Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007062.1 Hibiscus syriacus cultivar Beakdansim tig00018336_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 75399
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:3021 original size:16 final size:17
Alignment explanation
Indices: 3000--3035 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2990 AAAACGGTAA
*
3000 AAAGCGTAAA-GTAAAG
1 AAAGCGTAAATGAAAAG
3016 AAAGCGTAAATGAAAAG
1 AAAGCGTAAATGAAAAG
3033 AAA
1 AAA
3036 AATAACTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.61, C:0.06, G:0.22, T:0.11
Consensus pattern (17 bp):
AAAGCGTAAATGAAAAG
Found at i:4011 original size:22 final size:21
Alignment explanation
Indices: 3986--4031 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3976 TTCTTTAAAA
*
3986 TTTTCTTTTATCAAATCTTTTT
1 TTTTCTTTT-TCAAATCATTTT
* *
4008 TTTTGTTTTTCGAATCATTTT
1 TTTTCTTTTTCAAATCATTTT
4029 TTT
1 TTT
4032 CGTGGAACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTTCTTTTTCAAATCATTTT
Found at i:5508 original size:182 final size:181
Alignment explanation
Indices: 5272--5818 Score: 776
Period size: 182 Copynumber: 3.0 Consensus size: 181
5262 ACCCATTGAA
* * *
5272 ATAAGTATCCACACTTTTGGCATTTAAAAGAGAAGCA-ATAATAGCGCCTATAAAGTGTCGATAA
1 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGCAGA-AATAGCGCCTATAAAGTGTCGATAC
* * * **
5336 TTTATAAAAATTTATCGATCCATAACAATATAATAGGTAAAAATACGACAAAATCGGTCTTTAAA
65 TTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAA
*
5401 TTG-CAAAACCGGTAAAGCGCTATCAGATATGTTAAAAGTGTCAATACTTTAAT
130 -TGACAAAACCGGTAAAGCGCTA-CAGATATGTTAAAAGTGTCGATACTTTAAT
* *
5454 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGCAGAAATAGCGGCTATAAAGTGTAGATACT
1 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGCAGAAATAGCGCCTATAAAGTGTCGATACT
* *
5519 TTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAATTATGACAAAATCGGTCTCGAAAT
66 TTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAAT
* * * *
5584 GACAAAATCGGTAAAGCGTTACAGGATATGTTGAAAGGGTCGATACTTTAAT
131 GACAAAACCGGTAAAGCGCTACA-GATATGTTAAAAGTGTCGATACTTTAAT
* * * *
5636 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTGTAAAGTGTCCATTCT
1 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGCAGAAATAGCGCCTATAAAGTGTCGATACT
* *
5701 TTATAAAAATATATCAATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAAT
66 TTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAAT
** * *
5766 GACAAAACTAGTAAAGTGCTACCGGATATGTTGAAAA-TGTCGATACTTTAAT
131 GACAAAACCGGTAAAGCGCTA-CAGATATGTT-AAAAGTGTCGATACTTTAAT
5818 A
1 A
5819 AGTACACGTA
Statistics
Matches: 326, Mismatches: 34, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
181 4 0.01
182 317 0.97
183 5 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (181 bp):
ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGCAGAAATAGCGCCTATAAAGTGTCGATACT
TTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTCGAAAT
GACAAAACCGGTAAAGCGCTACAGATATGTTAAAAGTGTCGATACTTTAAT
Found at i:7663 original size:15 final size:16
Alignment explanation
Indices: 7632--7666 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
7622 TGGGACAGTT
*
7632 TGACCCAGTTATGACC
1 TGACCCAATTATGACC
7648 TGACCCAATT-TGACC
1 TGACCCAATTATGACC
7663 TGAC
1 TGAC
7667 TCGTTGACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (16 bp):
TGACCCAATTATGACC
Found at i:10190 original size:24 final size:24
Alignment explanation
Indices: 10162--10217 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
10152 GAATGTTTTA
* *
10162 TCTGATTTCCAATTTGAATTCTGT
1 TCTGATTTCCAATATGAATTCTAT
** *
10186 TCTGATTTCTGATATGGATTCTAT
1 TCTGATTTCCAATATGAATTCTAT
10210 TCTGATTT
1 TCTGATTT
10218 ATGATCTGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.52
Consensus pattern (24 bp):
TCTGATTTCCAATATGAATTCTAT
Found at i:10239 original size:24 final size:24
Alignment explanation
Indices: 10179--10270 Score: 96
Period size: 24 Copynumber: 3.8 Consensus size: 24
10169 TCCAATTTGA
* *
10179 ATTCTGTTCTGATTTCTGATATGG
1 ATTCTGTTCTGATTTATGATCTGG
*
10203 ATTCTATTCTGATTTATGATCTGG
1 ATTCTGTTCTGATTTATGATCTGG
* * *
10227 ATTCTGTTATGA-TAACTGATCTGA
1 ATTCTGTTCTGATTTA-TGATCTGG
* *
10251 ATTCTGTTTTGATTTCTGAT
1 ATTCTGTTCTGATTTATGAT
10271 ATCTTCGTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
23 2 0.04
24 53 0.95
25 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (24 bp):
ATTCTGTTCTGATTTATGATCTGG
Found at i:10246 original size:48 final size:48
Alignment explanation
Indices: 10179--10270 Score: 112
Period size: 48 Copynumber: 1.9 Consensus size: 48
10169 TCCAATTTGA
* ** *
10179 ATTCTGTTCTGATTTCTGATATGGATTCTATTCTGATTTATGATCTGG
1 ATTCTGTTATGATAACTGATATGAATTCTATTCTGATTTATGATCTGG
* * * *
10227 ATTCTGTTATGATAACTGATCTGAATTCTGTTTTGATTTCTGAT
1 ATTCTGTTATGATAACTGATATGAATTCTATTCTGATTTATGAT
10271 ATCTTCGTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 36 1.00
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (48 bp):
ATTCTGTTATGATAACTGATATGAATTCTATTCTGATTTATGATCTGG
Found at i:12299 original size:13 final size:13
Alignment explanation
Indices: 12281--12312 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12271 TTGGGGCAGT
12281 TTGACCCAACCCG
1 TTGACCCAACCCG
*
12294 TTGACCCGACCCG
1 TTGACCCAACCCG
12307 TTGACC
1 TTGACC
12313 GTTGCCGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.44, G:0.19, T:0.19
Consensus pattern (13 bp):
TTGACCCAACCCG
Found at i:12320 original size:13 final size:13
Alignment explanation
Indices: 12304--12355 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
12294 TTGACCCGAC
12304 CCGTTGACCGTTG
1 CCGTTGACCGTTG
12317 CCGTTGACCGCCGTTG
1 CCGTTGA---CCGTTG
*
12333 CCGTTAACCGTTG
1 CCGTTGACCGTTG
* *
12346 ACTTTGACCG
1 CCGTTGACCG
