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
A6 F1 I2 R1 758 59.3 2864096 93.9% 2689386 105.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 461,242 G→A *785* (TAG→TAA)  lon → DNA‑binding ATP‑dependent protease La

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913461,2420GA98.5% 206.1 / ‑3.3 65*785* (TAG→TAA) lonDNA‑binding ATP‑dependent protease La
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base A (31/33);  minor base C (0/1);  total (31/34)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01

GAGATTCCTGACAACGTAATTGCCGATCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAGTGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCGGATCGGGCTTGCCCTTATTAAGGGGTGTTGTAAGGGGATGG  >  NC_000913/461123‑461373
                                                                                                                       |                                                                                                                                    
gagaTTCCTGACAACGTAATTGCCGATCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCa                                                                                                                   <  2:219878/139‑1 (MQ=255)
 agaTTCCTGACAACGTAATTGCCGATCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCAc                                                                                                                  <  1:477041/139‑1 (MQ=255)
   aTTCCTGACAACGTAATTGCCGATCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCa                                                                                                                   <  1:591549/136‑1 (MQ=255)
   aTTCCTGACAACGTAATTGCCGATCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCa                                                                                                                   >  2:591549/1‑136 (MQ=255)
   aTTCCTGACAACGTAATTGCCGATCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACta                                                                                                                >  1:1054536/1‑139 (MQ=255)
   aTTCCTGACAACGTAATTGCCGATCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGATATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACta                                                                                                                >  1:855018/1‑139 (MQ=255)
     tCCTGACAACGTAATTGCCGATCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACtaat                                                                                                              >  2:542492/1‑139 (MQ=255)
     tCCTGACAACGTAATTGCCGATCTGGACATTCATCCTGTGAAGCGCACTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACtaat                                                                                                              <  1:854966/139‑1 (MQ=255)
          aCAACGTAATTGCCGATCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATaaaaa                                                                                                         >  1:1342661/1‑139 (MQ=255)
                        gATCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGc                                                                                           >  1:618329/1‑139 (MQ=255)
                         aTCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATaaaaa                                                                                                         >  1:1309834/1‑124 (MQ=255)
                         aTCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATaaaaa                                                                                                         <  2:1309834/124‑1 (MQ=255)
                         aTCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCt                                                                                          >  1:1097010/1‑139 (MQ=255)
                             ggACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAAtt                                                                                      >  1:919619/1‑139 (MQ=255)
                                 aTTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCggg                                                                                  <  2:618329/139‑1 (MQ=255)
                                   tCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCa                                                                                                                   <  1:1149979/104‑1 (MQ=255)
                                   tCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCa                                                                                                                   >  2:1149979/1‑104 (MQ=255)
                                     aTCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTgg                                                                                                >  2:649123/1‑121 (MQ=255)
                                     aTCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTgg                                                                                                <  1:649123/121‑1 (MQ=255)
                                      tCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGc                                                                             >  1:476483/1‑139 (MQ=255)
                                           tgAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTgg                                                                                                >  1:1071525/1‑115 (MQ=255)
                                           tgAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTgg                                                                                                <  2:1071525/115‑1 (MQ=255)
                                           tgAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGcc                                                                        >  1:648899/1‑139 (MQ=255)
                                           tgAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGcc                                                                        <  2:1097010/139‑1 (MQ=255)
                                             aaGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCa                                                                                                                   >  1:1034883/1‑94 (MQ=255)
                                             aaGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCa                                                                                                                   <  2:1034883/94‑1 (MQ=255)
                                                cgcATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATaaaa                                                                                                          >  1:780997/1‑100 (MQ=255)
                                                cgcATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATaaaa                                                                                                          <  2:780997/100‑1 (MQ=255)
                                                    ttGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCGAATTCGGGCTTGCCAGCC‑TTTTTTTGt                                                              <  2:855018/139‑1 (MQ=255)
                                                     tGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGAGTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCTGCC‑TTTTTTTAtc                                                             >  2:945420/1‑139 (MQ=255)
                                                     tGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGtc                                                             >  1:1100990/1‑139 (MQ=255)
                                                            gTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGt                                                              <  1:742653/131‑1 (MQ=255)
                                                            gTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGt                                                              >  2:742653/1‑131 (MQ=255)
