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 |
|
A3 F16 I1 R1
|
53 |
59.1 |
2715536 |
98.5% |
2674802 |
146.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
6,016,700 |
T→C |
intergenic (+90/+20) |
xpt → / ← PP_5266 |
xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 6,016,700 | 0 | T | C | 100.0%
| 51.8
/ NA
| 16 | intergenic (+90/+20) | xpt/PP_5266 | xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (14/2); total (14/2) |
TCCCACAGGTGCAGCACAGGTCTCGAACGCTGTGCCGTACCTGTGGGAGCGGGCGTGCCTGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATACCCCTCCGGCCCCGGTGCATCCAA > NC_002947_CJ‑RC/6016641‑6016845
|
tCCCACAGGTACGGCACAGCGTTCGAGACCTGTGCTGCACCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGc > 8:166248/1‑149 (MQ=21)
ccACAGGTGCAGCACAGGTCTCGAACGCTGTGCCGTACCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGccc > 6:330027/1‑149 (MQ=255)
ccACAGGTGCAGCACAGGTCTCGAACGCTGTGCCGTACCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGccc > 8:305902/1‑149 (MQ=255)
acaGGTGCAGCACAGGTCTCGAACGCTGTGCCGTACCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGcccc > 3:77354/1‑148 (MQ=255)
gTGCAGCACAGGTCTCGAACGCTGTGCCGTACCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTg > 4:161344/1‑149 (MQ=255)
gcaCAGGTCTCGAACGCTGTGCCGTACCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATcc > 7:270892/1‑149 (MQ=255)
cGTACCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGccc > 1:42975/1‑131 (MQ=255)
cGTACCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGccc < 2:42975/131‑1 (MQ=255)
cGTACCTGTGGGAGCGGGCGAGCCCGCGAATGGCCGCAACCCTATTATCTGGTTGACGCCAGCCCCGCCAACAACACGCGCAGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATAcc > 6:192930/1‑148 (MQ=255)
cTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATCCCCCTCCg > 5:203732/1‑149 (MQ=255)
cTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATACCCCTCCg < 2:55960/149‑1 (MQ=255)
cTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATACCCCTCCg > 5:8493/1‑149 (MQ=255)
gCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATACCCCTCCGGCCCCGGt > 2:264880/1‑149 (MQ=255)
gCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTG‑CCCAACTGCATCCGCCCCAGGTGGCTTTCATACCCCTCCGGCCCCGGTg > 4:40326/1‑149 (MQ=255)
gCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATACCCCTCCGGCCCCGGTGCAt > 1:67951/1‑149 (MQ=255)
gCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATACCCCTCCGGCCCCGGTGCATCCaa > 8:240596/1‑149 (MQ=255)
|
TCCCACAGGTGCAGCACAGGTCTCGAACGCTGTGCCGTACCTGTGGGAGCGGGCGTGCCTGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATACCCCTCCGGCCCCGGTGCATCCAA > NC_002947_CJ‑RC/6016641‑6016845
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TTCATCGAATAAACGCGACACCTGCTTCGCGGGCACGCCCGCTCCCACAGGTGCAGCACAGGTCTCGAACGCTGTGCCGTACCTGTGGGAGCGGGCGTGCCTGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATACCCCTCCGGCCCCGGTGCATCCAACGCTG > NC_002947_CJ‑RC/6016599‑6016850
|
acaaccaaaaaccccccaccccgccggcgggcccccccccgccccaaccgggccccaccggccccccaccggggcccggcccgggggggcggGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAAC < NB501016:282:H2V7GAFX2:1:11208:6466:19702/57‑1 (MQ=60)
accctgttgtggggggccgcccgccccccccatgggttccagcgttccgccgcgtttgtggttcatgtggggggggggggGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGT < NB501016:282:H2V7GAFX2:3:21512:6146:1794/71‑1 (MQ=60)
ccctccgccgcggccccccccgccccccctggcccagaccgggcgccaacgtggggccctaccggggggccggggggGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCT < NB501016:282:H2V7GAFX2:1:21211:21132:16352/74‑1 (MQ=60)
ccggggcccccccgccccccactgtggcatcaccggcccgaaacggtggcccttacgtggggtcggGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTA < NB501016:282:H2V7GAFX2:3:11605:11137:15830/84‑1 (MQ=60)
CACAGGTGCAGCACAGGTCTCGAACGCTGTGCCGTACCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCA > NB501016:282:H2V7GAFX2:2:11205:7029:10672/1‑150 (MQ=60)
ggtacggcacagcgttcgagacctgtgctgcACCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGC > NB501016:282:H2V7GAFX2:1:11104:7374:6138/32‑151 (MQ=60)
AGCACAGGTCTCGAACGCTGTGCCGTACCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCG > NB501016:282:H2V7GAFX2:4:21508:2146:5171/1‑151 (MQ=60)
CCGTACCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCC > NB501016:282:H2V7GAFX2:1:11109:6151:8619/1‑133 (MQ=60)
GCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATCCCCCTCCGG > NB501016:282:H2V7GAFX2:3:21408:24457:1911/1‑151 (MQ=60)
CCTGTGGGAGCGGGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATACCCCTCCGG > NB501016:282:H2V7GAFX2:3:11402:13427:17493/1‑151 (MQ=60)
GGCGTGCCCGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATACCCCTCCGGCCCCGGTGCATC > NB501016:282:H2V7GAFX2:1:11202:15095:9171/1‑151 (MQ=60)
GGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATACCCCTCCGGCCCCGGTGCATCCAACGCTG < NB501016:282:H2V7GAFX2:4:21602:7837:3178/151‑1 (MQ=60)
|
TTCATCGAATAAACGCGACACCTGCTTCGCGGGCACGCCCGCTCCCACAGGTGCAGCACAGGTCTCGAACGCTGTGCCGTACCTGTGGGAGCGGGCGTGCCTGCGAATGGCCGCAACCCTTTTATCTGGTTGCCGCCAGCCCCGCCAACAACAAGCGCTGGTAAAGTTCTTCTTTAAGCCCCTGCGGCTGCCCCAACTGCATCCGCCCCAGGTGGCTTTCATACCCCTCCGGCCCCGGTGCATCCAACGCTG > NC_002947_CJ‑RC/6016599‑6016850
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
