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
A10 F1 I1 R1 759 65.2 3386260 90.7% 3071337 101.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,432,994 (C)6→7 coding (567/1125 nt) smf ← DNA recombination‑mediator A family protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,432,9881.C100.0% 207.2 / NA 58G191G (GGC→GGG) smfDNA recombination‑mediator A family protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base C (28/30);  total (28/30)

TGCTGTCACCAGCGAACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGGCTGCTTTATGCGCTAC  >  NC_000913/3432850‑3433110
                                                                                                                                           |                                                                                                                          
tGCTGTCACCAGCGAACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAgcg                                                                                                                             >  1:1575379/1‑139 (MQ=255)
     tCACCAGCGAACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑ccccc                                                                                                                       <  1:1599672/139‑1 (MQ=255)
                           aGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAg                                                                                                              <  1:1062750/127‑1 (MQ=255)
                           aGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAg                                                                                                              >  2:1062750/1‑127 (MQ=255)
                           aGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGc                                                                                                  >  1:407242/1‑139 (MQ=255)
                                  tCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCgg                                                                                           >  2:843847/1‑139 (MQ=255)
                                          caGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAgcg‑c                                                                                                                           >  1:119770/1‑98 (MQ=255)
                                          caGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAgcg‑c                                                                                                                           <  2:119770/98‑1 (MQ=255)
                                             tACACCTTTACTTAGACCACTGGTAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcggcg                                                                                >  1:1687695/1‑139 (MQ=255)
                                             tACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAg                                                                                               >  2:661162/1‑124 (MQ=255)
                                             tACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAg                                                                                               <  1:661162/124‑1 (MQ=255)
                                             tACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcggcg                                                                                <  2:1575379/139‑1 (MQ=255)
                                             tACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcggcg                                                                                <  2:1008480/139‑1 (MQ=255)
                                              acacCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcggcgg                                                                               >  1:1063957/1‑139 (MQ=255)
                                              acacCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcggcgg                                                                               <  2:903990/139‑1 (MQ=255)
                                                      aCTTAGACCACTGGTAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAt                                                                       <  2:1687695/139‑1 (MQ=255)
                                                       cTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcggcg                                                                                >  2:1300318/1‑129 (MQ=255)
                                                       cTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcggcg                                                                                <  1:1300318/129‑1 (MQ=255)
                                                            aCCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGTCTGGCAGc                                                                                                  >  2:1012322/1‑106 (MQ=255)
                                                            aCCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCa                                                                                                    >  1:289691/1‑104 (MQ=255)
                                                            aCCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCa                                                                                                    <  2:289691/104‑1 (MQ=255)
                                                            aCCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGc                                                                                                  <  1:1012322/106‑1 (MQ=255)
                                                            aCCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCg                                                                                            <  1:1045066/112‑1 (MQ=255)
                                                            aCCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCg                                                                                            >  2:1045066/1‑112 (MQ=255)
                                                            aCCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcgg                                                                                  >  1:176097/1‑122 (MQ=255)
                                                            aCCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGAcgg                                                                                  <  2:176097/122‑1 (MQ=255)
                                                            aCCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTAtt                                                                 >  2:1303931/1‑139 (MQ=255)
                                                            aCCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑ccccc                                                                                                                       >  2:1565509/1‑84 (MQ=255)
                                                            aCCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑ccccc                                                                                                                       <  1:1565509/84‑1 (MQ=255)
                                                                cTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAg                                                                                               <  2:827024/105‑1 (MQ=255)
                                                                cTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAg                                                                                               >  1:827024/1‑105 (MQ=255)
                                                                cTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGt                                                             >  1:1027948/1‑139 (MQ=255)
                                                                cTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑cccccc                                                                                                                      >  1:366472/1‑81 (MQ=255)
                                                                cTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑cccccc                                                                                                                      <  2:366472/81‑1 (MQ=255)
                                                                 tGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTc                                                            >  1:1563555/1‑139 (MQ=255)