12356 AAAAAGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 20 0.62
16 12 0.38
ACGTcount: A:0.12, C:0.33, G:0.27, T:0.29
Consensus pattern (13 bp):
CCGTTGACCGTTG
Found at i:12332 original size:16 final size:16
Alignment explanation
Indices: 12311--12342 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12301 GACCCGTTGA
*
12311 CCGTTGCCGTTGACCG
1 CCGTTGCCGTTAACCG
12327 CCGTTGCCGTTAACCG
1 CCGTTGCCGTTAACCG
12343 TTGACTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.38, G:0.28, T:0.25
Consensus pattern (16 bp):
CCGTTGCCGTTAACCG
Found at i:12343 original size:23 final size:23
Alignment explanation
Indices: 12304--12347 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
12294 TTGACCCGAC
*
12304 CCGTTGACCGTTGCCGTTGACCG
1 CCGTTGACCGTTACCGTTGACCG
12327 CCGTTG-CCGTTAACCGTTGAC
1 CCGTTGACCGTT-ACCGTTGAC
12348 TTTGACCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.11, C:0.34, G:0.27, T:0.27
Consensus pattern (23 bp):
CCGTTGACCGTTACCGTTGACCG
Found at i:13062 original size:24 final size:24
Alignment explanation
Indices: 12954--13062 Score: 121
Period size: 24 Copynumber: 4.5 Consensus size: 24
12944 GAATGTTTTA
** * *
12954 TCTGATTTCCAATTTGAATTTTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
12978 TCTGATTTCTTATCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
13002 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
* *
13026 TATGATATT-TGATCTGAATTTTGT
1 TCTGAT-TTCTGATCTGAATTCTGT
*
13050 TTTGATTTCTGAT
1 TCTGATTTCTGAT
13063 ATCTTCGTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
23 2 0.03
24 69 0.95
25 2 0.03
ACGTcount: A:0.18, C:0.12, G:0.16, T:0.54
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:20028 original size:199 final size:199
Alignment explanation
Indices: 19174--20518 Score: 1863
Period size: 199 Copynumber: 6.8 Consensus size: 199
19164 ATCGATATTT
* * * * *
19174 TTTAAAATTGAATCGATACCAAAAACATCAAAACCGATAATTATAATGTAATAGGTAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTACAATGTAATAGGTAAATTTACA
* *
19239 ATGTAACCGGTATAAATATACC-GATTTTATGAGAGAATAGGTCAACATAATGCATCGACACTTT
66 ATGTAACCGGTATAAATATACCAG-TTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTT
* * * * * *
19303 TTAAATTTGTGTCGATCCATTTTT-TCCAGAATTAATGCCAAACTAGGTGCACTCATAAAGTGTT
130 TGAAATTTGTGTCGATAC-TTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTC
19367 GATACA
194 GATACA
19373 TTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTACAATGTAATAGGTAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTACAATGTAATAGGTAAATTTACA
* ** * * * *
19438 ATGTAACCAGTATAAATATATTAGTATTAGGAGAGAATAGGTCTACATAATGTAGCGATACTTTT
66 ATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTT
* * * *
19503 GAAATTTGTGTTGA-ACTTTTCGTCAAAAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGA
131 GAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGA
19567 TACA
196 TACA
* *
19571 TTTAAAATTGTATCGATCCCAAAAACATCAAAACTGATAATTACAATATAATAGGTAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTACAATGTAATAGGTAAATTTACA
* * * * * *
19636 GTGTAACCGATATAAATATACCAATTTTATGAGATAATAGGTCTACAGAATGTATCGACAGTTTT
66 ATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTT
* *
19701 GAAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAATGTTTCGA
131 GAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGA
19765 TACA
196 TACA
* * *
19769 TTTAAAATTGCATCTATCCCAAAAACATCGAAACTGATAATTACAATGTAATAGATAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTACAATGTAATAGGTAAATTTACA
* *
19834 ATGTAACCGGTATAAATATACCAGTTTTGTGAGAGAATAGGTCTACAGAATGTATCGACACTTTT
66 ATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTT
* * * *
19899 GAATTTTGTGTCGATACTTTTTGACCAGAATGAATGATAAACTAGGTGCACGCATAAAGTGCCGA
131 GAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGA
19964 TACA
196 TACA
* * ** *
19968 TTTAAAATTGTATCGATCCCATAAACATCGAAACTAATAATTACAATGTAATACATAAATTTATA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTACAATGTAATAGGTAAATTTACA
* *
20033 ATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTACATAATGTATCGACACTTTT
66 ATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTT
* * * * * * *
20098 GAAATTTATGTCGATGCATTTTGTCTAGAATGAATGCCAAAGTAGGTGCACACATAAAGTGTCGA
131 GAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGA
20163 TACA
196 TACA
* * * * *
20167 TTTAAAATTATATCGATCCCAAAAAGATTGAAATTGATAATTACAATGTAATATGTAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTACAATGTAATAGGTAAATTTACA
* * * * *
20232 ATGTAACTGGTATAAATATACCAGTTTTATAAGAGAATAGATCTACAGAATGTATCAACACTTTT
66 ATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTT
* * * *
20297 GAAAATTGTGTCAATACTTTTTGTCCATAATGAATGACAAACTAGGTGCACGTATAAAGTGTCGA
131 GAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGA
20362 TACA
196 TACA
* * * *
20366 TTTAAAATTGTATCAATCCCAAAAACATCAAAACTGATAATTACAATGTAATAGGTAAATTGATA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTACAATGTAATAGGTAAATTTACA
* * * * * *
20431 ATGTAATCGGTAGAAATATA-CTGATTTTATGAGAAAATATGTCTACATAATGTATCAACACTTT
66 ATGTAACCGGTATAAATATACCAG-TTTTATGAGAGAATAGGTCTACATAATGTATCGACAC-TT
* * *
20495 TTAAAATTTGTGTAGATATTTTTT
129 TTGAAATTTGTGTCGATACTTTTT
20519 TTAAAATTAC
Statistics
Matches: 1007, Mismatches: 133, Indels: 11
0.87 0.12 0.01
Matches are distributed among these distances:
197 4 0.00
198 352 0.35
199 629 0.62
200 22 0.02
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (199 bp):
TTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTACAATGTAATAGGTAAATTTACA
ATGTAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTT
GAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGA
TACA
Found at i:22033 original size:6 final size:6
Alignment explanation
Indices: 22009--22060 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
21999 CAAGCGCTCA
