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 |
|
A1 F2 I229 R1
|
214 |
17.4 |
943020 |
97.5% |
919444 |
87.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,635,419 |
T→C |
D262G (GAT→GGT) |
rodZ ← |
cytoskeleton protein RodZ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,635,419 | 0 | T | C | 100.0%
| 72.5
/ NA
| 24 | D262G (GAT→GGT) | rodZ | cytoskeleton protein RodZ |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (13/11); total (13/11) |
TGGCCGGTTAAGTTCAAATTACCGTCTTTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAATCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGGCGCAGCAC > NZ_CP009273/2635332‑2635503
|
tGGCCGGTTAAGTTCAAATTACCGTCTTTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCg > 1:197687/1‑90 (MQ=255)
ttAAGTTCAAATTACCGTCTTTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTaa < 1:168665/90‑1 (MQ=255)
tAAGTTCAAATTACCGTCTTTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTaaa < 2:123968/90‑1 (MQ=255)
aaTTACCGTCTTTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTtcatca > 2:120933/1‑90 (MQ=255)
tttACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCAtt < 1:326387/90‑1 (MQ=255)
ttACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTc < 1:191243/90‑1 (MQ=255)
aCGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCgg < 2:109255/90‑1 (MQ=255)
gCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAg > 2:282612/1‑90 (MQ=255)
gCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAg > 1:45834/1‑90 (MQ=255)
gCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTtc < 2:453247/61‑1 (MQ=255)
gCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTtc > 1:453247/1‑61 (MQ=255)
aaaCAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGt > 1:387272/1‑90 (MQ=255)
aaaCAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGt > 1:116534/1‑90 (MQ=255)
aaaCAATTTTTTACCGGTAGCATCAGCGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGt > 1:237087/1‑90 (MQ=255)
aTTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCa > 1:449349/1‑90 (MQ=255)
aTTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCa > 2:169434/1‑90 (MQ=255)
cATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCgg < 2:279495/90‑1 (MQ=255)
aCCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAAc < 1:433728/90‑1 (MQ=255)
aCCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAAc < 1:282612/90‑1 (MQ=255)
aCCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAAc < 1:209247/90‑1 (MQ=255)
ccagccagCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGgcg > 1:194282/1‑90 (MQ=255)
gccagcAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGGCgcag > 2:79597/1‑90 (MQ=255)
cagcAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGGCgcagca > 1:382981/1‑90 (MQ=255)
agcAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGGCGCAGCAc < 2:116534/90‑1 (MQ=255)
|
TGGCCGGTTAAGTTCAAATTACCGTCTTTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAATCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGGCGCAGCAC > NZ_CP009273/2635332‑2635503
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTACGGTGCCTGGCCGGTTAAGTTCAAATTACCGTCTTTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAATCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGGCGCAGCACCATC > NZ_CP009273/2635322‑2635507
|
GTACGGTGCCTGGCCGGTTAAGTTCAAATTACCGTCTTTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCG > SRR3722113.199220/1‑100 (MQ=60)
CTGGCCGGTTAAGTTCAAATTACCGTCTTTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAG < SRR3722113.323976/100‑1 (MQ=60)
TTAAGTTCAAATTACCGTCTTTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCAC < SRR3722113.170029/100‑1 (MQ=60)
TCTTTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAG > SRR3722113.46218/1‑100 (MQ=60)
TTTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCC < SRR3722113.329641/100‑1 (MQ=60)
TTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCA < SRR3722113.192736/100‑1 (MQ=60)
GCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCtgtctcttatacacatct > SRR3722113.458036/1‑82 (MQ=60)
GCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGT > SRR3722113.117539/1‑100 (MQ=60)
GCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGT > SRR3722113.391325/1‑100 (MQ=60)
GCATACCGCTAAACAATTTTTTACCGGTAGCATCAGCGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGT > SRR3722113.239107/1‑100 (MQ=60)
CCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCA > SRR3722113.454102/1‑100 (MQ=60)
TCAGTGACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGGCG > SRR3722113.195794/1‑100 (MQ=60)
GACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGGCGCAGCA > SRR3722113.386983/1‑100 (MQ=60)
ACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGGCGCAGCAC < SRR3722113.210848/100‑1 (MQ=60)
ACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGGCGCAGCAC < SRR3722113.285156/100‑1 (MQ=60)
ACCTCCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGGCGCAGCAC < SRR3722113.438327/100‑1 (MQ=60)
CCAGCCAGCAACCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGGCGCAGCACCATC > SRR3722113.44742/1‑100 (MQ=60)
|
GTACGGTGCCTGGCCGGTTAAGTTCAAATTACCGTCTTTACGCTGCATACCGCTAAACAATTTTTTACCGGTAGCATCAGTGACCTCCAGCCAGCAATCGGCAGTAAAGTTCATCACCAGCGCATTCGGATCAGCCACCGGCGTGGTCACGCCAGCCTGATCGGTTGGCAACGGCGCAGCACCATC > NZ_CP009273/2635322‑2635507
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
