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
A9 F56 I0 R1 218 83.1 3292392 95.3% 3137649 126.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 1,955,478 G→T 22.5% intergenic (+41/+53) U712_09675 → / ← U712_21250 Uncharacterized protein yoeB/tRNA‑Arg

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068811,955,4780GT22.5% 83.4 / 4.2 52intergenic (+41/+53)U712_09675/U712_21250Uncharacterized protein yoeB/tRNA‑Arg
Reads supporting (aligned to +/- strand):  ref base G (12/27);  new base T (11/2);  total (23/29)
Fisher's exact test for biased strand distribution p-value = 1.03e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TCCCTACATTAGACGGATCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCTGTGCTACTAGAGCTTTTGGTATT  >  CP006881/1955340‑1955613
                                                                                                                                           |                                                                                                                                       
tCCCTACATTAGACGGATCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGTTTTATtttgtttg                                                                                                                                         >  3:81838/1‑139 (MQ=255)
tCCCTACATTAGACGGATCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGGTTTTTTTGGGTTg                                                                                                                                         >  3:309739/1‑139 (MQ=255)
 cccTACATTAGACGGATCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGGTTTttttgttttgg                                                                                                                                        >  8:159089/1‑138 (MQ=255)
  ccTACATTAGACGGATCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGGTTTTTtttgtttgga                                                                                                                                       >  7:85884/1‑137 (MQ=255)
     aCATTAGACGGATCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGTTTTATTTTGTTTGGATa                                                                                                                                     >  8:286663/1‑138 (MQ=255)
         tAGACGGATCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGTTTTTTTTTGTTTGGATaaaga                                                                                                                                 >  1:17260/1‑138 (MQ=255)
          aGACGGATCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGGTTTATTTTTTTTGGATtaagaa                                                                                                                                >  5:238811/1‑138 (MQ=255)
            aCGGATCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGTTTTTTTTGGTTTGGGtaaataaat                                                                                                                              >  8:166825/1‑137 (MQ=255)
            aCGGATCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGCTATAAGCGGGCGTGGTTAATTTGGTTTGCATaaaaaaaa                                                                                                                              >  7:184445/1‑137 (MQ=255)
                aTCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCTTGGTTTATTTTGTTTGGATAAAAAAAAacaa                                                                                                                          >  4:76362/1‑138 (MQ=255)
                aTCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTTTTTTATTTTGTTTTGAtaaataaaaaaaa                                                                                                                          >  5:91310/1‑133 (MQ=255)
                aTCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTTTTTTATTTTGTTTTCATAAATAAAGacaa                                                                                                                          >  6:104845/1‑138 (MQ=255)
                aTCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGTTTTTTTTTTTTTTGTTAAAAAAAAacaa                                                                                                                          >  5:376899/1‑138 (MQ=255)
                aTCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGTTTTTATTGGTTTTGAtaaataaataaaa                                                                                                                          >  6:327943/1‑133 (MQ=255)
                aTCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGTTTTATTTGGTTTGCAAAAATAAAGaaaa                                                                                                                          >  8:334839/1‑138 (MQ=255)
                aTCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGTGTTTTTTTTTTTTGATaaaaaaaaaaaa                                                                                                                          >  2:386295/1‑133 (MQ=255)
                aTCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGGTTTTTTTTTTTTTGATaaaaaaaaaaaa                                                                                                                          >  1:270178/1‑133 (MQ=255)
                aTCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGAGGGCGTGGTTTATTTTTTTTTTATaaaaaaaaaaaa                                                                                                                          >  7:291368/1‑133 (MQ=255)
                     cTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGTTTTATTTTGTTTGCATAAAAAAAAACAACAGGCg                                                                                                                    >  1:332813/1‑139 (MQ=255)
                        cTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGTTTTATTTTGTTTTAATAAATAAAAACAACAGGAGaa                                                                                                                  >  6:395947/1‑138 (MQ=255)
                          gCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGTTTTTTTTTTTTTGAATTAAAAATAAAAACAAGCGAAAAg                                                                                                               >  4:141460/1‑139 (MQ=255)
                                cctaaaGTCAAATTTGTCAAAAAAAAAAAAAAATGCACACCAAAACAATTTGACCCTTTAATAAA‑ACAAAAACGCCCGGTATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCtg                                                                                                         <  2:145508/136‑1 (MQ=255)
                                cGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGGTTTTTTTGTTTTTGATAAAGAAAGAAAAAACGCGAAAAGTGccgg                                                                                                         >  4:136227/1‑137 (MQ=255)
                                     aGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTGTTTTTTTTTTTTTGGATTAAAAAACACAAAAGCCGAAAACAGCCagttgt                                                                                                     >  7:101230/1‑138 (MQ=255)
                                          cATTGGTCAAATAAAAAAAAAAACGCAAAGCCAACCAATTGCACCAAGTTATAAA‑ACAAACACGCCCGGTATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCttttt                                                                                               <  5:375257/139‑1 (MQ=255)
                                                    acaaaaTAAAACATGCAAAGTAAATAAATTTCACCCATTTAAAAA‑ACAAAAACGCCCGGTATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATaa                                                                                     <  2:271016/137‑1 (MQ=255)
                                                    aaaaaaaaaaaaATGTAAATTCAATAATTTTGACGCATTTTTATA‑ATAAACACGCCCGGTATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATaa                                                                                     <  8:284082/137‑1 (MQ=255)
