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
A1 F28 I1 R1 163 52.9 1786516 99.3% 1774010 139.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,479,086 G→A A414T (GCT→ACT)  dsdX → D‑serine transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,479,0860GA96.2% 171.8 / ‑4.1 53A414T (GCT→ACT) dsdXD‑serine transporter
Reads supporting (aligned to +/- strand):  ref base G (0/2);  new base A (18/33);  total (18/35)
Fisher's exact test for biased strand distribution p-value = 5.43e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.68e-01

CGGCAATTGTTGCACCCATGCTGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCAAAGAGACGTACTATGGAAAACGCTAAAATGAA  >  NC_000913/2478949‑2479221
                                                                                                                                         |                                                                                                                                       
cGGCAATTGTTGCACCCATGCTGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACt                                                                                                                                       >  1:87013/1‑140 (MQ=255)
 ggCAATTGTTGCACCCATGCTGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTa                                                                                                                                      >  1:313553/1‑140 (MQ=255)
   cAATTGTTGCACCCATGCTGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACg                                                                                                                                    <  2:313553/140‑1 (MQ=255)
   cAATTGTTGCACCCATGCCGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACg                                                                                                                                    <  1:797476/140‑1 (MQ=255)
           gCACCCATGCTGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGa                                                                                                                            <  2:878650/140‑1 (MQ=255)
           gCACCCATGCTGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGa                                                                                                                            <  1:96075/140‑1 (MQ=255)
            cACCCATGCTGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGaa                                                                                                                           >  1:647626/1‑140 (MQ=255)
             aCCCATGCTGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGaaa                                                                                                                          <  2:358775/140‑1 (MQ=255)
             aCCCATGCTGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGaaa                                                                                                                          <  2:277292/140‑1 (MQ=255)
             aCCCATGCTGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGaaa                                                                                                                          <  1:747982/140‑1 (MQ=255)
                 aTGCTGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGa                                                                                                                            >  2:805293/1‑134 (MQ=255)
                 aTGCTGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGa                                                                                                                            <  1:805293/134‑1 (MQ=255)
                  tgctgcCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACAttt                                                                                                                     <  1:41840/140‑1 (MQ=255)
                   gctgcCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTa                                                                                                                    <  1:871404/140‑1 (MQ=255)
                     tgcCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTaaa                                                                                                                  <  2:167284/140‑1 (MQ=255)
                     tgcCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTaaa                                                                                                                  <  1:584658/140‑1 (MQ=255)
                        cGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATAc                                                                                                               >  1:595694/1‑140 (MQ=255)
                             tATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATAc                                                                                                          <  1:874173/140‑1 (MQ=255)
                                  cGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAg                                                                                                     <  2:187654/140‑1 (MQ=255)
                                     cATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGa                                                                                                  <  1:317015/140‑1 (MQ=255)
                                      aTCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGAc                                                                                                 >  1:6216/1‑140 (MQ=255)
                                       tCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTaaa                                                                                                                  <  2:643893/122‑1 (MQ=255)
                                       tCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTaaa                                                                                                                  >  1:643893/1‑122 (MQ=255)
                                       tCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACa                                                                                                >  1:677995/1‑140 (MQ=255)
                                         aGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACAtt                                                                                              >  2:616680/1‑140 (MQ=255)
                                                   ttattGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCa                                                                                    <  1:616680/140‑1 (MQ=255)
                                                     attGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAgt                                                                                  <  1:643589/140‑1 (MQ=255)
                                                          gATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTc                                                                                     >  1:812688/1‑132 (MQ=255)
                                                          gATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGtcgtcg                                                                             <  2:592281/140‑1 (MQ=255)
                                                          gATTGCTATCGGTCCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTc                                                                                     <  2:812688/132‑1 (MQ=255)
                                                                 aTCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGc                                                                      <  2:289656/140‑1 (MQ=255)
                                                                    ggTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCggg                                                                   <  1:496122/140‑1 (MQ=255)
                                                                      ttCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGca                                                                 <  2:87013/140‑1 (MQ=255)
                                                                        cAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGcaca                                                               >  2:88402/1‑140 (MQ=255)
                                                                              cAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCctg                                                         <  1:864536/140‑1 (MQ=255)
                                                                               aaTTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCctgc                                                        <  2:731656/140‑1 (MQ=255)
                                                                                aTTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCctgct                                                       >  2:377725/1‑140 (MQ=255)
                                                                                  tGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGt                                                     <  2:717481/140‑1 (MQ=255)
                                                                                             tCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTatcatc                                          <  1:377725/140‑1 (MQ=255)
                                                                                                  aCGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAgc                                     >  2:747142/1‑140 (MQ=255)
                                                                                                     gACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCa                                  <  1:851311/140‑1 (MQ=255)
                                                                                                       cTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCaaa                                >  2:468134/1‑140 (MQ=255)
                                                                                                       cTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCaaa                                >  2:646740/1‑140 (MQ=255)
                                                                                                        tCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCAAag                               >  1:462366/1‑140 (MQ=255)
                                                                                                         cGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCAAaga                              <  2:6216/140‑1 (MQ=255)
                                                                                                         cGCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCAAaga                              >  2:747394/1‑140 (MQ=255)
                                                                                                          gCTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCAAagag                             <  2:677995/140‑1 (MQ=255)
                                                                                                           cTTTTCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCAAAgaga                            <  2:595694/140‑1 (MQ=255)
                                                                                                            ttttCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCAAAGAGAc                           <  2:441664/140‑1 (MQ=255)
                                                                                                            ttttCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCAAAGAGAc                           <  1:468134/140‑1 (MQ=255)
                                                                                                            ttttCTGGCTAGTGAAGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCAAAGAGAc                           <  1:572986/140‑1 (MQ=255)
                                                                                                                          aaGCAATATTGCGGCACTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCAAAGAGACGTACTATGGAAAAc             <  2:647626/140‑1 (MQ=255)
                                                                                                                                  ttGCGGCACTACGCTAAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCAAAGAGACGTACTATGGAAAACGCTAAAAt     >  2:98032/1‑140 (MQ=255)
                                                                                                                                     cggcaCTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGGTGTCATTTATCATCTAAGCGCAAAGAGACGTACTATGGAAAACGCTAAAATGaa  >  2:321888/1‑140 (MQ=255)
                                                                                                                                         |                                                                                                                                       
CGGCAATTGTTGCACCCATGCTGCCGCTGTATCCCGACATCAGCCCGGAAATTATTGCGATTGCTATCGGTTCAGGTGCAATTGGCTGCACTATCGTTACGGACTCGCTTTTCTGGCTAGTGAAGCAATATTGCGGCGCTACGCTCAATGAAACATTTAAATACTATACGACAGCGACATTTATCGCTTCAGTCGTCGCTCTGGCGGGCACATTCCTGCTGTCATTTATCATCTAAGCGCAAAGAGACGTACTATGGAAAACGCTAAAATGAA  >  NC_000913/2478949‑2479221

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A