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 |
4,162,569 |
A→C |
I572L (ATC→CTC) |
rpoB → |
DNA‑directed RNA polymerase subunit beta |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,162,569 | 0 | A | C | 97.5%
| 155.3
/ NA
| 40 | I572L (ATC→CTC) | rpoB | DNA‑directed RNA polymerase subunit beta |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base C (21/18); total (22/18) |
| 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 |
CGAGACGTACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCG > REL606/4162497‑4162641
|
cGAGACGTACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCa < 1:933942/76‑1 (MQ=255)
gTACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAActctc > 1:1065505/1‑76 (MQ=255)
tACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAActctct < 2:559966/76‑1 (MQ=255)
ccacCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTg < 2:1198465/75‑1 (MQ=255)
acacCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTg > 2:1156246/1‑76 (MQ=255)
cccGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTcc < 1:1042326/76‑1 (MQ=255)
gACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCgtg > 1:1209196/1‑76 (MQ=255)
aCTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCgtgt > 2:1274122/1‑76 (MQ=255)
tCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTAc < 1:867371/76‑1 (MQ=255)
tACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGcac < 1:653321/76‑1 (MQ=255)
aCGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGcaca < 2:626256/76‑1 (MQ=255)
cgcgTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTa < 1:239990/76‑1 (MQ=255)
cgcgTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTa > 1:261299/1‑76 (MQ=255)
cgcgAATGTACAATCGAAACCGCTGAATGTCCTAGCCTTGGCCTGGTCATCTCTCTGAGCGTGTACGCACAGACTa < 1:1341115/76‑1 (MQ=255)
gcgTATTTCAAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTNTANGCACAGACTaa > 2:210203/1‑76 (MQ=255)
gcgTATGTCCAATCGAAACCTCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGGCTGTATACGCACAGACTaa > 1:60470/1‑76 (MQ=255)
tATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGa < 1:803933/76‑1 (MQ=255)
aTGTCCAATCGAAAGCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACTGACTAACGaa < 1:115427/76‑1 (MQ=255)
aTGTCCAATCGAAACCCCTGAAGGTCCGAACCTCNGTCTACTNTANTCNCTGTACGTGTACGCACAGACTAACGaa > 1:1163535/1‑76 (MQ=255)
aTGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGaa > 1:836970/1‑76 (MQ=255)
ccAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACg > 2:173867/1‑76 (MQ=255)
cAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACgg > 2:1058401/1‑76 (MQ=255)
aaTCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGc > 1:532164/1‑76 (MQ=255)
aTCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCt < 2:250849/76‑1 (MQ=255)
aTCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTACGTGTACGCACAGACTAACGAATACGGCt > 2:33173/1‑76 (MQ=255)
tCGAAACCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCtt < 2:539259/76‑1 (MQ=255)
aaaCCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCt < 2:173018/76‑1 (MQ=255)
aaCCCCTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCtt > 2:122802/1‑76 (MQ=255)
ccTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTgaga > 2:513226/1‑76 (MQ=255)
ccTGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTgaga > 2:320146/1‑76 (MQ=255)
tGAAGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTTAGACt > 1:598800/1‑76 (MQ=255)
aGGTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCg < 1:1137040/76‑1 (MQ=255)
gTCCGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTGACTAATACGGCTTCCTTGAGACTCCGTa > 1:214856/1‑76 (MQ=255)
cGAACATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTNTCg < 1:1207304/76‑1 (MQ=255)
aaCATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTa > 1:45482/1‑76 (MQ=255)
aaCATCGGTCNGATCAACTCTNTGTCCGTGTACGAACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTa > 2:1323172/1‑76 (MQ=255)
aCATCGGTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTaa < 1:1063686/76‑1 (MQ=255)
cGGTCTGCTCAACTCTCTGTCCGTGNATGCACAGACGAACGAATACANCTTGCTTGAGACTCCGTATCGTAAAGTg < 1:194674/76‑1 (MQ=255)
ggTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGa > 2:602558/1‑76 (MQ=255)
ggTCTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGa > 2:706774/1‑76 (MQ=255)
cTGCTCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCg < 2:732735/76‑1 (MQ=255)
|
CGAGACGTACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCG > REL606/4162497‑4162641
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
