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 |
2,188,466 |
A→C |
44.8% |
G131G (GGT→GGG) |
nanA ← |
N‑acetylneuraminate lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,188,466 | 0 | A | C | 44.8%
| ‑1.5
/ 117.8
| 103 | G131G (GGT→GGG) | nanA | N‑acetylneuraminate lyase |
| Reads supporting (aligned to +/- strand): ref base A (23/34); new base C (13/33); total (36/67) |
| Fisher's exact test for biased strand distribution p-value = 2.19e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.66e-02 |
Only 100 of 106 total aligned reads displayed.
TTGATCTGATCCAGGGTCAGTTTTACCCCACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGATAGTAG > minE/2188401‑2188532
|
ttGATCTGATCCAGGGTCAGTTTTACCCCACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAAcc < 1:2277797/68‑1 (MQ=255)
ccAGGGTCAGTTTTACCCCACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGaa > 1:485107/1‑68 (MQ=255)
ccAGGGTCAGTTTTACCCCACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGaa > 1:759570/1‑68 (MQ=255)
ccAGGGTCAGTTTTACCCCACTCAGGGATGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGaa > 1:1241352/1‑68 (MQ=255)
gTCAGTTTTACCCCACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCaata > 1:3207905/1‑69 (MQ=255)
gTCAGTTTTACCCCACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCaata > 1:2130791/1‑69 (MQ=255)
gTCAGTTTTACCCCACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCaata > 1:3348664/1‑69 (MQ=255)
ttACCCCGCTCAGGGCTGGAATGTTGTACACCACCATCGGCAACCCATCCGCCGAATCAATAATTGccc > 1:2246997/1‑69 (MQ=255)
ttACCCCGCTCAGGGCTGGAATGTTGTACACCACCATCGGCAACCCATCCGCCGAATCAATAATTGccc > 1:1462338/1‑69 (MQ=255)
ttACCCCGCTCAGGGCTGGAATGTTGTACACCACCATCGGCAACCCATCCGCCGAATCAATAATTGccc > 1:3026298/1‑69 (MQ=255)
ttACCCCGCTCAGGGCTGGAATGTTGTACACCACCATCGGCAACCCATCCGCCGAATCAATAATTGccc > 1:1864123/1‑69 (MQ=255)
ttACCCCGCTCAGGGCTGGAATGTTGTACACCACCATCGGCAACCCATCCGCCGAATCAATAATTGccc > 1:515358/1‑69 (MQ=255)
ttACCCCGCTCAGGGCTGGAATGTTGTACACCACCATCGGCAACCCATCCGCCGAATCAATAATTGccc > 1:524341/1‑69 (MQ=255)
ttACCCCGCTCAGGGCTGGAATGTTGTACACCACCATCGGCAACCCATCCGCCGAATCAATAATTGccc > 1:698378/1‑69 (MQ=255)
ttACCCCGCTCAGGGCTGGAATGTTGTACACCACCATCGGCAACCCATCCGCCGAATCAATAATTGccc > 1:1092132/1‑69 (MQ=255)
ttACCCCGCTCAGGGCTGGAATGTTGTACACCACCATCGGCAACCCATACGCCGAATCAATAATTGccc > 1:53421/1‑69 (MQ=255)
ttACCCCGCTCAGGGCTGGAATGTTGTACACCACCATCGGCAACCCATACGCCGAATCAATAATTGccc > 1:1442237/1‑69 (MQ=255)
ttACCCAGCTCAGGGCTGGAATGTTGTACACCACCATCGGCAACCCATCCGCCGAATCAATAATTGccc > 1:3467/1‑69 (MQ=255)
cccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:993123/68‑1 (MQ=255)
cccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:2457971/68‑1 (MQ=255)
cccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:1778001/68‑1 (MQ=255)
cccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:2106412/68‑1 (MQ=255)
cccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:2794730/68‑1 (MQ=255)
cccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:1727271/68‑1 (MQ=255)
cccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:1571536/68‑1 (MQ=255)
cccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:3227598/68‑1 (MQ=255)
cccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:1407332/68‑1 (MQ=255)
cccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:550657/68‑1 (MQ=255)
cccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:764262/68‑1 (MQ=255)
cccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:863671/68‑1 (MQ=255)
cccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:977157/68‑1 (MQ=255)
ccACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGAt < 1:164996/67‑1 (MQ=255)
cAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGAt > 1:3373712/1‑68 (MQ=255)
cAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGAt > 1:239471/1‑68 (MQ=255)
gCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTg < 1:3202843/62‑1 (MQ=255)
gCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTg < 1:2999319/62‑1 (MQ=255)
gCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTg < 1:3389771/62‑1 (MQ=255)
gCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTg < 1:2930626/62‑1 (MQ=255)
gCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTg < 1:824288/62‑1 (MQ=255)
gCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTg < 1:1036347/62‑1 (MQ=255)
gCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTg < 1:1051878/62‑1 (MQ=255)
gCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTg < 1:1070882/62‑1 (MQ=255)
gCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTg < 1:1174105/62‑1 (MQ=255)
gCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTg < 1:135499/62‑1 (MQ=255)
gCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTg < 1:1419431/62‑1 (MQ=255)
cTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTg < 1:2430030/61‑1 (MQ=255)
cTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAgt > 1:959374/1‑69 (MQ=255)
cTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAgt > 1:2875188/1‑69 (MQ=255)
cTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAgt > 1:2506399/1‑69 (MQ=255)
tGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAgtg < 1:2735774/69‑1 (MQ=255)
tGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAgtg < 1:2982448/69‑1 (MQ=255)
ggAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCaat > 1:807515/1‑44 (MQ=255)
ggAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCaat > 1:251797/1‑44 (MQ=255)
ggAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCaat > 1:731071/1‑44 (MQ=255)
ggAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCaat > 1:686740/1‑44 (MQ=255)
gtACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGc > 1:106665/1‑56 (MQ=255)
gtACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGc > 1:1638568/1‑56 (MQ=255)
gtACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGc > 1:315074/1‑56 (MQ=255)
gtACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGc > 1:305040/1‑56 (MQ=255)
gtACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCaa < 1:1470787/68‑1 (MQ=255)
caccaTCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGat < 1:569110/69‑2 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:1218913/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:13022/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:424502/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:2463029/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:423784/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:1158154/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:653706/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:67243/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:1334725/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:744736/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:1153779/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:1145309/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:2117226/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:1025464/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:2697104/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:2985054/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:1803718/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:1760007/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:3057669/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:3066472/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:374298/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:3205166/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:2946734/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:3337915/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:2931248/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:2841355/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:3355748/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:2113810/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:3390538/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:2544724/69‑1 (MQ=255)
tCGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAACCTGAAAGGAt < 1:604466/69‑1 (MQ=255)
tCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:677499/69‑1 (MQ=255)
cGGCAACCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt < 1:2358475/68‑1 (MQ=255)
cGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAgtg < 1:36086/48‑1 (MQ=255)
ggCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt > 1:1983668/1‑67 (MQ=255)
ggCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAt > 1:1214085/1‑67 (MQ=255)
aaaCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAtagtag < 1:1468880/69‑1 (MQ=255)
aaaCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAtagtag < 1:1452565/69‑1 (MQ=255)
aaaCCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGAtagtag < 1:1271043/69‑1 (MQ=255)
|
TTGATCTGATCCAGGGTCAGTTTTACCCCACTCAGGGCTGGAATGTTGTACACCACCATCGGCAAACCATCCGCCGAATCAATAATTGCCCGATAGTGATCGCAGTGTTCTTCAAAGCTGAAAGGATAGTAG > minE/2188401‑2188532
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
