Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008836.1 Hibiscus syriacus cultivar Beakdansim tig00112039_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: 149069
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:550 original size:19 final size:19
Alignment explanation
Indices: 510--556 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
500 GAAACCCCTT
**
510 TGAAAATACATGATTTTGA
1 TGAAAATACATGATTTAAA
529 TGAAAATACATGATTTAAA
1 TGAAAATACATGATTTAAA
*
548 TGAAGATAC
1 TGAAAATAC
557 TGCTCTTGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (19 bp):
TGAAAATACATGATTTAAA
Found at i:3811 original size:19 final size:20
Alignment explanation
Indices: 3768--3818 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
3758 GAAACCCTTT
**
3768 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
3788 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
3807 TGAAAATACATG
1 TGAAAATACATG
3819 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:14507 original size:59 final size:59
Alignment explanation
Indices: 14412--14657 Score: 352
Period size: 59 Copynumber: 4.1 Consensus size: 59
14402 TTTATCAACC
* *
14412 ATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAATTGCCCTATACT-GAA
1 ATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTGCCCTATA-TGGAA
* * * *
14471 ATTCATACGCTTAGCATGAATTTCTTATCATGTTAGCACACGAAGTGCCCTATATGGAA
1 ATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTGCCCTATATGGAA
* * *
14530 ATTCATACACTTAGTACGAATTTATTATCATTTTAGCACACAAAGTGCCCTATACT-AAA
1 ATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTGCCCTATA-TGGAA
*
14589 ATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACGAAGTGCCCAATATATGGAA
1 ATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTGCCC--TATATGGAA
14650 ATTCATAC
1 ATTCATAC
14658 TATCATTTTA
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
58 1 0.01
59 148 0.90
60 2 0.01
61 14 0.08
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (59 bp):
ATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAAGTGCCCTATATGGAA
Found at i:14625 original size:118 final size:119
Alignment explanation
Indices: 14412--14657 Score: 404
Period size: 118 Copynumber: 2.1 Consensus size: 119
14402 TTTATCAACC
* * * *
14412 ATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAATTGCCCTATACTGAAATTCAT
1 ATTCATACACTTAGTACGAATTTATTAACATTTTAGCACACAAAGTGCCCTATACTAAAATTCAT
*
14477 ACGCTTAGCATGAATTTCTTATCATGTTAGCACACGAAGTGCCC-TATATGGAA
66 ACACTTAGCATGAATTTCTTATCATGTTAGCACACGAAGTGCCCATATATGGAA
*
14530 ATTCATACACTTAGTACGAATTTATTATCATTTTAGCACACAAAGTGCCCTATACTAAAATTCAT
1 ATTCATACACTTAGTACGAATTTATTAACATTTTAGCACACAAAGTGCCCTATACTAAAATTCAT
* *
14595 ACACTTAGTATGAATTTCTTATCATTTTAGCACACGAAGTGCCCAATATATGGAA
66 ACACTTAGCATGAATTTCTTATCATGTTAGCACACGAAGTGCCC-ATATATGGAA
14650 ATTCATAC
1 ATTCATAC
14658 TATCATTTTA
Statistics
Matches: 118, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
118 101 0.86
120 17 0.14
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (119 bp):
ATTCATACACTTAGTACGAATTTATTAACATTTTAGCACACAAAGTGCCCTATACTAAAATTCAT
ACACTTAGCATGAATTTCTTATCATGTTAGCACACGAAGTGCCCATATATGGAA
Found at i:15169 original size:95 final size:95
Alignment explanation
Indices: 15004--15227 Score: 263
Period size: 95 Copynumber: 2.4 Consensus size: 95
14994 GGTTCCTTAG
* * * * * *
15004 TATCGATACTCC-CACCATTGTATCGATACTACCATACTATAATATCGATACTCCCTTCTGGTAT
1 TATCGATAC-CCTTACCATGGTATCGATACTACTATACTATAATACCAATACCCCCTTCTGGTAT
15068 CAATACCAAAATTAGATTCGATGTGGACC-AA
65 CAATACCAAAATTAGATTCGATGT-GACCTAA
** * *
15099 TATCGATACCCTTACCATGGTATCGATACTACTATGTTATAGTACCAATACCCCCTTGTGGTATC
1 TATCGATACCCTTACCATGGTATCGATACTACTATACTATAATACCAATACCCCCTTCTGGTATC
* * * **
15164 GATACCAAAATTAGGTTCGATGTTACCTGG
66 AATACCAAAATTAGATTCGATGTGACCTAA
* *
15194 TATCGATACCCTTACTATGGTATCGATACCACTA
1 TATCGATACCCTTACCATGGTATCGATACTACTA
15228 CGTCGGTCCC
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
94 5 0.05
95 105 0.95
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (95 bp):
TATCGATACCCTTACCATGGTATCGATACTACTATACTATAATACCAATACCCCCTTCTGGTATC
AATACCAAAATTAGATTCGATGTGACCTAA
Found at i:18162 original size:11 final size:11
Alignment explanation
Indices: 18146--18179 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
18136 GATTGAGAGT
18146 TGACTGTGAGC
1 TGACTGTGAGC
18157 TGACTGTGAGC
1 TGACTGTGAGC
*
18168 TGATTGTGAGC
1 TGACTGTGAGC
18179 T
1 T
18180 TCCATAGAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.18, C:0.15, G:0.35, T:0.32
Consensus pattern (11 bp):
TGACTGTGAGC
Found at i:18618 original size:2 final size:2
Alignment explanation
Indices: 18611--18635 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18601 GAACAACATG
18611 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18636 CAAAGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20701 original size:24 final size:25
Alignment explanation
Indices: 20669--20718 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
20659 TCAGCAAAGT
*
20669 AATTGAAGCACTC-AAAAGAAGAAA
1 AATTCAAGCACTCAAAAAGAAGAAA
20693 AATTCAAGCACTCAAAAAGAAGAAA
1 AATTCAAGCACTCAAAAAGAAGAAA
20718 A
1 A
20719 GAAAAGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.60, C:0.14, G:0.14, T:0.12
Consensus pattern (25 bp):
AATTCAAGCACTCAAAAAGAAGAAA
Found at i:25253 original size:23 final size:23
Alignment explanation
Indices: 25213--25278 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
25203 CACCACAGCT
* * *
25213 CGTATAAATGCACTGAAGTGACA
1 CGTAAAAATACACCGAAGTGACA
* * * *
25236 CGTAGAATTACACCGAAGTGTCG
1 CGTAAAAATACACCGAAGTGACA
25259 CGTAAAAATACACCGAAGTG
1 CGTAAAAATACACCGAAGTG
25279 CCATATAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (23 bp):
CGTAAAAATACACCGAAGTGACA
Found at i:30925 original size:15 final size:15
Alignment explanation
Indices: 30907--30958 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
30897 CACCAGTGCA
30907 TGCTCCATCAATATG
1 TGCTCCATCAATATG
* *
30922 TGCTCCATCAGTATT
1 TGCTCCATCAATATG
*
30937 TGCTCCATCAATGTG
1 TGCTCCATCAATATG
*
30952 TGTTCCA
1 TGCTCCA
30959 CCAGCTTCGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (15 bp):
TGCTCCATCAATATG
Found at i:30928 original size:30 final size:30
Alignment explanation
Indices: 30892--30962 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
30882 AGACAACACA
*
30892 TGCTCCACCAGTGCATGCTCCATCAATATG
1 TGCTCCACCAGTACATGCTCCATCAATATG
