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 |
|
A85 F1 I1 R1
|
15 |
51.9 |
3515760 |
95.5% |
3357550 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,138,988 |
C→T |
A213V (GCG→GTG) |
oxyR → |
DNA‑binding transcriptional dual regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,138,988 | 0 | C | T | 96.2%
| 187.0
/ ‑0.9
| 54 | A213V (GCG→GTG) | oxyR | DNA‑binding transcriptional dual regulator |
| Reads supporting (aligned to +/- strand): ref base C (1/1); new base T (23/28); total (25/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.22e-01 |
AAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAGGTAGCGGGATC > REL606/4138917‑4139061
|
aaaaCTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGAt < 2:529073/76‑1 (MQ=255)
aCTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGaa < 1:433456/76‑1 (MQ=255)
tgctgATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGa < 1:876056/76‑1 (MQ=255)
gctgATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGAt < 2:229339/76‑1 (MQ=255)
ctgATTGTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATa < 1:1393281/76‑1 (MQ=255)
ctgATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATa > 2:1523731/1‑76 (MQ=255)
ctgATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATa < 1:840022/76‑1 (MQ=255)
aTGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTAGATGAAGATacac < 1:1164634/76‑1 (MQ=255)
tGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATacacn < 1:57148/76‑2 (MQ=255)
tGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACtt < 1:786166/76‑1 (MQ=255)
ggAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTc < 2:1241850/76‑1 (MQ=255)
ggAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCAGGGTGGATGAAGATACACACTTc < 2:1392131/76‑1 (MQ=255)
aaGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCcg < 2:869991/76‑1 (MQ=255)
gATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCcgcg < 2:1490926/76‑1 (MQ=255)
tGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCcgcgcg < 1:638712/76‑1 (MQ=255)
tCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGAcc < 1:1511104/76‑1 (MQ=255)
tCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGAcc < 2:1041109/76‑1 (MQ=255)
cagtGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACAGACTTCAGCGCGACCa > 2:1130443/4‑76 (MQ=255)
aCTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAg < 2:969170/76‑1 (MQ=255)
tGTTTGCGCGATCAGGCAGTGGGATTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAgat > 2:1750266/1‑74 (MQ=255)
tGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGcc > 2:43945/1‑76 (MQ=255)
gTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCt > 2:1713936/1‑76 (MQ=255)
gTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCt > 1:238056/1‑76 (MQ=255)
cgATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAAct > 1:1704223/1‑76 (MQ=255)
cgATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAAct < 2:258477/76‑1 (MQ=255)
aTCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAActct < 1:1252406/76‑1 (MQ=255)
tCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTg > 1:455132/1‑76 (MQ=255)
cAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCaa < 2:1476893/76‑1 (MQ=255)
cAATGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCaa > 2:825876/1‑76 (MQ=255)
cAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCaa > 2:1689431/1‑76 (MQ=255)
naTGGGTCTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAAc > 1:1146010/2‑76 (MQ=255)
aaTGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAAc > 1:61981/1‑76 (MQ=255)
aaTGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAAc > 1:1261008/1‑76 (MQ=255)
aaTGGGTTTCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAAc > 1:1064069/1‑76 (MQ=255)
gggTTTCTGTTTTGCAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACAtg > 1:941081/1‑76 (MQ=255)
ttCTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACAtggtgg > 1:673238/1‑76 (MQ=255)
cTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTggcg < 1:629353/76‑1 (MQ=255)
cTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTggcg < 1:398870/76‑1 (MQ=255)
cTGTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTggcg > 1:1492965/1‑76 (MQ=255)
gTTTTGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTggcggc > 1:1607956/1‑76 (MQ=255)
ttttGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCa > 2:626076/1‑76 (MQ=255)
tttGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAg < 1:483656/76‑1 (MQ=255)
tttGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAg < 2:1436283/76‑1 (MQ=255)
tttGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAg < 2:1121461/76‑1 (MQ=255)
tttGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAg < 1:1304842/76‑1 (MQ=255)
tttGAAGCCGGGGAGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAg > 1:1165121/1‑76 (MQ=255)
gttGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAg < 2:745475/75‑1 (MQ=255)
tgcaGCCGGGGTGGATGAAGAGACGCGCTTCCGCGCGACCAGCCTGGAAACTCTGCGCACCATGGTGGCGGCAGGt < 2:547785/73‑1 (MQ=255)
tGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAGGt < 1:378420/76‑1 (MQ=255)
tGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAGGt > 1:323205/1‑76 (MQ=255)
tGAAGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAGGt < 1:1282630/76‑1 (MQ=255)
tGAAGCCCGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAGGt > 1:1105575/1‑76 (MQ=255)
aaGCCGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAGGTAg > 1:1443511/1‑76 (MQ=255)
aaGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAGGTan < 1:1305550/76‑2 (MQ=255)
cGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAGGTAGCggg > 1:552451/1‑76 (MQ=255)
cGGGGTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAGGCAGCggg > 1:1195986/1‑76 (MQ=255)
gggTGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAGGGAGCGGGAt > 1:1235563/1‑76 (MQ=255)
ggCGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAGGTAGCGGGATc < 1:569930/76‑1 (MQ=255)
|
AAAACTGCTGATGCTGGAAGATGGTCACTGTTTGCGCGATCAGGCAATGGGTTTCTGTTTTGAAGCCGGGGCGGATGAAGATACACACTTCCGCGCGACCAGCCTGGAAACTCTGCGCAACATGGTGGCGGCAGGTAGCGGGATC > REL606/4138917‑4139061
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
