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 |
|
A2 F5 I181 R1
|
159 |
32.7 |
1279082 |
96.9% |
1239430 |
121.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
741,846 |
T→C |
R152R (CGT→CGC) |
nei → |
endonuclease VIII |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 741,846 | 0 | T | C | 100.0%
| 63.8
/ NA
| 18 | R152R (CGT→CGC) | nei | endonuclease VIII |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (8/10); total (8/10) |
GGATATTGAGATGTTGACCCCGGAACAACTGACCACGCATCCGTTTTTACAACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGTCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCCTCTGGCAGGTTGGGTTGACTGGAAATCATAAAGCGAAAGATCTCAATGCGGCGCAACTGGA > NZ_CP009273/741711‑741977
|
ggATATTGAGATGTTGCCCCCGGAACAACTGCCCACGCATCCGTTTTAACAACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCa < 2:472299/138‑1 (MQ=255)
gTTGACCCCGGAACAACTGACCACGCATCCGTTTTTACAACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTa > 2:248121/1‑139 (MQ=255)
gACCCCGGAACAACTGACCACGCATCCGTTTTTACAACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTg > 2:535742/1‑139 (MQ=255)
aCCCCGGAACAACTGACCACGCATCCGTTTTTACAACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGc > 2:174239/1‑139 (MQ=255)
aCCACGCATCCGTTTTTACAACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACTCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTCCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGttt < 1:67949/138‑1 (MQ=255)
tCCGTTTTTACAACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTggg < 2:422341/139‑1 (MQ=255)
tttttACAACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTg > 1:138123/1‑139 (MQ=255)
ggTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGCCGCCGCGTTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCggg < 1:284645/139‑1 (MQ=255)
gTCCCGATGTGCTGGATCCGAATCTGACGCCGGGGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCggg < 1:227410/138‑1 (MQ=255)
ccGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTg > 1:265021/1‑137 (MQ=255)
ccGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGga < 1:174239/139‑1 (MQ=255)
tgCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCct < 2:80811/139‑1 (MQ=255)
cGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCCTCTGGCAGGTTGGGTTGACTgg < 1:248121/139‑1 (MQ=255)
gATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAg < 2:111861/56‑1 (MQ=255)
gATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAg > 1:111861/1‑56 (MQ=255)
gccgcGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCCTCTGGCAGGTTGGGGTGACTGGAAATCATAAAGCGAAAGATCTCAATgcg > 2:595557/1‑139 (MQ=255)
cgcgCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCCTCTGGCAGGTTGGGTTGACTGGAAATCATAAAGCGAAAGATCTCAATgcggc > 2:61081/1‑139 (MQ=255)
gTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCCTCTGGCAGGTTGGGTTGACTGGAAATCATAAAGCGAAAGATCTCAATGCGGCGCAACTGGa < 2:265021/139‑1 (MQ=255)
|
GGATATTGAGATGTTGACCCCGGAACAACTGACCACGCATCCGTTTTTACAACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGTCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCCTCTGGCAGGTTGGGTTGACTGGAAATCATAAAGCGAAAGATCTCAATGCGGCGCAACTGGA > NZ_CP009273/741711‑741977
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GACCACGCATCCGTTTTTACAACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGTCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCCTCTGGCAGGTTGGGTTGACTGGAAATCATAAAGCGAAAGATCTCAATGCGGCGCAACTGGATGCACTCGC > NZ_CP009273/741741‑741986
|
GACCACGCATCCGTTTTTACAACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACTCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTCCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCT < SRR3722135.68860/150‑1 (MQ=60)
CCACGCATCCGTTTTTACAACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGG > SRR3722135.140024/1‑151 (MQ=60)
ACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGG > SRR3722135.268791/1‑149 (MQ=60)
GGGTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGCCGCCGCGTTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCCTC < SRR3722135.288730/151‑1 (MQ=60)
GGTCCCGATGTGCTGGATCCGAATCTGACGCCGGGGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCCTC < SRR3722135.230599/150‑1 (MQ=60)
CCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCCTCTGGC < SRR3722135.176656/151‑1 (MQ=60)
CCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCCTCTGGCAGGTTGGGTTGACTGGAAATCATAAAG < SRR3722135.251638/151‑1 (MQ=60)
GGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCctgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccgtcttctgcttgaaaaaa > SRR3722135.113379/1‑78 (MQ=60)
TTCGTAACCGCCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCCTCTGGCAGGTTGGGTTGACTGGAAATCATAAAGCGAAAGATCTCAATGCGGCGCAACctgtctcttatac > SRR3722135.382819/1‑138 (MQ=60)
|
GACCACGCATCCGTTTTTACAACGCGTTGGTCCCGATGTGCTGGATCCGAATCTGACGCCGGAGGTGGTGAAAGAACGATTATTGTCGCCGCGCTTTCGTAACCGTCAGTTTGCTGGATTACTGCTCGATCAGGCGTTTCTGGCTGGGCTTGGCAATTATTTGCGGGTGGAGATCCTCTGGCAGGTTGGGTTGACTGGAAATCATAAAGCGAAAGATCTCAATGCGGCGCAACTGGATGCACTCGC > NZ_CP009273/741741‑741986
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