* * * *
22009 ATGAAG ATGACA- ATAAAG ATGAAG ATGAAG ATGATG ATGATG ATGACG
1 ATGAAG ATGA-AG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
22057 ATGA
1 ATGA
22061 TCCAAATGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
5 1 0.03
6 38 0.95
7 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.29, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:23472 original size:24 final size:24
Alignment explanation
Indices: 23434--23485 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
23424 TTCCATGTTC
23434 ATTTCATATTTAATTGGAGTTTGA
1 ATTTCATATTTAATTGGAGTTTGA
*
23458 ATTTCA-ATTTCAATTTGAGTTTGA
1 ATTTCATATTT-AATTGGAGTTTGA
23482 ATTT
1 ATTT
23486 TAATATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (24 bp):
ATTTCATATTTAATTGGAGTTTGA
Found at i:23496 original size:24 final size:24
Alignment explanation
Indices: 23445--23497 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
23435 TTTCATATTT
* * *
23445 AATTGGAGTTTGAATTTCAATTTC
1 AATTTGAGTTTGAATTTCAATATA
*
23469 AATTTGAGTTTGAATTTTAATATA
1 AATTTGAGTTTGAATTTCAATATA
23493 AATTT
1 AATTT
23498 TGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTCAATATA
Found at i:25683 original size:199 final size:199
Alignment explanation
Indices: 25035--26176 Score: 1482
Period size: 199 Copynumber: 5.8 Consensus size: 199
25025 GTAAACAAAT
* * *
25035 GTGTCAATACATTTAAAATTGTATCGATCCCAAAAACATCGAAATTGATAATTATGATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGTAATAG
* * * * * * * * **
25100 GTAAATTTACAATGTAACTGGTATAAATATACCAGTTTTATGAGAGATTAGGTTTACCGAATGTA
66 GTAACTTTACAATGTAACCGGTAGAAATATACCGGTTATATGAGAAAATAGGTCTACATAATGTA
* * * * * * * * * *
25165 TCGACGCTTTTGAAATTTATGTTGATACGTTTTCTCTAGAATGAATGACAAACTAGGT-TCACGC
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGT-ACGC
25229 ATAAA
195 ATAAA
* *
25234 GTGTCGATACATTTAAAATTGTATCGATCCTAAAAACATCAAAACTGATAATTATAATGTAATAG
1 GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGTAATAG
* * * *
25299 GTAACTTTACAATGTAACCGGTAGAAATATACTGATTATATTAGAAAATAAGTCTACATAATGTA
66 GTAACTTTACAATGTAACCGGTAGAAATATACCGGTTATATGAGAAAATAGGTCTACATAATGTA
* * *
25364 TCGACA-TTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGCCCAATGAGGTGCACGCA
131 TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGTACGCA
25428 TAAA
196 TAAA
* * *
25432 TTGCCGATACATTTAAAATTGTATCGAT-CCAGAAAACATCAAAACTGATAATTATAATGTAATA
1 GTGTCGATACATTTAAAATTGTATCGATCCCA-AAAACATCGAAACTGATAATTATAATGTAATA
25496 GGTAACTTTACAATGTAACCGGTAGAAATATACCGGTTATATGAGAAAATAGGTCTACATAATGT
65 GGTAACTTTACAATGTAACCGGTAGAAATATACCGGTTATATGAGAAAATAGGTCTACATAATGT
* * *
25561 ATTGACACTTTTTAAATTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAACGAGGTGTATGC
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGTACGC
25626 ATAAA
195 ATAAA
* * * *
25631 GTATCGATACATTTAAAATTGTATCAAT-CCAGAAAACATCGAAACCGATAATTAAAATGTAATA
1 GTGTCGATACATTTAAAATTGTATCGATCCCA-AAAACATCGAAACTGATAATTATAATGTAATA
* * *
25695 GGTAACTTTACAATGTAACCGGTAGAGATATACTGGTTTTATGAGAAAATAGGTCTACATAATGT
65 GGTAACTTTACAATGTAACCGGTAGAAATATACCGGTTATATGAGAAAATAGGTCTACATAATGT
* * * * *
25760 ATCAACACTTTTTAAATTTGTGTTGATATTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAAGC
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGTACGC
25825 ATAAA
195 ATAAA
*
25830 GTGT-GCATACATTTAAAATTGTATCGATCCCAAAAACACCGAAACTGATAATTATAATGTAATA
1 GTGTCG-ATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGTAATA
*
25894 GGTAACTTTACAATGTAACCGGTAGAAATATACCGGTTA-ATTAGAAAATAGGTC-AGCATAATG
65 GGTAACTTTACAATGTAACCGGTAGAAATATACCGGTTATATGAGAAAATAGGTCTA-CATAATG
* * * *
25957 TATTGATA-TTTTTAAAATTGTTGTCGATAC--TTTGTCCAGAATGAAAG-CCACACGAGGTGTA
129 TATCGACACTTTTTAAATTTG-TGTCGATACTTTTTGTCCAGAATGAATGCCCA-ACGAGGTGTA
*
26018 CACATAAA
192 CGCATAAA
* * * ** *
26026 GTGTCGATACATTTATTAAA-AGTATTGATCCCAAAAACATTGAAACCCATAATTATAATGTATT
1 GTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGTAAT
* * *
26090 AGGTAAATTTACAATGTAACCGGTAGAAATATACCGG-TATAATTAGAAAATAGGTCAACATAAT
64 AGGTAACTTTACAATGTAACCGGTAGAAATATACCGGTTAT-ATGAGAAAATAGGTCTACATAAT
* * *
26154 ATTTCGACACTTTTAAAATTTGT
128 GTATCGACACTTTTTAAATTTGT
26177 ATCAATATTT
Statistics
Matches: 834, Mismatches: 94, Indels: 31
0.87 0.10 0.03
Matches are distributed among these distances:
195 3 0.00
196 46 0.06
197 88 0.11
198 239 0.29
199 455 0.55
200 3 0.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (199 bp):
GTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGTAATAG
GTAACTTTACAATGTAACCGGTAGAAATATACCGGTTATATGAGAAAATAGGTCTACATAATGTA
TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGTACGCA
TAAA
Found at i:25942 original size:397 final size:394
Alignment explanation
Indices: 25041--26176 Score: 1525
Period size: 397 Copynumber: 2.9 Consensus size: 394
25031 AAATGTGTCA
* * *
25041 ATACATTTAAAATTGTATCGATCCCAAAAACATCGAAATTGATAATTATGATGTAATAGGTAAAT
1 ATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAACT
* * * * * * * ** * *
25106 TTACAATGTAACTGGTATAAATATACCAGTTTTATGAGAGATTAGGTTTACCGAATGTATCGACG
66 TTACAATGTAACCGGTAGAAATATACC-GGTTAATGAGAAAATAGGTCTACATAATGTATTGACA
* * * * * *
25171 CTTTTGAAATTTATGTTGATACGTTTTCTCTAGAATGAATGACAAACTAGGT-TCACGCATAAAG
130 CTTTTTAAATTTGTGTCGATAC-TTTTGTCTAGAATGAATG-CCAACGAGGTGT-ACGCATAAAG
* *
25235 TGTCGATACATTTAAAATTGTATCGATCCTAAAAACATCAAAACTGATAATTATAATGTAATAGG
192 TGTCGATACATTTAAAATTGTATCGATCC-AAAAACATCGAAACCGATAATTATAATGTAATAGG
* * *
25300 TAACTTTACAATGTAACCGGTAGAAATATACTGATTATATTAGAAAATAAGTCTACATAATGTAT
256 TAACTTTACAATGTAACCGGTAGAAATATACTGGTTTTATTAGAAAATAGGTCTACATAATGTAT
* *
25365 CGACA-TTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGCCCAATGAGGTGCACGCAT
321 CGACACTTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGCCCAACGAGGTGCAAGCAT
25429 AAATTGCCG
