Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006801.1 Hibiscus syriacus cultivar Beakdansim tig00017262_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: 105815
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1621 original size:19 final size:20
Alignment explanation
Indices: 1590--1653 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
1580 AATAATTAAA
1590 ATAAATATAAATTTTAATAAT
1 ATAAA-ATAAATTTTAATAAT
*
1611 ATAAAAT-AA-TTTATATGAT
1 ATAAAATAAATTTTA-ATAAT
*
1630 ATAAATTAAATTTCT-ATAAT
1 ATAAAATAAATTT-TAATAAT
1650 ATAA
1 ATAA
1654 TATTAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
18 4 0.11
19 12 0.33
20 12 0.33
21 7 0.19
22 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
ATAAAATAAATTTTAATAAT
Found at i:1651 original size:20 final size:19
Alignment explanation
Indices: 1590--1660 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 19
1580 AATAATTAAA
1590 ATAAATATAAATTTTAATAAT
1 ATAAAT-TAAATTTT-ATAAT
* *
1611 ATAAAAT-AATTTATATGAT
1 ATAAATTAAATTT-TATAAT
1630 ATAAATTAAATTTCTATAAT
1 ATAAATTAAATTT-TATAAT
1650 ATAATATTAAA
1 ATAA-ATTAAA
1661 AAATTAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
19 15 0.36
20 16 0.38
21 11 0.26
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (19 bp):
ATAAATTAAATTTTATAAT
Found at i:1692 original size:37 final size:37
Alignment explanation
Indices: 1650--1732 Score: 100
Period size: 37 Copynumber: 2.2 Consensus size: 37
1640 TTTCTATAAT
*
1650 ATAATATTAAAAAATTAATAT-T-TAAT-TTATTTAAAAA
1 ATAATATT-AAAAA-TAATATCTATAATAATA-TTAAAAA
1687 ATAATATTAAAAATAATATCTATAATAATATTAAAAA
1 ATAATATTAAAAATAATATCTATAATAATATTAAAAA
1724 ATTAATATT
1 A-TAATATT
1733 TAATTTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
35 6 0.15
36 6 0.15
37 20 0.49
38 9 0.22
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (37 bp):
ATAATATTAAAAATAATATCTATAATAATATTAAAAA
Found at i:1700 original size:12 final size:12
Alignment explanation
Indices: 1683--1723 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
1673 AATTTATTTA
1683 AAAAATAATATT
1 AAAAATAATATT
1695 AAAAATAATATCT
1 AAAAATAATAT-T
*
1708 -ATAATAATATT
1 AAAAATAATATT
1719 AAAAA
1 AAAAA
1724 ATTAATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATAATATT
Found at i:1723 original size:61 final size:57
Alignment explanation
Indices: 1650--1787 Score: 190
Period size: 61 Copynumber: 2.4 Consensus size: 57
1640 TTTCTATAAT
*
1650 ATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATAATATTAAAAATAATATCTATA
1 ATAATATTAAAAAATTAATATTTAATTTATTT--AAAATAATATTAAAAATAAAATC-A-A
* *
1711 ATAATATTAAAAAATTAATATTTAATTTATTTAAAATTATATTAAAATTAAAATCAA
1 ATAATATTAAAAAATTAATATTTAATTTATTTAAAATAATATTAAAAATAAAATCAA
1768 AT-ATAATT-AAAAATTAATAT
1 ATAAT-ATTAAAAAATTAATAT
1788 AAAACCTCTT
Statistics
Matches: 73, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
56 14 0.19
57 6 0.08
58 1 0.01
59 20 0.27
61 32 0.44
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (57 bp):
ATAATATTAAAAAATTAATATTTAATTTATTTAAAATAATATTAAAAATAAAATCAA
Found at i:2554 original size:40 final size:41
Alignment explanation
Indices: 2466--2555 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
2456 ATACAACTAA
* *
2466 ATAAGATTATATTCATGGATTTAGGGTATTTTTCAATTAAAT
1 ATAA-ATTACATTCATGGATTTAGGGTATTTTTCAATAAAAT
*
2508 ATAAATTACATTCATGGATTTAGGGTA-TTTTCGATAAAAT
1 ATAAATTACATTCATGGATTTAGGGTATTTTTCAATAAAAT
2548 GA-AAATTA
1 -ATAAATTA
2556 TATTTAAACT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 17 0.39
41 23 0.52
42 4 0.09