* ** *
30922 TGCTCCATCAGTATTTGCTCCATCAATGTG
1 TGCTCCACCAGTACATGCTCCATCAATATG
*
30952 TGTTCCACCAG
1 TGCTCCACCAG
30963 CTTCGTCTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.31
Consensus pattern (30 bp):
TGCTCCACCAGTACATGCTCCATCAATATG
Found at i:31419 original size:48 final size:48
Alignment explanation
Indices: 31337--31448 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 48
31327 TGTGAATGCT
*
31337 ACTTGTGATAATGCACATGGGGCCACCTCATTTGGAAATACACCAAGTG
1 ACTT-TGATAATGCGCATGGGGCCACCTCATTTGGAAATACACCAAGTG
* * * * * **
31386 ATTTTTATAATGCGCATGGGGCCATCTCTTTTGGACATACGGCAAGTG
1 ACTTTGATAATGCGCATGGGGCCACCTCATTTGGAAATACACCAAGTG
*
31434 GCTTTGATAATGCGC
1 ACTTTGATAATGCGC
31449 CTGGAGGTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
48 49 0.94
49 3 0.06
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (48 bp):
ACTTTGATAATGCGCATGGGGCCACCTCATTTGGAAATACACCAAGTG
Found at i:31653 original size:45 final size:45
Alignment explanation
Indices: 31576--31676 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 45
31566 CATCGGTCCA
* ** ** *
31576 TGGAGCTATGCCCGACCGTGATGATGTGCTTGG-GACCACGGCTTT
1 TGGAGCTATGGCCGACCACGACAATGTGCTTGGAG-CCACGCCTTT
*
31621 TGGAGCTATGGCCGACCACGACAATGTTCTTGGAGCCACGCCTTT
1 TGGAGCTATGGCCGACCACGACAATGTGCTTGGAGCCACGCCTTT
*
31666 TGGAGCAATGG
1 TGGAGCTATGG
31677 TTGTCCATGA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 46 0.98
46 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.32, T:0.25
Consensus pattern (45 bp):
TGGAGCTATGGCCGACCACGACAATGTGCTTGGAGCCACGCCTTT
Found at i:33489 original size:18 final size:19
Alignment explanation
Indices: 33461--33501 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
33451 TATGGATATG
33461 TTGTGAGTTCTAGAATAGT
1 TTGTGAGTTCTAGAATAGT
33480 TTGT-AGTTCTAGAATAGT
1 TTGTGAGTTCTAGAATAGT
33498 TTGT
1 TTGT
33502 TATCTTGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.46
Consensus pattern (19 bp):
TTGTGAGTTCTAGAATAGT
Found at i:36812 original size:19 final size:19
Alignment explanation
Indices: 36784--36827 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
36774 CATAGTCAAC
36784 TTGACCCGACCCGTTAACT
1 TTGACCCGACCCGTTAACT
* * *
36803 TTGACTCGACTCGTTGACT
1 TTGACCCGACCCGTTAACT
36822 TTGACC
1 TTGACC
36828 AGAGTTGACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (19 bp):
TTGACCCGACCCGTTAACT
Found at i:36850 original size:16 final size:16
Alignment explanation
Indices: 36831--36869 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
36821 TTTGACCAGA
*
36831 GTTGACTGGTCTGACT
1 GTTGACTGGTCTGACC
*
36847 GTTGACCGGTCTGACC
1 GTTGACTGGTCTGACC
36863 GTTGACT
1 GTTGACT
36870 TTGACCCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.13, C:0.23, G:0.31, T:0.33
Consensus pattern (16 bp):
GTTGACTGGTCTGACC
Found at i:39836 original size:24 final size:24
Alignment explanation
Indices: 39809--39859 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
39799 TCTACTCTTT
39809 ATTTACAATTAAAAAA-AGATAAAA
1 ATTTAC-ATTAAAAAAGAGATAAAA
*
39833 ATTTACCTTAAAAAATGAGATAAAA
1 ATTTACATTAAAAAA-GAGATAAAA
39858 AT
1 AT
39860 ATTATTGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 8 0.33
24 6 0.25
25 10 0.42
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (24 bp):
ATTTACATTAAAAAAGAGATAAAA
Found at i:40207 original size:22 final size:22
Alignment explanation
Indices: 40157--40207 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
40147 TAATTTAAAA
* *
40157 TAATTCAATAAATTTAATTATT
1 TAATTTAAAAAATTTAATTATT
40179 TATATTTAAAAAATTT-ATTATTT
1 TA-ATTTAAAAAATTTAATTA-TT
40202 TAATTT
1 TAATTT
40208 TTTTGTGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATTTAAAAAATTTAATTATT
Found at i:41341 original size:161 final size:162
Alignment explanation
Indices: 41075--41448 Score: 615
Period size: 161 Copynumber: 2.3 Consensus size: 162
41065 CGGTATTGAA
* * * * * * *
41075 ATGATAAAACCTGTAAAGCGGTACCAGATATATTTAAAGTGTTGTTACTTTAATATAAGGATCGA
1 ATGATAAAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGA
*
41140 CACTTCGTTAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAAAAAAATG
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAAAAAAATG
*
41205 TATCGATCCACAACGATATAACAGGTAAAAAT
131 TATCGATCCACAACGATATAACAAGTAAAAAT
** * *
41237 ATGATAAAACCGGTAAAACATTACCGGATATATTGAAAGTGTCCATACTTT-ATATAAGGATTGA
1 ATGATAAAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGA
*
41301 CACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAAAAAAATG
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAAAAAAATG
41366 TATCGATCCACAACGATATAACAAGTAAAAAT
131 TATCGATCCACAACGATATAACAAGTAAAAAT
41398 ATGATAAAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT
1 ATGATAAAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT
41449 CGTAAGTACG
Statistics
Matches: 196, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
161 154 0.79
162 42 0.21
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (162 bp):
ATGATAAAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGA
CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAAAAAAATG
TATCGATCCACAACGATATAACAAGTAAAAAT
Found at i:42953 original size:200 final size:200
Alignment explanation
Indices: 42598--43777 Score: 1966
Period size: 200 Copynumber: 5.9 Consensus size: 200
42588 TATCGACAAT
* *
42598 ATGGCAAACAGGGTGCAACCATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
42663 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGTTTT
* *
42728 ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTATGTCGATACTATTAGTCCAG
131 ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
42793 AATGA
196 AATGA
* * *
42798 ATGGAAAACAAGGTGCAACCATAAAGTTTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
* *
42863 CGAAACCCATAAGTATAATATAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGTTTT
* *
42928 ATGAGAGATTAGGTGTA-ATATATGTATCGGCACTTTTTAATTTTGTGTCGATACTATTGGTCCA
131 ATGAGAGATTAGGTATATA-ATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCA
42992 GAATGA
195 GAATGA
42998 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
43063 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACAGGTATAAGTATACCAGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGTTTT
* *
43128 ATGAGAGATTAGGTATATAATATGTATCGACAATTTTTAA--TTGTGTCGATACCATTGGTCCAG
131 ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
43191 AATGA
196 AATGA
*
