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 |
|
A1 F1 I1 R1
|
66 |
46.7 |
5280542 |
98.1% |
5180211 |
47.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_017635 |
3,684,611 |
G→A |
R210H (CGT→CAT) |
crp → |
cAMP‑activated global transcriptional regulator CRP |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 3,684,611 | 0 | G | A | 100.0%
| 241.6
/ NA
| 60 | R210H (CGT→CAT) | crp | cAMP‑activated global transcriptional regulator CRP |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/39); total (21/39) |
CTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTT > NC_017635/3684568‑3684655
|
cTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTaa < 1:465686/48‑1 (MQ=255)
cTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTaa < 1:1582080/48‑1 (MQ=255)
cTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTaa < 1:1972889/48‑1 (MQ=255)
aTCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAAt < 2:1140190/46‑1 (MQ=255)
aTCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAAt < 2:85517/46‑1 (MQ=255)
aTCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAAt < 2:50334/46‑1 (MQ=255)
aTCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAAt < 1:2468822/46‑1 (MQ=255)
tctcCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAATccc > 1:104402/1‑48 (MQ=255)
cGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTc < 2:158381/47‑1 (MQ=255)
gCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCgg < 1:2567630/48‑1 (MQ=255)
cacaCGGTAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGa < 2:1019978/48‑1 (MQ=255)
cacaCGGTAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGa < 1:234617/48‑1 (MQ=255)
acacGGTAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAg > 1:2169451/1‑48 (MQ=255)
cGGTAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTgg < 1:1610223/48‑1 (MQ=255)
ggTAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGgc > 2:312619/1‑48 (MQ=255)
tAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGgcgc > 2:2494036/1‑48 (MQ=255)
tAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGgcgc > 2:182014/1‑48 (MQ=255)
tAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGgcgc > 1:2242716/1‑48 (MQ=255)
aaCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGtt < 2:2034228/48‑1 (MQ=255)
aaCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGtt < 2:1736202/48‑1 (MQ=255)
aaCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGtt < 2:2287494/48‑1 (MQ=255)
aaCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGtt < 2:108560/48‑1 (MQ=255)
aaCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGt > 2:212523/1‑47 (MQ=255)
aaCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGt > 1:1678216/1‑47 (MQ=255)
tccATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 2:1828419/47‑1 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 2:925109/48‑1 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 2:1357458/48‑1 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 2:1256550/48‑1 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 2:319018/48‑1 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 2:232310/48‑1 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 2:990911/48‑1 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa > 1:864991/1‑48 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 1:114777/48‑1 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 1:1330498/48‑1 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 1:1654560/48‑1 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 1:1716862/48‑1 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 1:418197/48‑1 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 2:1213353/48‑1 (MQ=255)
aCCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 1:799907/48‑1 (MQ=255)
aCCAGCGGCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTa < 1:2454426/48‑1 (MQ=255)
ccATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTAc < 2:2601939/48‑1 (MQ=255)
ccATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTAc > 2:893430/1‑48 (MQ=255)
cATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTAcc > 2:1995346/1‑48 (MQ=255)
tcgtcgTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTg < 1:1688798/48‑1 (MQ=255)
tcgtcgTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTg < 1:15074/48‑1 (MQ=255)
gtcgtTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTgg > 1:1252862/1‑47 (MQ=255)
cgtTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAg < 1:480503/48‑1 (MQ=255)
ttACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTTCCTGGTAgcgc > 1:1408171/1‑48 (MQ=255)
ttACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAgcgc > 2:1941007/1‑48 (MQ=255)
ttACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAgcgc > 2:1842338/1‑48 (MQ=255)
ttACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAgcgc > 1:1831987/1‑48 (MQ=255)
ttACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAgcgc > 2:1266365/1‑48 (MQ=255)
ttACGGCACTCATTAATCCCGTCGGAGTGGCGCGGTACCTGGTAgcgc > 1:2172763/1‑48 (MQ=255)
ggCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCa < 2:1679784/48‑1 (MQ=255)
ggCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCa < 2:268608/48‑1 (MQ=255)
gCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCAt < 2:812143/48‑1 (MQ=255)
cACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCAtt > 1:2008985/1‑48 (MQ=255)
aCTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCAttt > 2:601242/1‑48 (MQ=255)
aCTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCAttt > 1:2400100/1‑48 (MQ=255)
cTCATTAATCCCGTCGGAGTGGCGCGTTACCCGGTAGCGCGCCAtttt < 2:2062863/48‑1 (MQ=255)
|
CTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTT > NC_017635/3684568‑3684655
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGTTTCC > NC_017635/3684562‑3684661
|
CAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCAT < M01420:84:000000000‑ABVEH:1:1104:10380:4560/51‑1 (MQ=60)
CAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCAT > M01420:84:000000000‑ABVEH:1:2112:4037:18420/1‑51 (MQ=60)
AGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATT < M01420:84:000000000‑ABVEH:1:2106:13172:15360/51‑1 (MQ=60)
GAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATT > M01420:84:000000000‑ABVEH:1:1104:14867:15606/1‑50 (MQ=60)
CCTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAATC < M01420:84:000000000‑ABVEH:1:2103:24946:22553/51‑1 (MQ=60)
CCTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAATC < M01420:84:000000000‑ABVEH:1:1114:24200:14161/51‑1 (MQ=60)
CCTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAATC < M01420:84:000000000‑ABVEH:1:1105:17403:1998/51‑1 (MQ=60)
GATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAATCCCG > M01420:84:000000000‑ABVEH:1:1101:18920:25039/1‑51 (MQ=60)
GATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAATCC < M01420:84:000000000‑ABVEH:1:2108:16351:5321/49‑1 (MQ=60)
CCGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAATCCCGT < M01420:84:000000000‑ABVEH:1:2113:10147:24771/47‑1 (MQ=60)
CGCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAG < M01420:84:000000000‑ABVEH:1:2108:25141:25439/51‑1 (MQ=60)
GCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGT > M01420:84:000000000‑ABVEH:1:2105:5108:15919/1‑51 (MQ=60)
GCACACGGTAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGT < M01420:84:000000000‑ABVEH:1:1103:11923:3046/51‑1 (MQ=60)
ACGGTAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCG < M01420:84:000000000‑ABVEH:1:1114:24081:19385/51‑1 (MQ=60)
GGTAAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCG > M01420:84:000000000‑ABVEH:1:2106:14816:7556/1‑51 (MQ=60)
AAAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTT > M01420:84:000000000‑ABVEH:1:2101:6067:9755/1‑50 (MQ=60)
AAACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTAC > M01420:84:000000000‑ABVEH:1:1108:21172:13504/1‑51 (MQ=60)
AACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACC < M01420:84:000000000‑ABVEH:1:2114:23910:6247/51‑1 (MQ=60)
AACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACC < M01420:84:000000000‑ABVEH:1:2112:24982:10031/51‑1 (MQ=60)
AACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACC < M01420:84:000000000‑ABVEH:1:1101:13850:28608/51‑1 (MQ=60)
AACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACC < M01420:84:000000000‑ABVEH:1:2101:22608:17274/51‑1 (MQ=60)
AACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACC < M01420:84:000000000‑ABVEH:1:1104:6892:17528/51‑1 (MQ=60)
AACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACC < M01420:84:000000000‑ABVEH:1:1107:23672:23898/51‑1 (MQ=60)
AACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACC < M01420:84:000000000‑ABVEH:1:1112:19278:11908/51‑1 (MQ=60)
AACCATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACC < M01420:84:000000000‑ABVEH:1:2101:15987:4086/51‑1 (MQ=60)
AACCAGCGGCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACC < M01420:84:000000000‑ABVEH:1:2107:15879:27119/51‑1 (MQ=50)
ATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGT < M01420:84:000000000‑ABVEH:1:1101:8882:6579/51‑1 (MQ=60)
ATCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGT < M01420:84:000000000‑ABVEH:1:2101:27228:11881/51‑1 (MQ=60)
TCGTCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGT > M01420:84:000000000‑ABVEH:1:1111:17605:19781/1‑50 (MQ=60)
GCGTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCG < M01420:84:000000000‑ABVEH:1:1105:9594:6708/51‑1 (MQ=60)
GTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTTCCTGGTAGCGCG > M01420:84:000000000‑ABVEH:1:1112:18108:29007/1‑51 (MQ=60)
GTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCG > M01420:84:000000000‑ABVEH:1:2102:25505:17286/1‑51 (MQ=60)
GTTTACGGCACTCATTAATCCCGTCGGAGTGGCGCGGTACCTGGTAGCGCG > M01420:84:000000000‑ABVEH:1:2105:19068:16539/1‑51 (MQ=60)
GGCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTT > M01420:84:000000000‑ABVEH:1:2104:15328:6720/1‑51 (MQ=60)
GCACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTT > M01420:84:000000000‑ABVEH:1:2107:11711:15428/1‑51 (MQ=60)
ACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCCTTTTGT > M01420:84:000000000‑ABVEH:1:1109:23564:25628/1‑51 (MQ=60)
ACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCCTTTTGT > M01420:84:000000000‑ABVEH:1:2112:7024:19208/1‑51 (MQ=60)
ACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGT > M01420:84:000000000‑ABVEH:1:1106:7407:11774/1‑51 (MQ=60)
ACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGT > M01420:84:000000000‑ABVEH:1:2106:14404:10712/1‑51 (MQ=60)
ACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGT > M01420:84:000000000‑ABVEH:1:2101:9794:6849/1‑51 (MQ=60)
ACTCATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGT > M01420:84:000000000‑ABVEH:1:2113:23861:11635/1‑51 (MQ=60)
CATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGTTTC < M01420:84:000000000‑ABVEH:1:2107:26744:9121/51‑1 (MQ=60)
CATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGTTTC < M01420:84:000000000‑ABVEH:1:2110:15976:18882/51‑1 (MQ=60)
ATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCCTTTTGTTTCC > M01420:84:000000000‑ABVEH:1:2111:24347:5475/1‑51 (MQ=60)
ATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGTTTCC < M01420:84:000000000‑ABVEH:1:2102:20715:27055/51‑1 (MQ=60)
ATTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGTTTCC > M01420:84:000000000‑ABVEH:1:2108:7051:9792/1‑51 (MQ=60)
ATTAATCCCGTCGGAGTGGCGCGGTACCTGGTAGCGGGCCATTTTGTTTCC > M01420:84:000000000‑ABVEH:1:2111:5406:18452/1‑51 (MQ=60)
|
CAGAACCTGATCTCCGCACACGGTAAAACCATCGTCGTTTACGGCACTCGTTAATCCCGTCGGAGTGGCGCGTTACCTGGTAGCGCGCCATTTTGTTTCC > NC_017635/3684562‑3684661
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
