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
A19 F21 I1 R1 22 41.7 1602136 90.4% 1448330 141.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,184,543 C→A P1100Q (CCG→CAG)  rpoB → RNA polymerase subunit beta

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,184,5430CA100.0% 132.2 / NA 44P1100Q (CCG→CAG) rpoBRNA polymerase subunit beta
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (22/22);  total (22/22)

TGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCATCCA  >  NC_000913/4184405‑4184681
                                                                                                                                          |                                                                                                                                           
tGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTCTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACCGAACCAGCTg                                                                                                                                         >  2:637847/1‑143 (MQ=255)
   cGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGc                                                                                                                                      <  1:261113/143‑1 (MQ=255)
         aaCGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCg                                                                                                                                >  2:686040/1‑143 (MQ=255)
          aCGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGt                                                                                                                               >  2:25815/1‑143 (MQ=255)
           cGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGtc                                                                                                                              <  2:663024/143‑1 (MQ=255)
                 actcAGCCTGGTGAGAAGTTGGGAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCCTCCCGATCCAAGATATGCCTTACGATGAAAGCGGTACGCCGGTAGACACCGTACTGAACCAGCTGGGCGTACCGTCTCGTAt                                                                                                                        <  2:444835/140‑1 (MQ=255)
                   ccAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGACCCAGCTGGGCGTACCGTCTCGTATGa                                                                                                                      >  1:2576/1‑143 (MQ=255)
                    cAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAATATATGCCTTACGATGACACCGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGa‑a                                                                                                                    <  2:656443/143‑1 (MQ=255)
                                    tGGTAGGTCGTCACGGTAACAAGGGTGTAGTTTCTAAGATCACCCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTc                                                                                                    <  2:521990/143‑1 (MQ=255)
                                    tGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTc                                                                                                    <  2:376258/143‑1 (MQ=255)
                                             gtcACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCAc                                                                                           <  1:686040/143‑1 (MQ=255)
                                              tcACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCAcc                                                                                          >  1:729803/1‑143 (MQ=255)
                                               cACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCt                                                                                         <  1:203539/143‑1 (MQ=255)
                                                     aaCAAGGGTGTAATTTCTAAGATCAACCCGATCGACGCTCTGCATTACCCTGCAAACGGCACGCCGGTAGACATGGTATTGGGCCAGCTGGGCGTCCCGT‑AAATAAGAGACAGCGGTCAGAACCTCGAAACTCACCTGGGTAt                                                                                   >  1:499568/1‑143 (MQ=255)
                                                        aaGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGc                                                                                >  1:202677/1‑143 (MQ=255)
                                                        aaGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGc                                                                                >  1:634126/1‑143 (MQ=255)
                                                        aaGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCGTACGATGAAAACGGTACGCCGGTAGACAGCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAGACCCGCCCGGGGGTGGc                                                                                >  1:520268/1‑143 (MQ=255)
                                                              gtAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCGCGTATGA‑ACATCGGTCAGATCCACGAAACCCACCGGGGAATGgcggcggc                                                                          >  2:160481/1‑141 (MQ=255)
                                                              atAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGaa                                                                          <  1:569033/142‑1 (MQ=255)
                                                                          ctCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGa                                                              <  1:383451/142‑1 (MQ=255)
                                                                             aaCCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACAGCGGTCAGATCCCCGAAACCCCCCTGGGTATGGCTGCGAAAGGTATCGGCGACaa                                                           <  1:770397/143‑1 (MQ=255)
                                                                                  gATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCGGCTCAAGGTATCGGCGACAAGATCa                                                      >  2:677562/1‑143 (MQ=255)
                                                                                          atatGCCTTCACATGAAAACGGTACGCCGCTAGACATCGTACTGAACCAGCCTGGCGTACCGTCTAGAATGA‑ACACCCGACAGTGCCTCGAAACCCACCTGGGTATGGCTGCGTAAGGTATCGGCGACAAGATCAACGCCATg                                              <  1:114384/143‑1 (MQ=255)
                                                                                            atGCCTTACGATAAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCt                                            >  1:42717/1‑143 (MQ=255)
                                                                                                cTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGaaa                                        <  1:729476/143‑1 (MQ=255)
                                                                                                    cGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAAcagc                                    <  1:25815/143‑1 (MQ=255)
                                                                                                       tGAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACagcagc                                 >  1:337811/1‑143 (MQ=255)
                                                                                                        gAAAACGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATGAACGCCATGCTGAAACAgcagca                                >  1:538517/1‑143 (MQ=255)
                                                                                                         aaaaCGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCaa                               <  2:337811/143‑1 (MQ=255)
                                                                                                          aaaCGGTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCaag                              <  1:214108/143‑1 (MQ=255)
                                                                                                            aCGGTACGCCGGGAGACATCGCACGGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGCACCCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCaagaa                            <  1:301262/143‑1 (MQ=255)
                                                                                                               gTACGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCAGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTc                         <  1:416623/143‑1 (MQ=255)
                                                                                                                tACGCCGGTAGAAATAGTACTGAACCAGCCGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTcg                        <  2:729803/143‑1 (MQ=255)
                                                                                                                  cGCCGGTAGACATCGTCCTGACCCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTcgcg                      <  1:463588/143‑1 (MQ=255)
                                                                                                                  cGCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTcgcg                      >  1:34174/1‑143 (MQ=255)
                                                                                                                   gCCGGTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTAGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGa                     >  1:632837/1‑143 (MQ=255)
                                                                                                                      ggTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAAc                  >  1:252983/1‑143 (MQ=255)
                                                                                                                       gTAGACATCGTACTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACACACCTGGGTATGGCTGCGAAAGGTATCGGCGCCAAGCTCCACGCCCTGCTGAAACAGCAGCAAGAAGTCGCGAAAcc                 >  1:159242/1‑142 (MQ=255)
                                                                                                                           aCATCGTACTGAACCAGCTGGGCGTCCCGTCTCGTATGA‑TCATCGGTCAGCTCCTCGAACCCCACCCGGGTATGGCTGCGACAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTgcgc             <  2:702277/143‑1 (MQ=255)
                                                                                                                                   cTGAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCAt     >  1:662241/1‑143 (MQ=255)
                                                                                                                                    tGACCCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCATc    <  1:564170/143‑1 (MQ=255)
                                                                                                                                    tGAACCAGCTGGGCGTACCGTCTCGTATTT‑TCATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCATc    >  2:487427/1‑143 (MQ=255)
                                                                                                                                     gAACCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCGCGAAACCCACCTGGGTATGGCGGCGAAAGGTATCGGCGACAAGAACAAAGCCATGCTGAACCAGCAGCAAGAAGGCGCGAAACTGCGCGAAATCAccc   >  2:473456/1‑143 (MQ=255)
                                                                                                                                      aaCCAGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGCATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCCAAACTGCGCGACATCATACa  >  2:798160/1‑143 (MQ=255)
                                                                                                                                          |                                                                                                                                           
TGGCGGTTAAACGCCGTATCCAGCCTGGTGACAAGATGGCAGGTCGTCACGGTAACAAGGGTGTAATTTCTAAGATCAACCCGATCGAAGATATGCCTTACGATGAAAACGGTACGCCGGTAGACATCGTACTGAACCCGCTGGGCGTACCGTCTCGTATGA‑ACATCGGTCAGATCCTCGAAACCCACCTGGGTATGGCTGCGAAAGGTATCGGCGACAAGATCAACGCCATGCTGAAACAGCAGCAAGAAGTCGCGAAACTGCGCGAATTCATCCA  >  NC_000913/4184405‑4184681

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A