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (41 bp):
ATAAATTACATTCATGGATTTAGGGTATTTTTCAATAAAAT
Found at i:4129 original size:10 final size:9
Alignment explanation
Indices: 4118--4156 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
4108 TGAAAATAAT
4118 ATATATATA
1 ATATATATA
4127 TATATATATA
1 -ATATATATA
4137 ATATA-ATA
1 ATATATATA
*
4145 AGATATATA
1 ATATATATA
4154 ATA
1 ATA
4157 AAAAATGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 7 0.27
9 10 0.38
10 9 0.35
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (9 bp):
ATATATATA
Found at i:4137 original size:21 final size:19
Alignment explanation
Indices: 4113--4153 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4103 ACAAATGAAA
*
4113 ATAATATATATATATATATAT
1 ATAATATA-ATA-AGATATAT
4134 ATAATATAATAAGATATAT
1 ATAATATAATAAGATATAT
4153 A
1 A
4154 ATAAAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 3 0.16
21 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAATATAATAAGATATAT
Found at i:4189 original size:11 final size:11
Alignment explanation
Indices: 4173--4197 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4163 GTAACATATT
4173 AAAAAAAATTA
1 AAAAAAAATTA
4184 AAAAAAAATTA
1 AAAAAAAATTA
4195 AAA
1 AAA
4198 CACAAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAAAATTA
Found at i:12096 original size:29 final size:29
Alignment explanation
Indices: 12049--12130 Score: 103
Period size: 29 Copynumber: 2.8 Consensus size: 29
12039 TTACGGAATG
* **
12049 AAACGTTAGACACCAAACTGAAACAAAAA
1 AAACGTTAGGCACTGAACTGAAACAAAAA
12078 AAACGTTAGGCACTGAACT-AGAACAAAAA
1 AAACGTTAGGCACTGAACTGA-AACAAAAA
*
12107 AAACATTAGGCACTGAACTAGAAA
1 AAACGTTAGGCACTGAACT-GAAA
12131 ATGAACATAC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 1 0.02
29 42 0.91
30 2 0.04
31 1 0.02
ACGTcount: A:0.54, C:0.18, G:0.15, T:0.13
Consensus pattern (29 bp):
AAACGTTAGGCACTGAACTGAAACAAAAA
Found at i:19216 original size:24 final size:25
Alignment explanation
Indices: 19162--19218 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
19152 ATCCATATCA
* *
19162 GAAATCAGAACAAAATTCAGGTCAT
1 GAAATCAGAACAAAATTCAAGTCAG
* *
19187 G-TATCAGAACAGAATTCAAGTC-G
1 GAAATCAGAACAAAATTCAAGTCAG
19210 GAAATCAGA
1 GAAATCAGA
19219 TAAAATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 1 0.04
24 24 0.92
25 1 0.04
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (25 bp):
GAAATCAGAACAAAATTCAAGTCAG
Found at i:30606 original size:29 final size:28
Alignment explanation
Indices: 30534--30606 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
30524 GATTCAATCT
*
30534 GTAAAGTTCAGTGAGTAAAATAGAAAAA
1 GTAAAGTTAAGTGAGTAAAATAGAAAAA
* * *
30562 TTAAAAG-TAAGATGAGTAAAATAAGAGAGA
1 GT-AAAGTTAAG-TGAGTAAAAT-AGAAAAA
*
30592 GTAAAGTTTAGTGAG
1 GTAAAGTTAAGTGAG
30607 GAACAGTGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
28 4 0.11
29 22 0.63
30 9 0.26
ACGTcount: A:0.51, C:0.01, G:0.25, T:0.23
Consensus pattern (28 bp):
GTAAAGTTAAGTGAGTAAAATAGAAAAA
Found at i:31304 original size:22 final size:21
Alignment explanation
Indices: 31275--31316 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
31265 GGTTGCACAT
*
31275 AAAAAAGTTATAAACAATAAG
1 AAAAAAGTCATAAACAATAAG
*
31296 AAAATAAGTCATAAACGATAA
1 AAAA-AAGTCATAAACAATAA
31317 ATGTTATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.64, C:0.07, G:0.10, T:0.19
Consensus pattern (21 bp):
AAAAAAGTCATAAACAATAAG
Found at i:31919 original size:69 final size:69
Alignment explanation
Indices: 31791--31920 Score: 188
Period size: 69 Copynumber: 1.9 Consensus size: 69
