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 |
|
A0 F0 I1 R1
|
155 |
25.8 |
2285122 |
88.0% |
2010907 |
104.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
2,308,233 |
(C)5→4 |
intergenic (+176/‑161) |
h16_B2050 → / → h16_B2051 |
response regulator containing a GGDEF effector domain/conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 2,308,229 | 0 | C | . | 100.0%
| 162.7
/ NA
| 36 | intergenic (+172/‑165) | h16_B2050/h16_B2051 | response regulator containing a GGDEF effector domain/conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (17/19); total (17/19) |
CCACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAGCCCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCCGCGCGGGCATGGGC > AM260480/2308103‑2308354
|
ccACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAGccccgcgc > 1:136953/1‑130 (MQ=255)
cAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCg < 2:764743/134‑1 (MQ=255)
cAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCg < 1:366303/134‑1 (MQ=255)
aaCCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGc < 2:136953/134‑1 (MQ=255)
aCCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGcc < 2:778725/134‑1 (MQ=255)
aCGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCg > 2:316400/1‑111 (MQ=255)
aCGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCg < 1:316400/111‑1 (MQ=255)
aGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGa > 1:653310/1‑133 (MQ=255)
cGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTg > 2:1101291/1‑133 (MQ=255)
ccTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATc > 2:456049/1‑134 (MQ=255)
tGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCg < 2:804009/89‑1 (MQ=255)
tGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCg > 1:804009/1‑89 (MQ=255)
tGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCt < 1:606851/75‑1 (MQ=255)
tGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCt > 2:606851/1‑75 (MQ=255)
ccggccCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGc < 2:487662/79‑1 (MQ=255)
ccggccCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGc > 1:487662/1‑79 (MQ=255)
ccggccCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGcaa > 1:348429/1‑134 (MQ=255)
ggccCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTg > 1:505204/1‑100 (MQ=255)
ggccCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTg < 2:505204/100‑1 (MQ=255)
ccccGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCaacaac < 1:1101291/134‑1 (MQ=255)
ccGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAacag < 2:653310/134‑1 (MQ=255)
gCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGtt > 2:271877/1‑93 (MQ=255)
gCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGtt < 1:271877/93‑1 (MQ=255)
cgcacgcacgcGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCt > 1:345605/1‑71 (MQ=255)
cgcacgcacgcGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCt < 2:345605/71‑1 (MQ=255)
cgcacgcacgcGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTgcg < 2:81767/115‑1 (MQ=255)
cgcacgcacgcGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTgcg > 1:81767/1‑115 (MQ=255)
aCCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGa > 1:28739/1‑134 (MQ=255)
ccGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCg > 2:125512/1‑51 (MQ=255)
ccGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCg < 1:125512/51‑1 (MQ=255)
gAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGccc > 1:984987/1‑134 (MQ=255)
tCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCcgcgc < 2:348429/134‑1 (MQ=255)
cGACAAGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATAc < 2:48098/48‑1 (MQ=38)
cGACAAGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATAc > 1:48098/1‑48 (MQ=255)
aCATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGcaa > 2:212483/1‑87 (MQ=255)
aCATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGcaa < 1:212483/87‑1 (MQ=255)
gATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCCGCGCGGGCATGGGc < 2:28739/134‑1 (MQ=255)
