Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007916.1 Hibiscus syriacus cultivar Beakdansim tig00110319_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: 3725575
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 16
Found at i:4385 original size:13 final size:13
Alignment explanation
Indices: 4367--4394 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4357 TAAACCTTCA
4367 CATGATATCTACC
1 CATGATATCTACC
4380 CATGATATCTACC
1 CATGATATCTACC
4393 CA
1 CA
4395 ATCATGCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.29
Consensus pattern (13 bp):
CATGATATCTACC
Found at i:16190 original size:20 final size:21
Alignment explanation
Indices: 16165--16216 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
16155 TTTTCCCAAT
*
16165 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
16185 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
16206 TCGCAATGCGA
1 TCGCAATGCGA
16217 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:16230 original size:20 final size:20
Alignment explanation
Indices: 16205--16339 Score: 146
Period size: 20 Copynumber: 6.7 Consensus size: 20
16195 AATTGGGAAA
16205 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
16225 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
16245 ATCGCATTGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
16265 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
16286 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
16306 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
16326 TTCGCAACGCGATA
1 ATCGCAATGCGATA
16340 ATACATAAGC
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.02
20 82 0.83
21 13 0.13
22 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:16290 original size:61 final size:61
Alignment explanation
Indices: 16225--16359 Score: 171
Period size: 61 Copynumber: 2.2 Consensus size: 61
16215 GATACTGACT
** * *
16225 ATCGCAATGCGATACTGACTATCGCATTGCGATACTTACTATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
* * * * * *
16286 ATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATACATA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
*
16347 AGCGCAATGCGAT
1 ATCGCAATGCGAT
16360 TTTCAAAGCG
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (61 bp):
ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
Found at i:16887 original size:20 final size:20
Alignment explanation
Indices: 16833--16891 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
16823 GCGATTCTCT
**
16833 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
16853 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
16873 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
16892 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:17082 original size:25 final size:24
Alignment explanation
Indices: 17028--17082 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
17018 TGTTTATTAT
* *
17028 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
17052 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
17078 TGTTT
1 TGTTT
17083 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:18783 original size:19 final size:20
Alignment explanation
Indices: 18740--18795 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
18730 AGCAACACGA
18740 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
18760 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
18779 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
18796 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:18826 original size:32 final size:33
Alignment explanation
Indices: 18768--18858 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
18758 GGAAATGGCT
18768 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
18801 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
18833 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
18859 TATACGGACA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:18852 original size:19 final size:18
Alignment explanation
Indices: 18768--18858 Score: 74
Period size: 14 Copynumber: 5.4 Consensus size: 18
18758 GGAAATGGCT
18768 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
18787 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
18801 ATCGCAATGCGAAATG-AA
1 ATCGCAA-GCGAAATGAAA
*
18819 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
18833 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
18852 ATCGCAA
1 ATCGCAA
18859 TATACGGACA
Statistics
Matches: 57, Mismatches: 4, Indels: 22
0.69 0.05 0.27
Matches are distributed among these distances:
14 20 0.35
15 1 0.02
16 6 0.11
17 2 0.04
18 11 0.19
19 17 0.30
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:19868 original size:14 final size:14
Alignment explanation
Indices: 19849--19884 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
19839 ATTGTTTAAT
19849 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
19863 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
19877 TGATTTGT
1 TGATTTGT
19885 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:20045 original size:19 final size:19
Alignment explanation
Indices: 20021--20088 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
20011 ATCGCAACGA
20021 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
20040 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
20059 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
20073 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
20089 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:20106 original size:19 final size:20
Alignment explanation
Indices: 20078--20132 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
20068 AACGAGAAAA
20078 TCGCAATGCGATTTTC-ATT
1 TCGCAATGCGATTTTCTATT
*
20097 TCGCATTGCGATTTTCTATT
1 TCGCAATGCGATTTTCTATT
*
20117 T-GCAATAGCCATTTTC
1 TCGCAAT-GCGATTTTC
20133 GCGTTGCGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.61
20 12 0.39
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (20 bp):
TCGCAATGCGATTTTCTATT
Found at i:20200 original size:20 final size:20
Alignment explanation
Indices: 20116--20202 Score: 104
Period size: 20 Copynumber: 4.3 Consensus size: 20
20106 GATTTTCTAT
*
20116 TTGCAATAGCCATTTTCGCG
1 TTGCGATAGCCATTTTCGCG
*** **
20136 TTGCGATTTTTCA-TTTCGAA
1 TTGCGA-TAGCCATTTTCGCG
20156 TTGCGATAGCCATTTTCGCG
1 TTGCGATAGCCATTTTCGCG
20176 TTGCGATAGCCATTTTCGCG
1 TTGCGATAGCCATTTTCGCG
20196 TTGCGAT
1 TTGCGAT
20203 TTCCCAGCTG
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
19 3 0.06
20 48 0.89
21 3 0.06
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATAGCCATTTTCGCG
Found at i:20439 original size:20 final size:20
Alignment explanation
Indices: 20414--20505 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
20404 TTGAAGATGA
20414 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
20434 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
20454 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
20475 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
20495 TTGCGATTTTC
1 TTGCGATTTTC
20506 CAAATTCGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:20534 original size:20 final size:21
Alignment explanation
Indices: 20490--20541 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
20480 ATAGTCAGTA
*
20490 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
20511 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
20531 TCGCATTGCGA
1 TCGCATTGCGA
20542 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:21353 original size:24 final size:24
Alignment explanation
Indices: 21326--21379 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
21316 GTATTCGAAA
*
21326 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
21350 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
21374 TTTGAT
1 TTTGAT
21380 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:21562 original size:3 final size:3
Alignment explanation
Indices: 21554--21610 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
21544 ATATAATCCT
* * * *
21554 GAA GAA GAA AAA GAA GAA GAA AAA GAA GAA GAA AAA GAA GAA GAA AAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
21602 GAA GAA GAA
1 GAA GAA GAA
21611 AAAGTCCCCG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21571 original size:12 final size:12
Alignment explanation
Indices: 21554--21614 Score: 122
Period size: 12 Copynumber: 5.1 Consensus size: 12
21544 ATATAATCCT
21554 GAAGAAGAAAAA
1 GAAGAAGAAAAA
21566 GAAGAAGAAAAA
1 GAAGAAGAAAAA
21578 GAAGAAGAAAAA
1 GAAGAAGAAAAA
21590 GAAGAAGAAAAA
1 GAAGAAGAAAAA
21602 GAAGAAGAAAAA
1 GAAGAAGAAAAA
21614 G
1 G
21615 TCCCCGAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 49 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:23916 original size:19 final size:19
Alignment explanation
Indices: 23894--23952 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
23884 GGAAATTACT
23894 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
23913 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
23927 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
23946 ATCGCAA
1 ATCGCAA
23953 CGCTAATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:24122 original size:14 final size:14
Alignment explanation
Indices: 24103--24139 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
24093 CATCAATTAA
24103 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