31781 CACTTTTTTA
* * * * **
31791 AAAATTCGAAAGTATTGATATTTGTGGAAAAGTATTAATCCTTTGTATCCTTCTTATTTTTTTTA
1 AAAATTCGAAAGTATTGATATTTGTGGAAAAGTATTAATACTTTGCAGCATTCCCATTTTTTTTA
31856 AAAT
66 AAAT
* *
31860 AAAATTTGAAAGTATTGATATTTGTGGAAAAGTATTGATACTTTGCAGCATTCCCATTTTT
1 AAAATTCGAAAGTATTGATATTTGTGGAAAAGTATTAATACTTTGCAGCATTCCCATTTTT
31921 CATGTTTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 53 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (69 bp):
AAAATTCGAAAGTATTGATATTTGTGGAAAAGTATTAATACTTTGCAGCATTCCCATTTTTTTTA
AAAT
Found at i:31962 original size:62 final size:61
Alignment explanation
Indices: 31887--32006 Score: 186
Period size: 62 Copynumber: 2.0 Consensus size: 61
31877 ATATTTGTGG
*
31887 AAAAGTATTGATACTTTGCAGCATTCCCATTTTTCATGTTTTTTTAATTCGAAAATATCAAT
1 AAAAGTATCGATACTTTGCAGCATTCCCATTTTTCAT-TTTTTTTAATTCGAAAATATCAAT
* ** *
31949 AAAAGTATCGATACTTTGCATCATTCTTATTTTTCATTTTTTTTAATTTGAAAATATC
1 AAAAGTATCGATACTTTGCAGCATTCCCATTTTTCATTTTTTTTAATTCGAAAATATC
32007 GATACTTGAG
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
61 20 0.38
62 33 0.62
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (61 bp):
AAAAGTATCGATACTTTGCAGCATTCCCATTTTTCATTTTTTTTAATTCGAAAATATCAAT
Found at i:33074 original size:20 final size:20
Alignment explanation
Indices: 33023--33074 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
33013 GTTGTGGCTG
*
33023 TTTCTAGCCATTGAGGATGA
1 TTTCTAGCCGTTGAGGATGA
33043 TTTCTAGCCGTTGAGGATGA
1 TTTCTAGCCGTTGAGGATGA
*
33063 TTTCTAGTCGTT
1 TTTCTAGCCGTT
33075 TGGGGGGTAA
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:0.19, C:0.15, G:0.25, T:0.40
Consensus pattern (20 bp):
TTTCTAGCCGTTGAGGATGA
Found at i:34766 original size:21 final size:21
Alignment explanation
Indices: 34724--34766 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
34714 TTTATGGGCT
*
34724 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
34745 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
34766 A
1 A
34767 ACGAACATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:34813 original size:21 final size:22
Alignment explanation
Indices: 34789--34833 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
34779 TTCCAGAATG
34789 CCAGAG-GGGAACCGATACCCC
1 CCAGAGAGGGAACCGATACCCC
*
34810 CCAGAGTAGGGAATCGATACCCC
1 CCAGAG-AGGGAACCGATACCCC
34833 C
1 C
34834 TTAAAGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
23 15 0.71
ACGTcount: A:0.29, C:0.36, G:0.27, T:0.09
Consensus pattern (22 bp):
CCAGAGAGGGAACCGATACCCC
Found at i:36641 original size:103 final size:103
Alignment explanation
Indices: 36416--36633 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
36406 GTCGAGGGTC
*
36416 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATAC
* * *
36481 TTGATTCTTGGCATATGTATAAGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATAAGATTCTTAAGGAATGA
36519 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATAC
* *
36584 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATAAGATTCTTAAGGAATGA
36622 TATGTGGTCCTT
1 TATGTGGTCCTT
36634 ATGGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATAAGATTCTTAAGGAATGA
Found at i:36676 original size:23 final size:23
Alignment explanation
Indices: 36643--36717 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
36633 TATGGACATT
36643 ATTATAT--GGCACTACGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* *
36664 ATTCTATGCGGCACTCCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* *
36687 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
