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 |
2,183,144 |
T→C |
24.9% |
H1140H (CAT→CAC) |
gltB → |
glutamate synthase, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,183,144 | 0 | T | C | 24.9%
| 98.0
/ 29.9
| 84 | H1140H (CAT→CAC) | gltB | glutamate synthase, large subunit |
| Reads supporting (aligned to +/- strand): ref base T (27/36); new base C (9/12); total (36/48) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.31e-01 |
AGCTTCGGCTTCGGCACTGGCCCGATGGTGGCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAACCACTATCACGGCC > minE/2183082‑2183211
|
aGCTTCGGCTTCGGCACTGGCCCGATGGTGGCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:2143589/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCGATGGTGGCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac < 1:1024019/69‑1 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCGATGGTGGCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:1115124/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCGATGGTGGCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:2189568/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCGATGGTGGCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:1242417/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCGATGGTGGCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:816671/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCGATGGTGGCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:526153/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCGATGGTGGCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:1407097/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCGATGGTGGCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:1543498/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCAATGGTCGCGCTCGGTTGTAAATATCTGCGAATTTGCCACCTGaac > 1:2333293/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCAATGGTCGCGCTCGGTTGTAAATATCTGCGAATTTGCCACCTGaac > 1:2164066/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCAATGGTCGCGCTCGGTTGTAAATATCTGCGAATTTGCCACCTGaac > 1:3378898/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCAATGGTCGCGCTCGGTTGTAAATATCTGCGAATTTGCCACCTGaac > 1:2022886/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCAATGGTCGCGCTCGGTTGTAAATATCTGCGAATTTGCCACCTGaac > 1:535709/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCAATGGTCGCGCTCGGTTGTAAATATCTGCGAATTTGCCACCTGaac > 1:2220562/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCAATGGTCGCGCTCGGTTGTAAATATCTGCGAATTTGCCACCTGaac > 1:1632818/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCAATGGTCGCGCTCGGTTGTAAATATCTGCGAATTTGCCACCTGaac > 1:1516898/1‑69 (MQ=255)
aGCTTCGGCTTCGGCACTGGCCCAATGGTCGCGCTCGGTTGTAAATATCTGCGAATTTGCCACCTGaac > 1:2633564/1‑69 (MQ=255)
cACTGGCCCGATGGTGGCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACggg < 1:193057/69‑1 (MQ=255)
aCTGGCCCGATGGTGGCGCTCGGCTGTAAATACCTACGTATTTGCCATCTGAACAACTGCGCAACggg < 1:2075011/68‑1 (MQ=255)
ggtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:1634909/1‑43 (MQ=255)
ggtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:2203865/1‑43 (MQ=255)
ggtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:1861980/1‑43 (MQ=255)
ggtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:2114402/1‑43 (MQ=255)
ggtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:1015473/1‑43 (MQ=255)
ggtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGaac > 1:3173238/1‑43 (MQ=255)
gtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAg < 1:3164691/69‑1 (MQ=255)
gtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAg < 1:2437629/69‑1 (MQ=255)
gtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAg < 1:2467274/69‑1 (MQ=255)
gtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAg < 1:1001932/69‑1 (MQ=255)
gtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAg < 1:2492895/69‑1 (MQ=255)
gtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAg < 1:2534805/69‑1 (MQ=255)
gtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAg < 1:3413043/69‑1 (MQ=255)
gtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAg < 1:1002187/69‑1 (MQ=255)
gtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAg < 1:939263/69‑1 (MQ=255)
gtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAg < 1:1300017/69‑1 (MQ=255)
gtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAg < 1:1341210/69‑1 (MQ=255)
gtggCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAg < 1:588468/69‑1 (MQ=255)