43196 ATGGCAAACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
* *
43261 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATATGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGTTTT
*
43326 ATGAGAGATTAGGTATATAATATGTATCGAAACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
131 ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
43391 AATGA
196 AATGA
*
43396 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
*
43461 CAAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAG---T
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGTTTT
* * *
43523 ATGAGATAATAGGTGTA-ATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCA
131 ATGAGAGATTAGGTATATA-ATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCA
43587 GAATGA
195 GAATGA
* *
43593 ATGGCAAACAGGGTGCAACCAT-AAGCTG-C-TTCCCATATATAAAATGTGTCGATCCCAGAAAC
1 ATGGCAAACAGGGTGCAACCATAAAG-TGTCGAT-CCATATATAAAAGGTGTCGATCCCAGAAAC
*
43655 ATCGAAACTCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGTT
64 ATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGTT
* * * * *
43720 TTATGAGATAATATGTGTATGATATGTATCGACACTTTTTAATTTTGTGTCGATACTA
129 TTATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTA
43778 ATTTAAATAT
Statistics
Matches: 928, Mismatches: 41, Indels: 23
0.94 0.04 0.02
Matches are distributed among these distances:
195 1 0.00
196 95 0.10
197 89 0.10
198 191 0.21
199 55 0.06
200 496 0.53
201 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGTTTT
ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAG
AATGA
Found at i:43363 original size:398 final size:398
Alignment explanation
Indices: 42598--43777 Score: 1980
Period size: 398 Copynumber: 3.0 Consensus size: 398
42588 TATCGACAAT
*
42598 ATGGCAAACAGGGTGCAACCATAAAGTATCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
*
42663 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGTTTT
* *
42728 ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTATGTCGATACTATTAGTCCAG
131 ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAA-TTTGTGTCGATACTATTGGTCCAG
* * *
42793 AATGAATGGAAAACAAGGTGCAACCATAAAGTTTCGATCCATATATAAAAGGTGTCGATCCCAGA
195 AATGAATGGCAAACAGGGTGCAACCATAAAGTGTC-ATCCATATATAAAAGGTGTCGATCCCAGA
*
42858 AACATCGAAACCCATAAGTATAATATAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCG
259 AACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCG
*
42923 GTTTTATGAGAGATTAGGTGTA-ATATATGTATCGGCACTTTTTAATTTTGTGTCGATACTATTG
324 GTTTTATGAGAGATTAGGTGTATA-ATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTG
42987 GTCCAGAATGA
388 GTCCAGAATGA
*
42998 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
*
43063 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACAGGTATAAGTATACCAGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGTTTT
* *
43128 ATGAGAGATTAGGTATATAATATGTATCGACAATTTTTAA-TTGTGTCGATACCATTGGTCCAGA
131 ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTGTGTCGATACTATTGGTCCAGA
43192 ATGAATGGCAAACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAGGTGTCGATCCCAGAA
196 ATGAATGGCAAACAGGGTGCAACCATAAAGTGTC-ATCCATATATAAAAGGTGTCGATCCCAGAA
*
43257 ACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATATGTATACCGG
260 ACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGG
* *
43322 TTTTATGAGAGATTAGGTATATAATATGTATCGAAACTTTTTAATTTTGTGTCGATACTATTGGT
325 TTTTATGAGAGATTAGGTGTATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGT
43387 CCAGAATGA
390 CCAGAATGA
43396 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
*
43461 CAAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAG---T
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGTTTT
* * *
43523 ATGAGATAATAGGTGTA-ATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCA
131 ATGAGAGATTAGGTATATA-ATATGTATCGACACTTTTTAA-TTTGTGTCGATACTATTGGTCCA
* *
43587 GAATGAATGGCAAACAGGGTGCAACCAT-AAGCTG-CTTCCCATATATAAAATGTGTCGATCCCA
194 GAATGAATGGCAAACAGGGTGCAACCATAAAG-TGTCAT-CCATATATAAAAGGTGTCGATCCCA
*
43650 GAAACATCGAAACTCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATAC
257 GAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATAC
* * * * *
43715 CAGTTTTATGAGATAATATGTGTATGATATGTATCGACACTTTTTAATTTTGTGTCGATACTA
322 CGGTTTTATGAGAGATTAGGTGTATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTA
43778 ATTTAAATAT
Statistics
Matches: 738, Mismatches: 36, Indels: 16
0.93 0.05 0.02
Matches are distributed among these distances:
394 1 0.00
395 36 0.05
396 147 0.20
397 51 0.07
398 337 0.46
399 1 0.00
400 165 0.22
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (398 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCAGTTTT
ATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTGTGTCGATACTATTGGTCCAGA
ATGAATGGCAAACAGGGTGCAACCATAAAGTGTCATCCATATATAAAAGGTGTCGATCCCAGAAA
CATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGT
TTTATGAGAGATTAGGTGTATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTC
CAGAATGA
Found at i:46990 original size:184 final size:184
Alignment explanation
Indices: 46681--47029 Score: 646
Period size: 184 Copynumber: 1.9 Consensus size: 184
46671 ATATCAGCAT
* * *
46681 AAAGTGTCGATACCTTTTCAAAAAGTGTTGATTGAAAAAACATTGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGACTGAAAAAACATCGGAACCCATAATTATAATGTA
*
46746 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
46811 TATATCGACACTTTTTAATATTGTGTCGC-TACTTTATGTCTAGAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTC-CATACTTTATGTCTAGAATGGATGAAA
46865 AAAGTGTCGATACCTTTTCAAAAAGTGTCGACTGAAAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGACTGAAAAAACATCGGAACCCATAATTATAATGTA
46930 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
46995 TATATCGACACTTTTTAATATTGTGTCCATACTTT
131 TATATCGACACTTTTTAATATTGTGTCCATACTTT
47030 TAAGTAACGC
Statistics
Matches: 160, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
183 1 0.01
184 159 0.99
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (184 bp):
AAAGTGTCGATACCTTTTCAAAAAGTGTCGACTGAAAAAACATCGGAACCCATAATTATAATGTA
ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCCATACTTTATGTCTAGAATGGATGAAA
Found at i:50269 original size:21 final size:20
Alignment explanation
Indices: 50225--50265 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
50215 GGTAAAGCGC
50225 TACCGGTTTTGTTATTTTTT
1 TACCGGTTTTGTTATTTTTT
50245 TACCGGTTTTGTTATTTTTT
1 TACCGGTTTTGTTATTTTTT
50265 T
1 T
50266 TACCTGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.10, G:0.15, T:0.66