36710 ATTATATG
1 ATTATATG
36718 AGCTGTGGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.13
23 41 0.87
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (23 bp):
ATTATATGCGGCACTACGGTGCA
Found at i:49047 original size:17 final size:18
Alignment explanation
Indices: 49021--49054 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
49011 AGTTAAAATA
*
49021 TGATTCATTT-ATTAAAG
1 TGATTAATTTGATTAAAG
49038 TGATTAATTTGATTAAA
1 TGATTAATTTGATTAAA
49055 ATTACTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (18 bp):
TGATTAATTTGATTAAAG
Found at i:49936 original size:3 final size:3
Alignment explanation
Indices: 49930--49955 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49920 TGATGATGAT
49930 GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GA
49956 ATTCCAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:56461 original size:20 final size:20
Alignment explanation
Indices: 56436--56476 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
56426 GGTGATTGTG
56436 ATACCACTTGTCATGAACAT
1 ATACCACTTGTCATGAACAT
56456 ATACCACTTGTCATGAACAT
1 ATACCACTTGTCATGAACAT
56476 A
1 A
56477 ACGTCCCAAC
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:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (20 bp):
ATACCACTTGTCATGAACAT
Found at i:57287 original size:20 final size:21
Alignment explanation
Indices: 57262--57305 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
57252 GAAAATATGC
*
57262 TTCGCCC-CCTATAATTTTAG
1 TTCGCCCTCCTAGAATTTTAG
*
57282 TTCGCCCTCCTGGAATTTTAG
1 TTCGCCCTCCTAGAATTTTAG
57303 TTC
1 TTC
57306 ATCCCCCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.16, C:0.30, G:0.14, T:0.41
Consensus pattern (21 bp):
TTCGCCCTCCTAGAATTTTAG
Found at i:57439 original size:2 final size:2
Alignment explanation
Indices: 57432--57462 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
57422 GGATTATAGC
57432 TA TA TA 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 TA TA TA T
57463 TCCATAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61450 original size:2 final size:2
Alignment explanation
Indices: 61445--61479 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
61435 AAAAAATTCA
61445 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61480 TAATCTGATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:61666 original size:2 final size:2
Alignment explanation
Indices: 61659--61700 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
61649 ACACTAACCA
61659 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
61701 TCAAAAGTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63918 original size:23 final size:23
Alignment explanation
Indices: 63892--63941 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
63882 AATAACATAT
*
63892 TAGGTAGCGTTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
63915 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
63938 TAGG
1 TAGG
63942 CATTTAACCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:64001 original size:87 final size:87
Alignment explanation
Indices: 63855--64017 Score: 292
Period size: 87 Copynumber: 1.9 Consensus size: 87
63845 AATGTTATAT
* *
63855 CATTTAACCGGAAATATTATTAAGTATAATAACATATTAGGTAGCGTTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGT
63920 AGCGCTTATATAATGTAATAGG
66 AGCGCTTATATAATGTAATAGG
63942 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGC-TCTTATATAATGTAATAGG
1 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGT-TTATATAATGTAATAGG
64006 TAGCGCTTATAT
