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 I205 R1
|
220 |
17.5 |
961422 |
97.1% |
933540 |
86.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,131,004 |
A→G |
intergenic (‑280/‑379) |
wza ← / → yegH |
polysaccharide export protein Wza/TerC family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,131,004 | 0 | A | G | 100.0%
| 37.0
/ NA
| 12 | intergenic (‑280/‑379) | wza/yegH | polysaccharide export protein Wza/TerC family protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (7/5); total (7/5) |
TTTAGCTACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGAAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAGTGTTACAGCTAAC > NZ_CP009273/2130923‑2131086
|
tttAGCTACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACt > 2:340227/1‑90 (MQ=255)
cTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGa > 1:415411/1‑90 (MQ=255)
gATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACa > 1:86398/1‑90 (MQ=255)
tttttCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTg < 1:156177/90‑1 (MQ=255)
cacCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTg < 1:43156/90‑1 (MQ=255)
tctcAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTg < 1:177026/85‑1 (MQ=255)
tctcAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTg > 2:177026/1‑85 (MQ=255)
aTGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCaataa > 1:145034/1‑90 (MQ=255)
tgatgaGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAggagga < 1:65467/90‑1 (MQ=255)
ggTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAGTGTTACAGc > 1:221476/1‑90 (MQ=255)
attaCGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAGTGTTACAGCTAAc > 1:378883/1‑90 (MQ=255)
attaCGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAGTGTTACAGCTAAc < 2:35254/90‑1 (MQ=255)
|
TTTAGCTACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGAAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAGTGTTACAGCTAAC > NZ_CP009273/2130923‑2131086
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CGCTACCGCCCCTGGCTTTTTAGCTACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGAAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAGTGTTACAGCTAAC > NZ_CP009273/2130905‑2131086
|
CGCTACCGCCCCTGGCTTTTTAGCTACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGG > SRR3722087.397399/1‑100 (MQ=60)
TACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGA > SRR3722087.420253/1‑100 (MQ=60)
CCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACA > SRR3722087.87214/1‑100 (MQ=60)
TTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCT < SRR3722087.157613/100‑1 (MQ=60)
CACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAAT < SRR3722087.178613/100‑1 (MQ=60)
CACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAAT < SRR3722087.43500/100‑1 (MQ=60)
CCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAA > SRR3722087.146369/1‑100 (MQ=60)
TGATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAGTGTTACAG < SRR3722087.66045/100‑1 (MQ=60)
GATGAGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAGTGTTACAGC > SRR3722087.223456/1‑100 (MQ=60)
AGAAAGGGTTATTACGGGAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAGTGTTACAGCTAAC > SRR3722087.383236/1‑100 (MQ=60)
|
CGCTACCGCCCCTGGCTTTTTAGCTACCAATACACTGATTTAGTTTAATTTTTCACACCCTCTCAGCATGCAGTCGTTGATGAGAAAGGGTTATTACGGAAATTAACTTCCGAATATAAGGTGACATTATGGTAATTGAATATTGGCTTTCCAATAATGCAGGAGGAAGTGTTACAGCTAAC > NZ_CP009273/2130905‑2131086
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
