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
A14 F1 I1 R1 770 68.5 3470224 91.7% 3182195 103.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 889,215 A→G L202P (CTG→CCG)  ybjL ← putative transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913889,2150AG94.3% 167.3 / ‑0.4 53L202P (CTG→CCG) ybjLputative transporter
Reads supporting (aligned to +/- strand):  ref base A (1/2);  new base G (24/26);  total (25/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.42e-01

ATGTAGCAGCCGGTTTGTCGATAAATACCCAGTTCACGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCAGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAGACCGATTAAATAGGTTAAGGCATACCCGAGGCTCAGATT  >  NC_000913/889083‑889348
                                                                                                                                    |                                                                                                                                     
aTGTAGCAGCCGGTTTGTCGATAAATACCCAGTTCACGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCAc                                                                                                                                 >  1:1678997/1‑139 (MQ=255)
     gcagcCGGTTTGTCGATAAATACCCAGTTCACGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTcg                                                                                                                            >  1:594674/1‑139 (MQ=255)
         ccGGTTTGTCGATAAATACCCAGTTCACGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCggg                                                                                                                        >  2:986294/1‑139 (MQ=255)
           ggTTTGTCGATAAATACCCAGTTCACGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCg                                                                                                                      >  2:133643/1‑139 (MQ=255)
                      aaaTACCCAGTTCACGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGgc                                                                                                           <  1:133643/139‑1 (MQ=255)
                       aaTACCCAGTTCACGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGgcg                                                                                                          <  2:198146/139‑1 (MQ=255)
                       aaTACCCAGTTCACGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGgcg                                                                                                          <  1:1012939/139‑1 (MQ=255)
                           cccAGTTCACGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTgg                                                                                                      >  1:1557123/1‑139 (MQ=255)
                               gTTCACGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTg                                                                                                  <  1:1355919/139‑1 (MQ=255)
                                ttCACGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCTGGGCCACGTTcg                                                                                                                            <  1:439214/112‑1 (MQ=255)
                                ttCACGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTcg                                                                                                                            >  2:439214/1‑112 (MQ=255)
                                    cGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGt                                                                                             >  1:1459468/1‑139 (MQ=255)
                                    cGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGt                                                                                             >  1:261632/1‑139 (MQ=255)
                                                              caccaGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTaa                                                                   <  2:594674/139‑1 (MQ=255)
                                                                 caGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTcgc                                                                                                                           >  1:943861/1‑80 (MQ=255)
                                                                 caGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTcgc                                                                                                                           <  2:943861/80‑1 (MQ=255)
                                                                 caGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCAGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAAcgc                                                                >  2:250743/1‑139 (MQ=255)
                                                                  aGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAAcgcg                                                               <  2:1555918/139‑1 (MQ=255)
                                                                  aGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAAcgcg                                                               <  1:986294/139‑1 (MQ=255)
                                                                  aGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAAcgcg                                                               <  1:435925/139‑1 (MQ=255)
                                                                  aGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCAGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAAcgcg                                                               <  2:775467/139‑1 (MQ=255)
                                                                      ccGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCAcc                                                           <  2:1678997/139‑1 (MQ=255)
                                                                         ggCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACcaac                                                        >  2:1353717/1‑139 (MQ=255)
                                                                           ccGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACcaacaa                                                      <  2:1557123/139‑1 (MQ=255)
                                                                           ccGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACcaacaa                                                      <  1:477090/139‑1 (MQ=255)
                                                                              aCGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGt                                                                                                 >  2:1549927/1‑93 (MQ=255)
                                                                              aCGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGt                                                                                                 <  1:1549927/93‑1 (MQ=255)
                                                                                   aTAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAAtt                                                                              <  2:1625365/107‑1 (MQ=255)
                                                                                   aTAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAAtt                                                                              >  1:1625365/1‑107 (MQ=255)
                                                                                        cgctGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCaaa                                                 <  1:1121895/131‑1 (MQ=255)
                                                                                        cgcgGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCaaa                                                 >  2:1121895/1‑131 (MQ=255)
                                                                                            gATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGgcg                                                                                                          >  1:320352/1‑70 (MQ=255)
                                                                                            gATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGgcg                                                                                                          <  2:320352/70‑1 (MQ=255)
                                                                                            gATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACgcgc                                                              >  1:1198846/1‑114 (MQ=255)
                                                                                            gATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACgcgc                                                              <  2:1198846/114‑1 (MQ=255)
                                                                                                  cGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAAtt                                                                              <  1:1183382/92‑1 (MQ=255)
                                                                                                  cGGTAAATAAACCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAAtt                                                                              >  2:1183382/1‑92 (MQ=255)
                                                                                                  cGGTAAATAAACCTTACGGTTGGCATCAGTGTCCAGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAGACCGATTaaa                               <  1:250743/139‑1 (MQ=255)
                                                                                                           aaCCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAg                                         <  1:404786/120‑1 (MQ=255)
                                                                                                           aaCCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAg                                         >  2:404786/1‑120 (MQ=255)
                                                                                                            aCCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAGACCGa                                    >  2:1252211/1‑124 (MQ=255)
                                                                                                            aCCTTACGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAGACCGa                                    <  1:1252211/124‑1 (MQ=255)
                                                                                                                  cGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAAtt                                                                              >  2:1165605/1‑76 (MQ=255)
                                                                                                                  cGGTTGGCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAAtt                                                                              <  1:1165605/76‑1 (MQ=255)
                                                                                                                       ggCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAGACCGATTAAATAGGTTAAGGCATAccc              <  2:1149676/135‑1 (MQ=255)
                                                                                                                       ggCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAGACCGATTAAATAGGTTAAGGCATAccc              >  1:1149676/1‑135 (MQ=255)
                                                                                                                       ggCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAGACCGATTAAATAGGTTAAGGCATACCCGAgg          >  2:1300457/1‑139 (MQ=255)
                                                                                                                        gCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACcaacaa                                                      <  1:1710483/94‑1 (MQ=255)
                                                                                                                        gCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACcaacaa                                                      >  2:1710483/1‑94 (MQ=255)
                                                                                                                        gCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAGACCGATTAAATAGGTTAAGGCATACCCGAGGc         >  1:979596/1‑139 (MQ=255)
                                                                                                                        gCATCAGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAGACCGATTAAATAGGTTAAGGCATACCCGAGGc         <  1:1103356/139‑1 (MQ=255)
                                                                                                                             aGTGTCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAGACCGATTAAATAGGTTAAGGCATACCCGAGGCTCAGa    <  1:1300457/139‑1 (MQ=255)
                                                                                                                               tgtCCGGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAGACCGATTAAATAGGTTAAGGCATACCCGAGGCTCAGAtt  >  1:1599371/1‑139 (MQ=255)
                                                                                                                                    |                                                                                                                                     
ATGTAGCAGCCGGTTTGTCGATAAATACCCAGTTCACGCAGATTTTTGCCGTCGGTCCAGGCCACCAGTTCCGGGCCGACGCGATAGGCGCGGATCACCGGTAAATAAACCTTACGGTTGGCATCAGTGTCCAGGCCACGTTCGCGGGCGATTTGCTGGGCGCTGGTCTGTAAGTCCTGATGCTGCAATTTCGGCAAGTAACGCGCACCAACAATCAAACTCACCAGACCGATTAAATAGGTTAAGGCATACCCGAGGCTCAGATT  >  NC_000913/889083‑889348

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A