65 TAGCGCTTATAT
64018 TGACCTATTT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
86 1 0.01
87 72 0.99
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGT
AGCGCTTATATAATGTAATAGG
Found at i:67518 original size:200 final size:198
Alignment explanation
Indices: 67128--67489 Score: 514
Period size: 200 Copynumber: 1.8 Consensus size: 198
67118 TTTTTAAACA
* * * * * *
67128 AAGTGTCGATACATGTTGTATACCTATTCTCTTATAAAACTGGTATATTTATACCGGTTACATTG
1 AAGTGTCGATACATATTATAGACCTATTCTCTCATAAAACTGGTATATGTATACCGGTTACATTA
* * *
67193 TAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTTGAAAAT
66 CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTTAAAAAT
* * *
67258 GTATCGACACTTTATGCGTTCACCTTTTTTGGCATAAATTATGGACAAAAATTATCGACACAATA
131 GTATCGACACTGTATGCGTGCACCTCTTTTGGCATAAATTATGG--AAAAATTATCGACACAATA
67323 TTAAT
194 TTAAT
** *
67328 AAGTGTCGATACATATTATAGACCTATTCTCTCATAAAA-TCGGTATATGTATATTGGTTATATT
1 AAGTGTCGATACATATTATAGACCTATTCTCTCATAAAACT-GGTATATGTATACCGGTTACATT
*
67392 ACAAAATTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACAC-TTTTAATAA
65 ACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTTAA-AA
67456 ATGTATCGACACTGTATGCGTGCAACC-CTTTTGG
129 ATGTATCGACACTGTATGCGTGC-ACCTCTTTTGG
67490 ATCGACACTC
Statistics
Matches: 143, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
199 6 0.04
200 134 0.94
201 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (198 bp):
AAGTGTCGATACATATTATAGACCTATTCTCTCATAAAACTGGTATATGTATACCGGTTACATTA
CAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGACACTTTTTAAAAAT
GTATCGACACTGTATGCGTGCACCTCTTTTGGCATAAATTATGGAAAAATTATCGACACAATATT
AAT
Found at i:67616 original size:251 final size:252
Alignment explanation
Indices: 67232--67724 Score: 665
Period size: 251 Copynumber: 2.0 Consensus size: 252
67222 GTTTCGATGT
* *
67232 TTTTGGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCTTTTTTGGCATAAAT
1 TTTTGGGATCGACACTCTATGAAAATGTATCGACACTTTATGCGTTCACCTTTTTTGGCATAAAT
* * * *
67297 TATGGACAAAAATTATCGACACAATATTAATAAGTGTCGATACATATTATAGACCTATTCTCTCA
66 TATGGACAAAAAGTATCGACACAATACTAATAAGTGTCGATAAATATTATAGACATATTCTCTCA
* * * *
67362 TAAAATCGGTATATGTATATTGGTTATATT-ACAAAATTACCTATTACATTATAATTATGGTTTT
131 TAAAACCGGTATATGTATATCGGTTATATTGA-AAAATTACCCATTACATTATAATTATGGCTTT
*
67426 CGATG-TTTTTGGGATCGACACTTTTAATAAATGTATCGACACTGTATGCGTGCAACCC
195 CGATGTTTTTTGGG-TCGACACTTTTAATAAATGGATCGACACTGTATGCGTGCAACCC
* *
67484 TTTT-GGATCGACACTCTATGAAAATGTATCGACACTTTGTAG-GTTC-CCTCCTTTTTGGCATC
1 TTTTGGGATCGACACTCTATGAAAATGTATCGACACTTTAT-GCGTTCACCT--TTTTTGGCATA
* * * * * * *
67546 CATTCTGGACACAAAGTATCGACACAATACTGATAAGTGTTGATAAATATTGTAGACATATT-TT
63 AATTATGGACAAAAAGTATCGACACAATACTAATAAGTGTCGATAAATATTATAGACATATTCTC
*
67610 TCATAAAACCGGTATATTTATATCGGTTATATTGAAAAATTACCCATTACATTATAATTATGGCT
128 TCATAAAACCGGTATATGTATATCGGTTATATTGAAAAATTACCCATTACATTATAATTATGGCT
** * * *
67675 TTCGATGTTTTTTGGGTCGTTACTTTTTATATATGGATCGACACTTTATG
193 TTCGATGTTTTTTGGGTCGACACTTTTAATAAATGGATCGACACTGTATG
67725 GGAAACTTTA
Statistics
Matches: 210, Mismatches: 26, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
250 3 0.01
251 131 0.62
252 76 0.36
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (252 bp):
TTTTGGGATCGACACTCTATGAAAATGTATCGACACTTTATGCGTTCACCTTTTTTGGCATAAAT
TATGGACAAAAAGTATCGACACAATACTAATAAGTGTCGATAAATATTATAGACATATTCTCTCA
TAAAACCGGTATATGTATATCGGTTATATTGAAAAATTACCCATTACATTATAATTATGGCTTTC
GATGTTTTTTGGGTCGACACTTTTAATAAATGGATCGACACTGTATGCGTGCAACCC
Found at i:69036 original size:6 final size:6
