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
A5 F1 I2 R1	77	34.8	1608548	95.0%	1528120	114.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	585,317	C→T	W106* (TGG→TAG)	ompT ←	DLP12 prophage, outer membrane protease VII, outer membrane protein 3b

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	585,317	0	C	T	100.0%	123.6 / NA	36	W106* (TGG→TAG)	ompT	DLP12 prophage, outer membrane protease VII, outer membrane protein 3b
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (18/18); total (18/18)

TCCCAGGCGGTAATTGGGTTCGTTGAGGAGCCAGCCTTTGATATTCAGATCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCCAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTGCACCTTTAATAATTGCAGCGTTATTGAATTTCC  >  NC_000913/585187‑585443

tCCCAGGCGGTAATTGGGTTCGTTGAGGAGCCAGCCTTTGATATTCAGATCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGa                                                                                                                        >  1:703558/1‑139 (MQ=255)

          tAATTGGGTTCGTTGAGGAGCCAGCCTTTGATATTCAGATCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCatat                                                                                                              >  1:296239/1‑139 (MQ=255)

                    cGTTGAGGAGCCAGCCTTTGATATTCAGATCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCg                                                                                                    >  2:503464/1‑139 (MQ=255)

                     gTTGAGGAGCCAGCCTTTGATATTCAGATCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCgg                                                                                                   <  1:661753/139‑1 (MQ=255)

                          ggagCCAGCCTTTGATATTCAGATCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGcc                                                                                              <  2:296239/139‑1 (MQ=255)

                              ccagccTTTGATATTCAGATCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCgaga                                                                                          <  2:723184/139‑1 (MQ=255)

                              ccagccTTTGATATTCAGATCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCgaga                                                                                          <  1:503464/139‑1 (MQ=255)

                                               gATCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCagcagc                                                                         <  1:714520/139‑1 (MQ=255)

                                                aTCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCagcagc                                                                         <  2:737814/138‑1 (MQ=255)

                                                aTCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCagcagc                                                                         >  1:737814/1‑138 (MQ=255)

                                                aTCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGcc                                                                        >  2:502539/1‑139 (MQ=255)

                                                aTCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGcc                                                                        >  1:60996/1‑139 (MQ=255)

                                                  cAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGcccc                                                                      <  2:220006/139‑1 (MQ=255)

                                                        cGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCACCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCgataga                                                                >  1:215078/1‑139 (MQ=255)

                                                                     gAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATc                                                   <  1:502539/139‑1 (MQ=255)

                                                                           tgtATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGAc                                                                                                                   <  1:500167/69‑1 (MQ=255)

                                                                           tgtATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGAc                                                                                                                   >  2:500167/1‑69 (MQ=255)

                                                                           tgtATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATcc                                             >  2:598149/1‑139 (MQ=255)

                                                                             tATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCgat                                                                   <  1:635587/115‑1 (MQ=255)

                                                                             tATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCgat                                                                   >  2:635587/1‑115 (MQ=255)

                                                                             tATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCa                                           >  1:264460/1‑139 (MQ=255)

                                                                                     tgtCTACTTTCTTCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTg                                   <  1:151544/139‑1 (MQ=255)

                                                                                     tgtCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTg                                   >  1:192741/1‑139 (MQ=255)

                                                                                     tgtCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTg                                   <  2:801327/139‑1 (MQ=255)

                                                                                       tCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGccc                                                                       <  2:52771/101‑1 (MQ=255)

                                                                                       tCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGccc                                                                       >  1:52771/1‑101 (MQ=255)

                                                                                       tCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTGCa                                 <  1:598149/139‑1 (MQ=255)

                                                                                       tCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTGCa                                 >  1:118021/1‑139 (MQ=255)

                                                                                       tCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCACCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTGCa                                 <  2:215078/139‑1 (MQ=255)

                                                                                          aCTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTGCACCt                              <  2:192741/139‑1 (MQ=255)

                                                                                              tCATCCGTCCAGGTTCCGGGGTTACTGGAGTCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTGCACCTTtaa                          >  2:535976/1‑139 (MQ=255)

                                                                                                     tCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTGGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTGCa                                 >  1:530145/1‑125 (MQ=255)

                                                                                                     tCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCa                                           <  2:42685/115‑1 (MQ=255)

                                                                                                     tCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCa                                           >  1:42685/1‑115 (MQ=255)

                                                                                                     tCCAGGTTCCGGGGTTACTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTGCa                                 <  2:530145/125‑1 (MQ=255)

                                                                                                                      cTGGAATCCATCTAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTGCACCTTTAATAATTGCAGCGTTATTGAATTTcc  >  2:295837/1‑139 (MQ=255)

                                                                                                                           atccatctAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTGCACCTTTAATAATTGCa                  >  1:724671/1‑118 (MQ=255)

                                                                                                                           atccatctAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTGCACCTTTAATAATTGCa                  <  2:724671/118‑1 (MQ=255)

TCCCAGGCGGTAATTGGGTTCGTTGAGGAGCCAGCCTTTGATATTCAGATCAAATTCGTTGGCATAATTGAGTTGTGTATCAGGGTGTCTACTTTCATCCGTCCAGGTTCCGGGGTTACTGGAATCCATCCAGTCCTGATCGACCATATTGCCACCTCGGCTGCCGAGAGTTGTCCAGCCAGCAGCCCCGATAGATATCTGGGGCATCAAATCCCAATTAATTGCACCTTTAATAATTGCAGCGTTATTGAATTTCC  >  NC_000913/585187‑585443

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A