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 |
572,252 |
A→G |
29.5% |
A165A (GCT→GCC) |
aqpZ ← |
aquaporin |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 572,252 | 0 | A | G | 29.5%
| 48.9
/ 22.1
| 54 | A165A (GCT→GCC) | aqpZ | aquaporin |
| Reads supporting (aligned to +/- strand): ref base A (24/14); new base G (13/3); total (37/17) |
| Fisher's exact test for biased strand distribution p-value = 3.36e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTTAACAGAAGTGTTAGTCACCGGAATACTAATTAAGTGAATCAGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACAGGAAACCTGC > minE/572189‑572320
|
gTTAACGGAAGTGTTAGTCACCGGAATACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAAt < 1:2581928/69‑1 (MQ=255)
gTTAACGGAAGTGTTAGTCACCGGAATACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAAt < 1:1157276/69‑1 (MQ=255)
gTTAACGGAAGTGTTAGTCACCGGAATACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAAt < 1:1428513/69‑1 (MQ=255)
ttAACAGAAGTGTTAGTCACCGGAATACTAATTAAGTGAATCAGGGTTAAGGCCAGACCAATAGCGAt > 1:3208379/1‑68 (MQ=255)
ttAACAGAAGTGTTAGTCACCGGAATACTAATTAAGTGAATCAGGGTTAAGGCCAGACCAATAGCGATc > 1:333286/1‑69 (MQ=255)
gtTAGTCACCGGAATACTAATTAAGTGAATCAGGGTTAAGGCCAGACCAATAGCGATCAGCGCAAAAcc > 1:1980053/1‑69 (MQ=255)
aaTACTAATTAAGTGAATCAGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGaa < 1:2623768/69‑1 (MQ=255)
aaTACTAATTAAGTGAATCAGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGaa < 1:1435480/69‑1 (MQ=255)
aaTACTAATTAAGTGAATCAGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGaa < 1:1948636/69‑1 (MQ=255)
aTACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAATTGGCGCAAAACCAGCAGGAGCGaa > 1:948065/1‑68 (MQ=255)
aTACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAATTGGCGCAAAACCAGCAGGAGCGaa > 1:3009856/1‑68 (MQ=255)
aTACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAATTGGCGCAAAACCAGCAGGAGCGaa > 1:2063640/1‑68 (MQ=255)
aTACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAATTGGCGCAAAACCAGCAGGAGCGaa > 1:1992461/1‑68 (MQ=255)
aTACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAATTGGCGCAAAACCAGCAGGAGCGAAt > 1:3360277/1‑69 (MQ=255)
aTACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAATTGGCGCAAAACCAGCAGGAGCGAAt > 1:444566/1‑69 (MQ=255)
aTACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAATTGGCGCAAAACCAGCAGGAGCGAAt > 1:1480765/1‑69 (MQ=255)
aTACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAATTGGCGCAAAACCAGCAGGAGCGAAt > 1:1178516/1‑69 (MQ=255)
aTACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAATTGGCGCAAAACCAGCAGGAGCGAAt > 1:857902/1‑69 (MQ=255)
aTACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAATTGGCGCAAAACCAGCAGGAGCGAAt > 1:2804589/1‑69 (MQ=255)
aTACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAATTGGCGCAAAACCAGCAGGAGCGAAt > 1:2518255/1‑69 (MQ=255)
aTACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAATTGGCGCAAAACCAGCAGGAGCGAAt > 1:1209389/1‑69 (MQ=255)
aTACTGATTAAGTGAATCAGGGTTAAGGCCAGACCAATGGCAATTGGCGCAAAACCAGCAGGAGCGAAt > 1:1186120/1‑69 (MQ=255)
cTAATTAAGTGAATCAGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTg > 1:2918117/1‑69 (MQ=255)
aaGTGAATCAGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGtt > 1:968939/1‑69 (MQ=255)
aaGTGAATCAGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGtt > 1:3070121/1‑69 (MQ=255)
aaGTGAATCAGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGtt > 1:2978187/1‑69 (MQ=255)
aaGTGAATCAGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGtt > 1:24404/1‑69 (MQ=255)
aaGTGAATCAGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGtt > 1:2215747/1‑69 (MQ=255)
aaGTGAATCAGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGtt > 1:1619151/1‑69 (MQ=255)
aGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTgg < 1:2581630/69‑1 (MQ=255)
aGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTgg < 1:607893/69‑1 (MQ=255)
aGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTgg < 1:2956806/69‑1 (MQ=255)
aGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTgg < 1:3081152/69‑1 (MQ=255)
aGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTgg < 1:3288176/69‑1 (MQ=255)
tAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCa > 1:2528056/1‑68 (MQ=255)
tAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCa > 1:2894779/1‑68 (MQ=255)
tAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCa > 1:1781348/1‑68 (MQ=255)
tAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGAACa > 1:1633817/1‑68 (MQ=255)
cAGACCTATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACa > 1:439926/1‑68 (MQ=255)
cAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGcc > 1:597574/1‑54 (MQ=255)
cAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAAc > 1:2222968/1‑67 (MQ=255)
cAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACa > 1:1042165/1‑68 (MQ=255)
cAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACa > 1:1685382/1‑68 (MQ=255)
aCCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACAGGaa < 1:2304519/69‑1 (MQ=255)
aCCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACAGGaa < 1:772804/69‑1 (MQ=255)
aCCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACAGGaa < 1:778045/69‑1 (MQ=255)
aCCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACAGGaa < 1:1338563/69‑1 (MQ=255)
aCCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACAGGaa < 1:2693000/69‑1 (MQ=255)
aCCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGGTGCGCCGTGGATCACCAACAGGaa < 1:909248/69‑1 (MQ=255)
ccAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACAGTaaa > 1:2183793/1‑69 (MQ=255)
ccAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACAGGaaa > 1:3258252/1‑69 (MQ=255)
aTAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACAGGAAAcc > 1:3139111/1‑68 (MQ=255)
aTAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACAGGAAAcc > 1:90364/1‑68 (MQ=255)
aTAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACAGGAAAc > 1:1071822/1‑67 (MQ=255)
aGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACAGGAAACCTGc > 1:3008202/1‑69 (MQ=255)
|
GTTAACAGAAGTGTTAGTCACCGGAATACTAATTAAGTGAATCAGGGTTAAGGCCAGACCAATAGCGATCGGCGCAAAACCTGCCGGCGCGAATTTGTCGGTTGCGCCGTGGATCACCAACAGGAAACCTGC > minE/572189‑572320
|
| 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
