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 |
|
A4 F18 I1 R1
|
54 |
68.8 |
3145800 |
98.6% |
3101758 |
145.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| MC JC |
NC_002947_CJ‑RC |
1,621,156 |
Δ9 bp |
coding (70‑78/1392 nt) |
PP_1421 → |
sensor histidine kinase TctE |
|
| | | | seq id |
start |
end |
size |
←reads |
reads→ |
gene |
description |
|---|
| * |
* |
÷ |
NC_002947_CJ‑RC |
1621156 |
1621164 |
9 |
64 [0] |
[0] 65 |
PP_1421 |
sensor histidine kinase TctE |
|
| |
seq id |
position |
reads (cov) |
reads (cov) |
score |
skew |
freq |
annotation |
gene |
product |
| * |
? |
NC_002947_CJ‑RC |
= 1621155 | 0 (0.000) | 60 (0.860) |
51/280 |
0.4 |
100% |
coding (69/1392 nt) |
PP_1421 |
sensor histidine kinase TctE |
| ? | NC_002947_CJ‑RC |
1621165 = |
0 (0.000) | coding (79/1392 nt) |
PP_1421 |
sensor histidine kinase TctE |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AATCTACATTCACCGGCTGCGCAAAAAGCTCGACGGGCACCCTGTGGCCATCGTCACTTTCCGCGGTCTGGGCTATTTGCTTGAGCACCGCGATGCGTGACAACGGCAGCCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGTTGCTGGTGGTGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCCGCGGGCCTGTCGCAGCGCGATGGTTCGTTG > NC_002947_CJ‑RC/1621007‑1621290
|
AATCTACATTCACCGGCTGCGCAAAAAGCTCGACGGGCACCCTGTGGCCATCGTCACTTTCCGCGGTCTGGGCTATTTGCTTGAGCACCGCGATGCGTGACAACGGCAGCCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGTTGCTGAT > NB501016:282:H2V7GAFX2:2:21101:12940:5177/1‑151 (MQ=60)
ACATTCACCGGCTGCGCAAAAAGCTCGACGGGCACCCTGTGGCCATCGTCACTTTCCGCGGTCTGGGCTATTTGCTTGAGCACCGCGATGCGTGACAACGGCAGCCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGTTGCTGATGCTG < NB501016:282:H2V7GAFX2:3:11508:15646:14754/150‑1 (MQ=60)
CACCGGCTGCGCAAAAAGCTCGACGGGCACCCTGTGGCCATCGTCACTTTCCGCGGTCTGGGCTATTTGCTTGAGCACCGCGATGCGTGACAACGGCAGCCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGC > NB501016:282:H2V7GAFX2:4:21512:14057:18790/1‑151 (MQ=60)
ACGGGCACCCTGTGGCCATCGTCACTTTCCGCGGTCTGGGCTATTTGCTTGAGCACCGCGATGCGTGACAACGGCAGCCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATG < NB501016:282:H2V7GAFX2:3:21503:21251:14496/151‑1 (MQ=60)
CATCGTCACTTTCCGCGGTCTGGGCTATTTGCTTGAGCACCGCGATGCGTGACAACGGCAGCCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCG > NB501016:282:H2V7GAFX2:1:11101:23918:8270/1‑150 (MQ=60)
CGTCACTTTCCGCGGTCTGGGCTATTTGCTTGAGCACCGCGATGCGTGACAACGGCAGCCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACAC < NB501016:282:H2V7GAFX2:3:21609:4211:9409/151‑1 (MQ=60)
GCACCGCGATGCGTGACAACGGCAGCCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAG < NB501016:282:H2V7GAFX2:3:21603:10425:6469/151‑1 (MQ=60)
ATGCGTGACAACGGCAGCCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCG < NB501016:282:H2V7GAFX2:1:11111:7389:13432/151‑1 (MQ=60)
CGTGACAACGGCAGCCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCCG > NB501016:282:H2V7GAFX2:1:11110:1716:19685/1‑151 (MQ=60)
ACAACGGCAGCCTGCGCGGGCGATTGCTGGGTAATTTGGAGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCCGCGGG > NB501016:282:H2V7GAFX2:3:21501:16525:3909/1‑151 (MQ=60)
ACGGCAGCCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCgctgcgaca < NB501016:282:H2V7GAFX2:4:11511:12497:2313/151‑10 (MQ=60)
AGCCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCCGCGGGCCTGTCGC > NB501016:282:H2V7GAFX2:1:21307:10096:3461/1‑151 (MQ=60)
CCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCCGCGGGCCTGTCGCAG < NB501016:282:H2V7GAFX2:3:11506:3680:5580/151‑1 (MQ=60)
CCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCCGCGGGCCTGTCGC > NB501016:282:H2V7GAFX2:2:21204:7875:3258/1‑149 (MQ=60)
CCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCCGCGGGCCTGTCGC > NB501016:282:H2V7GAFX2:1:11204:5311:1093/1‑149 (MQ=60)
GGGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCCGCGGGCCTGTCGCAGCGCGATG > NB501016:282:H2V7GAFX2:4:21410:18050:5132/1‑151 (MQ=60)
GGCGCTTGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCCGCGGGCCTGTCGCAGCGCGATGG < NB501016:282:H2V7GAFX2:4:21505:14180:14579/151‑1 (MQ=60)
TGCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCCGCGGGCCTGTCGCAGCGCGATGGTTCGT < NB501016:282:H2V7GAFX2:4:11505:10306:3983/150‑1 (MQ=60)
GCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCCGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCCGCGGGCCTGTCGCAGCGCGATGGTTCGTT < NB501016:282:H2V7GAFX2:2:11305:23031:17449/150‑1 (MQ=60)
GCTGGGTAATTTGGCGCTGT‑‑‑‑‑‑‑‑‑TGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCCGCGGGCCTGTCGCAGCGCGATGGTTCGTTG < NB501016:282:H2V7GAFX2:4:11404:11014:16769/151‑1 (MQ=60)
|
AATCTACATTCACCGGCTGCGCAAAAAGCTCGACGGGCACCCTGTGGCCATCGTCACTTTCCGCGGTCTGGGCTATTTGCTTGAGCACCGCGATGCGTGACAACGGCAGCCTGCGCGGGCGCTTGCTGGGTAATTTGGCGCTGTTGCTGGTGGTGCTGATGCTGGCCAGCGGCCTTAGCGCCTACTGGAATGGCCGCGAGGCCGCCGACACTGCCTACGACCGCACCCTGCTGGCTTCGGCGAGAACCATCGCCGCGGGCCTGTCGCAGCGCGATGGTTCGTTG > NC_002947_CJ‑RC/1621007‑1621290
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
