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 |
|
A77 F1 I1 R1
|
21 |
53.0 |
3608474 |
95.6% |
3449701 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,145,769 |
C→T |
intergenic (+100/‑95) |
dnaG → / → rpoD |
DNA primase/RNA polymerase sigma factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,145,769 | 0 | C | T | 96.7%
| 223.8
/ ‑0.5
| 61 | intergenic (+100/‑95) | dnaG/rpoD | DNA primase/RNA polymerase sigma factor |
| Reads supporting (aligned to +/- strand): ref base C (0/2); new base T (24/35); total (24/37) |
| Fisher's exact test for biased strand distribution p-value = 5.15e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.18e-01 |
ATCGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATG > REL606/3145696‑3145841
|
aTCGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTtggtgg > 2:807213/1‑76 (MQ=255)
tCGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTggtggt < 2:1229439/76‑1 (MQ=255)
cGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTa < 1:702554/76‑1 (MQ=255)
gggAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTaa < 1:1438909/76‑1 (MQ=255)
gggAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTaa < 1:116099/76‑1 (MQ=255)
gggAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTaa < 1:1103/76‑1 (MQ=255)
gAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAaac < 1:1659343/76‑1 (MQ=255)
aaGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAaaca < 2:583530/76‑1 (MQ=255)
aaGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAaaca > 2:1188067/1‑76 (MQ=255)
aaGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAaaca < 2:1518497/76‑1 (MQ=255)
aGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAaacaa < 1:934514/76‑1 (MQ=255)
gCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAaacaac > 2:1741113/1‑76 (MQ=255)
cccGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGt > 1:1122453/1‑76 (MQ=255)
cGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTg < 1:1236960/76‑1 (MQ=255)
cGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTg > 1:35694/1‑76 (MQ=255)
cAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGAt > 2:859844/1‑76 (MQ=255)
cAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGAt > 2:527283/1‑76 (MQ=255)
cAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGAt > 2:420154/1‑76 (MQ=255)
aGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGAtt < 1:474285/76‑1 (MQ=255)
gCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGAttt < 2:100033/76‑1 (MQ=255)
gCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGAttt < 2:1667216/76‑1 (MQ=255)
gCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGAttt < 1:1736781/76‑1 (MQ=255)
gCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGAttt < 1:967762/76‑1 (MQ=255)
ccGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTc < 2:452894/76‑1 (MQ=255)
cGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCa < 2:1031382/76‑1 (MQ=255)
cGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCa < 2:1615341/76‑1 (MQ=255)
cGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCa < 1:613316/76‑1 (MQ=255)
gCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAg < 1:626987/76‑1 (MQ=255)
cTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGt < 1:386243/76‑1 (MQ=255)
gagaGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTa < 1:1081816/76‑1 (MQ=255)
tgagGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTaa > 2:1453723/2‑76 (MQ=255)
gagGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAAc < 2:799498/76‑1 (MQ=255)
cAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCt > 1:1093107/1‑76 (MQ=255)
cAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCt > 1:1243042/1‑76 (MQ=255)
aGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGcca > 1:889763/1‑74 (MQ=255)
aGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTg > 1:573483/1‑76 (MQ=255)
aGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTg > 1:1415031/1‑76 (MQ=255)
aGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTg < 1:93729/76‑1 (MQ=255)
aaaTATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGAc < 1:848991/76‑1 (MQ=255)
aaaTATATAAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGAc > 1:3087/1‑76 (MQ=255)
aaTATATAAGTACGCCCTCGTACTTATCGTTGGTGGTAAACAACCTTTGGATTTCAGCGTTAACGGCTAAAAGaaa > 2:1481550/1‑74 (MQ=255)
tatataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATc < 2:209195/76‑1 (MQ=255)
tatataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATc < 1:648096/76‑1 (MQ=255)
tatataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATc < 2:1507039/76‑1 (MQ=255)
tatataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATc < 1:950381/76‑1 (MQ=255)
tatataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATc < 2:946337/76‑1 (MQ=255)
atataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCg > 1:873074/1‑76 (MQ=255)
tataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCgg < 1:449133/76‑1 (MQ=255)
tataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCgg < 2:776904/76‑1 (MQ=255)
ataAGTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCggg > 2:1661384/1‑76 (MQ=255)
aGTACGCCCTCGTAATTATCGTTGGTGTTAAACAACCGTTGGATTTCAGCGTTAACGGCTGACGGACATCGGGTCa < 2:1024206/76‑1 (MQ=255)
gTACGCCCTCGTAATTATCGTTGGTGGTAAACAACCGTTGGGTTTCAGCGTTAACGGCTGCAGGACATCGAGGCaa > 2:712215/1‑76 (MQ=255)
cGTAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAac > 2:1385306/1‑76 (MQ=255)
gTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAaca < 1:1622594/76‑1 (MQ=255)
tAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAacac > 2:344145/1‑76 (MQ=255)
tAATTATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAacac > 2:956806/1‑76 (MQ=255)
ttATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCaa < 2:1219763/76‑1 (MQ=255)
tATCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAAc > 1:1197762/1‑76 (MQ=255)
aTCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAAcc > 2:192868/1‑76 (MQ=255)
aTCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAAcc > 1:983705/1‑76 (MQ=255)
tCGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCt < 1:1115955/76‑1 (MQ=255)
cGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTc < 1:96137/76‑1 (MQ=255)
cGTTGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTc < 2:843380/76‑1 (MQ=255)
ttGGTGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCAt > 2:1125398/1‑76 (MQ=255)
tggtggTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATg < 2:212490/76‑1 (MQ=255)
tggtggTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATg < 2:1665869/76‑1 (MQ=255)
|
ATCGGGAAGCCCCCGACAGCCGCACTGAGAGGCAGCGGCAAATATATAAGTACGCCCTCGTAATTATCGTTGGCGGTAAACAACCGTTGGATTTCAGCGTTAACGGCTGAAGGACATCGGGTCAATCGCCCAACACCAACCTCATG > REL606/3145696‑3145841
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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
