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
A3 F1 I1 R1 57 49.8 2216334 94.8% 2101084 113.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,437,127 T→C noncoding (7/109 nt) micC → sRNA antisense regulator of OmpC translation, Hfq‑dependent

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,437,1270TC100.0% 206.0 / NA 55noncoding (7/109 nt)micCsRNA antisense regulator of OmpC translation, Hfq‑dependent
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (31/24);  total (31/24)

AAGTAAAACCTTAATCAAATAATTCCTCTGAAATGATAATAAGTCTGGTGAATGTATCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATATGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAG  >  NC_000913/1437002‑1437256
                                                                                                                             |                                                                                                                                 
aaGTAAAACCTTAATCAAATAATTCCTCTGAAATGATAATAAGTCTGGTGAATGTATCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTca                                                                                                                      <  1:629320/139‑1 (MQ=255)
 aGTAAAACCTTAATCAAATAATTCCTCTGAAATGATAATAAGTCTGGTGAATGTATCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTcac                                                                                                                     <  2:818083/139‑1 (MQ=255)
                 aataatTCCTCTGAAATGATAATAAGTCTGGTGAATGTATCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGt                                                                                                     <  2:954540/139‑1 (MQ=255)
                            tGAAATGATAATAAGTCTGGTGAATGTATCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCcattgc                                                                                          >  1:1055163/1‑139 (MQ=255)
                                             tGGTGAATGTATCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGc                                                                                                >  1:155976/1‑116 (MQ=255)
                                             tGGTGAATGTATCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGc                                                                                                <  2:155976/116‑1 (MQ=255)
                                             tGGTGAATGTATCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTcc                                                                         <  2:1055163/139‑1 (MQ=255)
                                             aggTGAATGTATCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGAATTGCCACTGATTTTcc                                                                         >  1:680039/2‑139 (MQ=255)
                                                    tGTATCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTcac                                                                                                                     >  1:1004610/1‑88 (MQ=255)
                                                    tGTATCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTcac                                                                                                                     <  2:1004610/88‑1 (MQ=255)
                                                      tATCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATaa                                                                <  1:10976/139‑1 (MQ=255)
                                                       aTCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGattttatttt                                                                                                         >  2:147597/1‑97 (MQ=255)
                                                       aTCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGattttatttt                                                                                                         <  1:147597/97‑1 (MQ=255)
                                                       aTCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTcc                                                                         <  2:230694/129‑1 (MQ=255)
                                                       aTCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTcc                                                                         >  1:230694/1‑129 (MQ=255)
                                                           aaGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGa                                                           <  1:470389/139‑1 (MQ=255)
                                                                       acaAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACt                                                                                 <  2:549974/105‑1 (MQ=255)
                                                                       acaAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACt                                                                                 >  1:549974/1‑105 (MQ=255)
                                                                        caAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAg                                              >  1:70971/1‑139 (MQ=255)
                                                                          aaaTAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACa                                                                     <  2:1016228/114‑1 (MQ=255)
                                                                          aaaTAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACa                                                                     >  1:1016228/1‑114 (MQ=255)
                                                                           aaTAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAgtcg                                           >  1:49529/1‑139 (MQ=255)
                                                                           aaTAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAgtcg                                           >  2:1011591/1‑139 (MQ=255)
                                                                           aaTAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATATTCCAACATATAAAAAGACAAGCCAGAACAgtcg                                           >  1:708919/1‑139 (MQ=255)
                                                                            aTAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCGGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAgccgt                                          >  2:701075/1‑139 (MQ=255)
                                                                                              aTTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATCAAAAGACAAGCCCGAACAGTCGTCCGGGCttttttttagaa                        <  2:680039/139‑5 (MQ=255)
                                                                                              aTTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGCttttttttagaa                        <  2:708919/139‑5 (MQ=255)
                                                                                              aTTTGCTATACGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGCttttttttagaa                        <  2:49529/139‑5 (MQ=255)
                                                                                                        cGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGAt                 >  2:872495/1‑135 (MQ=255)
                                                                                                        cGTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGAt                 <  1:872495/135‑1 (MQ=255)
                                                                                                         gTTATTCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGCTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATcc            <  1:701075/139‑1 (MQ=255)
                                                                                                             ttCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACa                                                                     <  2:176220/79‑1 (MQ=255)
                                                                                                             ttCTGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACa                                                                     >  1:176220/1‑79 (MQ=255)
                                                                                                                tGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAAc                                                                      >  1:47537/1‑75 (MQ=255)
                                                                                                                tGCGCGGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAAc                                                                      <  2:47537/75‑1 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGattttatt                                                                                                           <  1:409919/36‑1 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGattttatt                                                                                                           >  2:409919/1‑36 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTcc                                                                         <  1:379693/70‑1 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTcc                                                                         >  2:379693/1‑70 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCaa                                                                       <  2:1083437/72‑1 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCaa                                                                       >  1:1083437/1‑72 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga   >  1:304289/1‑139 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga   >  2:470118/1‑139 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga   >  2:1023108/1‑139 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga   >  1:408480/1‑139 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga   >  2:557768/1‑139 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga   >  2:620164/1‑139 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga   >  1:954809/1‑139 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga   >  1:862004/1‑139 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga   >  1:1091142/1‑139 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga   >  1:543175/1‑139 (MQ=255)
                                                                                                                  cgcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCaga   >  2:12732/1‑139 (MQ=255)
                                                                                                                   gctggTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAgt                                             <  2:925711/94‑1 (MQ=255)
                                                                                                                   gcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGC‑TTTTTTTTAGAATTGGATAATCCTTATCCagag  <  1:557768/139‑1 (MQ=255)
                                                                                                                   gcgGGTTATACGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGACACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAgt                                             >  1:925711/1‑97 (MQ=255)
                                                                                                                             |                                                                                                                                 
AAGTAAAACCTTAATCAAATAATTCCTCTGAAATGATAATAAGTCTGGTGAATGTATCGAAGATAATACATACAAAATAAAAATTATACTTTTAATTTGCTATACGTTATTCTGCGCGGGTTATATGCCTTTATTGTCACAGATTTTATTTTCTGTTGGGCCATTGCATTGCCACTGATTTTCCAACATATAAAAAGACAAGCCCGAACAGTCGTCCGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAG  >  NC_000913/1437002‑1437256

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