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
A8 F1 I2 R1 765 53.2 2691310 93.4% 2513683 103.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,168,350 Δ1 bp coding (483/633 nt) ycfQ ← repressor for bhsA(ycfR)

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,168,3480G.100.0% 267.0 / NA 62coding (485/633 nt)ycfQrepressor for bhsA(ycfR)
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (31/31);  total (31/31)

GCCATAAACGCAAAGTCGTTCCGGCAATCTGCATCAGTTTTTCCAGCGATGCACCTTCGCGTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGCGGGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTGAATCTGGGGAGAGGGTGGTGCAGTTG  >  NC_000913/1168217‑1168470
                                                                                                                                   |                                                                                                                          
gCCATAAACGCAAAGTCGTTCCGGCAATCTGCATCAGTTTTTCCAGCGATGCACCTTCGCGTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTcc                                                                                                                    >  2:379335/1‑139 (MQ=255)
     aaaCGCAAAGTCGTTCCGGTAATCTGCATCAGTTTTTCCAGCGATGCACCTTCGCGTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCcgcg                                                                                                               >  1:693381/1‑139 (MQ=255)
     aaaCGCAAAGTCGTTCCGGCAATCTGCATCAGTTTTTCCAGCGATGCACCTTCGCGTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCcgcg                                                                                                               <  1:379335/139‑1 (MQ=255)
      aaCGCAAAGTCGTTCCGGCAATCTGCATCAGTTTTTCCAGCGATGCACCTTCGCGTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCcgcgc                                                                                                              <  1:937662/139‑1 (MQ=255)
                             tGCATCAGTTTTTCCAGCGATGCACCTTCGCGTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAActg                                                                                       >  1:1025298/1‑139 (MQ=255)
                               cATCAGTTTTTCCAGCGATGCACCTTCGCGTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAActgct                                                                                     >  2:814430/1‑139 (MQ=255)
                                     tttttCCAGCGATGCACCTTCGCGTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAg                                                                               >  1:936184/1‑139 (MQ=255)
                                         tCCAGCGATGCACCTTCGCGTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTgcg                                                                           >  2:330950/1‑139 (MQ=255)
                                            aGCGATGCACCTTCGCGTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGctc                                                                        <  2:1025298/139‑1 (MQ=255)
                                                          gcgTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGc                                                          >  2:1255138/1‑139 (MQ=255)
                                                           cgTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGt                                                                                                        >  2:645734/1‑92 (MQ=255)
                                                           cgTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGt                                                                                                        <  1:645734/92‑1 (MQ=255)
                                                                           tCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTg                                         <  1:330950/139‑1 (MQ=255)
                                                                            ccccTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGctc                                                                        >  1:1160645/1‑107 (MQ=255)
                                                                            ccccTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGctc                                                                        <  2:1160645/107‑1 (MQ=255)
                                                                                tGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGat                                    >  1:980830/1‑139 (MQ=255)
                                                                                 gAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGata                                   <  1:1255138/139‑1 (MQ=255)
                                                                                       taCAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTg                                                                                                   <  2:920089/69‑1 (MQ=255)
                                                                                       taCAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTg                                                                                                   >  1:920089/1‑69 (MQ=255)
                                                                                       taCAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCAt                                                             <  1:343464/107‑1 (MQ=255)
                                                                                       taCAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCAt                                                             >  2:343464/1‑107 (MQ=255)
                                                                                       taCAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGt                                                        >  1:42739/1‑112 (MQ=255)
                                                                                       taCAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGt                                                        <  2:42739/112‑1 (MQ=255)
                                                                                       taCAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCt                             >  2:1255755/1‑139 (MQ=255)
                                                                                            ttAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCcgcg                                                                                                               >  1:1128106/1‑52 (MQ=255)
                                                                                            ttAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCcgcg                                                                                                               <  2:1128106/52‑1 (MQ=255)
                                                                                            ttAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTg                                                                             >  1:560488/1‑86 (MQ=255)
                                                                                            ttAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTg                                                                             <  2:560488/86‑1 (MQ=255)
                                                                                            ttAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCg                                                         >  1:637015/1‑106 (MQ=255)
                                                                                            ttAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCg                                                         <  2:637015/106‑1 (MQ=255)
                                                                                            ttAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTa                                            <  1:342060/119‑1 (MQ=255)
