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
A71 F1 I1 R1 18 59.4 3821164 95.9% 3664496 75.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA REL606 1,886,235 C→A intergenic (‑65/+604) yobF ← / ← yebO hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*REL6061,886,2350CA94.7% 268.4 / 4.5 76intergenic (‑65/+604)yobF/yebOhypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (2/2);  new base A (38/34);  total (40/36)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACTTTTTTTGCACACTTATGCAAC  >  REL606/1886163‑1886307
                                                                        |                                                                        
ccACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAAtt                                                                       >  1:150258/1‑76 (MQ=255)
ccACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAAtt                                                                       >  1:1433806/1‑76 (MQ=255)
    acaTAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTa                                                                   <  2:1352265/76‑1 (MQ=255)
     caTAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTaa                                                                  <  1:850277/76‑1 (MQ=255)
      aTAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTaaa                                                                 >  1:1165746/1‑76 (MQ=255)
      aTAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTaaa                                                                 <  1:665589/76‑1 (MQ=255)
       tAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAAc                                                                >  2:1390804/1‑76 (MQ=255)
       tAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAAc                                                                >  2:635862/1‑76 (MQ=255)
        aaaCAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACa                                                               >  2:293763/1‑76 (MQ=255)
        aaaCAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACa                                                               <  2:373861/76‑1 (MQ=255)
         aaCAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACAt                                                              >  2:1771103/1‑76 (MQ=255)
         aaCAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACAt                                                              <  2:403365/76‑1 (MQ=255)
         aaCAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTAAGGCAAGCAATTTTTAAACAt                                                              <  2:403369/76‑1 (MQ=255)
           cAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGt                                                            >  2:1268294/1‑76 (MQ=255)
            aGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGtc                                                           >  1:1440871/1‑76 (MQ=255)
            aGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGtc                                                           >  2:1570474/1‑76 (MQ=255)
             gAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGtct                                                          <  1:639803/76‑1 (MQ=255)
             gAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGtct                                                          <  1:1792132/76‑1 (MQ=255)
              aaCTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGtctc                                                         <  2:517532/76‑1 (MQ=255)
              aaCTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGtctc                                                         <  2:517541/76‑1 (MQ=255)
              aaCTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGtctc                                                         >  1:65322/1‑76 (MQ=255)
               aCTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCg                                                        <  1:1720031/76‑1 (MQ=255)
                 tGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACCTTAATTATGGCAAGCCATTTTTAAACATGTCTCGAt                                                      <  1:1224757/76‑1 (MQ=255)
                  gTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATc                                                     <  1:482284/76‑1 (MQ=255)
                  gTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATc                                                     <  1:1728968/76‑1 (MQ=255)
                  gTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATc                                                     >  2:1071954/1‑76 (MQ=255)
                   tACCTCGTTTAACCCGAAATCTGTTATCACATACCACGTTAATTATGGCAAGCCATTTTTACACATGTCTCGATCa                                                    >  2:331944/1‑76 (MQ=255)
                   tACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCa                                                    <  1:1271931/76‑1 (MQ=255)
                    aCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAg                                                   <  1:1427675/76‑1 (MQ=255)
                    aCCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAg                                                   >  1:174497/1‑76 (MQ=255)
                     ccTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGa                                                  <  2:250638/76‑1 (MQ=255)
                     ccTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGa                                                  <  2:450960/76‑1 (MQ=255)
                     ccTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGa                                                  >  1:276442/1‑76 (MQ=255)
                      cTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACAt                                                              <  2:775071/63‑1 (MQ=255)
                      cTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACAt                                                              >  1:775071/1‑63 (MQ=255)
                       tCGTTTAACCCGAGATCTGTTGTCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACg                                                <  2:1593822/76‑1 (MQ=255)
                         gTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGca                                              >  1:458735/1‑76 (MQ=255)
