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
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,089,440 |
Δ1 bp |
intergenic (+115/‑17) |
h16_A0996 → / → h16_A0997 |
FAD/FMN‑containing dehydrogenase/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,089,439 | 0 | C | . | 100.0%
| 48.4
/ NA
| 12 | intergenic (+114/‑18) | h16_A0996/h16_A0997 | FAD/FMN‑containing dehydrogenase/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (7/5); total (7/5) |
ATCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCACCAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAAC > AM260479/1089312‑1089538
|
aTCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGgag < 1:584143/134‑1 (MQ=255)
tCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGga > 2:784134/1‑132 (MQ=255)
ggcggcGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGAATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGgagctgg > 1:523238/1‑130 (MQ=255)
gCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGAc < 1:905462/134‑1 (MQ=255)
aGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACaa > 1:332747/1‑134 (MQ=255)
gCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGa < 2:332747/134‑1 (MQ=255)
ggTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGt > 1:866636/1‑134 (MQ=255)
tCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTacgac < 1:278926/133‑1 (MQ=255)
cACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTacgacg > 1:264061/1‑133 (MQ=255)
ggCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCgaactggaac > 1:987953/1‑134 (MQ=255)
cATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGt < 1:430326/97‑1 (MQ=255)
cATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGt > 2:430326/1‑97 (MQ=255)
|
ATCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCACCAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAAC > AM260479/1089312‑1089538
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CAATCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCACCAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAACTGGACGACCGCGAAGCCAGCGAGGCCTTCGGCGATCCGGTGCACCTGGAC > AM260479/1089310‑1089588
|
ttttttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATG < GWNJ‑0478:712:GW2002102894th:2:1209:11324:23579/66‑1 (MQ=60)
CAATCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCctgtct > GWNJ‑0478:712:GW2002102894th:2:2112:3362:70795/1‑144 (MQ=60)
AATCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAG < GWNJ‑0478:712:GW2002102894th:2:2104:14236:38190/150‑1 (MQ=60)
cgcatgccggtattgcagccgcgtgaaaGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGT < GWNJ‑0478:712:GW2002102894th:2:2212:4768:13349/122‑1 (MQ=60)
GGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGT < GWNJ‑0478:712:GW2002102894th:2:2208:9305:43697/150‑1 (MQ=60)
GCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAAC > GWNJ‑0478:712:GW2002102894th:2:1207:13419:16936/1‑150 (MQ=60)
AGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTG > GWNJ‑0478:712:GW2002102894th:2:2209:16679:96058/1‑150 (MQ=60)
ttttttcaagcagaagacggcatacgagatgtagctccgtccgtgggctcggagatgtgtataagagacaggtatccaCAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGAC < GWNJ‑0478:712:GW2002102894th:2:2115:11873:33927/71‑1 (MQ=60)
gaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacaGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGA < GWNJ‑0478:712:GW2002102894th:2:1210:3064:29320/91‑1 (MQ=60)
cggagatgtgtataagagacaGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGA < GWNJ‑0478:712:GW2002102894th:2:1210:18292:99255/128‑1 (MQ=60)
GGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGA > GWNJ‑0478:712:GW2002102894th:2:1201:15215:44706/1‑149 (MQ=60)
gcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagtccaCAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAAC < GWNJ‑0478:712:GW2002102894th:2:1103:1409:89031/93‑1 (MQ=60)
TTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTG < GWNJ‑0478:712:GW2002102894th:2:1203:8553:53933/149‑1 (MQ=60)
CGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCA‑CAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAACT > GWNJ‑0478:712:GW2002102894th:2:2214:5810:16115/1‑150 (MQ=60)
gacaggtatccaCAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAACTGGACGACCGCGAAGCCAGCGAGGCCTTCGGCGATCCGG < GWNJ‑0478:712:GW2002102894th:2:2112:20569:57953/138‑1 (MQ=60)
ACAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAACTGGACGACCGCGAAGCCAGCGAGGCCTTCGGCGATCCGGTGCACCTGGAC < GWNJ‑0478:712:GW2002102894th:2:1105:14407:23057/150‑1 (MQ=60)
|
CAATCCGGCGGCGTAACTGGCGTAATCTGCAGGGACAGGCAGGAAGGCGGGGCAGGGCGGGTGGCCTGCCCCGCTTTCACGCGGCTGCAATACCGGCATGCGAGTATCGGCGCGACCGCGTTGTATCCACCAGGGAGAGCAGATCAGATGAGACCGGGCGAAGCAGAGTTGGTGCGGCGCATCCACAACGAGGTGGCCGACTACTACGACGAAGAGATCGAACTGGAACTGGACGACCGCGAAGCCAGCGAGGCCTTCGGCGATCCGGTGCACCTGGAC > AM260479/1089310‑1089588
|
| 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: ‑ |
