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 |
|
A23 F148 I1 R1
|
14 |
45.7 |
1660340 |
90.3% |
1499287 |
142.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,560,455 |
+G |
intergenic (‑2/+1) |
glpR ← / ← glpR |
pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,560,455 | 1 | . | G | 94.9%
| 109.6
/ ‑0.1
| 39 | intergenic (‑2/+1) | glpR/glpR | pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon/pseudogene, DNA‑binding transcriptional repressor;regulator; Energy metabolism, carbon: Anaerobic respiration; repressor of the glp operon |
| Reads supporting (aligned to +/- strand): ref base . (1/1); new base G (21/16); total (22/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.57e-01 |
ATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑C‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGT > NC_000913/3560317‑3560583
|
aTAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAAACGAACTGGAAGGCAGAGCCGCGCCGCCGTG‑AAGG‑cgcag > 1:96345/1‑139 (MQ=255)
cgcggcggcgAGCCATTGGGCGTTCGCCGCGCCACTTTGCGGGCGAGGCGCTCCGTCTCGTCGGTCTGGGTGGCCGTGCGTGCGGGCCACGGCGTGGTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGAt < 2:720608/139‑1 (MQ=255)
cAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCAGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCa > 1:702936/1‑143 (MQ=255)
ggggcggtGGGGATTGGCGCCGCCGCTTGGCGGGCGATGCGCTCGTTGTCGTCGGTCTGGGTGGCCTTGCGATCGTGCCGCGGCGTGTTAACCGGACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTg < 2:158921/136‑1 (MQ=255)
tGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGT‑CGCAGGATCAGGTTTTGCTCCGcc > 1:201838/1‑143 (MQ=255)
gATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCGTCGGACTGGGTGGCCTGGTGGTCGTGCAACGGCGGGGTAACCGGACTGGAAGGCAGCGCCGCAGCGGCAGG‑ATGG‑CGCAGGAGCAGGTGTTGCACCGCCAggc > 2:412024/1‑141 (MQ=255)
tttGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCCTG‑ATGG‑CGCAGGATCAGGGTTTGCTCTGCCAGCTCa > 2:435099/1‑143 (MQ=255)
ccTCGGCCATTTTCCGGGCTGTGCGCGCGTTTTGTTCGCTCTGGGTTGCCTTGCGATCGTGCCGCGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGGTG‑CAGGCTCAGGTTTTGCTCCGCCAGCTCATTg < 2:677537/142‑1 (MQ=255)
tCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAg > 1:438592/1‑143 (MQ=255)
tCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAg > 2:686400/1‑143 (MQ=255)
tCCGCCACTTTGCGGGCGATGCGCTCCTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAg < 1:166584/143‑1 (MQ=255)
cGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGGTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGt > 1:167039/1‑143 (MQ=255)
gCCACTTTGCGGGCGATGCGATCTTTTTCTTCAGCCTAAATTTCCTTGCGATCGTGCCACGGCGTGTTAACCTAACTGGTATTCAGCGCCTCATCGCCATGAATAG‑G‑CAGGATCAGGTATTGCTCCCGCAGCTCATTGAGGtg > 2:15255/1‑142 (MQ=255)
cACTTTGCGGGCGATGCGCTCTTTTTCTTCGGACTGGGTGGCCTTGCGATCGTGCCACGGCGGGTTAACCGAACTGGCAGGCAGCGCCGCACCGCCATG‑CTGG‑CGCCGGATCAGGTGTGGCTCCGCCAGCGCATTGAGGgcgc > 1:233750/1‑143 (MQ=255)
aCTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGACAGCTCATTCAGGCcgcg > 2:325855/1‑143 (MQ=255)
cTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCgcgg < 1:322715/143‑1 (MQ=255)
gcgggcggTGGGCCTGTTTTCTTCGGTCTGGGTGGCCTTGCGTTCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑AGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGaa < 1:132274/143‑1 (MQ=255)
gCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGt > 1:474867/1‑143 (MQ=255)
cgcTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCgg < 1:777905/143‑1 (MQ=255)
cgcTCTTTCGCTTCGGGCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCgg < 1:85018/143‑1 (MQ=255)
tctTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCt > 2:551704/1‑143 (MQ=255)
ctTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGTCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGCCGCGGCGAATCGTCTGCGGGCtc > 2:33766/1‑142 (MQ=255)
gctgcGGTGTGGGTGGCGTTGCGGTCGTGCGACGGCGTGTGAACCGAACGGGAAGGCAGCGCCGCACCGCGATG‑AGGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGga < 2:561759/139‑1 (MQ=255)
ggTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGgagccat > 2:422842/1‑139 (MQ=255)
ggTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAAt > 2:480889/1‑143 (MQ=255)
ttGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGctc < 2:474867/143‑1 (MQ=255)
cGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTc < 2:263005/143‑1 (MQ=255)
gATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑CTGG‑CGCAGGATCAGGTCTTGCCCCGCCAGCTCACTGAGGTCGCGGCGACTCGTCTGCGGGCTGAGGGAGAAAAGCTCCACCCGCTCTCCg > 1:169462/1‑143 (MQ=255)
aTCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCgg < 1:811015/143‑1 (MQ=255)
cacggAAGTGGAGGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATGGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCctgct < 2:303318/139‑1 (MQ=255)
aCCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCctgctg > 1:546603/1‑143 (MQ=255)
aCCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCCCTTCGGTACTGACATAACCctgctg > 2:190955/1‑143 (MQ=255)
tGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTCTAAcc > 2:729498/1‑143 (MQ=255)
gggAGGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAAcc < 2:591059/142‑1 (MQ=255)
gAAGGCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTCCTGACATAACCCTGCTGCTTAACCac > 1:710220/1‑142 (MQ=255)
gggCAGCGCCGCACCGCCATG‑ATGG‑CGCAGGTTCAGGTTTTGCGCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGtt < 2:559950/142‑1 (MQ=255)
catggccgcACCGCCATG‑ATGG‑CGCAGGATCAGGTTGTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGa < 2:606906/139‑1 (MQ=255)
cgcgcACCGCCATG‑GTGG‑CGCATGATCAGGTTTTGCGCCGCCAGCTCATTGAGGTCGCGGCGAATAGGCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCAGCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGataat < 2:591359/141‑1 (MQ=255)
gcACCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGATCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCCCTTCGGTACTGACATAACCCTGCTGTTAAACCAGTCCGATACTAcc > 2:528341/1‑143 (MQ=255)
aCCGCCATG‑ATGG‑CGCAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTCTAACCAGTTCGATAATACAGt > 1:596015/1‑143 (MQ=255)
|
ATAAACAGCGTCGAGCCATTGGGGATTTGCTCCGCCACTTTGCGGGCGATGCGCTCTTTTTCTTCGGTCTGGGTGGCCTTGCGATCGTGCCACGGCGTGTTAACCGAACTGGAAGGCAGCGCCGCACCGCCATG‑ATGG‑C‑CAGGATCAGGTTTTGCTCCGCCAGCTCATTGAGGTCGCGGCGAATAGTCTGCGGGCTGACGGAGAAATGCTCTACCAGCTCTTCGGTACTGACATAACCCTGCTGTTTAACCAGTTCGATAATACCGT > NC_000913/3560317‑3560583
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
