Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009060.1 Hibiscus syriacus cultivar Beakdansim tig00112481_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: 108527
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:1056 original size:99 final size:98
Alignment explanation
Indices: 881--1066 Score: 284
Period size: 99 Copynumber: 1.9 Consensus size: 98
871 TCTTTCTTTG
* * * *
881 GTGTTTCTTTTACAGTAATTTCCTGAGAGTTGAGTTGATATTTTAATGTTAAAATGATATATTCA
1 GTGTTTCTTTTACAGTAATTGCCTGAGAGTTGAGTTGATATTTCAATATTAAAATGA-AGATTCA
*
946 TTACTTGTAGTACTATGAGTCTGACAGCAATTTC
65 TTACTTCTAGTACTATGAGTCTGACAGCAATTTC
*
980 GTGTTTCTTTTACAGTAATTGCCTGAGAGTTTTAGTTGATATTTCAATATTAAAAATG-AGATTC
1 GTGTTTCTTTTACAGTAATTGCCTGAGAG-TTGAGTTGATATTTCAATATT-AAAATGAAGATTC
1044 ATTACTTCTAGTACTATGAGTCT
64 ATTACTTCTAGTACTATGAGTCT
1067 ATGACAGTTA
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
99 55 0.70
100 18 0.23
101 6 0.08
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (98 bp):
GTGTTTCTTTTACAGTAATTGCCTGAGAGTTGAGTTGATATTTCAATATTAAAATGAAGATTCAT
TACTTCTAGTACTATGAGTCTGACAGCAATTTC
Found at i:7133 original size:35 final size:35
Alignment explanation
Indices: 7094--7204 Score: 152
Period size: 35 Copynumber: 3.1 Consensus size: 35
7084 CAACTTTGAA
7094 AAAATGGTTTTCAAAGTTTTGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTTGTAAATGTTTCTTTG
*
7129 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTTGTAAATGTTTCTTTG
* * *
7164 AAAAATAGTTTTTCAAAGTTTTGGTAGATGTTT-GTTG
1 -AAAAT-GGTTTTCAAAGTTTT-GTAAATGTTTCTTTG
7201 AAAA
1 AAAA
7205 ATGATAATGA
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
35 34 0.50
36 9 0.13
37 16 0.24
38 9 0.13
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.45
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTTGTAAATGTTTCTTTG
Found at i:11073 original size:21 final size:21
Alignment explanation
Indices: 11031--11073 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11021 TTTCTGGGTT
* * *
11031 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
11052 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
11073 A
1 A
11074 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:11134 original size:66 final size:67
Alignment explanation
Indices: 11031--11201 Score: 220
Period size: 67 Copynumber: 2.6 Consensus size: 67
11021 TTTCTGGGTT
* * *
11031 AGGGGAATCGGTACCCATTCA-AGGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATG
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATG
11094 CTAG
64 CTAG
* * *
11098 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCT
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
*
11163 TG
66 AG
* * *
11165 AGAGGAATCGATACCCCCAGGGGGGAACCGATTCCCC
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCC
11202 ATGAGAAAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 2 0.02
66 22 0.24
67 68 0.74
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.18
Consensus pattern (67 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
AG
Found at i:11604 original size:30 final size:30
Alignment explanation
Indices: 11568--11625 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11558 GTTGTATGAG
* *
11568 CTATGTGATAAAGATATGTAAATGATATTT
1 CTATGTGATAAAGATATGGAAATAATATTT
*
11598 CTATGTGATAAAGGTATGGAAATAATAT
1 CTATGTGATAAAGATATGGAAATAATAT
11626 GACTACGCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.36
Consensus pattern (30 bp):
CTATGTGATAAAGATATGGAAATAATATTT
Found at i:11900 original size:23 final size:22
Alignment explanation
Indices: 11840--11907 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
11830 TTAGGGACAT
11840 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
11862 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
11884 AATTCTACGGGGCACTTCGGTGC
1 AATTCTAC-GGGCACTTCGGTGC
11907 A
1 A
11908 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 30 0.67
23 15 0.33
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:17978 original size:21 final size:21
Alignment explanation
Indices: 17936--17978 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
17926 TTTCTGGGTT
* * *
17936 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
17957 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
17978 A
1 A