                                                                                            ttAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTa                                            >  2:342060/1‑119 (MQ=255)
                                                                                               aGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGat                                    >  1:1275942/1‑124 (MQ=255)
                                                                                               aGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGat                                    <  2:1275942/124‑1 (MQ=255)
                                                                                               aGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTg                            <  2:727525/132‑1 (MQ=255)
                                                                                               aGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTg                            >  1:727525/1‑132 (MQ=255)
                                                                                                 gAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGatat                                  >  2:940400/1‑124 (MQ=255)
                                                                                                 gAATTCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGatat                                  <  1:940400/124‑1 (MQ=255)
                                                                                                    ttCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAActgct                                                                                     >  2:1234864/1‑70 (MQ=255)
                                                                                                    ttCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAActgct                                                                                     <  1:1234864/70‑1 (MQ=255)
                                                                                                    ttCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGat                                    <  2:1156756/119‑1 (MQ=255)
                                                                                                    ttCTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGat                                    >  1:1156756/1‑119 (MQ=255)
                                                                                                      cTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTg                                                                             <  1:1152111/76‑1 (MQ=255)
                                                                                                      cTGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTg                                                                             >  2:1152111/1‑76 (MQ=255)
                                                                                                       tGCCAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTGAATCTGGGGAGAggg             <  2:936184/139‑1 (MQ=255)
                                                                                                         ccAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCgcgcgc                                                                                                            <  1:127842/42‑1 (MQ=255)
                                                                                                         ccAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCgcgcgc                                                                                                            >  2:127842/1‑42 (MQ=255)
                                                                                                         ccAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTg                                                                             >  2:655997/1‑73 (MQ=255)
                                                                                                         ccAGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTg                                                                             <  1:655997/73‑1 (MQ=255)
                                                                                                           aGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTgcg                                                                           <  1:396231/73‑1 (MQ=255)
                                                                                                           aGATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTgcg                                                                           >  2:396231/1‑73 (MQ=255)
                                                                                                            gATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTGAATCTGGGGAGAGGgtggtg        <  1:1255755/139‑1 (MQ=255)
                                                                                                            gATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTGAATCTGGGGAGAGGgtggtg        <  2:693381/139‑1 (MQ=255)
                                                                                                            gATGTGTCACGTCACAGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTGAATCTGGGGAGAGGgtggtg        <  1:814430/139‑1 (MQ=255)
                                                                                                                        cacaGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTGAATc                        >  1:1309754/1‑111 (MQ=255)
                                                                                                                        cacaGTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTGAATc                        <  2:1309754/111‑1 (MQ=255)
                                                                                                                            gTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTGAATCt                       <  2:2723/108‑1 (MQ=255)
                                                                                                                            gTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTGAATCt                       >  1:2723/1‑108 (MQ=255)
                                                                                                                            gTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTGAATCTGGGGAGAGGGTGGTGCAgttg  <  1:1333020/129‑1 (MQ=255)
                                                                                                                            gTGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTGAATCTGGGGAGAGGGTGGTGCAgttg  >  2:1333020/1‑129 (MQ=255)
                                                                                                                             tGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCAt                                                             >  1:1010420/1‑69 (MQ=255)
                                                                                                                             tGGGGC‑GGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCAt                                                             <  2:1010420/69‑1 (MQ=255)
                                                                                                                                   |                                                                                                                          
GCCATAAACGCAAAGTCGTTCCGGCAATCTGCATCAGTTTTTCCAGCGATGCACCTTCGCGTGCGCTGATCGACATCCCCTGAATAATACAATTAAGGAATTCTGCCAGATGTGTCACGTCACAGTGGGGCGGGATTTCCCCGCGCGCTTGTCGTTGACATAAAAACTGCTGCAAAGTGCGCTCTTGCATCGCATGGCGTGATTTCAACGTATTGGCGATATCTCCTGAATCTGGGGAGAGGGTGGTGCAGTTG  >  NC_000913/1168217‑1168470

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