                                                            gTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTaa                                                      >  2:1420769/1‑139 (MQ=255)
                                                               cTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCCTTTTTTTTGTCTCGCTAAGt                                                    <  2:1342661/139‑1 (MQ=255)
                                                               cTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGtt                                                   <  1:143490/139‑1 (MQ=255)
                                                                 gACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAg                                                 >  2:96585/1‑139 (MQ=255)
                                                                   ctctGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGAt                                               <  1:96585/139‑1 (MQ=255)
                                                                       ggCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTgg                                                                                                <  2:1326493/87‑1 (MQ=255)
                                                                       ggCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTgg                                                                                                >  1:1326493/1‑87 (MQ=255)
                                                                       ggCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCg                                           >  1:182000/1‑139 (MQ=255)
                                                                         cgcTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCGGa                                         <  1:1420769/139‑1 (MQ=255)
                                                                          gcTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATACTGACCTCGCGCAAAATGGACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCAGAt                                        <  2:919619/139‑1 (MQ=255)
                                                                          gcTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCGGAt                                        <  2:1100990/139‑1 (MQ=255)
                                                                          gcTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCGGAt                                        <  2:648899/139‑1 (MQ=255)
                                                                          gcTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGACAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCGGAt                                        <  2:182000/139‑1 (MQ=255)
                                                                                          tCTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCGGATCGGGCTTGCCCttatt                        >  2:557975/1‑139 (MQ=255)
                                                                                           cTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCGGATCGGGCTTGc                               <  2:114042/131‑1 (MQ=255)
                                                                                           cTGGTATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCGGATCGGGCTTGc                               >  1:114042/1‑131 (MQ=255)
                                                                                               tATGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCGGATCGGGCTTGCCCTTATTAAggg                   <  2:185660/139‑1 (MQ=255)
                                                                                                aTGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCGGATCGGGCTTGCCCTTATTAAgggg                  <  2:476483/139‑1 (MQ=255)
                                                                                                 tGCAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCGGATCGGGCTTGCCCTTATTAAGGGgt                 <  1:945420/139‑1 (MQ=255)
                                                                                                   cAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTgg                                                                                                >  1:1190342/1‑59 (MQ=255)
                                                                                                   cAGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTgg                                                                                                <  2:1190342/59‑1 (MQ=255)
                                                                                                    aGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAggg                                                                                                    <  1:905457/54‑1 (MQ=255)
                                                                                                    aGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAggg                                                                                                    >  2:905457/1‑54 (MQ=255)
                                                                                                    aGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGc                                                                             >  2:1103491/1‑77 (MQ=255)
                                                                                                    aGGTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGc                                                                             <  1:1103491/77‑1 (MQ=255)
                                                                                                     ggTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAg                                                                                             >  1:682939/1‑60 (MQ=255)
                                                                                                     ggTTGTGACTGCAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAg                                                                                             <  2:682939/60‑1 (MQ=255)
                                                                                                        tgtgACTGCAAAATAATGACCTCGCGCAAAATGCa                                                                                                                   >  1:81020/1‑35 (MQ=255)
                                                                                                        tgtgACTGCAAAATAATGACCTCGCGCAAAATGCa                                                                                                                   <  2:81020/35‑1 (MQ=255)
                                                                                                                cAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAg                                                                          >  2:463999/1‑68 (MQ=255)
                                                                                                                cAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAg                                                                          <  1:463999/68‑1 (MQ=255)
                                                                                                                cAAAATAATGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCGGATCGGGCTTGCCCTTATTAAGGGGTGTTGTAAGGGGAtgg  <  1:1065142/139‑1 (MQ=255)
                                                                                                                       |                                                                                                                                    
GAGATTCCTGACAACGTAATTGCCGATCTGGACATTCATCCTGTGAAGCGCATTGAGGAAGTTCTGACTCTGGCGCTGCAAAATGAACCGTCTGGTATGCAGGTTGTGACTGCAAAATAGTGACCTCGCGCAAAATGCACTAATAAAAACAGGGCTGGCAGGCTAATTCGGGCTTGCCAGCC‑TTTTTTTGTCTCGCTAAGTTAGATGGCGGATCGGGCTTGCCCTTATTAAGGGGTGTTGTAAGGGGATGG  >  NC_000913/461123‑461373

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A