Alignment explanation
Indices: 68998--69049 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
68988 GTTTGGATCA
* * * * * *
68998 TCATCA TCATCA TCATCG TCGTCG TCGTCG TCATCG TCATCT TCATCT
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG
69046 TCAT
1 TCAT
69050 TGATTGCTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.17, C:0.33, G:0.12, T:0.38
Consensus pattern (6 bp):
TCATCG
Found at i:70870 original size:179 final size:179
Alignment explanation
Indices: 70545--71109 Score: 711
Period size: 179 Copynumber: 3.0 Consensus size: 179
70535 TTGAAAATGT
* *
70545 ATCGACACTTTATGCATTCACCCTTTTTGGCATCCATTCTGGACCAAAAGTATTGACACAAAATT
1 ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGACCAAAAGTATTGACACAAAATT
*
70610 AAAAACGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACC-AGTATATTTATACCGGTTA
66 AAAAA-ATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGA-TATATTTATACCGGTTA
*
70674 CATTATAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGG
129 CATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGG
*
70725 ATCGAAACTTTATGCGTTCA-CCTTTTTGGCATCCATTATGGACCAAAAGTATTGACACAAAATT
1 ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGACCAAAAGTATTGACACAAAA-T
70789 TAAAAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTAC
65 TAAAAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTAC
*
70854 ATTGTAAATGTACCTATTACATTATACTTATGGATGCATATGTTTCTGGG
130 ATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGG
* ** * * * * *
70904 ATCGACACTTTTTGAAAATATATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGAC
1 ATCGACACTTTATG----CGT-TC-ACCCTTTTTG-G--CATCCATTATGG-A-CCA--A---A-
** *
70969 CAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAAT
49 -AGTA-T-T-GACACAAAATTAAAAAA-TGTCGATACATGTTGTAGACCTATTCTCTCATAAAAC
* * *
71034 CGGTATATTTATACCAGTTACATTGAAAATTTACCTATTACATTATACTTATGGATGCATATGTT
109 CGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTT
71099 TCTGGG
174 TCTGGG
71105 ATCGA
1 ATCGA
71110 TAAATTTTAC
Statistics
Matches: 338, Mismatches: 22, Indels: 29
0.87 0.06 0.07
Matches are distributed among these distances:
179 157 0.46
180 26 0.08
183 1 0.00
184 2 0.01
185 1 0.00
186 6 0.02
187 1 0.00
189 9 0.03
190 1 0.00
191 3 0.01
193 1 0.00
196 1 0.00
198 2 0.01
199 1 0.00
200 9 0.03
201 117 0.35
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (179 bp):
ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGACCAAAAGTATTGACACAAAATT
AAAAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACA
TTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGG
Found at i:71075 original size:201 final size:200
Alignment explanation
Indices: 70725--71109 Score: 682
Period size: 201 Copynumber: 1.9 Consensus size: 200
70715 TGTTTCTGGG
*
70725 ATCGAAACTTTATGCGTTCACCTTTTTGGCATCCATTATGGACCAAAAGTATTGACACAAAATTT
1 ATCGAAACTTTATGCGTTCACCTTTTTGGCATCCATTATGGACCAAAAGTATCGACACAAAATTT
*
70790 AAAAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCGGTTACA
66 AAAAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCAGTTACA
*
70855 TTGTAAATGTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGATCGACACTTTTTGAA
131 TTGAAAATGTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGATCGACACTTTTTGAA
70920 AATAT
196 AATAT
*
70925 ATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTATGGACCAAAAGTATCGACACAAAA-T
1 ATCGAAACTTTATGCGTTCA-CCTTTTTGGCATCCATTATGGACCAAAAGTATCGACACAAAATT
* *
70989 TAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGTATATTTATACCAGTTA
