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 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,315,024 |
C→T |
10.3% |
D213N (GAC→AAC) |
alsA ← |
fused D‑allose transporter subunits and ATP‑binding components of ABC superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,315,024 | 0 | C | T | 10.3%
| 205.8
/ 11.3
| 68 | D213N (GAC→AAC) | alsA | fused D‑allose transporter subunits and ATP‑binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base C (31/30); new base T (5/2); total (36/32) |
| Fisher's exact test for biased strand distribution p-value = 4.34e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.48e-01 |
GTCATTTGACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGTACCCTCTTTACGCAACTGA > W3110S.gb/4314956‑4315094
|
gTCATTTGACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCg > 1:569776/1‑70 (MQ=255)
gTCATTTGACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCg > 1:430579/1‑70 (MQ=255)
tCATTTGACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCg > 1:4467620/1‑69 (MQ=255)
tCATTTGACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGc > 1:1768145/1‑70 (MQ=255)
cATTTGACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCa > 1:210407/1‑70 (MQ=255)
aTTTGACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTTGCaaa > 1:822380/1‑71 (MQ=255)
aTTTGACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCaaa < 1:3167123/71‑1 (MQ=255)
tttGACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACAGTATAGCGGTCGCAAAt < 1:4100456/71‑1 (MQ=255)
ttGACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATa > 1:4358420/1‑71 (MQ=255)
tGACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATa > 1:834740/1‑70 (MQ=255)
tGACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATAc > 1:3746840/1‑71 (MQ=255)
gACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATAc < 1:1556811/70‑1 (MQ=255)
acaTCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGc > 1:194216/1‑70 (MQ=255)
acaTCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCg < 1:4494577/71‑1 (MQ=255)
acaTCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCg < 1:266859/71‑1 (MQ=255)
aTCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACg < 1:2010450/66‑1 (MQ=255)
cGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTTGCAAATACGGCGaa > 1:4496880/1‑69 (MQ=255)
cGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGaa > 1:3087837/1‑69 (MQ=255)
gCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTTGCAAATa > 1:3338527/1‑61 (MQ=255)
gCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTTGCAAATACGGCGAAtt < 1:196706/70‑1 (MQ=255)
gCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGTCGAAttt < 1:1002750/71‑1 (MQ=255)
gCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAAttt < 1:2478883/71‑1 (MQ=255)
cTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTc > 1:2600195/1‑71 (MQ=255)
ttACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGaa < 1:2666667/66‑1 (MQ=255)
tACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTc > 1:1910089/1‑69 (MQ=255)
aCTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGc > 1:2988395/1‑71 (MQ=255)
tATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATAc < 1:3108172/56‑1 (MQ=255)
tGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAAc > 1:3676559/1‑71 (MQ=255)
ccGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACt > 1:504469/1‑70 (MQ=255)
ccGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACt > 1:3375991/1‑70 (MQ=255)
cGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTa < 1:2628851/71‑1 (MQ=255)
gCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTAt < 1:219076/71‑1 (MQ=255)
gCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTAt < 1:1671910/71‑1 (MQ=255)
cTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCa > 1:1141771/1‑44 (MQ=255)
gCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTTGCAAATACGGCGAATTTCCGCCAACTTATGc > 1:4021119/1‑70 (MQ=255)
aaaCGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGc > 1:3784089/1‑68 (MQ=255)
aCGCTGCTGCCGTCTTTCATCACCGTATAGCGGTTGCAAATACGGCGAATTTCCGCCAACTTATGCGAGat < 1:1448146/71‑1 (MQ=255)
cGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGata > 1:1299157/1‑71 (MQ=255)
ctgctgCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGAtata < 1:3051968/71‑1 (MQ=255)
gctgcCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCgag > 1:3862612/1‑64 (MQ=255)
gctgcCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGa > 1:2601224/1‑71 (MQ=255)
ctgcCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGAc > 1:3954023/1‑71 (MQ=255)
ctgcCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGAc < 1:3761130/71‑1 (MQ=255)
ccGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGata < 1:884723/63‑1 (MQ=255)
ccGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGAt < 1:3195030/71‑1 (MQ=255)
ccGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGAt > 1:683646/1‑71 (MQ=255)
ccGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGAt < 1:3466485/71‑1 (MQ=255)
cGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGAt < 1:1385600/70‑1 (MQ=255)
gTCTTTCATCACCGTATAGCGGTTGCAAATACGGCGAATTTCCGCCAACTTATGc > 1:2722837/1‑55 (MQ=255)
tttCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATg > 1:100746/1‑51 (MQ=255)
tcatcaCCGTATAGCGGTCGCAAATACGGCGAATTTcc > 1:2726068/1‑38 (MQ=255)
tcatcaCCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCg < 1:3311451/69‑1 (MQ=255)
tcatcaCCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGt < 1:1801731/70‑1 (MQ=255)
tcatcaCCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGTa > 1:3599708/1‑71 (MQ=255)
tcatcaCCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGTa > 1:333835/1‑71 (MQ=255)
catcaCCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTAt < 1:5781/47‑1 (MQ=255)
catcaCCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGc < 1:1571642/49‑1 (MQ=255)
catcaCCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGTa < 1:2876631/70‑1 (MQ=255)
atcaCCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGTa > 1:2224682/1‑69 (MQ=255)
caCCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGc < 1:2578226/46‑1 (MQ=255)
aCCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGTACCctc < 1:3877420/71‑1 (MQ=255)
ccGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGTACCctct > 1:2585588/1‑71 (MQ=255)
gTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGAt > 1:4123922/1‑56 (MQ=255)
taGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGTACCCTCTTTACg > 1:24093/1‑71 (MQ=255)
gCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGTACCCTCTTTACGc < 1:211013/70‑1 (MQ=255)
gTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGTACCCTCTTTACGCAACt < 1:1693072/71‑1 (MQ=255)
gTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGTACCCTCTTTACGCAACt < 1:3511720/71‑1 (MQ=255)
tCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGa < 1:2311711/46‑1 (MQ=255)
cGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGTACCCTCTTTACGCAACTGa > 1:893790/1‑71 (MQ=255)
|
GTCATTTGACACATCGCTTACTATGCCGCTGCAAACGCTGCTGCCGTCTTTCATCACCGTATAGCGGTCGCAAATACGGCGAATTTCCGCCAACTTATGCGAGATATAGACGATGGCCGTACCCTCTTTACGCAACTGA > W3110S.gb/4314956‑4315094
|
| 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