17979 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:18039 original size:66 final size:67
Alignment explanation
Indices: 17936--18108 Score: 215
Period size: 67 Copynumber: 2.6 Consensus size: 67
17926 TTTCTGGGTT
* * *
17936 AGGGGAATCGGTACCCATTCA-AGGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATG
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATG
17999 CTAG
64 CTAG
* * *
18003 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCT
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
*
18068 TG
66 AG
* * *
18070 AGAGGAATCGATACCCCCAGGGGGGGAACCGATTCCCCC
1 AGGGGAATCGGTACCCCCA-GGGGGGAACCGATACCCCC
18109 ATGAGAAAAA
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 22 0.24
67 51 0.55
68 18 0.19
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (67 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
AG
Found at i:18511 original size:30 final size:30
Alignment explanation
Indices: 18475--18532 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
18465 GTTGTATGAG
* *
18475 CTATGTGATAAAGGTATGTAAATGATATTT
1 CTATGTGATAAAGGTATGGAAATAATATTT
18505 CTATGTGATAAAGGTATGGAAATAATAT
1 CTATGTGATAAAGGTATGGAAATAATAT
18533 GACTACGCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.03, G:0.21, T:0.36
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATTT
Found at i:18807 original size:23 final size:22
Alignment explanation
Indices: 18747--18814 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
18737 TTAGGGACAT
18747 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
18769 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
18791 AATTCTACGGGGCACTTCGGTGC
1 AATTCTAC-GGGCACTTCGGTGC
18814 A
1 A
18815 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 30 0.67
23 15 0.33
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:20760 original size:21 final size:21
Alignment explanation
Indices: 20736--20796 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
20726 AACTTTGAAA
20736 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
20757 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
20771 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
20792 AAATG
1 AAATG
20797 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:20774 original size:35 final size:35
Alignment explanation
Indices: 20735--20845 Score: 161
Period size: 35 Copynumber: 3.1 Consensus size: 35
20725 CAACTTTGAA
20735 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
20770 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
* * *
20805 AAAAATAGTTTTTCAAAGTTTTGGTAGATGTTT-GTTG
1 -AAAAT-GGTTTTCAAAG-TTTGGTAAATGTTTCTTTG
20842 AAAA
1 AAAA
20846 ATGATAATGG
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
35 35 0.50
36 9 0.13
37 13 0.19
38 13 0.19
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.44
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG
Found at i:22326 original size:155 final size:156
Alignment explanation
Indices: 22143--22454 Score: 617
Period size: 155 Copynumber: 2.0 Consensus size: 156
22133 ACTAATAAAA
22143 TCACGAAAGCACAGCAATAAAAAAAAAACAGTATGAAAATTTTTAGTCTATTGGTTAATAGTTGG
1 TCACGAAAGCACAGCAATAAAAAAAAAACAGTATGAAAATTTTTAGTCTATTGGTTAATAGTTGG
22208 ATTTTTCTTGTTTTAAACAAGGTAAAACACAAGAACAAAAAGCGTAACCCCTGAATAAATAAACC
66 ATTTTTCTTGTTTTAAACAAGGTAAAACACAAGAACAAAAAGCGTAACCCCTGAATAAATAAACC
22273 AACTTGAATGTTTTTGCAAGC-ACCC
131 AACTTGAATGTTTTTGCAAGCAACCC
22298 TCACGAAAGCACAGCAATAAAAAAAAAACAGTATGAAAATTTTTAGTCTATTGGTTAATAGTTGG
1 TCACGAAAGCACAGCAATAAAAAAAAAACAGTATGAAAATTTTTAGTCTATTGGTTAATAGTTGG
22363 ATTTTTCTTGTTTTAAACAAGGTAAAACACAAGAACAAAAAGCGTAACCCCTGAATAAATAAACC
66 ATTTTTCTTGTTTTAAACAAGGTAAAACACAAGAACAAAAAGCGTAACCCCTGAATAAATAAACC
22428 AACTTGAATGTTTTTGCAAGCAACCC
131 AACTTGAATGTTTTTGCAAGCAACCC
22454 T
1 T
22455 GGCATTGGAC
Statistics
Matches: 156, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
155 151 0.97
156 5 0.03
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (156 bp):
TCACGAAAGCACAGCAATAAAAAAAAAACAGTATGAAAATTTTTAGTCTATTGGTTAATAGTTGG
ATTTTTCTTGTTTTAAACAAGGTAAAACACAAGAACAAAAAGCGTAACCCCTGAATAAATAAACC
AACTTGAATGTTTTTGCAAGCAACCC
Found at i:25559 original size:123 final size:122
Alignment explanation
Indices: 25340--25589 Score: 450
Period size: 123 Copynumber: 2.0 Consensus size: 122
25330 TGTACCAGGG
