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 |
|
A2 F5 I179 R1
|
182 |
40.3 |
1547118 |
96.8% |
1497610 |
120.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
788,865 |
+G |
coding (380/1473 nt) |
modF ← |
molybdate ABC transporter ATP‑binding protein ModF |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 788,862 | 1 | . | G | 100.0%
| 81.5
/ NA
| 23 | L128P (CTC→CCC) | modF | molybdate ABC transporter ATP‑binding protein ModF |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (11/12); total (11/12) |
CTGCTGACGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑GGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTAT > NZ_CP009273/788726‑788988
|
ctgctgACGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGagga‑gg < 2:63824/139‑1 (MQ=255)
ctgACGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑ggg < 2:455300/137‑1 (MQ=255)
aCATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAAc > 2:365126/1‑139 (MQ=255)
cGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGtt > 2:252821/1‑139 (MQ=255)
aGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGt < 2:486286/139‑1 (MQ=255)
aacaaGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATcc > 2:746373/1‑139 (MQ=255)
aGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTgcgc < 2:558306/106‑1 (MQ=255)
aGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTgcgc > 1:558306/1‑106 (MQ=255)
aGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGAt < 1:365126/138‑1 (MQ=255)
cagGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACtt > 1:533778/1‑111 (MQ=255)
cagGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACtt < 2:533778/111‑1 (MQ=255)
gTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCg < 2:590339/139‑1 (MQ=255)
ttCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGTTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGgtg < 2:34260/138‑1 (MQ=255)
ttCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGt > 1:658198/1‑128 (MQ=255)
ttCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGt < 2:658198/128‑1 (MQ=255)
cgTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATc < 1:547147/139‑1 (MQ=255)
tttAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCatat < 2:475373/138‑1 (MQ=255)
aGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATc < 2:505832/113‑1 (MQ=255)
aGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATc > 1:505832/1‑113 (MQ=255)
cGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGt < 1:767192/58‑1 (MQ=255)
cGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGt > 2:767192/1‑58 (MQ=255)
cGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTa > 2:578976/1‑139 (MQ=255)
gtcggtcgAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGcc > 2:149837/1‑122 (MQ=255)
gtcggtcgAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGcc < 1:149837/122‑1 (MQ=255)
gtcggtcgAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTAt > 1:370888/1‑139 (MQ=255)
|
CTGCTGACGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑GGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTAT > NZ_CP009273/788726‑788988
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCTCAGCCAGCTGCTGACGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑GGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTATT > NZ_CP009273/788716‑788989
|
GCTCAGCCAGCTGCTGACGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑GGGG < SRR3722133.330733/151‑1 (MQ=60)
ttttcaagcagaagacggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacagGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTAC < SRR3722133.777104/80‑1 (MQ=60)
ATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCctgtctcttatacacatctccg > SRR3722133.565740/1‑128 (MQ=60)
CAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAG < SRR3722133.370248/150‑1 (MQ=60)
aagacggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacaGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTG < SRR3722133.229858/93‑1 (MQ=60)
GCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGctgtctcttatacacatc > SRR3722133.540923/1‑133 (MQ=60)
CAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTT > SRR3722133.666765/1‑151 (MQ=60)
GCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGC < SRR3722133.554470/151‑1 (MQ=60)
GTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCtgtctcttatacacatctccgagcccacgagaccgtactagatctcgtatgccgtcttctgcttgaaaaaaaaaaaaacaattaaaataatacacactaccgccat > SRR3722133.453844/1‑45 (MQ=60)
gagacAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGG < SRR3722133.151801/146‑1 (MQ=60)
AAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCtgtctcttatacac > SRR3722133.512636/1‑136 (MQ=60)
GTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTATT > SRR3722133.376076/1‑151 (MQ=60)
|
GCTCAGCCAGCTGCTGACGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑GGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTATT > NZ_CP009273/788716‑788989
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
