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 I2 R1 765 46.1 2269152 93.8% 2128464 105.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,106,320 G→A *167* (TAG→TAA)  cpxP → inhibitor of the cpx response, periplasmic adaptor protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,106,3200GA100.0% 154.4 / NA 48*167* (TAG→TAA) cpxPinhibitor of the cpx response, periplasmic adaptor protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (22/26);  total (22/26)

TTAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAGTAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACTAGCGTCAGTTGA  >  NC_000913/4106189‑4106454
                                                                                                                                   |                                                                                                                                       
ttAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAAccc                                                                                                                                  >  2:1041057/1‑139 (MQ=255)
ttAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAAccc                                                                                                                                  >  1:554951/1‑139 (MQ=255)
  aaCGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCTTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTg                                                                                                                                <  1:265888/139‑1 (MQ=255)
  aaCGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTg                                                                                                                                <  1:266713/139‑1 (MQ=255)
       cGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTc                                                                                                                           >  1:545855/1‑139 (MQ=255)
        ggAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTcc                                                                                                                          <  2:1088744/139‑1 (MQ=255)
        ggAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTcc                                                                                                                          <  2:1037341/139‑1 (MQ=255)
               caAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCAt                                                                                                                   >  1:589720/1‑139 (MQ=255)
                      ttttAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACAcc                                                                                                            <  2:545855/139‑1 (MQ=255)
                       tttAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCa                                                                                                           >  1:739853/1‑139 (MQ=255)
                         tAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCa                                                                                                           >  2:197237/1‑137 (MQ=255)
                         tAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCa                                                                                                           <  1:197237/137‑1 (MQ=255)
                                gaAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCt                                                                                                  >  2:356872/1‑139 (MQ=255)
                                 aaaCATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCtt                                                                                                 <  1:406346/139‑1 (MQ=255)
                                   aCATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTcc                                                                                               <  2:415166/139‑1 (MQ=255)
                                         acaacGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCcaca                                                                                         <  2:589720/139‑1 (MQ=255)
                                              gAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCtg                                                                                    <  1:356872/139‑1 (MQ=255)
                                               aaTGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTcc                                                                                               <  1:1082856/127‑1 (MQ=255)
                                               aaTGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTcc                                                                                               >  2:1082856/1‑127 (MQ=255)
                                               aaTGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCtgt                                                                                   >  2:212055/1‑139 (MQ=255)
                                                aTGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCtgtg                                                                                  <  2:554951/139‑1 (MQ=255)
                                                  ggAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATa                                                                                                                  >  1:411202/1‑105 (MQ=255)
                                                  ggAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATa                                                                                                                  <  2:411202/105‑1 (MQ=255)
                                                     gCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑t                                                                            >  2:955173/1‑139 (MQ=255)
                                                        gTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCt                                                                                                                         >  1:293387/1‑92 (MQ=255)
                                                        gTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCt                                                                                                                         <  2:293387/92‑1 (MQ=255)
                                                            cgtgacgtgaCGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑tttttttt                                                                     <  1:955173/139‑1 (MQ=255)
                                                             gtgacgtgacGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTa                                                                    <  1:1041057/139‑1 (MQ=255)
                                                              tgacgtgacgCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTAt                                                                   >  1:916279/1‑139 (MQ=255)
                                                                   tgacgCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATccc                                                                                                       <  2:39234/99‑1 (MQ=255)
                                                                   tgacgCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATccc                                                                                                       >  1:39234/1‑99 (MQ=255)
                                                                             gCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCCCATGCTGTGGGGGTTTTTTTTTATCCTCAATTTGCctg                                                     <  1:175780/139‑1 (MQ=255)
                                                                                aaaaaGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACTCCACCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCCtgctgc                                                 >  2:1023623/1‑139 (MQ=255)
                                                                                 aaaaGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCCTgctgct                                                <  1:475641/139‑1 (MQ=255)
                                                                                       tCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATTGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCctgct                                                   >  1:707611/1‑130 (MQ=255)
                                                                                       tCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCctgct                                                   <  2:707611/130‑1 (MQ=255)
                                                                                                     aTTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGacac                                                                                                             >  1:562182/1‑59 (MQ=255)
                                                                                                     aTTGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGacac                                                                                                             <  2:562182/59‑1 (MQ=255)
                                                                                                       tGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGc                          <  2:739853/139‑1 (MQ=255)
                                                                                                       tGAGTAGTAGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGc                          <  1:212055/139‑1 (MQ=255)
                                                                                                          gtagtaGCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTc                       >  1:959827/1‑139 (MQ=255)
                                                                                                              tagCAACTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGtt                   >  2:241289/1‑139 (MQ=255)
                                                                                                                   aCTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCctg                                                     <  2:1074405/100‑1 (MQ=255)
                                                                                                                   aCTCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCctg                                                     >  1:1074405/1‑100 (MQ=255)
                                                                                                                     tCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTg                                                                                                     <  2:168009/51‑1 (MQ=255)
                                                                                                                     tCACGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATCCCTg                                                                                                     >  1:168009/1‑51 (MQ=255)
                                                                                                                        cGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATcc                                                                                                        >  2:965005/1‑45 (MQ=255)
                                                                                                                        cGTTCCCAGTAATAAACCCTGTTTTCCTTGCCATAGACACCATcc                                                                                                        <  1:965005/45‑1 (MQ=255)
                                                                                                                               agtaatAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTcc                                                                                               >  2:871376/1‑47 (MQ=255)
                                                                                                                               agtaatAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTcc                                                                                               <  1:871376/47‑1 (MQ=255)
                                                                                                                               agtaatAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCg                     >  2:634046/1‑120 (MQ=255)
                                                                                                                               agtaatAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCg                     <  1:634046/120‑1 (MQ=255)
                                                                                                                               agtaatAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACTAGCGTCAGTTGa  <  2:916279/139‑1 (MQ=255)
                                                                                                                                   |                                                                                                                                       
TTAACGCCGGAGCAGCAAGCGGTTTTAAACGAGAAACATCAACAACGAATGGAGCAGTTGCGTGACGTGACGCAATGGCAAAAAAGTTCATCGTTGAAGCTATTGAGTAGTAGCAACTCACGTTCCCAGTAGTAAACCCTGTTTTCCTTGCCATAGACACCATCCCTGTCTTCCCCCACATGCTGTGGGGG‑TTTTTTTTATCCTCAATTTGCCTGCTGCTTAATGCATTGCAGATGATTTGCTTCCGTTATACTAGCGTCAGTTGA  >  NC_000913/4106189‑4106454

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A