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCCGCGGAAATttcc                                                                                                                 <  1:364394/139‑1 (MQ=255)
   aTGGCGTGGATTGCCCGCGGCATTAACCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATttccttc                                                                                                              >  1:518049/1‑139 (MQ=255)
     ggCGTGGATTGCCCGCGGCATTAACCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTtccttcct                                                                                                            <  2:518049/139‑1 (MQ=255)
                  cgcgGCATTAACCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTg                                                                                               >  1:1203894/1‑139 (MQ=255)
                           aaCCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTc                                                                                      >  2:326559/1‑139 (MQ=255)
                            aCCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTcc                                                                                     <  1:326559/139‑1 (MQ=255)
                                    cTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGt                                                                             >  2:841908/1‑139 (MQ=255)
                                        aTCACATCGACAGCTTCCTGATGAATATACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCAGCAGCCGttttt                                                                         >  2:1007969/1‑139 (MQ=255)
                                            caTCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑aaa                                                                   <  2:1203894/139‑1 (MQ=255)
                                              tCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑aaaaa                                                                 >  1:637065/1‑139 (MQ=255)
                                               cGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑aaaaaa                                                                >  1:238437/1‑139 (MQ=255)
                                                   aGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGc                                                            <  2:246814/139‑1 (MQ=255)
                                                       tCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGccccc                                                        >  1:112788/1‑139 (MQ=255)
                                                          tgatgaATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGc                                                     >  2:15061/1‑139 (MQ=255)
                                                               aaTAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGga                                                                                                       >  2:1471305/1‑86 (MQ=255)
                                                               aaTAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGga                                                                                                       <  1:1471305/86‑1 (MQ=255)
                                                                aTAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGga                                                                                                       >  2:833365/1‑85 (MQ=255)
                                                                aTAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGga                                                                                                       <  1:833365/85‑1 (MQ=255)
                                                                 tAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAg                                                                                 >  1:1270718/1‑106 (MQ=255)
                                                                 tAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAg                                                                                 <  2:1270718/106‑1 (MQ=255)
                                                                 tAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAgggg                                              >  2:1034371/1‑139 (MQ=255)
                                                                 tAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAgggg                                              <  2:637065/139‑1 (MQ=255)
                                                                  aaaCACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAggggg                                             <  1:841908/139‑1 (MQ=255)
                                                                       cTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAGCACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGgcaaag                                        <  1:1007969/139‑1 (MQ=255)
                                                                       cTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGgcaaag                                        <  1:15061/139‑1 (MQ=255)
                                                                        ttCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGgcaaagc                                       >  1:1321616/1‑139 (MQ=255)
                                                                         tCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAAAGCCCCCTGCGAAGGGGgcaaag                                        >  1:905863/1‑139 (MQ=255)
                                                                         tCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGgcaaagca                                      >  1:612338/1‑139 (MQ=255)
                                                                            tGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAgggg                                              >  1:407409/1‑128 (MQ=255)
                                                                            tGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAgggg                                              <  2:407409/128‑1 (MQ=255)
                                                                              cGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTa                                 <  1:1034371/139‑1 (MQ=255)
                                                                               gTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTAt                                >  1:374460/1‑139 (MQ=255)
                                                                                  aaCACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGcc                                                           >  2:1307098/1‑109 (MQ=255)
                                                                                  aaCACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGcc                                                           <  1:1307098/109‑1 (MQ=255)
                                                                                  aaCACGGTCCTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGc                             >  2:761838/1‑139 (MQ=255)
                                                                                           cTAACGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCg                    <  2:374460/139‑1 (MQ=255)
                                                                                             aaCGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCg                    <  2:905863/139‑1 (MQ=255)
                                                                                             aaCGCTTATTACGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGtt                  >  1:646349/1‑139 (MQ=255)
                                                                                                   tattaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGga                                                                                                       <  1:1464389/50‑1 (MQ=255)
                                                                                                   tattaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGga                                                                                                       >  2:1464389/1‑50 (MQ=255)
                                                                                                   tattaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAggggg                                             <  2:911036/106‑1 (MQ=255)
                                                                                                   tattaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAggggg                                             >  1:911036/1‑106 (MQ=255)
                                                                                                   tattaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCg                    >  1:681491/1‑131 (MQ=255)
                                                                                                   tattaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCg                    <  2:681491/131‑1 (MQ=255)
                                                                                                     ttaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAAc                                                                                                 >  2:1442739/1‑54 (MQ=255)
                                                                                                     ttaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAAc                                                                                                 <  1:1442739/54‑1 (MQ=255)
                                                                                                     ttaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCg                    <  2:354501/129‑1 (MQ=255)
                                                                                                     ttaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCg                    >  1:354501/1‑129 (MQ=255)
                                                                                                     ctaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCg                    >  1:709623/2‑129 (MQ=255)
                                                                                                     ctaCGGGCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCg                    <  2:709623/128‑1 (MQ=255)
                                                                                                          ggCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCg                    <  2:543922/124‑1 (MQ=255)
                                                                                                          ggCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCg                    >  1:543922/1‑124 (MQ=255)
                                                                                                          ggCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGt     >  2:1355622/1‑139 (MQ=255)
                                                                                                          ggCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGt     >  1:454229/1‑139 (MQ=255)
                                                                                                          ggCAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGt     >  2:551615/1‑139 (MQ=255)
                                                                                                            cAGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTgt   <  2:612338/139‑2 (MQ=255)
                                                                                                             aGAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTgtt  <  2:646349/139‑3 (MQ=255)
                                                                                                               aaGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGt     <  2:1038448/134‑1 (MQ=255)
                                                                                                               aaGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGt     >  1:1038448/1‑134 (MQ=255)
                                                                                                                    |                                                                                                                                     
AAAATGGCGTGGATTGCCCGCGGCATTAACCCACAACTCAATCACATCGACAGCTTCCTGATGAATAAACACTTCATGCGTAAACACGGTCCTAACGCTTATTACGGGCAGAAGTAGAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTC‑‑AAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGCT  >  NC_000913/4424270‑4424517

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A