Consensus pattern (20 bp):
TACCGGTTTTGTTATTTTTT
Found at i:50366 original size:19 final size:19
Alignment explanation
Indices: 50338--50378 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
50328 GGTAAAGCGC
50338 TACCGATTTTGTTATTTTT
1 TACCGATTTTGTTATTTTT
*
50357 TACCGGTTTTGTTATTTTT
1 TACCGATTTTGTTATTTTT
50376 TAC
1 TAC
50379 ATGTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.61
Consensus pattern (19 bp):
TACCGATTTTGTTATTTTT
Found at i:50449 original size:110 final size:112
Alignment explanation
Indices: 50146--50475 Score: 592
Period size: 113 Copynumber: 3.0 Consensus size: 112
50136 TGATTTTATC
*
50146 ATTTTTTTACCTGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAATAT
1 ATTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATAT
50211 ATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACCGGTTTTGTT
66 ATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACCGGTTTTGTT
50258 ATTTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATA
1 A-TTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATA
*
50323 TATCAGGTAAAGCGCTACCGATTTTGTTA-TTTTTTACCGGTTTTGTT
65 TATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACCGGTTTTGTT
*
50370 A-TTTTTTACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATAT
1 ATTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATAT
* *
50434 AACAGGTAAAACGCTACCGGTTTTGTTATTTTTTTACCGGTT
66 ATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACCGGTT
50476 ATATTGTAAA
Statistics
Matches: 210, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
110 87 0.41
111 13 0.06
112 20 0.10
113 90 0.43
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (112 bp):
ATTTTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCGATACTTTCAATAT
ATCAGGTAAAGCGCTACCGGTTTTGTTATTTTTTTACCGGTTTTGTT
Found at i:50513 original size:92 final size:92
Alignment explanation
Indices: 50357--50560 Score: 347
Period size: 92 Copynumber: 2.2 Consensus size: 92
50347 TGTTATTTTT
* *
50357 TACCGGTTTTGTTA-TTTTTTACATGTTATATTGTAAAGTATCGATCCTTTTTATAAAAGGATCG
1 TACCGGTTTTGTTATTTTTTTACAGGTTATATTGTAAAATATCGATCCTTTTTATAAAAGGATCG
50421 ATACTTTCAATATAACAGGTAAAACGC
66 ATACTTTCAATATAACAGGTAAAACGC
*
50448 TACCGGTTTTGTTATTTTTTTACCGGTTATATTGTAAAATATCGATCCTTTTTATAAAAGGATCG
1 TACCGGTTTTGTTATTTTTTTACAGGTTATATTGTAAAATATCGATCCTTTTTATAAAAGGATCG
** *
50513 ATACTTTCAATATATTAGGTAAAGCGC
66 ATACTTTCAATATAACAGGTAAAACGC
50540 TACCGGTTTTGTTATTTTTTT
1 TACCGGTTTTGTTATTTTTTT
50561 TTACCGATTT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 14 0.13
92 92 0.87
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (92 bp):
TACCGGTTTTGTTATTTTTTTACAGGTTATATTGTAAAATATCGATCCTTTTTATAAAAGGATCG
ATACTTTCAATATAACAGGTAAAACGC
Found at i:50571 original size:22 final size:22
Alignment explanation
Indices: 50540--50581 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
50530 GGTAAAGCGC
*
50540 TACCGGTTTTGTTATTTTTTTT
1 TACCGATTTTGTTATTTTTTTT
50562 TACCGATTTTGTTATTTTTT
1 TACCGATTTTGTTATTTTTT
50582 ACCGGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.10, G:0.12, T:0.67
Consensus pattern (22 bp):
TACCGATTTTGTTATTTTTTTT
Found at i:50953 original size:24 final size:25
Alignment explanation
Indices: 50926--50994 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
50916 AGCATCAAAT
50926 ACAATAA-AATAATATTATTTATTA
1 ACAATAAGAATAATATTATTTATTA
*
50950 ACAA-AATAATAATATTATTT-TTA
1 ACAATAAGAATAATATTATTTATTA
50973 A-AATATTAGAATAAT-TTATTTA
1 ACAATA--AGAATAATATTATTTA
50995 ATATTATCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 2 0.05
23 7 0.18
24 23 0.59
25 7 0.18
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (25 bp):
ACAATAAGAATAATATTATTTATTA
Found at i:51028 original size:14 final size:14
Alignment explanation
Indices: 51009--51081 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 14
50999 TATCTATGTC
51009 AATATTATTATTAA
1 AATATTATTATTAA
*
51023 AATATTA-TATCTAT
1 AATATTATTAT-TAA
* * *
51037 AATTTTATAAATAA
1 AATATTATTATTAA
* * *
51051 AAAATTATGATTAT
1 AATATTATTATTAA
*
51065 TATATT-TTATTAA
1 AATATTATTATTAA
51078 AATA
1 AATA
51082 AATTTGTAAT
Statistics
Matches: 42, Mismatches: 15, Indels: 5
0.68 0.24 0.08
Matches are distributed among these distances:
13 11 0.26
14 30 0.71
15 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:51044 original size:28 final size:28
Alignment explanation
Indices: 51009--51081 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
50999 TATCTATGTC
51009 AATATTATTATTAAAATATTAT-ATCTAT
1 AATATTATTATTAAAATATTATGAT-TAT
* * * *
51037 AATTTTATAAATAAAAAATTATGATTAT
1 AATATTATTATTAAAATATTATGATTAT
*
51065 TATATT-TTATTAAAATA
1 AATATTATTATTAAAATA
51082 AATTTGTAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
27 8 0.23
28 25 0.71
29 2 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
AATATTATTATTAAAATATTATGATTAT
Found at i:51235 original size:87 final size:87
Alignment explanation
Indices: 51134--51377 Score: 398
Period size: 87 Copynumber: 2.8 Consensus size: 87
51124 GAATATATCA
*
51134 ATATAAGCGTTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTGCTTGATAATGTTT
1 ATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTGCTTGATAATGTTT
51199 CCAGTAATTAACCTATTTTATT
66 CCAGTAATTAACCTATTTTATT
* *
51221 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTGTGCTTGATAATGTTT
1 ATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTGCTTGATAATGTTT
*
51286 CCAGTAATTAACTTATTTTATT
66 CCAGTAATTAACCTATTTTATT
* * * * *
51308 ATATAAGCGCTACCTATTACATTACATAAGCACTACCTAATTTGTTATTTTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTGCTTGATAATGTTT
*
51373 TCAGT
66 CCAGT
51378 TGAATGATAT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 145 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTGCTTGATAATGTTT
CCAGTAATTAACCTATTTTATT
Found at i:51244 original size:23 final size:23
Alignment explanation
Indices: 51209--51259 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
51199 CCAGTAATTA
** *
51209 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAACGCT
51232 ACCTATTACATTATATAAACGCT
1 ACCTATTACATTATATAAACGCT
51255 ACCTA
1 ACCTA
51260 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:0.35, C:0.22, G:0.06, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAACGCT
Found at i:54002 original size:21 final size:21
Alignment explanation
Indices: 53973--54012 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