|
CCACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAGCCCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCCGCGCGGGCATGGGC > AM260480/2308103‑2308354
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTTACACACTGGCGGCCACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAGCCCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCCGCGCGGGCATGGGCCAGATCGTCTCTGACTCCTCCAAC > AM260480/2308088‑2308378
|
GTTACACACTGGCGGCCACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCC > GWNJ‑0478:712:GW2002102894th:2:1109:2752:34094/1‑150 (MQ=60)
gattagcgagtgtctcgtgggctcggagatgtgtataagagacagCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGT < GWNJ‑0478:712:GW2002102894th:2:2102:18406:15783/105‑1 (MQ=60)
aagagacaGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATAC < GWNJ‑0478:712:GW2002102894th:2:1202:10216:15715/142‑1 (MQ=60)
CCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATAC < GWNJ‑0478:712:GW2002102894th:2:1207:9583:21845/150‑1 (MQ=60)
ttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagCGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATAC < GWNJ‑0478:712:GW2002102894th:2:1108:20987:68371/81‑1 (MQ=60)
GGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGAC > GWNJ‑0478:712:GW2002102894th:2:2107:3946:8389/1‑149 (MQ=60)
gggctcggagatgtgtataagagacaGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTG < GWNJ‑0478:712:GW2002102894th:2:1116:13520:37185/124‑1 (MQ=60)
gagattagcgagtgtctcgtgggctcggagatgtgtataagagacaggctccgaatcgcatgtcggacaatTCCGACAAGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCG < GWNJ‑0478:712:GW2002102894th:2:1206:10725:90316/79‑1 (MQ=60)
GCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:2115:9963:42692/1‑121 (MQ=60)
CACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCctgtctcttatacacatctccgagcccacgagacactcgct > GWNJ‑0478:712:GW2002102894th:2:1213:5130:72918/1‑109 (MQ=60)
CACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAAC > GWNJ‑0478:712:GW2002102894th:2:1204:14608:13476/1‑150 (MQ=60)
CCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCctgtctcttatacacatctc > GWNJ‑0478:712:GW2002102894th:2:1212:15083:61348/1‑130 (MQ=60)
TGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCctgtctcttatacacatctccgagcccacgagacactcgctaacatcgt > GWNJ‑0478:712:GW2002102894th:2:1205:3284:96094/1‑101 (MQ=60)
TGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACctgtc > GWNJ‑0478:712:GW2002102894th:2:1107:19683:13475/1‑145 (MQ=60)
cgtgggctcggagatgtgtataagagacagTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAAC < GWNJ‑0478:712:GW2002102894th:2:1112:8262:37065/117‑1 (MQ=60)
GCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGC < GWNJ‑0478:712:GW2002102894th:2:2215:5427:2257/150‑1 (MQ=60)
ACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGAC > GWNJ‑0478:712:GW2002102894th:2:1103:14228:84756/1‑150 (MQ=60)
CGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCC > GWNJ‑0478:712:GW2002102894th:2:2207:19470:89693/1‑150 (MQ=60)
catgtcggacaatTCCGACAAGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaa > GWNJ‑0478:712:GW2002102894th:2:1102:13275:3585/14‑78 (MQ=60)
ggacaatTCCGACAAGCGATTCGGAG‑CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccggcttctgcttgaaaaaaaaaaggatacctgtatcttat > GWNJ‑0478:712:GW2002102894th:2:2202:9578:61626/8‑59 (MQ=59)
GCCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCCGCGCGGGCATGGGCCAGATCGTCTCTGACTCCTCCAAC < GWNJ‑0478:712:GW2002102894th:2:1210:16467:12995/150‑1 (MQ=60)
CCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCCGCGCctgtctcttatacacatctccgagcccacgagac > GWNJ‑0478:712:GW2002102894th:2:2114:20982:12791/1‑115 (MQ=60)
|
GTTACACACTGGCGGCCACCGGCCAACCGGGCCACCAGCCCGGCCAACGTCCCGCCAGGCCCCGCACCTGCGGGCCTGGCCGGCCCCGCCACGCACGCACGCGTCACCGCTTGTCGGAATTGTCCGACATGCGATTCGGAGCCCCCGCGCCTGTCTCGCCCCTGGGTTGATACCTATCGTTGCATCACGACAGGTGCAATCGCTGCGCCTGCAACAACAGACAGCCAACTGGCCACGCGACCGGCGCGCCCCCGCGCGGGCATGGGCCAGATCGTCTCTGACTCCTCCAAC > AM260480/2308088‑2308378
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
