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 I210 R1
|
226 |
19.6 |
1130256 |
95.4% |
1078264 |
84.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,803,201 |
A→G |
V97A (GTC→GCC) |
yniB ← |
YniB family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,803,201 | 0 | A | G | 100.0%
| 68.3
/ NA
| 22 | V97A (GTC→GCC) | yniB | YniB family protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (9/13); total (9/13) |
CACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGAT > NZ_CP009273/1803136‑1803285
|
cacCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCAccc < 1:19872/90‑1 (MQ=255)
cacCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCAccc < 2:521916/90‑1 (MQ=255)
cacCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCAccc < 2:494191/90‑1 (MQ=255)
cacCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCAccc < 2:196912/90‑1 (MQ=255)
ccTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAg > 1:467415/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 1:105660/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 1:369721/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 1:534853/1‑90 (MQ=255)
ttCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGaa > 1:543357/1‑90 (MQ=255)
gcCTGGCGACTCATCCGTGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGcca > 1:224181/1‑90 (MQ=255)
gcCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGcca < 1:215819/90‑1 (MQ=255)
cTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGccacc < 1:47252/90‑1 (MQ=255)
cATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAAtt > 1:244881/1‑90 (MQ=255)
ccGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTggg < 1:327624/90‑1 (MQ=255)
aCCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCgg < 2:401146/90‑1 (MQ=255)
cGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCgggg < 1:11672/90‑1 (MQ=255)
aTCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGtt < 2:219613/90‑1 (MQ=255)
aTCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGtt < 1:332316/90‑1 (MQ=255)
aTCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGtt < 2:534853/90‑1 (MQ=255)
gCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATAcc > 2:123412/1‑90 (MQ=255)
gCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAAt > 1:290937/1‑90 (MQ=255)
gTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGAt < 2:369721/90‑1 (MQ=255)
|
CACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGAT > NZ_CP009273/1803136‑1803285
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 33 ≤ 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
ATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGATTCAAA > NZ_CP009273/1803128‑1803290
|
ATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAG > SRR3722092.476684/1‑100 (MQ=60)
CTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAA > SRR3722092.107452/1‑100 (MQ=60)
CTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAA > SRR3722092.376667/1‑100 (MQ=60)
CTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAA > SRR3722092.545582/1‑100 (MQ=60)
CTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAA > SRR3722092.554275/1‑100 (MQ=60)
CACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAAC < SRR3722092.20211/100‑1 (MQ=60)
CAAGAAGCGCGCCTGGCGACTCATCCGTGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCA > SRR3722092.227844/1‑100 (MQ=60)
GCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAAT < SRR3722092.219369/100‑1 (MQ=60)
CCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATT > SRR3722092.248846/1‑100 (MQ=60)
CTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTG < SRR3722092.48055/100‑1 (MQ=60)
CCGGGCACCGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAG < SRR3722092.333442/100‑1 (MQ=60)
CGGAATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCA < SRR3722092.11881/100‑1 (MQ=60)
ATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAAT > SRR3722092.295991/1‑100 (MQ=60)
ATCCTGCAACGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAAT < SRR3722092.338195/100‑1 (MQ=60)
CGCCAGTCCGGCAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGctgtctcttatacacatctga > SRR3722092.162308/1‑79 (MQ=60)
|
ATCTTCAACACCTTCCCGCAAGAAGCGCGCCTGGCGACTCATCCGGGCACCGGAATCCTGCAACGCCAGTCCGACAAAAATCAGGATGAAAATCACCCAGAACATAACGTTCACGCCACCATTAAAATTGGGCGTCGGGGAGTTATACCAGAATAGATTCAAA > NZ_CP009273/1803128‑1803290
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