53963 TGATCATTTT
* *
53973 ATAATTTTTAATAGTCAGATG
1 ATAACTTTTAACAGTCAGATG
53994 ATAACTTTTAACAGTCAGA
1 ATAACTTTTAACAGTCAGA
54013 GACTAAAGAA
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:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (21 bp):
ATAACTTTTAACAGTCAGATG
Found at i:56478 original size:4 final size:4
Alignment explanation
Indices: 56469--56496 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
56459 CAAAAACATC
56469 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
56497 GTTCATCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:57308 original size:19 final size:20
Alignment explanation
Indices: 57267--57317 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
57257 GAAACCCCTT
*
57267 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
57287 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
57306 TGAAGATACATG
1 TGAAAATACATG
57318 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:60705 original size:5 final size:5
Alignment explanation
Indices: 60695--60751 Score: 68
Period size: 5 Copynumber: 11.8 Consensus size: 5
60685 GAACTTCTAT
60695 TTTTC TTTTC TTTTC TTTTC --TTC TTTTC TTCTTC TTTT- TTTTC TTTT-
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC
60742 TCTTTC TTTT
1 T-TTTC TTTT
60752 TGCACTCCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
3 3 0.07
4 5 0.11
5 32 0.70
6 6 0.13
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:60752 original size:18 final size:18
Alignment explanation
Indices: 60689--60752 Score: 76
Period size: 18 Copynumber: 3.4 Consensus size: 18
60679 CTTTTTGAAC
*
60689 TTCTATTTTTCTTTTCTT
1 TTCTTTTTTTCTTTTCTT
*
60707 TTCTTTTCTTCTTTTCTT
1 TTCTTTTTTTCTTTTCTT
60725 CTTCTTTTTTTTCTTTT-TCT
1 -TTC-TTTTTTTCTTTTCT-T
60745 TTCTTTTT
1 TTCTTTTT
60753 GCACTCCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 21 0.52
19 7 0.17
20 12 0.30
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (18 bp):
TTCTTTTTTTCTTTTCTT
Found at i:61536 original size:19 final size:20
Alignment explanation
Indices: 61495--61545 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
61485 GAAACCCCTT
*
61495 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
61515 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
61534 TGAAGATACATG
1 TGAAAATACATG
61546 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:63535 original size:2 final size:2
Alignment explanation
Indices: 63528--63560 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
63518 AAACTCTGAT
63528 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
63561 AAATGAGACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:65134 original size:18 final size:18
Alignment explanation
Indices: 65111--65145 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
65101 ATAACACTTA
65111 GGATTATCGGTGTTTCCT
1 GGATTATCGGTGTTTCCT
*
65129 GGATTATTGGTGTTTCC
1 GGATTATCGGTGTTTCC
65146 AGAATTTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.14, G:0.29, T:0.46
Consensus pattern (18 bp):
GGATTATCGGTGTTTCCT
Found at i:80492 original size:33 final size:33
Alignment explanation
Indices: 80450--80550 Score: 112
Period size: 33 Copynumber: 3.1 Consensus size: 33
80440 ACCTCTTTAG
* *
80450 TCATCTTCCTAGTACCGTACGGATGTGTAATAT
1 TCATGTTCCTAGTACCGTACGGATGTGGAATAT
* * * *
80483 TCATGTTCCTAGTGCTGTATGGATGTGGAGTAT
1 TCATGTTCCTAGTACCGTACGGATGTGGAATAT
* * * *
80516 TCCTGTTCCTAGTACCATACGGATGTTGAGTAT
1 TCATGTTCCTAGTACCGTACGGATGTGGAATAT
80549 TC
1 TC
80551 TCAACCTTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (33 bp):
TCATGTTCCTAGTACCGTACGGATGTGGAATAT
Found at i:82721 original size:20 final size:18
Alignment explanation
Indices: 82675--82723 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
82665 TACAAAAAAG
*
82675 GGTACCGATACCCTACAC
1 GGTACCGATACCATACAC
* *
82693 GGTATCGATACCATGATCAT
1 GGTACCGATACCAT-A-CAC
82713 GGTACCGATAC
1 GGTACCGATAC
82724 TACCCCTTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 12 0.48
19 1 0.04
20 12 0.48
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (18 bp):
GGTACCGATACCATACAC
Found at i:82835 original size:44 final size:45
Alignment explanation
Indices: 82785--82884 Score: 134
Period size: 44 Copynumber: 2.3 Consensus size: 45
82775 ATACCATGAT
**
82785 CGGTATCGA-AGCTACTTTACATAGTAGTATAGATACACCTTG-GA
1 CGGTATCGATA-CTACTACACATAGTAGTATAGATACACCTTGAGA
* *
82829 CGGTATCGATACTACTACACATAGTAGTATCGATACGCCTTGAGA
1 CGGTATCGATACTACTACACATAGTAGTATAGATACACCTTGAGA
82874 -GGTATCGATAC
1 CGGTATCGATAC
82885 CGTTGGGTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
44 47 0.94
45 3 0.06
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (45 bp):
CGGTATCGATACTACTACACATAGTAGTATAGATACACCTTGAGA
Found at i:82953 original size:21 final size:21
Alignment explanation
Indices: 82927--82983 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
82917 TATAACAAGT
82927 AGTACCGATACCCATGAGTGG
1 AGTACCGATACCCATGAGTGG
82948 AGTACCGATACCCATGAGTGG
1 AGTACCGATACCCATGAGTGG
82969 AGTACCGATACCCAT
1 AGTACCGATACCCAT
82984 ACGCTCCCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.19
Consensus pattern (21 bp):
AGTACCGATACCCATGAGTGG
Found at i:90062 original size:29 final size:29
Alignment explanation
Indices: 90022--90161 Score: 208
Period size: 29 Copynumber: 4.8 Consensus size: 29
90012 AGCACCATTT
* * *
90022 CGAATTAATTACCGGAATAGCACCTAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
90051 CGAATTATTTACTAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
90080 TGAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
90109 CAAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
* *
90138 CGAATTAATTACCAAAATAGCACC
1 CGAATTATTTACCAGAATAGCACC
90162 GGTCTACGGT
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 100 1.00
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.22
Consensus pattern (29 bp):
CGAATTATTTACCAGAATAGCACCAAAAC
Found at i:90186 original size:12 final size:12
Alignment explanation
Indices: 90169--90207 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
90159 ACCGGTCTAC
90169 GGTCAACGGTCG
1 GGTCAACGGTCG
90181 GGTCAACGGGTCG
1 GGTCAAC-GGTCG
*
90194 GGTCAATGGTCG
1 GGTCAACGGTCG
90206 GG
1 GG
90208 CCGGGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.15, C:0.21, G:0.46, T:0.18
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:90194 original size:13 final size:13
