Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006525.1 Hibiscus syriacus cultivar Beakdansim tig00015902_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: 96821
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:1380 original size:13 final size:13
Alignment explanation
Indices: 1364--1388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1354 ATGATTCATA
1364 TATATATATATAT
1 TATATATATATAT
1377 TATATATATATA
1 TATATATATATA
1389 AGGTAAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATATATATATAT
Found at i:1524 original size:25 final size:25
Alignment explanation
Indices: 1470--1524 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
1460 TCAAATCCAT
* *
1470 TTTTGTACAACACTTTTAAAAATTC
1 TTTTCTACAACACTTTTAAAAATTA
* * *
1495 GTTTCTACAATACTTTTAAAAGTTA
1 TTTTCTACAACACTTTTAAAAATTA
1520 TTTTC
1 TTTTC
1525 AAAAACTATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.47
Consensus pattern (25 bp):
TTTTCTACAACACTTTTAAAAATTA
Found at i:2623 original size:27 final size:28
Alignment explanation
Indices: 2587--2664 Score: 104
Period size: 29 Copynumber: 2.8 Consensus size: 28
2577 TATAAACCCT
*
2587 ATAACTTCTAAACCCTAAACC-AACACC
1 ATAACATCTAAACCCTAAACCTAACACC
* *
2614 ATAATATCTAAACCCTAAACTCTAACCCC
1 ATAACATCTAAACCCTAAAC-CTAACACC
*
2643 ATAACATATAAACCCTAAACCT
1 ATAACATCTAAACCCTAAACCT
2665 TAACTTAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
27 18 0.41
28 3 0.07
29 23 0.52
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (28 bp):
ATAACATCTAAACCCTAAACCTAACACC
Found at i:23684 original size:19 final size:19
Alignment explanation
Indices: 23632--23683 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
23622 CTCTTTCCTT
23632 TCTCTCTTTTTTTTTCGAA
1 TCTCTCTTTTTTTTTCGAA
*
23651 TCTCTCTTTTTTTTTC-TA
1 TCTCTCTTTTTTTTTCGAA
23669 TCT-TCTGTTTTTTTT
1 TCTCTCT-TTTTTTTT
23684 TTGTTTTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 3 0.10
18 12 0.39
19 16 0.52
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (19 bp):
TCTCTCTTTTTTTTTCGAA
Found at i:23692 original size:18 final size:18
Alignment explanation
Indices: 23638--23699 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
23628 CCTTTCTCTC
*
23638 TTTTTTTTTCGAATC-TCT
1 TTTTTTTTTC-TATCTTCT
23656 CTTTTTTTTTCTATCTTCT
1 -TTTTTTTTTCTATCTTCT
* *
23675 GTTTTTTTTT-TGTTTTCT
1 -TTTTTTTTTCTATCTTCT
23693 TTTTTTT
1 TTTTTTT
23700 CTTTTTCTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 7 0.18
18 9 0.24
19 22 0.58
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTTTTTTTCTATCTTCT
Found at i:24236 original size:25 final size:25
Alignment explanation
Indices: 24205--24279 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
24195 ATTTAGGGGA
24205 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
24230 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
24255 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
24280 GGGTTGATTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGAT
Found at i:24369 original size:23 final size:23
Alignment explanation
Indices: 24343--24391 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
24333 ATGTAAAATG
*
24343 TAATATTAATAATAAAATAACGA
1 TAATAATAATAATAAAATAACGA
24366 TAATAATAATAATAAAATAACGA
1 TAATAATAATAATAAAATAACGA
24389 TAA
1 TAA
24392 AAAACCCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
TAATAATAATAATAAAATAACGA
Found at i:24686 original size:46 final size:45
Alignment explanation
Indices: 24626--24820 Score: 147
Period size: 46 Copynumber: 4.4 Consensus size: 45
24616 TCGGGGAATG
* * *
24626 ACACGGATCATACGTGATGGAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCT-AAGGTGATA
* * * ** * *
24672 ACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT--TG
1 ACACGGCTCCTACGTGATGAAGA-GTTCTGGCCATCTAAGGTGATA
* * *
24715 ACACGGCTCCTACGTGATGAAGAGATCTGG---TC---GGGGAATG
1 ACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTAAGGTG-ATA
* *
24755 ACACGGCTCATACGTAATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCT-AAGGTGATA
*
24801 ACACGGTTCCTACGTGATGA
1 ACACGGCTCCTACGTGATGA
24821 GGACGGCTGG
Statistics
Matches: 116, Mismatches: 21, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
37 2 0.02
40 31 0.27
42 1 0.01
43 28 0.24
45 4 0.03
46 46 0.40
47 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (45 bp):
ACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTAAGGTGATA
Found at i:24729 original size:43 final size:43
Alignment explanation
Indices: 24672--24874 Score: 148
Period size: 43 Copynumber: 4.7 Consensus size: 43
24662 AAAGGTGATA
*
24672 ACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGTTG
1 ACACGGCTCCTACGTGATGAGGA-GAGCTGGTTATCTATGGTTG
* * ** *
24715 ACACGGCTCCTACGTGATGAAGAGATCTGG---TC-GGGGAATG
1 ACACGGCTCCTACGTGATGAGGAGAGCTGGTTATCTATGG-TTG
* * * ** ** * *
24755 ACACGGCTCATACGTAATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGAGCTGGTTATCT-ATGGT--TG
* *
24801 ACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGATTG
1 ACACGGCTCCTACGTGATGAGGA-GAGCTGGTTATCTATGGTTG
*
24844 ACACGGCTCCTACGTGATGAGGAGATCTGGT
1 ACACGGCTCCTACGTGATGAGGAGAGCTGGT
24875 CTGGTGATGA
Statistics
Matches: 124, Mismatches: 25, Indels: 22
0.73 0.15 0.13
Matches are distributed among these distances:
39 2 0.02
40 31 0.25
42 2 0.02
43 55 0.44
45 5 0.04
46 28 0.23
47 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.26
Consensus pattern (43 bp):
ACACGGCTCCTACGTGATGAGGAGAGCTGGTTATCTATGGTTG
Found at i:24783 original size:129 final size:129
Alignment explanation
Indices: 24584--24889 Score: 515
Period size: 129 Copynumber: 2.4 Consensus size: 129
24574 CGTCTAAGGG
* * * * *
24584 TGACATGGTTCCTACGTGATGAGGACATCTGGTCGGGGAATGACACGGATCATACGTGATGGAGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGAATGACACGGATCATACGTAATGAAGA
*
24649 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGT
66 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGAT
* *
24713 TGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAATGACACGGCTCATACGTAATGAAGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGAATGACACGGATCATACGTAATGAAGA
24778 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGAT
66 GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGAT
*
24842 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCTGGTG-ATGACACGG
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTC-GGGGAATGACACGG
24890 TTCCTACATG
Statistics
Matches: 166, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
129 163 0.98
130 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (129 bp):
TGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGAATGACACGGATCATACGTAATGAAGA
GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGAT
Found at i:24902 original size:40 final size:41
Alignment explanation
Indices: 24584--24906 Score: 173
Period size: 40 Copynumber: 7.6 Consensus size: 41
24574 CGTCTAAGGG
* * * *
24584 TGACATGGTTCCTACGTGATGAGGACATCTGG-TC-GGGGAA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGTG-A
* * *
24624 TGACACGGATCATACGTGATG-GAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAG-GAGATCTGG--ATCT---GGTGA
* * *
24670 TAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT--
1 TGACACGGCTCCTACGTGATGAGGA-GATCTGG--ATC--TGGTGA
* *
24713 TGACACGGCTCCTACGTGATGAAGAGATCTGG-TC-GGGGAA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGTG-A
* * * *
24753 TGACACGGCTCATACGTAATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG--ATCT---GGTGA
* * * *
24799 TAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCT-ATGA
1 TGACACGGCTCCTACGTGATGAGGA-GATCTGG--ATCTGGTGA
24841 TTGACACGGCTCCTACGTGATGAGGAGATCTGG-TCTGGTGA
1 -TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGTGA
* *
24882 TGACACGGTTCCTACATGATGAGGA
1 TGACACGGCTCCTACGTGATGAGGA
24907 CGGCTGGCCA
Statistics
Matches: 220, Mismatches: 36, Indels: 54
0.71 0.12 0.17
Matches are distributed among these distances:
37 2 0.01
39 1 0.00
40 82 0.37
41 3 0.01
42 5 0.02
43 57 0.26
45 3 0.01
46 57 0.26
47 9 0.04
48 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (41 bp):
TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGTGA
Found at i:25013 original size:28 final size:28
Alignment explanation
Indices: 24952--25013 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
24942 AAACCAAATT
*
24952 AAAGATTTGTTTCAAAAGAGACAAACCC
1 AAAGATTTGTTTCAAAAGAAACAAACCC
* * *
24980 AGAGATTTGTTTCAAGAA-AAATAAACTC
1 AAAGATTTGTTTCAA-AAGAAACAAACCC
25008 AAAGAT
1 AAAGAT
25014 GATATATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAAACCC
Found at i:25208 original size:37 final size:38
