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
A7 F1 I1 R1 776 60.0 3074904 90.1% 2770488 104.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,986,686 C→T *399* (TAG→TAA)  hemY ← putative protoheme IX synthesis protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,986,6860CT100.0% 176.3 / NA 55*399* (TAG→TAA) hemYputative protoheme IX synthesis protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (29/26);  total (29/26)

TGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCGGCAAGCCATGCGTAATCGTA  >  NC_000913/3986553‑3986799
                                                                                                                                     |                                                                                                                 
tGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACtg                                                                                                              >  1:1223421/1‑139 (MQ=255)
tGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACtg                                                                                                              >  1:20258/1‑139 (MQ=255)
tGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACtg                                                                                                              >  1:1346882/1‑139 (MQ=255)
                tGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGc                                                                                              <  1:696351/139‑1 (MQ=255)
                   aGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACtgtg                                                                                                            <  2:1406535/122‑1 (MQ=255)
                   aGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACtgtg                                                                                                            >  1:1406535/1‑122 (MQ=255)
                        ccACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCG‑TTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCggg                                                                                                       <  2:1314474/121‑1 (MQ=255)
                        ccACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCG‑TTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCggg                                                                                                       >  1:1314474/1‑121 (MQ=255)
                                         gACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTcccggc                                                                     >  1:72047/1‑137 (MQ=255)
                                          aCCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACg                                                                    >  2:837519/1‑139 (MQ=255)
                                          aCCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACg                                                                    >  1:1212231/1‑139 (MQ=255)
                                           ccTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGc                                                                   <  1:566559/139‑1 (MQ=255)
                                              gTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGc                                                                                                          <  2:340859/97‑1 (MQ=255)
                                              gTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGc                                                                                                          >  1:340859/1‑97 (MQ=255)
                                                      gCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGc                                                        <  1:837519/139‑1 (MQ=255)
                                                         tGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGc                                                                                              <  2:610570/98‑1 (MQ=255)
                                                         tGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGc                                                                                              >  1:610570/1‑98 (MQ=255)
                                                               gTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCgg                                               <  2:1223421/139‑1 (MQ=255)
                                                                    aaGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTtgt                                          <  1:761039/139‑1 (MQ=255)
                                                                        gCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCa                                                                                 >  2:1139459/1‑96 (MQ=255)
                                                                        gCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCa                                                                                 <  1:1139459/96‑1 (MQ=255)
                                                                        gCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCa                                                          >  1:1501495/1‑119 (MQ=255)
                                                                        gCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCa                                                          <  2:1501495/119‑1 (MQ=255)
                                                                        gCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAg                                      >  1:589025/1‑139 (MQ=255)
                                                                        gCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGAGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAg                                      >  2:72190/1‑139 (MQ=255)
                                                                          aGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTcgcg                                                                       <  1:250373/104‑1 (MQ=255)
                                                                          aGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTcgcg                                                                       >  2:250373/1‑104 (MQ=255)
                                                                           ggCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAattact                                                                                                               >  2:700300/1‑63 (MQ=255)
                                                                           ggCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAattact                                                                                                               <  1:700300/63‑1 (MQ=255)
                                                                           ggCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACtgtg                                                                                                            >  2:1319391/1‑66 (MQ=255)
                                                                           ggCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACtgtg                                                                                                            <  1:1319391/66‑1 (MQ=255)
                                                                            gCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTg                                  >  1:557828/1‑139 (MQ=255)
                                                                                      aTGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTAtt                                                                                                  <  1:1021549/65‑1 (MQ=255)
                                                                                      aTGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTAtt                                                                                                  >  2:1021549/1‑65 (MQ=255)
                                                                                      aTGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGt                        >  1:128050/1‑139 (MQ=255)
                                                                                            cAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCGGCaa                  >  2:1308532/1‑139 (MQ=255)
                                                                                              ggAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCGGCAAGc                <  2:128050/139‑1 (MQ=255)
                                                                                                 aGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCa                                                                                 >  1:1419552/1‑71 (MQ=255)
                                                                                                 aGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCa                                                                                 <  2:1419552/71‑1 (MQ=255)
                                                                                                 aGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCGGCAAGCCAt             <  2:1346882/139‑1 (MQ=255)
                                                                                                   gCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCGGCAAGCCATGc           <  2:1198597/139‑1 (MQ=255)
                                                                                                     cccGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCGGCAAGCCATGCGt         >  1:1190282/1‑139 (MQ=255)
                                                                                                       cGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGc                                              >  1:868553/1‑100 (MQ=255)
                                                                                                       cGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGc                                              <  2:868553/100‑1 (MQ=255)
                                                                                                       cGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCGGCAAg                 <  1:1169285/129‑1 (MQ=255)
                                                                                                       cGGAGGTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCGGCAAg                 >  2:1169285/1‑129 (MQ=255)
                                                                                                            gTGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCGGCAAGCCATGCGTAATCGTa  <  1:1308532/139‑1 (MQ=255)
                                                                                                             tGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTcg                                                                         >  2:920138/1‑67 (MQ=255)
                                                                                                             tGCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTcg                                                                         <  1:920138/67‑1 (MQ=255)
                                                                                                              gCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCa                                                          <  2:82814/81‑1 (MQ=255)
                                                                                                              gCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCa                                                          >  1:82814/1‑81 (MQ=255)
                                                                                                              gCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCGGCAAGcc               <  2:405669/124‑1 (MQ=255)
                                                                                                              gCTTGCCTCCGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCGGCAAGcc               >  1:405669/1‑124 (MQ=255)
                                                                                                                       cGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCACACCGTCGCGACGCATAGCTg                                                            <  2:904070/70‑1 (MQ=255)
                                                                                                                       cGGGTGAGAAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTg                                                            >  1:904070/1‑70 (MQ=255)
                                                                                                                             agaAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCgg                     <  2:1313506/103‑1 (MQ=255)
                                                                                                                             agaAGGAATTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCgg                     >  1:1313506/1‑103 (MQ=255)
                                                                                                                                     |                                                                                                                 
TGGACACAACGTTGAGTGAAGCACCCACTTGTTGTCATACAGACCTGTTTTAACGCCTGCTCCGTAATAAGAGCAGGCGTTTTTTTATGTATCAGGAAGGCCCCGGAGGTGCTTGCCTCCGGGTGAGAAGGAACTACTGTGGCGGGTTATTCTGCAACGTTAACATCAAACCGTCGCGACGCATAGCTGCAGCTTCTTCCGGCTTGTGCAGTCTGTCCAGCGCGTCGGCAAGCCATGCGTAATCGTA  >  NC_000913/3986553‑3986799

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A