24117 ACAAATCACCTTTT
1 ACAAATCAACTTTT
24131 ACAAATCAA
1 ACAAATCAA
24140 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:25553 original size:42 final size:41
Alignment explanation
Indices: 25494--25695 Score: 144
Period size: 42 Copynumber: 4.9 Consensus size: 41
25484 GTGAATCGGG
* *
25494 CTCTTGAATGATGGGAGGGATCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGATGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * * *
25536 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGATGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * *
25578 CTCTTCAACGATAGGG-TGGACTCTTGAGGGATGACAGTGG-
1 CTCTTGAACGAT-GGGAGGGACTCTTCAAGGATGACAGTGGC
* * * *
25618 CTCTTGAACGGTGGGAGGGACTC-TCGAGGAAT-ATAGGGGC
1 CTCTTGAACGATGGGAGGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
25658 CTATTCAACGATAGGAGTGGACTCTTGAGGGATGACAG
1 CTCTTGAACGATGGGAG-GGACTCTTCAAGGATGACAG
25696 GCGAGTCGGC
Statistics
Matches: 120, Mismatches: 30, Indels: 20
0.71 0.18 0.12
Matches are distributed among these distances:
39 11 0.09
40 31 0.26
41 26 0.22
42 45 0.38
43 7 0.06
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGATGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:25679 original size:81 final size:83
Alignment explanation
Indices: 25524--25695 Score: 305
Period size: 81 Copynumber: 2.1 Consensus size: 83
25514 TCTCTTCAAC
*
25524 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTATTCAACGA
25589 TAGGGTGGACTCTTGAGG
66 TAGGGTGGACTCTTGAGG
25607 GATGACAGTGG-CTCTTGAACGGTGGGA-GGGACTCTCGAGGAAT-ATAGGGGCCTATTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTATTCAACGA
25669 TAGGAGTGGACTCTTGAGG
66 TAGG-GTGGACTCTTGAGG
25688 GATGACAG
1 GATGACAG
25696 GCGAGTCGGC
Statistics
Matches: 87, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
80 22 0.25
81 38 0.44
82 16 0.18
83 11 0.13
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.22
Consensus pattern (83 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTATTCAACGA
TAGGGTGGACTCTTGAGG
Found at i:26093 original size:91 final size:90
Alignment explanation
Indices: 25913--26097 Score: 273
Period size: 91 Copynumber: 2.0 Consensus size: 90
25903 ATTTCAAACT
*
25913 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
25978 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
*
26006 TTCAACCAAAAGATAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
* * *
26070 GTATTTGCAGCAGCCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
26097 T
1 T
26098 AAGCAATCTA
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
91 40 0.47
93 18 0.21
95 27 0.32
ACGTcount: A:0.46, C:0.18, G:0.12, T:0.23
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:27853 original size:19 final size:19
Alignment explanation
Indices: 27789--27939 Score: 159
Period size: 19 Copynumber: 8.1 Consensus size: 19
27779 TCTTTTGGTT
*
27789 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
* *
27808 GATAATGAGAATCACAACGC
1 GA-AATGAAAATCGCAACGC
** *
27828 GGAAATGACTATTGCAACGC
1 -GAAATGAAAATCGCAACGC
**
27848 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
27865 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
27881 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
27900 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
27919 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
27938 GA
1 GA
27940 TTTTGGTTTC
Statistics
Matches: 113, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
14 9 0.08
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 69 0.61
20 27 0.24
21 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:27899 original size:52 final size:53
Alignment explanation
Indices: 27814--27917 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 53
27804 ACGAGATAAT
** * **
27814 GAGAATCACAACGCGGAAATGACTATTGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCACAACGCGGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGA
*
27867 GAGAATCGCAACGC-GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCACAACGCGGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACG
27918 CGAAATGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
52 32 0.71
53 13 0.29
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.12
Consensus pattern (53 bp):
GAGAATCACAACGCGGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:27957 original size:19 final size:19
Alignment explanation
Indices: 27935--27982 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
27925 AAAATCGCAA
*
27935 TGCGATTTTGGTTT-CGCGT
1 TGCGATTTT-ATTTCCGCGT
*
27954 TGCGATAGTTATTTCCGCGT
1 TGCGAT-TTTATTTCCGCGT
27974 TGCGATTTT
1 TGCGATTTT
27983 CATTCTCGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.10, C:0.17, G:0.27, T:0.46
Consensus pattern (19 bp):
TGCGATTTTATTTCCGCGT
Found at i:28569 original size:20 final size:20
Alignment explanation
Indices: 28544--28595 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
28534 TTTTGTATTG
28544 TCGCATTGCGATAGTAAGTA
1 TCGCATTGCGATAGTAAGTA
*
28564 TCGCATTGCGATAGTCAGTA
1 TCGCATTGCGATAGTAAGTA
*
28584 TCACATTGCGAT
1 TCGCATTGCGAT
28596 TTTCCCAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (20 bp):
TCGCATTGCGATAGTAAGTA
Found at i:30063 original size:2 final size:2
Alignment explanation
Indices: 30058--30095 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
30048 TCTCTCCTAC
30058 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30096 GTATGTATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30246 original size:2 final size:2
Alignment explanation
Indices: 30239--30278 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
30229 AGATTCATTA
30239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30279 TGCAGTTGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30490 original size:3 final size:3
Alignment explanation
Indices: 30482--30510 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
30472 TATTATCTTT
30482 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
30511 GTAATTTCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:45862 original size:30 final size:31
Alignment explanation
Indices: 45801--45863 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
45791 TATAATGTAT
* * *
45801 TTTTGTCAAAGTAAGTGCTTAAAATTATTTA
1 TTTTATCAAAATAAGTACTTAAAATTATTTA
45832 TTTTATCAAAATAAGTAC-TAAAA-TACTTTA
1 TTTTATCAAAATAAGTACTTAAAATTA-TTTA
45862 TT
1 TT
45864 ACTAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 2 0.07
30 11 0.39
31 15 0.54
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (31 bp):
TTTTATCAAAATAAGTACTTAAAATTATTTA
Found at i:46011 original size:29 final size:30
Alignment explanation
Indices: 45962--46031 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
45952 ATACTTAAAT
* *
45962 TAAAT-ATTTTAAATACATATTTTGACTAA
1 TAAATAATTTTAAATACATATTCTGAATAA
*
45991 -AAATAATTTTAAGTA-ATTATTCTGAATAA
1 TAAATAATTTTAAATACA-TATTCTGAATAA
*
46020 TCAATAATTTTA
1 TAAATAATTTTA
46032 GACATACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 5 0.15
29 19 0.56
30 10 0.29
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (30 bp):
TAAATAATTTTAAATACATATTCTGAATAA
Found at i:46964 original size:24 final size:24
Alignment explanation
Indices: 46937--46988 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
46927 GAGAAAGTGA
*
46937 AAGAGGAAGAAGTGGAAAAAGAGG
1 AAGAGAAAGAAGTGGAAAAAGAGG
**
46961 AAGAGAAAGAAGTGGAGGAAGAGG
1 AAGAGAAAGAAGTGGAAAAAGAGG
46985 AAGA
1 AAGA
46989 AGACAGCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.42, T:0.04
Consensus pattern (24 bp):
AAGAGAAAGAAGTGGAAAAAGAGG
Found at i:46972 original size:9 final size:9
Alignment explanation
Indices: 46937--46991 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 9
46927 GAGAAAGTGA
46937 AAGAGGAAG
1 AAGAGGAAG
* *
46946 AAGTGGAAA
1 AAGAGGAAG
46955 AAGAGGAAG
1 AAGAGGAAG
46964 -AGA--AAG
1 AAGAGGAAG
* *
46970 AAGTGGAGG
1 AAGAGGAAG
46979 AAGAGGAAG
1 AAGAGGAAG
46988 AAGA
1 AAGA
46992 CAGCGGAGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
6 3 0.09
7 2 0.06
8 3 0.09
9 27 0.77
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.04
Consensus pattern (9 bp):
AAGAGGAAG
Found at i:54285 original size:125 final size:127
Alignment explanation
Indices: 54051--54300 Score: 378
Period size: 125 Copynumber: 2.0 Consensus size: 127
54041 GACTAAATGC
* * *
54051 TGATGTGGTATGTACATGTGTGATGTCACATCATCATTTTTAAAAATATTAATTAATAATAAATA
1 TGATGTGGCATGTACACGTGTGATGTCACATCAACATTTTTAAAAATATTAATTAATAATAAATA
* *
54116 AATGTTTTTTACTAAATTAATAACAACCAATCAGATACTGCCACGTGGCACATGAATTTTGT
66 AATATTTTTTACTAAATTAATAACAACCAATCAGATACTACCACGTGGCACATGAATTTTGT
*
54178 TGATGTGGCATGTACACGTGTGATGTCACATCAACATTTTT-TAAA-ATTAATTAATAATAAATA
1 TGATGTGGCATGTACACGTGTGATGTCACATCAACATTTTTAAAAATATTAATTAATAATAAATA
* * * ** *
54241 ATTATTTTTTATTAAATTAATAACAACCAATCATATGTTACCACGTGTCACATGAATTTT
66 AATATTTTTTACTAAATTAATAACAACCAATCAGATACTACCACGTGGCACATGAATTTT
54301 TTATTAAATT
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
125 70 0.63
126 3 0.03
127 38 0.34
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (127 bp):
TGATGTGGCATGTACACGTGTGATGTCACATCAACATTTTTAAAAATATTAATTAATAATAAATA
AATATTTTTTACTAAATTAATAACAACCAATCAGATACTACCACGTGGCACATGAATTTTGT
Found at i:54477 original size:17 final size:18
Alignment explanation
Indices: 54452--54489 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
54442 TTAAATTTAT
*
