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 F48 I1 R1
|
58 |
71.3 |
3054194 |
98.3% |
3002272 |
146.3 |
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%
| 72.0
/ 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 (14/7); total (14/7) |
GAGGGGCCGATGCCGATCTTGAACAGGTCGAAGACGCTCAGTGACATGTGGACCTCCTGCCAGGTTGTTGGGTGGACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAA‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCA > NC_002947_CJ‑RC/1126500‑1126784
|
gAGGGGCCGATGCCGATCTTGAACAGGTCGAAGACGCTCAGTGACATGTGGACCTCCTGCCAGGTTGTTGGGTGGACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAA‑cc < 2:160960/148‑1 (MQ=255)
ttgtgGACCTCGTGCCTGGTGGTGGGGTGGACTTTGCGCCGTGTCGGCGGGGGTTTACCGGTTATTGGGGTGGTATCCCACCCTTCGCATGCGGGGTTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGc < 8:194967/148‑1 (MQ=255)
gTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGc > 6:102042/1‑149 (MQ=255)
aCCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTc > 4:156750/1‑149 (MQ=255)
gcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGc > 6:336035/1‑97 (MQ=255)
gcgAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGc < 5:336035/97‑1 (MQ=255)
ggAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGtt > 8:156586/1‑149 (MQ=255)
ggAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGtt < 7:156586/149‑1 (MQ=255)
ggAGGTATAGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGtt > 6:66847/1‑149 (MQ=255)
gttgattaGCCACCATCGCATTGGGGGTAAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTg < 2:79682/143‑1 (MQ=255)
ataGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTc < 5:261796/146‑1 (MQ=255)
ataGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTc > 6:261796/1‑146 (MQ=255)
ataGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGAc > 1:223617/1‑149 (MQ=255)
taGCCACCATCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGAcc > 6:214299/1‑149 (MQ=255)
ccaccaTCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCgg > 6:214120/1‑149 (MQ=255)
ccaccaTCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCgg > 6:92618/1‑149 (MQ=255)
accaTCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGcc > 5:192989/1‑149 (MQ=255)
accaTCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGcc > 2:109252/1‑149 (MQ=255)
accaTCGCATTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGcc > 1:209107/1‑149 (MQ=255)
ccccATTCGCGGTAAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGAcc < 8:52865/146‑1 (MQ=255)
aTTCGCGGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACcggcg > 5:260594/1‑149 (MQ=255)
gcgGGTAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCa < 3:288721/149‑1 (MQ=255)
|
GAGGGGCCGATGCCGATCTTGAACAGGTCGAAGACGCTCAGTGACATGTGGACCTCCTGCCAGGTTGTTGGGTGGACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAA‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCA > NC_002947_CJ‑RC/1126500‑1126784
|
| 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
CATGTGGACCTCCTGCCAGGTTGTTGGGTGGACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAA‑‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGTACTTGCCT > NC_002947_CJ‑RC/1126544‑1126794
|
ccggggcccccccggcgggggtggggggctccaccccccccgggggcgcggggccaccccccccgcgtggtccacccccccccccagccccggggctaaaacccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGC < NB501016:282:H2V7GAFX2:3:21411:10610:13359/47‑1 (MQ=60)
aactggggccccccggcccggttgtgggggcccatttcccccggggcgcgggggttaaccccgctaagggtgtttaaccccccccaccccttgggggtaaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGC < NB501016:282:H2V7GAFX2:4:11410:17458:3246/47‑1 (MQ=60)
gccccccccgccgcgtttttggggggcacttccccccctgtcgcggggggtacccccgccacggggctgtaaaccccacaacccaatgcgggttaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCA < NB501016:282:H2V7GAFX2:3:11505:1297:6679/52‑1 (MQ=60)
