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 63 64.8 2934156 93.7% 2749304 111.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,125,041 T→C K590K (AAA→AAG)  priA ← Primosome factor n' (replication factor Y)

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,125,0410TC100.0% 241.6 / NA 64K590K (AAA→AAG) priAPrimosome factor n' (replication factor Y)
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (36/28);  total (36/28)

CTGGTCCACGGCGGTAGCTGCATCATTCGCCGCTCAGCCAGCGCCTGTTCGGCAAAGGCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGTTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCCGTCCACGTCCAGTAATGCAACCAGCGTCACATCCGGGAAATGGT  >  NC_000913/4124907‑4125174
                                                                                                                                      |                                                                                                                                     
cTGGTCCACGGCGGTAGCTGCATCATTCGCCGCTCAGCCAGCGCCTGTTCGGCAAAGGCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTAc                                                                                                                                   >  2:504666/1‑139 (MQ=255)
  ggTCCACGGCGGTAGCTGCATCATTCGCCGCTCAGCCAGCGCCTGTTCGGCAAAGGCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTAccc                                                                                                                                 >  2:1237200/1‑139 (MQ=255)
  ggTCCACGGCGGTAGCTGCATCATTCGCCGCTCAGCCAGCGCCTGTTCGGCAAAGGCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTAccc                                                                                                                                 >  2:318761/1‑139 (MQ=255)
   gTCCACGGCGGTAGCTGCATCATTCGCCGCTCAGCCAGCGCCTGTTCGGCAAAGGCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTAccc                                                                                                                                 <  2:972798/138‑1 (MQ=255)
   gTCCACGGCGGTAGCTGCATCATTCGCCGCTCAGCCAGCGCCTGTTCGGCAAAGGCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTAccc                                                                                                                                 >  1:972798/1‑138 (MQ=255)
   gTCCACGGCGGTAGCTGCATCATTCGCCGCTCAGCCAGCGCCTGTTCGGCAAAGGCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCg                                                                                                                                >  2:580788/1‑139 (MQ=255)
    tCCACGGCGGTAGCTGCATCATTCGCCGCTCAGCCAGCGCCTGTTCGGCAAAGGCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGc                                                                                                                               <  1:318761/139‑1 (MQ=255)
         ggcggTAGCTGCATCATTCGCCGCTCAGCCAGCGCCTGTTCGGCAAAGGCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGcc                                                                                                                          >  2:397417/1‑139 (MQ=255)
                    catcatTCGCCGCTCAGCCAGCGCCTGTTCGGCAAAGGCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCg                                                                                                               >  2:569729/1‑139 (MQ=255)
                     atcatTCGCCGCTCAGCCAGCGCCTGTTCGGCAAAGGCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCgg                                                                                                              >  1:380425/1‑139 (MQ=255)
                     atcatTCGCCGCTCAGCCAGCGCCTGTTCGGCAAAGGCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCgg                                                                                                              <  2:1397842/139‑1 (MQ=255)
                                                         gCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTa                                                                                                 >  1:231388/1‑116 (MQ=255)
                                                         gCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTa                                                                                                 <  2:231388/116‑1 (MQ=255)
                                                                  ccTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAAt                                                                 <  2:453918/139‑1 (MQ=255)
                                                                  ccTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAAt                                                                 <  1:1237200/139‑1 (MQ=255)
                                                                          gagCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCG‑TTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGaaa                                                        >  1:1447591/1‑139 (MQ=255)
                                                                           agCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGct                                                                                <  2:1183883/115‑1 (MQ=255)
                                                                           agCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGct                                                                                >  1:1183883/1‑115 (MQ=255)
                                                                            gCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGaaa                                                                   >  1:637465/1‑127 (MQ=255)
                                                                            gCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGaaa                                                                   <  2:637465/127‑1 (MQ=255)
                                                                            gCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGaaaa                                                       >  1:674445/1‑139 (MQ=255)
                                                                            gCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTCCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGaaaa                                                       >  2:689521/1‑139 (MQ=255)
                                                                                cGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCa                                                                                                                              <  1:1387780/64‑1 (MQ=255)
                                                                                cGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCa                                                                                                                              >  2:1387780/1‑64 (MQ=255)
                                                                                cGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAgc                                                   >  1:612336/1‑139 (MQ=255)
                                                                                cGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAgc                                                   <  2:380425/139‑1 (MQ=255)
                                                                                cGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAgc                                                   >  1:76282/1‑139 (MQ=255)
                                                                                cGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGCGTACAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAgc                                                   >  2:1162118/1‑139 (MQ=255)
                                                                                  tttGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAgcgc                                                 >  1:209403/1‑139 (MQ=255)
                                                                                  tttGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAgcgc                                                 >  1:797848/1‑139 (MQ=255)
                                                                                  tttGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAgcgc                                                 <  1:504666/139‑1 (MQ=255)
                                                                                   ttGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAgcgcg                                                <  1:397417/139‑1 (MQ=255)
