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 I2 R1 59 52.6 2411032 94.1% 2268781 113.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,060,280 (T)9→8 intergenic (+50/‑167) typA → / → yihL GTP‑binding protein/putative DNA‑binding transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,060,2720T.100.0% 218.3 / NA 53intergenic (+42/‑175)typA/yihLGTP‑binding protein/putative DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (22/31);  total (22/31)

GTAGAAGTGACTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGGTTTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTCACAATTATCTGCAAAGTCATACGCCGTTAATTGCTTTCTTTTTTGGCGTAAG  >  NC_000913/4060138‑4060405
                                                                                                                                      |                                                                                                                                     
gTAGAAGTGACTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGGttttt                                                                                                                                   <  1:705933/139‑1 (MQ=255)
gTAGAAGTGACTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGGttttt                                                                                                                                   <  2:481643/139‑1 (MQ=255)
     aGTGACTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGGtttttttttc                                                                                                                              >  1:579733/1‑138 (MQ=255)
          cTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTc                                                                                                                        >  2:227143/1‑139 (MQ=255)
                    tATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGNCNCNNCGCCAANCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGcac                                                                                                              <  1:1149144/139‑1 (MQ=255)
                          tATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAAt                                                                                                        <  1:227143/139‑1 (MQ=255)
                           aTTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAAGCTGCCAGCGATGGCAGG‑CTTTTTTTGCCTGTCGTGAGCGCACACCAATg                                                                                                       >  1:1180937/1‑139 (MQ=255)
                            ttCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGGttt                                                                                                                                     <  1:30021/109‑1 (MQ=255)
                            ttCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGGttt                                                                                                                                     >  2:30021/1‑109 (MQ=255)
                            ttCGTAAACGTCACCTGACGGAAAACGATCATCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGc                                                                                                      >  1:1185567/1‑139 (MQ=255)
                              cGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGcaca                                                                                                             <  1:33946/130‑1 (MQ=255)
                              cGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGcaca                                                                                                             >  2:33946/1‑130 (MQ=255)
                               gTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAg                                                                                                   <  1:385095/139‑1 (MQ=255)
                                tAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGt                                                                                                  >  2:311476/1‑139 (MQ=255)
                                 aaaCGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTa                                                                                                 <  1:922000/139‑1 (MQ=255)
                                     gTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGCGTAtctc                                                                                             <  2:1193111/139‑1 (MQ=255)
                                        aCCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCt                                                                                          >  1:1128515/1‑139 (MQ=255)
                                           tGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTtat                                                                                       <  2:1180937/139‑1 (MQ=255)
                                              cGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAg                                                                                    >  1:828482/1‑139 (MQ=255)
                                                 aaaaCGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCt                                                                                 <  2:338061/139‑1 (MQ=255)
                                                 aaaaCGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCt                                                                                 >  1:338061/1‑139 (MQ=255)
                                                 aaaaCGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCt                                                                                 <  2:969097/139‑1 (MQ=255)
                                                    aCGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCtgtg                                                                              <  2:579625/139‑1 (MQ=255)
                                                      gATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGt                                                                            <  2:1128515/139‑1 (MQ=255)
                                                      gATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGt                                                                            <  1:944614/139‑1 (MQ=255)
                                                        tcgtcgCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTa                                                                          <  1:889969/139‑1 (MQ=255)
                                                        tcgtcgCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTa                                                                          <  1:321505/139‑1 (MQ=255)
                                                        tcatcgCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTa                                                                          <  2:1185567/136‑1 (MQ=255)
                                                         cgtcgCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTAc                                                                         <  2:588488/139‑1 (MQ=255)
                                                                gcgcCAACCGCGCACCGAAAGACGATTATTTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATa                                                                  >  1:881115/1‑139 (MQ=255)
                                                                             aCCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTca                                                     <  1:187412/139‑1 (MQ=255)
                                                                                                 gTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCtgtg                                                                              >  1:829374/1‑94 (MQ=255)
                                                                                                 gTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCtgtg                                                                              <  2:829374/94‑1 (MQ=255)
                                                                                                 gTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCtg                                                                                >  1:84637/1‑92 (MQ=255)
                                                                                                 gTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCtg                                                                                <  2:84637/92‑1 (MQ=255)
                                                                                                 gTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCaa                                                                    >  2:373836/1‑104 (MQ=255)
                                                                                                 gTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCaa                                                                    <  1:373836/104‑1 (MQ=255)
                                                                                                 gTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTCACAATTATCTGCAAAGTCATa                                 <  1:598200/139‑1 (MQ=255)
                                                                                                  ttttttAGTCATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTCACAATTATCTGCAAAGTCATAc                                <  1:311476/139‑1 (MQ=255)
                                                                                                           cATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTtat                                                                                       >  2:691399/1‑75 (MQ=255)
                                                                                                           cATAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTtat                                                                                       <  1:691399/75‑1 (MQ=255)
                                                                                                            aTAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTtat                                                                                       <  1:645034/74‑1 (MQ=255)
                                                                                                            aTAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTtat                                                                                       >  2:645034/1‑74 (MQ=255)
                                                                                                            aTAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGt                                                                            <  1:512883/85‑1 (MQ=255)
                                                                                                            aTAAAAAACCTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGt                                                                            >  2:512883/1‑85 (MQ=255)
                                                                                                                    ccTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTAtc                                                                                               >  2:980180/1‑58 (MQ=255)
                                                                                                                    ccTGCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTAtc                                                                                               <  1:980180/58‑1 (MQ=255)
                                                                                                                       gCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTAtctc                                                                                             <  1:665669/57‑1 (MQ=255)
                                                                                                                       gCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTAtctc                                                                                             >  2:665669/1‑57 (MQ=255)
                                                                                                                       gCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTCACAATTATCTGCAAAGTCATAc                                <  1:663457/118‑1 (MQ=255)
                                                                                                                       gCCAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTCACAATTATCTGCAAAGTCATAc                                >  2:663457/1‑118 (MQ=255)
                                                                                                                        ccAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTCACAATTATCTGCa                                         >  1:802855/1‑108 (MQ=255)
                                                                                                                        ccAGCGATGGCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTCACAATTATCTGCa                                         <  2:802855/108‑1 (MQ=255)
                                                                                                                        ccAGCGATGGCAGG‑‑TTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTAc                                                                         >  2:339502/1‑75 (MQ=255)
                                                                                                                        ccAGCGATGGCAGG‑‑TTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTAc                                                                         <  1:339502/75‑1 (MQ=255)
                                                                                                                                ggCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGt                                                                                   <  2:424935/58‑1 (MQ=255)
                                                                                                                                ggCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGt                                                                                   >  1:424935/1‑58 (MQ=255)
                                                                                                                                ggCAGG‑TTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTCACAATTATCTGCAAAGTCATACGCCGTTAATTACTTTCTTTTTTGgcgtaag  >  1:877328/1‑139 (MQ=255)
                                                                                                                                      |                                                                                                                                     
GTAGAAGTGACTCCGACCTCTATCCGTATTCGTAAACGTCACCTGACGGAAAACGATCGTCGCCGCGCCAACCGCGCACCGAAAGACGATTAATTTCGTTTTTTAGTCATAAAAAACCTGCCAGCGATGGCAGGTTTTTTTTTGCCTGTCGTGAGCGCACACCAATGCGAGTATCTCCCTTATAAGTCTGTGGTTACGTCAATAGAGAGCTTTGTCACAATTATCTGCAAAGTCATACGCCGTTAATTGCTTTCTTTTTTGGCGTAAG  >  NC_000913/4060138‑4060405

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