ccgcccggggggggttgtgggggcaaatcgccgcgtggtgggggggggacccccggccagggggttttaccccccccctcccctggggctcaaacccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGG < NB501016:282:H2V7GAFX2:3:21506:18301:18266/54‑1 (MQ=60)
ccccctgcccggttgtggggggcacattcccccctgccggcggggttaaccccgctatggcggtgttaacccccccaccccatccgggttaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCG < NB501016:282:H2V7GAFX2:3:11504:17439:4946/56‑1 (MQ=60)
cggcctgggtgtggggcccacatgcccccctcccggcgggggttaccccgccatggcgtcgtaaaccccaccaccccatcgggggtaaaacCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCT < NB501016:282:H2V7GAFX2:3:21603:22488:12140/60‑1 (MQ=60)
cggtagttccgccgtgtgcgggtcggatccccccgctcgcgctggctcaacacccccccaccgcccgggataacccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCG < NB501016:282:H2V7GAFX2:2:21107:7564:20326/75‑1 (MQ=60)
cacctcccccccctccgggggggggacccccgcgtccggcgccctaaccccccccccccttgcggggtaaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGAC < NB501016:282:H2V7GAFX2:2:11304:1431:12085/77‑1 (MQ=60)
cgtgtcggcgcgggtcccccctctctggggttctaacccccacccccctttgcgggtaaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCA < NB501016:282:H2V7GAFX2:1:11303:14993:15488/88‑1 (MQ=60)
tatcccggccattgggttggatggccacctcgcgcttcgggggttaaacCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGG < NB501016:282:H2V7GAFX2:1:11211:25388:17032/101‑1 (MQ=60)
accgggttttggggttggtaccccccccctggcaggggggttaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCG < NB501016:282:H2V7GAFX2:4:11501:24983:1293/104‑1 (MQ=60)
CGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCG < NB501016:282:H2V7GAFX2:3:21604:26436:10550/99‑1 (MQ=60)
CGGAGGTATAGCCACCATCGCATTCGCGGGTAAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTG < NB501016:282:H2V7GAFX2:4:11605:23556:5886/151‑1 (MQ=60)
gtgttaacccccccctcccttgggggttaaaaccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTG < NB501016:282:H2V7GAFX2:3:11402:24329:18417/116‑1 (MQ=60)
TATAGCCACCATCGCATTCGCGGGTAAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACC > NB501016:282:H2V7GAFX2:1:21105:16494:15288/1‑151 (MQ=60)
TATAGCCACCATCGCATTCGCGGGTAAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCG < NB501016:282:H2V7GAFX2:3:21502:7929:11733/148‑1 (MQ=60)
CACCATCGCATTCGCGGGTAAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCG > NB501016:282:H2V7GAFX2:3:11612:5231:11573/1‑151 (MQ=60)
CACCATCGCATTCGCGGGTAAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCG > NB501016:282:H2V7GAFX2:1:21103:5886:2854/1‑151 (MQ=60)
CATTCGCGGGTAAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGG > NB501016:282:H2V7GAFX2:3:21502:25052:7706/1‑151 (MQ=60)
TTCG‑GGGTAAAACCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGC < NB501016:282:H2V7GAFX2:3:21504:21768:4108/150‑1 (MQ=60)
CGCGGGTAAAC‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAG < NB501016:282:H2V7GAFX2:2:21209:2439:8075/151‑1 (MQ=60)
aacccCCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGGGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGTACTTG < NB501016:282:H2V7GAFX2:4:21410:13967:1063/146‑1 (MQ=60)
AAC‑‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGTACTTGCC > NB501016:282:H2V7GAFX2:3:11611:5884:11705/1‑151 (MQ=60)
aaccCCGCTCCTACACTGAGCCCGCCACCCTAGCCCGGTGGCGGGGAGGGCTTTCAGGCGTCGTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGTACTTG < NB501016:282:H2V7GAFX2:4:11509:21396:16499/146‑1 (MQ=60)
AC‑‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGTACTTGCCT > NB501016:282:H2V7GAFX2:4:11507:23972:1218/1‑151 (MQ=60)
|
CATGTGGACCTCCTGCCAGGTTGTTGGGTGGACATTGAGCCCTGTAGGCGCGGGTTTACCCGCGAATGCGGAGGTATAGCCACCATCGCATTCGCGGGTAAA‑‑CCGCTCCTACACAGAGCCCGCCACCCAAGCCAGGTGGCGGGGAGGGCTATCAGGCGTCCTGATAGCTCTCGATCGACGGGCAGGCGCACACCAGGTTGCGGTCGCCGAACACGTTGTCGACCCGGCCGACCGGCGGCCAGTACTTGCCT > NC_002947_CJ‑RC/1126544‑1126794
|
| 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: ‑ |
