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 |
|
A5 F18 I1 R1
|
59 |
77.7 |
3515218 |
98.5% |
3462489 |
145.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
353,067 |
A→G |
intergenic (+34/+84) |
hisF → / ← cbcV |
imidazole glycerol phosphate synthase subunit HisF/choline/betaine/carnitine ABC transporter ATP binding protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 353,067 | 0 | A | G | 100.0%
| 57.2
/ NA
| 17 | intergenic (+34/+84) | hisF/cbcV | imidazole glycerol phosphate synthase subunit HisF/choline/betaine/carnitine ABC transporter ATP binding protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (2/15); total (2/15) |
CTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCAGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGC > NC_002947_CJ‑RC/352923‑353118
|
cTGGTAGGGCATGCCAGCGCGGTGCTGGCGGCCTTCTTCTTCCACTTTGGCGCGTACAAAGTGCCGGAGGCCTAGGCCTACATGGCTTCGGGCGTGATCGTCGTGCGGTGATCCATTGACCGGGGCTGGTTTGAAGGCCTTCGCGGGc < 4:299673/148‑1 (MQ=255)
gAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACg < 6:322222/148‑1 (MQ=255)
aTGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGGGCGcccccccc > 7:342608/1‑144 (MQ=255)
gTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGc < 5:131465/149‑1 (MQ=255)
cTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTg < 6:236129/148‑1 (MQ=255)
gcggcCAGCATCTTCCACTTTGGCGAGTACACTGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGTTCGTCGTTCGCTGATCCATTGTCCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTgaga < 4:397357/148‑1 (MQ=255)
gcggcCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTgag < 1:1020/147‑1 (MQ=255)
cATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTgg < 8:322274/149‑1 (MQ=255)
ccACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCGTCGCGCGGGATCGTCGTGCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGc < 7:179212/147‑1 (MQ=255)
cACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCgg < 5:208181/148‑1 (MQ=255)
cACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTCCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCgg < 5:151744/148‑1 (MQ=255)
aCTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGc < 6:395826/149‑1 (MQ=255)
aCTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGc < 7:76205/149‑1 (MQ=255)
tGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGt < 8:309613/147‑1 (MQ=255)
tGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCT‑CCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGc < 4:287204/148‑1 (MQ=255)
cAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGc > 5:342901/1‑85 (MQ=255)
cAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGc < 6:342901/85‑1 (MQ=255)
|
CTGGAAGGGCATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCAGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGC > NC_002947_CJ‑RC/352923‑353118
|
| 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
CATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCAGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAA > NC_002947_CJ‑RC/352932‑353135
|
CATGCCAGCGCGGGGCGGGGGGCCATCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCC < NB501016:282:H2V7GAFX2:1:21206:11689:3265/151‑1 (MQ=60)
GGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCT < NB501016:282:H2V7GAFX2:3:11510:23244:11670/151‑1 (MQ=60)
GGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGA < NB501016:282:H2V7GAFX2:1:11101:3832:4162/149‑1 (MQ=60)
gcagtataactactgggtggtgggtatagtggggtataccgtgctttaccacgcgctgcgcggaaacaaccacggttcaagcatttggggccgctgcgcgcCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGG < NB501016:282:H2V7GAFX2:2:21305:9860:5083/49‑1 (MQ=60)
TCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCGTCGCGCGGGAGCGTCGTGCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCG < NB501016:282:H2V7GAFX2:4:11604:3992:19592/149‑1 (MQ=60)
CCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGG < NB501016:282:H2V7GAFX2:3:11610:20337:9672/150‑1 (MQ=60)
CCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTCCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGG < NB501016:282:H2V7GAFX2:3:11601:19625:15829/150‑1 (MQ=60)
CACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCG < NB501016:282:H2V7GAFX2:4:11412:6101:10105/151‑1 (MQ=60)
GGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCacgaccacacgtttgatgtgatatcaagtggtgcgggcgatgggccgggcaaggggggg > NB501016:282:H2V7GAFX2:2:21304:25269:6837/1‑89 (MQ=60)
CCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCGGGCACGCCCGCT > NB501016:282:H2V7GAFX2:3:21509:13495:6786/1‑87 (MQ=60)
|
CATGCCAGCGCGGTGCTGGCGGCCAGCATCTTCCACTTTGGCGAGTACACAGTGCCGGAGGCCAAGGCCTACATGGCTTCGCGCGGGATCGTCGTTCGCTGATCCATTGACCGGGGCTGCTTTGCAGCCCTTCGCAGGCACGCCCGCTCCCACAGGTTTGCTGAGATCTCTGTGGGAGCGGGCGTGCCCGCGAAGGGCCGCGAA > NC_002947_CJ‑RC/352932‑353135
|
| 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: ‑ |
