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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,112,202 |
T→C |
27.3% |
F431L (TTT→CTT) |
mdoG → |
glucan biosynthesis protein, periplasmic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,112,202 | 0 | T | C | 27.3%
| 68.3
/ 29.7
| 44 | F431L (TTT→CTT) | mdoG | glucan biosynthesis protein, periplasmic |
| Reads supporting (aligned to +/- strand): ref base T (18/14); new base C (3/9); total (21/23) |
| Fisher's exact test for biased strand distribution p-value = 9.36e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAACGGGGGATGTGAAGCAGTCGAACCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCGGTCACAGCGCAAACCAGCATTGGTGA > W3110S.gb/1112134‑1112269
|
cAACGGGGGATGTGAAGCAGTCGAACCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGAttt < 1:3389774/70‑1 (MQ=255)
cAACGGGGGATGTGAAGCAGTCGAACCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGAttt < 1:641376/70‑1 (MQ=255)
cAACGGGGGATGTGAAGCAGTCGAACCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGAttt < 1:2432232/70‑1 (MQ=255)
aaCGGGGGATGTGAAGCAGTCGAACCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGAtctt < 1:467208/70‑1 (MQ=255)
tgAAGCAGTCGAACCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCaga < 1:1437196/70‑1 (MQ=255)
aGTCGAACCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGaa > 1:2467598/1‑70 (MQ=255)
gTCGAACCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGAt > 1:169750/1‑66 (MQ=255)
gTCGAACCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGaaaa < 1:4049640/71‑1 (MQ=255)
gTCGAACCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGaaaa < 1:353601/71‑1 (MQ=255)
tCGAACCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGaaaa < 1:2684834/70‑1 (MQ=255)
gAACCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGaaaaaa < 1:2847826/70‑1 (MQ=255)
aaCCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATCTTACCGGCGCAGAGATGAAAAAACt < 1:1034143/71‑1 (MQ=255)
aCCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCgg > 1:2983977/1‑52 (MQ=255)
aCCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTg > 1:1215244/1‑71 (MQ=255)
aCCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTg > 1:5076162/1‑71 (MQ=255)
aCCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACAGGCGCAGAGATGAAAAAAc > 1:84940/1‑69 (MQ=255)
aCCTGATTCGCAAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCgg > 1:4401525/1‑52 (MQ=255)
ccTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTGc > 1:3110849/1‑71 (MQ=255)
ccTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATCTTACCGGCGCAGAGATGaaaa < 1:3474241/65‑1 (MQ=255)
ccTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATCTTACCGGCGCAGAGATGaaaa < 1:2584547/65‑1 (MQ=255)
ccTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATCTTACCGGCGCAGAGATGaaaa < 1:3396266/65‑1 (MQ=255)
gATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGAttt < 1:2916193/42‑1 (MQ=255)
gATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGAttt < 1:678754/42‑1 (MQ=255)
gATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGAttt < 1:3345850/42‑1 (MQ=255)
gATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGAttt < 1:4370902/42‑1 (MQ=255)
ttCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTGCCagag < 1:4953905/71‑1 (MQ=255)
ttCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATCTTACCGGCGCAGAGATGAAAAAACTGCCagag < 1:1830468/71‑1 (MQ=255)
cGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATCTTACCGGCGCAGAGATGAAAAAACTGCCagag < 1:2718676/69‑1 (MQ=255)
cAGCCTGACGGTACTATCGCCTTTGTGTTCGATTTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATAc < 1:2471712/71‑1 (MQ=255)
aGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATAcc > 1:2114527/1‑71 (MQ=255)
cTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCg > 1:1672584/1‑71 (MQ=255)
aCGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCa < 1:4282054/38‑1 (MQ=255)
aCGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCGGt < 1:3274247/70‑1 (MQ=255)
aCGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCGGt < 1:657983/70‑1 (MQ=255)
ggTACTATCGCCTTTGTGGTCGATCTTACCGGCGCAGAGATGaaa > 1:3638247/1‑45 (MQ=255)
ggTACTATCGCCTTTGTGGTCGATCTTACCGGCGCAGAGATGaaa > 1:4588419/1‑45 (MQ=255)
tATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTGc < 1:2185853/47‑1 (MQ=255)
tATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTGc < 1:4761383/47‑1 (MQ=255)
aTCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTGc < 1:2825155/46‑1 (MQ=255)
tCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGaaaaaa > 1:4897951/1‑41 (MQ=255)
tCGCCTTTGTGGTCGATCTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCGGTCACAGCGCa > 1:868746/1‑70 (MQ=255)
gCCTTTGTGGTCGATTTTACCGGCGCAGAGATGaaaaaa > 1:3327073/1‑39 (MQ=255)
gCCTTTGTGGTCGATTTTACCGGCGCAGAGATGaaaaa > 1:1522742/1‑38 (MQ=255)
gCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCGGTCACAGCGCAAAc > 1:1676507/1‑71 (MQ=255)
cTTTGTGGTCGATCTTACCGGCGCAGAGATGAAAAAACTGCCagag < 1:145093/46‑1 (MQ=255)
ttGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCGGTCACAGCGCAAACCAg > 1:3557469/1‑70 (MQ=255)
tgtgGTCGATTTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCGGTCACAGCGCAAACCAg < 1:4960193/69‑1 (MQ=255)
tgGTCGATCTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCGGTCACAGCGCAAACCAGCAtt < 1:2161783/71‑1 (MQ=255)
gTCGATTTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCGGTCACAGCGCAAACCAGCATTgg > 1:515034/1‑71 (MQ=255)
cGATTTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCGGTCACAGCGCAAACCAGCATTg > 1:1835259/1‑68 (MQ=255)
gATTTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCGGTCACAGCGCAAACCAGCATTGGTGa > 1:236554/1‑71 (MQ=255)
gATCTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCGGt < 1:2236997/47‑1 (MQ=255)
|
CAACGGGGGATGTGAAGCAGTCGAACCTGATTCGCCAGCCTGACGGTACTATCGCCTTTGTGGTCGATTTTACCGGCGCAGAGATGAAAAAACTGCCAGAGGATACCCCGGTCACAGCGCAAACCAGCATTGGTGA > W3110S.gb/1112134‑1112269
|
| 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
