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 F91 I5 R1
|
6 |
62.9 |
3170796 |
93.7% |
2971035 |
131.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_002947 |
4,741,285 |
2 bp→CT |
intergenic (+476/+275) |
gltA → / ← yeiW |
citrate synthase/putative oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947 | 4,741,285 | 0 | A | C | 78.3%
| 48.4
/ 5.7
| 23 | intergenic (+476/+276) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base A (3/2); new base C (12/6); total (15/8) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.76e-01 |
| * | NC_002947 | 4,741,286 | 0 | C | T | 78.3%
| 41.3
/ 6.9
| 23 | intergenic (+477/+275) | gltA/yeiW | citrate synthase/putative oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base C (3/2); new base T (12/6); total (15/8) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
GGGTCAGGCTGCCATCCGCCTCCTTGATGGTCGTAATGTGCAGCACGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑AACCT‑CC‑GCCAAC‑TGCATTCGTGAA‑CCAAGCAACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTC > NC_002947/4741153‑4741407
||
gggTCAGGCTGCCATCCGCCTCCTTGATGGTCGTAATGTGCAGCACGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCT‑TC‑TGCGACTTGCATTCGTGaatcc > 1:1167280/1‑147 (MQ=255)
gcagcaCGGAATCACGCGGCGTCACCCGCCATGGCGTATTGAACCGGGTATAAGTCCAGCTGTGGTCACCTGCGTGCCTGAG‑CAGCTGCT‑GCGACT‑TGCATGCGTGAA‑TCCCGGCACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGa < 1:1377115/150‑1 (MQ=255)
caCGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAATCCAGGC‑ACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGAc < 2:1011798/147‑1 (MQ=255)
caCGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAATCCAGGC‑ACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCtt > 1:1027167/1‑150 (MQ=255)
caCGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAATCCAGGC‑ACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCtt > 2:955627/1‑150 (MQ=255)
caCGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAA‑TCCAGGCACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGAc > 1:1011798/1‑147 (MQ=255)
cGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAATCCAGGC‑ACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTgg > 1:1049718/1‑150 (MQ=255)
aaTCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CACAG‑GCTGCGACT‑TGAATTAGAAAC‑TGCCAAAACAGGTTCCGTAGACGTCCTCCTGCAGCGCCTCGACCTTGGCCa > 1:752183/1‑150 (MQ=255)
aTCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCT‑TCTGCGACT‑TGCATTCGTGAA‑TCCAGGCACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTGGCCAg > 2:76468/1‑150 (MQ=255)
cggcgTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAATCCAGGC‑ACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTGGCCAGCGgcgc < 1:955627/150‑1 (MQ=255)
aCCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CCGCTGCT‑GCGACT‑TGCATTCGTGAA‑TCCAGGCACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACGTTGGCCAGCGGCGCCTTGATc > 2:1044140/1‑150 (MQ=255)
ccGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAATCCAGGC‑ACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCa > 1:243903/1‑150 (MQ=255)
gTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAA‑TCCAGGCACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTGGcc > 2:720676/1‑123 (MQ=255)
gTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑CAGCT‑TC‑TGCGACTTGCATTCGTGAA‑TCCAGGCACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTGGcc < 1:720676/123‑1 (MQ=255)
gTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAATCCAGGC‑ACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTg > 1:1026165/1‑150 (MQ=255)
gTCCAGCTCTGGTCACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAATCCAGGC‑ACAGGCCCCGGACACGTCCTCCTGCAGCGcc < 2:114837/93‑1 (MQ=255)
gTCCAGCTCTGGTCACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAATCCAGGC‑ACAGGCCCCGGACACGTCCTCCTGCAGCGcc > 1:114837/1‑93 (MQ=255)
ctctGGTCACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAATCCAGGC‑ACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCg < 2:1027167/150‑1 (MQ=255)
ctctGGTCACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAATCCAGGC‑ACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCg < 1:76468/150‑1 (MQ=255)
gTCACCTTCGTGCTTGAG‑CAGCT‑TC‑TGCGACTTGCATTCGTGAA‑TCCAGGCACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCAc > 2:778222/1‑150 (MQ=255)
cACCTTCGTGCTTGAGCAGCTT‑CT‑GCGACT‑TGCATTCGTGAA‑TCCAGGCACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCacac > 1:882617/1‑117 (MQ=255)
cACCTGCGTGCTTGAG‑CAGCT‑TC‑TGCGACTTGCATTCGTGAA‑TCCAGGCACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCacac < 2:882617/117‑1 (MQ=255)
acgttCGTGCTTGAG‑CAGCT‑TC‑TGCGACTTGCATTCGTGAA‑TCCGGGCACAGACCCCGGACACGTCCTGCTGCAACGCCGCGACCTTTGCCAGCAGCGCCTTGATCACGGTCACCCCGCGCTACACCTTGTACTTGGACCTCGCGACCTc > 2:409388/4‑150 (MQ=255)
||
GGGTCAGGCTGCCATCCGCCTCCTTGATGGTCGTAATGTGCAGCACGGAATCACGCGGCGTCACCGGCCATGGCGTATTGAACTGGGTATAGGTCCAGCTCTGGTCACCTTCGTGCTTGAG‑AACCT‑CC‑GCCAAC‑TGCATTCGTGAA‑CCAAGCAACAGGCCCCGGACACGTCCTCCTGCAGCGCCTCGACCTTGGCCAGCGGCGCCTTGATCACGGTCACACCGCGATAGGCCTTGTACTTGGACCCGGCCACCTC > NC_002947/4741153‑4741407
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
