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 F14 I1 R1
|
58 |
76.7 |
3323998 |
98.6% |
3277462 |
146.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
1,126,647 |
+C |
intergenic (‑101/+48) |
tdcG‑II ← / ← gcvP‑I |
L‑serine dehydratase/glycine dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 1,126,645 | 1 | . | C | 100.0%
| 63.3
/ NA
| 19 | intergenic (‑99/+50) | tdcG‑II/gcvP‑I | L‑serine dehydratase/glycine dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (16/3); total (16/3) |
CTCCTGCCAGGTTGTTGGGTGGACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAA‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAG > NC_002947_CJ‑RC/1126553‑1126785
|
ccccggCCTGGTTGTTGGGGGCCCATCGCCCCCTGTCGCGGGGGGTTTCCCCGGTATTGCGGTTGAATACCCCCCATCCCTTGGGTGGTTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGc < 8:85432/144‑1 (MQ=255)
cggTTGTTGGGTGGACATTGCCCCCTGTAGGCGCAGGTTTACCCGCGACTGCGGCGGAATAGCCACCATCGCATTGGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGAt < 4:65618/148‑1 (MQ=37)
ggTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTg > 3:286757/1‑149 (MQ=255)
gTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGc > 2:143952/1‑149 (MQ=255)
ttACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCgg > 1:11909/1‑149 (MQ=255)
ccGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGc > 2:406411/1‑149 (MQ=255)
ccGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGc > 7:196843/1‑149 (MQ=255)
ccGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCATCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGc > 3:101757/1‑149 (MQ=255)
ccGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCATCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGc > 3:107504/1‑149 (MQ=255)
ccGCGAATGCGGAGGTATAGCCACCATCGCATTAGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGc > 5:77524/1‑149 (MQ=255)
gcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAg < 7:11991/95‑1 (MQ=255)
gcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAg > 8:11991/1‑95 (MQ=255)
gcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGcc > 3:272048/1‑148 (MQ=255)
gCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCg > 3:258861/1‑149 (MQ=255)
gCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCg > 4:97834/1‑149 (MQ=255)
caccaTCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGc > 2:227987/1‑149 (MQ=255)
accaTCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGcc > 6:66355/1‑149 (MQ=255)
tCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGAcc > 8:78135/1‑149 (MQ=255)
gggTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAg > 3:64876/1‑148 (MQ=255)
|
CTCCTGCCAGGTTGTTGGGTGGACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAA‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAG > NC_002947_CJ‑RC/1126553‑1126785
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TGACATGTGGACCTCCTGCCAGGTTGTTGGGTGGACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAA‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGT > NC_002947_CJ‑RC/1126541‑1126786
|
ccacttggcccccccctccccggttgtggggggccctttccccctttacggcggggtttaccccgcgatcgcgcagttaaccccacaaccccttgcggggtaaaacCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAG < NB501016:282:H2V7GAFX2:4:21504:10380:19064/44‑1 (MQ=60)
ccctggcccccccccgccggggggttggggcccccttgccccgcggcgggcggggctcaccccggcatgggcgcttaaccccccccccccctgggggggaaacccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGG < NB501016:282:H2V7GAFX2:1:11105:17773:8343/46‑1 (MQ=60)
ccctgcggcccccccgcccggttgtggggttcaacttccccccggtggggggggtgtacccccgtaatggggttcttacccccccccccccttggggttaaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGG < NB501016:282:H2V7GAFX2:1:11211:20876:12133/45‑1 (MQ=60)
cccggcgcccccccgcccctggtgggggggggcacaggcccccctggcgggggggttacccccgccatgggggagttaccccccccacccctggggggttaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGG < NB501016:282:H2V7GAFX2:1:21204:7035:17028/46‑1 (MQ=60)
