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 |
|
A42 F1 I1 R1
|
17 |
53.4 |
3386926 |
97.4% |
3298865 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,168,904 |
C→T |
A1315V (GCA→GTA) |
rpoC → |
DNA‑directed RNA polymerase subunit beta' |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,168,904 | 0 | C | T | 97.6%
| 149.6
/ NA
| 41 | A1315V (GCA→GTA) | rpoC | DNA‑directed RNA polymerase subunit beta' |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (21/19); minor base G (1/0); total (22/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAATTGGAAGCGAACGGCAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGCAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGCCGTTGCG > REL606/4168831‑4168974
|
gAATTGGAAGCGAACGGCAAANTGGGTGCAACTTACTCTCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTaa < 2:269756/76‑1 (MQ=255)
gAATTGGAAGCGAACGGCAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTaa < 2:710485/76‑1 (MQ=255)
gAATTGGAAGCGAACGGCAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTaa < 1:36506/76‑1 (MQ=255)
aaTTGGAAGCGAACGGCAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAAc < 1:1546846/76‑1 (MQ=255)
aTTGGAAGCGAACGGCAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAAcc > 2:998464/1‑76 (MQ=255)
aTTGGAAGCGAACGGCAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAAcc > 2:1119511/1‑76 (MQ=255)
ttGGAAGCGAACGGCAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCg < 1:322338/76‑1 (MQ=255)
ttGGAAGCGAACGGCAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTATGGTAACCg > 2:720967/1‑76 (MQ=255)
ggAAGCGAACGGCAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAg < 2:382350/76‑1 (MQ=255)
gAAGCGAACGGCAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGt < 2:890631/76‑1 (MQ=255)
cGAACGGCAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCtt < 2:22649/76‑1 (MQ=255)
aaCGGCAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCa < 1:40822/76‑1 (MQ=255)
cAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTcc < 1:1126395/76‑1 (MQ=255)
cAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTcc < 2:1281388/76‑1 (MQ=255)
aaaGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCcg < 1:1570846/76‑1 (MQ=255)
aaaGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCcg > 2:1565442/1‑76 (MQ=255)
tGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGc > 1:223933/1‑76 (MQ=255)
aaCTTACTCCCGCGATCTGCTGGGTATCACTAAAGCGTCTCTGGGAACCGAGTCGTTCATCTCCGTGGCATCGGTc > 1:1524968/1‑76 (MQ=255)
aaCTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTc > 2:1202060/1‑76 (MQ=255)
tACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAgg < 1:987292/76‑1 (MQ=255)
cTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGgag > 1:852634/1‑76 (MQ=255)
cccGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGAc > 1:847569/1‑76 (MQ=255)
cccGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGAc > 2:266107/1‑76 (MQ=255)
ccGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGAcc > 1:1570978/1‑76 (MQ=255)
cgcgATCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCa > 2:1660973/1‑76 (MQ=255)
aTCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTcg > 1:1522054/1‑76 (MQ=255)
aTCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTcg > 2:623135/1‑76 (MQ=255)
aTCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTcg < 2:411647/76‑1 (MQ=255)
aTCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTcg < 2:1320002/76‑1 (MQ=255)
tCTGCTGGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTcgc > 1:709292/1‑76 (MQ=255)
tgGGTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCt > 2:1612187/1‑76 (MQ=255)
gTATCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGAc < 1:1367553/76‑1 (MQ=255)
aTCACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCg > 2:834623/1‑76 (MQ=255)
tCACCATAGCGTCTCTGGTAAACGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGa < 2:702623/76‑1 (MQ=255)
cACCAAAGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGaa > 1:702818/1‑76 (MQ=255)
aaaGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAagcag < 2:1396216/76‑1 (MQ=255)
aGCGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGcc > 1:1056989/1‑76 (MQ=255)
cGTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGCCGt > 2:116404/1‑76 (MQ=255)
gTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGCCGtt < 2:356449/76‑1 (MQ=255)
gTCTCTGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGCCGtt < 2:1389564/76‑1 (MQ=255)
ctctGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGCCGTTGc > 1:308661/1‑76 (MQ=255)
ctctGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGCCGTTGc < 1:379466/76‑1 (MQ=255)
tctGGTAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGCCGTTGCg > 2:468122/1‑76 (MQ=255)
|
GAATTGGAAGCGAACGGCAAAGTGGGTGCAACTTACTCCCGCGATCTGCTGGGTATCACCAAAGCGTCTCTGGCAACCGAGTCCTTCATCTCCGCGGCATCGTTCCAGGAGACCACTCGCGTGCTGACCGAAGCAGCCGTTGCG > REL606/4168831‑4168974
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
