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 |
|
A5 F8 I0 R2
|
53 |
71.6 |
5374071 |
98.5% |
5293459 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,824,514 |
T→C |
100% |
pseudogene (647/687 nt) |
rph → |
ECK3633:JW3618:b3643; ribonuclease PH |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,824,514 | 0 | T | C | 100.0%
| 264.1
/ NA
| 76 | pseudogene (647/687 nt) | rph | ECK3633:JW3618:b3643; ribonuclease PH |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (33/43); total (33/43) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GACGGGCGCATCATTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑G‑GGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAA > W3110S.gb/3824447‑3824578
|
gACGGGCGCATCATTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCtt < 1:332203/71‑1 (MQ=255)
cGGGCGCATCATTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCttg < 1:2257791/70‑1 (MQ=255)
gggCGCATCATTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCttgtt < 1:4953375/71‑1 (MQ=255)
gcgcATCATTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTgg < 1:2872687/71‑1 (MQ=255)
catcatTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGcgc > 1:4893853/1‑69 (MQ=255)
catcatTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGcgc < 1:14027/71‑3 (MQ=255)
catcatTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGcgc > 1:3574104/1‑69 (MQ=255)
atcatTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGcgct > 1:1649746/1‑71 (MQ=255)
atcatTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGcgct > 1:1766467/1‑71 (MQ=255)
tcatTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTg > 1:1686129/1‑71 (MQ=255)
tcatTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTg > 1:3638616/1‑71 (MQ=255)
catTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTgg > 1:2127348/1‑71 (MQ=255)
ttGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGcc > 1:808876/1‑71 (MQ=255)
gAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGccc > 1:1543959/1‑70 (MQ=255)
gAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGccc < 1:4011340/70‑1 (MQ=255)
aGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g < 1:3091346/71‑1 (MQ=255)
aGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g < 1:3998775/71‑1 (MQ=255)
aGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g < 1:1450519/71‑1 (MQ=255)
gTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑g < 1:1215560/71‑1 (MQ=255)
gTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑g < 1:2937648/71‑1 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTg < 1:4100916/62‑1 (MQ=255)
tGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑gg < 1:3200147/71‑1 (MQ=255)
aGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑gggga < 1:1625377/71‑3 (MQ=255)
aGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑g > 1:401086/1‑67 (MQ=255)
ggggACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑ggggaa > 1:3472279/1‑68 (MQ=255)
gggACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑ggg < 1:388939/67‑1 (MQ=255)
ggACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑GTGGg‑aatc < 1:2204984/71‑1 (MQ=255)
gACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGg‑aatcg < 1:2059803/71‑1 (MQ=255)
gACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGg‑aatcg < 1:4456662/71‑1 (MQ=255)
aCGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCttgt < 1:4272010/46‑1 (MQ=255)
ggCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g < 1:2738779/59‑1 (MQ=255)
gCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGg‑aatcgaatc > 1:4274375/1‑71 (MQ=255)
cAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGg‑aatcgaatc > 1:3612343/1‑70 (MQ=255)
gAAGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCg < 1:2156009/53‑1 (MQ=255)
aaGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCAtt < 1:3388543/71‑1 (MQ=255)
aaGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCAtt > 1:2757799/1‑71 (MQ=255)
aGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTg < 1:2909006/71‑1 (MQ=255)
aGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑gggga < 1:4119877/58‑3 (MQ=255)
aGGCGAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑gggga < 1:633878/58‑3 (MQ=255)
gAGCCGTTCACCCATGAAGAGCTACTCACCttgtt < 1:1767320/35‑1 (MQ=255)
gAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTg > 1:2572589/1‑42 (MQ=38)
gAGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGc > 1:1702098/1‑71 (MQ=255)
aGCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCg < 1:1448893/71‑1 (MQ=255)
gCCGTTCACGCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCg > 1:1712121/1‑70 (MQ=255)
gCCGTTCACCCATGAAGAGCTACTCACCTTGTTgg > 1:2977950/1‑35 (MQ=255)
gCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑gg > 1:726700/1‑49 (MQ=255)
gCCGTTCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGA‑g‑gg > 1:1947211/1‑49 (MQ=255)
ttCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCg < 1:349125/41‑1 (MQ=38)
ttCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCg < 1:814858/41‑1 (MQ=38)
ttCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCg < 1:2498737/41‑1 (MQ=38)
tCACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACg > 1:2140511/1‑68 (MQ=255)
cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑Aatccaatcca > 1:1904658/1‑56 (MQ=255)
cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCa > 1:3302379/1‑56 (MQ=255)
cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGCAg < 1:856093/70‑1 (MQ=255)
cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGCAg < 1:5323230/70‑1 (MQ=255)
cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGCAg < 1:5293998/70‑1 (MQ=255)
cACCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGAGACGCAg < 1:2262496/70‑1 (MQ=255)
aCCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGCAg < 1:5300224/69‑1 (MQ=255)
aCCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGCAGaa < 1:1001932/71‑1 (MQ=255)
aCCCATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGCAGa < 1:950119/70‑1 (MQ=255)
ccATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGCAGAAgg < 1:4097046/71‑1 (MQ=255)
ccATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGCAGAAgg > 1:2778095/1‑71 (MQ=255)
cATGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGa > 1:2043063/1‑61 (MQ=255)
aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCa > 1:132913/1‑51 (MQ=255)
aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACg < 1:85282/62‑1 (MQ=255)
aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGCAGAAggcg > 1:3040977/1‑71 (MQ=255)
aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGCAGAAggcg < 1:2774330/71‑1 (MQ=255)
aTGAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACACAGAAggcg > 1:3598421/1‑71 (MQ=255)
gAAGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACg < 1:2852550/60‑1 (MQ=255)
aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGCAGaa > 1:1324126/1‑64 (MQ=255)
aaGAGCTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCAACGCAGAAGgcggcg > 1:2717052/1‑71 (MQ=255)
gagCTACTCACCTTGTTGGCGCTGGCCCGA‑G‑GGGAAATCGAATCCATTGTAGc > 1:2390187/1‑53 (MQ=255)
cTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTa > 1:4981970/1‑48 (MQ=255)
cTACTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGc < 1:2534944/55‑1 (MQ=255)
aCTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGCAGaa > 1:4265161/1‑57 (MQ=255)
cTCACCTTGTTGGCGCTGGCCCGAGG‑GGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCaa < 1:4369559/70‑1 (MQ=255)
|
GACGGGCGCATCATTGAAGTGCAGGGGACGGCAGAAGGCGAGCCGTTCACCCATGAAGAGCTACTCATCTTGTTGGCTCTGGCCCGA‑G‑GGG‑AATCGAATCCATTGTAGCGACGCAGAAGGCGGCGCTGGCAA > W3110S.gb/3824447‑3824578
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