gtcgcgcTCGGTTGTAAATATCTGCGAATTTGCCACCTGAACAACTGCGCCACGGGTTTAGCAACTCAg < 1:32498/66‑1 (MQ=255)
gtcgcgcTCGGTTGTAAATATCTGCGAATTTGCCACCTGAACAACTGCGCCACGGGTGTAGCAACTCAg < 1:772632/66‑1 (MQ=255)
gtcgcgcTCGGTTGTAAATATCTGCGAATTTGCCACCTGAACAACTGCGCCACGGGTGTAGCAACTCAg < 1:236592/66‑1 (MQ=255)
gtcgcgcTCGGTTGTAAATATCTGCGAATTTGCCACCTGAACAACTGCGCCACGGGTGTAGCAACTCAg < 1:3375473/66‑1 (MQ=255)
gtcgcgcTCGGTTGTAAATATCTGCGAATTTGCCACCTGAACAACTGCGCCACGGGTGTAGCAACTCAg < 1:1527513/66‑1 (MQ=255)
gtcgcgcTCGGTTGTAAATATCTGCGAATTTGCCACCTGAACAACTGCGCCACGGGTGTAGCAACTCAg < 1:776663/66‑1 (MQ=255)
gtcgcgcTCGGTTGTAAATATCTGCGAATTTGCCACCTGAACAACTGCGCCACGGGTGTAGCAACTCAg < 1:1636271/66‑1 (MQ=255)
gtcgcgcTCGGTTGTAAATATCTGCGAATTTGCCACCTGAACAACTGCGCCACGGGTGTAGCAACTCAg < 1:3349278/66‑1 (MQ=255)
gtcgcgcTCGGTTGTAAATATCTGCGAATTTGCCACCTGAACAACTGCGCCACGGGTGTAGCAACTCAg < 1:1291897/66‑1 (MQ=255)
gtcgcgcTCGGTTGTAAATATCTGCGAATTTGCCACCTGAACAACTGCGCCACGGGTGTAGCAACTCAg < 1:322535/66‑1 (MQ=255)
gtcgcgcTCGGTTGTAAATATCTGCGAATTTGCCACCTGAACAACTGCGCCACGGGTGTAGCAACTCAg < 1:3203909/66‑1 (MQ=255)
gtcgcgcTCGGTTGTAAATATCTGCGAATTTGCCACCTGAACAACTGCGCCACGGGTGTAGCAACTCAg < 1:2184738/66‑1 (MQ=255)
gcgcTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGTGTGTAGCAACt < 1:417895/63‑1 (MQ=255)
gcgcTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACt < 1:2487055/63‑1 (MQ=255)
gcgcTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACt < 1:2919517/63‑1 (MQ=255)
gcgcTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACt < 1:3063492/63‑1 (MQ=255)
gcgcTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACt < 1:2495295/63‑1 (MQ=255)
cGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGc > 1:3033403/1‑54 (MQ=255)
cGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACaa > 1:1265113/1‑69 (MQ=255)
cGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACaa > 1:797120/1‑69 (MQ=255)
cGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACaa > 1:793284/1‑69 (MQ=255)
cGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACaa > 1:2194342/1‑69 (MQ=255)
cGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACaa > 1:541354/1‑69 (MQ=255)
cTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAAc < 1:975548/68‑1 (MQ=255)
cTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAAc < 1:2800633/68‑1 (MQ=255)
tACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACATACTGCGTAAg > 1:3150582/1‑65 (MQ=255)
tACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAg > 1:984375/1‑65 (MQ=255)
tACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAg > 1:472767/1‑65 (MQ=255)
aTTTGCCATCTGAACAACTGCGCAACGTGTGTAGCAACTCAGGATGACAAACTGCGTAAGAAcc < 1:691793/64‑1 (MQ=255)
aTTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAAcc < 1:505702/64‑1 (MQ=255)
aTTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAAcc < 1:3186248/64‑1 (MQ=255)
aTTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAAcc < 1:866277/64‑1 (MQ=255)
aTTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAAcc < 1:211402/64‑1 (MQ=255)
aTTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAAcc < 1:1635438/64‑1 (MQ=255)
aTTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAAcc < 1:2616134/64‑1 (MQ=255)
aTTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAAcc < 1:2497923/64‑1 (MQ=255)
tttGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAAc > 1:318505/1‑62 (MQ=255)
tttGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAAc > 1:1547030/1‑62 (MQ=255)
tGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGCACCACTATCAc > 1:1375406/1‑69 (MQ=255)
ccATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAACCACTATCACg < 1:1776672/68‑1 (MQ=255)
ccATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAACCACTATCACg < 1:1188053/68‑1 (MQ=255)
ccATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAACCACTATCACg < 1:1830351/68‑1 (MQ=255)
cATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAACCACTATCACgg < 1:614705/68‑1 (MQ=255)
aTCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGACCCACTATCACGGcc > 1:891133/1‑69 (MQ=255)
aTCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAACCACTATCACgg < 1:2077819/67‑1 (MQ=255)
aTCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAACCACTATCACg < 1:2415612/66‑1 (MQ=255)
|
AGCTTCGGCTTCGGCACTGGCCCGATGGTGGCGCTCGGCTGTAAATATCTACGTATTTGCCATCTGAACAACTGCGCAACGGGTGTAGCAACTCAGGATGACAAACTGCGTAAGAACCACTATCACGGCC > minE/2183082‑2183211
|
| 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
