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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,413,273 |
G→T |
12.7% |
R130R (CGC→CGA) |
ydaO ← |
predicted C32 tRNA thiolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,413,273 | 0 | G | T | 12.7%
| 142.5
/ 5.4
| 47 | R130R (CGC→CGA) | ydaO | predicted C32 tRNA thiolase |
| Reads supporting (aligned to +/- strand): ref base G (20/21); new base T (3/3); total (23/24) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.94e-01 |
GTCACGATGGTGACCCAACGCGATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTGGAATCTTCTCTTTCACGATACCGTAAG > W3110S.gb/1413207‑1413343
|
gTCACGATGGTGACCCAACGCGATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGcgac > 1:3033450/1‑71 (MQ=255)
tCACGATGGTGACCCAACGCGATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGcgacg < 1:1798715/71‑1 (MQ=255)
tGGTGACCCAACGCGATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGcgacg < 1:1928264/65‑1 (MQ=255)
gTGACCCAACGCGATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCgag < 1:1600375/71‑1 (MQ=255)
gTGACCCAACGCGATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCgag < 1:945838/71‑1 (MQ=255)
aCCCAACGCGATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGaa > 1:70598/1‑70 (MQ=255)
ccAACGCGATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAacac < 1:4484902/71‑1 (MQ=255)
ccAACGCGATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAaca > 1:3202158/1‑70 (MQ=255)
aCGCGATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGt > 1:2279405/1‑71 (MQ=255)
cgcgATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTg < 1:543059/71‑1 (MQ=255)
cgcgATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTg < 1:3066636/71‑1 (MQ=255)
cgcgATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTg < 1:1515250/71‑1 (MQ=255)
tCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAacac > 1:2358137/1‑62 (MQ=255)
ttCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAg > 1:1551961/1‑62 (MQ=255)
ttCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGt > 1:4208251/1‑71 (MQ=255)
cgtcgCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCTCGACGAAGGCGAGAACACAGTGAGc < 1:1340863/65‑1 (MQ=255)
cgtcgCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGc < 1:2225862/65‑1 (MQ=255)
gCCCCCAGTTCCGTTGCTGTACGATAAAGGATACCGCGACGAAGGCGAGaa < 1:2475242/51‑1 (MQ=255)
cccccAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTg < 1:3354864/71‑1 (MQ=255)
ccAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGtttt < 1:296429/67‑1 (MQ=255)
cAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCct > 1:1162683/1‑71 (MQ=255)
aGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCctc > 1:2279001/1‑71 (MQ=255)
aGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCct > 1:1772848/1‑70 (MQ=255)
aGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAACTGGTTTTGCCctc > 1:2272187/1‑71 (MQ=255)
ccGTTGCGGTACGATAAAGGATACCTCGACGAAGGCGAGAACACAGTGAGCAAGTgg > 1:4549506/1‑57 (MQ=255)
ccGTTGCGGTACGATAAAGGATACCTCGACGAAGGCGAGAACACAGTGAGCAAGTgg > 1:320398/1‑57 (MQ=255)
ccGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTgg > 1:329467/1‑70 (MQ=255)
ttGCGGTACGATAAAGGATACCTCGACGAAGGCGAGAACACAGTGAGCAAGTgg < 1:647407/54‑1 (MQ=255)
ttGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGt < 1:3076121/55‑1 (MQ=255)
ttGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGt < 1:1614306/55‑1 (MQ=255)
ttGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGt < 1:3960098/55‑1 (MQ=255)
ttGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTGGaa < 1:2386349/69‑1 (MQ=255)
gCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCct > 1:3195907/1‑61 (MQ=255)
gTACGATAAAGGATACCTCGACGAAGGCGAGAACACAGTGAGCaa > 1:570091/1‑45 (MQ=255)
gTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGc < 1:271462/43‑1 (MQ=255)
aCGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTGGAAtctt > 1:953561/1‑66 (MQ=255)
aCGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTGGAATCTTGTCtt > 1:707637/1‑71 (MQ=255)
cGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCctct > 1:2790963/1‑57 (MQ=255)
cGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTgg < 1:4625787/59‑1 (MQ=255)
gATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTg < 1:3772953/50‑1 (MQ=255)
aTAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTGGAAtctt > 1:236077/1‑63 (MQ=255)
aaaGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTGGAATCTTCTCTTTCAc > 1:886894/1‑70 (MQ=255)
aaGGATACCTCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTGGAATCTTCTCTTTCACGa < 1:2667686/71‑1 (MQ=255)
aaGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGt < 1:4181378/39‑1 (MQ=255)
ccGCTACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTGGAATCTTCTCTTTCACGATACCGt < 1:1891809/70‑1 (MQ=255)
ccGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTGGAAt > 1:1118840/1‑50 (MQ=255)
ccGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTGGAATCTTCTCTTTCACGATACCGt > 1:1976609/1‑70 (MQ=255)
gcgACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTGGAATCTTCTCTTTCACGATACCGTAAg > 1:2981771/1‑71 (MQ=255)
|
GTCACGATGGTGACCCAACGCGATCTTCGTCGCCCCCAGTTCCGTTGCGGTACGATAAAGGATACCGCGACGAAGGCGAGAACACAGTGAGCAAGTGGTTTTGCCCTCTGGAATCTTCTCTTTCACGATACCGTAAG > W3110S.gb/1413207‑1413343
|
| 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
