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
A0 F0 I1 R1	715	38.4	1606192	96.6%	1551581	120.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,614,789	C→T	intergenic (‑86/‑15)	sad ← / → yneJ	succinate semialdehyde dehydrogenase, NAD(P)+‑dependent/putative DNA‑binding transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,614,789	0	C	T	100.0%	103.1 / NA	33	intergenic (‑86/‑15)	sad/yneJ	succinate semialdehyde dehydrogenase, NAD(P)+‑dependent/putative DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (20/13); total (20/13)

TGGCAGGATTTATCGAAATTGCATGAGTTGCCGGAGTAATGGTCATCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCACGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGGCAGCATAACCCAGGCTGCAGCAAAAGTGCATCGCGTGCCGTCGAATCTCACTACCCGTCTGCGCCAGCTGGAAA  >  NC_000913/1614658‑1614924

tGGCAGGATTTATCGAAATTGCATGAGTTGCCGGAGTAATGGTCATCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCga                                                                                                                                  <  1:799803/139‑1 (MQ=255)

 ggCAGGATTTATCGAAATTGCATGAGTTGCCGGAGTAATGGTCATCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCgag                                                                                                                                 <  1:799151/139‑1 (MQ=255)

               aaaTTGCATGAGTTGCCGGAGTAATGGTCATCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCt                                                                                                                   <  2:165128/139‑1 (MQ=255)

                 aTTGCATGAGTTGCCGGAGTAATGGTCATCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGa                                                                                                                 >  1:403159/1‑139 (MQ=255)

                           ttGCCGGAGTAATGGTCATCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGga                                                                                                       <  2:668494/139‑1 (MQ=255)

                             gCCGGAGTAATGGTCATCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGgaga                                                                                                     >  2:287833/1‑139 (MQ=255)

                             gCCGGAGTAATGGTCATCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAACCGAGAATGCTa                                                                                                                          <  2:669160/118‑1 (MQ=255)

                             gCCGGAGTAATGGTCATCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAACCGAGAATGCTa                                                                                                                          >  1:669160/1‑118 (MQ=255)

                                           cATCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGtt                                                                                       >  1:36000/1‑139 (MQ=255)

                                            aTCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTg                                                                                      >  2:792820/1‑139 (MQ=255)

                                             tCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGgag                                                                                                      >  1:330354/1‑122 (MQ=255)

                                             tCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGgag                                                                                                      <  2:330354/122‑1 (MQ=255)

                                              cGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGcc                                                                                    >  2:83313/1‑139 (MQ=255)

                                                           ttATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGgcagca                                                                       >  2:206099/1‑139 (MQ=255)

                                                           ttATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGgcagca                                                                       <  2:596881/139‑1 (MQ=255)

                                                                 gTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGGCAGCATAAccc                                                                 >  2:733977/1‑139 (MQ=255)

                                                                               aTACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCgaga                                                                                                                                <  1:377947/62‑1 (MQ=255)

                                                                               aTACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCgaga                                                                                                                                >  2:377947/1‑62 (MQ=255)

                                                                                  cGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGGCAGCATAACCCAGGCTGCAGCAAAAGTg                                                >  2:411390/1‑139 (MQ=255)

                                                                                         ttACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGGCAGCATAACCCAGGCTGCAGCAAAAGTGCATcgcg                                         >  2:429082/1‑139 (MQ=255)

                                                                                           aCTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGGCAGCATAACCCAGGCTGCAGCAAAAGTGCATCGCGTg                                       <  2:403159/139‑1 (MQ=255)

                                                                                            ctctTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGAAGTTCATCGCGGTCGCCGAAGCTGGCAGCATAACCCAGGCTGCAGCAAAAGTGCATCGCGTGc                                      >  1:351751/1‑139 (MQ=255)

                                                                                              ctTGCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGGCAGCATAACCCAGGCTGCAGCAAAAGTGCATCGCGTGCCg                                    <  1:411390/139‑1 (MQ=255)

                                                                                                 gCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTa                                                                                                                          <  1:218462/50‑1 (MQ=255)

                                                                                                 gCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTa                                                                                                                          >  2:218462/1‑50 (MQ=255)

                                                                                                 gCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGGCAGCATAACCCAGGCTGCAGCAAAAGTGCATCGCGTGCCGTCg                                 >  1:395710/1‑139 (MQ=255)

                                                                                                 gCTTTAAAATGAATAATATTAAGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGGCAGCATAACCCAGGCTGCAGCAAAAGTGCATCGCGTGCCGTCg                                 >  2:212026/1‑139 (MQ=255)

                                                                                                                      aGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGGCAGCATAACCCAGGCTGCAGCAAAAGTGCATCGCGTGCCGTCGAATCTCACTACCCGTCTgcgc            >  2:119572/1‑139 (MQ=255)

                                                                                                                      aGCCACTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGGCAGCATAACCCAGGCTGCAGCAAAAGTGCATCGCGTGCCGTCGAATCTCACTACCCGTCTgcgc            >  1:266579/1‑139 (MQ=255)

                                                                                                                           cTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCt                                                                              >  2:233363/1‑68 (MQ=255)

                                                                                                                           cTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCt                                                                              <  1:233363/68‑1 (MQ=255)

                                                                                                                           cTTATTCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGGCAGCATAACCCAGGCTGCAGCAAAAGTGCATCGCGTGCCGTCGAATCTCACTACCCGTCTGCGCCAGCt       >  2:112476/1‑139 (MQ=255)

                                                                                                                                tCATGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGGCAGCATAACCCAGGCTGCAGCAAAAGTGCATCGCGTGCCGTCGAATCTCACTTCCCGTCTGCGCCAGCTGGaaa  <  2:351751/139‑1 (MQ=255)

TGGCAGGATTTATCGAAATTGCATGAGTTGCCGGAGTAATGGTCATCGGGGTATCTCCTTTATGAGTCATGGTATGAAGATACGCAGATTTACTCTTGCTTTAAAATGAATAATATTAAGCCACTTATTCACGAATCGAGAATGCTATGGATCTGACCCAACTGGAGATGTTCAACGCGGTTGCCGAAGCTGGCAGCATAACCCAGGCTGCAGCAAAAGTGCATCGCGTGCCGTCGAATCTCACTACCCGTCTGCGCCAGCTGGAAA  >  NC_000913/1614658‑1614924

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