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 |
|
A142 F1 I1 R1
|
21 |
42.6 |
2691336 |
96.3% |
2591756 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,027,586 |
C→T |
A29T (GCC→ACC) |
ECB_02827 ← |
Polysialic acid transport ATP‑binding KpsT |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,027,586 | 0 | C | T | 97.8%
| 169.8
/ ‑3.5
| 46 | A29T (GCC→ACC) | ECB_02827 | Polysialic acid transport ATP‑binding KpsT |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (20/25); total (21/25) |
| Fisher's exact test for biased strand distribution p-value = 4.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.72e-01 |
CTGTCGGGGCGGTCAATACCACCAATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGCAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCGCCCCGTTGGGGTACGATATGA > REL606/3027513‑3027661
|
cTGTCGGGGCGGTCAATACCACCAATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTaa < 2:476237/76‑1 (MQ=255)
gTCGGGGCGGTCAATACCACCAATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACg < 2:683415/76‑1 (MQ=255)
tCGGGGCGGTCAATACCACCAATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGc > 2:1052527/1‑76 (MQ=255)
gggCGGTCAATACCACCAATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCttt > 1:675017/1‑76 (MQ=255)
cGGTCAATACCACCAATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCCTTTTc > 2:1001107/1‑76 (MQ=255)
ggTCAATACCACCAATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGCAACGCTTTTTcc > 1:566623/1‑76 (MQ=255)
gTCAATACCACCAATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCt > 1:343822/1‑76 (MQ=255)
gTCAATACCACCAATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCt < 2:378931/76‑1 (MQ=255)
tCAATACCACCAATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTg > 2:804080/1‑76 (MQ=255)
aaTACCACCAATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAATGGTAACGCTTTTTCCTGaa < 1:1139721/76‑1 (MQ=255)
aaTACCACCAATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGaa < 1:266511/76‑1 (MQ=255)
tACCACCGATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAgg < 2:143285/76‑1 (MQ=255)
tACCACCAATCATTCTTAGCAACGGTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAgg < 2:143308/76‑1 (MQ=255)
ccaccaATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGa < 2:576325/76‑1 (MQ=255)
caATCATTCTTAGCAACGTTGATTTACNCGCACCGTCGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTc > 1:1178434/1‑76 (MQ=255)
caATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTc > 1:605655/1‑76 (MQ=255)
caATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTc > 1:709035/1‑76 (MQ=255)
aaTCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCg < 2:1222457/76‑1 (MQ=255)
ttCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGtt < 2:100639/76‑1 (MQ=255)
ttCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGtt > 2:1282870/1‑76 (MQ=255)
ttAGCTACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTaa < 2:50402/76‑1 (MQ=255)
ttAGCAACGTTGATGTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAGGGGATTGCGAGGTTTaa < 1:106612/76‑1 (MQ=255)
tAGCAATGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTNaaa < 1:1198312/76‑1 (MQ=255)
aGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTTAAt < 1:831084/76‑1 (MQ=255)
aGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAAt < 1:831097/76‑1 (MQ=255)
cGTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTa > 1:768485/1‑76 (MQ=255)
gTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTaa > 1:723881/1‑76 (MQ=255)
gTTGATTTACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTaa > 1:723872/1‑76 (MQ=255)
tttACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAAcaca < 1:822300/76‑1 (MQ=255)
tttACCCGCACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAAcaca < 2:181027/76‑1 (MQ=255)
tACCCGCACCGTTGAGACCGATGAATGTAACGCTTTTTCCTGAAGGGATTTAGAGGTTTAAATCCTTAAACACATa < 1:64509/76‑1 (MQ=255)
gCACCGTTGCGACCNATAAAGGTAACGCTTTTTCCTGAAGGGCTTTCGAGGTTTAAATCCATAAACACATAGTGTc < 1:1142621/76‑1 (MQ=255)
cACCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCg < 2:891545/76‑1 (MQ=255)
cACCGTTGCGACCAATAAAGGTAACGCTTTTTCATGAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCg > 2:719816/1‑76 (MQ=255)
cACCGTTGCGACCAATAAAGATAACGCTTTTTCCTTAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCg < 2:1058864/76‑1 (MQ=255)
aCCGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCGc > 2:1293063/1‑76 (MQ=255)
ccGTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCGcc > 2:69375/1‑76 (MQ=255)
gTTGCGACCAATAAAGGTAACGCTTTTTCCTGAAGAGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCGcccc > 1:363074/1‑76 (MQ=255)
ttGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCGCCCCg < 2:877532/76‑1 (MQ=255)
ttGCGACCAATAAAGGTAACGCTTTTTACTGAAGNGATTTCGNTGNTTNAATCATTATACACATAGTGTCGCCCCg > 1:1160624/1‑76 (MQ=255)
tGCGACCAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCGCCCCGt > 2:958249/1‑76 (MQ=255)
cAATAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCGCCCCGTTGGGGt > 1:99712/1‑76 (MQ=255)
aTAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCGCCCCGTTGGGGTAc < 1:151421/76‑1 (MQ=255)
aTAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCGCCCCGTTGGGGTAc < 2:341481/76‑1 (MQ=255)
aTAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTAAAACACATAGTGTCGCCCCGTTGGGGTAc > 2:24615/1‑76 (MQ=255)
tAAAGGTAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCGCCCCGTTGGGGTACg < 2:856110/76‑1 (MQ=255)
cAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCGCCCCGTTGGGGTACGATATGa < 2:1156291/76‑1 (MQ=255)
|
CTGTCGGGGCGGTCAATACCACCAATCATTCTTAGCAACGTTGATTTACCCGCACCGTTGCGACCAATAAAGGCAACGCTTTTTCCTGAAGGGATTTCGAGGTTTAAATCCTTAAACACATAGTGTCGCCCCGTTGGGGTACGATATGA > REL606/3027513‑3027661
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
