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 I225 R1
|
227 |
21.4 |
1179702 |
97.1% |
1145490 |
86.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,833,262 |
T→G |
V127G (GTC→GGC) |
ascF → |
PTS cellobiose/arbutin/salicin transporter subunit IIBC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,833,262 | 0 | T | G | 100.0%
| 64.1
/ NA
| 21 | V127G (GTC→GGC) | ascF | PTS cellobiose/arbutin/salicin transporter subunit IIBC |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (10/11); total (10/11) |
CGCTACGTCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGTCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGA > NZ_CP009273/2833175‑2833339
|
cGCTACGTCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCa > 2:412712/1‑90 (MQ=255)
tCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAActgct < 2:551017/90‑1 (MQ=255)
cGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAActgctg < 2:336652/90‑1 (MQ=255)
gtggCGGGGATCCTCGATGCGCTGATCGGCCCCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATg < 1:237433/87‑1 (MQ=255)
gTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGa > 2:535354/1‑90 (MQ=255)
tGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGAt < 1:503758/90‑1 (MQ=255)
gCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATc < 2:365146/90‑1 (MQ=255)
ggggATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCt > 1:501127/1‑90 (MQ=255)
ggggATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCt > 2:226718/1‑90 (MQ=255)
ggggATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCt > 2:401120/1‑90 (MQ=255)
gCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACaa > 1:373781/1‑90 (MQ=255)
aTGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGGGATGAGCGGCGTGCTGACAAAAGGa > 1:443164/1‑90 (MQ=255)
aTGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGa > 1:552410/1‑90 (MQ=255)
aTGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGGGCTGACAAAAGGa > 1:7475/1‑90 (MQ=255)
aCCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGcc < 1:478271/90‑1 (MQ=255)
aCCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGcc < 2:578573/90‑1 (MQ=255)
gATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCtt > 2:382914/1‑90 (MQ=255)
cccGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAAc < 2:180859/90‑1 (MQ=255)
ttATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGa < 1:279699/90‑1 (MQ=255)
cggcggATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAAtgt < 2:96554/90‑1 (MQ=255)
gcggATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGa < 2:133585/90‑1 (MQ=255)
|
CGCTACGTCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGTCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGA > NZ_CP009273/2833175‑2833339
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGTCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGACGGTGCTTTCTTC > NZ_CP009273/2833184‑2833359
|
GCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCT > SRR3722109.508688/1‑100 (MQ=60)
gtgGCGGGGATCCTCGATGCGCTGATCGGCCCCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGA < SRR3722109.240234/97‑1 (MQ=60)
TGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATG < SRR3722109.511374/100‑1 (MQ=60)
GCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCCCGAGATGAGCGGCGTGCTGAGAA > SRR3722109.379054/1‑100 (MQ=60)
GATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGGGATGAGCGGCGTGCTGACAAAAGGA > SRR3722109.449748/1‑100 (MQ=60)
GATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGA > SRR3722109.560810/1‑100 (MQ=60)
GATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGGGCTGACAAAAGGA > SRR3722109.7581/1‑100 (MQ=60)
ACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACC < SRR3722109.485478/100‑1 (MQ=60)
TTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGG < SRR3722109.283227/100‑1 (MQ=60)
GGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGACGGTGCTTTCTTC > SRR3722109.300899/1‑100 (MQ=60)
|
GCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGTCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGACGGTGCTTTCTTC > NZ_CP009273/2833184‑2833359
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
