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	4,490,141	C→T	333 (TAG→TAA)	idnR ←	transcriptional repressor, 5‑gluconate‑binding

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,490,141	0	C	T	100.0%	215.1 / NA	67	333 (TAG→TAA)	idnR	transcriptional repressor, 5‑gluconate‑binding
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (34/33); total (34/33)

GCGTGCGGGCAATTAACAGGGGTTCACTCATGAGATATCCTCCAGTTTCCTGCCTGGAGTATAGGCAACGTCCGGCAAAGAGAATACGTGTAATGAAGAGAAAATAACCTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGGGCGGCCATCCGACCAATATCAAAACGGGGAGTAATTACGCTGGCG  >  NC_000913/4490033‑4490276

ttctgtgtccggcgtgcgggcaattaacaggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATAc                                                                                                           >  1:1596121‑M2/95‑139 (MQ=255)

 tctgtgtccggcgtgcgggcaattaacaggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGc                                                                                                                            <  2:838027‑M2/28‑1 (MQ=255)

 tctgtgtccggcgtgcgggcaattaacaggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGc                                                                                                                            >  1:838027‑M2/94‑121 (MQ=255)

   tgtgtccggcgtgcgggcaattaacaggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCg                                                                                                        <  2:1481323‑M2/48‑1 (MQ=255)

    gtgtccggcgtgcgggcaattaacaggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATaaa                                                                                                                   <  2:72607‑M2/37‑1 (MQ=255)

    gtgtccggcgtgcgggcaattaacaggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATaaa                                                                                                                   >  1:72607‑M2/91‑127 (MQ=255)

          ggcgtgcgggcaattaacaggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGAt                                                                                                                      >  2:1409549‑M2/85‑118 (MQ=255)

          ggcgtgcgggcaattaacaggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGAt                                                                                                                      <  1:1409549‑M2/34‑1 (MQ=255)

            cgtgcgggcaattaacaggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACa                                                                                               <  2:1596121‑M2/57‑1 (MQ=255)

               gcgggcaattaacaggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAg                                                                                                      >  1:669356‑M2/80‑129 (MQ=255)

               gcgggcaattaacaggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAg                                                                                                      <  2:669356‑M2/50‑1 (MQ=255)

                cgggcaattaacaggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAg                                                                                                      >  1:61368‑M2/79‑128 (MQ=255)

                cgggcaattaacaggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAg                                                                                                      <  2:61368‑M2/50‑1 (MQ=255)

                             ggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAAc                                                                                                >  2:358144‑M2/66‑121 (MQ=255)

                             ggggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAAc                                                                                                <  1:358144‑M2/56‑1 (MQ=255)

                              gggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGCTAAATCTGATACCCGAGGTCaa                                                                                                 >  1:159288‑M2/65‑119 (MQ=255)

                              gggttcactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCaa                                                                                                 <  2:159288‑M2/55‑1 (MQ=255)

                                   cactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCt                                                                                                                >  1:1535144‑M2/60‑99 (MQ=255)

                                   cactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCt                                                                                                                <  2:1535144‑M2/40‑1 (MQ=255)

                                   cactcatgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTAtt                                                                        >  2:467220‑M2/60‑139 (MQ=255)

                                         tgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATAccc                                                                                                         <  1:1152500‑M2/47‑1 (MQ=255)

                                         tgagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATAccc                                                                                                         >  2:1152500‑M2/54‑100 (MQ=255)

                                          gagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAg                                                                                                      <  1:421804‑M2/50‑1 (MQ=255)

                                          gagatatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAg                                                                                                      >  2:421804‑M2/53‑102 (MQ=255)

                                             atatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCt                                                                                                                <  2:1252360‑M2/40‑1 (MQ=255)

                                             atatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCt                                                                                                                >  1:1252360‑M2/50‑89 (MQ=255)

                                             atatcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTg                                                              <  2:309397‑M2/90‑1 (MQ=255)

                                              tatcctccaatttcctgcctggagtttaggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGc                                                             <  1:467220‑M2/91‑1 (MQ=255)

                                                tcctccagtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTc                                                           >  1:1202716‑M2/47‑139 (MQ=255)

                                                       gtttcctgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACa                                                    >  2:1627445‑M2/40‑139 (MQ=255)

                                                             tgcctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTggg                                              >  2:176780‑M2/34‑139 (MQ=255)

                                                               cctggagtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGggcg                                            <  1:176780‑M2/108‑1 (MQ=255)

                                                                  ggagtataggcaacgtccggcaaagagaGAAGAG‑AAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGtt                                                                           >  1:1152422‑M2/29‑104 (MQ=255)

