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 F1 I1 R1
|
154 |
26.6 |
2069536 |
90.2% |
1866721 |
108.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
628,642 |
Δ1 bp |
coding (756/1206 nt) |
h16_A0595 ← |
Uncharacterized Fe‑S protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 628,641 | 0 | A | . | 100.0%
| 44.8
/ NA
| 11 | coding (757/1206 nt) | h16_A0595 | Uncharacterized Fe‑S protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (3/8); total (3/8) |
CACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGCAAGCGGCGCGCGT‑CAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTCGGCCGGCAGCGGG > AM260479/628513‑628753
|
cacaTGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑Agcggc > 1:334090/1‑134 (MQ=255)
cacaTGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑Agcggc > 1:456481/1‑134 (MQ=255)
cacaTGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑Agcggc > 1:521360/1‑134 (MQ=255)
cacaTGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑Agcggc > 1:816835/1‑134 (MQ=255)
cacaTGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑Agcggc > 2:227618/1‑134 (MQ=255)
cTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGT‑ccagcc > 1:783205/1‑129 (MQ=255)
cTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGT‑ccagcc < 1:907157/134‑6 (MQ=255)
gTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCg < 2:334090/132‑1 (MQ=255)
ttCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGt < 2:816835/133‑1 (MQ=255)
cAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGAAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCAc > 2:652966/1‑134 (MQ=255)
cAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGAAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGt < 1:652966/134‑1 (MQ=255)
gtcgtcGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTgg < 1:227618/134‑1 (MQ=255)
ccGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTc < 2:783205/134‑1 (MQ=255)
gcgGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGc < 2:196032/134‑1 (MQ=255)
gAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGc > 1:355852/1‑134 (MQ=255)
gATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTCGGCCGGCAGCggg < 2:355852/133‑1 (MQ=255)
|
CACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGCAAGCGGCGCGCGT‑CAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTCGGCCGGCAGCGGG > AM260479/628513‑628753
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTCCGGCACCATGGCCACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGCAAGCGGCGCGCGT‑CAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTCGGCCGGCAGCGGGATGTCGACCAGGATCTCGCCCAGGA > AM260479/628498‑628778
|
GTCCGGCACCATGGCCACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCG > GWNJ‑0478:712:GW2002102894th:2:1207:20264:40307/1‑150 (MQ=60)
GTCCGGCACCATGGCCACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCG > GWNJ‑0478:712:GW2002102894th:2:1212:5133:62687/1‑150 (MQ=60)
GTCCGGCACCATGGCCACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCG > GWNJ‑0478:712:GW2002102894th:2:2101:13218:19849/1‑150 (MQ=60)
GTCCGGCACCATGGCCACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCG > GWNJ‑0478:712:GW2002102894th:2:2204:4357:4511/1‑150 (MQ=60)
GGCCACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCG > GWNJ‑0478:712:GW2002102894th:2:2201:17667:72621/1‑150 (MQ=60)
ctttgttcttctcttctctttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTAC < GWNJ‑0478:712:GW2002102894th:2:1206:16273:68030/47‑1 (MQ=60)
ACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGA < GWNJ‑0478:712:GW2002102894th:2:2208:4797:79043/150‑1 (MQ=60)
GCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGAAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAG < GWNJ‑0478:712:GW2002102894th:2:2111:6727:6487/150‑1 (MQ=60)
AGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGC < GWNJ‑0478:712:GW2002102894th:2:1114:11038:35660/150‑1 (MQ=60)
GCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCC > GWNJ‑0478:712:GW2002102894th:2:1206:19756:75606/1‑150 (MQ=60)
GGTAGGAGATGC‑AGCGGCGCGCGTCCAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCtgtctcttatacacatctccgagcccacgagacggagctac > GWNJ‑0478:712:GW2002102894th:2:2103:19802:38176/1‑109 (MQ=60)
|
GTCCGGCACCATGGCCACATGCGCGAACTTGTTCCACGGGCAGGCCAGCTGGCAGTCGTCGCAGCCGTAGACGCGGTTGCCCATGGGCGCGCGGAACTCCACCGGAATCGGGCCCTTGTGCTCGATGGTCAGGTAGGAGATGCAAGCGGCGCGCGT‑CAGCCGGTACGGCGCCACGATGGCGCGCGTGGGGCAGATGTCCAGGCAGCGGTGGCAGTTGCCGCAGTGGCCGGACTCGGGGGCGTCGGCCGGCAGCGGGATGTCGACCAGGATCTCGCCCAGGA > AM260479/628498‑628778
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
