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 |
|
A58 F1 I1 R1
|
18 |
55.3 |
3756050 |
96.8% |
3635856 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,100,824 |
A→T |
I136N (ATC→AAC) |
hslU ← |
ATP‑dependent protease ATP‑binding subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,100,824 | 0 | A | T | 97.8%
| 164.5
/ ‑4.4
| 45 | I136N (ATC→AAC) | hslU | ATP‑dependent protease ATP‑binding subunit |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base T (16/28); total (16/29) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 |
GGAATGCCTGACGAGCAGCGGACGGTTCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGATCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGTTTTTCTCGATAGCCTGGACG > REL606/4100753‑4100895
|
ggAATGCCTGACGAGCAGCGGACGGTTCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAg < 1:758354/76‑1 (MQ=255)
ggAATGCCTGACGAGCAGCGGACGGTTCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAg < 2:804707/76‑1 (MQ=255)
aaTGCCTGACGAGCAGCGGACGGTTCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCa < 1:1081699/76‑1 (MQ=255)
tGCCTGACGAGCAGCGGACGGTTCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACg > 1:740299/1‑76 (MQ=255)
tGCCTGACGAGCAGCGGACGGTTCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACg > 1:1579446/1‑76 (MQ=255)
ccTGACGAGCAGCGGACGGTTCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTc < 2:609778/76‑1 (MQ=255)
tGACGAGCAGCGGACGGTTCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCga > 2:64671/1‑76 (MQ=255)
gACGAGCAGCGGACGGTTCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCgag > 1:522298/1‑76 (MQ=255)
gACGAGCAGCGGACGGTTCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCgag < 2:1804082/76‑1 (MQ=255)
ggACGGTTCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGttct < 2:1290117/76‑1 (MQ=255)
ggACGGTTCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGttct < 1:623909/76‑1 (MQ=255)
tCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCa > 2:218201/1‑76 (MQ=255)
tCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCa > 1:1060075/1‑76 (MQ=255)
tgctgctgTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGtt < 2:1530893/76‑1 (MQ=255)
tgctgctgTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGtt < 2:1515905/76‑1 (MQ=255)
tgctgctgTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGtt < 1:1395932/76‑1 (MQ=255)
gctgctgTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCCGttc > 1:703845/1‑76 (MQ=255)
ctgctgTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGttct > 2:926982/1‑76 (MQ=255)
ctgctgTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGttct < 2:1515781/76‑1 (MQ=255)
gctgTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGttcttc < 2:630454/76‑1 (MQ=255)
gctgTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGttcttc < 2:1393230/76‑1 (MQ=255)
ctgTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCa < 2:989158/76‑1 (MQ=255)
ctgTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCa > 2:261641/1‑76 (MQ=255)
tgTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAg < 1:261641/76‑1 (MQ=255)
gTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAgc < 2:241560/76‑1 (MQ=255)
ggTCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGa < 1:80358/76‑1 (MQ=255)
tCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATa > 2:1117733/1‑76 (MQ=255)
tCTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATa < 1:1424827/76‑1 (MQ=255)
cTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATaa < 1:1057621/76‑1 (MQ=255)
cTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATaa < 2:835783/76‑1 (MQ=255)
cTGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATaa > 1:242991/1‑76 (MQ=255)
tGTCCCCAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAAc < 2:484569/76‑1 (MQ=255)
ccccAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGt > 1:1296172/1‑76 (MQ=255)
ccAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGttt < 2:1089145/76‑1 (MQ=255)
cAGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGtttt > 2:1139442/1‑76 (MQ=255)
aGTTGTTTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGttttt < 2:950618/76‑1 (MQ=255)
gttTTTAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGTTTTTCTCg < 2:366385/76‑1 (MQ=255)
ttttAGCAGGTGGGATCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGTTTTTCTCGAt < 1:275964/76‑1 (MQ=255)
tAGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGTTTTTCTCGATAGc > 2:1574675/1‑76 (MQ=255)
aGCAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGTTTTTCTCGATAGcc > 1:478885/1‑76 (MQ=255)
cAGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGTTTTTCTCGATAGCCTg < 2:516687/76‑1 (MQ=255)
aGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGTTTTTCTCGATAGCCTgg < 1:1610457/76‑1 (MQ=255)
aGGTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGTTTTTCTCGATAGCCTgg < 1:524595/76‑1 (MQ=255)
ggTGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGTTTTTCTCGATAGCCTGGa > 1:1830893/1‑76 (MQ=255)
tGGGTTCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGTTTTTCTCGATAGCCTGGAcg < 1:1420533/76‑1 (MQ=255)
|
GGAATGCCTGACGAGCAGCGGACGGTTCCTGCTGCTGTTCGGTCTGTCCCCAGTTGTTTTTAGCAGGTGGGATCAGCACGTCGAGAATACGTTCTTCTGCCAGTTCTTCAGCGCGATAACGGTTTTTCTCGATAGCCTGGACG > REL606/4100753‑4100895
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ 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
