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 I178 R1
|
167 |
28.0 |
1137820 |
95.3% |
1084342 |
115.1 |
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%
| 30.0
/ NA
| 10 | L128P (CTC→CCC) | modF | molybdate ABC transporter ATP‑binding protein ModF |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (3/7); total (3/7) |
ACGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑GGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATC > NZ_CP009273/788732‑788980
|
aCGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑ggggcgg < 1:146140/138‑5 (MQ=255)
aCGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑ggggcgg > 2:458020/1‑134 (MQ=255)
gCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTgcgc < 2:232009/139‑1 (MQ=255)
gAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTg < 2:518855/139‑1 (MQ=255)
aGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGAt < 1:217582/138‑1 (MQ=255)
gggTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTc < 1:247881/139‑1 (MQ=255)
ggTTTTTCGCGTCTAGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTACGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTcc > 1:504306/1‑139 (MQ=255)
aGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAg > 1:97941/1‑138 (MQ=255)
tttAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCatat < 1:87223/138‑1 (MQ=255)
tttAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATc < 2:97941/139‑1 (MQ=255)
gtcggtcgAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATcc < 1:81986/75‑1 (MQ=255)
gtcggtcgAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATcc > 2:81986/1‑75 (MQ=255)
|
ACGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑GGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATC > NZ_CP009273/788732‑788980
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 36 ≤ 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
GACGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑GGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTATTC > NZ_CP009273/788731‑788990
|
GACGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAAC < SRR3722132.148835/150‑1 (MQ=60)
ggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTC < SRR3722132.83505/99‑1 (MQ=60)
agcagaagacggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacaGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCG < SRR3722132.104925/88‑1 (MQ=60)
CAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAG < SRR3722132.221644/150‑1 (MQ=60)
aagacggcatacgagatctagtacggtctcgtgggctcggagatgtgtataagagacaGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTG < SRR3722132.348231/93‑1 (MQ=60)
TGACACAGCAGGGTTTTTCGCGTCTAGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTACGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCG > SRR3722132.513249/1‑151 (MQ=60)
AGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCT < SRR3722132.252616/151‑1 (MQ=60)
CGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGC > SRR3722132.99751/1‑150 (MQ=60)
ATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTATTC < SRR3722132.88838/150‑1 (MQ=60)
|
GACGTGAGGCAACATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑GGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTATTC > NZ_CP009273/788731‑788990
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
