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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,359,906 |
T→C |
31.1% |
M285T (ATG→ACG) |
gltD → |
glutamate synthase, 4Fe‑4S protein, small subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,359,906 | 0 | T | C | 31.1%
| 79.6
/ 50.6
| 61 | M285T (ATG→ACG) | gltD | glutamate synthase, 4Fe‑4S protein, small subunit |
| Reads supporting (aligned to +/- strand): ref base T (19/23); new base C (10/9); total (29/32) |
| Fisher's exact test for biased strand distribution p-value = 7.82e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGTTCCTCATCGCCAACACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGCGATGGACTGCGTGCGTACGTCCGTGCGC > W3110S.gb/3359837‑3359976
|
cGTTCCTCATCGCCAACACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATg < 1:2019093/71‑1 (MQ=255)
ttCCTCATCGCCAACACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGa < 1:2063136/71‑1 (MQ=255)
ccTCATCGCCAACACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAg > 1:209694/1‑71 (MQ=255)
ccTCATCGCCAACACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCACGGAAg > 1:2792485/1‑71 (MQ=255)
aTCGCCAACACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCACGGAAGGCa < 1:2854687/70‑1 (MQ=255)
gCCAACACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAgg > 1:549630/1‑65 (MQ=255)
gCCAACACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAgg > 1:551570/1‑65 (MQ=255)
gCCAACACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAgg > 1:850876/1‑65 (MQ=255)
gCCAACACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAAcg > 1:381256/1‑71 (MQ=255)
gCCAACACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAAcg > 1:2653024/1‑71 (MQ=255)
aaCACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCACGGAAGGCa < 1:1426464/64‑1 (MQ=255)
aaCACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCACGGAAGGCAAAcgcg > 1:3142094/1‑70 (MQ=255)
aaCACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCACGGAAGGCAAACGCgt > 1:1853658/1‑71 (MQ=255)
acacCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCgtg < 1:1597132/71‑1 (MQ=255)
cacCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCACGGAAGGCaaa > 1:3015783/1‑64 (MQ=255)
cacCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCACGGAAGGCaaa > 1:808930/1‑64 (MQ=255)
acCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAAACGTTCGTCAGCATGGAAGGCAAACGCgtggt > 1:3578555/1‑71 (MQ=255)
ccAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCACGGAAGGCAAACGCgtggtg > 1:2577633/1‑71 (MQ=255)
ccAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCACGGAAGGCAAACGCgtggtg > 1:279077/1‑71 (MQ=255)
ccAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCACGGAAGGCAAACGCgtggtg > 1:3351584/1‑71 (MQ=255)
cAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGATCCGTTCGTCAGCACGGAAGGCAAACGCGtggtgg > 1:2056288/1‑71 (MQ=255)
cAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAg < 1:2868104/56‑1 (MQ=255)
cAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAg < 1:2872898/56‑1 (MQ=255)
cAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAg < 1:756303/56‑1 (MQ=255)
aaaCAGTTAATGGGCTTTGGTGAAACCCGCGACGAATCGTTCGTCAGCATGGAAGGCAAACGCGtggtgg > 1:244618/1‑70 (MQ=255)
aaCAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTc < 1:3109052/71‑1 (MQ=255)
aCAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCACGGAAGGCAAAcg < 1:2442043/60‑1 (MQ=255)
aCAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCACGGAAGGCAAAcg < 1:3388173/60‑1 (MQ=255)
cAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAAc > 1:2463995/1‑58 (MQ=255)
aGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCtt < 1:1107620/71‑1 (MQ=255)
ttAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTgg < 1:78261/71‑1 (MQ=255)
aaTGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCACGGAAGGCAAACGCGTGGTGGTCCTTGGc < 1:2554190/70‑1 (MQ=255)
tGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCg < 1:993422/69‑1 (MQ=255)
gggCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCaaa > 1:1122941/1‑49 (MQ=255)
gggCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTc < 1:1639122/61‑1 (MQ=255)
gggCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGt > 1:932597/1‑70 (MQ=255)
gggCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGt > 1:2054731/1‑70 (MQ=255)
ggCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTgg > 1:419293/1‑71 (MQ=255)
ggCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTg > 1:926875/1‑70 (MQ=255)
gCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGc < 1:468269/71‑1 (MQ=255)
gCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGc < 1:3791792/71‑1 (MQ=255)
gCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGATCCTTGGCGGTGGc > 1:1273022/1‑71 (MQ=255)
gCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGATCCTTGGCGGTGGc > 1:1618517/1‑71 (MQ=255)
cTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGc > 1:493112/1‑70 (MQ=255)
cTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGc > 1:534336/1‑70 (MQ=255)
tGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGac < 1:514746/70‑1 (MQ=255)
tGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGa < 1:809342/69‑1 (MQ=255)
tGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGa < 1:2623041/69‑1 (MQ=255)
aaaCCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGc < 1:1709750/70‑1 (MQ=255)
aaaCCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGc < 1:2882004/70‑1 (MQ=255)
aaaCCCGCGACGAACAGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGc < 1:2814610/70‑1 (MQ=255)
cccGCGACGAACCGTTCGTCAGCACGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGCGATg < 1:1315820/71‑1 (MQ=255)
cccGCGACGAACCGTTCGTCAGCACGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGCGATg < 1:2779676/71‑1 (MQ=255)
cccGCGACGAACCGTTCGTCAGCACGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGCGATg < 1:3102175/71‑1 (MQ=255)
gcgACGAACCGTTCGTCAGCACGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGCGATGGAc < 1:1812647/71‑1 (MQ=255)
cGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGTGACACTGCGATGGACTgcgtgcgt < 1:83380/71‑1 (MQ=255)
cGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGCGATGGACTgcgtgcgt < 1:141345/71‑1 (MQ=255)
cGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGCGATGGACTgcgtgcgt < 1:1381328/71‑1 (MQ=255)
cGTCAGCACGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGCGATGGACTGCGTGCGTACGt > 1:3487131/1‑71 (MQ=255)
aGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGacac > 1:3259855/1‑44 (MQ=255)
gCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGCGATGGACTGCGTGCGTACGTc < 1:1531466/67‑1 (MQ=255)
tGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGCGATGGACTGCGTGCGTACGTCCGTgcgc > 1:3447658/1‑71 (MQ=255)
|
CGTTCCTCATCGCCAACACCAAACAGTTAATGGGCTTTGGTGAAACCCGCGACGAACCGTTCGTCAGCATGGAAGGCAAACGCGTGGTGGTCCTTGGCGGTGGCGACACTGCGATGGACTGCGTGCGTACGTCCGTGCGC > W3110S.gb/3359837‑3359976
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
