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 F1 I1 R1 773 79.9 4112934 92.2% 3792125 104.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 411,297 C→T *395* (TAG→TAA)  araJ ← L‑arabinose‑inducible putative transporter, MFS family

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913411,2970CT100.0% 172.1 / NA 53*395* (TAG→TAA) araJL‑arabinose‑inducible putative transporter, MFS family
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (29/24);  total (29/24)

CGATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACCTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGAAAGCAGGGCGGCAGGCAGCGCCACGTAATTA  >  NC_000913/411176‑411420
                                                                                                                         |                                                                                                                           
cGATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGc                                                                                                            <  2:966926/139‑1 (MQ=255)
              aCGCTTGCCGCGTCTTATCAGGCCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTAt                                                                                              >  2:1403763/1‑139 (MQ=255)
                        cgTCTTATCAGGCCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCAcc                                                                                                     <  1:570516/122‑1 (MQ=255)
                        cgTCTTATCAGGCCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCAcc                                                                                                     >  2:570516/1‑122 (MQ=255)
                          tCTTATCAGGCCTACAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCt                                                                                  >  1:1744511/1‑139 (MQ=255)
                                   gCCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTtat                                                                         >  2:1906079/1‑139 (MQ=255)
                                    ccTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATccg                                                                                           >  1:307563/1‑120 (MQ=255)
                                    ccTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATccg                                                                                           <  2:307563/120‑1 (MQ=255)
                                      tacAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGc                                                                      <  2:1744511/137‑1 (MQ=255)
                                      tGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGc                                                                      <  1:1906079/139‑1 (MQ=255)
                                        cAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCGCCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGa                                                                    >  2:1243383/1‑139 (MQ=255)
                                             tgtgCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCt                                                                                  >  2:335613/1‑120 (MQ=255)
                                             tgtgCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCt                                                                                  <  1:335613/120‑1 (MQ=255)
                                                  caaaaCCGCGTTGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATAcagca                                                          >  1:1193702/4‑139 (MQ=255)
                                                  cAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATAcagca                                                          <  1:1243383/139‑1 (MQ=255)
                                                          cgTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAacgac                                                  >  1:878388/1‑139 (MQ=255)
                                                                  ggATAAGGCGTTCACGCCGCATCCGACAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCgc                                          >  2:41218/1‑139 (MQ=255)
                                                                   gATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTg                                                                                    <  2:506934/96‑1 (MQ=255)
                                                                   gATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTg                                                                                    >  1:506934/1‑96 (MQ=255)
                                                                    aTAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCgcag                                        >  2:553593/1‑139 (MQ=255)
                                                                    aTAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCgcag                                        <  1:1403763/139‑1 (MQ=255)
                                                                    aTAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCgcag                                        <  1:553593/139‑1 (MQ=255)
                                                                             tCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGaaa                               >  2:1044382/1‑139 (MQ=255)
                                                                             tCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGaaa                               >  2:1074202/1‑139 (MQ=255)
                                                                              cACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCa                                                                                                                      <  1:1630785/51‑1 (MQ=255)
                                                                              cACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCa                                                                                                                      >  2:1630785/1‑51 (MQ=255)
                                                                              cACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCt                                                                                  <  1:1941256/87‑1 (MQ=255)
                                                                              cACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCt                                                                                  >  2:1941256/1‑87 (MQ=255)
                                                                                   cgcATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAg                                                                       <  1:330357/93‑1 (MQ=255)
                                                                                   cgcATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAg                                                                       >  2:330357/1‑93 (MQ=255)
                                                                                     cATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGAAAGCAGggcg                       <  1:1074202/139‑1 (MQ=255)
                                                                                     cATCCGGCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGAAAGCAGggcg                       <  1:1044382/139‑1 (MQ=255)
                                                                                           gCAATAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGAAAGCAGGGCggcaggc                 >  2:739176/1‑139 (MQ=255)
                                                                                               tAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATAcagca                                                          <  1:478719/94‑1 (MQ=255)
                                                                                               tAAGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATAcagca                                                          >  2:478719/1‑94 (MQ=255)
                                                                                                aaGTAATGAGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGAAAGCAGGGCGGCAGGCAgcgc            <  1:739176/139‑1 (MQ=255)
                                                                                                        aGCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCATCAAACGAAAGCAGGGCGGCAGGCAGCGCCACGTAAt    >  2:1294387/1‑139 (MQ=255)
                                                                                                         gCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAacga                                                   <  1:422577/91‑1 (MQ=255)
                                                                                                         gCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAacga                                                   >  2:422577/1‑91 (MQ=255)
                                                                                                         gCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGAAAGCAGGGCggcaggc                 >  1:823612/1‑125 (MQ=255)
                                                                                                         gCACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGAAAGCAGGGCggcaggc                 <  2:823612/125‑1 (MQ=255)
                                                                                                          cACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCt                                                                                  <  1:621197/59‑1 (MQ=255)
                                                                                                          cACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCt                                                                                  >  2:621197/1‑59 (MQ=255)
                                                                                                          cACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCgcag                                        <  1:890056/101‑1 (MQ=255)
                                                                                                          cACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCgcag                                        >  2:890056/1‑101 (MQ=255)
                                                                                                          cACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGAAAGCAGGGCGGCAGGCAGCGCCACGTAATta  >  1:236409/1‑139 (MQ=255)
                                                                                                          cACCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGAAAGCAGGGCGGCAGGCAGCGCCACGTAATta  >  2:1902448/1‑139 (MQ=255)
                                                                                                           aCCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGAAAGCAGGGCGGCAGGCAgcg             <  1:1531678/127‑1 (MQ=255)
                                                                                                           aCCGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGAAAGCAGGGCGGCAGGCAgcg             >  2:1531678/1‑127 (MQ=255)
                                                                                                             cGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGa                                                                    >  2:541114/1‑70 (MQ=255)
                                                                                                             cGAGACTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGa                                                                    <  1:541114/70‑1 (MQ=255)
                                                                                                                  cTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCt                                                                                  >  2:33283/1‑51 (MQ=255)
                                                                                                                  cTATAACTTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCt                                                                                  <  1:33283/51‑1 (MQ=255)
                                                                                                                         |                                                                                                                           
CGATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTGCAAAATGTGCCAGAACCGCGTAGGGCGGATAAGGCGTTCACGCCGCATCCGGCAATAAGTAATGAGCACCGAGACTATAACCTACCCCAGTGGTTTCGCCAGCACCGGAGTATCCGCCGCTTGCTGGCGCTTATAGCGACCATACAGCAGCAACGACGACATCGCAGCAAACGAAAGCAGGGCGGCAGGCAGCGCCACGTAATTA  >  NC_000913/411176‑411420

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A