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
A34 F5 I0 R1	408	67.6	2494072	96.8%	2414261	139.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	1,256,416	A→T	87.8%	intergenic (‑464/+305)	ycgV ← / ← ychF	putative adhesin/catalase inhibitor protein; ATPase, K+‑dependent, ribosome‑associated

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,256,416	0	A	T	87.8%	122.5 / 8.5	41	intergenic (‑464/+305)	ycgV/ychF	putative adhesin/catalase inhibitor protein; ATPase, K+‑dependent, ribosome‑associated
Reads supporting (aligned to +/- strand): ref base A (3/2); new base T (15/21); total (18/23)
Fisher's exact test for biased strand distribution p-value = 6.38e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01

CTAATTAGTTATGGGAATTTCGCTTGATGTATCTGCATAACAAAAACAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTACTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATCACTGCTAATGAGATATCCGGCATCTGAACACTTATGTCTTTAATTAT  >  NC_000913/1256271‑1256564

cTAATTAGTTATGGGAATTTCGCTTGATGTATCTGCATAACAAAAACAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTg                                                                                                                                                   <  2:473172/149‑1 (MQ=255)

  aaTTAGTTATGGGAATTTCGCTTGATGTATCTGCATAACAAAAACAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGt                                                                                                                                                 >  1:624570/1‑149 (MQ=255)

                       ttGATGTATCTGCATAACAAAAACAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTACTGGTTATCATTTTCATCTTGCCAGc                                                                                                                            >  1:554123/1‑149 (MQ=255)

                            gTATCTGCATAACAAAAACAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATAtt                                                                                                                       <  3:44387/149‑1 (MQ=255)

                                 tGCATAACAAAAACAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGc                                                                                                                  >  3:615186/1‑149 (MQ=255)

                                    aTAACAAAAACAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTg                                                                                                               >  2:383926/1‑149 (MQ=255)

                                     tAACAAAAACAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGa                                                                                                              <  3:295027/149‑1 (MQ=255)

                                     tAACAAAAACAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTACTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGa                                                                                                              <  2:554123/149‑1 (MQ=255)

                                       aCAAAAACAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATc                                                                                                            <  2:180465/149‑1 (MQ=255)

                                       aCAAAAACAATATGCGCCACTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATc                                                                                                            <  2:10282/149‑1 (MQ=255)

                                        cAAAAACAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCa                                                                                                           >  4:162374/1‑149 (MQ=255)

                                          aaaaCAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAAt                                                                                                         <  4:111008/149‑1 (MQ=255)

                                           aaaCAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAAtt                                                                                                        >  2:167415/1‑149 (MQ=255)

                                           aaaCAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAAtt                                                                                                        <  1:531748/149‑1 (MQ=255)

                                                atatGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCCATTTTGAt                                                                                                   >  2:536761/1‑149 (MQ=255)

                                                      gcCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCt                                                                                              <  4:561705/148‑1 (MQ=255)

                                                      gcCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCt                                                                                              >  3:561705/1‑148 (MQ=255)

                                                      gcCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATGGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCtg                                                                                             >  3:516741/1‑149 (MQ=255)

                                                           ttttGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAg                                                                                        <  3:162374/149‑1 (MQ=255)

                                                            tttGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGGAgg                                                                                       <  1:536761/149‑1 (MQ=255)

                                                               gCATTACTAATAAGAAAAAGCAAAAAACACCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTTTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAggggg                                                                                    <  2:346418/149‑1 (MQ=255)

                                                                        ataaGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATgtgt                                                                           >  2:595927/1‑149 (MQ=255)

                                                                          aaGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAg                                                                         <  4:325238/149‑1 (MQ=255)

                                                                            gAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTg                                                                       >  3:42173/1‑149 (MQ=255)

                                                                            gAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTg                                                                       <  2:624570/149‑1 (MQ=255)

                                                                            gAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTg                                                                       >  1:160597/1‑149 (MQ=255)

                                                                               aaaGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATa                                                                    >  2:425510/1‑149 (MQ=255)

                                                                                                tatTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTtata                                                   <  1:425510/149‑1 (MQ=255)

                                                                                                  ttCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTACTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATc                                                 >  4:343404/1‑149 (MQ=255)

                                                                                                      tttttGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATCACTg                                             >  4:90664/1‑149 (MQ=255)

                                                                                                            gTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATCACTGCTAATg                                       <  1:383926/149‑1 (MQ=255)

                                                                                                            gTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATCACTGCTAATg                                       <  4:51637/149‑1 (MQ=255)

                                                                                                                aTGGGTTTTCTGGCCTATCGTTGTTATTGTGCTACTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATCACTGCTAATGAGat                                   >  4:10578/1‑149 (MQ=255)

                                                                                                                         cTGGCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATCACTGCTAATGAGATATCCGGCAt                          <  1:595927/149‑1 (MQ=255)

                                                                                                                           ggCCTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATCACTGCTAATGAGATATCCGGCATCt                        <  2:400022/149‑1 (MQ=255)

                                                                                                                              cTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATCACTGCTAATGAGATATCCGGCATCTGaa                     <  3:377599/149‑1 (MQ=255)

                                                                                                                              cTATCGTTGTTATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATCACTGCTAATGAGATATCCGGCATCTGaa                     <  1:268384/149‑1 (MQ=255)

                                                                                                                                   gttgttATTGTGCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATCACTGCTAATGAGATATCCGGCATCTGAACACtt                >  1:499168/1‑149 (MQ=255)

                                                                                                                                            gtgCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTa                                                          <  2:301864/98‑1 (MQ=255)

                                                                                                                                            gtgCTTCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGAGCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTa                                                          >  1:301864/1‑98 (MQ=255)

                                                                                                                                             tgCTACTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATCACTGCTAATGAGATATCCGGCATCTGAACACTTATGTCTTTaa      <  3:10578/149‑1 (MQ=255)

                                                                                                                                                 aCTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATCACTGCTAATGAGATATCCGGCATCTGAACACTTATGTCTTTAattat  <  3:343404/149‑1 (MQ=255)

CTAATTAGTTATGGGAATTTCGCTTGATGTATCTGCATAACAAAAACAATATGCGCCATTTTTGCATTACTAATAAGAAAAAGCAAAAAACATCGATATTCATTTTTGGTCAATGGGTTTTCTGGCCTATCGTTGTTATTGTGCTACTGGTTATCATTTTCATCTTGCCAGCATATTGGAGCGTGATCAATTTTGATCAGCTGTGAAGGGGGCTGATGTGTAGTGATACAAAAACTTACGTTATATCACTGCTAATGAGATATCCGGCATCTGAACACTTATGTCTTTAATTAT  >  NC_000913/1256271‑1256564

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