Alignment explanation
Indices: 90169--90226 Score: 64
Period size: 13 Copynumber: 4.2 Consensus size: 13
90159 ACCGGTCTAC
90169 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
90181 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
90194 GGTCAATGGTCGGGCCG
1 GGTCAA----CGGGTCG
90211 GGTCAACGGGTCG
1 GGTCAACGGGTCG
90224 GGT
1 GGT
90227 TGGGTCAACG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
12 7 0.18
13 20 0.51
17 12 0.31
ACGTcount: A:0.14, C:0.22, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:90224 original size:18 final size:18
Alignment explanation
Indices: 90187--90246 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
90177 GTCGGGTCAA
*
90187 CGGGTCGGGTCAA-TGGT
1 CGGGTCGGGTCAACGGGT
*
90204 CGGGCCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
90222 CGGGTTGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
90240 CGGGTCG
1 CGGGTCG
90247 TGACCGGTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
17 12 0.32
18 25 0.68
ACGTcount: A:0.10, C:0.22, G:0.50, T:0.18
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:97500 original size:29 final size:29
Alignment explanation
Indices: 97468--97535 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
97458 CATTTTACAC
* *
97468 AAATAGCACCCTTTTTAAAATAATTACCA
1 AAATAGCACCCATTTCAAAATAATTACCA
*
97497 AAATAGCACCCATTTCGAAATAATTACCA
1 AAATAGCACCCATTTCAAAATAATTACCA
*
97526 TAATAGCACC
1 AAATAGCACC
97536 TAAACCGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.26
Consensus pattern (29 bp):
AAATAGCACCCATTTCAAAATAATTACCA
Found at i:97544 original size:29 final size:29
Alignment explanation
Indices: 97520--97649 Score: 179
Period size: 29 Copynumber: 4.5 Consensus size: 29
97510 TTCGAAATAA
* *
97520 TTACCATAATAGCACCTAAACCGAATTAT
1 TTACCAGAATAGCACCAAAACCGAATTAT
* *
97549 TTACTAGAATAGCACCAAAACTGAATTAT
1 TTACCAGAATAGCACCAAAACCGAATTAT
*
97578 TTACCAGAATAGCACTAAAACCGAATTAT
1 TTACCAGAATAGCACCAAAACCGAATTAT
* *
97607 TTACCAGAGTAGCACCAAAACTGAATTAT
1 TTACCAGAATAGCACCAAAACCGAATTAT
* *
97636 TTTCCAAAATAGCA
1 TTACCAGAATAGCA
97650 TCGGTCAACG
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (29 bp):
TTACCAGAATAGCACCAAAACCGAATTAT
Found at i:97560 original size:58 final size:59
Alignment explanation
Indices: 97491--97649 Score: 164
Period size: 58 Copynumber: 2.7 Consensus size: 59
97481 TTTAAAATAA
* *** *
97491 TTACCAAAATAGCACCCATTTC-GAAATAATTACCATAATAGCACCT-AAACCGAATTAT
1 TTACCAGAATAGCACCCAAAACTGAAATAATTACCAGAATAGCA-CTAAAACCGAATTAT
* * *
97549 TTACTAGAATAGCA-CCAAAACTGAATTATTTACCAGAATAGCACTAAAACCGAATTAT
1 TTACCAGAATAGCACCCAAAACTGAAATAATTACCAGAATAGCACTAAAACCGAATTAT
* * * * *
97607 TTACCAGAGTAGCA-CCAAAACTGAATTATTTTCCAAAATAGCA
1 TTACCAGAATAGCACCCAAAACTGAAATAATTACCAGAATAGCA
97650 TCGGTCAACG
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
57 6 0.07
58 81 0.93
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.26
Consensus pattern (59 bp):
TTACCAGAATAGCACCCAAAACTGAAATAATTACCAGAATAGCACTAAAACCGAATTAT
Found at i:97674 original size:17 final size:18
Alignment explanation
Indices: 97652--97690 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
97642 AAATAGCATC
97652 GGTCAAC-GGTCGGGCCG
1 GGTCAACGGGTCGGGCCG
*
97669 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGCCG
97687 GGTC
1 GGTC
97691 GTGACCTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.10, C:0.26, G:0.49, T:0.15
Consensus pattern (18 bp):
GGTCAACGGGTCGGGCCG
Found at i:103943 original size:17 final size:17
Alignment explanation
Indices: 103921--103958 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
103911 AACGATCAAC
* *
103921 GGTCAATGGTCGGGTCG
1 GGTCAACGGTCAGGTCG
103938 GGTCAACGGTCAGGTCG
1 GGTCAACGGTCAGGTCG
103955 GGTC
1 GGTC
103959 GGGTCAGACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.21, G:0.45, T:0.21
Consensus pattern (17 bp):
GGTCAACGGTCAGGTCG
Found at i:103943 original size:24 final size:23
Alignment explanation
Indices: 103916--103974 Score: 84
Period size: 22 Copynumber: 2.5 Consensus size: 23
103906 AAGTCAACGA
103916 TCAACGGTCAATGGTCGGGTCGGG
1 TCAACGGTCAA-GGTCGGGTCGGG
103940 TCAACGGTC-AGGTCGGGTCGGG
1 TCAACGGTCAAGGTCGGGTCGGG
103962 TCAGACCGGTCAA
1 TCA-A-CGGTCAA
103975 ACCAGTTCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 15 0.47
23 2 0.06
24 14 0.44
25 1 0.03
ACGTcount: A:0.19, C:0.24, G:0.39, T:0.19
Consensus pattern (23 bp):
TCAACGGTCAAGGTCGGGTCGGG
Found at i:103984 original size:19 final size:19
Alignment explanation
Indices: 103962--104013 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
103952 TCGGGTCGGG
103962 TCAGACCGGTCAAACCAG-T
1 TCAGACCGGTCAAA-CAGCT
103981 TCAGACCGGTCAAACAGCT
1 TCAGACCGGTCAAACAGCT
104000 TC-GAACCGGTCAAA
1 TCAG-ACCGGTCAAA
104014 ACCGGTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.13
19 27 0.87
ACGTcount: A:0.33, C:0.31, G:0.21, T:0.15
Consensus pattern (19 bp):
TCAGACCGGTCAAACAGCT
Found at i:111198 original size:7 final size:7
Alignment explanation
Indices: 111186--111216 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
111176 GTCAAAGGAA
111186 GTCAACG
1 GTCAACG
111193 GTCAACG
1 GTCAACG
111200 GTCAACG
1 GTCAACG
111207 GTCAACG
1 GTCAACG
111214 GTC
1 GTC
111217 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:111223 original size:5 final size:5
Alignment explanation
Indices: 111213--111250 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
111203 AACGGTCAAC
* *
111213 GGTCG GGTCG GGTCG GGTC- AGTAG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
111251 AGACCGGTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
4 2 0.07
5 26 0.93
ACGTcount: A:0.05, C:0.18, G:0.55, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:111226 original size:24 final size:24
Alignment explanation
Indices: 111199--111261 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 24
111189 AACGGTCAAC
111199 GGTCAACGGTCAACGGTCGGGTCG
1 GGTCAACGGTCAACGGTCGGGTCG
* *
111223 GGTC--GGGTCAGTAGGGTCGGGTCG
1 GGTCAACGGTCA--ACGGTCGGGTCG
111247 GGTCAGACCGGTCAA
1 GGTCA-A-CGGTCAA
111262 ATCGGTTCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
22 5 0.17
24 19 0.63
26 1 0.03
28 5 0.17
ACGTcount: A:0.16, C:0.22, G:0.44, T:0.17
Consensus pattern (24 bp):
GGTCAACGGTCAACGGTCGGGTCG
Found at i:111259 original size:9 final size:9
Alignment explanation
Indices: 111247--111345 Score: 63
Period size: 9 Copynumber: 10.3 Consensus size: 9
