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 F28 I1 R2
|
164 |
48.3 |
4710601 |
85.3% |
4018142 |
55.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,824,514 |
T→C |
pseudogene (647/687 nt) |
rph → |
ECK3633:JW3618:b3643; ribonuclease PH |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,824,514 | 0 | T | C | 100.0%
| 148.8
/ NA
| 40 | pseudogene (647/687 nt) | rph | ECK3633:JW3618:b3643; ribonuclease PH |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (27/13); total (27/13) |
CATTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑GGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGG > W3110S.gb/3824458‑3824569
|
catTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt < 1:124706/62‑1 (MQ=255)
catTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt < 1:4407690/62‑1 (MQ=255)
catTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt < 1:2820447/62‑1 (MQ=255)
catTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt < 1:2743519/62‑1 (MQ=255)
catTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt < 1:4526575/62‑1 (MQ=255)
catTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt < 1:4669428/62‑1 (MQ=255)
catTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt < 1:1266597/62‑1 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCtt > 1:5510/1‑52 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCtt > 1:4092999/1‑52 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCtt > 1:3948238/1‑52 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCtt > 1:3463073/1‑52 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCtt > 1:4666145/1‑52 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCtt > 1:2328431/1‑52 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCtt > 1:3345514/1‑52 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCtt > 1:3173795/1‑52 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCtt > 1:4164260/1‑52 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCtt > 1:607089/1‑52 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCtt > 1:146192/1‑52 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCt > 1:2737879/1‑51 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATCAAGAGCTACTCACCtt > 1:2704657/1‑52 (MQ=255)
cAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt < 1:2355238/42‑1 (MQ=255)
gCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt > 1:265380/1‑36 (MQ=255)
gCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt > 1:2058951/1‑36 (MQ=255)
gCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt > 1:4131208/1‑36 (MQ=255)
gCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt > 1:2026422/1‑36 (MQ=255)
gCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt > 1:3906578/1‑36 (MQ=255)
gCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt > 1:4035182/1‑36 (MQ=255)
gAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaatc < 1:3018423/62‑1 (MQ=255)
gAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaatc < 1:594926/62‑1 (MQ=255)
gAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaatc < 1:2983140/62‑1 (MQ=255)
gAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaatc < 1:2724983/62‑1 (MQ=255)
gAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGgaatcgaatc < 1:2141778/62‑1 (MQ=255)
ccGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCAt > 1:3609359/1‑62 (MQ=255)
ccGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCAt > 1:2032571/1‑62 (MQ=255)
tCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTa > 1:3504438/1‑62 (MQ=255)
tCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTa > 1:1246880/1‑62 (MQ=255)
tCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTa > 1:1529904/1‑62 (MQ=255)
tCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTa > 1:1467798/1‑62 (MQ=255)
tCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTa > 1:840357/1‑62 (MQ=255)
aCTCACCTTGTTGGCGCTGGCCCGAGGGGGAATCGAATCCATTGTAGCGACGCAGAAggcgg > 1:1582201/1‑62 (MQ=255)
|
CATTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑GGGGAATCGAATCCATTGTAGCGACGCAGAAGGCGG > W3110S.gb/3824458‑3824569
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