54452 ATTTAAAATTT-TAATTA
1 ATTTAAAATTTATAACTA
*
54469 ATTTTAAATTTATAACTA
1 ATTTAAAATTTATAACTA
54487 ATT
1 ATT
54490 AATACAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTAAAATTTATAACTA
Found at i:56564 original size:18 final size:18
Alignment explanation
Indices: 56529--56567 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
56519 ATGATCATTA
**
56529 AATTTATTAAAATTTTAT
1 AATTTATTAAAACCTTAT
*
56547 AATTTATTATAACCTTAT
1 AATTTATTAAAACCTTAT
56565 AAT
1 AAT
56568 AATCATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTATTAAAACCTTAT
Found at i:60139 original size:14 final size:14
Alignment explanation
Indices: 60117--60190 Score: 74
Period size: 14 Copynumber: 5.9 Consensus size: 14
60107 TCGTGAACGC
*
60117 TCGGATATGTTCGT
1 TCGGTTATGTTCGT
60131 TCGGTTATGTTCG-
1 TCGGTTATGTTCGT
*
60144 T---TTATGTTTGT
1 TCGGTTATGTTCGT
60155 TCGGTTATGTTCG-
1 TCGGTTATGTTCGT
60168 T---TTATGTTCGT
1 TCGGTTATGTTCGT
60179 TCGGTTATGTTC
1 TCGGTTATGTTC
60191 ATTCATTTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
10 17 0.35
11 2 0.04
13 2 0.04
14 28 0.57
ACGTcount: A:0.09, C:0.12, G:0.26, T:0.53
Consensus pattern (14 bp):
TCGGTTATGTTCGT
Found at i:60149 original size:24 final size:24
Alignment explanation
Indices: 60122--60190 Score: 129
Period size: 24 Copynumber: 2.9 Consensus size: 24
60112 AACGCTCGGA
60122 TATGTTCGTTCGGTTATGTTCGTT
1 TATGTTCGTTCGGTTATGTTCGTT
*
60146 TATGTTTGTTCGGTTATGTTCGTT
1 TATGTTCGTTCGGTTATGTTCGTT
60170 TATGTTCGTTCGGTTATGTTC
1 TATGTTCGTTCGGTTATGTTC
60191 ATTCATTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.55
Consensus pattern (24 bp):
TATGTTCGTTCGGTTATGTTCGTT
Found at i:60646 original size:16 final size:16
Alignment explanation
Indices: 60625--60675 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
60615 GTCTCCAAAG
*
60625 TTTATGTTCTTGTTCA
1 TTTATGTTCGTGTTCA
*
60641 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
60657 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
60671 TTTAT
1 TTTAT
60676 TAAATGAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
14 5 0.16
15 2 0.06
16 25 0.78
ACGTcount: A:0.12, C:0.10, G:0.16, T:0.63
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:61990 original size:12 final size:11
Alignment explanation
Indices: 61894--61994 Score: 60
Period size: 12 Copynumber: 8.4 Consensus size: 11
61884 ATATATATAT
61894 AAATAATAATA
1 AAATAATAATA
*
61905 AAAT-ATAGTA
1 AAATAATAATA
*
61915 AAAAAATCAAATGA
1 AAATAAT--AAT-A
61929 AAATAATTTAATA
1 AAATAA--TAATA
*
61942 TATATATATACATA
1 -AAATA-ATA-ATA
*
61956 TAATAATAATA
1 AAATAATAATA
*
61967 ACATGAATAATA
1 AAAT-AATAATA
61979 AAATAATGAATA
1 AAATAAT-AATA
61991 AAAT
1 AAAT
61995 CCATATAATA
Statistics
Matches: 69, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
10 8 0.12
11 14 0.20
12 21 0.30
13 8 0.12
14 16 0.23
15 1 0.01
16 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (11 bp):
AAATAATAATA
Found at i:62603 original size:222 final size:225
Alignment explanation
Indices: 62207--62620 Score: 807
Period size: 222 Copynumber: 1.9 Consensus size: 225
62197 GAAAGAAAAA
62207 AGAAAATGCTACATTTTATTTCCTTTTCGAATCCTTTACAATAGCTTTGCCTTTGTATCTTCCCG
1 AGAAAATGCTACATTTTATTTCCTTTTCGAATCCTTTACAATAGCTTTGCCTTTGTATCTTCCCG
62272 TGCTTTCCTCTATGTTTTGTGTCTAAATCGTGTCTTACAATGGTGAGTTACAATGGCTATTTATA
66 TGCTTTCCTCTATGTTTTGTGTCTAAATCGTGTCTTACAATGGTGAGTTACAATGGCTATTTATA
62337 GTGCTTGTGGATTCTATCTTTAGGAATTTAAATAATAGTAGAACTCTATCCTA-TTTTAGGAAAA
131 GTGCTTGTGGATTCTATCTTTAGGAATTTAAATAATAGTAGAACTCTATCCTATTTTTAGGAAAA
62401 TTCTAATTTTTAGGAGTTTGAATCCTAAGG
196 TTCTAATTTTTAGGAGTTTGAATCCTAAGG
62431 AGAAAATG-TACATTTTATTTCCTTTTCGAATCCTTTACAATAGCTTTGCCTTTGTATCTTCCCG
1 AGAAAATGCTACATTTTATTTCCTTTTCGAATCCTTTACAATAGCTTTGCCTTTGTATCTTCCCG
62495 TGCTTTCCTCTATGTTTTGTGTCT-AATCGTGTCTTACAATGGTGAGTTACAATGGCTATTTATA
66 TGCTTTCCTCTATGTTTTGTGTCTAAATCGTGTCTTACAATGGTGAGTTACAATGGCTATTTATA
62559 GTGCTTGTGGATTCTATCTTTAGGAATTTAAATAATAGTAGAACTCTATCCTATTTTTAGGA
131 GTGCTTGTGGATTCTATCTTTAGGAATTTAAATAATAGTAGAACTCTATCCTATTTTTAGGA
62621 GTTTGAATCC
Statistics
Matches: 189, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
222 93 0.49
223 88 0.47
224 8 0.04
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (225 bp):
AGAAAATGCTACATTTTATTTCCTTTTCGAATCCTTTACAATAGCTTTGCCTTTGTATCTTCCCG
TGCTTTCCTCTATGTTTTGTGTCTAAATCGTGTCTTACAATGGTGAGTTACAATGGCTATTTATA
GTGCTTGTGGATTCTATCTTTAGGAATTTAAATAATAGTAGAACTCTATCCTATTTTTAGGAAAA
TTCTAATTTTTAGGAGTTTGAATCCTAAGG
Found at i:62618 original size:37 final size:34
Alignment explanation
Indices: 62572--62654 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
62562 CTTGTGGATT
*
62572 CTATCTTTAGGAATTTAAATAATAGTAGAACTCTATC
1 CTATTTTTAGGAATTTAAATAATA--A-AACTCTATC
* * ** *
62609 CTATTTTTAGGAGTTTGAATCCTAAAATTCTATC
1 CTATTTTTAGGAATTTAAATAATAAAACTCTATC
62643 CTATTTTTAGGA
1 CTATTTTTAGGA
62655 GTTTGAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
34 20 0.50
35 1 0.03
37 19 0.47
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (34 bp):
CTATTTTTAGGAATTTAAATAATAAAACTCTATC
Found at i:63861 original size:106 final size:106
Alignment explanation
Indices: 63206--64185 Score: 1283
Period size: 106 Copynumber: 9.5 Consensus size: 106
63196 ATTGTTCCAA
* ** * *
63206 TCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCT-AGAACCGGAAAATTGTTTGTTGACAAC
1 TCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTTGTTTGTTGACAAC
* * * *
63269 CAGCCGTCCCTTCGTTGTGAAGTT-AACTTGTGTTGTCTCGAG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* ** * *
63311 TCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-T--GAA-AT-TTTGTTGACAAACA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
* *
63370 GCGGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCCGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* * * *
63411 TCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAGCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
* *
63475 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT-GAT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* * * *
63515 TCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAGA-TGGGAAGTTG-TTGTTGACAAGCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
*
63578 GCGGTCCCTTCGTC-----GTTGAACTTGCGTTGTCTGAAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
** * *
63614 TCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT-TGTTGTTGACAAGC
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGT-TTGTTGACAACC
* *
63678 AGC-GTCCCTTCGTCGTGAAGTTGAATTTGTG-TGTCTGGAG
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
*
63718 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
*
63783 GCGGTCCCTTCGTCGTGAAGTTGAAGTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* * *
63824 TCCAATATCCTTCGCTGTGAAGTTGAAACTGGCTCTGAAATTGGGAA-ATG-TTGTTGACAACTA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
* * *
63887 GCCGTCCCTTCGT-GTGAAGTTGAACTTGTGTTGTCTTGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
63927 TCCAATA-CCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
63991 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
64032 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
* * * *
64097 GTC-GTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTTGAG
66 G-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
* *
64138 TCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAG
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
64186 CCCCTTCATC
Statistics
Matches: 780, Mismatches: 69, Indels: 51
0.87 0.08 0.06
Matches are distributed among these distances:
98 17 0.02
99 71 0.09
100 69 0.09
101 18 0.02
102 37 0.05
103 70 0.09
104 160 0.21
105 149 0.19
106 188 0.24
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
Found at i:63976 original size:208 final size:208
Alignment explanation
Indices: 63206--64179 Score: 1286
Period size: 208 Copynumber: 4.7 Consensus size: 208
63196 ATTGTTCCAA
* ** *
63206 TCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCT-AGAACCGGAAAATTGTTTGTTGACAAC
1 TCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGA-AATTGGGAAA-TG-TTGTTGACAA-
* *
63269 CAGCCGTCCCTTCGTTGTGAAGTT-AACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
61 CAGCCGTCCCTTCG-TGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAG
** *
63333 TTGAAATTGAATCTG-AA-TGA-AA--T-TTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTT
125 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* *
63392 AAACTTGCGTTGTCCGGAG
190 GAACTTGCGTTGTCTGGAG
* * * *
63411 TCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAG
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATGTTGTTGACAA-CAG
* ** * *
63476 CGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTC-TGATTCCAATATCCTTCGTTGTGAAGTTG
64 CCGTCCCTTCGT-GTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTG
* * * *
63540 AAATTGACTCTGAGA-TGGGAAGTTG-TTGTTGACAAGCAGCGGTCCCTTCGTC-----GTTGAA
128 AAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
63598 CTTGCGTTGTCTGAAG
193 CTTGCGTTGTCTGGAG
** * *
63614 TCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTGTTGTTGACAAGCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA--ATGTTGTTGACAA-CA
* *
63679 G-CGTCCCTTCGTCGTGAAGTTGAATTTGTG-TGTCTGGAGTCCAATATCCTTCGCTGTGAAGTT
63 GCCGTCCCTTCGT-GTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTT
* *