65 TAAAAAA-TGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCAGTTA
*
71054 CATTGAAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGATCGA
129 CATTGAAAATGTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGATCGA
71110 TAAATTTTAC
Statistics
Matches: 176, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
200 27 0.15
201 149 0.85
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (200 bp):
ATCGAAACTTTATGCGTTCACCTTTTTGGCATCCATTATGGACCAAAAGTATCGACACAAAATTT
AAAAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGATATATTTATACCAGTTACA
TTGAAAATGTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGATCGACACTTTTTGAA
AATAT
Found at i:71099 original size:380 final size:368
Alignment explanation
Indices: 70403--71109 Score: 1087
Period size: 380 Copynumber: 1.9 Consensus size: 368
70393 TATTTAAATT
70403 AGTATCGACACAAAATTAAAAACGAGTCGATACATGTTGTAGACCTATTCTCTCATAAATATACC
1 AGTATCGACACAAAATTAAAAAC-AGTCGATACATGTTGTAGACCTATTCTCTCATAAATATACC
* * * * *
70468 GGTTACATTAAAAATTTACTTATTACATTATAATTATGAGTTTCGATGTTTTTGGGATCGACACT
65 GGTTACATTAAAAATGTACCTATTACATTATAATTATGAGATGCGATGTTTCTGGGATCGACACT
* *
70533 TTTTGAAAATGTATCGACACTTTATGCATTCACCCTTTTTGGCATCCATTCTGGACCAAAAGTAT
130 TTTTGAAAATATATCGACACTTTATGCATTCACCCTTTTTGGCATCCATTATGGACCAAAAGTAT
* *
70598 TGACACAAAATTAAAAACGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCAGTATATT
195 CGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCAGTATATT
*
70663 TATACCGGTTACATTATAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGATC
260 TATACCAGTTACATTATAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGATC
70728 GAAACTTTATGCGTTCACCTTTTTGGCATCCATTATGGACCAAA
325 GAAACTTTATGCGTTCACCTTTTTGGCATCCATTATGGACCAAA
*
70772 AGTATTGACACAAAATTTAAAAA-ATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGA
1 AGTATCGACACAAAA-TTAAAAACA-GTCGATACATGTTGTAGACCTATTCTCTCAT-------A
** * *
70836 TATATTTATACCGGTTACATTGTAAATGTACCTATTACATTATACTTATG-GATGCATATGTTTC
57 -A-A--TATACCGGTTACATTAAAAATGTACCTATTACATTATAATTATGAGATGC-GATGTTTC
*
70900 TGGGATCGACACTTTTTGAAAATATATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTAT
117 TGGGATCGACACTTTTTGAAAATATATCGACACTTTATGCATTCACCCTTTTTGGCATCCATTAT
70965 GGACCAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATA
182 GGACCAAAAGTATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATA
* *
71030 AAATCGGTATATTTATACCAGTTACATTGA-AAATTTACCTATTACATTATACTTATGGATGCAT
247 AAACCAGTATATTTATACCAGTTACATT-ATAAATTTACCTATTACATTATACTTATGGATGCAT
71094 ATGTTTCTGGGATCGA
311 ATGTTTCTGGGATCGA
71110 TAAATTTTAC
Statistics
Matches: 305, Mismatches: 18, Indels: 19
0.89 0.05 0.06
Matches are distributed among these distances:
368 1 0.00
369 45 0.15
370 7 0.02
376 1 0.00
377 1 0.00
378 1 0.00
379 3 0.01
380 245 0.80
381 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (368 bp):
AGTATCGACACAAAATTAAAAACAGTCGATACATGTTGTAGACCTATTCTCTCATAAATATACCG
GTTACATTAAAAATGTACCTATTACATTATAATTATGAGATGCGATGTTTCTGGGATCGACACTT
TTTGAAAATATATCGACACTTTATGCATTCACCCTTTTTGGCATCCATTATGGACCAAAAGTATC
GACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCAGTATATTT
ATACCAGTTACATTATAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTGGGATCG
AAACTTTATGCGTTCACCTTTTTGGCATCCATTATGGACCAAA
Found at i:73209 original size:33 final size:33
Alignment explanation
Indices: 73172--73235 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
73162 TCTTACGATC
*
73172 ACCCCTTAACACCTCAACTTCTTTCACCACTTT
1 ACCCCTCAACACCTCAACTTCTTTCACCACTTT
*
73205 ACCCCTCAACACCTCTACTTCTTTCACCACT
1 ACCCCTCAACACCTCAACTTCTTTCACCACT