111237 GGTCGGGTCG
*
111247 GGTCAGACC
1 GGTCAAACC
*
111256 GGTCAAATC
1 GGTCAAACC
*
111265 GGTTCAGACC
1 GG-TCAAACC
111275 GGTCAAACC
1 GGTCAAACC
* *
111284 GCTTCGAACC
1 G-GTCAAACC
*
111294 GGTCGGAACC
1 GGTC-AAACC
111304 GGTCAAACC
1 GGTCAAACC
*
111313 TGTCAAAACC
1 GGTC-AAACC
*
111323 GGTTGAAAACC
1 GG-T-CAAACC
*
111334 GGTCAAATC
1 GGTCAAACC
111343 GGT
1 GGT
111346 TTTCCAGCAG
Statistics
Matches: 70, Mismatches: 14, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
9 32 0.46
10 30 0.43
11 8 0.11
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:111259 original size:19 final size:19
Alignment explanation
Indices: 111218--111278 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
111208 TCAACGGTCG
*
111218 GGTCGGGTCGGGTCAGTA-G
1 GGTCGGGTCGGGTCAG-ACC
111237 GGTCGGGTCGGGTCAGACC
1 GGTCGGGTCGGGTCAGACC
*** *
111256 GGTCAAATCGGTTCAGACC
1 GGTCGGGTCGGGTCAGACC
111275 GGTC
1 GGTC
111279 AAACCGCTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
18 1 0.03
19 35 0.97
ACGTcount: A:0.15, C:0.23, G:0.43, T:0.20
Consensus pattern (19 bp):
GGTCGGGTCGGGTCAGACC
Found at i:111279 original size:19 final size:19
Alignment explanation
Indices: 111244--111281 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
111234 TAGGGTCGGG
111244 TCGGGTCAGACCGGTCAAA
1 TCGGGTCAGACCGGTCAAA
*
111263 TCGGTTCAGACCGGTCAAA
1 TCGGGTCAGACCGGTCAAA
111282 CCGCTTCGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.18
Consensus pattern (19 bp):
TCGGGTCAGACCGGTCAAA
Found at i:111294 original size:19 final size:19
Alignment explanation
Indices: 111249--111297 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
111239 TCGGGTCGGG
* *
111249 TCAGACCGGTCAAATCGGT
1 TCAGACCGGTCAAACCGCT
111268 TCAGACCGGTCAAACCGCT
1 TCAGACCGGTCAAACCGCT
111287 TC-GAACCGGTC
1 TCAG-ACCGGTC
111298 GGAACCGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 1 0.04
19 26 0.96
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGCT
Found at i:115967 original size:21 final size:22
Alignment explanation
Indices: 115941--115991 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
115931 TCCAGTACCG
* *
115941 ATACTACTCTTACTA-TTATTA
1 ATACTACTCTTACTAGGTATCA
115962 ATACTACTCTTACTAGGTATCA
1 ATACTACTCTTACTAGGTATCA
115984 ATACTACT
1 ATACTACT
115992 AGCATAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (22 bp):
ATACTACTCTTACTAGGTATCA
Found at i:116042 original size:20 final size:22
Alignment explanation
Indices: 115978--116030 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
115968 CTCTTACTAG
* *
115978 GTATCAATACTACTAGCAT--A
1 GTATCGATACTACTATCATCAA
115998 GTATCGATACTACTATCATCAA
1 GTATCGATACTACTATCATCAA
116020 GTATCGATACT
1 GTATCGATACT
116031 GTTCATGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 17 0.59
22 12 0.41
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (22 bp):
GTATCGATACTACTATCATCAA
Found at i:118443 original size:19 final size:17
Alignment explanation
Indices: 118400--118448 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
118390 TTTTAAGATT
118400 TTATATTCGATTTCAAA
1 TTATATTCGATTTCAAA
118417 TTATATTCGATTTCAAA
1 TTATATTCGATTTCAAA
*
118434 TATCATATTCAATTT
1 T-T-ATATTCGATTT
118449 AATTATTCGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 18 0.62
18 1 0.03
19 10 0.34
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.49
Consensus pattern (17 bp):
TTATATTCGATTTCAAA
Found at i:118822 original size:24 final size:24
Alignment explanation
Indices: 118790--118868 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 24
118780 TACCGGACCG
*
118790 GTATCGATACTACTTTACATAGTA
1 GTATCGATACTACTTCACATAGTA
* *
118814 GTATCGATACTCCTTGA-AT-G--
1 GTATCGATACTACTTCACATAGTA
* *
118834 GTATTGATACTACTACACATAGTA
1 GTATCGATACTACTTCACATAGTA
118858 GTATCGATACT
1 GTATCGATACT
118869 CCTTGAGAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
20 13 0.30
21 2 0.05
22 2 0.05
23 2 0.05
24 25 0.57
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (24 bp):
GTATCGATACTACTTCACATAGTA
Found at i:118854 original size:44 final size:44
Alignment explanation
Indices: 118789--118874 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
118779 GTACCGGACC
**
118789 GGTATCGATACTACTTTACATAGTAGTATCGATACTCCTTGAAT
1 GGTATCGATACTACTACACATAGTAGTATCGATACTCCTTGAAT
*
118833 GGTATTGATACTACTACACATAGTAGTATCGATACTCCTTGA
1 GGTATCGATACTACTACACATAGTAGTATCGATACTCCTTGA
118875 GAGTATAGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (44 bp):
GGTATCGATACTACTACACATAGTAGTATCGATACTCCTTGAAT
Found at i:121493 original size:14 final size:14
Alignment explanation
Indices: 121474--121503 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
121464 TTCTTGTAAT
121474 TAATAATAAAAATA
1 TAATAATAAAAATA
*
121488 TAATAATAAATATA
1 TAATAATAAAAATA
121502 TA
1 TA
121504 TAGGGTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAATAATAAAAATA
Found at i:128383 original size:16 final size:16
Alignment explanation
Indices: 128362--128403 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
128352 TAAAGTGCTT
128362 TGGAAGAATCATAAGA
1 TGGAAGAATCATAAGA
128378 TGGAAGAATCATAAGA
1 TGGAAGAATCATAAGA
128394 TGGAAGAATC
1 TGGAAGAATC
128404 TACTTGGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.48, C:0.07, G:0.26, T:0.19
Consensus pattern (16 bp):
TGGAAGAATCATAAGA
Found at i:128636 original size:8 final size:8
Alignment explanation
Indices: 128623--128653 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
128613 ACCAATTTCT
128623 AAGAATGG
1 AAGAATGG
128631 AAGAATGG
1 AAGAATGG
128639 AAGAATGG
1 AAGAATGG
128647 AAGAATG
1 AAGAATG
128654 AAAGGGGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.35, T:0.13
Consensus pattern (8 bp):
AAGAATGG
Found at i:129512 original size:95 final size:95
Alignment explanation
Indices: 129343--129544 Score: 253
Period size: 95 Copynumber: 2.1 Consensus size: 95
129333 ATTGATGTGG
* * * * * *
129343 GTATCGATACCATGAGGAAGGTATTGATACCATTGATTCCATAATGCATAAATGGTATCGAAACT
1 GTATCGATACCAAGAGAAAGGTATTGATACCATGGATTCCAGAATGCAGAAATGGCATCGAAACT
* * *
129408 GTAATGGAGTATCGGTACTATAGTATATG-A
66 GAAAGGGAGTATCGGTACCATAGTATA-GAA
* * * * *
129438 GTATCGATACTAAGAGAAAGGTATTGATACCATGGATTTCAGAATGTAGAAATGGCGTCGATACT
1 GTATCGATACCAAGAGAAAGGTATTGATACCATGGATTCCAGAATGCAGAAATGGCATCGAAACT
*
129503 GAAAGGGAGTATTGGTACCATAGTATAGAA
66 GAAAGGGAGTATCGGTACCATAGTATAGAA
129533 GTATCGATACCA
1 GTATCGATACCA
