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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,824,537 |
+G |
pseudogene (670/687 nt) |
rph → |
ECK3633:JW3618:b3643; ribonuclease PH |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,824,533 | 1 | . | G | 100.0%
| 43.3
/ NA
| 15 | pseudogene (666/687 nt) | rph | ECK3633:JW3618:b3643; ribonuclease PH |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (7/8); total (7/8) |
GGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑GGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACT > W3110S.gb/3824470‑3824597
|
ggggACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑gggggaa > 1:76762/1‑68 (MQ=255)
cGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑ggggg < 1:1648494/64‑2 (MQ=255)
cGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑ggggg < 1:1191242/64‑2 (MQ=255)
cGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑ggggg < 1:3851030/64‑2 (MQ=255)
cGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑ggggg < 1:1803480/64‑2 (MQ=255)
cGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑ggggg < 1:3185453/64‑2 (MQ=255)
cGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑ggggg < 1:3007664/64‑2 (MQ=255)
gCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑gggggaa > 1:3768949/1‑61 (MQ=255)
gCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑gggggaa > 1:4122760/1‑61 (MQ=255)
gCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑gggggaa > 1:2424052/1‑61 (MQ=255)
gCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑gggggaa > 1:1792237/1‑61 (MQ=255)
gAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaatc > 1:2572014/1‑68 (MQ=255)
gAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaatc > 1:969814/1‑68 (MQ=255)
gAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaatc > 1:4070215/1‑68 (MQ=255)
gAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaatc > 1:1884782/1‑68 (MQ=255)
gAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaatc > 1:3297078/1‑68 (MQ=255)
gAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaatc > 1:3419799/1‑68 (MQ=255)
cTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcg < 1:714754/37‑1 (MQ=21)
cTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcg < 1:997401/37‑1 (MQ=21)
cTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcg < 1:2986256/37‑1 (MQ=21)
cTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcg < 1:2034645/37‑1 (MQ=21)
cTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcg < 1:1686837/37‑1 (MQ=21)
accTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACt > 1:3095601/3‑70 (MQ=255)
gttgGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGAtt < 1:2252404/69‑1 (MQ=255)
gCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:2882666/71‑1 (MQ=255)
gCCCGAGGGGGAATCGAATCCATTGTAGCGACACAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACt < 1:3552676/71‑1 (MQ=255)
|
GGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑GGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAAACTGATTTTTAAGGCGACT > W3110S.gb/3824470‑3824597
|
| 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
