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 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,692,839 |
G→A |
100% |
G425D (GGT→GAT) |
ydgA → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,692,839 | 0 | G | A | 100.0%
| 138.2
/ NA
| 45 | G425D (GGT→GAT) | ydgA | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (33/12); total (33/12) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GACCATTCCGGTGGATATGGCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGGTTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCAATGGGGCA > W3110S.gb/1692783‑1692905
|
gACCATTCCGGTGGATATGGCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGAt > 1:262215/1‑70 (MQ=255)
gACCATTCCGGTGGATATGGCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGAt > 1:1308547/1‑70 (MQ=255)
gACCATTCCGGTGGATATGGCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGAt > 1:510022/1‑70 (MQ=255)
gACCATTCCGGTGGATATGGCAACTGAGATTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGAt > 1:1650222/1‑70 (MQ=255)
ccGGTGGATATGGCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGa > 1:102160/1‑70 (MQ=255)
ccGGTGGATATGGCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGa > 1:457107/1‑70 (MQ=255)
ccGGTGGATATGGCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGa > 1:532658/1‑70 (MQ=255)
ccGGTGGATATGGCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGa > 1:636142/1‑70 (MQ=255)
ccGGTGGATATGGCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGa > 1:776752/1‑70 (MQ=255)
gCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATc > 1:1100363/1‑43 (MQ=255)
gCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCg > 1:1851946/1‑69 (MQ=255)
gCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGa > 1:1229700/1‑70 (MQ=255)
gCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGa < 1:1236546/70‑1 (MQ=255)
gCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGa > 1:1255358/1‑70 (MQ=255)
gCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGa > 1:726858/1‑70 (MQ=255)
gCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGa > 1:347716/1‑70 (MQ=255)
gAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGc > 1:426629/1‑70 (MQ=255)
gAGTTTATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGc > 1:1508879/1‑70 (MQ=255)
tATGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGtt > 1:449398/1‑70 (MQ=255)
aTGACTCAGGTAGCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTg < 1:386223/70‑1 (MQ=255)
gCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGc < 1:336575/71‑1 (MQ=255)
gCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGc < 1:1038368/71‑1 (MQ=255)
gCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGc < 1:1668900/71‑1 (MQ=255)
gCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGc < 1:1779180/71‑1 (MQ=255)
gCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGc < 1:1515898/71‑1 (MQ=255)
gCGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGc < 1:1403077/71‑1 (MQ=255)
cGAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGc < 1:739474/70‑1 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAATCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCaa > 1:1476452/1‑71 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCaa > 1:999490/1‑71 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCaa > 1:1113204/1‑71 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCaa > 1:745745/1‑71 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCaa > 1:1164384/1‑71 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCaa > 1:725386/1‑71 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCaa > 1:1233145/1‑71 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCaa > 1:1235373/1‑71 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCaa > 1:1302202/1‑71 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCaa > 1:348137/1‑71 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCaa > 1:274747/1‑71 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCaa > 1:1589353/1‑71 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCaa > 1:1934238/1‑71 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCa > 1:1228005/1‑70 (MQ=255)
gAAGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCa > 1:780461/1‑70 (MQ=255)
aaGCTGGAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGc < 1:1420316/68‑1 (MQ=255)
gAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCAATGGGGCa < 1:478565/71‑1 (MQ=255)
gAAGATTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCAATGGGGCa < 1:1452897/71‑1 (MQ=255)
|
GACCATTCCGGTGGATATGGCAACTGAGTTTATGACTCAGGTAGCGAAGCTGGAAGGTTATCAGGAAGATCAAGCGAAAAAACTGGCGAAACAGCAAGTTGAAGGTGCATCAGCAATGGGGCA > W3110S.gb/1692783‑1692905
|
| 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