25340 TTTCTATTATAAATAGAGGTAACCTAGACCTAAAAAAATCATTGAATAAAACTTCTAGCGCCGCC
1 TTTCTATTATAAATAGAGGTAACCTAGACCTAAAAAAATCATTGAATAAAACTTCTAGCGCCGCC
*
25405 TAGGCACCGAGGACGTAAGCACATTGTCGAACCTCGTAAAATTCTCGTGTTCTTTCGT
66 TAGGCACCGAGGACGTAAGCACATTGCCGAACCTCGTAAAATTCTCG-GTTCTTTCGT
25463 TTTCTATTATAAATAGAGATGTAACCTAGACCT-AAAAAATCATTGAATAAAACTTCTAGCGCCG
1 TTTCTATTATAAATAGAG--GTAACCTAGACCTAAAAAAATCATTGAATAAAACTTCTAGCGCCG
25527 CCTAGGCA-CGAGGACGTAAGCACATTGCCGAACCTCGTAAAATTCTCGGTTCTTTCGT
64 CCTAGGCACCGAGGACGTAAGCACATTGCCGAACCTCGTAAAATTCTCGGTTCTTTCGT
25585 TTTCT
1 TTTCT
25590 TTACCCGTTT
Statistics
Matches: 124, Mismatches: 1, Indels: 5
0.95 0.01 0.04
Matches are distributed among these distances:
122 15 0.12
123 57 0.46
124 39 0.31
125 13 0.10
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (122 bp):
TTTCTATTATAAATAGAGGTAACCTAGACCTAAAAAAATCATTGAATAAAACTTCTAGCGCCGCC
TAGGCACCGAGGACGTAAGCACATTGCCGAACCTCGTAAAATTCTCGGTTCTTTCGT
Found at i:31604 original size:18 final size:19
Alignment explanation
Indices: 31581--31624 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
31571 GATGTACTGA
**
31581 TTAAAGAATAT-ATTTTGT
1 TTAAAGAATATAAGGTTGT
*
31599 TTAAAGAGTATAAGGTTGT
1 TTAAAGAATATAAGGTTGT
31618 TTAAAGA
1 TTAAAGA
31625 TATGCATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (19 bp):
TTAAAGAATATAAGGTTGT
Found at i:38824 original size:5 final size:5
Alignment explanation
Indices: 38814--38844 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
38804 AGTGTACAGT
38814 TAATA TAATA TAATA TAATA TAATA TAATA T
1 TAATA TAATA TAATA TAATA TAATA TAATA T
38845 TTATTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:46502 original size:15 final size:16
Alignment explanation
Indices: 46462--46502 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
46452 ACAGAGCCTC
46462 TGAATCATTCAGCATT
1 TGAATCATTCAGCATT
* *
46478 TGAGTCATTCAGCGTT
1 TGAATCATTCAGCATT
46494 T-AATCATTC
1 TGAATCATTC
46503 TGAAGTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (16 bp):
TGAATCATTCAGCATT
Found at i:47067 original size:31 final size:32
Alignment explanation
Indices: 47023--47082 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
47013 CGCGGGTCCG
*
47023 TCTCTGATAATTTAGGAATTAATTTGAATTAT
1 TCTCTGATAATTTAGGAACTAATTTGAATTAT
* *
47055 TCTCT-ATCATTTAGGGACTAATTTGAAT
1 TCTCTGATAATTTAGGAACTAATTTGAAT
47083 AGTCTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (32 bp):
TCTCTGATAATTTAGGAACTAATTTGAATTAT
Found at i:47552 original size:15 final size:15
Alignment explanation
Indices: 47532--47561 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47522 CTACAAAAAA
47532 AAATATTAATTTTAG
1 AAATATTAATTTTAG
47547 AAATATTAATTTTAG
1 AAATATTAATTTTAG
47562 GTAACAAAAT
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:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
AAATATTAATTTTAG
Found at i:49321 original size:20 final size:19
Alignment explanation
Indices: 49298--49344 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
49288 CGATATAACA
*
49298 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
49318 GGTATAAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
49338 GGTAAAA
1 GGTAAAA
49345 TGATACCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.72
21 4 0.16
ACGTcount: A:0.55, C:0.06, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:49330 original size:181 final size:183
Alignment explanation
Indices: 48904--49377 Score: 686
Period size: 181 Copynumber: 2.6 Consensus size: 183
48894 GATCAAAATT
* * * * *
48904 AAAAATGTGTCGATCCAAAATGATATAACAGGTAAAACTATGACAAAACCGGTATAGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
* * * * *
48969 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTTAAAGTGTCGATACTTTAATATAAGGATCAACACTTC
* * *
49034 GTGAATTTAAAAGATAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTAA
131 GTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTTAA
* *
49087 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGATA-ACAAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATA-AAAATGAT
* *
49151 AAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCAACAC-T
65 AAAACCGGTAAAACGATACCGGATATATTTAAAGTGTCGATACTTTAATATAAGGATCAACACTT
** *
49214 CTGTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAATGTGTCGATAC-TTTAA
