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
A11 F1 I1 R1 21 62.2 4089897 94.3% 3856772 75.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA REL606 4,212,474 Δ1 bp intergenic (‑310/‑215) lysC ← / → pgi aspartate kinase III/glucose‑6‑phosphate isomerase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*REL6064,212,4720T.100.0% 309.1 / NA 62intergenic (‑308/‑217)lysC/pgiaspartate kinase III/glucose‑6‑phosphate isomerase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (39/23);  total (39/23)

TCACAGGACTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACATTTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGATTTTTCATCCACTCCTGGCG  >  REL606/4212397‑4212542
                                                                           |                                                                      
tCACAGGACTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACAt                                                                        >  2:1808254/1‑76 (MQ=255)
tCACAGGACTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACAt                                                                        <  1:1630461/76‑1 (MQ=255)
tCACAGGACTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACAt                                                                        <  1:1439192/76‑1 (MQ=255)
tCACAGGACTGGCGTCTCCCACACCGTTACTTGGGCAACGGTCGTCTTCTGGCCAGCGCTAGCGCAGATAGTACAt                                                                        <  2:41409/76‑1 (MQ=255)
 cacaGGACTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACAtt                                                                       <  1:836946/76‑1 (MQ=255)
  acaGGACTGGCTCCTCCAACACGGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACAtta                                                                      <  2:1377013/76‑2 (MQ=255)
  acaGGACTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACAtta                                                                      <  2:1393528/76‑2 (MQ=255)
   caGGACTGGCTCCTCCAACACCGTTACTTGGGCAACGCTCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACAttat                                                                     <  1:1712387/76‑3 (MQ=255)
   caGGACTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCCGGTAGTACAttat                                                                     >  2:959431/1‑74 (MQ=255)
   caGGACTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACAttat                                                                     >  2:1851949/1‑74 (MQ=255)
    aGGACTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACAttata                                                                    <  2:917113/76‑4 (MQ=255)
    aGGACTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACAttata                                                                    >  1:486115/1‑73 (MQ=255)
      gACTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTataaa                                                                 <  1:1650580/76‑1 (MQ=255)
       aCTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTataaat                                                                <  1:1065907/76‑1 (MQ=255)
        cTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTataaata                                                               <  2:245536/76‑1 (MQ=255)
        cTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTataaata                                                               <  1:275526/76‑1 (MQ=255)
        cTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGCAGTACA‑TTataaata                                                               >  2:413068/1‑76 (MQ=255)
         tGGCTCCTCCAACACCGTTAGTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGTGCAGGTAGTACA‑TTataaataa                                                              >  2:160400/1‑76 (MQ=255)
         tGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTataaataa                                                              <  1:1293911/76‑1 (MQ=255)
          ggCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTAtaaataaa                                                             >  2:973502/1‑76 (MQ=255)
           gCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGTGCTAGCGCAGGTAGTACA‑TTATAAATAAAg                                                            <  2:619372/76‑1 (MQ=255)
            ctcctcCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAgg                                                           <  1:823499/76‑1 (MQ=255)
              cctccAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGt                                                         <  2:1141893/76‑1 (MQ=255)
              cctccAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGt                                                         >  2:1854697/1‑76 (MQ=255)
              cctccAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGt                                                         >  2:200648/1‑76 (MQ=255)
              cctccAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGt                                                         >  2:382822/1‑76 (MQ=255)
               ctccAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTg                                                        <  2:1708161/76‑1 (MQ=255)
               ctccAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTg                                                        >  2:209008/1‑76 (MQ=255)
               ctccAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTg                                                        >  1:880583/1‑76 (MQ=255)
               ctccAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTg                                                        <  1:1087978/76‑1 (MQ=255)
                   aacaacGATACTTGGGAAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCg                                                    <  1:29208/76‑1 (MQ=255)
                     cacCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCggg                                                  >  2:1384983/1‑76 (MQ=255)
                       ccNTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTTAGCGCNGc                                                <  2:1673090/76‑1 (MQ=255)
                        cGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCg                                               >  2:643094/1‑76 (MQ=255)
                         gTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCgg                                              >  1:364540/1‑76 (MQ=255)
                         gTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCgg                                              <  2:739942/76‑1 (MQ=255)