63742 GAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
127 GAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
*
63807 AGTTGCGTTGTCTGGAG
192 ACTTGCGTTGTCTGGAG
*
63824 TCCAATATCCTTCGCTGTGAAGTTGAAACTGGCTCTGAAATTGGGAAATGTTGTTGACAACTAGC
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTGTTGACAAC-AGC
*
63889 CGTCCCTTCGTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATA-CCTTCGATGTGAAGTTGAA
65 CGTCCCTTCGTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAA
63953 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
130 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
64018 TGCGTTGTCTGGAG
195 TGCGTTGTCTGGAG
*
64032 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACAACCA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TG-TTGTTGACAA-CA
* * *
64097 GTCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCATTCGCTGTGAAGTT
63 GCCGTCCCTTC-GTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTT
64162 GAAATTGGCTCTGAAATT
127 GAAATTGGCTCTGAAATT
64180 AGGAAGCCCC
Statistics
Matches: 687, Mismatches: 55, Indels: 47
0.87 0.07 0.06
Matches are distributed among these distances:
202 4 0.01
203 127 0.18
204 96 0.14
205 78 0.11
206 4 0.01
207 1 0.00
208 197 0.29
209 28 0.04
210 84 0.12
211 36 0.05
212 32 0.05
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (208 bp):
TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTGTTGACAACAGCC
GTCCCTTCGTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
GCGTTGTCTGGAG
Found at i:64066 original size:314 final size:312
Alignment explanation
Indices: 63206--64184 Score: 1341
Period size: 314 Copynumber: 3.2 Consensus size: 312
63196 ATTGTTCCAA
* ** *
63206 TCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCT-AGAACCGGAAAATTGTTTGTTGACAAC
1 TCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGA-AATTGGGAAA-TG-TTGTTGACAA-
* *
63269 CAGCCGTCCCTTCGTTGTGAAGTT-AACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAG
61 CAGCCGTCCCTTCG-TGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGATGTGAAG
** *
63333 TTGAAATTGAATCTG-AA-TGA-AA--TTTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTA
125 TTGAAATTGGCTCTGAAATTGAGAAGTTTTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTG
* * * *
63393 AACTTGCGTTGTCCGGAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATTGGGAA
190 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
* * *
63458 GTTG-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGAT
255 GTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAG
* * * *
63515 TCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAGA-TGGGAAGTTGTTGTTGACAAGCAG
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATGTTGTTGACAA-CAG
* * *
63579 CGGTCCCTTC--GT--CGTTGAACTTGCGTTGTC-TGAAGTCCAATATCCTTC-ATTGTGAAGTT
64 CCGTCCCTTCGTGTGAAGTTGAACTTGTGTTGTCTTG-AGTCCAATATCCTTCGA-TGTGAAGTT
*
63638 GAAATTGGCTCTGAAATTGAGAAGTTTGTTGTTGACAAGCAGC-GTCCCTTCGTCGTGAAGTTGA
127 GAAATTGGCTCTGAAATTGAGAAGTTT-TTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGA
* *
63702 ATTTGTG-TGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
191 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
* *
63766 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAGTTGCGTTGTCTGGAG
256 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAG
*
63824 TCCAATATCCTTCGCTGTGAAGTTGAAACTGGCTCTGAAATTGGGAAATGTTGTTGACAACTAGC
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTGTTGACAAC-AGC
63889 CGTCCCTTCGTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATA-CCTTCGATGTGAAGTTGAA
65 CGTCCCTTCGTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGATGTGAAGTTGAA
*
63953 ATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
130 ATTGGCTCTGAAATTGAGAAGTT-TTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACT
* *
64018 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTG
194 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
* * *
64083 TTTGTTGACAACCAGTC-GTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTTGAG
259 TTTGTTGACAACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGAG
* *
64138 TCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAA
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
64185 GCCCCTTCAT
Statistics
Matches: 595, Mismatches: 48, Indels: 49
0.86 0.07 0.07
Matches are distributed among these distances:
302 4 0.01
303 47 0.08
304 4 0.01
305 3 0.01
306 2 0.00
307 78 0.13
308 80 0.13
309 108 0.18
310 8 0.01
311 2 0.00
312 54 0.09
313 53 0.09
314 150 0.25
315 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (312 bp):
TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTGTTGACAACAGCC
GTCCCTTCGTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGATGTGAAGTTGAAA
TTGGCTCTGAAATTGAGAAGTTTTTGTTGACAAACAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
CGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTT
TGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAG
Found at i:64787 original size:19 final size:19
Alignment explanation
Indices: 64763--64801 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
64753 GTTGAGTGTA
64763 ACGATTCAGATGATGCTTC
1 ACGATTCAGATGATGCTTC
64782 ACGATTCAGATGATGCTTC
1 ACGATTCAGATGATGCTTC
64801 A
1 A
64802 AGAGAAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (19 bp):
ACGATTCAGATGATGCTTC
Found at i:65334 original size:18 final size:18
Alignment explanation
Indices: 65308--65342 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
65298 GTAGAATCCT
*
65308 CAAATATGCCCCAATATC
1 CAAAAATGCCCCAATATC
65326 CAAAAATGCCCCAATAT
1 CAAAAATGCCCCAATAT
65343 TTGATATTGA
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:0.43, C:0.31, G:0.06, T:0.20
Consensus pattern (18 bp):
CAAAAATGCCCCAATATC
Found at i:65679 original size:22 final size:22
Alignment explanation
Indices: 65654--65704 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
65644 TTGTGTTTGG
*
65654 TCAAGGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
65676 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
65698 TCAAAGG
1 TCAAAGG
65705 ATTGATGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:66339 original size:13 final size:13
Alignment explanation
Indices: 66323--66366 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
66313 CCCTTTTTTA
66323 TTTTTGTTCTTTC
1 TTTTTGTTCTTTC
66336 TTTTTGTT-TTT-
1 TTTTTGTTCTTTC
66347 TTTTTGCTTCTTTTC
1 TTTTTG-TTC-TTTC
66362 TTTTT
1 TTTTT
66367 TTGGTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 6 0.22
12 5 0.19
13 8 0.30
14 3 0.11
15 5 0.19
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (13 bp):
TTTTTGTTCTTTC
Found at i:66345 original size:26 final size:26
Alignment explanation
Indices: 66317--66366 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
66307 TTTTGTCCCT
66317 TTTTTATTTTTG-TTC-TTTCTTTTTG
1 TTTTT-TTTTTGCTTCTTTTCTTTTTG
66342 TTTTTTTTTTGCTTCTTTTCTTTTT
1 TTTTTTTTTTGCTTCTTTTCTTTTT
66367 TTGGTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.26
25 8 0.35
26 9 0.39
ACGTcount: A:0.02, C:0.10, G:0.06, T:0.82
Consensus pattern (26 bp):
TTTTTTTTTTGCTTCTTTTCTTTTTG
Found at i:66347 original size:21 final size:20
Alignment explanation
Indices: 66315--66369 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
66305 TTTTTTGTCC
*
66315 CTTTTTTATTTTTGTT-CTTT
1 CTTTTTTTTTTTTGTTGC-TT
*
66335 CTTTTTGTTTTTTTTTTGCTT
1 CTTTTT-TTTTTTTGTTGCTT
*
66356 CTTTTCTTTTTTTG
1 CTTTTTTTTTTTTG
66370 GTTTTTGCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 13 0.45
21 15 0.52
22 1 0.03
ACGTcount: A:0.02, C:0.11, G:0.07, T:0.80
Consensus pattern (20 bp):
CTTTTTTTTTTTTGTTGCTT
Found at i:66374 original size:25 final size:24
Alignment explanation
Indices: 66323--66375 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
66313 CCCTTTTTTA
**
66323 TTTTTGTTCTTTCTTTTTGTTTTT
1 TTTTTGTTCTTTCTTTTTGTTGGT
66347 TTTTTGCTTCTTTTCTTTTT-TTGGT
1 TTTTTG-TTC-TTTCTTTTTGTTGGT
66372 TTTT
1 TTTT
66376 GCCCTATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 10 0.40
26 9 0.36
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.81
Consensus pattern (24 bp):
TTTTTGTTCTTTCTTTTTGTTGGT
Found at i:70083 original size:2 final size:2
Alignment explanation
Indices: 70078--70120 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
70068 AAAGGAAAAA
70078 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70119 AT
1 AT
70121 CAAAGTATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70357 original size:24 final size:26
Alignment explanation
Indices: 70305--70358 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
70295 GTTTTTTTTT
70305 TAAAAAAAATAAAATAATAATAATGAA
1 TAAAAAAAATAAAATAATAATAA-GAA
70332 TAAAAAAACA-AAAATAATAA-AA-AA
1 TAAAAAAA-ATAAAATAATAATAAGAA
70356 TAA
1 TAA
70359 TATAAAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.19
26 2 0.08
27 18 0.69
28 1 0.04
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (26 bp):
TAAAAAAAATAAAATAATAATAAGAA
Found at i:90003 original size:30 final size:30
Alignment explanation
Indices: 89967--90030 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
89957 GTAACACATG
* * *
89967 ACTTGATTGTTACTATCGATTAATTGAGTC
1 ACTTGATTGTTACAATCAATTAATAGAGTC
*
89997 ACTTGATTGTTACAATCAATTAATAGAGTT
1 ACTTGATTGTTACAATCAATTAATAGAGTC
90027 ACTT
1 ACTT
90031 AATAGTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.42
Consensus pattern (30 bp):