73236 CCATATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.31
Consensus pattern (33 bp):
ACCCCTCAACACCTCAACTTCTTTCACCACTTT
Found at i:73294 original size:21 final size:21
Alignment explanation
Indices: 73269--73312 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
73259 CCCCTTATGC
73269 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
73290 CTCTCAAGTTTGTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
73311 CT
1 CT
73313 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.30, G:0.14, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:76674 original size:22 final size:23
Alignment explanation
Indices: 76648--76699 Score: 97
Period size: 22 Copynumber: 2.3 Consensus size: 23
76638 ATATTTCTGC
76648 CTTTATGGCTCATTTT-TTTTGT
1 CTTTATGGCTCATTTTCTTTTGT
76670 CTTTATGGCTCATTTTCTTTTGT
1 CTTTATGGCTCATTTTCTTTTGT
76693 CTTTATG
1 CTTTATG
76700 ACACAGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.10, C:0.15, G:0.13, T:0.62
Consensus pattern (23 bp):
CTTTATGGCTCATTTTCTTTTGT
Found at i:76709 original size:24 final size:22
Alignment explanation
Indices: 76648--76709 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
76638 ATATTTCTGC
* *
76648 CTTTATGGCTCATTTTTTTTGT
1 CTTTATGACACATTTTTTTTGT
* *
76670 CTTTATGGCTCATTTTCTTTTGT
1 CTTTATGACACATTTT-TTTTGT
*
76693 CTTTATGACACAGTTTT
1 CTTTATGACACATTTTT
76710 ATCTGTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 17 0.47
23 19 0.53
ACGTcount: A:0.13, C:0.16, G:0.13, T:0.58
Consensus pattern (22 bp):
CTTTATGACACATTTTTTTTGT
Found at i:92880 original size:39 final size:40
Alignment explanation
Indices: 92779--92889 Score: 133
Period size: 39 Copynumber: 2.8 Consensus size: 40
92769 TTATTTATAA
* *
92779 TTCTCAAATTATTTCAC-TCTAACATTATAAA-TCTCTAAT
1 TTCTTAAATTATTTCACAT-TAACATTCTAAATTCTCTAAT
*
92818 TTCTTAAATT-TTGCCACCA-TAACATTCTAAATTCT-TAAT
1 TTCTTAAATTATT-TCA-CATTAACATTCTAAATTCTCTAAT
92857 TTCTTAAATTATTTCACATTAACATTCTAAATT
1 TTCTTAAATTATTTCACATTAACATTCTAAATT
92890 ATTTTTTAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
38 4 0.06
39 52 0.84
40 6 0.10
ACGTcount: A:0.35, C:0.19, G:0.01, T:0.45
Consensus pattern (40 bp):
TTCTTAAATTATTTCACATTAACATTCTAAATTCTCTAAT
Found at i:92973 original size:21 final size:20
Alignment explanation
Indices: 92930--93001 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
92920 ACATTTGAAA
*
92930 TTTAA-TTTTAATTT-TTCTT
1 TTTAATTTTTAATTTGAT-TT
92949 TTTAATTTTTAATATAT-ATTT
1 TTTAATTTTTAAT-T-TGATTT
*
92970 TTTAATTATGTAATTTGATTT
1 TTTAATT-TTTAATTTGATTT
*
92991 TTTAAATTTTA
1 TTTAATTTTTA
93002 CGTGTGAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 5 0.11
20 11 0.25
21 21 0.48
22 7 0.16
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTAATTTTTAATTTGATTT
Found at i:93068 original size:18 final size:18
Alignment explanation
Indices: 93045--93080 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
93035 TAGAATTTTC
* *
93045 TATATATATTTTTAAAAA
1 TATATATAATTCTAAAAA
93063 TATATATAATTCTAAAAA
1 TATATATAATTCTAAAAA
93081 ATAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TATATATAATTCTAAAAA
Found at i:101060 original size:16 final size:17
Alignment explanation
Indices: 101039--101071 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
101029 ACACACTAAA
101039 TCGATT-TCAATTTTTT
1 TCGATTATCAATTTTTT
*
101055 TCGATTATCGATTTTTT
1 TCGATTATCAATTTTTT
101072 AGATTGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.18, C:0.12, G:0.09, T:0.61
Consensus pattern (17 bp):
TCGATTATCAATTTTTT
Done.