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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,007,501 |
A→C |
35.0% |
N174K (AAT→AAG) |
ycbX ← |
predicted 2Fe‑2S cluster‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,007,501 | 0 | A | C | 35.0%
| 11.0
/ 48.2
| 40 | N174K (AAT→AAG) | ycbX | predicted 2Fe‑2S cluster‑containing protein |
| Reads supporting (aligned to +/- strand): ref base A (14/12); new base C (6/8); total (20/20) |
| Fisher's exact test for biased strand distribution p-value = 7.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCATTTTTACACTGGCCGGACAACGTTGTTGGAGATCACGTAACGAGGCT > W3110S.gb/1007432‑1007567
|
caccacATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGAt < 1:1527603/71‑1 (MQ=255)
cacaTCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGCTTgg < 1:525987/71‑1 (MQ=255)
tCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGc < 1:4316079/70‑1 (MQ=255)
cACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGCTTGGGGCg > 1:337911/1‑70 (MQ=255)
aCCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGCTTGGGGCgg > 1:325283/1‑70 (MQ=255)
ccAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCTCCGGAAACCACCAGCTTGGGGCGGaa < 1:4658556/71‑1 (MQ=255)
ccAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGCTTGGGGCGGaa > 1:1356521/1‑71 (MQ=255)
ccAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGCTTGGGGCGGaa < 1:4276563/71‑1 (MQ=255)
ccAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGaa > 1:767905/1‑71 (MQ=255)
aaTGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAAtt < 1:3102280/71‑1 (MQ=255)
aTGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCTGAAACCACCAGATTGGGGCGGAATTg < 1:1452175/71‑1 (MQ=255)
aTGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGAt > 1:2198792/1‑58 (MQ=255)
aTGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTg < 1:2765304/71‑1 (MQ=255)
aTGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTg < 1:1154526/71‑1 (MQ=255)
cGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGaa > 1:1311806/1‑65 (MQ=255)
cGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGaa > 1:715272/1‑65 (MQ=255)
cGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTc > 1:1494649/1‑71 (MQ=255)
tCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCAtt < 1:3004337/71‑1 (MQ=255)
acACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCAtt > 1:4917561/2‑71 (MQ=255)
aCTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAGACCACCAGCTTGGGGCGGAATTGCTCCAtttt < 1:1811373/71‑1 (MQ=255)
aCTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCAtttt < 1:1714794/71‑1 (MQ=255)
tCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCATTTTTaca > 1:2580060/1‑71 (MQ=255)
cAGCGATCTTCATCCCAGGCTGACGCGCCGGAAACCACCAGCTTGGGGCGGAATTGCTCCATTTTTaca > 1:4674535/1‑69 (MQ=255)
gCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCATTTTTACACTgg > 1:4791218/1‑71 (MQ=255)
cGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCATTTTTa > 1:4842491/1‑64 (MQ=255)
cttcttCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCAt < 1:4001174/55‑1 (MQ=255)
ttcttcCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCATTTTTa < 1:3357386/59‑1 (MQ=255)
ttcttcCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCATTTTTACACTg < 1:2210236/64‑1 (MQ=255)
ccAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCATTTTTACACTGGCCGGACAACgt < 1:1069450/70‑1 (MQ=255)
cAGGCTGACGCGCCGGAAACCACCAGCTTGGGGCGGAATTGCTCCATTTTTACACTGGCCGGACAACgt > 1:4425985/1‑69 (MQ=255)
gCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCATTTTTaca > 1:1706811/1‑51 (MQ=255)
cTGACGCGCCGGAAACCACCAGCTTGGGGCGGAATTGCTCCATTTTTACACTGGCCGGACAACGTTGTTgg < 1:1512454/71‑1 (MQ=255)
cTGACGCGCCGGAAACCACCAGCTTGGGGCGGAATTGCTCCATTTTTACACTGGCCGGACAACGTTGTTgg < 1:1550265/71‑1 (MQ=255)
tGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCATTTTTACACTGGCCGGACAACGttgttg > 1:440797/1‑69 (MQ=255)
tGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCATTTTTACACTGGCCGGACAACGttgttg > 1:4173608/1‑69 (MQ=255)
tGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCATTTTTAAACTGGCCGGACAACGttgttg > 1:1809322/1‑69 (MQ=255)
ccGGAAACCACCAGCTTGGGGCGGAATTGCTCCATTTTTACACTGGCCGGACCACGTTGTTGGAGATCAc < 1:5066995/70‑1 (MQ=255)
aaCCACCAGCTTGGGGCGGAATTGCTCCATTTTTACACTGGCCGGACAACGTTGTTGGAGATCACGTAAc > 1:2719194/1‑70 (MQ=255)
caccaGCTTGGGGCGGAATTGCTCCATTTTTACACTGGCCGGACAACGTTGTTGgag < 1:4270289/57‑1 (MQ=255)
ccaGATTGGGGCGGAATTGCTCCATTTTTACACTGGCCGGACAACGTTGTTGGAGATCACGTAACGAGGCt > 1:5010264/1‑71 (MQ=255)
|
CACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACCACCAGATTGGGGCGGAATTGCTCCATTTTTACACTGGCCGGACAACGTTGTTGGAGATCACGTAACGAGGCT > W3110S.gb/1007432‑1007567
|
| 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