ACTTGATTGTTACAATCAATTAATAGAGTC
Found at i:90347 original size:15 final size:16
Alignment explanation
Indices: 90316--90349 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
90306 TGTATCTTTT
*
90316 TAAATTAATTGATTAA
1 TAAATTAAATGATTAA
90332 TAAATTAAAT-ATTAA
1 TAAATTAAATGATTAA
90347 TAA
1 TAA
90350 TTTATCTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TAAATTAAATGATTAA
Found at i:95664 original size:2 final size:2
Alignment explanation
Indices: 95657--95719 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
95647 TATTCACTCA
95657 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95699 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
95720 AACTTGACTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:95924 original size:38 final size:38
Alignment explanation
Indices: 95863--95938 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
95853 GAAAAATGAT
* * *
95863 AATTTTAGGGTTGAATTATATATTTAATCACCTAACTG
1 AATTTTAGGGGTGAAATACATATTTAATCACCTAACTG
95901 AATTTTAGGGGTGAAATACATATTTAATCACCTAACTG
1 AATTTTAGGGGTGAAATACATATTTAATCACCTAACTG
95939 TTCGAAAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (38 bp):
AATTTTAGGGGTGAAATACATATTTAATCACCTAACTG
Found at i:102123 original size:19 final size:19
Alignment explanation
Indices: 102099--102136 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
102089 TGAACTGGTT
102099 TGACCCGTTAACTTTGACC
1 TGACCCGTTAACTTTGACC
*
102118 TGACCCGTTGACTTTGACC
1 TGACCCGTTAACTTTGACC
102137 AGAGTTTACC
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:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (19 bp):
TGACCCGTTAACTTTGACC
Found at i:104877 original size:34 final size:32
Alignment explanation
Indices: 104815--104921 Score: 85
Period size: 34 Copynumber: 3.2 Consensus size: 32
104805 TGGTAAGAAA
* *
104815 TTTATTTTTATGTTAGTAT-TTT-TTTAAATAGT
1 TTTATTTTTAT-TTAATATATTTATATAAATA-T
*
104847 TTTATTTTTATATTAATATATTTATGTAAATAT
1 TTTATTTTTAT-TTAATATATTTATATAAATAT
* *
104880 TATT-TTTTTATTAAAATAATATTTATATAATTATT
1 T-TTATTTTTATT-TAAT-ATATTTATATAAATA-T
104915 TTTATTT
1 TTTATTT
104922 AGAATTAATT
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
32 18 0.29
33 15 0.24
34 24 0.39
35 5 0.08
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (32 bp):
TTTATTTTTATTTAATATATTTATATAAATAT
Found at i:104886 original size:31 final size:31
Alignment explanation
Indices: 104848--104919 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
104838 TTAAATAGTT
* *
104848 TTATTTTTATATTAATATATTTATGTAAAT-A
1 TTATTTTTATATTAAAATA-ATATGTAAATAA
* * *
104879 TTATTTTTTTATTAAAATAATATTTATATAA
1 TTATTTTTATATTAAAATAATATGTAAATAA
104910 TTATTTTTAT
1 TTATTTTTAT
104920 TTAGAATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 7 0.21
31 27 0.79
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (31 bp):
TTATTTTTATATTAAAATAATATGTAAATAA
Found at i:105081 original size:17 final size:17
Alignment explanation
Indices: 105059--105112 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
105049 AATGTTAATA
105059 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
105076 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
105093 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
105110 TTT
1 TTT
105113 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:106669 original size:21 final size:21
Alignment explanation
Indices: 106639--106686 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
106629 GCAGGGGTAC
* *
106639 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
106660 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
106681 ATGCCA
1 ATGCCA
106687 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:106716 original size:21 final size:21
Alignment explanation
Indices: 106690--106762 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
106680 TATGCCATCT
*
106690 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
106711 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
106732 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
106753 CCGCAGGGTT
1 CCGCAGGGTT
106763 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:107343 original size:33 final size:34
Alignment explanation
Indices: 107284--107380 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
107274 AAATGTTTTT
*
107284 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
107318 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
107351 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
107381 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:107387 original size:34 final size:33
Alignment explanation
Indices: 107282--107387 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
107272 ATAAATGTTT
*
107282 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
107316 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
107348 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
107383 TTAAA
1 TTAAA
107388 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:108005 original size:128 final size:128
Alignment explanation
Indices: 107777--108149 Score: 728
Period size: 128 Copynumber: 2.9 Consensus size: 128
107767 TTACCTTATT
107777 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
107842 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
107905 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
107970 TGACGAAATAATGGAAGGCGCGCCCCCCGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
108033 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
108098 TGACGCAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
108150 ACTCCGATTA
Statistics
Matches: 242, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 242 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:108233 original size:8 final size:8
Alignment explanation
Indices: 108220--108260 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
108210 TCACAATCTT
108220 TCAAATTC
1 TCAAATTC
108228 TCAAATTC
1 TCAAATTC
* *
108236 ACAAACTC
1 TCAAATTC
108244 T-AAATTC
1 TCAAATTC
108251 TCAAATTC
1 TCAAATTC
108259 TC
1 TC
108261 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:121672 original size:22 final size:22
Alignment explanation
Indices: 121641--121691 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
121631 CTGAGTGGCA
121641 TATGAAATTTGTCCCGAAGGACC
1 TATG-AATTTGTCCCGAAGGACC
*
121664 TGTGAATTTGTCCCGAAGGACC
1 TATGAATTTGTCCCGAAGGACC
121686 TATGAA
1 TATGAA
121692 ACCCTCGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (22 bp):
TATGAATTTGTCCCGAAGGACC
Found at i:123315 original size:21 final size:21
Alignment explanation
Indices: 123289--123344 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
123279 TTAACCTTGA
123289 TGCATCGATGCACTATGAATG
1 TGCATCGATGCACTATGAATG
123310 TGCATCGATGCACTATGAATG
1 TGCATCGATGCACTATGAATG
123331 TGCATCGATGCACT
1 TGCATCGATGCACT
123345 CTGCCCAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (21 bp):
TGCATCGATGCACTATGAATG
Found at i:126503 original size:22 final size:22
Alignment explanation
Indices: 126472--126543 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
126462 CTGAGTGGCA
126472 TATGAAATTTGTCCCGAAGGACC
1 TATG-AATTTGTCCCGAAGGACC
*
126495 TGTGAATTTGTCCCGAAGGACC
1 TATGAATTTGTCCCGAAGGACC
*
126517 TATG-AGTTGTCCCGAAGGACC
1 TATGAATTTGTCCCGAAGGACC
126538 TATGAA
1 TATGAA
126544 ACCCTCGACT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 20 0.44
22 22 0.49
23 3 0.07
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (22 bp):
TATGAATTTGTCCCGAAGGACC
Found at i:126528 original size:21 final size:21
Alignment explanation
Indices: 126480--126542 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
126470 CATATGAAAT
* *
126480 TTGTCCCGAAGGACCTGTGAAT
1 TTGTCCCGAAGGACCTATG-AG
126502 TTGTCCCGAAGGACCTATGAG
1 TTGTCCCGAAGGACCTATGAG
126523 TTGTCCCGAAGGACCTATGA
1 TTGTCCCGAAGGACCTATGA
126543 AACCCTCGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 21 0.54
22 18 0.46
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAG
Found at i:128167 original size:21 final size:21
Alignment explanation
Indices: 128141--128196 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
128131 TTAACCTTGA
128141 TGCATCGATGCACTATGAATG
1 TGCATCGATGCACTATGAATG
128162 TGCATCGATGCACTATGAATG
1 TGCATCGATGCACTATGAATG
128183 TGCATCGATGCACT
1 TGCATCGATGCACT
128197 CTGCCCAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (21 bp):
TGCATCGATGCACTATGAATG
Found at i:128947 original size:77 final size:77
Alignment explanation
Indices: 128820--128976 Score: 314
Period size: 77 Copynumber: 2.0 Consensus size: 77
128810 TCATTGAACT
128820 ATTCAATTATCCTACTTTAATCACCAATTTCTGAAACTTTATAATTTGATCACTAACCCGGTATT
1 ATTCAATTATCCTACTTTAATCACCAATTTCTGAAACTTTATAATTTGATCACTAACCCGGTATT
128885 GAGGATGTTACA
66 GAGGATGTTACA
128897 ATTCAATTATCCTACTTTAATCACCAATTTCTGAAACTTTATAATTTGATCACTAACCCGGTATT
1 ATTCAATTATCCTACTTTAATCACCAATTTCTGAAACTTTATAATTTGATCACTAACCCGGTATT
128962 GAGGATGTTACA
66 GAGGATGTTACA
128974 ATT
1 ATT
128977 GATATCATCA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 80 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.38
Consensus pattern (77 bp):
ATTCAATTATCCTACTTTAATCACCAATTTCTGAAACTTTATAATTTGATCACTAACCCGGTATT
GAGGATGTTACA
Found at i:135074 original size:27 final size:27
Alignment explanation
Indices: 135044--135097 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
