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 F28 I1 R1 228 65.7 2434974 91.7% 2232871 138.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,853,608 (C)5→4 coding (372/1359 nt) ydjE ← putative transporter YdjE

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,853,6040C.100.0% 196.2 / NA 47coding (376/1359 nt)ydjEputative transporter YdjE
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (21/26);  total (21/26)

CGATAACCACCACGCCTATCGCCGCAGACAGCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCGCCCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTGCGCCGCCCAAAGTAGTC  >  NC_000913/1853469‑1853736
                                                                                                                                       |                                                                                                                                    
cGATAACCACCACGCCTATCGCCGCAGACAGCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCGcccca                                                                                                                                  <  2:188476/140‑2 (MQ=255)
 gATAACCACCACGCCTATCGCCGCAGACAGCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCGccccat                                                                                                                                 >  2:1017447/1‑138 (MQ=255)
   tAACCACCACGCCTATCGCCGCAGACAGCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCGccccattc                                                                                                                               >  1:1056297/1‑136 (MQ=255)
          cacGCCTATCGCCGCAGACAGCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCGccc                                                                                                                                    >  2:91011/1‑128 (MQ=255)
          cacGCCTATCGCCGCAGACAGCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCGccc                                                                                                                                    <  1:91011/128‑1 (MQ=255)
            cGCCTATCGCCGCAGACAGCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCa                                                                                                                     >  1:411160/1‑140 (MQ=255)
                  tCGCCGCAGACAGCATGGGCGACCAGTTACCAACAAATTAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGa                                                                                                               >  2:1112760/1‑140 (MQ=255)
                     ccgcAGACAGCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAgt                                                                                                            <  2:537748/140‑2 (MQ=255)
                       gcAGACAGCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGa                                                                                                          >  2:191389/1‑140 (MQ=255)
                              gCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAagaaga                                                                                                   <  1:830760/140‑1 (MQ=255)
                              gCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAagaaga                                                                                                   <  2:610342/140‑1 (MQ=255)
                              gCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAagaaga                                                                                                   <  1:80360/140‑1 (MQ=255)
                              gCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAagaaga                                                                                                   <  2:116656/140‑1 (MQ=255)
                               cATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGAt                                                                                                  >  2:742737/1‑140 (MQ=255)
                                   ggCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGc                                                                                              <  2:1085042/140‑1 (MQ=255)
                                   ggCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGc                                                                                              <  1:191389/140‑1 (MQ=255)
                                       aCCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGt                                                                                          >  2:544468/1‑140 (MQ=255)
                                        ccAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTa                                                                                         <  2:1155811/140‑1 (MQ=255)
                                                   caaATTAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGa                                                                              <  1:1112760/140‑1 (MQ=255)
                                                      aTGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGa                                                                              <  1:604666/137‑1 (MQ=255)
                                                      aTGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGa                                                                              >  2:604666/1‑137 (MQ=255)
                                                             ccGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGc                                                                    >  1:60539/1‑140 (MQ=255)
                                                             ccGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGc                                                                    <  1:878896/140‑1 (MQ=255)
                                                             ccGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGc                                                                    >  2:764137/1‑140 (MQ=255)
                                                              cgcgcgGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGcc                                                                   <  2:411160/140‑1 (MQ=255)
                                                              cgcgcgGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGcc                                                                   <  1:257100/140‑1 (MQ=255)
                                                                cgcgGACCATTTTCCGCGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGcccc                                                                 >  1:855205/1‑140 (MQ=255)
                                                                cgcgGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGcccc                                                                 >  2:1050709/1‑140 (MQ=255)
                                                                   ggACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGt                                                              <  2:1123543/140‑1 (MQ=255)
                                                                    gACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGtt                                                             <  2:834622/140‑1 (MQ=255)
                                                                                  cACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTTTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTGCATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACcgac                                               <  2:536385/140‑1 (MQ=255)
                                                                                   aCCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACcgacg                                              <  1:596073/140‑1 (MQ=255)
                                                                                    ccGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACcgacga                                             >  1:51450/1‑140 (MQ=255)
                                                                                     cGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGAt                                            <  1:544468/140‑1 (MQ=255)
                                                                                       tCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATga                                          <  1:1017447/140‑1 (MQ=255)
                                                                                       tCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATga                                          >  2:488046/1‑140 (MQ=255)
                                                                                                       cGTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGaaa                          >  2:888887/1‑140 (MQ=255)
                                                                                                        gTAAATGAGGCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAAc                         >  2:272101/1‑140 (MQ=255)
                                                                                                                ggCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTgcg                 <  2:283091/140‑1 (MQ=255)
                                                                                                                 gCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGc                       >  1:58843/1‑133 (MQ=255)
                                                                                                                 gCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGc                       <  2:58843/133‑1 (MQ=255)
                                                                                                                 gCATAGCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTgcgc                >  1:204624/1‑140 (MQ=255)
                                                                                                                      gCCAACCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTGCGCCGccc           >  1:831753/1‑140 (MQ=255)
                                                                                                                         aaCCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTGCGCCGCCCaaa        >  1:792744/1‑140 (MQ=255)
                                                                                                                          aCCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTGCGCCGCCCAAag       >  1:733358/1‑140 (MQ=255)
                                                                                                                          aCCATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGCGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTGCGCCGCCCAAag       <  2:1056297/140‑1 (MQ=255)
                                                                                                                           ccATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTGcgccg              <  1:669036/132‑1 (MQ=255)
                                                                                                                           ccATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTGcgccg              >  2:669036/1‑132 (MQ=255)
                                                                                                                           ccATAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTGCGCCGCCCAAagt      <  1:776795/140‑1 (MQ=255)
                                                                                                                              tAATCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTGCGCCGCCCAAagtagt   <  2:792744/140‑1 (MQ=255)
                                                                                                                               aaTCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTGCGCCGCCCAAAGTAGTc  <  1:1050709/140‑1 (MQ=255)
                                                                                                                                aTCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTgcg                 <  1:453015/124‑1 (MQ=255)
                                                                                                                                aTCAGCG‑CCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTgcg                 >  2:453015/1‑124 (MQ=255)
                                                                                                                                       |                                                                                                                                    
CGATAACCACCACGCCTATCGCCGCAGACAGCATGGGCGACCAGTTACCAACAAATGAGAGCCGCGCGGACCATTTTCCACGCACCGTCGCGGGGATAAACTCCGTAAATGAGGCATAGCCAACCATAATCAGCGCCCCCATTCCTGTTCCCATCAGGAAGCGAAAGAAGATGAGCCAGTACATATCAGGGACAAAAGCGGCCCCTGTTGCAGCAATACCGACGATGAGAAGATTTATGCGAAACGCCCTGCGCCGCCCAAAGTAGTC  >  NC_000913/1853469‑1853736

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