130 C-GTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTTAA
* * *
49268 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAATCGGTATAAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
*
49333 AAACCGGTAAAATGATACCGGATATATTTAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTTAAAGTGTCGATACTTT
49378 TGTAAGTACG
Statistics
Matches: 261, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
181 107 0.41
182 58 0.22
183 96 0.37
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (183 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
AAACCGGTAAAACGATACCGGATATATTTAAAGTGTCGATACTTTAATATAAGGATCAACACTTC
GTGAATTTAAAAGAGAAACAGTTTTAAAGCCTATAAAGTGTCGATACTTTTAA
Found at i:51569 original size:21 final size:21
Alignment explanation
Indices: 51543--51616 Score: 130
Period size: 21 Copynumber: 3.5 Consensus size: 21
51533 AAGACAATCA
51543 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAT
51564 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAT
*
51585 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAT
*
51606 AGAGTAGAAGA
1 AGAGTCGAAGA
51617 TACTCTTGAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.45, C:0.08, G:0.31, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAT
Found at i:53509 original size:25 final size:25
Alignment explanation
Indices: 53445--53503 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
53435 TTATCATTAA
53445 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
53470 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
53495 ATTTAGGTA
1 ATTTAGGTA
53504 CATACATCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:60049 original size:26 final size:26
Alignment explanation
Indices: 59983--60049 Score: 62
Period size: 31 Copynumber: 2.3 Consensus size: 26
59973 AGCTCGAGTA
*
59983 TCGCTGAGCTTGACTCGACTCGAAAAC
1 TCGC-GAGCTCGACTCGACTCGAAAAC
*
60010 TCTGTAATGCAGCTCGACTCGACTCGAAAAC
1 TC-G---CG-AGCTCGACTCGACTCGAAAAC
60041 TCGCGAGCT
1 TCGCGAGCT
60050 TAAAATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
26 4 0.12
27 3 0.09
28 1 0.03
30 2 0.06
31 22 0.69
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.22
Consensus pattern (26 bp):
TCGCGAGCTCGACTCGACTCGAAAAC
Found at i:60385 original size:15 final size:15
Alignment explanation
Indices: 60367--60402 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
60357 GAGCTCGAGT
60367 CGAGTACATTCGATC
1 CGAGTACATTCGATC
60382 CGAGTACATTCGATC
1 CGAGTACATTCGATC
60397 CGAGTA
1 CGAGTA
60403 TTTATCGAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (15 bp):
CGAGTACATTCGATC
Found at i:70451 original size:16 final size:16
Alignment explanation
Indices: 70430--70460 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
70420 ACATTAAACT
*
70430 TAAAAATTAATATAAA
1 TAAAAATTAAAATAAA
70446 TAAAAATTAAAATAA
1 TAAAAATTAAAATAA
70461 TATTTTTCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAAATTAAAATAAA
Found at i:70980 original size:20 final size:19
Alignment explanation
Indices: 70957--71003 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
70947 CGATATACCA
70957 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
70977 GGTATCAAAATGATAAAATC
1 GGTA-AAAAATGATAAAACC
70997 GGTAAAA
1 GGTAAAA
71004 CGTTACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:71132 original size:181 final size:181
Alignment explanation
Indices: 70754--71216 Score: 658
Period size: 181 Copynumber: 2.5 Consensus size: 181
70744 TACAAATGTG
* * * **
70754 TCGATCCAAAACGATATAACATGTAAAACTATGACAAAACCGGTATTGAAATGATAAAACCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAA-CGGTA
* * * * * * *
70819 AAGCGCTACCGGATACATTTAAAGTGTCGGTATTTTAATATAAAGATTGACACTTCGTGAATTTA
65 AAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAAGATCGACACTTCGTGAATTTA
* * **
70884 AAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTAAAAAATGTA
130 AAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAAAATA
*
70936 TCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAATCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAA-CGGTA
* * *
71001 AAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTTGTGAATTTA
65 AAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAAGATCGACACTTCGTGAATTTA
** *
71065 AAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAAAAAAAAATA
