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 F5 I102 R1
|
278 |
39.1 |
2251254 |
95.8% |
2156701 |
87.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
4,545,596 |
T→C |
E181G (GAG→GGG) |
yjiC ← |
YjfZ/YjiC family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 4,545,596 | 0 | T | C | 100.0%
| 163.3
/ NA
| 44 | E181G (GAG→GGG) | yjiC | YjfZ/YjiC family protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (20/24); total (20/24) |
GTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCTCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCA > NZ_CP009273/4545510‑4545682
|
gTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCAtt < 2:135942/91‑1 (MQ=255)
aTGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGt > 2:816837/1‑91 (MQ=255)
aTGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGt > 2:76665/1‑91 (MQ=255)
gCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTGACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATc > 1:882318/1‑91 (MQ=255)
aaGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCtt > 1:854663/1‑91 (MQ=255)
ccGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTgag < 2:1012189/91‑1 (MQ=255)
tttGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGaa < 1:279616/91‑1 (MQ=255)
ttGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAg < 1:318492/91‑1 (MQ=255)
cTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGt < 2:111533/91‑1 (MQ=255)
tACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGtt < 2:503864/91‑1 (MQ=255)
tACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGtt < 1:475858/91‑1 (MQ=255)
tGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAata > 1:963600/1‑91 (MQ=255)
tGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAata < 1:712827/91‑1 (MQ=255)
ttACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAatata > 1:596766/1‑91 (MQ=255)
ccGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAg > 1:600619/1‑76 (MQ=255)
ccGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAg < 2:600619/76‑1 (MQ=255)
ccGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATcc < 1:983915/91‑1 (MQ=255)
cGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCt > 1:678586/1‑91 (MQ=255)
cATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGaaa < 2:1071204/80‑1 (MQ=255)
cATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGaaa > 1:1071204/1‑80 (MQ=255)
cATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATc > 1:411145/1‑91 (MQ=255)
tGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTc < 1:761475/91‑1 (MQ=255)
tGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTc < 2:1036009/91‑1 (MQ=255)
tGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTc < 1:264212/91‑1 (MQ=255)
gATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTcc > 1:419888/1‑91 (MQ=255)
aaTATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCa < 1:816837/91‑1 (MQ=255)
atatAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCAt < 1:568361/91‑1 (MQ=255)
atatAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCAt < 1:40489/91‑1 (MQ=255)
ataGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATaa < 2:520846/91‑1 (MQ=255)
gATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCa > 2:1007768/1‑91 (MQ=255)
gATATCAATCCTTGGCTGCCCATTGGTCCATCTTTGTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTTCGGCATAACCa > 2:568587/1‑91 (MQ=255)
atatCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAg < 1:410015/91‑1 (MQ=255)
atCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGa < 2:663135/91‑1 (MQ=255)
atCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGa > 2:136960/1‑91 (MQ=255)
atCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGa > 2:178532/1‑91 (MQ=255)
cAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCa < 2:91891/80‑1 (MQ=255)
cAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCa > 1:91891/1‑80 (MQ=255)
cAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAAc > 2:702014/1‑91 (MQ=255)
cAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAAc > 1:365770/1‑91 (MQ=255)
aTCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACAt > 2:233761/1‑91 (MQ=255)
ccTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTg < 1:702014/91‑1 (MQ=255)
ccTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTg < 1:233761/91‑1 (MQ=255)
tGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGaa > 2:263021/1‑83 (MQ=255)
tGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGaa < 1:263021/83‑1 (MQ=255)
ctgccCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCa < 2:396430/91‑1 (MQ=255)
ctgccCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCa < 2:882318/91‑1 (MQ=255)
|
GTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCTCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCA > NZ_CP009273/4545510‑4545682
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 32 ≤ 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
ATATTAGCATTAAGTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCTCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAGGGCCTAATGTTAT > NZ_CP009273/4545497‑4545696
|
ATATTAGCATTAAGTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCC > SRR3722125.161210/1‑101 (MQ=60)
ATATTAGCATTAAGTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCC < SRR3722125.169723/101‑1 (MQ=60)
AAGTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTGACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATC > SRR3722125.901818/1‑101 (MQ=60)
GTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTT > SRR3722125.873490/1‑101 (MQ=60)
tacgagatcatgcctagtctcgtgggctcggagatgtgtatacgagacagTATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAA < SRR3722125.878852/51‑1 (MQ=60)
TTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAAT < SRR3722125.285282/101‑1 (MQ=60)
TTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATA > SRR3722125.985082/1‑101 (MQ=60)
TTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATA < SRR3722125.325041/101‑1 (MQ=60)
GCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATA > SRR3722125.609595/1‑101 (MQ=60)
TACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATC < SRR3722125.485894/101‑1 (MQ=60)
ACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATActgtc > SRR3722125.613552/1‑96 (MQ=60)
CCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCT > SRR3722125.693226/1‑101 (MQ=60)
CTGTTACTGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATC > SRR3722125.419804/1‑101 (MQ=60)
CTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATC > SRR3722125.1095341/1‑101 (MQ=60)
TGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCG < SRR3722125.728197/101‑1 (MQ=60)
CCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTT < SRR3722125.1005885/101‑1 (MQ=60)
GTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCC > SRR3722125.428772/1‑101 (MQ=60)
TGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACC < SRR3722125.269537/101‑1 (MQ=60)
TGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACC < SRR3722125.777968/101‑1 (MQ=60)
AATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAA < SRR3722125.834730/101‑1 (MQ=60)
ATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAAC < SRR3722125.41205/101‑1 (MQ=60)
ATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAAC > SRR3722125.93627/1‑101 (MQ=60)
ATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAAC > SRR3722125.373446/1‑101 (MQ=60)
ATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAAC < SRR3722125.580514/101‑1 (MQ=60)
ATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCA < SRR3722125.418654/101‑1 (MQ=60)
TCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACC < SRR3722125.268327/101‑1 (MQ=60)
ATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAGG > SRR3722125.326883/1‑101 (MQ=60)
ATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAGG > SRR3722125.333988/1‑101 (MQ=60)
ATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAGG > SRR3722125.378348/1‑101 (MQ=60)
CCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAGGGC < SRR3722125.717135/101‑1 (MQ=60)
CCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAGGGC < SRR3722125.238443/101‑1 (MQ=60)
CCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAGGGCCTAATGTTAT > SRR3722125.686679/1‑101 (MQ=60)
|
ATATTAGCATTAAGTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCTCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAGGGCCTAATGTTAT > NZ_CP009273/4545497‑4545696
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
