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 |
|
A2 F12 I1 R1
|
58 |
76.7 |
3263832 |
98.3% |
3208346 |
146.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
1,499,480 |
2 bp→AC |
intergenic (+57/‑106) |
trpS → / → zapE |
tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 1,499,480 | 0 | C | A | 100.0%
| 31.2
/ NA
| 11 | intergenic (+57/‑107) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (6/5); total (6/5) |
| * | NC_002947_CJ‑RC | 1,499,481 | 0 | A | C | 100.0%
| 32.2
/ NA
| 11 | intergenic (+58/‑106) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (6/5); total (6/5) |
GCCGACGGGCCGCAGTTCGACAACGCTGAAGCCCGTGATGCGGCCATTCAGAGCCTGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCCACGGCTTTGCCGGTGTT‑TCGGGCACG‑CCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAGAACGCTAT > NC_002947_CJ‑RC/1499337‑1499607
||
gCCTACGGGCCGCAGTTCCACAACGCTGAAGCCCGTGATGCGGCCATTCAGAGCCTGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGGGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGc < 1:367960/149‑1 (MQ=39)
aCGGGCCGCAGTTCGACAACGCTGAAGCCCGTGATGCGGCCATTCAGAGCCTGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTg < 1:345631/149‑1 (MQ=255)
ggCCGCAGTTCGACAACGCTGAAGCCCGTGATGCGGCCATTCAGAGCCTGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCg < 1:298018/149‑1 (MQ=255)
cGACAACGCTGAAGCCCGTGATGCGGCCATTCATAGCCTGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTGttcgcg < 3:350744/148‑5 (MQ=255)
tGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGc > 7:338689/1‑94 (MQ=255)
gAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCt < 8:338689/94‑1 (MQ=255)
gggCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCGACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATg > 7:222304/1‑148 (MQ=25)
gCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGAc > 7:230371/1‑148 (MQ=37)
ccGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCt > 1:141582/1‑147 (MQ=37)
ccGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCt > 5:66137/1‑147 (MQ=37)
ggCGCCGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGCCGGCCCGGTTTTTGTTGCCTCGGTAACGAATCATGACTCCCTTTGAACGCTAt > 1:367426/1‑148 (MQ=25)
||
GCCGACGGGCCGCAGTTCGACAACGCTGAAGCCCGTGATGCGGCCATTCAGAGCCTGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCCACGGCTTTGCCGGTGTT‑TCGGGCACG‑CCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAGAACGCTAT > NC_002947_CJ‑RC/1499337‑1499607
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
TGCCGACGGGCCGCAGTTCGACAACGCTGAAGCCCGTGATGCGGCCATTCAGAGCCTGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCCACGGCTTTGCCGGTGTT‑TCGGGCACG‑CCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAGAACGCTATCAAGCAGATCTGAAACG > NC_002947_CJ‑RC/1499336‑1499624
|
ggcctACGGGCCGCAGTTCCACAACGCTGAAGCCCGTGATGCGGCCATTCAGAGCCTGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGGGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCT < NB501016:282:H2V7GAFX2:1:21305:4490:18747/146‑1 (MQ=60)
GACGGGCCGCAGTTCGACAACGCTGAAGCCCGTGATGCGGCCATTCAGAGCCTGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGC < NB501016:282:H2V7GAFX2:1:21301:17046:1675/151‑1 (MQ=60)
GGGCCGCAGTTCGACAACGCTGAAGCCCGTGATGCGGCCATTCAGAGCCTGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGG < NB501016:282:H2V7GAFX2:1:21204:24061:10680/151‑1 (MQ=60)
TCGACAACGCTGAAGCCCGTGATGCGGCCATTCATAGCCTGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTGTTcgcgg < NB501016:282:H2V7GAFX2:2:21305:26056:2411/150‑6 (MQ=60)
CTGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTT > NB501016:282:H2V7GAFX2:4:21510:11302:12433/1‑97 (MQ=60)
AACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGC > NB501016:282:H2V7GAFX2:2:11306:3061:13586/1‑92 (MQ=60)
CGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCGACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGAC > NB501016:282:H2V7GAFX2:4:21402:20378:17209/1‑151 (MQ=60)
GGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTC > NB501016:282:H2V7GAFX2:4:21404:9337:4972/1‑151 (MQ=60)
CCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTT > NB501016:282:H2V7GAFX2:1:11212:25110:15483/1‑149 (MQ=60)
CCCGCGAAACAGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTT > NB501016:282:H2V7GAFX2:3:11501:9710:2819/1‑149 (MQ=60)
AGGCGCCGCGGTGCATGGCACCGGCTTTGCCGGTGTTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGCCGGCCCGGTTTTTGTTGCCTCGGTAACGAATCATGACTCCCTTTGAACGCTATG > NB501016:282:H2V7GAFX2:1:21305:9330:17006/1‑150 (MQ=60)
TGGCACCGGCTTTGCCGGTGTTCGCGGGCACGCCCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAGAACGCTATCAAGCAGATCTGAAACG > NB501016:282:H2V7GAFX2:4:21603:20661:3757/1‑151 (MQ=60)
|
TGCCGACGGGCCGCAGTTCGACAACGCTGAAGCCCGTGATGCGGCCATTCAGAGCCTGAACGAAGCCTTGGCACCACAGCAGGACTGAGGCTGCCAAACGGTGGGAGCGGGCGTGCCCGCGAAACAGGCGCCGCGGTGCATGGCCACGGCTTTGCCGGTGTT‑TCGGGCACG‑CCGCTCCCACAGACTGATTGCCATTAAGCGGGCCTATCGCTACAGTGACGGCCCGTTTTTTGTTGCCTCGCTAACGAATCATGACTCCCTTAGAACGCTATCAAGCAGATCTGAAACG > NC_002947_CJ‑RC/1499336‑1499624
|
| 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: ‑ |
