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 I177 R1
|
141 |
27.5 |
996908 |
97.7% |
973979 |
124.3 |
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%
| 43.3
/ NA
| 13 | L128P (CTC→CCC) | modF | molybdate ABC transporter ATP‑binding protein ModF |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (3/10); total (3/10) |
TCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑GGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATAT > NZ_CP009273/788745‑788979
|
tCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAActgc < 1:1772/139‑1 (MQ=255)
aTCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGTTAATACCGAACTGCTGCGCCAg > 2:370249/1‑139 (MQ=255)
tCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGt > 2:232580/1‑139 (MQ=255)
cGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGagga‑gg > 1:481607/1‑110 (MQ=255)
cGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGagga‑gg < 2:481607/110‑1 (MQ=255)
gAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGtt < 2:138284/138‑1 (MQ=255)
atcaAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAAc < 1:232580/138‑1 (MQ=255)
aaGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAAcgcg < 1:254689/138‑1 (MQ=255)
cTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATc > 2:28734/1‑139 (MQ=255)
gACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGa < 1:380549/139‑1 (MQ=255)
gcgcCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGAtct < 1:434070/139‑1 (MQ=255)
tttAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCatat < 1:23963/138‑1 (MQ=255)
tttAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCatat < 1:28734/138‑1 (MQ=255)
tttAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCatat < 2:389498/138‑1 (MQ=255)
tttAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCatat < 2:83453/138‑1 (MQ=255)
|
TCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑GGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATAT > NZ_CP009273/788745‑788979
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ 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
ATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑GGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTATTC > NZ_CP009273/788744‑788990
|
ATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCtgtctcttatacacatct > SRR3722131.486775/1‑133 (MQ=60)
ATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTG < SRR3722131.1788/151‑1 (MQ=60)
CATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCC < SRR3722131.235335/150‑1 (MQ=60)
gaaaagtgCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTGTCGCGGCTCGCCAGTGGAAAGGTATTGAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTT < SRR3722131.39836/143‑1 (MQ=60)
CAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTT < SRR3722131.257674/150‑1 (MQ=60)
CGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGC < SRR3722131.384751/151‑1 (MQ=60)
AGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTG < SRR3722131.438748/151‑1 (MQ=60)
ATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTATTC < SRR3722131.24184/150‑1 (MQ=60)
ATTTAAAGCGTCGGTCGAGGAGGGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTATTC < SRR3722131.29001/150‑1 (MQ=60)
|
ATCCAGGCCATCGAACGGCTCATCAAGAATCAACAAGTCAGGCTCCGACATCAGCGCCTGACACAGCAGGGTTTTTCGCGTCTCGCCAGTGGAAAGGTATTTAAAGCGTCGGTCGAGGA‑GGGCGGTAATACCGAACTGCTGCGCCAGTTGCATGCAACGCGGTGCATCCTTTACTTCATCCTGAATGATCTCAGCCGTAGTGCGTCCGGTGTCATCTTCGCCAGGGCCGAGCATATCGGTGTTATTC > NZ_CP009273/788744‑788990
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