Alignment explanation
Indices: 25156--25246 Score: 114
Period size: 37 Copynumber: 2.4 Consensus size: 38
25146 CAAAGATTAG
* * *
25156 TGTTTCGAGAGAAACAAACTCAAAGA-TGTT-TTTTTTT
1 TGTTTCAAGAAAAACAAACTCAAAGACT-TTGTTTGTTT
* *
25193 TGTTTTAAGAAAAACATACTCAAAGACTTTGTTTGTTT
1 TGTTTCAAGAAAAACAAACTCAAAGACTTTGTTTGTTT
25231 TGTTTCAAGAAAAACA
1 TGTTTCAAGAAAAACA
25247 GATTCAAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
37 24 0.52
38 22 0.48
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (38 bp):
TGTTTCAAGAAAAACAAACTCAAAGACTTTGTTTGTTT
Found at i:26027 original size:64 final size:64
Alignment explanation
Indices: 25940--26170 Score: 234
Period size: 64 Copynumber: 3.6 Consensus size: 64
25930 TTTCAAAATG
* * ** * * * *
25940 AACATATTTAAAGATTTACTTCAAAAGAGACTGTCTCAAGAGATACAAAATTCAT-TTT-AAGAG
1 AACAAATTCAAAGATTTTTTTCAAAAGAAACTATCTTAAGAGAGACAAAATT-ATGTTTCAA-AG
26003 A
64 A
* * * *
26004 AACAGATTCAAAGATTTTTTTCAAAGGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGA
1 AACAAATTCAAAGATTTTTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTATGTTT-CAAAGA
* *
26069 AACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAA
1 AACAAATTCAAAGA-TTTT-TTTCAAAAGAAACTATCTTAAGAGAGACAAAATTATGTTT-CAAA
26134 GA
63 GA
* * *
26136 AACAAACTCAAAGA-TTTTTTGAAAAGAAACAATCT
1 AACAAATTCAAAGATTTTTTTCAAAAGAAACTATCT
26171 CAAAATTTTT
Statistics
Matches: 145, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
63 1 0.01
64 61 0.42
65 18 0.12
66 6 0.04
67 59 0.41
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (64 bp):
AACAAATTCAAAGATTTTTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTATGTTTCAAAGA
Found at i:26088 original size:30 final size:30
Alignment explanation
Indices: 26054--26154 Score: 94
Period size: 30 Copynumber: 3.1 Consensus size: 30
26044 AGAGACAAAA
26054 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
* * * * *
26084 TTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAA
1 TTTTGTTTCCAAAGAAACAAAC-TCA-A-AG----AT
26121 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
26151 TTTT
1 TTTT
26155 TGAAAAGAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
30 24 0.44
31 2 0.04
32 1 0.02
33 2 0.04
34 2 0.04
35 1 0.02
36 2 0.04
37 20 0.37
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.33
Consensus pattern (30 bp):
TTTTGTTTCCAAAGAAACAAACTCAAAGAT
Found at i:26118 original size:67 final size:66
Alignment explanation
Indices: 25959--26155 Score: 258
Period size: 67 Copynumber: 3.0 Consensus size: 66
25949 AAAGATTTAC
* * * * * * *
25959 TTCAAAAGAGACTGTCTCAAGAGATACAAAATTCAT-TTT--AAGAGAAACAGATTCAAAGA-TT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATT-TTGTTTCCAA-AGAAACAAACTCAAAGATTT
26020 TTT
64 TTT
* *
26023 TTCAAAGGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
26088 GT
66 -T
26090 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
1 TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
26155 T
66 T
26156 GAAAAGAAAC
Statistics
Matches: 117, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
63 1 0.01
64 30 0.26
65 15 0.13
66 7 0.06
67 64 0.55
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (66 bp):
TTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT
T
Found at i:26161 original size:27 final size:26
Alignment explanation
Indices: 26131--26181 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
26121 TTTTGTTTCC
26131 AAAGAAACAAACTCAAAGATTTTTTGA
1 AAAGAAACAAACTCAAA-ATTTTTTGA
*
26158 AAAGAAACAATCTCAAAATTTTTT
1 AAAGAAACAAACTCAAAATTTTTT
26182 TTTCACAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (26 bp):
AAAGAAACAAACTCAAAATTTTTTGA
Found at i:26182 original size:27 final size:27
Alignment explanation
Indices: 26116--26182 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
26106 TTAAGAGAGA
*
26116 CAAAATTTTGTTTCCAAAGAAACAAACT
1 CAAAATTTT-TTTCAAAAGAAACAAACT
* *
26144 CAAAGA-TTTTTTGAAAAGAAACAATCT
1 CAAA-ATTTTTTTCAAAAGAAACAAACT
26171 CAAAATTTTTTT
1 CAAAATTTTTTT
26183 TTCACAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 1 0.03
27 25 0.74
28 7 0.21
29 1 0.03
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.34
Consensus pattern (27 bp):
CAAAATTTTTTTCAAAAGAAACAAACT
Found at i:26316 original size:25 final size:25
Alignment explanation
Indices: 26269--26351 Score: 94
