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 F4 I88 R1
|
217 |
30.5 |
1742422 |
95.9% |
1670982 |
87.3 |
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%
| 196.7
/ NA
| 51 | E181G (GAG→GGG) | yjiC | YjfZ/YjiC family protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (32/19); total (32/19) |
ATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCTCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAG > NZ_CP009273/4545513‑4545683
|
aTGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGt > 1:366214/1‑91 (MQ=255)
aTGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGt > 2:293646/1‑91 (MQ=255)
cGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTgaga < 1:831264/91‑1 (MQ=255)
gaagaaTTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGaa > 1:109177/1‑90 (MQ=255)
gaagaaTTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGaa < 2:109177/90‑1 (MQ=255)
tttGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGaa < 1:499907/91‑1 (MQ=255)
tttGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGaa < 2:449238/91‑1 (MQ=255)
ttGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAg < 1:344690/91‑1 (MQ=255)
cTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGt < 1:207097/91‑1 (MQ=255)
ccccTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTg < 1:387230/90‑1 (MQ=255)
ccccTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTg > 2:387230/1‑90 (MQ=255)
tACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAatatat < 1:865921/91‑1 (MQ=255)
cGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCt < 1:585684/91‑1 (MQ=255)
gTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTa > 2:335496/1‑91 (MQ=255)
cATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATc > 2:351280/1‑91 (MQ=255)
ttATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGt > 2:546395/1‑91 (MQ=255)
tGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTc > 2:243240/1‑91 (MQ=255)
tGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTc < 2:659160/91‑1 (MQ=255)
gATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGaa > 1:466583/1‑63 (MQ=255)
gATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGaa < 2:466583/63‑1 (MQ=255)
gATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTcc > 2:248256/1‑91 (MQ=255)
gATCAATATAGATATCAATCCTTGGCTGCCCAGTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTcc > 1:861783/1‑91 (MQ=255)
tCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCgg > 1:601628/1‑91 (MQ=255)
atatAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCAt < 1:655089/91‑1 (MQ=255)
atatAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCAt < 1:358195/91‑1 (MQ=255)
gATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAatata < 2:84622/66‑1 (MQ=255)
gATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAatata > 1:84622/1‑66 (MQ=255)
gATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCa > 2:816320/1‑91 (MQ=255)
gATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCa > 2:297679/1‑91 (MQ=255)
gATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCa > 1:228812/1‑91 (MQ=255)
gATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCa > 1:646465/1‑91 (MQ=255)
gATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCa > 2:620486/1‑91 (MQ=255)
tatCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAgg > 1:802863/1‑91 (MQ=255)
tatCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAgg > 1:769806/1‑91 (MQ=255)
tatCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAgg > 1:697994/1‑91 (MQ=255)
atCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGa > 1:128073/1‑91 (MQ=255)
atCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGa > 2:678017/1‑91 (MQ=255)
atCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGa > 2:459029/1‑91 (MQ=255)
cAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGa < 1:433771/47‑1 (MQ=255)
cAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGa > 2:433771/1‑47 (MQ=255)
cAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAAc > 2:617164/1‑91 (MQ=255)
cAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAAc > 1:73629/1‑91 (MQ=255)
aTCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGaa > 1:501680/1‑46 (MQ=255)
aTCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGaa < 2:501680/46‑1 (MQ=255)
aTCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACAt > 2:653195/1‑91 (MQ=255)
ccTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGaaa < 1:727941/53‑1 (MQ=255)
ccTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGaaa > 2:727941/1‑53 (MQ=255)
ccTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTg < 2:746779/91‑1 (MQ=255)
cTTCGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGc < 1:839558/91‑1 (MQ=255)
tGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCaa > 2:382545/1‑91 (MQ=255)
tGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCaa > 2:805179/1‑91 (MQ=255)
tgccCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAg < 1:266720/91‑1 (MQ=255)
|
ATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCTCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAG > NZ_CP009273/4545513‑4545683
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCATTAAGTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCTCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAGGGCCTAATGT > NZ_CP009273/4545503‑4545693
|
GCATTAAGTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGT > SRR3722118.373837/1‑101 (MQ=60)
CATTAAGTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTC < SRR3722118.783767/101‑1 (MQ=60)
AGTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCT < SRR3722118.89726/101‑1 (MQ=60)
GGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAG > SRR3722118.111201/1‑101 (MQ=60)
CGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGG < SRR3722118.849579/101‑1 (MQ=60)
gtctcgtgggctcggagatgtgtataagagacagATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAA < SRR3722118.442924/67‑1 (MQ=60)
TTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAAT < SRR3722118.510512/101‑1 (MQ=60)
TTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATA < SRR3722118.351835/101‑1 (MQ=60)
CTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATAT < SRR3722118.211239/101‑1 (MQ=60)
ACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCC < SRR3722118.395338/101‑1 (MQ=60)
tgggctcggagatgtgtataagagacaggGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTAT < SRR3722118.743926/72‑1 (MQ=60)
TACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGG < SRR3722118.885205/101‑1 (MQ=60)
CGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTC < SRR3722118.598112/101‑1 (MQ=60)
GTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATctgtctcttatacacatc > SRR3722118.476425/1‑83 (MQ=60)
GTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCAGTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCC > SRR3722118.880954/1‑101 (MQ=60)
CATTATCTGATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGG > SRR3722118.614462/1‑101 (MQ=60)
GATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGctgtctcttatacac > SRR3722118.86190/1‑86 (MQ=60)
GATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCA > SRR3722118.660415/1‑101 (MQ=60)
GATCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCA > SRR3722118.233433/1‑101 (MQ=60)
TCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGG > SRR3722118.713227/1‑101 (MQ=60)
TCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGG > SRR3722118.786716/1‑101 (MQ=60)
TCAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGG > SRR3722118.820496/1‑101 (MQ=60)
CAATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGA > SRR3722118.130472/1‑101 (MQ=60)
ATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAAC > SRR3722118.74995/1‑101 (MQ=60)
ATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAAC < SRR3722118.669239/101‑1 (MQ=60)
ATATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAAC < SRR3722118.365637/101‑1 (MQ=60)
ATAGATATCAATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATctgtctcttatacacatctccgagcccacgagacg > SRR3722118.512321/1‑66 (MQ=60)
ATCCTTGGCTGCCCTTTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCActgtctcttataaacatctccga > SRR3722118.807812/1‑78 (MQ=60)
ATCCTTGGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAGG > SRR3722118.87427/1‑101 (MQ=60)
CTTCGCTGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAGGGCC < SRR3722118.858105/101‑1 (MQ=60)
TGCCCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAGGGCCTAATGT < SRR3722118.272148/101‑1 (MQ=60)
|
GCATTAAGTAATGCGGCAAGGGCGAATCCGGAAGAATTTGCTACCCCTGTTACCGTCATTATCTGATCAATATAGATATCAATCCTTGGCTGCTCATTGGTCCATCTTTTTGCCTGAGAAGCTGGAAGGGTTGAAATATATCCTATCGTGGTTCCGGCATAACCAGGAACATTGCAACCAGGGCCTAATGT > NZ_CP009273/4545503‑4545693
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