                                                                   aTAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCa                                                          <  2:1063957/139‑1 (MQ=255)
                                                                      aTGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTATTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTaa                                                               >  2:694588/1‑131 (MQ=255)
                                                                      aTGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTATTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTaa                                                               <  1:694588/131‑1 (MQ=255)
                                                                           aTTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAgcg‑c                                                                                                                           >  1:706041/1‑65 (MQ=255)
                                                                           aTTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAgcg‑c                                                                                                                           <  2:706041/65‑1 (MQ=255)
                                                                           aTTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCaa                                                  <  1:1303931/139‑1 (MQ=255)
                                                                                  cGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCa                                           >  2:316117/1‑139 (MQ=255)
                                                                                          aTTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAt                                                                       <  1:323194/103‑1 (MQ=255)
                                                                                          aTTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAt                                                                       >  2:323194/1‑103 (MQ=255)
                                                                                           ttGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACg                                  <  2:1560317/139‑1 (MQ=255)
                                                                                            tGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCATTGCTGACGc                                 <  2:407242/139‑1 (MQ=255)
                                                                                                           gAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCgggg                                                                             <  1:292943/80‑1 (MQ=255)
                                                                                                           gAACATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCgggg                                                                             >  2:292943/1‑80 (MQ=255)
                                                                                                            aaCATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTAtt                                                                 >  1:1308246/1‑91 (MQ=255)
                                                                                                            aaCATCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTAtt                                                                 <  2:1308246/91‑1 (MQ=255)
                                                                                                               aTCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCAtt                                                        >  2:524439/1‑97 (MQ=255)
                                                                                                               aTCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCAtt                                                        <  1:524439/97‑1 (MQ=255)
                                                                                                                tCGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGgctgct             >  2:1412651/1‑139 (MQ=255)
                                                                                                                 cGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAt                                                                       <  2:789873/80‑1 (MQ=255)
                                                                                                                 cGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAt                                                                       >  1:24227/1‑80 (MQ=255)
                                                                                                                 cGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAt                                                                       <  2:24227/80‑1 (MQ=255)
                                                                                                                 cGAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAAt                                                                       >  1:789873/1‑80 (MQ=255)
                                                                                                                 cGAGGGGAAATTCCGAGACAAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCAt                                                                                       >  2:822278/1‑64 (MQ=255)
                                                                                                                 cGAGGGGAAATTCCGAGACAAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCAt                                                                                       <  1:822278/64‑1 (MQ=255)
                                                                                                                  gAGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGGCTGCttt           <  2:1563555/139‑1 (MQ=255)
                                                                                                                   aGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGa                                    >  1:1095491/1‑113 (MQ=255)
                                                                                                                   aGGGGAAATTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATCGTATTTAGTCCATTCCCCAATACAGCAATGCTGa                                    <  2:1095491/113‑1 (MQ=255)
                                                                                                                         aaTTCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGGCTGCTTTATGCGCt    <  1:843847/139‑1 (MQ=255)
                                                                                                                           ttCCGAGACGAGAGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGGCTGCTTTATGCGCTac  <  1:1412651/139‑1 (MQ=255)
                                                                                                                                agacgagaGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGaa                                                                        <  2:1627846/64‑1 (MQ=255)
                                                                                                                                agacgagaGCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGaa                                                                        >  1:1627846/1‑64 (MQ=255)
                                                                                                                                     agagCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCa                                           <  2:1664323/88‑1 (MQ=255)
                                                                                                                                     agagCGCCCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCa                                           >  1:1664323/1‑88 (MQ=255)
                                                                                                                                           |                                                                                                                          
TGCTGTCACCAGCGAACCACTACGCAAAGCCGCTTCCACCACCAGTACACCTTTACTTAGACCACTGATAATGCGATTTCTTCGTGGGAAATTGTAAGCAAGGGGTGGAACATCGAGGGGAAATTCCGAGACGAGAGCG‑CCCCCCTGTTCAAGCAGACTGGCAGCCAGTCGGGCATGACGGCGGGGATGAATGGTATTAAGTCCATTCCCCAATACAGCAATGCTGACGCCATTTACCTGTAAGGCTGCTTTATGCGCTAC  >  NC_000913/3432850‑3433110

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ 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