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 I207 R1
|
218 |
45.0 |
2482936 |
97.1% |
2410930 |
86.1 |
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%
| 165.7
/ NA
| 49 | V127G (GTC→GGC) | ascF | PTS cellobiose/arbutin/salicin transporter subunit IIBC |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (26/23); total (26/23) |
CGCTACGTCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGTCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGAC > NZ_CP009273/2833175‑2833347
|
cGCTACGTCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCa > 2:141567/1‑90 (MQ=255)
aCGTCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAAct > 1:1222135/1‑90 (MQ=255)
gTCGCATTGGTGCGGGGACCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAActgc < 2:149942/90‑1 (MQ=255)
tCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAActgct < 2:1193846/90‑1 (MQ=255)
ttGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCaa > 1:1054639/1‑90 (MQ=255)
ggTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATg < 1:141567/90‑1 (MQ=255)
ggggATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCt > 1:517514/1‑90 (MQ=255)
ggggATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCt > 2:253184/1‑90 (MQ=255)
tCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCgaga > 2:918328/1‑90 (MQ=255)
tCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCgaga > 2:248760/1‑90 (MQ=255)
ccTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGAt > 2:790564/1‑90 (MQ=255)
cTCGATGCGCTGATCGGCACCATGTCACCGCTGATTCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATg < 2:336844/90‑1 (MQ=255)
gcgcTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAgcggc > 1:1067811/1‑90 (MQ=255)
tGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGc < 1:605273/90‑1 (MQ=255)
tGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGc < 1:63795/90‑1 (MQ=255)
tGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGc < 1:501811/90‑1 (MQ=255)
gATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTTCTGGCAATGATCCTCGAGATGAGCGGCGTGCt > 1:794607/1‑90 (MQ=255)
aTCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTg < 1:377948/90‑1 (MQ=255)
ccATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAg > 2:898949/1‑90 (MQ=255)
aTGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGGTCCTCGAGATGAGCGGCGGGCGGGCAAAAGGa > 1:625381/1‑90 (MQ=255)
aTGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGa > 2:424589/1‑90 (MQ=255)
aTGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGa > 2:186206/1‑90 (MQ=255)
aTGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCCCGAGATGAGCGGGGTGCTGACAAAAGGa > 1:1164737/1‑90 (MQ=255)
cACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGc < 1:408562/90‑1 (MQ=255)
aCCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAGGGATCGcc < 1:248760/90‑1 (MQ=255)
aCCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGcc < 1:1206386/90‑1 (MQ=255)
aCCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGcc < 2:710515/90‑1 (MQ=255)
gCTGATCCCGGCGATTATCGGCGGATCGATGGGCaa > 1:671300/1‑36 (MQ=255)
gCTGATCCCGGCGATTATCGGCGGATCGATGGGCaa < 2:671300/36‑1 (MQ=37)
gCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGAc > 2:443600/1‑90 (MQ=255)
gCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGAc > 1:1057646/1‑90 (MQ=255)
gCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGAc > 1:948100/1‑90 (MQ=255)
cTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGAcc < 2:948100/90‑1 (MQ=255)
gATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCtt > 1:257861/1‑90 (MQ=255)
gATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCtt > 1:112888/1‑90 (MQ=255)
gATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCtt < 1:116265/90‑1 (MQ=255)
gATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCtt > 2:423389/1‑90 (MQ=255)
cccGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAAc < 1:424589/90‑1 (MQ=255)
cGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCCATGGTCCCCGCGATGGGAGGCGTGCTGACAAAAGGATCGCCGACCTTAACCa > 1:885634/1‑90 (MQ=255)
cGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCa > 1:1123422/1‑90 (MQ=255)
cGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCa > 2:919741/1‑90 (MQ=255)
cGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTc < 1:1193803/90‑1 (MQ=255)
cGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTc < 1:823571/90‑1 (MQ=255)
ttATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGa < 1:325586/90‑1 (MQ=255)
ttATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGa < 2:1123422/90‑1 (MQ=255)
aTGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGAc < 1:405052/90‑1 (MQ=255)
aTGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGAc > 2:1124412/1‑90 (MQ=255)
aTGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGAc < 2:568532/90‑1 (MQ=255)
aTGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGAc < 1:253184/90‑1 (MQ=255)
|
CGCTACGTCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGTCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGAC > NZ_CP009273/2833175‑2833347
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AACCCAAACTCACGCTACGTCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGTCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGACGGTGCTTTCTTC > NZ_CP009273/2833163‑2833359
|
AACCCAAACTCACGCTACGTCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGG < SRR3722089.869627/100‑1 (MQ=60)
AACTCACGCTACGTCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACT > SRR3722089.1240706/1‑100 (MQ=60)
ACTCACGCTACGTCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTG < SRR3722089.239823/100‑1 (MQ=60)
CTACGTCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAA > SRR3722089.1070465/1‑100 (MQ=60)
GCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCT > SRR3722089.523593/1‑100 (MQ=60)
GGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGA < SRR3722089.143304/100‑1 (MQ=60)
GATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGC > SRR3722089.1083844/1‑100 (MQ=60)
TCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTTCTGGCAATGATCCTCGAGATGAGCGGCGTGCT > SRR3722089.805556/1‑100 (MQ=60)
TGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGG < SRR3722089.64575/100‑1 (MQ=60)
TGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGG < SRR3722089.507741/100‑1 (MQ=60)
TGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGG < SRR3722089.612762/100‑1 (MQ=60)
GATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGGTCCTCGAGATGAGCGGCGGGCGGGCAAAAGGA > SRR3722089.633286/1‑100 (MQ=60)
GATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCCCGAGATGAGCGGGGTGCTGACAAAAGGA > SRR3722089.1182450/1‑100 (MQ=60)
ATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGAT < SRR3722089.382565/100‑1 (MQ=60)
CCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCActgtctcttatacacatctgacgctgccgacgaccatcttagtg > SRR3722089.679994/1‑56 (MQ=60)
CCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGAC > SRR3722089.1073515/1‑100 (MQ=60)
CCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGAC > SRR3722089.962014/1‑100 (MQ=60)
TGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTT > SRR3722089.261174/1‑100 (MQ=60)
TGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTT > SRR3722089.114270/1‑100 (MQ=60)
CACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAAC < SRR3722089.413507/100‑1 (MQ=60)
ACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAGGGATCGCCGACCTTAACC < SRR3722089.251939/100‑1 (MQ=60)
ACCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACC < SRR3722089.1224729/100‑1 (MQ=60)
CCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCCATGGTCCCCGCGATGGGAGGCGTGCTGACAAAAGGATCGCCGACCTTAACCA > SRR3722089.898406/1‑100 (MQ=60)
CCGCTGATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCA > SRR3722089.1140471/1‑100 (MQ=60)
GATCCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTG < SRR3722089.117685/100‑1 (MQ=60)
CCCGGCGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAAT < SRR3722089.429714/100‑1 (MQ=60)
CGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGAT < SRR3722089.1211953/100‑1 (MQ=60)
CGATTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGAT < SRR3722089.835172/100‑1 (MQ=60)
ATTATCGGCGGATCGAGGGGCCAACTGCTGGCAATGATCCTCGAGATGGGAGGCGGGCTGACAAAAGGATCGGCGACCTTAACCcatctgaatgggggtg > SRR3722089.253058/1‑84 (MQ=58)
TTATCGGCGGATCGATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGG < SRR3722089.329677/100‑1 (MQ=60)
ATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGACGGTGCTTTCT < SRR3722089.409964/100‑1 (MQ=60)
ATGGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGACGGTGCTTTCT < SRR3722089.256426/100‑1 (MQ=60)
GGGCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGACGGTGCTTTCTTC < SRR3722089.936605/100‑1 (MQ=60)
|
AACCCAAACTCACGCTACGTCGCATTGGTGCGGGGATCCTCGATGCGCTGATCGGCACCATGTCACCGCTGATCCCGGCGATTATCGGCGGATCGATGGTCAAACTGCTGGCAATGATCCTCGAGATGAGCGGCGTGCTGACAAAAGGATCGCCGACCTTAACCATTCTGAATGTGATTGGTGACGGTGCTTTCTTC > NZ_CP009273/2833163‑2833359
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