135034 TATTTATATG
*
135044 TTTTAAATAAAAATTATCTTTTATGTT
1 TTTTAAATAAAAATCATCTTTTATGTT
* * *
135071 TTTTTATTAGAAATCATCTTTTATGTT
1 TTTTAAATAAAAATCATCTTTTATGTT
135098 AAATTTAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (27 bp):
TTTTAAATAAAAATCATCTTTTATGTT
Found at i:144363 original size:2 final size:2
Alignment explanation
Indices: 144356--144383 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
144346 CAATAAATAA
144356 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
144384 TACAATAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:165633 original size:22 final size:22
Alignment explanation
Indices: 165608--165651 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
165598 ACGATCTTAA
165608 ATCTATATAAAACTAAATAGAT
1 ATCTATATAAAACTAAATAGAT
165630 ATCTATATAAAACTAAATAGAT
1 ATCTATATAAAACTAAATAGAT
165652 TTTATATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.32
Consensus pattern (22 bp):
ATCTATATAAAACTAAATAGAT
Found at i:166262 original size:2 final size:2
Alignment explanation
Indices: 166255--166304 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
166245 TTTTATAAGA
166255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
166297 AT AT AT AT
1 AT AT AT AT
166305 GTGTGTGTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:166309 original size:2 final size:2
Alignment explanation
Indices: 166304--166344 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
166294 TATATATATA
166304 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
166345 CTAAAAACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:166527 original size:33 final size:33
Alignment explanation
Indices: 166490--166554 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
166480 TGGAAATTTC
*
166490 ATCTTGGTTGGTGGTC-AACTTATTGAAAAATTA
1 ATCTTGGTTGGTGG-CAAACTCATTGAAAAATTA
*
166523 ATCTTGGTTGGTGGCAAACTCATTGGAAAATT
1 ATCTTGGTTGGTGGCAAACTCATTGAAAAATT
166555 CTTTGGTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (33 bp):
ATCTTGGTTGGTGGCAAACTCATTGAAAAATTA
Found at i:169647 original size:2 final size:2
Alignment explanation
Indices: 169642--169696 Score: 67
Period size: 2 Copynumber: 27.5 Consensus size: 2
169632 TTTACTTTAG
* * *
169642 TA TA TA TA TA TA TA TA TA TA T- TA GA TCA CA CA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
169684 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
169697 GTTAATTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
1 1 0.02
2 45 0.96
3 1 0.02
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:169974 original size:20 final size:20
Alignment explanation
Indices: 169946--169983 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
169936 ATGTCTTTTA
169946 TTTTATTTATTTATTTTTCT
1 TTTTATTTATTTATTTTTCT
*
169966 TTTTGTTTATTTATTTTT
1 TTTTATTTATTTATTTTT
169984 ATTTAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTTATTTATTTATTTTTCT
Found at i:169974 original size:24 final size:25
Alignment explanation
Indices: 169926--169983 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
169916 TTTTATGAAC
169926 TTTATTTTTTATGTCTTTTATTTTA
1 TTTATTTTTTATGTCTTTTATTTTA
169951 TTTATTTATTT-T-TCTTTT-TGTTTA
1 TTTATTT-TTTATGTCTTTTAT-TTTA
169975 TTTATTTTT
1 TTTATTTTT
169984 ATTTAATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.10
24 17 0.55
25 8 0.26
26 3 0.10
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.79
Consensus pattern (25 bp):
TTTATTTTTTATGTCTTTTATTTTA
Found at i:174316 original size:183 final size:183
Alignment explanation
Indices: 174008--174361 Score: 582
Period size: 183 Copynumber: 1.9 Consensus size: 183
173998 ATTAAATCCG
174008 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAAGAAACTCGAAAGCCCTGGCTTAATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAAGAAACTCGAAAGCCCTGGCTTAATGA
* * *
174073 ATAGATTACATTCAAACCATGACATTGATCAAACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTAAAACCATGACATTGATCAAACACTTGGCAATTCGATGTTTGCTCCACTACTT
174138 TTGTCAGGCCAAAAACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAAACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
* * *
174191 TAAAGCTGAGTTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAAGAAACTCGAAAGCCCTGGCTTAATGA
* * * * *
174256 ATAGATTACGTTAAAACCATGACATTGCTCGAACACTTGGTAATTTGATGTTTGCTCCACTACTT
66 ATAGATTACATTAAAACCATGACATTGATCAAACACTTGGCAATTCGATGTTTGCTCCACTACTT
* * *
174321 TTGTCAGGCTAAAGACTTTGTGTTGAGACGAACCCTTCAGT
131 TTGTCAGGCCAAAAACTTTGTGATGAGACGAACCCTTCAGT
174362 TAAACTTGGT
Statistics
Matches: 157, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
183 157 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAAGAAACTCGAAAGCCCTGGCTTAATGA
ATAGATTACATTAAAACCATGACATTGATCAAACACTTGGCAATTCGATGTTTGCTCCACTACTT
TTGTCAGGCCAAAAACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
Found at i:175548 original size:36 final size:36
Alignment explanation
Indices: 175473--175554 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 36
175463 CTGCAGATGA
* * * * * *
175473 TTATCTAACTTGTGATTGTTTTTCTTAAAGCATACT
1 TTATCTCACTTGAGACTGTTTTACTAAAAGAATACT
175509 TTATCTCACTTGAGACTGTTTTACTCAAAAGAATA-T
1 TTATCTCACTTGAGACTGTTTTACT-AAAAGAATACT
*
175545 TTATTTCACT
1 TTATCTCACT
175555 CAAGTTTGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
36 31 0.82
37 7 0.18
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (36 bp):
TTATCTCACTTGAGACTGTTTTACTAAAAGAATACT
Found at i:175588 original size:72 final size:72
Alignment explanation
Indices: 175486--175738 Score: 276
Period size: 72 Copynumber: 3.5 Consensus size: 72
175476 TCTAACTTGT
* * * * *
175486 GATTGTTTTTCTTAAAGCATACTTTATCTCACTTGAGACTGTTTTACTCAAAAGAATATTTATTT
1 GATTGTTTCTCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTCAAAAGAAGATTTATTT
175551 CACTCAA
66 CACTCAA
* * * *
175558 GTTTGCTTTGT-TTAAAACAGACTTTGTCTCACCTGAGACTGTTTTACTCGAAAGAAGATTTATT
1 GATTG-TTTCTCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTCAAAAGAAGATTTATT
*
175622 ACACTCAA
65 TCACTCAA
* * * * **
175630 GACTGTTTTTCTTAAAACCAGA-TTTGTCTCTCTTGGGACCATTTTCACTCAAAAGAAGATTTAT
1 GATTGTTTCTCTTAAAA-CAGACTTTGTCTCACTTGAGACTGTTTT-ACTCAAAAGAAGATTTAT
*
175694 TTCAGTCAA
64 TTCACTCAA
* * * *
175703 GATTGTTTCTCTTGAAACAAATTTTGTCTCTCTTGA
1 GATTGTTTCTCTTAAAACAGACTTTGTCTCACTTGA
175739 AACAAATTTC
Statistics
Matches: 151, Mismatches: 25, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
71 4 0.03
72 88 0.58
73 59 0.39
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (72 bp):
GATTGTTTCTCTTAAAACAGACTTTGTCTCACTTGAGACTGTTTTACTCAAAAGAAGATTTATTT
CACTCAA
Found at i:175734 original size:21 final size:21
Alignment explanation
Indices: 175705--175759 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
175695 TCAGTCAAGA
*
175705 TTGTTTCTCTTGAAACAAATT
1 TTGTCTCTCTTGAAACAAATT
175726 TTGTCTCTCTTGAAACAAATT
1 TTGTCTCTCTTGAAACAAATT
* *
175747 TCGTCTCCCTTGA
1 TTGTCTCTCTTGA
175760 GACATTCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.44
Consensus pattern (21 bp):
TTGTCTCTCTTGAAACAAATT
Found at i:175871 original size:65 final size:65
Alignment explanation
Indices: 175786--175936 Score: 169
Period size: 65 Copynumber: 2.3 Consensus size: 65
175776 ACTAAGTTTC
*
175786 GTCTCTCTTGAGACAATTTCTCTTGAAACATAAA-CATTGAAAACATTTCCCTTGAAATGAATTT
1 GTCTCTCTTAAGACAATTTCTCTTGAAACA-AAATCATTGAAAACATTTCCCTTGAAATGAATTT
175850 T
65 T
* * * * ** ** *
175851 GTCTCTCTTAAGATAGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCCCTTGAAACAAATTTC
1 GTCTCTCTTAAGACAATTTCTCTTGAAACAAAATCATTGAAAACATTTCCCTTGAAATGAATTTT
* * *
175916 GTCTCCCTTGAGACATTTTCT
1 GTCTCTCTTAAGACAATTTCT
175937 TTTGGAACTA
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
64 3 0.04
65 68 0.96
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (65 bp):
GTCTCTCTTAAGACAATTTCTCTTGAAACAAAATCATTGAAAACATTTCCCTTGAAATGAATTTT
Found at i:175975 original size:167 final size:166
Alignment explanation
Indices: 175734--176055 Score: 536
Period size: 167 Copynumber: 1.9 Consensus size: 166
175724 TTTTGTCTCT
175734 CTTGAAACAAATTTCGTCTCCCTTGAGACATTCTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGA
1 CTTGAAACAAATTTCGTCTCCCTTGAGACATTCTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGA
*
175799 CAATTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTAAGA
66 CAATTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTAAGA
* *
175864 TAGTTTCTCTTGAAACAAAATCTTTGAATATGTTTCC
131 TAGGTTCCCTTGAAACAAAAT-TTTGAATATGTTTCC
* * * * *
175901 CTTGAAACAAATTTCGTCTCCCTTGAGACATTTTCTTTTGGAACTAAGTTTTGTTTCTTTTGAGA
1 CTTGAAACAAATTTCGTCTCCCTTGAGACATTCTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGA
* * *
175966 TAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGA
66 CAATTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTAAGA
176031 TAGGTTCCCTTGAAACAAAATTTTG
131 TAGGTTCCCTTGAAACAAAATTTTG
176056 TCTCCCTTGA
Statistics
Matches: 144, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
166 4 0.03
167 140 0.97
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (166 bp):
CTTGAAACAAATTTCGTCTCCCTTGAGACATTCTCTTTTAGAACTAAGTTTCGTCTCTCTTGAGA
CAATTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTAAGA
TAGGTTCCCTTGAAACAAAATTTTGAATATGTTTCC
Found at i:176002 original size:102 final size:102
Alignment explanation
Indices: 175832--176217 Score: 364
Period size: 102 Copynumber: 3.8 Consensus size: 102
175822 TTGAAAACAT