386 AAATTGCCG
*
25438 ATACATTTAAAATTGTATCGAT-CCAGAAAACATCAAAACTGATAATTATAATGTAATAGGTAAC
1 ATACATTTAAAATTGTATCGATCCCA-AAAACATCGAAACTGATAATTATAATGTAATAGGTAAC
25502 TTTACAATGTAACCGGTAGAAATATACCGGTTATATGAGAAAATAGGTCTACATAATGTATTGAC
65 TTTACAATGTAACCGGTAGAAATATACCGGTTA-ATGAGAAAATAGGTCTACATAATGTATTGAC
*
25567 ACTTTTTAAATTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAACGAGGTGTATGCATAAAG
129 ACTTTTTAAATTTGTGTCGATAC-TTTTGTCTAGAATGAATG-CCAACGAGGTGTACGCATAAAG
* * *
25632 TATCGATACATTTAAAATTGTATCAATCCAGAAAACATCGAAACCGATAATTAAAATGTAATAGG
192 TGTCGATACATTTAAAATTGTATCGATCCA-AAAACATCGAAACCGATAATTATAATGTAATAGG
* *
25697 TAACTTTACAATGTAACCGGTAGAGATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTAT
256 TAACTTTACAATGTAACCGGTAGAAATATACTGGTTTTATTAGAAAATAGGTCTACATAATGTAT
* * * *
25762 CAACACTTTTTAAATTTGTGTTGATATTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAAGCAT
321 CGACACTTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGCCCAACGAGGTGCAAGCAT
25827 AAAGTGTG-C-
386 AAA-T-TGCCG
*
25836 ATACATTTAAAATTGTATCGATCCCAAAAACACCGAAACTGATAATTATAATGTAATAGGTAACT
1 ATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAACT
* *
25901 TTACAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTC-AGCATAATGTATTGATA
66 TTACAATGTAACCGGTAGAAATATACCGGTTAATGAGAAAATAGGTCTA-CATAATGTATTGACA
* * * *
25965 -TTTTTAAAATTGTTGTCGATAC-TTTGTCCAGAATGAAAGCCACACGAGGTGTACACATAAAGT
130 CTTTTTAAATTTG-TGTCGATACTTTTGTCTAGAATGAATGCCA-ACGAGGTGTACGCATAAAGT
* * * * *
26028 GTCGATACATTTATTAAA-AGTATTGATCCCAAAAACATTGAAACCCATAATTATAATGTATTAG
193 GTCGATACATTTA--AAATTGTATCGAT-CCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * * * * * *
26092 GTAAATTTACAATGTAACCGGTAGAAATATACCGGTATAATTAGAAAATAGGTCAACATAATATT
255 GTAACTTTACAATGTAACCGGTAGAAATATACTGGTTTTATTAGAAAATAGGTCTACATAATGTA
*
26157 TCGACACTTTTAAAATTTGT
320 TCGACACTTTTTAAATTTGT
26177 ATCAATATTT
Statistics
Matches: 657, Mismatches: 68, Indels: 29
0.87 0.09 0.04
Matches are distributed among these distances:
394 3 0.00
395 45 0.07
396 128 0.19
397 325 0.49
398 149 0.23
399 5 0.01
400 2 0.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (394 bp):
ATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAACT
TTACAATGTAACCGGTAGAAATATACCGGTTAATGAGAAAATAGGTCTACATAATGTATTGACAC
TTTTTAAATTTGTGTCGATACTTTTGTCTAGAATGAATGCCAACGAGGTGTACGCATAAAGTGTC
GATACATTTAAAATTGTATCGATCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAACT
TTACAATGTAACCGGTAGAAATATACTGGTTTTATTAGAAAATAGGTCTACATAATGTATCGACA
CTTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGCCCAACGAGGTGCAAGCATAAATT
GCCG
Found at i:28506 original size:23 final size:23
Alignment explanation
Indices: 28458--28507 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
28448 ACCTACTTTA
* *
28458 TTATATAAGTGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
28481 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
28504 TTAT
1 TTAT
28508 TGTGCTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:28600 original size:158 final size:158
Alignment explanation
Indices: 28312--28853 Score: 913
Period size: 158 Copynumber: 3.4 Consensus size: 158
28302 AGTAAGTAAT
* * * * *
28312 TACCTATTATGTTACATAAGCTCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTA
1 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAAATA
28377 ACCGATTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
66 ACCGATTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
* *
28442 TAATTAACCTACTTTATTATATAAGTGC
131 TAATTAACCTATTTTATTATATAAGCGC
28470 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAAATA
1 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAAATA
* *
28535 ACCGATTATGTTATCCTTGGTAACATTTTTGGCGTTTACCTAATATGTTGTAATAAAAAATTAAG
66 ACCGATTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
*
28600 TAATTAACCTATTTTATTATATAAACGC
131 TAATTAACCTATTTTATTATATAAGCGC
* * *
28628 TACCTATTACGTTATATAAACGCTACCTAGTATATTATTGTGCTTGATAATGTTTCCAGTAAATA
1 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAAATA
* *
28693 ACCGTTTATGTTATCCTTGGTAACATTTTAGGCATTTACCTAATATGTTGTAATAACAAATTAAG
66 ACCGATTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
28758 TAATTAACCTATTTTATTATATAAGCGC
131 TAATTAACCTATTTTATTATATAAGCGC
* * * *
28786 TACCTATTACGTTATATAAGCGCTACCTAATATGCTATTGTGCTTGATAATGTGTGCAGTAATTA
1 TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAAATA
28851 ACC
66 ACC
28854 TATTTTATTA
Statistics
Matches: 359, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
158 359 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (158 bp):
TACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAGTAAATA
ACCGATTATGTTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAG
TAATTAACCTATTTTATTATATAAGCGC
Found at i:28632 original size:23 final size:23
Alignment explanation
Indices: 28606--28665 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
28596 TAAGTAATTA
*
28606 ACCTATTTTATTATATAAACGCT
1 ACCTATTATATTATATAAACGCT
**
28629 ACCTATTACGTTATATAAACGCT
1 ACCTATTATATTATATAAACGCT
*
28652 ACCTAGTATATTAT
1 ACCTATTATATTAT
28666 TGTGCTTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (23 bp):
ACCTATTATATTATATAAACGCT
Found at i:28790 original size:23 final size:23
Alignment explanation
Indices: 28764--28814 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
28754 TAAGTAATTA
**
28764 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
28787 ACCTATTACGTTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
28810 ACCTA
1 ACCTA
28815 ATATGCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:28886 original size:23 final size:23
Alignment explanation
Indices: 28851--28901 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
28841 GCAGTAATTA
**
28851 ACCTATTTTATTATATAAGCGCT
