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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,175,236 |
C→A |
66.6% |
Q102H (CAG→CAT) |
mfd ← |
transcription‑repair coupling factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,175,236 | 0 | C | A | 66.6%
| 22.2
/ 59.7
| 51 | Q102H (CAG→CAT) | mfd | transcription‑repair coupling factor |
| Reads supporting (aligned to +/- strand): ref base C (9/8); new base A (12/22); total (21/30) |
| Fisher's exact test for biased strand distribution p-value = 2.47e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGGAGAAAACTGTGTGGGCAAACGCGCTGCATAAGCGTATTCACCGGAACAATCAGTACGCCACGCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTCCTGATGAGGCGAAAAACT > W3110S.gb/1175171‑1175304
|
tGGAGAAAACTGTGTGGGCAAACGCGCTGCATAAGCGTATTCACCGGAACAATCAGTACGCCACGCTGc < 1:2918063/69‑1 (MQ=255)
tGGAGAAAACTGTGTGGGCAAACGCGCTGCATAAGCGTATTCACCGGAACAATCAGTACGCCACGCTGc < 1:1919938/69‑1 (MQ=255)
tgGGCAAACGCGCTGCATAAGCGTATTCACCGGAACAATCAGTACGCCACGCTGCATCGTCGGTAGc < 1:518857/67‑1 (MQ=255)
ggCAAACGCGCTGCATAAGCGTATTCACCGGAACAATCAGTACGCCACGATGCATCGTCGGTAGCTgg > 1:3556827/1‑68 (MQ=255)
gcTGCATAAGCGTATTCACCGGAACAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTgg < 1:2259623/69‑1 (MQ=255)
gcTGCATAAGCGTATTCACCGGAACAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTgg < 1:641317/69‑1 (MQ=255)
cTGCATAAGCGTATTCACCGGAACAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGa < 1:1956367/69‑1 (MQ=255)
ttCACCGGAACAATCAGTACGCCACGCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCgaggag < 1:1228873/69‑1 (MQ=255)
ttCACCGGAACAATCAGTACGCCACGCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCgaggag < 1:1477340/69‑1 (MQ=255)
ttCACCGGAACAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTaa > 1:1149317/1‑48 (MQ=255)
ttCACCGGAACAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTaa < 1:3061003/48‑1 (MQ=255)
ttCACCGGAACAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTaa > 1:515101/1‑48 (MQ=255)
ttCACCGGAACAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTaa > 1:580988/1‑48 (MQ=255)
ttCACCGGAACAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTaa > 1:1522545/1‑48 (MQ=255)
cACCGGAACAATCAGTACGCCACGCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGgaga > 1:3648638/1‑68 (MQ=255)
cACCGGAACAATCAGTACGCCACGCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGgaga > 1:2488541/1‑68 (MQ=255)
cACCGGAACAATCAGTACGCCACGCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGAt < 1:653356/69‑1 (MQ=255)
cACCGGAACAATCAGTACGCCACGCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGAt > 1:29641/1‑69 (MQ=255)
cACCGGAACAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGAt < 1:2849368/69‑1 (MQ=255)
aCCGGAACAATCAGTACGCCACGCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATa > 1:770408/1‑69 (MQ=255)
aCCGGAACAATCAGTACGCCACGCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATa > 1:2908281/1‑69 (MQ=255)
ccGGAACAATCAGTACGCCACGATGCATCGTCGGTAGc < 1:638866/38‑1 (MQ=255)
ccGGAACAATCAGTACGCCACGATGCATCGTCGGTAGc < 1:640186/38‑1 (MQ=255)
ccGGAACAATCAGTACGCCACGATGCATCGTCGGTAGc < 1:479578/38‑1 (MQ=255)
ccGGAACAATCAGTACGCCACGATGCATCGTCGGTAGc < 1:744106/38‑1 (MQ=255)
ccGGAACAATCAGTACGCCACGATGCATCGTCGGTAGc < 1:904913/38‑1 (MQ=255)
ccGGAACAATCAGTACGCCACGATGCATCGTCGGTAGc < 1:1953410/38‑1 (MQ=255)
cGGAACAATCAGTACGCCACGATGCATCGTCGGTAGc < 1:3325447/37‑1 (MQ=255)
cGGAACAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAAt > 1:204862/1‑69 (MQ=255)
ggAACAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATg < 1:900361/69‑1 (MQ=255)
aCAATCAGTACGCCACGCTGCATCGTCGGTAGCTGGt > 1:1838571/1‑37 (MQ=255)
aCAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTc > 1:600253/1‑68 (MQ=255)
aCAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTc > 1:708467/1‑68 (MQ=255)
aCAATCAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTc > 1:1619696/1‑68 (MQ=255)
aTCAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTCCtg > 1:950588/1‑68 (MQ=255)
tCAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCgag > 1:586819/1‑53 (MQ=255)
tCAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCgag > 1:2126173/1‑53 (MQ=255)
cAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGa < 1:614199/42‑1 (MQ=255)
cAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGa < 1:1805028/42‑1 (MQ=255)
cAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGa < 1:2510895/42‑1 (MQ=255)
cAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGa < 1:1595798/42‑1 (MQ=255)
cAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGa < 1:889510/42‑1 (MQ=255)
cAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTCCt < 1:2089628/65‑1 (MQ=255)
cAGTACGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTCCt < 1:826255/65‑1 (MQ=255)
tACGCCACGCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTCCTGATGAg > 1:951161/1‑68 (MQ=255)
aCGCCACCATGCATCGTCGGTAGCTGGTAAAGGGTGGAAAgg < 1:2133059/42‑1 (MQ=38)
cGCCACGATGCATCGTCGGTAGCTGGTAAAGGGTGGAAAgg < 1:1821845/41‑1 (MQ=255)
ccACGCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTCCtgatga < 1:2940602/63‑1 (MQ=255)
cACGCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTCCTGATGAGGCGaaa < 1:1116816/69‑1 (MQ=255)
gCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTCCTGATGAGGCGAAAAAc > 1:2962982/1‑69 (MQ=255)
gCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTCCTGATGAGGCGAAAAAc > 1:200272/1‑69 (MQ=255)
cTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTCCTGATGAGGCGAAAAACt > 1:142318/1‑69 (MQ=255)
cTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTCCTGATGAGGCGAAAAACt > 1:959989/1‑69 (MQ=255)
|
TGGAGAAAACTGTGTGGGCAAACGCGCTGCATAAGCGTATTCACCGGAACAATCAGTACGCCACGCTGCATCGTCGGTAGCTGGTAAAGGGTGGAAAGGCGCGAGGAGATAATGTCCTGATGAGGCGAAAAACT > W3110S.gb/1175171‑1175304
|
| 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