** * * * *
175832 TTCCCTTGAAA-TGAATTTTGTCTCTCTTAAGATAGTTTCTCTTGAAACA-AAATCTTTGAATAT
1 TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CATTGAAAAC
* **
175895 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACATT
65 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGG
** * * * * * *
175933 TTCTTTTGGAACTAAGTTTTGTTTCTTTTGAGATAGTTTCTCTTGAAACATAAACATTAAAAACA
1 TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACA
** * * *
175998 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGG
66 TTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGG
* *
176035 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
1 TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACA
** ** * * * * *
176100 TTTCCCTTGAAATGAATTTTTTCACTCATGAGATAGT
66 TTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGG
* * * * * * *
176137 TTCCCTTGAAAC-AAATTTTATCTCCCTTGAGACAATTTCTCTTTAAGCATAAACTTTGAAAACA
1 TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACA
*
176201 TTTTCCTTTGAAACAAA
66 -TTTCCCTTGAAACAAA
176218 ATCTTTGAAT
Statistics
Matches: 240, Mismatches: 42, Indels: 5
0.84 0.15 0.02
Matches are distributed among these distances:
101 55 0.23
102 182 0.76
103 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (102 bp):
TTCCCTTGAAACAAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACA
TTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACAGG
Found at i:176059 original size:37 final size:37
Alignment explanation
Indices: 175999--176084 Score: 111
Period size: 37 Copynumber: 2.4 Consensus size: 37
175989 TTAAAAACAT
** * *
175999 TTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAGG
1 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGG
*
176035 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGT
1 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGG
*
176072 TTCTCTTGAAACA
1 TTCCCTTGAAACA
176085 TAAACATTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 11 0.26
37 32 0.74
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGG
Found at i:176168 original size:36 final size:36
Alignment explanation
Indices: 176100--176168 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
176090 ATTGAAAACA
** * *
176100 TTTCCCTTGAAATGAATTTTTTCACTCATGAGATAG
1 TTTCCCTTGAAACAAATTTTATCACCCATGAGATAG
* *
176136 TTTCCCTTGAAACAAATTTTATCTCCCTTGAGA
1 TTTCCCTTGAAACAAATTTTATCACCCATGAGA
176169 CAATTTCTCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTATCACCCATGAGATAG
Found at i:176302 original size:21 final size:21
Alignment explanation
Indices: 176278--176339 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
176268 TTCTTTTGGA
176278 AGTTTTTGTCTCTCTTGAGAC
1 AGTTTTTGTCTCTCTTGAGAC
*
176299 AG----T-T-TCTCTTGAAAC
1 AGTTTTTGTCTCTCTTGAGAC
**
176314 AAATTTTGTCTCTCTTGAGAC
1 AGTTTTTGTCTCTCTTGAGAC
176335 AGTTT
1 AGTTT
176340 CCCTTGAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
15 11 0.37
16 1 0.03
17 1 0.03
19 1 0.03
20 1 0.03
21 15 0.50
ACGTcount: A:0.21, C:0.18, G:0.16, T:0.45
Consensus pattern (21 bp):
AGTTTTTGTCTCTCTTGAGAC
Found at i:176328 original size:36 final size:36
Alignment explanation
Indices: 176281--176349 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
176271 TTTTGGAAGT
*
176281 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
176317 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
176350 TTCAATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:176408 original size:33 final size:34
Alignment explanation
Indices: 176368--176450 Score: 132
Period size: 35 Copynumber: 2.4 Consensus size: 34
176358 TTGAATACAA
* *
176368 TTTCTCTTGAAACAC-AAAAAATCTTTGAAATTG
1 TTTCTCTTGAAACACAAAAAAACCTTTGAAAATG
176401 TTTCTCTTGAAACACAAAAAAAACCTTTGAAAATG
1 TTTCTCTTGAAACAC-AAAAAAACCTTTGAAAATG
176436 TTTCTCTTGAAACAC
1 TTTCTCTTGAAACAC
176451 CAAACCCTCG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 15 0.33
35 31 0.67
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (34 bp):
TTTCTCTTGAAACACAAAAAAACCTTTGAAAATG
Found at i:177091 original size:15 final size:15
Alignment explanation
Indices: 177071--177100 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
177061 TTTCGTTCCA
177071 CGAAAAAGGACAAAG
1 CGAAAAAGGACAAAG
177086 CGAAAAAGGACAAAG
1 CGAAAAAGGACAAAG
177101 AGGGGCAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.27, T:0.00
Consensus pattern (15 bp):
CGAAAAAGGACAAAG
Found at i:177583 original size:20 final size:21
Alignment explanation
Indices: 177535--177585 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
177525 GTTTTGTTAT
177535 TTTTCTTTTTTTTTCATGTAA
1 TTTTCTTTTTTTTTCATGTAA
*
177556 TATTT-TTTTATTTT-ATGT-A
1 T-TTTCTTTTTTTTTCATGTAA
177575 TTTTCTTTTTT
1 TTTTCTTTTTT
177586 ACTTTAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 3 0.12
19 7 0.27
20 4 0.15
21 9 0.35
22 3 0.12
ACGTcount: A:0.14, C:0.06, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTCTTTTTTTTTCATGTAA
Found at i:177871 original size:17 final size:16
Alignment explanation
Indices: 177851--177893 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
177841 TTTTATGGAC
177851 TTTATTTTTTTATGTCT-
1 TTTATTTTTTTAT-T-TA
177868 TTTATTTTATTTATTTA
1 TTTATTTT-TTTATTTA
177885 TTTATTTTT
1 TTTATTTTT
177894 CTTTTCGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.08
17 17 0.71
18 5 0.21
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTATTTTTTTATTTA
Found at i:177892 original size:22 final size:22
Alignment explanation
Indices: 177851--177892 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
177841 TTTTATGGAC
* *
177851 TTTATTTTTTTATGTCTTTTAT
1 TTTATTTATTTATGTATTTTAT
*
177873 TTTATTTATTTATTTATTTT
1 TTTATTTATTTATGTATTTT
177893 TCTTTTCGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTATTTATTTATGTATTTTAT
Found at i:180480 original size:33 final size:32
Alignment explanation
Indices: 180443--180542 Score: 107
Period size: 33 Copynumber: 3.1 Consensus size: 32
180433 GTTTGGCAAG
180443 ATTGAAAATTTCATCTTGGTTGGTGGCTAACTT
1 ATTGAAAA-TTCATCTTGGTTGGTGGCTAACTT
* * *
180476 ATTGAAAAATTAATCTTGGTTGGTGGCCAACTC
1 ATTG-AAAATTCATCTTGGTTGGTGGCTAACTT
*
180509 ATTGGAAAATTC-T-TTGGTAGGTGG-TCAACTT
1 ATT-GAAAATTCATCTTGGTTGGTGGCT-AACTT
180540 ATT
1 ATT
180543 TTTCATGTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
31 17 0.30
32 1 0.02
33 34 0.60
34 5 0.09
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (32 bp):
ATTGAAAATTCATCTTGGTTGGTGGCTAACTT
Found at i:180532 original size:31 final size:33
Alignment explanation
Indices: 180443--180519 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
180433 GTTTGGCAAG
* * * *
180443 ATTGAAAATTTCATCTTGGTTGGTGGCTAACTT
1 ATTGAAAAATTAATCTTGGTTGGTGGCCAACTC
180476 ATTGAAAAATTAATCTTGGTTGGTGGCCAACTC
1 ATTGAAAAATTAATCTTGGTTGGTGGCCAACTC
*
180509 ATTGGAAAATT
1 ATTGAAAAATT
180520 CTTTGGTAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.38
Consensus pattern (33 bp):
ATTGAAAAATTAATCTTGGTTGGTGGCCAACTC
Found at i:183350 original size:24 final size:26
Alignment explanation
Indices: 183309--183358 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
183299 TATTAAATTA
*
183309 TATTTTGTATATAATTGTTCTGAATG
1 TATTTTGTATATAATTGTTCTAAATG
*
183335 TATTTT-T-TATATTTGTTCTAAATG
1 TATTTTGTATATAATTGTTCTAAATG
183359 ATACCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 1 0.05
26 6 0.27
ACGTcount: A:0.26, C:0.04, G:0.12, T:0.58
Consensus pattern (26 bp):
TATTTTGTATATAATTGTTCTAAATG
Found at i:183444 original size:3 final size:3
Alignment explanation
Indices: 183436--183516 Score: 153
Period size: 3 Copynumber: 26.7 Consensus size: 3
183426 AATTAAAATG
183436 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
183484 AGA AGA AGA AGA AGA AGA AGAA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AG
183517 GTGATGCAAT
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 74 0.96
4 3 0.04
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:183618 original size:28 final size:27
Alignment explanation
Indices: 183587--183647 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
183577 TATATTTATA
**
183587 TTATATTTACCTTCAATCAATATTATCT
1 TTATATTTACCTT-AAAAAATATTATCT
**
183615 TTATA-TTATGTTAAAAAATATTATCT
1 TTATATTTACCTTAAAAAATATTATCT
183641 TTATATT
1 TTATATT
183648 GATATTGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 17 0.61
27 6 0.21
28 5 0.18
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (27 bp):
TTATATTTACCTTAAAAAATATTATCT
Found at i:197021 original size:2 final size:2
Alignment explanation
Indices: 197014--197080 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
197004 TTACCTTTTC
* *
197014 TA TA TA TA TA TA CA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
197056 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
197081 GATTCACTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:204413 original size:20 final size:20
Alignment explanation
Indices: 204381--204567 Score: 232
Period size: 20 Copynumber: 9.3 Consensus size: 20
204371 TTTTCCTAAT
204381 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * ** *
204401 TCACAACGCGAATTTGAAAAA
1 TCGCAATGCGAATACG-TAAA
* *
204422 TCGCAATGTGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
204442 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
204462 TCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
204482 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
