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
A19 F53 I0 R3 198 62.2 2365906 95.5% 2259440 127.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 3,837,361 A→C 26.2% F34C (TTT→TGT)  U712_19795 ← Uncharacterized protein yxiK

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068813,837,3610AC26.2% 79.8 / 13.5 48F34C (TTT→TGT) U712_19795Uncharacterized protein yxiK
Reads supporting (aligned to +/- strand):  ref base A (33/2);  new base C (2/11);  total (35/13)
Fisher's exact test for biased strand distribution p-value = 2.43e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATTCCCTTTTGGCCAGCTTCGTCACCTTGTAAGCATGACCTTCAAAATACTCGGACAGGTCTTCTATAAATGAACCAGTCGTTATTACCTGTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCTTCCCCTTATCAGTTGGATAGCGCAACG  >  CP006881/3837227‑3837495
                                                                                                                                        |                                                                                                                                      
aTTCCCTTTTGGCCAGCTTCGCCACCTTGAAAGCATGCCATACAAAAAACGCGCACAGGTCTTATAAAAATCACCCCGTCTTTATACCCTGTACCATGATGCGATCGTCGGCACGCCCTCCCAAAAAA‑C‑GATAAAACGa                                                                                                                                    <  8:216854/139‑1 (MQ=255)
      ttttGGCCAGCTTCGTCACCTTGTAAGCATGACCTTCAAAATACTCGGACAGGTCTTCTATAAATGAACCAGTCGTTATTACCTGTATCATGATTAGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAAAGACTATg                                                                                                                               >  7:209946/1‑138 (MQ=255)
                cTTCGTCACCTTGTAAGCATGACCTTCAAAATACTCGGACAGGTCTTCTATAAATGAACCAGTCGTTATTACCTGTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGt                                                                                                                    >  3:45475/1‑139 (MQ=255)
                     tCACGTTGTACCCATGACATTAAAAAAACTCCGACAGGTTTTATAAAAATCACCCAGTGTTTATTACGTTTAAAATG‑TTCCTTCCGACGCACCCCCCTCCCAAAAACC‑TAAAACACGACTCTGCATCTTCAAGTTCGCa                                                                                                               <  8:156220/139‑1 (MQ=255)
                                   tGACCTTCAAAATACTCGGACAGGTCTTCTATAAATGAACCAGTCGTTTTTACCTGTTTAATGATTGGATCGTATGGAAGCCCAGCCCAAAAA‑C‑GATAAAACGACTCTGGATCTTCAACTTCGCATGCCAAAACGGttt                                                                                                 >  3:179667/1‑139 (MQ=255)
                                   tGACCTTCAAAATACTCGGACAGGTCTTCTATAAATGAACCAGTCGTTATTACCTGTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGttt                                                                                                 >  7:223260/1‑139 (MQ=255)
                                   tGACCTTCAAAATACTCGGACAGGTCTTCTATAAATGAACCAGTCGTTATTACCTGTAACATTATTCGATCGTAGGCAAGCCAGCCCCAAAAA‑C‑AAAAACACCACTATGCAAATTAAAGTTCGAATGCCATAACCGttt                                                                                                 >  4:264557/1‑139 (MQ=255)
                                    gACCTTCAAAATACTCGGACAGGTCTTCTATAAATGAACCAGTCGTTATTACCTGTATCATGATTAGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTg                                                                                                >  8:196243/1‑139 (MQ=255)
                                                 cTCGGACAGGTCTTCTATAAATGAACCAGTCGTGATTAACTGTATAATGATTAGATCGTAGGCAAGCCCGGACCCAAAA‑C‑GCTAAAAAGACAGTGCATCGTCAATTTCGCATGCCAATACAGTTTGGTCAGGCTTAAGc                                                                                   >  6:296323/1‑139 (MQ=255)
                                                    ggACAGGTCTTCTATAAATGAACCAGTCGTTATTTCCTGTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAACTTCGCATGCCATAACGGTTTGGTCAGGCTGAAGcgc                                                                                 >  8:95722/1‑136 (MQ=255)
                                                    ggACAGGTCTTCTATAAATGAACCAGTCGTTATTACCTGTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCAGCATCTTCAACTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCg                                                                                >  5:237076/1‑139 (MQ=255)
                                                      aCAGGTCTTATAAAAATCAACCCGTCTTTATTACCTTTATCATTATGCGATCTTCGGCACGCCCTGCCAAAAAA‑C‑TAAAACACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGAt                                                                              <  7:293086/139‑1 (MQ=255)
                                                                aataAATGAACCAGTCGTTATTACCTTTATCATTATGCGATCGTAGGCAACCCCTGCCCAAAAA‑C‑TAAAACACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCaa                                                                     <  8:223260/137‑1 (MQ=255)
                                                                  aaaaTCAACCAGTCTTAATAACCTGTATCATGATTCGATCGTAGCCAACCCCTCCCAAAAAA‑C‑CAAAACACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCaa                                                                     <  3:124645/135‑1 (MQ=255)
                                                                    aaTGAACCAGTCGTTATTTCCTGTATCATTAATCGATCGTAGGCAAGACAAGCCCAAAAA‑A‑GATAAAACGACTCTGCATCTTCAAGTTCGCTATCCAGAACCGTTTTGTAAGGCTTTAGCTCGATCATTTACAAATTGc                                                                >  2:203268/1‑139 (MQ=255)
                                                                    aaTGAACCAGTCGTTATTACCTGTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGc                                                                >  5:211832/1‑139 (MQ=255)
                                                                    aaTGAACCAGTCGTTATTACCTGTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGc                                                                >  5:127628/1‑139 (MQ=255)
                                                                     aTGAACCAGTCGTTATTACCTGTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAACACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGc                                                                >  4:169920/1‑138 (MQ=255)
                                                                        gacatgTCGTTATTACCTGTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCaa                                                             >  5:15202/6‑138 (MQ=255)
                                                                         aCCAGTCGTTATTACCTGTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATa                                                           >  6:109338/1‑139 (MQ=255)
                                                                            cggcGTTATTACCTGTATCATGTTGCGAGCGTCGGCAAGCCCGGCCAAAAAA‑C‑TAAAACACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTg                                                        <  7:98161/136‑1 (MQ=255)
                                                                             gTCGTTATTTCCTGTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCCTCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGc                                                       >  7:252540/1‑139 (MQ=255)
                                                                                gTTATTACCTGTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACACGGCATCTTCAAGTTCGCAAGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCAAGTCCAAATTGCCAATACTGCTta                                                    >  7:203682/1‑139 (MQ=255)
                                                                                          gTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTAt                                          >  7:109695/1‑139 (MQ=255)
                                                                                           tATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCACGTGCGCATGCCATATCGGGTGGGTCAGGCTTAAGCTCGCTCATGTCCAACTTGCCAATCCTGCTTATCGAGGTTAtt                                         >  6:49694/1‑139 (MQ=255)
                                                                                           tATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATATAGGTTAtt                                         >  7:252692/1‑139 (MQ=255)
                                                                                           tATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTAtt                                         >  3:275013/1‑139 (MQ=255)
                                                                                            aTCTTGATTCGAGCGTAGCCACCCCCGCCCAAAAAA‑C‑CAAAACACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTAtt                                         <  4:275013/138‑1 (MQ=255)
                                                                                                 gATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTACCAATACTGCTTATAGAGGTTATTTCCAt                                    >  3:209693/1‑138 (MQ=255)
                                                                                                  aTTCGTTCTTAGCCACGCGCTCCCAAAAAA‑G‑AATAACACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATa                                   <  4:21646/138‑1 (MQ=255)
                                                                                                  aTTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATa                                   >  2:12296/1‑138 (MQ=255)
                                                                                                  aTTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATa                                   >  8:46403/1‑138 (MQ=255)
                                                                                                       aTCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAAtat                             >  2:250237/1‑137 (MQ=255)
                                                                                                       aTCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCt                             >  6:68285/1‑139 (MQ=255)
                                                                                                       aTCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCt                             >  4:10617/1‑139 (MQ=255)
                                                                                                       aTCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGCTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCt                             >  6:212957/1‑139 (MQ=255)
                                                                                                             ggCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCTTCCCCt                       >  5:267047/1‑139 (MQ=255)
                                                                                                             ggCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTAGTTCCATAAAATCTTCCCCt                       >  8:83131/1‑139 (MQ=255)
                                                                                                              gCATGCCCTCCCCAAAAA‑C‑TAAAACACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCTTCCCCtt                      <  8:203682/139‑1 (MQ=255)
                                                                                                                acgCCCTCCCAAAACA‑C‑TAAAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCTTCCCCTTAt                    <  7:265943/137‑1 (MQ=255)
                                                                                                                   cccTGCCCAAAAA‑C‑TAAAACACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGATGTTATTTCCATAAAATCTTCCCCTTATCAg                 <  2:79844/139‑1 (MQ=255)
                                                                                                                   cccTGCCCAAAAA‑C‑GAAAACACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCTTCCCCTTATCAg                 <  5:109338/139‑1 (MQ=255)
                                                                                                                        cccAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCTTCCCCTTATCAGTTGGa            >  7:1488/1‑139 (MQ=255)
                                                                                                                        cccAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCTTCCCCTTATCAGTTGGa            >  2:233893/1‑139 (MQ=255)
                                                                                                                        cccAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCTTCCCCTTATCAGTTGGa            >  1:230394/1‑139 (MQ=255)
                                                                                                                         ccAAAAA‑CATATAACACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCTTCCCCTTATCAGTTGGa            <  6:76944/139‑1 (MQ=255)
                                                                                                                                    aTAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCTTCCCCTTATCAGTTGGATAGcgcaacg  >  1:121155/1‑139 (MQ=255)
                                                                                                                                    aTAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCTTCCCCTTATCAGTTGGATAGcgcaacg  >  5:130486/1‑139 (MQ=255)
                                                                                                                                        |                                                                                                                                      
ATTCCCTTTTGGCCAGCTTCGTCACCTTGTAAGCATGACCTTCAAAATACTCGGACAGGTCTTCTATAAATGAACCAGTCGTTATTACCTGTATCATGATTCGATCGTAGGCAAGCCCTGCCCAAAAA‑C‑GATAAAACGACTCTGCATCTTCAAGTTCGCATGCCATAACGGTTTGGTCAGGCTTAAGCTCGATCATGTCCAAATTGCCAATACTGCTTATAGAGGTTATTTCCATAAAATCTTCCCCTTATCAGTTGGATAGCGCAACG  >  CP006881/3837227‑3837495

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A