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 F1 I1 R1 757 76.1 3598070 93.4% 3360597 108.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,685,542 (C)6→5 coding (1047/1404 nt) fumC ← fumarate hydratase (fumarase C),aerobic Class II

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,685,5370C.100.0% 193.8 / NA 48coding (1052/1404 nt)fumCfumarate hydratase (fumarase C),aerobic Class II
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (22/26);  total (22/26)

CTCACGATTCGGTTCAATACCCACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCGGCTCATTTTCCGGGATTGAGAT  >  NC_000913/1685401‑1685664
                                                                                                                                        |                                                                                                                               
cTCACGATTCGGTTCAATACCCACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGccc                                                                                                                               <  1:541890/139‑1 (MQ=255)
 tCACGATTCGGTTCAATACCCACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGcccc                                                                                                                              >  2:542526/1‑139 (MQ=255)
               aaTACCCATTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGCTTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCa                                                                                                               <  1:1090723/139‑1 (MQ=255)
                aTACCCACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCAc                                                                                                              <  2:1354542/139‑1 (MQ=255)
                      aCTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTCCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAACGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGtt                                                                                                        >  2:624269/1‑139 (MQ=255)
                        tGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCAcgtcgt                                                                                                         >  1:478057/1‑136 (MQ=255)
                        tGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCAcgtcgt                                                                                                         <  2:478057/136‑1 (MQ=255)
                        tGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTcc                                                                                                      >  1:662006/1‑139 (MQ=255)
                         gcgcAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTccc                                                                                                     >  1:1515829/1‑139 (MQ=255)
                          cgcAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTcccc                                                                                                    <  2:1389387/139‑1 (MQ=255)
                                    gttAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTccc                                                                                                     >  2:120088/1‑128 (MQ=255)
                                    gttAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTccc                                                                                                     <  1:120088/128‑1 (MQ=255)
                                      tAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCGTGTTGATCGCTACGTCGTACCCCATCACCTGAcag                                                                                        <  1:1317349/139‑1 (MQ=255)
                                      tAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGAcag                                                                                        <  1:974319/139‑1 (MQ=255)
                                         aaCTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCt                                                                                             >  1:1463840/1‑131 (MQ=255)
                                         aaCTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCt                                                                                             <  2:1463840/131‑1 (MQ=255)
                                           cTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAACGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCAt                                                                                                  >  1:446981/1‑124 (MQ=255)
                                           cTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCAt                                                                                                  <  2:446981/124‑1 (MQ=255)
                                           cTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCa                                                                                                >  2:1081836/1‑126 (MQ=255)
                                           cTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCa                                                                                                <  1:1081836/126‑1 (MQ=255)
                                           cTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCagag                                                                                   <  2:536066/139‑1 (MQ=255)
                                              tCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCAt                                                                                >  2:436416/1‑139 (MQ=255)
                                               ccATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGcc                                                                                                                                <  1:296045/91‑1 (MQ=255)
                                               ccATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGcc                                                                                                                                >  2:296045/1‑91 (MQ=255)
                                                                   cgcACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTgtgt                                                           >  2:1039812/1‑139 (MQ=255)
                                                                   cgcACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTgtgt                                                           >  1:1785988/1‑139 (MQ=255)
                                                                      aCCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTgg                                                        <  1:1039812/139‑1 (MQ=255)
                                                                                  aaaTTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGcc                                                                                                                                <  1:1597207/56‑1 (MQ=255)
                                                                                  aaaTTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGcc                                                                                                                                >  2:1597207/1‑56 (MQ=255)
                                                                                  aaaTTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTccc                                            <  2:1156735/139‑1 (MQ=255)
                                                                                             cACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTg                                                         <  1:1697676/115‑1 (MQ=255)
                                                                                             cACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTg                                                         >  2:1697676/1‑115 (MQ=255)
                                                                                              aCCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTccc                                            >  1:252288/1‑127 (MQ=255)
                                                                                              aCCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTccc                                            <  2:252288/127‑1 (MQ=255)
                                                                                               ccATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGCTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAg                               <  2:1409775/139‑1 (MQ=255)
                                                                                                 aTTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCt                             >  2:1018951/1‑139 (MQ=255)
                                                                                                    ggACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGcc                          >  2:1706947/1‑139 (MQ=255)
                                                                                                       cGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCt                                                                                             >  2:1660202/1‑69 (MQ=255)
                                                                                                       cGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCt                                                                                             <  1:1660202/69‑1 (MQ=255)
                                                                                                       cGGAAGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCgg                       >  1:275493/1‑139 (MQ=255)
                                                                                                          aaGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTccc                                                                                                     <  1:304449/58‑1 (MQ=255)
                                                                                                          aaGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTccc                                                                                                     >  2:304449/1‑58 (MQ=255)
                                                                                                          aaGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGAcag                                                                                        >  2:729965/1‑71 (MQ=255)
                                                                                                          aaGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGAcag                                                                                        <  1:729965/71‑1 (MQ=255)
                                                                                                          aaGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTc                                              <  1:458535/113‑1 (MQ=255)
                                                                                                          aaGACGTTCAGTTCAAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTc                                              >  2:458535/1‑113 (MQ=255)
                                                                                                                ttcagttcaAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCGGCTCATTTTc              <  2:1515829/139‑1 (MQ=255)
                                                                                                                  cagttcaAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCGGCTCATTTTCCg            <  1:436416/139‑1 (MQ=255)
                                                                                                                    gttcaAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCa                                                                                 >  2:328567/1‑68 (MQ=255)
                                                                                                                    gttcaAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCa                                                                                 <  1:328567/68‑1 (MQ=255)
                                                                                                                       caAAGTTACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCGGCTCATTTTCCGGGAtt       <  1:542526/139‑1 (MQ=255)
                                                                                                                            ttACCGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCGGCTCATTTTCCGGGATTGAGAt  <  2:275493/139‑1 (MQ=255)
                                                                                                                               ccGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTa                                                                           <  2:1450189/63‑1 (MQ=255)
                                                                                                                               ccGGAAGCG‑CCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTa                                                                           >  1:1450189/1‑63 (MQ=255)
                                                                                                                                        |                                                                                                                               
CTCACGATTCGGTTCAATACCCACTGCGCAGTGTTTGTTAAAACTTTCCATGCCATCTGCCAGCAAGCGCACCGATTGCAGGAAATTGTGGATCACCATTGGACGGAAGACGTTCAGTTCAAAGTTACCGGAAGCGCCCCCCATGTTGATCGCCACGTCGTTCCCCATCACCTGACAGCAGAGCATGGTTAATGCCTCACACTGTGTTGGGTTCACTTTCCCCGGCATGATTGAGCTGCCCGGCTCATTTTCCGGGATTGAGAT  >  NC_000913/1685401‑1685664

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ 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