130 AAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAAAATA
*
71117 TCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACTGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAAC-GGTA
* *
71182 AAACGATATCGGATATATTGAAAGTTTCGATACTT
65 AAACGATACCGGATATATTGAAAGTGTCGATACTT
71217 CCGTAAGTAC
Statistics
Matches: 252, Mismatches: 28, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
180 1 0.00
181 163 0.65
182 88 0.35
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (181 bp):
TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACGGTAA
AACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAAGATCGACACTTCGTGAATTTAA
AAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAAAATA
Found at i:71161 original size:20 final size:19
Alignment explanation
Indices: 71138--71184 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
71128 CGATATAACA
71138 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
71158 GGTATCAAAATGATAAAACT
1 GGTA-AAAAATGATAAAACC
71178 GGTAAAA
1 GGTAAAA
71185 CGATATCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:73440 original size:21 final size:21
Alignment explanation
Indices: 73414--73478 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
73404 AAGACAATCA
*
73414 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
73435 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
73456 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
73477 AG
1 AG
73479 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:73554 original size:33 final size:33
Alignment explanation
Indices: 73512--73577 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
73502 AAATAGATGG
73512 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
73545 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
73578 TATTAAGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.21
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
Found at i:76003 original size:200 final size:200
Alignment explanation
Indices: 75655--76637 Score: 1727
Period size: 200 Copynumber: 4.9 Consensus size: 200
75645 AATTTACAAT
*
75655 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
75720 TGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
*
75785 ATAAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTTGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTTGTTTGTGTCGATATTTTTGGTCCAG
75850 AATGA
196 AATGA
* *
75855 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
75920 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
*
75985 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTTGTTTGTGTCGATATTTTTGGTCCAG
76050 AATGA
196 AATGA
* *
76055 ATGGCAAACATGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
76120 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
* *
76185 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTTGTTTGTGTCGATATTTTTGGTCCAG
76250 AATGA
196 AATGA
*
76255 ATGGCAAACTGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
76320 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
76385 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTTGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTTGTTTGTGTCGATATTTTTGGTCCAG
76450 AATGA
196 AATGA
*
76455 ATGGCAAACTGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
76520 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAATCGGTATAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
* * * **
76585 ATGGGAGAATTGGTATATAAT-ATGTATCGACACTGTTTAATGTTT-TGTCGATA
131 ATGAGAGAATAGGTCTA-AATAATGTATCGACACT-TTTGTTGTTTGTGTCGATA
76638 CTAATTTAAA
Statistics
Matches: 756, Mismatches: 25, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
200 745 0.99
201 11 0.01
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTTGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:78125 original size:6 final size:6
Alignment explanation
Indices: 78114--78171 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
78104 CAAGCGGTCA
* * * * *
78114 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
*
78162 ATGATG ATGA
1 ATGAAG ATGA
78172 TCCAAACAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:78172 original size:12 final size:12
Alignment explanation
Indices: 78114--78171 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