                                                                                    tGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAgcgcgc                                               <  1:1162466/139‑1 (MQ=255)
                                                                                         cAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCcgtcc                                          <  2:1451150/139‑1 (MQ=255)
                                                                                           gagGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCt                                                                                            <  2:680655/87‑1 (MQ=255)
                                                                                           gagGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCt                                                                                            >  1:680655/1‑87 (MQ=255)
                                                                                            agGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCt                                                                                                        >  1:398965/1‑74 (MQ=255)
                                                                                            agGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCt                                                                                                        <  2:398965/74‑1 (MQ=255)
                                                                                            agGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCcgtccacg                                       >  1:240389/1‑139 (MQ=255)
                                                                                             ggATGTTCCGGATGGTGCG‑TTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCcgtccacgtc                                     <  2:1447591/139‑1 (MQ=255)
                                                                                              gATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCcgtccacgtc                                     <  1:580788/139‑1 (MQ=255)
                                                                                                   tCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCCGTCCACGTCCAGTa                                >  2:292900/1‑139 (MQ=255)
                                                                                                       gATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTgg                                                                                                      >  1:686514/1‑65 (MQ=255)
                                                                                                       gATGGTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTgg                                                                                                      <  2:686514/65‑1 (MQ=255)
                                                                                                          ggTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGc                                                                            >  2:341687/1‑88 (MQ=255)
                                                                                                          ggTGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGc                                                                            <  1:341687/88‑1 (MQ=255)
                                                                                                            tGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTgg                                                                                                      >  2:678072/1‑60 (MQ=255)
                                                                                                            tGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTgg                                                                                                      <  1:678072/60‑1 (MQ=255)
                                                                                                            tGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCgg                                                              <  1:581779/100‑1 (MQ=255)
                                                                                                            tGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCgg                                                              >  2:581779/1‑100 (MQ=255)
                                                                                                            tGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCa                                                            <  1:574303/102‑1 (MQ=255)
                                                                                                            tGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCa                                                            >  2:574303/1‑102 (MQ=255)
                                                                                                            tGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCCGTCCACGTCCAGTAATGCAACCa                       >  2:694726/1‑139 (MQ=255)
                                                                                                            tGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCCGTCCACGTCCAGTAATGCAACCa                       >  1:1409563/1‑139 (MQ=255)
                                                                                                            tGCGTTTGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCCGTCCACGTCCAGTAATGCAACCa                       >  2:1403364/1‑139 (MQ=255)
                                                                                                                  tGCAGCACCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCCGTCCACGTCCAGTAATGCAACCAGCGTca                 <  2:612336/139‑1 (MQ=255)
                                                                                                                   gcagcaCCACTCCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCCGTCCACGTCCAGTAATGCAACCAGCGTcac                <  1:689521/139‑1 (MQ=255)
                                                                                                                    cagcaCCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCCGTCCACGTCCAGTAATGCAACCAGCGt                   <  1:725999/135‑1 (MQ=255)
                                                                                                                    cagcaCCACTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCCGTCCACGTCCAGTAATGCAACCAGCGt                   >  2:725999/1‑135 (MQ=255)
                                                                                                                       caccacTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAg                                                                                              <  1:126421/57‑1 (MQ=255)
                                                                                                                       caccacTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAg                                                                                              >  2:126421/1‑57 (MQ=255)
                                                                                                                            cTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCcgtccacgtcca                                   <  2:470452/111‑1 (MQ=255)
                                                                                                                            cTTCGCCCTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCcgtccacgtcca                                   >  1:470452/1‑111 (MQ=255)
                                                                                                                                 cccTGCTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCCGTCCACGTCCAGTAATGCAACCAGCGTCACATCCGGGAAATGGt  >  2:23222/1‑139 (MQ=255)
                                                                                                                                      |                                                                                                                                     
CTGGTCCACGGCGGTAGCTGCATCATTCGCCGCTCAGCCAGCGCCTGTTCGGCAAAGGCGTCGTAGCCTTTATAGAGCAACGTTTGCAACAGAGGATGTTCCGGATGGTGCGTTTGCAGCACCACTTCGCCCTGTTTACCCGCACGCCCGGCACGACCGGCGACCTGGGTGTAAAGCTGAGCGAAACGCTCTGCCGAGCGAAAATCGGCAGAAAACAGCGCGCCGTCCACGTCCAGTAATGCAACCAGCGTCACATCCGGGAAATGGT  >  NC_000913/4124907‑4125174

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