1 ACCTATTAGATTATATAAGCGCT
*
28874 ACCTATTAGATTATATAAGCGGT
1 ACCTATTAGATTATATAAGCGCT
28897 ACCTA
1 ACCTA
28902 ATATGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (23 bp):
ACCTATTAGATTATATAAGCGCT
Found at i:28902 original size:87 final size:87
Alignment explanation
Indices: 28756--28923 Score: 293
Period size: 87 Copynumber: 1.9 Consensus size: 87
28746 TAACAAATTA
28756 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACGTTATATAAGCGCTACCTAATATGC
1 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACGTTATATAAGCGCTACCTAATATGC
*
28821 TATTGTGCTTGATAATGTGTGC
66 TATTGTACTTGATAATGTGTGC
*
28843 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTA-GATTATATAAGCGGTACCTAATATG
1 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACG-TTATATAAGCGCTACCTAATATG
*
28907 TTATTGTACTTGATAAT
65 CTATTGTACTTGATAAT
28924 ATTTTCGGTT
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
86 1 0.01
87 76 0.99
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (87 bp):
AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACGTTATATAAGCGCTACCTAATATGC
TATTGTACTTGATAATGTGTGC
Found at i:37579 original size:17 final size:17
Alignment explanation
Indices: 37547--37589 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
37537 CTTCCCTTTC
* * *
37547 TTTGAGATAAATTCTCT
1 TTTGAGAAAAACTCTCG
37564 TTTGAGAAAAACTCTCG
1 TTTGAGAAAAACTCTCG
*
37581 TTCGAGAAA
1 TTTGAGAAA
37590 CAAACACTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (17 bp):
TTTGAGAAAAACTCTCG
Found at i:46941 original size:32 final size:32
Alignment explanation
Indices: 46845--46992 Score: 129
Period size: 32 Copynumber: 4.6 Consensus size: 32
46835 GTGGTATTAA
* *
46845 TGTCGCATTCAGGTAATGCACAACAAT-TTCAG
1 TGTCGCATTCAGATAATGCACAATAATGTT-AG
* * * * * * *
46877 GGTCGTATTTAGAAAATGTA-ACGTAATATTAG
1 TGTCGCATTCAGATAATGCACA-ATAATGTTAG
*
46909 TGTCGCATTCATATAATGCACAATAATGTTAG
1 TGTCGCATTCAGATAATGCACAATAATGTTAG
* * *
46941 TGTCGCATTCAGATAATGTACAATAGTGTCAG
1 TGTCGCATTCAGATAATGCACAATAATGTTAG
* *
46973 GGTCGGATTCAGATAATGCA
1 TGTCGCATTCAGATAATGCA
46993 TAGCAGTTTC
Statistics
Matches: 90, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
31 1 0.01
32 86 0.96
33 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (32 bp):
TGTCGCATTCAGATAATGCACAATAATGTTAG
Found at i:46959 original size:64 final size:64
Alignment explanation
Indices: 46839--46960 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
46829 TGCACAGTGG
* * *
46839 TATTAATGTCGCATTCAGGTAATGCACAACAATTTCAGGGTCGTATTTAGAAAATGTAACGTAA
1 TATTAATGTCGCATTCAGATAATGCACAACAATTTCAGGGTCGCATTCAGAAAATGTAACGTAA
* * * * *
46903 TATTAGTGTCGCATTCATATAATGCACAATAATGTT-AGTGTCGCATTCAGATAATGTA
1 TATTAATGTCGCATTCAGATAATGCACAACAAT-TTCAGGGTCGCATTCAGAAAATGTA
46961 CAATAGTGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 47 0.96
65 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (64 bp):
TATTAATGTCGCATTCAGATAATGCACAACAATTTCAGGGTCGCATTCAGAAAATGTAACGTAA
Found at i:48577 original size:32 final size:32
Alignment explanation
Indices: 48540--48600 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
48530 TTATTTTAAA
*
48540 TATAAATATAAACATTATTTTGATGCAAAAAC
1 TATAAATATAAACATCATTTTGATGCAAAAAC
* * *
48572 TATAAATATGAACATCGTTTTGCTGCAAA
1 TATAAATATAAACATCATTTTGATGCAAA
48601 TAATTGTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (32 bp):
TATAAATATAAACATCATTTTGATGCAAAAAC
Found at i:48660 original size:41 final size:41
Alignment explanation
Indices: 48572--48664 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 41
48562 ATGCAAAAAC
* * *
48572 TATAAATATGAACATCGTTTTGCTGCAAATAATTGTTTTAAG
1 TATAAATATG-ACATCATTTTGCTGCAAATAAGTATTTTAAG
* * *
48614 -GTAAATATGACATTATTTTGGTGCAAATAAGTATTTTAAG
1 TATAAATATGACATCATTTTGCTGCAAATAAGTATTTTAAG
48654 TATAAATATGA
1 TATAAATATGA
48665 AAACTATTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 26 0.60
41 17 0.40
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (41 bp):
TATAAATATGACATCATTTTGCTGCAAATAAGTATTTTAAG
Found at i:48683 original size:42 final size:40
Alignment explanation
Indices: 48595--48684 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
48585 ATCGTTTTGC
* * * * * * *
48595 TGCAAATAATTGTTTTAAGGTAAATATGACATTATTTTGG
1 TGCAAATAAGTATTTTAAGATAAATATGAAACTATTTAGA
48635 TGCAAATAAGTATTTTAAGTATAAATATGAAAACTATTTAGA
1 TGCAAATAAGTATTTTAAG-ATAAATATG-AAACTATTTAGA
48677 TGCAAATA
1 TGCAAATA
48685 TGAACATTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 17 0.41
41 8 0.20
42 16 0.39
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (40 bp):
TGCAAATAAGTATTTTAAGATAAATATGAAACTATTTAGA
Found at i:53510 original size:20 final size:20
Alignment explanation
Indices: 53485--53526 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
53475 GTGGATTTGG
53485 TGTTGTTTGCACGATTTTAA
1 TGTTGTTTGCACGATTTTAA
53505 TGTTGTTTGCACGATTTTAA
1 TGTTGTTTGCACGATTTTAA
53525 TG
1 TG
53527 ATGCTAGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.10, G:0.21, T:0.50
Consensus pattern (20 bp):
TGTTGTTTGCACGATTTTAA
Found at i:53747 original size:20 final size:21
Alignment explanation
Indices: 53694--53755 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
53684 CCAGAACCCC
53694 AGGGGGTATCGATTCCCCTTCAA
1 AGGGGGTATCGATT-CCC-TCAA
* *
53717 AGGGGGAATCGGTTCCCTC-A
1 AGGGGGTATCGATTCCCTCAA
*
53737 TGGGGGTATCGATTCCCTC
1 AGGGGGTATCGATTCCCTC
53756 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 12 0.35
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.26
Consensus pattern (21 bp):
AGGGGGTATCGATTCCCTCAA
Found at i:57598 original size:22 final size:21
Alignment explanation
Indices: 57556--57595 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
57546 GAGTTTATTT
*
57556 TCATTTTTAAATTTTGAAACA