78104 CAAGCGGTCA
*
78114 ATGAAGATGAAG
1 ATGACGATGAAG
*
78126 CTGACGATGAAG
1 ATGACGATGAAG
78138 ATGACGATGAAG
1 ATGACGATGAAG
*
78150 ATGACGATGATG
1 ATGACGATGAAG
*
78162 ATGATGATGA
1 ATGACGATGA
78172 TCCAAACAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.21
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:79908 original size:181 final size:183
Alignment explanation
Indices: 79378--79964 Score: 1043
Period size: 181 Copynumber: 3.2 Consensus size: 183
79368 CAAAGTTTTC
*
79378 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
** ** * *
79443 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGACAG-TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
79508 TAATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
79562 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
79627 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACAGTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
79692 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
79745 TCACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG-AAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
79809 C-AAAAGTGTCGACAGTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACAGTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
79873 AACCAGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
79926 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
79965 TATAATGTAC
Statistics
Matches: 389, Mismatches: 14, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
181 151 0.39
182 21 0.05
183 140 0.36
184 77 0.20
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACAGTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:80051 original size:120 final size:120
Alignment explanation
Indices: 79838--80084 Score: 431
Period size: 120 Copynumber: 2.1 Consensus size: 120
79828 ACATCGGAAC
79838 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGC
*
79903 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * * *
79958 CCAGAATTATAATGTACTAGATAATTTTGTAATATAATCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGC
*
80023 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
80078 CCAGAAT
1 CCAGAAT
80085 GGAAGAAAAA
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:80248 original size:303 final size:301
Alignment explanation
Indices: 79657--80249 Score: 1060
Period size: 303 Copynumber: 2.0 Consensus size: 301
79647 ACATCGGAAC
79657 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
79722 GAATAGGTCTACAACCTATATCGTCACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
* *
79787 AGAAAATGTGTCGATACCTTGTCAAAAGTGTCGACAGTTACACATCGGAACCCAGAATTATAATG
131 AGAAAATGTGTCGATACCTTGTCAAAAGTGTCAAAAGTTACACATCGGAACCCAGAATTATAATG
*
79852 TAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
196 TAATAGATAATTTTGTAATATAACCAGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAA
*
79917 CCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * *
79958 CCAGAATTATAATGTACTAGATAATTTTGTAATATAATCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
80023 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
80088 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCAAAATTTACACATCGGAACCCAGAATTATAA
131 AG-AAAATGTGTCGATACCTTGTC-AAAAGTGTCAAAAGTTACACATCGGAACCCAGAATTATAA
*
80153 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTAC
194 TGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCAGTTTTATGAGCGAATAGGTCTAC
80218 AACCTATATCGACACTTTTTAATATTGTGTCG
259 AACCTATATCGACACTTTTTAATATTGTGTCG
80250 CTAATTTTAA
Statistics
Matches: 278, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
301 126 0.45
302 21 0.08
303 131 0.47
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (301 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAATGTGTCGATACCTTGTCAAAAGTGTCAAAAGTTACACATCGGAACCCAGAATTATAATG
TAATAGATAATTTTGTAATATAACCAGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAA
CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:83689 original size:87 final size:87
Alignment explanation
Indices: 83587--83836 Score: 430
Period size: 87 Copynumber: 2.9 Consensus size: 87
83577 AAATAAGTCA
* * *
83587 ATATAAGCGCTATCTATTTCATTATATAAGCGCTGCCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
*
83652 TTCGTTAAATACCTATTTTATT
66 CTCGTTAAATACCTATTTTATT
