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 |
|
A33 F1 I1 R1
|
22 |
54.4 |
3455062 |
95.8% |
3309949 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,168,967 |
C→T |
A1336V (GCC→GTC) |
rpoC → |
DNA‑directed RNA polymerase subunit beta' |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,168,967 | 0 | C | T | 95.9%
| 167.8
/ ‑0.2
| 49 | A1336V (GCC→GTC) | rpoC | DNA‑directed RNA polymerase subunit beta' |
| Reads supporting (aligned to +/- strand): ref base C (0/2); new base T (22/25); total (22/27) |
| Fisher's exact test for biased strand distribution p-value = 4.95e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.68e-01 |
GTCTCTGGCAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGCCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGATCCCGGCA > REL606/4168896‑4169037
|
gTCTCTGGCAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGtt < 2:546209/76‑1 (MQ=255)
gTCTCTGGCAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGtt < 2:1495487/76‑1 (MQ=255)
tctcTGGCAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTg < 2:313835/76‑1 (MQ=255)
tctcTGGCAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTg < 2:1399081/76‑1 (MQ=255)
ctctGGCAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGc > 1:331920/1‑76 (MQ=255)
ctGGCAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCgg > 2:15198/1‑76 (MQ=255)
ctGGCAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCgg > 1:763528/1‑76 (MQ=255)
tGGCAACCGTGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCggg > 2:1160747/1‑76 (MQ=255)
ggCAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGc > 2:811850/1‑76 (MQ=255)
ggCAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGc > 2:1429937/1‑76 (MQ=255)
cAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCaa < 1:610068/76‑1 (MQ=255)
cAACCGAGTCCTTCATCTACGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCaa > 1:254557/1‑76 (MQ=255)
aaCCGAGTCCTTCATCTCCGCGGCATCGTTTCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCaaa < 1:30555/76‑1 (MQ=255)
aaCCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCaaa > 1:1103940/1‑76 (MQ=255)
ccGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAAcg < 2:925842/76‑1 (MQ=255)
ccGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCGGACCGAAGCAGACGATGCGGGGAAAcg > 1:1681811/1‑76 (MQ=255)
aGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGcga < 2:895459/76‑1 (MQ=255)
aGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGcga < 2:574277/76‑1 (MQ=255)
ccTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGcgacga < 2:614355/76‑1 (MQ=255)
cTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGaa > 1:617021/1‑76 (MQ=255)
tCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACt < 1:633582/76‑1 (MQ=255)
tCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACt < 1:1460248/76‑1 (MQ=255)
tCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACt < 1:9824/76‑1 (MQ=255)
tCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACt < 1:186975/76‑1 (MQ=255)
aTCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTgc > 1:402614/1‑76 (MQ=255)
cgcgGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGc > 2:1361156/1‑76 (MQ=255)
cgcgGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGc > 2:1208243/1‑76 (MQ=255)
ctgCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCt < 2:618004/74‑1 (MQ=255)
cgGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCt < 2:124615/76‑1 (MQ=255)
cgGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCt < 2:380507/76‑1 (MQ=255)
gCATCGGTCCAGGAGACCCCCCGCGGGGTGGCCGAAGCCGGCGTTGCGGGCAAACGCGACGCACCGCGCGGCCTGa > 2:241777/1‑76 (MQ=255)
cATCGTTCCAGGAGCCCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGaa < 1:1307463/76‑1 (MQ=255)
cATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGaa > 1:1445985/1‑76 (MQ=255)
ttCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAgaga < 2:1134737/76‑1 (MQ=255)
ttCCAGGAGACCACTCGCGTGCTGACCGAAGCAGCCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAgaga < 2:833461/76‑1 (MQ=255)
tgccAGGAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAgaga < 2:1092604/74‑1 (MQ=255)
tCCAGGAGACCACTCGCGTGCTGACCGAAGCAGTCTTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGaa < 2:1115787/76‑1 (MQ=255)
cAGGAGACCACTCGCGTGCTGACCGAAGCAGCCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACg < 1:663636/76‑1 (MQ=255)
ggAGACCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGtt < 1:643888/76‑1 (MQ=255)
gagaCCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTa < 1:1281314/76‑1 (MQ=255)
agaCCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTAt > 2:1014078/1‑76 (MQ=255)
agaCCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTAt > 2:15103/1‑76 (MQ=255)
agaCCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTAt < 2:1563690/76‑1 (MQ=255)
gaCCACTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATc < 2:670502/76‑1 (MQ=255)
cTCGCGTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTggg > 1:86433/1‑76 (MQ=255)
gcgTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGgtcg < 2:1192094/76‑1 (MQ=255)
cgTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGgtcgt > 2:205006/1‑76 (MQ=255)
gTGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGgtcgtc < 2:632176/76‑1 (MQ=255)
tGCTGACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCt > 1:1439455/1‑76 (MQ=255)
gACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGGTc > 1:981607/1‑76 (MQ=255)
gACCGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGATc > 1:515584/1‑76 (MQ=255)
ccGAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGATccc > 1:445854/1‑76 (MQ=255)
cGAAGCAGTCGGTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGATCCCg < 1:14430/76‑1 (MQ=255)
gAAGCAGTCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGATCCCgg > 1:1051038/1‑76 (MQ=255)
agcagtCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGATCCCGGCa < 1:451771/76‑1 (MQ=255)
|
GTCTCTGGCAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGCCGTTGCGGGCAAACGCGACGAACTGCGCGGCCTGAAAGAGAACGTTATCGTGGGTCGTCTGATCCCGGCA > REL606/4168896‑4169037
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
