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 F53 I1 R1
|
62 |
81.2 |
3465250 |
98.6% |
3416736 |
145.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
1,419,549 |
+C |
intergenic (‑38/+98) |
PP_1242 ← / ← PP_1244 |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 1,419,548 | 1 | . | C | 100.0%
| 60.0
/ NA
| 18 | intergenic (‑37/+99) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (2/16); total (2/16) |
GGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGG‑CTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCC > NC_002947_CJ‑RC/1419403‑1419627
|
ggCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGggctgg‑cc > 6:156035/1‑147 (MQ=255)
ggggATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGggctgg‑cctctt < 5:405251/148‑6 (MQ=255)
ggATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGggctgg‑cctcttag > 5:161796/1‑141 (MQ=255)
ggATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTcg < 4:258358/148‑1 (MQ=255)
aTGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTcgcg < 8:59147/148‑1 (MQ=255)
ttCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGcc < 1:321362/148‑1 (MQ=255)
gCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTcc > 5:347546/1‑148 (MQ=255)
aaCAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCcaca < 2:17938/148‑1 (MQ=255)
aCAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAg < 3:370468/148‑1 (MQ=255)
gTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTGCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACtgt < 5:138215/148‑1 (MQ=255)
cGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACg < 4:7092/147‑1 (MQ=255)
ccTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGt > 5:406930/1‑127 (MQ=255)
ccTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGGTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGt < 6:406930/127‑1 (MQ=255)
ggTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCtgtg < 4:297306/147‑1 (MQ=255)
ggTAGAAGCAGGTCTTACCGACTGTGGTGGGTTCTGTTGTGGTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCtgtg < 8:304721/147‑1 (MQ=255)
ggTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCtgtg < 5:156035/148‑1 (MQ=255)
gTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCtgtg < 6:347546/147‑1 (MQ=255)
gCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGa < 4:7378/145‑1 (MQ=255)
cGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCggg < 7:126305/148‑1 (MQ=255)
cGACTGTGGTGGGTTCTGTTGTGGTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCggg < 8:300303/148‑1 (MQ=255)
tggtggGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGcc < 6:188414/148‑1 (MQ=255)
|
GGCAGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGG‑CTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCC > NC_002947_CJ‑RC/1419403‑1419627
|
| 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
AGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGG‑CTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTAATGCAAGGTG > NC_002947_CJ‑RC/1419406‑1419659
|
AGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGGCCTCTTCG < NB501016:282:H2V7GAFX2:3:21607:18119:16240/151‑1 (MQ=60)
GGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGG‑Cctcttagc > NB501016:282:H2V7GAFX2:3:11603:10482:9899/1‑143 (MQ=60)
GTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGGCCTCTTCGCGGGCACGCCCG < NB501016:282:H2V7GAFX2:1:21204:25088:18695/151‑1 (MQ=60)
ATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGGCCTCTTCGCGGGCACGCCCGCTCCC > NB501016:282:H2V7GAFX2:3:21510:11130:15500/1‑151 (MQ=60)
AACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGT < NB501016:282:H2V7GAFX2:2:21305:6150:8858/151‑1 (MQ=60)
GGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTGCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGC < NB501016:282:H2V7GAFX2:3:11511:8804:17151/151‑1 (MQ=60)
GTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGG‑Cctattaggcgggcgcgcccccccccccaacgctatggtgtgg > NB501016:282:H2V7GAFX2:4:21504:11831:7310/1‑109 (MQ=60)
CGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTAC > NB501016:282:H2V7GAFX2:3:21608:17140:1813/1‑131 (MQ=60)
GGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGATTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGG‑Ccgccaagctgcggggccacgccccccccccccagggccacccacaccagggcgaagcc > NB501016:282:H2V7GAFX2:2:11307:23434:10128/1‑93 (MQ=60)
TAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGG‑Ccgcatacgcgcgggcgcgccccccccaacctcgtcgggtttggggtgggcggcggggggg > NB501016:282:H2V7GAFX2:2:11208:21543:11675/1‑91 (MQ=60)
AGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGG < NB501016:282:H2V7GAFX2:3:11602:5889:12441/151‑1 (MQ=60)
GTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGgtcaccacagccgtcacgcactgcacagtacctgtgggag < NB501016:282:H2V7GAFX2:2:21203:2636:7807/151‑41 (MQ=60)
GTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGG‑Cccggatagggggggggcccccccccccccccacctcgggtggggggggggggcgggggggggcgggggg > NB501016:282:H2V7GAFX2:1:21203:17702:13026/1‑82 (MQ=60)
TGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTTGC‑CTCTTCGCGTGCACGCCCGGTCCCACAGGgtcaccacagccgtcacgcacttcacagtacctgtgggagcg < NB501016:282:H2V7GAFX2:1:21208:8567:9068/149‑43 (MQ=60)
TGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGG‑Cctattagcgggggccccccccacccccacgtttttggggttggggggggggggtgggggcccggggggggcgg > NB501016:282:H2V7GAFX2:4:21509:16989:19868/1‑78 (MQ=60)
gatgagcgggccggaattgctggaccgcctggaagggctggcagggaggCCTGGATTCTGGGTTGCCTGGGC‑TGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCG < NB501016:282:H2V7GAFX2:2:11309:7415:8379/102‑1 (MQ=60)
CCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCG < NB501016:282:H2V7GAFX2:4:11508:10058:19754/151‑1 (MQ=60)
GGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGG‑Cccgcaagaccgggggggcccccccccccccccccgtggggggggggggggggggggggggggggcgggggggggggggggcgc > NB501016:282:H2V7GAFX2:3:11512:22285:10344/1‑68 (MQ=60)
GTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGG‑Ccggatttggcggggggccccccccccccccccgagggttgtggggggggggggggggtggggggcgggggggggggggggcgcgcggg > NB501016:282:H2V7GAFX2:1:21109:4307:8475/1‑63 (MQ=60)
GCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGG‑Ccccgttgagggggggggcccccccccccccccaccagtggggtgggggggggggggggggggggggggggggggggggcgggcgcggcggccgcgcgggcgggggcac > NB501016:282:H2V7GAFX2:2:21208:24667:2176/1‑42 (MQ=60)
CATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGG‑Cctaataacggggggcgcgcccccccccaccaacaaaaggaatggtgggtgggggggggggaggaatagggggggggcgcggcccggcccagagagaacataaacaaaca > NB501016:282:H2V7GAFX2:1:11302:5021:12805/1‑41 (MQ=60)
CATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGG‑Ccgctttgcggggggcccccccccccccccgtgtggtggggggggggggggggggggggggcgggggggggggggggggggggcgcggaggggggggccggggatggaagg > NB501016:282:H2V7GAFX2:3:21605:13840:3095/1‑41 (MQ=60)
CTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGC < NB501016:282:H2V7GAFX2:2:11306:12373:14380/74‑1 (MQ=60)
|
AGGGGATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGC‑TGG‑CTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTGCCCGCGAAGAGGCCTGACCTGCTAATGCAAGGTG > NC_002947_CJ‑RC/1419406‑1419659
|
| 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: ‑ |