* *
83674 ATATAAGTGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTAATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
83739 CTCGTTAAATACCTATTTTATT
66 CTCGTTAAATACCTATTTTATT
83761 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
83826 C-CGGTTAAATA
66 CTC-GTTAAATA
83837 ATATAACATA
Statistics
Matches: 154, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
86 1 0.01
87 153 0.99
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.44
Consensus pattern (87 bp):
ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
CTCGTTAAATACCTATTTTATT
Found at i:83808 original size:23 final size:23
Alignment explanation
Indices: 83758--83802 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
83748 TACCTATTTT
* *
83758 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
83781 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
83803 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:86932 original size:25 final size:26
Alignment explanation
Indices: 86903--86953 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
86893 TTGTCCCGTC
86903 CCCGAACCCG-ACCCG-AAATATTATA
1 CCCGAA-CCGAACCCGAAAATATTATA
86928 CCCGAACCGAACCCGAAAATATTATA
1 CCCGAACCGAACCCGAAAATATTATA
86954 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 3 0.12
25 11 0.46
26 10 0.42
ACGTcount: A:0.39, C:0.33, G:0.12, T:0.16
Consensus pattern (26 bp):
CCCGAACCGAACCCGAAAATATTATA
Found at i:86957 original size:2 final size:2
Alignment explanation
Indices: 86946--87003 Score: 59
Period size: 2 Copynumber: 30.5 Consensus size: 2
86936 GAACCCGAAA
* * * *
86946 AT AT -T AT AT AT AT AT AT AT AT A- AT AT AT AA AA AT AT AA AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
86986 AT AT -T AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
87004 ATCGGGGCGG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
1 3 0.06
2 46 0.94
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:88226 original size:37 final size:36
Alignment explanation
Indices: 88150--88226 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
88140 TTTTTATATT
*
88150 TTTAATTTTGTAAAAAAATTTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAA-TTATATAAATATTATCAA
* *
88187 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
88224 TTT
1 TTT
88227 GTAATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 13 0.37
37 18 0.51
38 4 0.11
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:90319 original size:31 final size:31
Alignment explanation
Indices: 90283--90341 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
90273 AACTTAAAAG
90283 AGTTTTACAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
90314 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
90342 CCATACAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:90391 original size:22 final size:22
Alignment explanation
Indices: 90366--90775 Score: 535
Period size: 22 Copynumber: 18.6 Consensus size: 22
90356 TAATAATTTT
90366 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
*
90388 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
* *
90410 TTTTAGAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
90432 TTTTAAAATAAATTAATTCATA
1 TTTTAAAATAAATCAATTCATA
90454 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
* *
90476 TTTTAAAATAAATTAATCCATA
1 TTTTAAAATAAATCAATTCATA
* *
90498 TTTTAAAATAAATCAATCCACA
1 TTTTAAAATAAATCAATTCATA
*
90520 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
90542 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
90564 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
* ***
90586 TTTTAAAATAATTTTTTTTCATA
1 TTTTAAAATAA-ATCAATTCATA
90609 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
**
90631 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATTCATA
*
90653 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
90675 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
90697 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
**
90719 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATTCATA
90741 TTTTAAAATAAATCAATAT-ATA
1 TTTTAAAATAAATCAAT-TCATA
90763 TTTTAAAATAAAT
1 TTTTAAAATAAAT
90776 TTTAAAATAG
Statistics
Matches: 348, Mismatches: 30, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
21 11 0.03
22 310 0.89
23 25 0.07
