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 F13 I1 R1
|
59 |
72.5 |
3655346 |
98.4% |
3596860 |
137.9 |
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%
| 73.6
/ NA
| 21 | intergenic (‑99/+50) | tdcG‑II/gcvP‑I | L‑serine dehydratase/glycine dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (13/8); total (13/8) |
GAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAA‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGTAC > NC_002947_CJ‑RC/1126580‑1126788
|
gcgCCCTGTCGGCGGGGGTTTACCGGGTTTGGGGGAGTTATAGCCACAATCGCATGCGGGTTTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGc < 6:215890/146‑1 (MQ=255)
gcggGGGTTTCCCCGCTATTGCGTTGTTATAGCCACCATCGCTTTCGGGGTTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCa < 8:50659/149‑1 (MQ=255)
gTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCgg > 8:117248/1‑90 (MQ=255)
gTTTACCCGCGAATGCGGAGGTATAGCCACAATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCgg < 7:117248/90‑1 (MQ=37)
cccGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGc > 1:91335/1‑111 (MQ=255)
cccGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGc < 2:91335/111‑1 (MQ=255)
ccGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGc > 7:350784/1‑149 (MQ=255)
gcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGc > 7:266859/1‑141 (MQ=255)
gcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGc < 8:266859/141‑1 (MQ=255)
gcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGcc > 1:290544/1‑148 (MQ=255)
gcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGcc > 7:444655/1‑148 (MQ=255)
gcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGcc > 3:171806/1‑148 (MQ=255)
gAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGtt > 2:219740/1‑148 (MQ=255)
taGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGAcc > 7:355569/1‑149 (MQ=255)
gCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCg < 4:171806/149‑1 (MQ=255)
caTCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGa > 8:412512/1‑149 (MQ=255)
aTCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGAc > 7:93906/1‑149 (MQ=255)
tCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGAcc < 8:93906/149‑1 (MQ=255)
gTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAg < 7:254050/50‑1 (MQ=37)
gTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAg > 8:254050/1‑50 (MQ=37)
gTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGTAc > 4:204941/1‑149 (MQ=255)
|
GAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAA‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGTAC > NC_002947_CJ‑RC/1126580‑1126788
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GGAGGGGCCGATGCCGATCTTGAACAGGTCGAAGACGCTCAGTGACATGTGGACCTCCTGCCAGGTTGTTGGGTGGACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAA‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGTACTTGCCT > NC_002947_CJ‑RC/1126499‑1126794
|
GGAGGGGCCTATGCCGATCTTGAACAGGTCGAAG‑‑TCTCAGTGACATGTGGACCTCCTGCCAGGTTGTTGGGTGGACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCT < NB501016:282:H2V7GAFX2:4:11605:20259:15910/151‑1 (MQ=60)
caacccccccccttcactgggcccccccgcccgtgttgggtggtcgaaattgcccccgtggcgggggggtataccgcccttcggggtcttaaccccccccaccacttgcgggttaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCA < NB501016:282:H2V7GAFX2:4:11612:9841:12410/32‑1 (MQ=60)
actgggccccccccgcccgggtggtggggggcacttgcccccggttcggcggggtttacccggctatgggggtgtaaaccccaccccccaatgcgggttaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGC < NB501016:282:H2V7GAFX2:4:21410:14400:17001/47‑1 (MQ=60)
gcggggtggtggggggtgctctcgcccccgcggcgggggggggccccccgcctccgccgcccaaccccccccccccccgggccccaaaccccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCC < NB501016:282:H2V7GAFX2:1:11312:21003:9195/59‑1 (MQ=60)
tgtgttgtgtgttctcattgctcctggtggggggtggtttccccctattggcggggtaaaaccccccccctccttgggtttaaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGAT < NB501016:282:H2V7GAFX2:1:21308:13960:12469/63‑1 (MQ=60)
gtttgtggggtgcacatggcgccctgcggggggggtttcccccgctaaggcggtgtaaaccccacaaccgcttgggggttaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATA < NB501016:282:H2V7GAFX2:4:11511:24204:15854/64‑1 (MQ=60)
ggtgggggtttctcgtgccggggggggggggggcccccccgggctagggcccccccccccccacccccccgcgggtaaaaccccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGC < NB501016:282:H2V7GAFX2:1:11311:6007:10852/66‑1 (MQ=60)
atttcccccttgtgggcgggtttttccccgctattgcgtcttaacccccaccacccattccgggttaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGG < NB501016:282:H2V7GAFX2:4:21401:17619:4337/80‑1 (MQ=60)
gttataccccgttttggcgtttttatccgacatttcgtcttggggttaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGC < NB501016:282:H2V7GAFX2:3:21605:9968:6123/99‑1 (MQ=60)
GGTTAACCCGCTAATGCGGAGGTATAGCCACAATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGG < NB501016:282:H2V7GAFX2:4:11506:3273:17438/92‑1 (MQ=60)
TACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTC > NB501016:282:H2V7GAFX2:1:11203:23046:3483/1‑115 (MQ=60)
CCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCC > NB501016:282:H2V7GAFX2:4:21505:23110:18091/1‑151 (MQ=60)
CCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCG > NB501016:282:H2V7GAFX2:1:21110:16240:7079/1‑151 (MQ=60)
CGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCG > NB501016:282:H2V7GAFX2:4:21608:24318:5681/1‑150 (MQ=60)
CGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCG > NB501016:282:H2V7GAFX2:2:11304:21724:8558/1‑150 (MQ=60)
CGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCG > NB501016:282:H2V7GAFX2:4:21405:23067:16929/1‑143 (MQ=60)
tttatcccccacccctctagggcgcgttaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGT < NB501016:282:H2V7GAFX2:4:11602:8827:10350/117‑1 (MQ=60)
ATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCC > NB501016:282:H2V7GAFX2:4:21506:10280:12789/1‑151 (MQ=60)
CATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACC > NB501016:282:H2V7GAFX2:4:11503:18606:5552/1‑151 (MQ=60)
GCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCG < NB501016:282:H2V7GAFX2:4:21609:5822:7420/142‑1 (MQ=60)
GGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGG < NB501016:282:H2V7GAFX2:4:21404:10051:1407/52‑1 (MQ=60)
gtaatcgCGCTCCTTCACAGACCCCCCCACGCAACCCTGGTGGCGGGGAGGGCTATCAGGCGTCATGATAGCTCTCGTTCGAGTGGCAGGCGCACACCAGGTTGCGGTCGCC < NB501016:282:H2V7GAFX2:3:11406:2465:5766/105‑1 (MQ=60)
aaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGTACTTG < NB501016:282:H2V7GAFX2:4:21503:15331:15563/146‑1 (MQ=60)
AC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGTACTTGCCT < NB501016:282:H2V7GAFX2:2:11309:15401:10922/151‑1 (MQ=60)
|
GGAGGGGCCGATGCCGATCTTGAACAGGTCGAAGACGCTCAGTGACATGTGGACCTCCTGCCAGGTTGTTGGGTGGACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAA‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGTACTTGCCT > NC_002947_CJ‑RC/1126499‑1126794
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
