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
A3 F1 I2 R1 777 59.2 2955938 92.5% 2734242 106.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,240,984 (G)7→8 coding (1041/1245 nt) sstT → sodium:serine/threonine symporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,240,9771.G95.3% 144.7 / ‑0.1 43coding (1034/1245 nt)sstTsodium:serine/threonine symporter
Reads supporting (aligned to +/- strand):  ref base . (1/1);  new base G (18/23);  total (19/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01

TATGGCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAACCG  >  NC_000913/3240840‑3241099
                                                                                                                                          |                                                                                                                           
tatGGCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑g                                                                                                                            <  2:1130708/139‑1 (MQ=255)
   ggcgggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑g                                                                                                                        <  1:50631/139‑1 (MQ=255)
   ggcgggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑g                                                                                                                        <  1:14497/139‑1 (MQ=255)
     cgggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCCCGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑ggg                                                                                                                      >  2:1233940/1‑139 (MQ=255)
       ggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑ggggg                                                                                                                    >  2:247451/1‑138 (MQ=255)
       ggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑ggggg                                                                                                                    >  1:1462678/1‑138 (MQ=255)
        gcgcAGCAATGACCATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑gggggg                                                                                                                   >  1:986263/1‑137 (MQ=255)
        gcgcAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑gggggt                                                                                                                   <  1:1233940/139‑3 (MQ=255)
                  cACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTctgctgct                                                                                                          <  1:247451/139‑1 (MQ=255)
                        tACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGATGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑GGGCGGGGTCTCTGCTGCTGATccc                                                                                                    >  1:858333/1‑139 (MQ=255)
                         aCCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCa                                                                                                   <  1:782047/139‑1 (MQ=255)
                          ccGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCCCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCAc                                                                                                  <  2:814535/139‑1 (MQ=255)
                           cGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACt                                                                                                 >  1:502819/1‑139 (MQ=255)
                            gtgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTg                                                                                                <  2:502819/139‑1 (MQ=255)
                            gtgtTGACGCT‑GCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTgg                                                                                               <  2:1130147/139‑1 (MQ=255)
                             tgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTgg                                                                                               >  1:120296/1‑139 (MQ=255)
                             tgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTgg                                                                                               >  1:257077/1‑139 (MQ=255)
                             tgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑g                                                                                                                        >  2:424737/1‑113 (MQ=255)
                             tgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑g                                                                                                                        <  1:424737/113‑1 (MQ=255)
                              gtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGc                                                                                              <  2:257077/139‑1 (MQ=255)
                              gtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑GGGTGGGGTCTCTGCTGCTGATCCCACTGGc                                                                                              <  2:950981/139‑1 (MQ=255)
                               ttGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGc                                                                                              <  2:719769/138‑1 (MQ=255)
                               ttGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGc                                                                                              >  1:719769/1‑138 (MQ=255)
                                  aCGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGt                                                                                          >  2:1298366/1‑139 (MQ=255)
                                   cGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTa                                                                                         <  2:120296/139‑1 (MQ=255)
                                   cGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCAATGGCCTGTa                                                                                         <  2:986263/139‑1 (MQ=255)
                                      tggctgCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTctgctgct                                                                                                          <  1:742506/119‑1 (MQ=255)
                                      tggctgCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTctgctgct                                                                                                          >  2:742506/1‑119 (MQ=255)
                                         ctgCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑gggggtctc                                                                                                                >  1:1035603/1‑104 (MQ=255)
                                         ctgCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑gggggtctc                                                                                                                <  2:1035603/109‑6 (MQ=255)
                                           gCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTc                                                                                 <  1:1298366/139‑1 (MQ=255)
                                                     cGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCCGCTGATCCCACTGGCCTGT‑ATATGTTCGGTATTTCGaa                                                                      <  1:520012/139‑1 (MQ=255)
                                                        tGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACg                                                                    >  2:1140267/1‑139 (MQ=255)
                                                             aTTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTc                                                                                 >  1:897391/1‑121 (MQ=255)
                                                             aTTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTc                                                                                 <  2:897391/121‑1 (MQ=255)
                                                                ccGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGcc                                                            <  2:1242260/139‑1 (MQ=255)
                                                                             ccACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTg                                               >  2:856030/1‑139 (MQ=255)
                                                                                cGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACt                                                                                                 >  2:347521/1‑86 (MQ=255)
                                                                                cGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACt                                                                                                 <  1:347521/86‑1 (MQ=255)
                                                                                  gcgcTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTc                                          <  1:1140267/139‑1 (MQ=255)
                                                                                  gcgcTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTc                                          <  1:361318/139‑1 (MQ=255)
                                                                                  gcgcTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑gggggt                                                                                                                   <  2:137698/65‑3 (MQ=255)
                                                                                  gcgcTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑gggggt                                                                                                                   >  1:137698/1‑63 (MQ=255)
                                                                                                  tggtggCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑g                                                                                                                        >  2:1204227/1‑44 (MQ=255)
                                                                                                  tggtggCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑ggg‑g                                                                                                                        <  1:1204227/44‑1 (MQ=255)
                                                                                                          tctcTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCg                                            >  2:1282153/1‑113 (MQ=255)
                                                                                                          tctcTGTGTGCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCg                                            <  1:1282153/113‑1 (MQ=255)
                                                                                                              tgtgtgCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGt                                                                              >  1:788626/1‑75 (MQ=255)
                                                                                                              tgtgtgCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGt                                                                              <  2:788626/75‑1 (MQ=255)
                                                                                                                 gtgCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCa                                                                                                   <  2:916899/51‑1 (MQ=255)
                                                                                                                 atgCCTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCa                                                                                                   >  1:916899/2‑51 (MQ=255)
                                                                                                                    ccTGTGGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCg        >  1:1380635/1‑139 (MQ=255)
                                                                                                                        tgGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATg                                                                                    <  1:511461/59‑1 (MQ=255)
                                                                                                                        tgGCGCATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATg                                                                                    >  2:511461/1‑59 (MQ=255)
                                                                                                                          gcgcATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAACcg  >  1:1178622/1‑139 (MQ=255)
                                                                                                                             cATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTg                                                                                                >  1:1218095/1‑42 (MQ=255)
                                                                                                                             cATCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTg                                                                                                <  2:1218095/42‑1 (MQ=38)
                                                                                                                               tCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCg                             <  1:481452/107‑1 (MQ=255)
                                                                                                                               tCCGGCGTGGCGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCg                             >  2:481452/1‑107 (MQ=255)
                                                                                                                                          |                                                                                                                           
TATGGCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAACCG  >  NC_000913/3240840‑3241099

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A