                          tttAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGcac                                             >  2:1473577/1‑76 (MQ=255)
                          tttAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGcac                                             >  2:1344782/1‑76 (MQ=255)
                           ttAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGcaca                                            >  1:1075880/1‑76 (MQ=255)
                            tAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACaa                                           >  2:1754709/1‑76 (MQ=255)
                              aCCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAAt                                         <  1:994647/76‑1 (MQ=255)
                                  gAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCg                                     >  2:1601069/1‑76 (MQ=255)
                                  gAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCg                                     <  1:1268294/76‑1 (MQ=255)
                                  gAAATCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCg                                     <  1:850282/76‑1 (MQ=255)
                                    aaTCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGAt                                   >  2:27653/1‑76 (MQ=255)
                                     aTCTGTTATCACATGCAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATa                                  <  2:332931/76‑1 (MQ=255)
                                     aTCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATa                                  >  2:886140/1‑76 (MQ=255)
                                      tCTGTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATAc                                 >  2:1139441/1‑76 (MQ=255)
                                         gTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTc                              >  1:1704654/1‑76 (MQ=255)
                                         gTTATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTc                              >  1:1704666/1‑76 (MQ=255)
                                          ttATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCt                             >  2:24654/1‑76 (MQ=255)
                                           tATCACATACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCtt                            >  2:234217/1‑76 (MQ=255)
                                              cacaTACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGTCGCACAAATCTCGATACGTCTTCCa                         <  1:1290444/76‑1 (MQ=255)
                                              cacaTACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCa                         <  1:1290449/76‑1 (MQ=255)
                                               acaTACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCAc                        >  2:1602606/1‑76 (MQ=255)
                                                caTACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACt                       <  1:1008033/76‑1 (MQ=255)
                                                caTACAACGTTAATTATGGCAAGCAATTTCTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACt                       <  1:1008052/76‑1 (MQ=255)
                                                 aTACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACtt                      >  2:643451/1‑76 (MQ=255)
                                                 aTACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACtt                      <  1:924759/76‑1 (MQ=255)
                                                 aTACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACtt                      <  1:924745/76‑1 (MQ=255)
                                                  tACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACttt                     >  2:1229815/1‑76 (MQ=255)
                                                  tACAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACttt                     <  1:44748/76‑1 (MQ=255)
                                                    cAACGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACttttt                   >  1:288530/1‑76 (MQ=255)
                                                      aCGTTAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACttttttt                 >  2:1885479/1‑76 (MQ=255)
                                                          tAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACTTTTTTTGcac             >  1:1606798/1‑76 (MQ=255)
                                                          tAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACTTTTTTTGcac             >  1:1406565/1‑76 (MQ=255)
                                                          tAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACTTTTTTTGcac             <  1:624018/76‑1 (MQ=255)
                                                          tAATTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACTTTTTTTGcac             <  1:1904876/76‑1 (MQ=255)
                                                           aaTTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACTTTTTTTGcaca            <  1:710218/76‑1 (MQ=255)
                                                           aaTTATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACTTTTTTTGcaca            >  1:1116018/1‑76 (MQ=255)
                                                             ttATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACTTTTTTTGCACACt          >  2:413774/1‑76 (MQ=255)
                                                             ttATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACTTTTTTTGCACACt          >  2:207736/1‑76 (MQ=255)
                                                              tATGGCAAGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACTTTTTTTGTACACtt         <  1:1602606/76‑1 (MQ=255)
                                                                    aaGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACTTTTTTTGCACACTTATGCaa   >  1:1549697/1‑76 (MQ=255)
                                                                     aGCAATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACTTTTTTTGCACACTTATGCAAc  <  1:522894/76‑1 (MQ=255)
                                                                        |                                                                        
CCACACATAAACAGAACTGTACCTCGTTTAACCCGAAATCTGTTATCACATACAACGTTAATTATGGCAAGCCATTTTTAAACATGTCTCGATCAGACGCACAAATCTCGATACGTCTTCCACTTTTTTTGCACACTTATGCAAC  >  REL606/1886163‑1886307

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A