204502 TCACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
204522 TCGCAACGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
204542 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
204562 TCGCAA
1 TCGCAA
204568 CGAGATTCTG
Statistics
Matches: 141, Mismatches: 24, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
19 1 0.01
20 127 0.90
21 13 0.09
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:204563 original size:60 final size:60
Alignment explanation
Indices: 204384--204552 Score: 268
Period size: 60 Copynumber: 2.8 Consensus size: 60
204374 TCCTAATTCG
* * * * *
204384 CAATGCGAATACGTAAATCACAACGCGAATT-TGAAAAATCGCAATGTGATTACGTAAATCG
1 CAATGCGAATACGTAAATCGCAACGCG-ATTACG-TAAATCGCAATGCGATTACGTAAATCA
204445 CAATGCGAATACGTAAATCGCAACGCGATTACGTAAATCGCAATGCGATTACGTAAATCA
1 CAATGCGAATACGTAAATCGCAACGCGATTACGTAAATCGCAATGCGATTACGTAAATCA
204505 CAATGCGAATACGTAAATCGCAACGCGATTACGTAAATCGCAATGCGA
1 CAATGCGAATACGTAAATCGCAACGCGATTACGTAAATCGCAATGCGA
204553 ATCTGTAAAT
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
60 75 0.74
61 27 0.26
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (60 bp):
CAATGCGAATACGTAAATCGCAACGCGATTACGTAAATCGCAATGCGATTACGTAAATCA
Found at i:207941 original size:20 final size:21
Alignment explanation
Indices: 207916--208003 Score: 87
Period size: 20 Copynumber: 4.4 Consensus size: 21
207906 CAACGCGGAA
207916 ATCGCAACTC-GAATATGACT
1 ATCGCAACTCGGAATATGACT
* * *
207936 ATCGCAACAC-GAAAATTACT
1 ATCGCAACTCGGAATATGACT
207956 ATCGCAA-TGCGGAAT-TGACT
1 ATCGCAACT-CGGAATATGACT
* *
207976 ATCGCAACGCGGAA-ATAACT
1 ATCGCAACTCGGAATATGACT
207996 ATCGCAAC
1 ATCGCAAC
208004 GAGATAATCG
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
20 53 0.95
21 3 0.05
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACTCGGAATATGACT
Found at i:207975 original size:40 final size:41
Alignment explanation
Indices: 207926--208002 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 41
207916 ATCGCAACTC
*
207926 GAATATGACTATCGCAACACGAAAATTACTATCGCAATGCG
1 GAATATGACTATCGCAACACGAAAATAACTATCGCAATGCG
* *
207967 GAAT-TGACTATCGCAACGCGGAAATAACTATCGCAA
1 GAATATGACTATCGCAACACGAAAATAACTATCGCAA
208003 CGAGATAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (41 bp):
GAATATGACTATCGCAACACGAAAATAACTATCGCAATGCG
Found at i:208004 original size:20 final size:20
Alignment explanation
Indices: 207933--208004 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
207923 CTCGAATATG
* * *
207933 ACTATCGCAACACGAAAATT
1 ACTATCGCAACGCGGAAATA
* * *
207953 ACTATCGCAATGCGGAATTG
1 ACTATCGCAACGCGGAAATA
207973 ACTATCGCAACGCGGAAATA
1 ACTATCGCAACGCGGAAATA
207993 ACTATCGCAACG
1 ACTATCGCAACG
208005 AGATAATCGC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
ACTATCGCAACGCGGAAATA
Found at i:208057 original size:33 final size:34
Alignment explanation
Indices: 208011--208089 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 34
208001 AACGAGATAA
* **
208011 TCGCATTGTGATTCACTCGTTGCGATTTTCA-TT
1 TCGCATTGCGATTCACTCGTTGCGATAGTCATTT
*
208044 TCGCATTGCGATTCTCTCGTTGCGATAGTCATTT
1 TCGCATTGCGATTCACTCGTTGCGATAGTCATTT
*
208078 TCGCGTTGCGAT
1 TCGCATTGCGAT
208090 AGTCTGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 27 0.68
34 13 0.32
ACGTcount: A:0.14, C:0.23, G:0.22, T:0.42
Consensus pattern (34 bp):
TCGCATTGCGATTCACTCGTTGCGATAGTCATTT
Found at i:209671 original size:42 final size:42
Alignment explanation
Indices: 209573--209675 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
209563 TTGGGAGGGA
* * * * *
209573 CCTCTTCAACGATGACAGTGGCTTCTTGAACGGTGGGAGGAG
1 CCTCTTGAACGATGACAGGGGCCTCTTGAACGATAGGAGGAG
* ** *
209615 ACTCTTGAGGGATGATAGGGGCCTCTTGAACGATAGG-GGAGG
1 CCTCTTGAACGATGACAGGGGCCTCTTGAACGATAGGAGGA-G
209657 CCTCTTGAACGATGACAGG
1 CCTCTTGAACGATGACAGG
209676 TGAGTCGGGC
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
41 3 0.06
42 44 0.94
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.22
Consensus pattern (42 bp):
CCTCTTGAACGATGACAGGGGCCTCTTGAACGATAGGAGGAG
Found at i:210168 original size:20 final size:20
Alignment explanation
Indices: 210143--210199 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
210133 TAGAATCTGC
*
210143 AAATGACTATCGCAATGCGA
1 AAATGACTATCGCAACGCGA
210163 AAATGACTATCGCAACGCGA
1 AAATGACTATCGCAACGCGA
210183 AAATGACTATCGCAACG
1 AAATGACTATCGCAACG
210200 AGAGAATCGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGA
Found at i:210231 original size:33 final size:33
Alignment explanation
Indices: 210171--210251 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
210161 GAAAATGACT
** * * *
210171 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCG-AAATGAAAATCGCAACAACAAA
* *
210205 ATCGCAATGCGAAATGAAAATTGCAACAACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACAACAAA
210238 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
210252 ATGACTATCG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 29 0.74
34 10 0.26
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACAACAAA
Found at i:210263 original size:20 final size:20
Alignment explanation
Indices: 210238--210286 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
210228 CAACAACAAA
210238 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* * **
210258 ATCGCAATGTGAATTTGACT
1 ATCGCAACGCGAAAATGACT
210278 ATCGCAACG
1 ATCGCAACG
210287 AGATAATCGC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:210356 original size:20 final size:20
Alignment explanation
Indices: 210331--210514 Score: 272
Period size: 20 Copynumber: 9.5 Consensus size: 20
210321 GATTCTTTCG
**
210331 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
210351 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
210371 TTGCAATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
210391 TTGCGATAGTTATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
210411 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
210431 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
210451 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
210465 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
210485 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
210505 TTGCGATAGT
1 TTGCGATAGT
210515 AAACTATTCT
Statistics
Matches: 149, Mismatches: 9, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
14 7 0.05
16 6 0.04
18 6 0.04
20 130 0.87
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:210380 original size:40 final size:40
Alignment explanation
Indices: 210310--210514 Score: 272
Period size: 40 Copynumber: 5.4 Consensus size: 40
210300 GCGATTTCCA
*
210310 TTTCGCATTGCGAT--TC--TTTCG--TTGCGATAGTCAA
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
* *
210344 ATTCGCATTGCGATAGTCATTTTCGCATTGCAATAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
*
210384 TTTCGCATTGCGATAGTTATTTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
210424 TTTCGCATTGCGATAGTCATTTTCGCATTGCGAT--TC--
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
* *
210460 TCTCG--TTGCGATAGTCATTTTCGCGTTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
210498 TTTCGCATTGCGATAGT
1 TTTCGCATTGCGATAGT
210515 AAACTATTCT
Statistics
Matches: 149, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
34 39 0.26
36 8 0.05
38 11 0.07
40 91 0.61
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.40
Consensus pattern (40 bp):
TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCAT
Found at i:210424 original size:60 final size:60
Alignment explanation
Indices: 210310--210514 Score: 263
Period size: 60 Copynumber: 3.6 Consensus size: 60
210300 GCGATTTCCA
* *
210310 TTTCGCATTGCGAT--TC--TTTCG--TTGCGATAGTCAAATTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTTAATTTCGCATTGCGATAGTCAT
* *
210364 TTTCGCATTGCAATAGTCATTTTCGCATTGCGATAGTTATTTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTTAATTTCGCATTGCGATAGTCAT
* *
210424 TTTCGCATTGCGATAGTCATTTTCGCATTGCG--A-TT-CTCTCG--TTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTTAATTTCGCATTGCGATAGTCAT
*
210478 TTTCGCGTTGCGATAGTCATTTTCGCATTGCGATAGT
1 TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGT
210515 AAACTATTCT
Statistics
Matches: 134, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
54 57 0.43
56 7 0.05
57 3 0.02
58 6 0.04
60 61 0.46
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.40
Consensus pattern (60 bp):
TTTCGCATTGCGATAGTCATTTTCGCATTGCGATAGTTAATTTCGCATTGCGATAGTCAT
Found at i:210493 original size:54 final size:56
Alignment explanation
Indices: 210350--210511 Score: 238
Period size: 54 Copynumber: 2.9 Consensus size: 56
210340 TCAAATTCGC
* * *
210350 ATTGCGATAGTCATTTTCGCATTGCAATAGTCATTTTCGCATTGCGATAGTTATTTTCG
1 ATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCATTGCG--A-TTACTCTCG
210409 CATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCATTGCGATT-CTCTCG
1 -ATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCATTGCGATTACTCTCG
*
210465 -TTGCGATAGTCATTTTCGCGTTGCGATAGTCATTTTCGCATTGCGAT
1 ATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCATTGCGAT
210512 AGTAAACTAT
Statistics
Matches: 98, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
54 46 0.47
56 4 0.04
57 2 0.02
58 1 0.01
60 45 0.46
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.41
Consensus pattern (56 bp):
ATTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCATTGCGATTACTCTCG
Done.