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 |
449,567 |
C→T |
48.5% |
A257A (GCG→GCA) |
kdpB ← |
potassium translocating ATPase, subunit B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 449,567 | 0 | C | T | 48.5%
| 1.0
/ 66.7
| 77 | A257A (GCG→GCA) | kdpB | potassium translocating ATPase, subunit B |
| Reads supporting (aligned to +/- strand): ref base C (16/23); new base T (21/16); total (38/39) |
| Fisher's exact test for biased strand distribution p-value = 2.51e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CATCCCGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGCCACAGCGTGGC > minE/449501‑449629
|
cATCCCGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAgcgc < 1:2258462/69‑1 (MQ=255)
cATCCCGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAgcgc < 1:2796453/69‑1 (MQ=255)
cATCCCGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAgcgc < 1:1346284/69‑1 (MQ=255)
cATCCCGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAgcgc < 1:1133990/69‑1 (MQ=255)
tCCCGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAgcgc < 1:1637855/67‑1 (MQ=255)
cccGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGccac < 1:2725633/69‑1 (MQ=255)
cccGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGccac < 1:1674581/69‑1 (MQ=255)
ccGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGccacc > 1:2006427/1‑69 (MQ=255)
ccGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGccacc > 1:2695091/1‑69 (MQ=255)
ccGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGccacc > 1:3403152/1‑69 (MQ=255)
ccGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGccacc > 1:568612/1‑69 (MQ=255)
ccGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGccacc > 1:1623512/1‑69 (MQ=255)
ccGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGccacc > 1:1617626/1‑69 (MQ=255)
ccGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGccacc > 1:1544792/1‑69 (MQ=255)
ccGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGccacc > 1:1525188/1‑69 (MQ=255)
ccGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACAAGCAGCGccacc > 1:901211/1‑69 (MQ=255)
ggCGACGCCAATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAg > 1:691611/1‑69 (MQ=255)
ggCGACGCCAATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAg > 1:338682/1‑69 (MQ=255)
ggCGACGCCAATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAg > 1:2999544/1‑69 (MQ=255)
ggCGACGCCAATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAg > 1:2858898/1‑69 (MQ=255)
ggCGACGCCAATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGACACCAg > 1:70600/1‑69 (MQ=255)
gCCGATCGCTGACAACTGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGt < 1:2544364/69‑1 (MQ=255)
gCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGt < 1:1707024/69‑1 (MQ=255)
gCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGt < 1:589841/69‑1 (MQ=255)
gCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGt < 1:2882378/69‑1 (MQ=255)
gCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGt < 1:2634947/69‑1 (MQ=255)
gCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGt < 1:2230346/69‑1 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACGGACCAGCAGTGCCACCAGTACCGTTa > 1:642869/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGtt > 1:1482350/3‑68 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGtt > 1:2417207/3‑68 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGTTa > 1:3381938/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGTTa > 1:3412433/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGTTa > 1:365642/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGTTa > 1:41147/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGTTa > 1:2498712/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGTTa > 1:1222982/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGTTa > 1:1745705/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGTTa > 1:895915/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGTTa > 1:1875607/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGTTa > 1:1716504/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGTTa > 1:2138529/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGTTa > 1:1557914/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGTGCCACCAGTACCGTTa > 1:1950079/3‑69 (MQ=255)
caaTCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGAGCCACCAGTACCGTTa > 1:2684785/3‑69 (MQ=255)
cGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGTTACGCt < 1:2455865/69‑1 (MQ=255)
cGCTGACAACAGGCCGCCAATAGTGGTGGGGATCAGACAGACCAGCAGCGCCACCAGTACCGTTACGCt < 1:2610469/69‑1 (MQ=255)
aacaGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGTTACGCTGACTg < 1:2256316/67‑1 (MQ=255)
aacaGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGTTACGCTGACTg < 1:1876275/67‑1 (MQ=255)
aacaGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGTTACGCTGACTg < 1:3370588/67‑1 (MQ=255)
aacaGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGTTACGCTGACTg < 1:157497/67‑1 (MQ=255)
aacaGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGTTACGCTGACTg < 1:3122401/67‑1 (MQ=255)
aacaGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGTTACGCTGACTg < 1:1982292/67‑1 (MQ=255)
aacaGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGTTACGCTGACTg < 1:537413/67‑1 (MQ=255)
aGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCAcg > 1:1955312/1‑68 (MQ=255)
gTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGaa > 1:3100562/1‑69 (MQ=255)
cagacagaCCAGCAGCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc > 1:1957928/1‑67 (MQ=255)
cagacagaCCAGCAGCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc > 1:1535839/1‑67 (MQ=255)
cagacagaCCAGCAGCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc > 1:2335016/1‑67 (MQ=255)
cagacagaCCAGCAGCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc > 1:2677750/1‑67 (MQ=255)
cagacagaCCAGCAGCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc > 1:1319743/1‑67 (MQ=255)
agacagacCTGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:849678/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACTCGGAAAACGGc < 1:88517/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGACAACGGc < 1:204/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:43047/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:378994/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:1403140/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:3094908/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:1890880/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:3281792/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:3144886/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:3058913/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:2974709/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:2781632/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:2039374/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:2169983/66‑1 (MQ=255)
agacagacCAGCAGTGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGc < 1:2171889/66‑1 (MQ=255)
cagcagCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGCCACAGCGTGGc < 1:2561665/69‑1 (MQ=255)
cagcagCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGCCACAGCGTGGc < 1:430457/69‑1 (MQ=255)
cagcagCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGCCACAGCGTGGc < 1:413852/69‑1 (MQ=255)
cagcagCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGCCACAGCGTGGc < 1:2554969/69‑1 (MQ=255)
cagcagCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGCCACAGCGTGGc < 1:2232206/69‑1 (MQ=255)
cagcagCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGCCACAGCGTGGc < 1:1481602/69‑1 (MQ=255)
agcagcGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGCCACAGCGTGGc < 1:3221848/68‑1 (MQ=255)
agcagcGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGCCACAGCGTGGc < 1:915555/68‑1 (MQ=255)
|
CATCCCGGCGACGCCGATCGCTGACAACAGGCCGCCAATAGTGGTTGGGATCAGACAGACCAGCAGCGCCACCAGTACCGTTACGCTGACTGCATTACCGCCCCACGCGGAAAACGGCCACAGCGTGGC > minE/449501‑449629
|
| 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