                                                                  ggagtataggcaacgtccggcaaagagaGAAGAG‑AAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGtt                                                                           <  2:1152422‑M2/76‑1 (MQ=255)

                                                                    agtataggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGGGCGGCCAt                                       <  2:1202716‑M2/113‑1 (MQ=255)

                                                                        taggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTg                                                                                                               >  2:1536344‑M2/23‑63 (MQ=255)

                                                                        taggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTg                                                                                                               <  1:1536344‑M2/41‑1 (MQ=255)

                                                                        taggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCaa                                                                                                 >  2:1351409‑M2/23‑77 (MQ=255)

                                                                        taggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCaa                                                                                                 <  1:1351409‑M2/55‑1 (MQ=255)

                                                                          ggcaacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGGGCGGCCATCCGAcc                                 <  1:1627445‑M2/119‑1 (MQ=255)

                                                                             aacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATaaa                                                                                                                   <  2:570860‑M2/37‑1 (MQ=255)

                                                                             aacgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATaaa                                                                                                                   >  1:570860‑M2/18‑54 (MQ=255)

                                                                              acgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATc                                                                                                                 >  2:174922‑M2/17‑55 (MQ=255)

                                                                              acgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATc                                                                                                                 <  1:174922‑M2/39‑1 (MQ=255)

                                                                              acgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGGGCGGCCATCCGACCAata                             >  2:674515‑M2/17‑139 (MQ=255)

                                                                              acgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGGGCGGCCATCCGACCAata                             >  1:606405‑M2/17‑139 (MQ=255)

                                                                               cgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATa                                                                                                                     >  1:1514661‑M2/16‑50 (MQ=255)

                                                                               cgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATa                                                                                                                     <  2:1514661‑M2/35‑1 (MQ=255)

                                                                               cgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGggcg                                            >  1:1691298‑M2/16‑123 (MQ=255)

                                                                               cgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGggcg                                            <  2:1691298‑M2/108‑1 (MQ=255)

                                                                               cgtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGGGCGGCCATCCGACCAatat                            >  2:644394‑M2/16‑139 (MQ=255)

                                                                                gtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGc                                                                                                                            >  2:1644086‑M2/15‑42 (MQ=255)

                                                                                gtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGc                                                                                                                            <  1:1644086‑M2/28‑1 (MQ=255)

                                                                                gtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGtgtt                                                                                          <  2:1291331‑M2/62‑1 (MQ=255)

                                                                                gtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGtgtt                                                                                          >  1:1291331‑M2/15‑76 (MQ=255)

                                                                                gtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGGGCGGCCATCCGa                                   <  2:1110690‑M2/117‑1 (MQ=255)

                                                                                gtccggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGGGCGGCCATCCGa                                   >  1:1110690‑M2/15‑131 (MQ=255)

                                                                                    ggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGtgtt                                                                                          <  2:639856‑M2/62‑1 (MQ=255)

                                                                                    ggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGtgtt                                                                                          >  1:639856‑M2/11‑72 (MQ=255)

                                                                                    ggcaaagagaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGCGATCGTTATTTTTAATTTTGCTCAGCAACATTTGGGCGGCCATCCGACCAATATCaaaa                       >  2:1399691‑M2/11‑139 (MQ=255)

                                                                                           agaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGtgttg                                                                                         >  2:220358‑M2/4‑66 (MQ=255)

                                                                                           agaGAAGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGtgttg                                                                                         <  1:220358‑M2/63‑1 (MQ=255)

                                                                                               aaGAGAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGGGCGGCCATCCGACCAATATCAAAACGGGGAGTAAt            >  1:896172/1‑139 (MQ=255)

                                                                                                agagAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGtt                                                                           >  2:1218291/1‑75 (MQ=255)

                                                                                                agagAAAATAACTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGtt                                                                           <  1:1218291/75‑1 (MQ=255)

                                                                                                         aaCTTAAAGCGTGTTGCCGTTATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGggc                                             <  1:1018597/96‑1 (MQ=255)

                                                                                                         aaCTTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGGGCGGCCATCCGACCAATATCAAAACGGGGAGTAATTACGCTGGCg  <  1:674515/139‑1 (MQ=255)

GCGTGCGGGCAATTAACAGGGGTTCACTCATGAGATATCCTCCAGTTTCCTGCCTGGAGTATAGGCAACGTCCGGCAAAGAGAATACGTGTAATGAAGAGAAAATAACCTAAAGCGTGTTGCCGTGATAAATCTGATACCCGAGGTCAACAGTGTTGTGGTTGTGATCGTTATTTTTAATTTTGCTCAGCAACATTTGGGCGGCCATCCGACCAATATCAAAACGGGGAGTAATTACGCTGGCG  >  NC_000913/4490033‑4490276

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