1 TCATTTTTAAATTTTAAAACA
*
57577 TCATTTTTATATTTTAAAA
1 TCATTTTTAAATTTTAAAA
57596 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTAAATTTTAAAACA
Found at i:60311 original size:21 final size:21
Alignment explanation
Indices: 60287--60329 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
60277 TATAAACCTA
60287 AGTATAATCTCTTCAATAATG
1 AGTATAATCTCTTCAATAATG
60308 AGTATAATCTCTTCAATAATG
1 AGTATAATCTCTTCAATAATG
60329 A
1 A
60330 TTTAACATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (21 bp):
AGTATAATCTCTTCAATAATG
Found at i:61119 original size:115 final size:116
Alignment explanation
Indices: 60913--61134 Score: 351
Period size: 115 Copynumber: 1.9 Consensus size: 116
60903 TCGAGGCAAC
* * *
60913 AATAGTGGCATTTTTTTGAAAAAACGTCGCAATAGGTCCATCTATAGTGGTGTTTATTGGAAAAA
1 AATAATGGCATTTTTTTAAAAAAACGTCGCAATAGGTCCATCTATAGTGGCGTTTATTGGAAAAA
60978 CGCCACTATATATATACTTTGTTGGGG-C-ATTTTTTGGGGCCTGCACAAT
66 CGCCACTATATATATACTTTGTTGGGGCCTATTTTTTGGGGCCTGCACAAT
61027 AATAATGGCATTTTTTTAAAAAAAAACGTCGCAAT-GGTCCATCTATAGTGGCGTTTATTGGAAA
1 AATAATGGCATTTTTTT--AAAAAAACGTCGCAATAGGTCCATCTATAGTGGCGTTTATTGGAAA
* *
61091 AATGCCACTATATATATACTTTTTTGGGGCCCTATTTTTTGGGG
64 AACGCCACTATATATATACTTTGTTGGGG-CCTATTTTTTGGGG
61135 GCCCTGCGCG
Statistics
Matches: 98, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
114 16 0.16
115 55 0.56
116 15 0.15
117 1 0.01
118 11 0.11
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (116 bp):
AATAATGGCATTTTTTTAAAAAAACGTCGCAATAGGTCCATCTATAGTGGCGTTTATTGGAAAAA
CGCCACTATATATATACTTTGTTGGGGCCTATTTTTTGGGGCCTGCACAAT
Found at i:61130 original size:15 final size:16
Alignment explanation
Indices: 61110--61139 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61100 ATATATATAC
61110 TTTTTT-GGGGCCCTA
1 TTTTTTGGGGGCCCTA
61125 TTTTTTGGGGGCCCT
1 TTTTTTGGGGGCCCT
61140 GCGCGGTCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.03, C:0.20, G:0.30, T:0.47
Consensus pattern (16 bp):
TTTTTTGGGGGCCCTA
Found at i:62522 original size:131 final size:130
Alignment explanation
Indices: 62287--62583 Score: 378
Period size: 131 Copynumber: 2.3 Consensus size: 130
62277 GAAAAACAAA
* * * * * *
62287 AATATTTAATTATTTCCAATCGATAATAAATTACCTTTCATACCTTAAAACAATCATTTATTACT
1 AATATCTAATTATTTCCAATTGAGAATAAATGACCTCTCATACATTAAAACAATCATTTATTACT
* * * * * * *
62352 CCAATAGAAATGAAGAGATATTACTATTTCATCTTAAAATTCATTATCGATTCGAGTGAAAACGA
66 CCAATAGAAATGAAGAGATATCACTATTCCAT-ATAAAAATCAATATCAATTCGAGAGAAAACGA
62417 T
130 T
* * * * *
62418 AATATCTAATGATTTCCAATTGAGAATGAATGACCTCTCATACATTAAAGCATTCATTTATTGCT
1 AATATCTAATTATTTCCAATTGAGAATAAATGACCTCTCATACATTAAAACAATCATTTATTACT
* * *
62483 CCAATAGAAATGAAGAGATATCACTATTCCATATAAAAATCAATATTAATTCGAGAGAGAATGAT
66 CCAATAGAAATGAAGAGATATCACTATTCCATATAAAAATCAATATCAATTCGAGAGAAAACGAT
* *
62548 AACATCGAATTATTTCCAATTGAGAATAAATGACCT
1 AATATCTAATTATTTCCAATTGAGAATAAATGACCT
62584 TTATGCCTTA
Statistics
Matches: 141, Mismatches: 25, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
130 57 0.40
131 84 0.60
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (130 bp):
AATATCTAATTATTTCCAATTGAGAATAAATGACCTCTCATACATTAAAACAATCATTTATTACT
CCAATAGAAATGAAGAGATATCACTATTCCATATAAAAATCAATATCAATTCGAGAGAAAACGAT
Found at i:64587 original size:3 final size:3
Alignment explanation
Indices: 64574--64612 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
64564 GGCAATAACT
64574 ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
64613 GGATGAAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:64973 original size:134 final size:134
Alignment explanation
Indices: 64808--65118 Score: 392
Period size: 134 Copynumber: 2.3 Consensus size: 134
64798 TTCAGGGAAT
* * * **
64808 ATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTTGAAAGAGAGGGATT
1 ATTGAATCAAGGAAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTTAAAAGAGAGGGACA
* * * ** * *
64873 TGTTTCACTTTTTCTTGAGGGATAATCAGATATGGGGATGTCAATTTATTCCTCTATTCTTCA-G
66 TGTTTCACTTCTTCTTGAGGGAAAATCAAATATGAAGACGTCAATTTATTCCACTATTCTTCATG
64937 TAAAG
131 -AAAG
* **
64942 ATTGAATCAAGGAAGAATTGTTCCACTGTTACTCAGGGAATTTCAAATCTTAAAAGAGAGGGACA
1 ATTGAATCAAGGAAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTTAAAAGAGAGGGACA
* ** *
65007 TGTTTCTCTTCTTCTTGAGGGAAAATCAAATATGAAGACGTTGATTTATTCCACTGTTCTTCATG
66 TGTTTCACTTCTTCTTGAGGGAAAATCAAATATGAAGACGTCAATTTATTCCACTATTCTTCATG
*
65072 GAAG
131 AAAG
* *
65076 ATTAAATCAAGGAAGACTTGTTCCGCTGTT-CTTCAGGGAAGAT
1 ATTGAATCAAGGAAGACTTGTTCCACTGTTAC-TCAGGGAAGAT
65119 TGAATCAAGG
Statistics
Matches: 150, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
133 1 0.01
134 148 0.99
135 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (134 bp):
ATTGAATCAAGGAAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTTAAAAGAGAGGGACA
TGTTTCACTTCTTCTTGAGGGAAAATCAAATATGAAGACGTCAATTTATTCCACTATTCTTCATG
AAAG
Found at i:65105 original size:41 final size:41
Alignment explanation
Indices: 65055--65139 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
65045 CGTTGATTTA
* *
65055 TTCCACTGTTCTTCATGGAAGATTAAATCAAGGAAGACTTG
1 TTCCACTGTTCTTCAGGGAAGATTAAATCAAGGAACACTTG
* * *
65096 TTCCGCTGTTCTTCAGGGAAGATTGAATCAAGGCACACTTG
1 TTCCACTGTTCTTCAGGGAAGATTAAATCAAGGAACACTTG
65137 TTC
1 TTC
65140 TACTATTACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (41 bp):
TTCCACTGTTCTTCAGGGAAGATTAAATCAAGGAACACTTG
Found at i:65235 original size:175 final size:175
Alignment explanation
Indices: 64929--65274 Score: 424
Period size: 175 Copynumber: 2.0 Consensus size: 175
64919 TATTCCTCTA
* * * ** *
64929 TTCTTCAGTAAAGATTGAATCAAGGAAGAATTGTTCCACTGTTACTCAGGGAATTTCAAATCTTA
1 TTCTTCAGGAAAGATTGAATCAAGGAACAATTGTTCCACTATTACTCAAAGAATATCAAATCTTA
* * * * *
64994 AAAGAGAGGGACATGTTTCTCTTCTTCTTGAGGGAAAATCAAATATGAAGACGTTGATTTATTCC
