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 |
|
A12 F56 I1 R1
|
165 |
53.8 |
2611523 |
96.4% |
2517508 |
99.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,701,585 |
Δ1 bp |
coding (629/1173 nt) |
malY → |
PLP‑dependent beta‑cystathionase and maltose regulon regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,701,582 | 0 | G | . | 97.8%
| 195.6
/ ‑2.4
| 46 | coding (626/1173 nt) | malY | PLP‑dependent beta‑cystathionase and maltose regulon regulator |
| Reads supporting (aligned to +/- strand): ref base G (1/0); major base . (22/22); minor base T (1/0); total (24/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGTGGACGTGCGATGAGCTGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTTGGGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGA > NC_000913/1701489‑1701677
|
tgtgGACGTGCGATGAGCTGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTTgggcgag > 2:511114/1‑96 (MQ=255)
tgtgGACGTGCGATGAGCTGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTTgggcgag < 1:906078/100‑5 (MQ=255)
gtgGACGTGCGATGAGCTGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGagc < 1:426008/100‑1 (MQ=255)
gTGCGATGAGCTGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGc < 2:1003496/100‑1 (MQ=255)
tGCGATGAGCTGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCa > 2:237222/1‑100 (MQ=255)
gCGATGAGCTGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCat > 1:60004/1‑100 (MQ=255)
gCGATGAGCTGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCat > 1:959552/1‑100 (MQ=255)
cGATGAGCTGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGGTT‑GGGCGAGCCGACGCat > 2:1045029/1‑99 (MQ=255)
aGCTGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTccc < 2:609305/100‑1 (MQ=255)
gCTGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCACATATTCCCt > 1:615175/1‑100 (MQ=255)
tGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTgg < 1:1273197/100‑1 (MQ=255)
tGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTgg < 2:520487/100‑1 (MQ=255)
gagaTCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAg < 1:237224/100‑1 (MQ=255)
agaTCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGt > 2:1041722/1‑100 (MQ=255)
gaTCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAg < 2:25062/98‑1 (MQ=255)
ntCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTaa > 1:1007151/2‑100 (MQ=255)
cATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAAtg < 2:60003/100‑1 (MQ=255)
tGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAAtgtg < 2:216012/100‑1 (MQ=255)
tGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAAtgtg < 2:1272471/100‑1 (MQ=255)
ggCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTgg > 1:511958/1‑100 (MQ=255)
gtgCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGgag < 2:185127/100‑1 (MQ=255)
gtgCGAGCGTCATGGTGTGCGGGTTATTGCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGgag < 2:1086511/100‑1 (MQ=255)
ccaGCGTCAAGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGAc > 2:1126066/3‑99 (MQ=255)
gCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATCTGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGCGAGTgg > 1:270112/1‑99 (MQ=255)
tGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTATTGTGGCTCGCGGAGACTGGGCGTTGc < 1:794500/100‑1 (MQ=255)
tGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGc > 2:319175/1‑100 (MQ=255)
gtgtGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCtn < 2:1007142/100‑2 (MQ=255)
tgtgCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTaa > 1:98505/1‑100 (MQ=255)
gtgCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAAc < 1:755762/100‑1 (MQ=255)
gCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGt > 1:391331/1‑100 (MQ=255)
gCGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGt > 1:693462/1‑100 (MQ=255)
cGGGTTATTTCCGATGAAATCCATATGGATATGGTTTGGGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGt > 1:186426/1‑100 (MQ=255)
cGGGTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTc > 1:706871/1‑100 (MQ=255)
ggTTATTTCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCTTTGCTAACGTCgg < 1:876580/100‑1 (MQ=255)
ggTTATTTCCGATGAAATCCATATGGAGATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCgg < 2:108773/100‑1 (MQ=255)
tttCCGATGAAATCAATATGGATATGGTTT‑GGGCGAGGAGCCGCATATTACCTGGAGTAATGTGGCGCGAGGAGACTGGGCGTTGCTAACGTCGGGCttg > 2:241661/1‑98 (MQ=255)
ttCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCg < 2:628831/99‑1 (MQ=255)
ttCCGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGa < 1:960343/100‑1 (MQ=255)
tgccGATGAAATCCTTATGGATAT‑GTTTTGGTCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGa > 2:386028/3‑100 (MQ=255)
ccGATGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGaa > 2:19230/1‑99 (MQ=255)
aTGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGt > 2:657996/1‑100 (MQ=255)
tGAAATCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGtt < 1:672323/100‑1 (MQ=255)
aaaTCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGATTc < 2:197030/100‑1 (MQ=255)
aTCCATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCaa > 2:741081/1‑100 (MQ=255)
cATATGGATATGGTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAatat > 1:65380/1‑100 (MQ=255)
atggatatggTTT‑GGGCGAGCAGCCGCATATTCCCTGTAGTTATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTc < 2:916167/99‑1 (MQ=255)
gatatggTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGc > 2:505026/1‑100 (MQ=255)
ggTTT‑GGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGa > 1:158560/1‑100 (MQ=255)
|
TGTGGACGTGCGATGAGCTGGAGATCATGGCTGACCTGTGCGAGCGTCATGGTGTGCGGGTTATTTCCGATGAAATCCATATGGATATGGTTTGGGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGA > NC_000913/1701489‑1701677
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