24 2 0.01
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAATAAATCAATTCATA
Found at i:90792 original size:11 final size:12
Alignment explanation
Indices: 90740--90789 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
90730 AATTTTTCAT
90740 ATTTTAAAATAA
1 ATTTTAAAATAA
* * *
90752 A--TCAATATAT
1 ATTTTAAAATAA
90762 ATTTTAAAATAA
1 ATTTTAAAATAA
*
90774 ATTTTAAAATAG
1 ATTTTAAAATAA
90786 ATTT
1 ATTT
90790 AAATGATTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 7 0.24
12 22 0.76
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:92029 original size:2 final size:2
Alignment explanation
Indices: 92022--92047 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
92012 GTGATAATTA
92022 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
92048 CCCCTTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95095 original size:2 final size:2
Alignment explanation
Indices: 95088--95121 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
95078 ACTCTGGTTA
95088 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
95122 TAATTTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96987 original size:18 final size:16
Alignment explanation
Indices: 96964--97013 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 16
96954 TTAAACAACG
96964 AATATAAATAATAGAACA
1 AATATAAATAATA-AA-A
96982 AATATAAA-AGATAAAA
1 AATATAAATA-ATAAAA
96998 AAGTATAAATAATAAA
1 AA-TATAAATAATAAA
97014 TACAAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.10
17 14 0.48
18 12 0.41
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (16 bp):
AATATAAATAATAAAA
Found at i:97525 original size:16 final size:16
Alignment explanation
Indices: 97506--97539 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
97496 CAATATACGA
97506 ATAAACATATATTTAT
1 ATAAACATATATTTAT
**
97522 ATAAATGTATATTTAT
1 ATAAACATATATTTAT
97538 AT
1 AT
97540 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAACATATATTTAT
Found at i:97615 original size:16 final size:18
Alignment explanation
Indices: 97583--97616 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
97573 TATTAATGTA
97583 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
97601 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
97617 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:102097 original size:46 final size:48
Alignment explanation
Indices: 102039--102128 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 48
102029 TTTGTTACTA
* *
102039 TTGGAGCTCATCTCGA-CTTGATTA-CCCTTACTTGAAGGTACAAATAT
1 TTGGAGCTCATCTCAACCCT-ATTATCCCTTACTTGAAGGTACAAATAT
*
102086 TTGG-GCTCATCTCAACCCTATTATCCCTTGCTTGAAGGTACAA
1 TTGGAGCTCATCTCAACCCTATTATCCCTTACTTGAAGGTACAA
102129 TCGACTCGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
46 14 0.37
47 24 0.63
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (48 bp):
TTGGAGCTCATCTCAACCCTATTATCCCTTACTTGAAGGTACAAATAT
Found at i:106881 original size:48 final size:48
Alignment explanation
Indices: 106810--106920 Score: 147
Period size: 48 Copynumber: 2.3 Consensus size: 48
106800 GTAAAAGGAG
* *
106810 ATATCATAAATCAAAACAGAATTCA-GATCAA-ATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATTCATG-T-AATATATCAGAACAGAATCC
*
106858 ATATCAGAAATCAGAACAGAATTCATGTAATATATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTCATGTAATATATCAGAACAGAATCC
106906 A-AGTCAGAAATCAGA
1 ATA-TCAGAAATCAGA
106921 TAAAATATTT
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
47 3 0.05
48 53 0.93
49 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (48 bp):
ATATCAGAAATCAGAACAGAATTCATGTAATATATCAGAACAGAATCC
Found at i:106918 original size:24 final size:24
Alignment explanation
Indices: 106817--106920 Score: 106
Period size: 24 Copynumber: 4.3 Consensus size: 24
106807 GAGATATCAT
*
106817 AAATCAAAACAGAATTC-AGATCA-
1 AAATCAGAACAGAATTCAAG-TCAG
*
106840 AATATCAGAACAGAATCCATA-TCAG
1 AA-ATCAGAACAGAATTCA-AGTCAG
* * *
106865 AAATCAGAACAGAATTCATGTAAT
1 AAATCAGAACAGAATTCAAGTCAG
*
106889 ATATCAGAACAGAATTCAAGTCAG
1 AAATCAGAACAGAATTCAAGTCAG
106913 AAATCAGA
1 AAATCAGA
106921 TAAAATATTT
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
23 2 0.03
24 60 0.92
25 2 0.03
26 1 0.02
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.20
Consensus pattern (24 bp):
AAATCAGAACAGAATTCAAGTCAG
Done.