ccccccccccctgggtgggggggccccatcccccccgggggcgcggcgttccccccccttttgcgcgctttacccccaccccgcgttggggttaaacccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCA < NB501016:282:H2V7GAFX2:2:21304:16171:9106/52‑1 (MQ=60)
ccccgccgcgctcgtttgtgggcgccattttcccccctgtggcggggttacccccggcatttgcgttctaaaccccccaatccctggcggttaaacccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAG < NB501016:282:H2V7GAFX2:3:11407:10462:4211/53‑1 (MQ=60)
cccccgggccgggggggggggccccctcgcccccggggggggggggtccccccggcttcgggggctcaaccccacccccccccgggggttaaacccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGC < NB501016:282:H2V7GAFX2:2:21306:21353:2774/55‑1 (MQ=60)
gcgcggggggtggggggtccacttggccccggggcgggggggtccccgcgccttcggggtcttaaccccccccccccccggggtttaaacccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCC < NB501016:282:H2V7GAFX2:4:11603:16930:14604/59‑1 (MQ=60)
cccccggtggtgggcggccaaacccccccggggggggcgggtaccccccggcacggcgtgtctaccccccccacccattcggtgtaaacccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCT < NB501016:282:H2V7GAFX2:4:11510:16106:3079/60‑1 (MQ=60)
gggttttggtggtcccacttgccccctcgcggcgggggtcacccccgctagggctgctccacccccccacccacgcggggtaaaacccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGAT < NB501016:282:H2V7GAFX2:4:11602:13760:2258/63‑1 (MQ=60)
tggggtgaactttccgccgttgggggggggtttacccggctatggggtcgttaaccccaccagccctttggggttaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGAGCTATCAGGACGCCTGATAGCCCTC < NB501016:282:H2V7GAFX2:3:21612:13405:6510/70‑1 (MQ=47)
cgaattgccgccgggtgggggggggttccccggctatggcgtttttaaccccaccaccgctttcgtgttaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGA < NB501016:282:H2V7GAFX2:4:21408:13044:12303/76‑1 (MQ=60)
ccggcccgcgggggcgggggccccccccgtcgtgggctccacaccccccaccccctcgccggcacaaccccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGGGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGG < NB501016:282:H2V7GAFX2:1:11309:6297:9700/80‑1 (MQ=60)
ggtcttccccgggtagggtgtttttacaccacctaccttttggggttaaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTG < NB501016:282:H2V7GAFX2:1:21104:18653:8397/98‑1 (MQ=60)
GGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGC > NB501016:282:H2V7GAFX2:2:21204:13074:14385/1‑151 (MQ=60)
TTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGT > NB501016:282:H2V7GAFX2:1:11102:12557:16563/1‑151 (MQ=60)
CCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCC > NB501016:282:H2V7GAFX2:4:11609:13633:19714/1‑151 (MQ=60)
CCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCATCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCC > NB501016:282:H2V7GAFX2:2:11207:26776:16896/1‑151 (MQ=60)
CCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCATCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCC > NB501016:282:H2V7GAFX2:2:11206:1180:16906/1‑151 (MQ=60)
CCCGCGAATGCGGAGGTATAGCCACCATCGCATTAGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCC > NB501016:282:H2V7GAFX2:3:11502:7731:16627/1‑151 (MQ=60)
CGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCG > NB501016:282:H2V7GAFX2:2:21112:9604:9778/1‑150 (MQ=60)
CGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGG < NB501016:282:H2V7GAFX2:4:11403:22762:1222/97‑1 (MQ=60)
atggcggtgtaaccccaccaagcctttggggtttaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACA < NB501016:282:H2V7GAFX2:1:21201:15693:8208/111‑1 (MQ=60)
AGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGG > NB501016:282:H2V7GAFX2:2:21109:20482:19449/1‑151 (MQ=60)
CGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGT > NB501016:282:H2V7GAFX2:2:11112:18496:9671/1‑150 (MQ=60)
|
TGACATGTGGACCTCCTGCCAGGTTGTTGGGTGGACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAA‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGT > NC_002947_CJ‑RC/1126541‑1126786
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
