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
A14 F1 I2 R1 70 59.9 2639336 94.5% 2494172 113.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 573,440 C→T R24C (CGC→TGC)  rusA → DLP12 prophage, endonuclease RUS

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913573,4400CT100.0% 184.3 / NA 54R24C (CGC→TGC) rusADLP12 prophage, endonuclease RUS
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (32/22);  total (32/22)

AGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGCGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACATGCCGGATCGCCGTCGCC  >  NC_000913/573305‑573575
                                                                                                                                       |                                                                                                                                       
aGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgca                                                                                                                                      >  1:1308218/1‑139 (MQ=255)
  aaTGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgcacg                                                                                                                                    <  2:1308218/139‑1 (MQ=255)
  aaTGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCCCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgcacg                                                                                                                                    <  1:1307521/139‑1 (MQ=255)
    tGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgcacgca                                                                                                                                  >  2:1176805/1‑139 (MQ=255)
      cgcgcTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGcacgcacg                                                                                                                                >  2:21254/1‑139 (MQ=255)
                  tATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAgg                                                                                                                    <  1:580033/139‑1 (MQ=255)
                   aTGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAggg                                                                                                                   >  1:80580/1‑139 (MQ=255)
                    tGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAgggg                                                                                                                  <  2:147312/139‑1 (MQ=255)
                     ggCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGggc                                                                                                                 >  2:140530/1‑139 (MQ=255)
                                       cTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATAc                                                                                                         >  2:521429/1‑129 (MQ=255)
                                       cTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATAc                                                                                                         <  1:521429/129‑1 (MQ=255)
                                          gCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCg                                                                                            >  2:864952/1‑139 (MQ=255)
                                           cTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGc                                                                                           <  1:135016/139‑1 (MQ=255)
                                                         tattaAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTaaaa                                                                             >  1:67532/1‑139 (MQ=255)
                                                            taAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACg                                                                          <  2:176899/139‑1 (MQ=255)
                                                            taAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACg                                                                          <  2:1023700/139‑1 (MQ=255)
                                                              aGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCa                                                                        <  1:864952/139‑1 (MQ=255)
                                                               ggCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCaa                                                                       <  2:288433/139‑1 (MQ=255)
                                                                gCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAAt                                                                      >  2:381232/1‑139 (MQ=255)
                                                                   tGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGggcaggca                                                                                                            >  2:11968/1‑98 (MQ=255)
                                                                   tGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGggcaggca                                                                                                            <  1:11968/98‑1 (MQ=255)
                                                                   tGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCt                                                                   <  1:674355/139‑1 (MQ=255)
                                                                   tGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCt                                                                   >  1:269461/1‑139 (MQ=255)
                                                                     aaTACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTCTTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAGAAACGCAATACTgg                                                                 >  1:582220/1‑139 (MQ=255)
                                                                     aaTACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTgg                                                                 >  2:4537/1‑139 (MQ=255)
                                                                          cTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgcacg                                                                                                                                    >  1:423064/1‑67 (MQ=255)
                                                                          cTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGtgcacg                                                                                                                                    <  2:423064/67‑1 (MQ=255)
                                                                           tACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATa                                                                                                          >  1:406719/1‑92 (MQ=255)
                                                                           tACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATa                                                                                                          <  2:406719/92‑1 (MQ=255)
                                                                             cAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGc                                                         <  2:80580/139‑1 (MQ=255)
                                                                             cAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGc                                                         <  2:548383/139‑1 (MQ=255)
                                                                               gCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCt                                                       >  1:36384/1‑139 (MQ=255)
                                                                                  tCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGc                                                    >  2:1105632/1‑139 (MQ=255)
                                                                                   cacaTTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCa                                                                        <  1:1039648/118‑1 (MQ=255)
                                                                                   cacaTTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCa                                                                        >  2:1039648/1‑118 (MQ=255)
                                                                                   cacaTTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCt                                                   >  2:662903/1‑139 (MQ=255)
                                                                                    acaTTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAgg                                                                                                                    >  2:1281889/1‑73 (MQ=255)
                                                                                    acaTTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAgg                                                                                                                    <  1:1281889/73‑1 (MQ=255)
                                                                                        tACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATAc                                                                                                         <  2:599911/80‑1 (MQ=255)
                                                                                        tACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATAc                                                                                                         >  1:599911/1‑80 (MQ=255)
                                                                                        tACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGcc                                              >  2:1274044/1‑139 (MQ=255)
                                                                                          cccTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCtg                                            >  2:447014/1‑139 (MQ=255)
                                                                                             tGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGa                                         >  1:1317864/1‑139 (MQ=255)
                                                                                              ggCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGaa                                        <  1:447014/139‑1 (MQ=255)
                                                                                               gCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGaaa                                       >  1:135954/1‑139 (MQ=255)
                                                                                                ccTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCa                                                                        <  2:299266/105‑1 (MQ=255)
                                                                                                ccTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCa                                                                        >  1:299266/1‑105 (MQ=255)
                                                                                                    cGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCg                                  >  2:18233/1‑139 (MQ=255)
                                                                                                    cGAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCg                                  >  2:1068386/1‑139 (MQ=255)
                                                                                                     gAGCAATAATCGCTATTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGc                                 >  2:1108430/1‑139 (MQ=255)
                                                                                                                   aTTACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACAt                   >  2:877436/1‑139 (MQ=255)
                                                                                                                     tACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAgggg                                                                                                                  >  1:831441/1‑42 (MQ=255)
                                                                                                                     tACCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAgggg                                                                                                                  <  2:831441/42‑1 (MQ=255)
                                                                                                                      aCCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACg                                                                                               <  1:1061592/60‑1 (MQ=255)
                                                                                                                      aCCGCCATAATCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACg                                                                                               >  2:1061592/1‑60 (MQ=255)
                                                                                                                              aaTCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGC‑ATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACATGCCGGAtcgccg       >  2:919311/1‑139 (MQ=255)
                                                                                                                                tCGCGGGTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACATGCCGGAtcgccgt      >  2:177962/1‑139 (MQ=255)
                                                                                                                                    gggTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACg                                                                                               <  2:31092/46‑1 (MQ=255)
                                                                                                                                    gggTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACg                                                                                               >  1:31092/1‑46 (MQ=255)
                                                                                                                                    gggTGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACATGCCGGAtcgccgtcgcc  <  1:4537/139‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                       
AGAATGCGCGCTGGAAGGTATGGCGAGAACACAGGTTATCTGGCTGAAAGAGGGGGTTATTAAGGCGTGAATACCTACAGCATCACATTACCCTGGCCTCCGAGCAATAATCGCTATTACCGCCATAATCGCGGGCGCACGCACGTCAGCGCAGAGGGGCAGGCATACCGCGATAACGTCGCCCGAATCATTAAAAACGCAATGCTGGATATCGGCCTGGCTATGCCTGTGAAAATCCGCATTGAGTGCCACATGCCGGATCGCCGTCGCC  >  NC_000913/573305‑573575

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A