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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,211,750 |
A→T |
41.5% |
intergenic (‑243/+427) |
yobF ← / ← yebO |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,211,750 | 0 | A | T | 41.5%
| 37.4
/ 80.7
| 82 | intergenic (‑243/+427) | yobF/yebO | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (31/17); new base T (12/22); total (43/39) |
| Fisher's exact test for biased strand distribution p-value = 1.33e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.57e-01 |
AGTTCAGGCAGATACTTAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTTTGCTATGCAATGAATAAAAAGT > minE/1211683‑1211814
|
aGTTCAGGCAGATACTTAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAg < 1:789371/69‑1 (MQ=255)
tACTTAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTT‑CAGGCCAGTGGGAGAAGttat < 1:1100563/69‑1 (MQ=255)
aCTTAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGttat < 1:3179985/69‑1 (MQ=255)
aCTTAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGttat < 1:723131/69‑1 (MQ=255)
cTTAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAAAAGttat > 1:2321156/1‑68 (MQ=255)
cTTAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAAAAGttat > 1:303124/1‑68 (MQ=255)
cTTAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAAAAGttat > 1:2714167/1‑68 (MQ=255)
cTTAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAAAAGttat > 1:1226399/1‑68 (MQ=255)
cTTAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAAAAGttat > 1:484342/1‑68 (MQ=255)
cTTAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAAAAGttat > 1:1149396/1‑68 (MQ=255)
cTTAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAAAAGttat > 1:739421/1‑68 (MQ=255)
tAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGttatta > 1:129461/1‑68 (MQ=255)
tAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGttatta > 1:2675031/1‑68 (MQ=255)
tAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGttatta > 1:1069975/1‑68 (MQ=255)
tAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGttatta > 1:858711/1‑68 (MQ=255)
aCTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACa < 1:2184990/67‑1 (MQ=255)
aCTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACa < 1:2686456/67‑1 (MQ=255)
aCTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACa < 1:3401592/67‑1 (MQ=255)
aCTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACa < 1:138169/67‑1 (MQ=255)
aCTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACa < 1:578794/67‑1 (MQ=255)
aCTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATa > 1:3089134/1‑69 (MQ=255)
aCTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATa > 1:420432/1‑69 (MQ=255)
aCTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATa > 1:2344348/1‑69 (MQ=255)
aCTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATa > 1:1050952/1‑69 (MQ=255)
cTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACa < 1:634800/66‑1 (MQ=255)
ttttCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGttatta > 1:3187705/1‑56 (MQ=255)
ttttCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGttatta > 1:3183499/1‑56 (MQ=255)
ttttCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGttatta > 1:66663/1‑56 (MQ=255)
ttCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCaa > 1:3140789/1‑68 (MQ=255)
ttCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCaa > 1:1991689/1‑68 (MQ=255)
ttCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAat > 1:621614/1‑69 (MQ=255)
ttCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAat > 1:3229862/1‑69 (MQ=255)
ttCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAat > 1:345977/1‑69 (MQ=255)
ttCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAat > 1:1097373/1‑69 (MQ=255)
gTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑tttt > 1:1504185/1‑69 (MQ=255)
gTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑tttt > 1:697338/1‑69 (MQ=255)
gTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑tttt > 1:2469407/1‑69 (MQ=255)
gTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑tttt > 1:1079616/1‑69 (MQ=255)
cAATAAGTTCAGTTGTTCCAGGCCTGTGGGAGAAGTTATTACATatt > 1:3267992/1‑45 (MQ=255)
cAATAAGTTCAGTTGTTCCAGGCCTGTGGGAGAAGTTATTACATAgtgcgtgc > 1:2704187/1‑53 (MQ=255)
cAATAAGTTCAGTTGTTCCAGGCCTGTGGGAGAAGTTATTACATAgtgcgtgc > 1:2218451/1‑53 (MQ=255)
cAATAAGTTCAGTTGTTCCAGGCCTGTGGGAGAAGTTATTACATAgtgcgtgc > 1:329168/1‑53 (MQ=255)
cAATAAGTTCAGTTGTTCCAGGCCTGTGGGAGAAGTTATTACATAgtgcgtgc > 1:3410275/1‑53 (MQ=255)
cAATAAGTTCAGTTGTTCCAGGCCTGTGGGAGAAGTTATTACATAgtgcgtgc > 1:981109/1‑53 (MQ=255)
cAATAAGTTCAGTTGTTCCAGGCCTGTGGGAGAAGTTATTACATAgtgcgtgc > 1:1893826/1‑53 (MQ=255)
cAATAAGTTCAGTTGTTCCAGGCCTGTGGGAGAAGTTATTACATAgtgcgtgc > 1:2046657/1‑53 (MQ=255)
cAATAAGTTCAGTTGTTCCAGGCCTGTGGGAGAAGTTATTACATAgtgcgtgc > 1:2223069/1‑53 (MQ=255)
cAATAAGTTCAGTTGTTCCAGGCCTGTGGGAGAAGTTATTACATAgtgcgtgc > 1:2362422/1‑53 (MQ=255)
cAATAAGTTCAGTTGTTCCAGGCCTGTGGGAGAAGTTATTACATAgtgcgtgc > 1:2375024/1‑53 (MQ=255)
cAATAAGTTCAGTTGTTCCAGGCCTGTGGGAGAAGTTATTACATAgtgcgtgc > 1:2465531/1‑53 (MQ=255)
tAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTTTGCt < 1:1192016/68‑1 (MQ=255)
aaGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTTTGCt < 1:2040984/67‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:2353245/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:2695043/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:919057/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:2707008/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:2327263/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:629234/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:2350875/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:1159031/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:395411/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:387035/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:1972384/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:180345/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:2676686/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:1776012/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:1873650/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:2565252/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:2515493/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:3022711/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:3394012/68‑1 (MQ=255)
gttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:2802547/68‑1 (MQ=255)
gttgttCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTTTGCTATGCAATg < 1:1614977/68‑1 (MQ=255)
ttgttCCAGGCCTGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:1864936/67‑1 (MQ=255)
ttgttCCAGGCCTCTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTCTACTATGCAATg < 1:940108/67‑1 (MQ=255)
ttgttCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACATTTTTTTGCTATGCAATg < 1:2303536/68‑1 (MQ=255)
ccAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTTTGCTATGCAATg > 1:372052/1‑62 (MQ=255)
ccAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTTTGCTATGCAATGaa > 1:2240240/1‑64 (MQ=255)
ccAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTTTGCTATGCAATGAATaaaa > 1:734747/1‑69 (MQ=255)
ggCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTTTGCTATGCAATGAATAAAAAGt < 1:247401/69‑1 (MQ=255)
ggCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTTTGCTATGCAATGAATAAAAAGt < 1:1070278/69‑1 (MQ=255)
ggCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTTTGCTATGCAATGAATAAAAAGt < 1:100767/69‑1 (MQ=255)
|
AGTTCAGGCAGATACTTAAACTGGCGTATTTTCTAACATAGTTCAATAAGTTCAGTTGTTCCAGGCCAGTGGGAGAAGTTATTACATAGTGCGTGCAATATCACA‑TTTTTTGCTATGCAATGAATAAAAAGT > minE/1211683‑1211814
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
