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 |
1,290,774 |
A→G |
32.0% |
intergenic (‑65/‑9) |
ychJ ← / → rssA |
conserved hypothetical protein/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,290,774 | 0 | A | G | 32.0%
| 59.6
/ 42.4
| 50 | intergenic (‑65/‑9) | ychJ/rssA | conserved hypothetical protein/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (8/26); new base G (8/8); total (16/34) |
| Fisher's exact test for biased strand distribution p-value = 1.03e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AATAATCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCTTGCGGGAATAATGAGAAAGATAAA > W3110S.gb/1290711‑1290835
|
aataatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGc < 1:3442609/69‑1 (MQ=255)
aataatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGc < 1:970717/69‑1 (MQ=255)
aataatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGc < 1:3583150/69‑1 (MQ=255)
aataatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGc < 1:2405310/69‑1 (MQ=255)
aataatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGc < 1:2319666/69‑1 (MQ=255)
aataatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGc < 1:486117/69‑1 (MQ=255)
aataatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGc < 1:2029009/69‑1 (MQ=255)
ataatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGc < 1:2180268/68‑1 (MQ=255)
ataatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCg < 1:120719/69‑1 (MQ=255)
ataatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCg < 1:2554810/69‑1 (MQ=255)
ataatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCg < 1:1527156/69‑1 (MQ=255)
ataatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCg < 1:165464/69‑1 (MQ=255)
taatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGa < 1:2592353/69‑1 (MQ=255)
taatCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGa > 1:734992/1‑69 (MQ=255)
ctcCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGAtgt < 1:2030906/68‑1 (MQ=255)
tGGAAACAATACCGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGt > 1:2587936/1‑55 (MQ=255)
tGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGt > 1:2861914/1‑55 (MQ=255)
tGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGt > 1:407220/1‑55 (MQ=255)
tGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTAc < 1:712138/69‑1 (MQ=255)
tGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTAc < 1:750520/69‑1 (MQ=255)
tgAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTACg < 1:2239057/68‑1 (MQ=255)
aaCAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTACGa < 1:1866139/67‑1 (MQ=255)
aTAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCGGTAGCGATGTGGCTACGATTGCAt > 1:797350/1‑69 (MQ=255)
cGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTACGATTGCATTCCa > 1:1086047/1‑69 (MQ=255)
ttAACCGCCTGAGTAGCACTATGTTAACCGAGCGGTAGCGATGTGGCTACGATTGCATTc > 1:451696/1‑60 (MQ=255)
ttAACCGCCTGAGTAGCACTATGTTAACCGAGCGGTAGCGATGTGGCTACGATTGCATTCCAGGGGAAt > 1:3133100/1‑69 (MQ=255)
ttAACCGCCTGAGTAGCACTATGTTAACCGAGCGGTAGCGATGTGGCTACGATTGCATTCCAGGGGAAt > 1:139881/1‑69 (MQ=255)
ttAACCGCCTGAGTAGCACTATGTTAACCGAGCGGTAGCGATGTGGCTACGATTGCATTCCAGGGGAAt > 1:853960/1‑69 (MQ=255)
ttAACCGCCTGAGTAGCACTATGTTAACCGAGCGGTAGCGATGTGGCTACGATTGCATTCCAGGGGAAt > 1:1091163/1‑69 (MQ=255)
ttAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTAc < 1:986529/50‑1 (MQ=255)
ttAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTAc < 1:2231283/50‑1 (MQ=255)
aaCCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGa > 1:1390712/1‑39 (MQ=255)
aCCGCCTGAGTAGCACTATGTTAACCGAGCGGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCtt > 1:2910447/1‑69 (MQ=255)
ccGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTACGATTGCATTCCAGGGGAAt < 1:2084337/65‑1 (MQ=255)
cGCCTGAGTAGCACTATGTTAACCGAGCGGTAGCg < 1:3084652/35‑1 (MQ=255)
cGCCTGAGTAGCACTATGTTAACCGAGCGGTAGCg < 1:1240798/35‑1 (MQ=255)
cGCCTGAGTAGCACTATGTTAACCGAGCGGTAGCg < 1:1360956/35‑1 (MQ=255)
cGCCTGAGTAGCACTATGTTAACCGAGCGGTAGCg < 1:547611/35‑1 (MQ=255)
cGCCTGAGTAGCACTATGTTAACCGAGCGGTAGCg < 1:2111712/35‑1 (MQ=255)
gCCTTAGTAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCTTGCg < 1:118315/69‑1 (MQ=255)
gCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCTTGCg < 1:550510/69‑1 (MQ=255)
tAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCTTGCGGGaata > 1:1449532/1‑68 (MQ=255)
tAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCTTGCGGGaata < 1:282478/68‑1 (MQ=255)
aGCACTATGTTAACCGAGCGGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCTTGCGGGaat < 1:891228/66‑1 (MQ=255)
aGCACTATGTTAACCGAGCAGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCTTGCGGGaataat < 1:64362/69‑1 (MQ=255)
tGTTAACCGAGCGGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCTTGCGGGAATAATg > 1:687624/1‑63 (MQ=255)
tGTTAACCGAGCGGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCTTGCGGGAATAATg < 1:3612433/63‑1 (MQ=255)
ttAACCGAGCAGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCTTGCGGGAATAATGAGAAAGa > 1:2388041/1‑68 (MQ=255)
ccGAGCGGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCTTGCGGGAATAATGAGAAAGATaaa < 1:569472/68‑1 (MQ=255)
ccGAGCAGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCTTGCGGGAATAATGAGAAAGATaaa < 1:968759/68‑1 (MQ=255)
|
AATAATCTCCCTGGAAACAATAACGGCGTATTAACCGCCTGAGTAGCACTATGTTAACCGAGCAGTAGCGATGTGGCTACGATTGCATTCCAGGGGAATCTTGCGGGAATAATGAGAAAGATAAA > W3110S.gb/1290711‑1290835
|
| 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
