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 I199 R1
|
220 |
57.5 |
3163680 |
97.0% |
3068769 |
86.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
802,549 |
T→G |
T63T (ACA→ACC) |
ybhC ← |
putative acyl‑CoA thioester hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 802,549 | 0 | T | G | 100.0%
| 113.6
/ NA
| 35 | T63T (ACA→ACC) | ybhC | putative acyl‑CoA thioester hydrolase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (13/22); total (13/22) |
CCTTGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGTGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGGCGCGG > NZ_CP009273/802466‑802634
|
ccTTGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAgg < 2:1064571/90‑1 (MQ=255)
ccTTGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAgg < 1:677122/90‑1 (MQ=255)
ttGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGa < 2:627047/90‑1 (MQ=255)
ttGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGa > 1:1412715/1‑90 (MQ=255)
ttGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGa < 2:622480/90‑1 (MQ=255)
tGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGAt > 2:1070985/1‑90 (MQ=255)
gAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATg > 2:316298/1‑90 (MQ=255)
aatGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGc < 1:1175909/88‑1 (MQ=255)
aGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGc < 2:105832/90‑1 (MQ=255)
gCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCaaa > 1:666700/1‑90 (MQ=255)
gCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCaaa > 2:362819/1‑90 (MQ=255)
ccgccgGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAAt < 1:43637/90‑1 (MQ=255)
ccgccgGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAAt < 2:1536331/90‑1 (MQ=255)
ccgccgGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAAt < 2:1507308/90‑1 (MQ=255)
caaAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGa < 2:326812/90‑1 (MQ=255)
aggGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGcc < 2:538447/90‑1 (MQ=255)
gTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGAc < 1:1211533/90‑1 (MQ=255)
aTCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGa > 1:1530132/1‑90 (MQ=255)
ggggAAGGATTCCACGCTGCAGCCCCCGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATc < 2:1467204/90‑1 (MQ=255)
ggggAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATc < 1:1298860/90‑1 (MQ=255)
ggggAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATc < 2:357333/90‑1 (MQ=255)
ggAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCgg > 2:127928/1‑90 (MQ=255)
ggAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCgg > 2:1490181/1‑90 (MQ=255)
gAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGAc > 1:1168605/1‑81 (MQ=255)
gAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGAc < 2:1168605/81‑1 (MQ=255)
ggATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCga < 2:1530132/90‑1 (MQ=255)
aTTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCgaga < 2:1562907/90‑1 (MQ=255)
tCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGagaag < 1:316298/90‑1 (MQ=255)
aCGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAgg > 2:579214/1‑90 (MQ=255)
cTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTAc > 2:1461113/1‑90 (MQ=255)
gcagcaCCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCa > 1:1565391/1‑90 (MQ=255)
caCCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGgcg < 2:1565391/90‑1 (MQ=255)
caCCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGgcg < 1:651054/90‑1 (MQ=255)
caCCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGgcg < 1:1308291/90‑1 (MQ=255)
cTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGGCGCgg > 2:875131/1‑90 (MQ=255)
|
CCTTGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGTGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGGCGCGG > NZ_CP009273/802466‑802634
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ 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
GTGGTATGCGTTACACCTTGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGTGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGGCGCGGTTTGATCA > NZ_CP009273/802451‑802642
|
GTGGTATGCGTTACACCTTGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGG < SRR3722078.746187/100‑1 (MQ=60)
GCGTTACACCTTGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGA > SRR3722078.1435649/1‑100 (MQ=60)
CACCTTGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAA > SRR3722078.674330/1‑100 (MQ=60)
CCTTGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAAT < SRR3722078.684940/100‑1 (MQ=60)
AATGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGT < SRR3722078.1194240/100‑1 (MQ=60)
CCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGC < SRR3722078.44150/100‑1 (MQ=60)
AGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGA > SRR3722078.1555062/1‑100 (MQ=60)
GGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGG > SRR3722078.1186762/1‑100 (MQ=60)
GTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGC < SRR3722078.1230580/100‑1 (MQ=60)
GGGGAAGGATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAG < SRR3722078.1319541/100‑1 (MQ=60)
ATTCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCA > SRR3722078.1590879/1‑100 (MQ=60)
TCCACGCTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGG < SRR3722078.320170/100‑1 (MQ=60)
CTGCAGCACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGGCGCGGT > SRR3722078.798421/1‑100 (MQ=60)
CACCTGGTGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGGCGCGGTTTGATC > SRR3722078.1122676/1‑100 (MQ=60)
CACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGGCGCGGTTTGATC < SRR3722078.658520/100‑1 (MQ=60)
CACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGGCGCGGTTTGATC < SRR3722078.1329168/100‑1 (MQ=60)
ACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGGCGCGGTTTGATCA > SRR3722078.853009/1‑100 (MQ=60)
ACCTGGGGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGGCGCGGTTTGATCA > SRR3722078.869686/1‑100 (MQ=60)
|
GTGGTATGCGTTACACCTTGAGTGCCCGCCGGGCCGACAACAAAGTCAGGTTGCGCAGGCAGGGTAATCGGGGAAGGATTCCACGCTGCAGCACCTGGTGTCAGGGATGCAAAATAGTGTTGAGCATCGAAATTCTGCGCTTCTTTTGCCGACAGAATCGGGCGAGAAGAGGTACCAGGCGCGGTTTGATCA > NZ_CP009273/802451‑802642
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