66 AAAGAGAGGGACATATTCCGCTTCTTCTTGAGGGAAAATCAAATATGAAGACATTGATTCATTCC
*
65059 ACTGTTCTTCATGGAAGATTAAATCAAGGAAGACTTGTTCCGCTG
131 ACTGTTCTTCAGGGAAGATTAAATCAAGGAAGACTTGTTCCGCTG
* * * * * *
65104 TTCTTCAGGGAAGATTGAATCAAGGCACACTTGTTCTACTATTACTCAAAGAATATCAATTCTTG
1 TTCTTCAGGAAAGATTGAATCAAGGAACAATTGTTCCACTATTACTCAAAGAATATCAAATCTTA
* * * * * *
65169 AAAGAGATGGATC-TATTCCGCTTCTTTTTTAGGGAAAATCAAATCTGAGGACATTTATTCATTC
66 AAAGAGAGGGA-CATATTCCGCTTCTTCTTGAGGGAAAATCAAATATGAAGACATTGATTCATTC
* * * *
65233 CACTGTTCTTCAGGGAAGATTGAATCGAGGCATACTTGTTCC
130 CACTGTTCTTCAGGGAAGATTAAATCAAGGAAGACTTGTTCC
65275 ATTGTTACTC
Statistics
Matches: 142, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
175 141 0.99
176 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (175 bp):
TTCTTCAGGAAAGATTGAATCAAGGAACAATTGTTCCACTATTACTCAAAGAATATCAAATCTTA
AAAGAGAGGGACATATTCCGCTTCTTCTTGAGGGAAAATCAAATATGAAGACATTGATTCATTCC
ACTGTTCTTCAGGGAAGATTAAATCAAGGAAGACTTGTTCCGCTG
Found at i:65341 original size:134 final size:134
Alignment explanation
Indices: 65096--65566 Score: 556
Period size: 134 Copynumber: 3.5 Consensus size: 134
65086 GGAAGACTTG
* * * * * **
65096 TTCCGCTGTTCTTCAGGGAAGATTGAATCA-AGGCACACTTGTTCTACTATTACTCAAAGAATAT
1 TTCCACTGTTCTTCAGGGAAGATTGAAT-AGAGGCAGACTTGTTCCATTGTTACTCAGGGAATAT
* * * * * * * *
65160 CAATTCTTGAAAGAGATGGATCTATTCCGCTTCTTTTTTAGGGAAAATCAAATCTGAGGACATTT
65 CAAATCTTGAAAGAGATGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGAGGACGTTG
65225 ATTCA
130 ATTCA
* *
65230 TTCCACTGTTCTTCAGGGAAGATTGAATCGAGGCATACTTGTTCCATTGTTACTCAGGGAATATC
1 TTCCACTGTTCTTCAGGGAAGATTGAATAGAGGCAGACTTGTTCCATTGTTACTCAGGGAATATC
* * * *
65295 AAATCTAGAAAGAGAGGGATATGTTCGGCTTCTTCTTGAGGGAAAATCAGATCTGAGCACGTTGA
66 AAATCTTGAAAGAGATGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGAGGACGTTGA
65360 TTCA
131 TTCA
* * * *
65364 TTCCACTGTTCTCCAAGGAAGATTGAATAGATGCAGACTTATTCCATTGTTACTCA-GGAATATC
1 TTCCACTGTTCTTCAGGGAAGATTGAATAGAGGCAGACTTGTTCCATTGTTACTCAGGGAATATC
* * ** *
65428 GAATCTTGAAAGAGTTGGATATGTTCTACTTCTTCTTGAGGGAAAAT-AGATCTGGGGACGTTGA
66 AAATCTTGAAAGAGATGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGAGGACGTTGA
65492 TTCA
131 TTCA
* * * * * *
65496 TTCCATTGTTC-TCGAGGGAATATTTAATAGAGGCGGAC-TGATTCCGTTGTTACTCAGGGAACA
1 TTCCACTGTTCTTC-AGGGAAGATTGAATAGAGGCAGACTTG-TTCCATTGTTACTCAGGGAATA
65559 TCAAATCT
64 TCAAATCT
65567 GAAGATTAAA
Statistics
Matches: 288, Mismatches: 45, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
131 2 0.01
132 62 0.22
133 61 0.21
134 163 0.57
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (134 bp):
TTCCACTGTTCTTCAGGGAAGATTGAATAGAGGCAGACTTGTTCCATTGTTACTCAGGGAATATC
AAATCTTGAAAGAGATGGATATGTTCCGCTTCTTCTTGAGGGAAAATCAGATCTGAGGACGTTGA
TTCA
Found at i:65359 original size:309 final size:309
Alignment explanation
Indices: 64798--65387 Score: 738
Period size: 309 Copynumber: 1.9 Consensus size: 309
64788 TTCCAATTTT
* * * * * **
64798 TTCAGGGAATATTGAATCGAGGTAGACTTGTTCCACTGTTACTCAGGGAAGATCAAATCTTGAAA
1 TTCAGGGAAGATTGAATCAAGGCACACTTGTTCCACTATTACTCAAAGAAGATCAAATCTTGAAA
* * * * * * ** * *
64863 GAGAGGGATTTGTTTCACTTTTTCTTGAGGGATAATCAGATATGGGGATGTCAATTTATTCCTCT
66 GAGAGGGATCTATTCCACTTTTTCTTGAGGGAAAATCAAATATGAGGACATCAATTCATTCCACT
* *
64928 ATTCTTCAGTAAAGATTGAATCAAGGAAGAATTGTTCCACTGTTACTCAGGGAATTTCAAATCTT
131 ATTCTTCAGGAAAGATTGAATCAAGGAAGAATTGTTCCACTGTTACTCAGGGAATATCAAATCTT
* *
64993 AAAAGAGAGGGACATGTTTCTCTTCTTCTTGAGGGAAAATCAAATATGAAGACGTTGATTTATTC
196 AAAAGAGAGGGACATGTTTCGCTTCTTCTTGAGGGAAAATCAAATATGAAGACGTTGATTCATTC
* *
65058 CACTGTTCTTCATGGAAGATTAAATCAAGGAAGACTTGTTCCGCTGTTC
261 CACTGTTCTCCAAGGAAGATTAAATCAAGGAAGACTTGTTCCGCTGTTC
* * *
65107 TTCAGGGAAGATTGAATCAAGGCACACTTGTTCTACTATTACTCAAAGAATATCAATTCTTGAAA
1 TTCAGGGAAGATTGAATCAAGGCACACTTGTTCCACTATTACTCAAAGAAGATCAAATCTTGAAA
* * * * **
65172 GAGATGGATCTATTCCGCTTCTTT-TTTAGGGAAAATCAAATCTGAGGACATTTATTCATTCCAC
66 GAGAGGGATCTATTCCACTT-TTTCTTGAGGGAAAATCAAATATGAGGACATCAATTCATTCCAC
* * * * * * *
65236 TGTTCTTCAGGGAAGATTGAATCGAGGCATACTTGTTCCATTGTTACTCAGGGAATATCAAATC-
130 TATTCTTCAGGAAAGATTGAATCAAGGAAGAATTGTTCCACTGTTACTCAGGGAATATCAAATCT
* * *
65300 TAGAAAGAGAGGGATATG-TTCGGCTTCTTCTTGAGGGAAAATCAGATCTG-AGCACGTTGATTC
195 TA-AAAGAGAGGGACATGTTTC-GCTTCTTCTTGAGGGAAAATCAAATATGAAG-ACGTTGATTC
65363 ATTCCACTGTTCTCCAAGGAAGATT
257 ATTCCACTGTTCTCCAAGGAAGATT
65388 GAATAGATGC
Statistics
Matches: 235, Mismatches: 42, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
308 7 0.03
309 225 0.96
310 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (309 bp):
TTCAGGGAAGATTGAATCAAGGCACACTTGTTCCACTATTACTCAAAGAAGATCAAATCTTGAAA
GAGAGGGATCTATTCCACTTTTTCTTGAGGGAAAATCAAATATGAGGACATCAATTCATTCCACT
ATTCTTCAGGAAAGATTGAATCAAGGAAGAATTGTTCCACTGTTACTCAGGGAATATCAAATCTT
AAAAGAGAGGGACATGTTTCGCTTCTTCTTGAGGGAAAATCAAATATGAAGACGTTGATTCATTC
CACTGTTCTCCAAGGAAGATTAAATCAAGGAAGACTTGTTCCGCTGTTC
Found at i:65893 original size:20 final size:19
Alignment explanation
Indices: 65870--65937 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
65860 TTCTCGAAGA
65870 ACTTATAGATGACCCGAAAG
1 ACTTA-AGATGACCCGAAAG
* *
65890 ACTTAACATCTTG-CTCGAAAG
1 ACTTAAGA---TGACCCGAAAG
65911 ACTTACAGATGACCCGAAAG
1 ACTTA-AGATGACCCGAAAG
*
65931 ATTTAAG
1 ACTTAAG
65938 CATCATGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
19 6 0.16
20 16 0.42
21 12 0.32
22 4 0.11
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (19 bp):
ACTTAAGATGACCCGAAAG
Found at i:65953 original size:41 final size:40
Alignment explanation
Indices: 65853--65956 Score: 118
Period size: 41 Copynumber: 2.5 Consensus size: 40
65843 ATCATGCGAA
* * *
65853 AACATCCTTCTCGAAGAACTTATAGATGACCCGAAAGACTT
1 AACATCATGCTCGAAG-ACTTACAGATGACCCGAAAGACTT
* *