129545 TGGTAAGGGT
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 1 0.01
95 89 0.99
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (95 bp):
GTATCGATACCAAGAGAAAGGTATTGATACCATGGATTCCAGAATGCAGAAATGGCATCGAAACT
GAAAGGGAGTATCGGTACCATAGTATAGAA
Found at i:129954 original size:54 final size:54
Alignment explanation
Indices: 129885--130118 Score: 290
Period size: 54 Copynumber: 4.3 Consensus size: 54
129875 CTATGTGTAT
* *
129885 TATAGGCTCTATGTGTGAAACCCACGGAATTCATCATATGTTGATGAACGATCG
1 TATAGGCACTATGTGTGAAACCCACGGAATTCATCATATGTTGATGAACGACCG
* * * *
129939 TATAGGCACTGTGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCG
1 TATAGGCACTATGTGTGAAACCCACGGAATTCATCATATGTTGATGAACGACCG
* *
129993 TATAGGCAATATGTGT-ACAACCCACGGAATTCATCATATGTTAATGAACGACCG
1 TATAGGCACTATGTGTGA-AACCCACGGAATTCATCATATGTTGATGAACGACCG
* * * * * **
130047 TATAGGTACTATGTGTGCAACCCACAGAATTTCATAATATGTTTATGAATAACCG
1 TATAGGCACTATGTGTGAAACCCACGGAA-TTCATCATATGTTGATGAACGACCG
* *
130102 TATCGGCACTACGTGTG
1 TATAGGCACTATGTGTG
130119 CATCTCAATG
Statistics
Matches: 154, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
54 119 0.77
55 35 0.23
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (54 bp):
TATAGGCACTATGTGTGAAACCCACGGAATTCATCATATGTTGATGAACGACCG
Found at i:132541 original size:16 final size:17
Alignment explanation
Indices: 132522--132562 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
132512 TTATATCTAC
*
132522 ACTTTAATAT-CATTAT
1 ACTTTAATATCCACTAT
132538 ACTTTAAT-TCCACTAT
1 ACTTTAATATCCACTAT
132554 ACTTTAATA
1 ACTTTAATA
132563 CCTATGACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (17 bp):
ACTTTAATATCCACTAT
Found at i:141223 original size:17 final size:17
Alignment explanation
Indices: 141201--141256 Score: 112
Period size: 17 Copynumber: 3.3 Consensus size: 17
141191 AACGGTCAAC
141201 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
141218 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
141235 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
141252 GGTCA
1 GGTCA
141257 GACCGGTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.12, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:141320 original size:21 final size:20
Alignment explanation
Indices: 141276--141324 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
141266 AACCGATTCG
141276 AACCGGTTGAAACCGGTCAT
1 AACCGGTTGAAACCGGTCAT
*
141296 AACCCGGTTGAAAACCGGTTA-
1 AA-CCGGTTG-AAACCGGTCAT
141317 AACCGGTT
1 AACCGGTT
141325 TCTCGCAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 9 0.35
22 9 0.35
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (20 bp):
AACCGGTTGAAACCGGTCAT
Found at i:148468 original size:7 final size:7
Alignment explanation
Indices: 148456--148482 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
148446 GTCAAAGAAA
148456 GTCAACG
1 GTCAACG
148463 GTCAACG
1 GTCAACG
148470 GTCAACG
1 GTCAACG
148477 GTCAAC
1 GTCAAC
148483 AGTCGGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:148494 original size:5 final size:5
Alignment explanation
Indices: 148484--148540 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
148474 ACGGTCAACA
* *
148484 GTCGG GTCGG GTCAACG GTCGG GTCGG GTCGG GTCGG GTCAACG GTCGG
1 GTCGG GTCGG GTC--GG GTCGG GTCGG GTCGG GTCGG GTC--GG GTCGG
148533 GTCGG GTC
1 GTCGG GTC
148541 AGACCGGTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 36 0.82
7 8 0.18
ACGTcount: A:0.07, C:0.23, G:0.51, T:0.19
Consensus pattern (5 bp):
GTCGG
Found at i:148521 original size:27 final size:27
Alignment explanation
Indices: 148484--148540 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
148474 ACGGTCAACA
148484 GTCGGGTCGGGTCAACGGTCGGGTCGG
1 GTCGGGTCGGGTCAACGGTCGGGTCGG
148511 GTCGGGTCGGGTCAACGGTCGGGTCGG
1 GTCGGGTCGGGTCAACGGTCGGGTCGG
148538 GTC
1 GTC
148541 AGACCGGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.07, C:0.23, G:0.51, T:0.19
Consensus pattern (27 bp):
GTCGGGTCGGGTCAACGGTCGGGTCGG
Found at i:148530 original size:17 final size:17
Alignment explanation
Indices: 148476--148541 Score: 74
Period size: 17 Copynumber: 4.3 Consensus size: 17
148466 AACGGTCAAC
*
148476 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
148493 GGTCAACGGTCGGGTC-
1 GGTCAACGGTCGGGTCG
148509 -G-----GGTCGGGTCG
1 GGTCAACGGTCGGGTCG
148520 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
148537 GGTCA
1 GGTCA
148542 GACCGGTCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
10 9 0.22
12 1 0.02
15 1 0.02
17 30 0.73
ACGTcount: A:0.12, C:0.23, G:0.47, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:148565 original size:19 final size:18
Alignment explanation
Indices: 148537--148616 Score: 61
Period size: 19 Copynumber: 4.2 Consensus size: 18
148527 GGTCGGGTCG
*
148537 GGTCAGACCGGTCAAACC
1 GGTCAAACCGGTCAAACC
* * *
148555 GATTCGAACCGGTTGAAACC
1 G-GTCAAACCGG-TCAAACC
148575 GGTCAAACCGGTCATAACC
1 GGTCAAACCGGTCA-AACC
* *
148594 GGTTGAAAACCGGTTAAACC
1 GG-T-CAAACCGGTCAAACC
148614 GGT
1 GGT
148617 TTCTAGCAGC
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
18 3 0.06
19 22 0.46
20 14 0.29
21 9 0.19
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (18 bp):
GGTCAAACCGGTCAAACC
Found at i:148574 original size:10 final size:10
Alignment explanation
Indices: 148543--148617 Score: 68
Period size: 9 Copynumber: 7.7 Consensus size: 10
148533 GTCGGGTCAG
148543 ACCGG-TCAA
1 ACCGGTTCAA
* *
148552 ACCGATTCGA
1 ACCGGTTCAA
*
148562 ACCGGTTGAA
1 ACCGGTTCAA
148572 ACCGG-TCAA
1 ACCGGTTCAA
148581 ACCGG-TCATA
1 ACCGGTTCA-A
*
148591 ACCGGTTGAAA
1 ACCGGTT-CAA
148602 ACCGGTT-AA
1 ACCGGTTCAA
148611 ACCGGTT
1 ACCGGTT
148618 TCTAGCAGCC
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
9 24 0.44
10 21 0.38
11 9 0.16
12 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.19
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:148593 original size:29 final size:29
Alignment explanation
Indices: 148543--148616 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
148533 GTCGGGTCAG
*
148543 ACCGGTCAAACCGATTCGAACCGGTTG-AA
1 ACCGGTCAAACCG-GTCGAACCGGTTGAAA
*
148572 ACCGGTCAAACCGGTCATAACCGGTTGAAA
1 ACCGGTCAAACCGGTC-GAACCGGTTGAAA
*
148602 ACCGGTTAAACCGGT
1 ACCGGTCAAACCGGT
148617 TTCTAGCAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 2 0.05
29 22 0.55
30 16 0.40
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (29 bp):
ACCGGTCAAACCGGTCGAACCGGTTGAAA
Done.