                           tACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGCCGGtt                                            <  1:1916954/76‑1 (MQ=255)
                               tGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCa                                        >  1:602428/1‑76 (MQ=255)
                                gggCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCaa                                       <  1:1334079/76‑1 (MQ=255)
                                  gCAACGCGCCTCTTNTGGCCTGCGCTAGCGCAGGTAGTACA‑TGATAAATAAAGGGTGAGCTGGTCGGTTGTCAACg                                     <  1:1747243/76‑1 (MQ=255)
                                   cAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGa                                    <  2:1047035/76‑1 (MQ=255)
                                    aaCGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGAt                                   >  1:1002649/1‑76 (MQ=255)
                                    aaCGCGACTCNTCCGTCCTGCNCTAGCGCAGGGAGTACA‑TTATAAATAAAGAGTGAGCGGGGCGGTTGTCAACGAt                                   >  2:2000907/1‑76 (MQ=255)
                                     aCGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATg                                  <  2:220898/76‑1 (MQ=255)
                                      cgcgCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATNAATAAAGGGTGAGCGGGGNGGNTGTCAACGATgg                                 >  1:1667487/1‑76 (MQ=255)
                                      cgcgCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGAAgg                                 >  1:377436/1‑76 (MQ=255)
                                       gcgcCTCTTCTGGCCTGCGCTAGCGCAGGCAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAAAGAAggg                                >  2:990584/1‑76 (MQ=255)
                                          ccTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTc                             <  2:375434/76‑1 (MQ=255)
                                          ccTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTc                             >  2:1516155/1‑76 (MQ=255)
                                          ccTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTc                             <  2:1711228/76‑1 (MQ=255)
                                          ccTCTTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTc                             <  2:1678442/76‑1 (MQ=255)
                                           ctctTCTGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCa                            >  1:833176/1‑76 (MQ=255)
                                            tcttctGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCAt                           <  2:1405199/76‑1 (MQ=255)
                                             cttctGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATg                          >  1:763013/1‑76 (MQ=255)
                                               tctGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCg                        >  1:455018/1‑76 (MQ=255)
                                               tctGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCg                        >  2:837838/1‑76 (MQ=255)
                                                ctGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCgg                       >  2:1123420/1‑76 (MQ=255)
                                                 tGGCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGa                      >  2:1055807/1‑76 (MQ=255)
                                                  ngCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGNGTGAGCGGGGCGGTTGTCTACGATGGGGTCATGCGGAt                     >  1:1996544/2‑76 (MQ=255)
                                                  ggCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGAt                     >  2:1040192/1‑76 (MQ=255)
                                                  ggCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGAt                     >  1:1265367/1‑76 (MQ=255)
                                                  ggCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGAt                     >  2:754212/1‑76 (MQ=255)
                                                  ggCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGAGTCATGCGGAt                     >  1:1522442/1‑76 (MQ=255)
                                                  ggCCTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTCTCAACGATGGGGTCATGCGGAt                     >  2:179896/1‑76 (MQ=255)
                                                    ccTGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGAttt                   >  2:532901/1‑76 (MQ=255)
                                                      tGCGCTAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGAttttt                 >  2:941272/1‑76 (MQ=255)
                                                       gcgcTAGCGCAGGTAGTACA‑TTATAAATAAAGGGAGAGCGGGGCGGTTGTCAACGCTGGGGGCATGCGGATTTTTc                >  2:582609/1‑76 (MQ=255)
                                                           tAGCGCAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGATTTTTCATcc            >  1:1530157/1‑76 (MQ=255)
                                                            aGCGCAGGTAGTACA‑TTACAANTANAGGGTGAGCGGGGCGGTTGTCNACGATGGNGNCATGCGGATTTTTCATCCa           >  2:301489/1‑76 (MQ=255)
                                                              cgcAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGATTTTTCATCCACt         >  2:1421459/1‑76 (MQ=255)
                                                              cgcAGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCAGATTTTTCATCCACt         >  1:1681124/1‑76 (MQ=255)
                                                                 aGGTAGTACA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGATTTTTCATCCACTCCt      <  1:271903/76‑1 (MQ=255)
                                                                   gtagtaCA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGATTTTTCATCCACTCCTgg    >  2:500949/1‑76 (MQ=255)
                                                                    tagtaCA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGATTTTTCATCCACTCCTGGc   >  2:928464/1‑76 (MQ=255)
                                                                     agtaCA‑TTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGATTTTTCATCCACTCCTggtg  >  1:900309/1‑74 (MQ=255)
                                                                           |                                                                      
TCACAGGACTGGCTCCTCCAACACCGTTACTTGGGCAACGCGCCTCTTCTGGCCTGCGCTAGCGCAGGTAGTACATTTATAAATAAAGGGTGAGCGGGGCGGTTGTCAACGATGGGGTCATGCGGATTTTTCATCCACTCCTGGCG  >  REL606/4212397‑4212542

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A