65894 AACATCTTGCTCGAAAGACTTACAGATGACCCGAAAGATTT
1 AACATCATGCTCG-AAGACTTACAGATGACCCGAAAGACTT
* *
65935 AAGCATCATGTTTGAAGACTTA
1 AA-CATCATGCTCGAAGACTTA
65957 ATGATGGCAC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 43 0.80
42 11 0.20
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (40 bp):
AACATCATGCTCGAAGACTTACAGATGACCCGAAAGACTT
Found at i:66668 original size:232 final size:232
Alignment explanation
Indices: 65871--66903 Score: 1193
Period size: 232 Copynumber: 4.5 Consensus size: 232
65861 TCTCGAAGAA
* * * *
65871 CTTATAGATGACCCGAAAGACTTAACATCTTGCTCGAAAGACTTACAGATGACCCGAAAGATTTA
1 CTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAATGATTTA
* * * * ** * *
65936 AGCATCATGTTTG-AAGACTTAATGATGGCACAAAGAACTTACCAATCATGTATATAGTTTACTA
66 AGCATCATGCTCGAAAGACTTACTGATGGC-CAAAGGACTTACCAATTTTGGAAATAGTTTACTA
* * *
66000 GGTAAGAAACTTTTCTTAC---T------TTTCAATTTTCAGATTTAAACGATAAAGTTTTCTCA
130 GGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCA
* * * *
66056 TTTTTCGAGAGACATGTGAAAACATCCTGCTC-GAAGGT
195 TTTTTCAAAAAACATGTGAAAACATCTTGC-CAGAAGGT
* * ** * * ** * *
66094 CTTATGGGTAGTTC-AAAGGACTTTTCATCTTACTAAAAAAACTTACAGATGACCCGAAGGATTT
1 CTTATGGATGGCCCGAAA-GACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAATGATTT
* * * * *
66158 AAGCATCATGCTGGAAAGACTTACTGATAGCCTGAAGGACTTACCAATTTTAGAAATAATTTACT
65 AAGCATCATGCTCGAAAGACTTACTGATGGCC-AAAGGACTTACCAATTTTGGAAATAGTTTACT
* * * *
66223 ATGTAAGAAAATTTTCTTAATTTTTCAAAAATTTCAATTTTCAGATTAAATATGAGAAACTTTTC
129 AGGTAAGAAACTTTTCTT-ACTTTTCAAAAATTTCAATTTTCAGATTTAA-ATGAGAAACTTTTC
* * * *
66288 TCTTTTTTAAAAAAACGTGTGAAAACAT-TCTGCCCGAAGGT
192 TCATTTTTCAAAAAACATGTGAAAACATCT-TGCCAGAAGGT
* * * * *
66329 CTTATGGATGGCCTGAAGGACTTATCATCTTGCTCGAAATACTTACAGATGACCCAAAT-ATTTT
1 CTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAATGATTTA
*
66393 AGCATCATGCTCGAAAGACTTACTGATGGACCAAATGACTTACCAATTTTGGAAATAGTTTACTA
66 AGCATCATGCTCGAAAGACTTACTGATGG-CCAAAGGACTTACCAATTTTGGAAATAGTTTACTA
* * *
66458 GGTAAGAAACTTTTCTTACTTTACAAAAATTTCAATTTTAAGATTTAAATGAGAAACTTTTCTTA
130 GGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCA
* * *
66523 TTTTTCAAAAGACACGT-AAAACATCTTGCTAGAAGGT
195 TTTTTCAAAAAACATGTGAAAACATCTTGCCAGAAGGT
* * * *
66560 CTTATGGATGGCCCGAAAAAATTATCATCTTGTTCGAAAGACTTACAGATGACCGGAATGATTTA
1 CTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAATGATTTA
* * *
66625 AGCATCATACTCGAAAGACTTACTGATGGCCTGAAGGACTTACCAATTTTTGAAATAGTTTACTA
66 AGCATCATGCTCGAAAGACTTACTGATGGCC-AAAGGACTTACCAATTTTGGAAATAGTTTACTA
* *
66690 GGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCATATTTAAATGATAAACTTTTCTCA
130 GGTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCA
* * **
66755 TTTTTCAAAAAACATGGGAAAATATCCTACCCA-AAGGT
195 TTTTTCAAAAAACATGTGAAAACAT-CTTGCCAGAAGGT
* *
66793 CTTATGGATGGCCCG-AAGAACTTGTCATCTTGCTCGAAAGACTTATAGATGACCCGAA-GAATT
1 CTTATGGATGGCCCGAAAG-ACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAATG-ATT
*
66856 TAAGCATCATGCTCGAAAGACTTACTGCTGGCCCAAAGGACTTACCAA
64 TAAGCATCATGCTCGAAAGACTTACTGATGG-CCAAAGGACTTACCAA
66904 GTAAGAAACT
Statistics
Matches: 677, Mismatches: 107, Indels: 42
0.82 0.13 0.05
Matches are distributed among these distances:
222 3 0.00
223 60 0.09
224 54 0.08
225 1 0.00
228 1 0.00
231 69 0.10
232 168 0.25
233 132 0.19
234 100 0.15
235 87 0.13
236 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.32
Consensus pattern (232 bp):
CTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAATGATTTA
AGCATCATGCTCGAAAGACTTACTGATGGCCAAAGGACTTACCAATTTTGGAAATAGTTTACTAG
GTAAGAAACTTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAATGAGAAACTTTTCTCAT
TTTTCAAAAAACATGTGAAAACATCTTGCCAGAAGGT
Found at i:66878 original size:42 final size:41
Alignment explanation
Indices: 66793--66879 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
66783 ACCCAAAGGT
* * *
66793 CTTATGGATGGCCCGAAGAACTTGTCATCTTGCTCGAAAGA
1 CTTATAGATGACCCGAAGAACTTGTCATCATGCTCGAAAGA
*
66834 CTTATAGATGACCCGAAGAATTTAAG-CATCATGCTCGAAAGA
1 CTTATAGATGACCCGAAGAACTT--GTCATCATGCTCGAAAGA
66876 CTTA
1 CTTA
66880 CTGCTGGCCC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 20 0.50
42 19 0.47
43 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (41 bp):
CTTATAGATGACCCGAAGAACTTGTCATCATGCTCGAAAGA
Found at i:73920 original size:128 final size:131
Alignment explanation
Indices: 73601--73966 Score: 445
Period size: 128 Copynumber: 2.8 Consensus size: 131
73591 ATAATTTTAA
*
73601 GAGAGAAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTTTCATACCTTAAAAC
1 GAGAG-AAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTTTCATACCTTAAAGC
* * * * * *
73666 AATCATTTATTACTTCAATCGAAATGAAAAGATATTACTATTTCATCTTAAAATTCAATATCGAT
65 AATCATTTATTACTCCAATAGAAATGAAAAGATATCACTATTCCATATTAAAATTCAATATCAAT
73731 TC
130 TC
* * * * *
73733 GAGTGAAAACAATAATATCTAATGATTTCCAATTGAGAATAAATGACCTCTCATACCTTAAAGCA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTTTCATACCTTAAAGCA
* * *
73798 ATCATTTATTGCTCCAATAG-AATGAAGAGATA-CACTATTCCATATTAAAA-TCAATATTAATT
66 ATCATTTATTACTCCAATAGAAATGAAAAGATATCACTATTCCATATTAAAATTCAATATCAATT
73860 C
131 C
* * * * * *
73861 GAGAGAGAATGATAATATCGAATTATTTACAATCGAGAATAAATGACCTTTTATGCCTTAAAG-A
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTTTCATACCTTAAAGCA
* * * * *
73925 AGTGATTAATTACTCCAA-CGAAATTAAAAGATATTACTATTC
66 A-TCATTTATTACTCCAATAGAAATGAAAAGATATCACTATTC
73967 TCAATATCGA
Statistics
Matches: 198, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
127 3 0.02
128 86 0.43
129 22 0.11
130 11 0.06
131 72 0.36
132 4 0.02
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (131 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTTTCATACCTTAAAGCA
ATCATTTATTACTCCAATAGAAATGAAAAGATATCACTATTCCATATTAAAATTCAATATCAATT
C
Done.