                                                    aaaaaaTAAAAATGGCAAAGTAAATAAATTTGCTGTTTTTA‑ATACAGACCAACGCCCGGTATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATaa                                                                                     <  7:286663/137‑1 (MQ=255)
                                                      aaaaaaaaaaCTGAAAATTAAATAAATTTCACGCATTTAAAAA‑AAAAACACGCCCGGTATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACg                                                                                   <  5:153268/139‑1 (MQ=255)
                                                      aaaaaaaaaaATGCAAAGTCAAACAATTTGACGCAGTAATAAA‑ACAAACACGCCCGGTATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACg                                                                                   <  7:141565/139‑1 (MQ=255)
                                                                                    cattatttATATA‑ACAACAACGCCCGGTATACGCGGGCGTTTTTTATTTGGTTTTCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTg                                                      <  4:42464/132‑1 (MQ=255)
                                                                                     cGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTTTTTTTTTTTGTTTGGATAAATAAAAAAAACACGCGAAAAATGCCTGGTGGATTTTTTTTTATATAAAGCTCTAGGAGAGATTCGAAATCCCGAccaaca                                                    >  2:250757/1‑135 (MQ=255)
                                                                                             tata‑ACAAACACGCCCGGTATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGa                                            <  1:250757/139‑1 (MQ=255)
                                                                                             tata‑ACAAACACGCCCGGGATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGa                                            <  6:66513/139‑1 (MQ=255)
                                                                                              aaaaacaaacaCGCCCGGTATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGa                                            <  4:349643/133‑1 (MQ=255)
                                                                                                aaacaaacaCGCCCGGTATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGaaa                                          <  7:159089/135‑1 (MQ=255)
                                                                                                   gAAAAACGCCCGGTATAAGCGGGCGTGTTTTATTTTGTTTTGATAAATAAAAAAAAAACGCGAAAAATGCCGGTTGTGTTTTTTTGTATATTACGCGATATGAGACCTTCGCACAGCCCACCTGCACTTTTGGCAActg                                       >  6:147726/1‑139 (MQ=255)
                                                                                                     aacaCGCCCGGTATACGCGGGCGTTTTTTATTTTGTTTGCATAAAGAAAGACAACAGTCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCGCTAGGAGAGATTCGAACTCCCGACCTGCAGGTTAGGAAActgct                                     <  5:82158/136‑1 (MQ=255)
                                                                                                         cGCCCGGTATAAGCGGGCGTTTTTTATTTGGTTTTGATAAATAAAGACAACACGCGAAAAGTGGCTGTTGGCGTTTTGGTAATATAACGCTCGACGAGAGCATAGAACAACCCAACAGCACTTTAGGAAACTGCTGCa                                  >  8:476/1‑138 (MQ=255)
                                                                                                          gCCCGGTATAAGCGGGCGTTTTTTTTTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACt                                <  5:293679/139‑1 (MQ=255)
                                                                                                               gTATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCg                           <  3:55491/139‑1 (MQ=255)
                                                                                                                tataAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGc                          <  4:81838/139‑1 (MQ=255)
                                                                                                                  taAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCtg                        <  3:273350/139‑1 (MQ=255)
                                                                                                                    aGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCtgtg                      <  7:364586/139‑1 (MQ=255)
                                                                                                                    aGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCtgt                       <  8:85884/138‑1 (MQ=255)
                                                                                                                                   tttGGTTTGCATAAAGAAAGACAACCGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCTGTGCTACTAGAGCtttt        <  6:238811/138‑1 (MQ=255)
                                                                                                                                   tttGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCTGTGCTACTAGAGCtttt        <  7:47209/138‑1 (MQ=255)
                                                                                                                                   tttGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCTGTGCTACTAGAGCtttt        <  3:389797/138‑1 (MQ=255)
                                                                                                                                   tttGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCTGTGCTACTAGAGCtttt        <  1:21465/138‑1 (MQ=255)
                                                                                                                                      ggTTTTCATAAAGAAAGACAACAGGCGAATAGTGACTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCTGTGCTACTAGAGCTTTTGGt     <  8:101230/138‑1 (MQ=255)
                                                                                                                                      ggTTTGCATAAAGAAAGACAACAGGCGATTAGTGCCTGTTGTCTTTTTGTGAATATAACGCTGTTGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGATGCACTATCAGCTGTGCTACTAGAGCTTTTGGt     <  7:86975/138‑1 (MQ=255)
                                                                                                                                      ggTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCTGTGCTACTAGAGCTTTTGGt     <  7:291461/138‑1 (MQ=255)
                                                                                                                                      ggTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCTGTGCTACTAGAGCTTTTGGt     <  2:318838/138‑1 (MQ=255)
                                                                                                                                       gTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCTGTGCTACTAGAGCTTTTGGTa    <  5:147726/138‑1 (MQ=255)
                                                                                                                                       gTTTGAATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCTGTGCTACTAGAGCTTTTGGTAt   <  2:235401/139‑1 (MQ=255)
                                                                                                                                         ttGCATAAAGAAAGACAACAGGCGAAAAGTGCCAGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCTGTGCTACTAGAGCTTTTGGTAtt  >  3:226498/1‑138 (MQ=255)
                                                                                                                                           |                                                                                                                                       
TCCCTACATTAGACGGATCCCCTTCTGCAAAACGGAAAGTGACATTTGTGAAAGAAAATAAAAAATGGAAAGTCAATCAATTTGACGCAGTTATATA‑AGAAAAACGCCCGGTATAAGCGGGCGTTTTTTATTTGGTTTGCATAAAGAAAGACAACAGGCGAAAAGTGCCTGTTGTCTTTTTGTGAATATAACGCTCTAGGAGAGATTCGAACTCCCGACCTGCAGTTTAGGAAACTGCTGCACTATCCGCTGTGCTACTAGAGCTTTTGGTATT  >  CP006881/1955340‑1955613

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A