Period size: 26 Copynumber: 3.1 Consensus size: 25
26259 CAAAACTTTG
* *
26269 TTTCAAAATAAATAGACTCAAAGATT
1 TTTCAAAAGAAACA-ACTCAAAGATT
26295 TTTCAAAAGAAACAACTCAAAGATTTT
1 TTTCAAAAGAAACAACTCAAAGA--TT
*
26322 TATTCAAAAGGAACAAACTCAAAGATT
1 T-TTCAAAAGAAAC-AACTCAAAGATT
26349 TTT
1 TTT
26352 TTTTTTAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
25 9 0.18
26 14 0.28
27 6 0.12
28 11 0.22
29 10 0.20
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.30
Consensus pattern (25 bp):
TTTCAAAAGAAACAACTCAAAGATT
Found at i:26349 original size:29 final size:27
Alignment explanation
Indices: 26269--26353 Score: 102
Period size: 29 Copynumber: 3.1 Consensus size: 27
26259 CAAAACTTTG
* *
26269 TTTCAAAATAAATAGACTCAAAGA--TT
1 TTTCAAAAGAAACA-ACTCAAAGATTTT
26295 TTTCAAAAGAAACAACTCAAAGATTTT
1 TTTCAAAAGAAACAACTCAAAGATTTT
*
26322 TATTCAAAAGGAACAAACTCAAAGATTTT
1 T-TTCAAAAGAAAC-AACTCAAAGATTTT
26351 TTT
1 TTT
26354 TTTTAAGAGG
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
25 9 0.17
26 12 0.23
27 3 0.06
28 13 0.25
29 15 0.29
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTCAAAAGAAACAACTCAAAGATTTT
Found at i:26723 original size:36 final size:36
Alignment explanation
Indices: 26612--26730 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
26602 AGAAAATGAT
* *
26612 GTCTCAAGCGAGACGAAA-TTTG-CTTTA-AGATATA-
1 GTCTCAAGCGAGAC-AAAGTTTGTTTTTAGAGA-AAAC
** **
26646 GTCTCAAATGAGACAAAGTTTGTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAGTTTGTTTTTAGAGAAAAC
26682 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGCGAGACAAAGTTTGTTTTTAGAGAAAAC
*
26717 GATCTCAAGTGAGA
1 G-TCTCAAGCGAGA
26731 TCAACTTTGT
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
33 3 0.04
34 16 0.23
35 12 0.17
36 39 0.56
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAGTTTGTTTTTAGAGAAAAC
Found at i:26742 original size:36 final size:36
Alignment explanation
Indices: 26646--26730 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
26636 TTAAGATATA
* **
26646 GTCTCAAATGAGACAAAGTTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAGTTTGTTTTTAGAGAAAAC
*
26682 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAGTTTGTTTTTAGAGAAAAC
26717 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
26731 TCAACTTTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 7 0.16
36 36 0.84
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAGTTTGTTTTTAGAGAAAAC
Found at i:26861 original size:105 final size:104
Alignment explanation
Indices: 26682--26921 Score: 310
Period size: 105 Copynumber: 2.3 Consensus size: 104
26672 TAGAGAAATT
* *
26682 GTCTCAAGCGAGAC-AAAGTTTGTTTT-TGAG-AAAACGATCTCAAGTGAGATCAACTTTGTTTA
1 GTCTCAAGCGAGACGAAA-TTTGTTTTAAGAGAAAAACAATCTCAAGTGAGATCAACTTTGTTTA
* *
26744 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
65 ATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* * *
26784 GTCTCAAGCGAGACGAAATTTGTTTTAAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTAAGAGAAA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * *
26848 TAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
63 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
*
26889 GTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAA
1 GTCTCAAGCGAGACGAAATTTGTTTTAAGAGAA
26922 TTTGTCTCAA
Statistics
Matches: 120, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
102 22 0.18
103 5 0.04
104 4 0.03
105 84 0.70
106 5 0.04
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.30
Consensus pattern (104 bp):
GTCTCAAGCGAGACGAAATTTGTTTTAAGAGAAAAACAATCTCAAGTGAGATCAACTTTGTTTAA
TGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:26928 original size:36 final size:36
Alignment explanation
Indices: 26888--27024 Score: 170
Period size: 36 Copynumber: 3.8 Consensus size: 36
26878 AAAGGAAAAA
* * *
26888 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATT
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
* * **
26924 TGTCTCAAACGAGACAAAATTTGTTTTTAGA-AAGC
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
*
26959 TGTCTCAAGCGAGACAAAATTTGCTTTGAA-AGAAAT
1 TGTCTCAAGCGAGACAAAATTTG-TTTTAAGAGAAAT
26995 TGTCTCAAGCGAGACAAAAATTTGTTTTAA
1 TGTCTCAAGCGAGAC-AAAATTTGTTTTAA
27025 AATTCTCAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
35 25 0.29
36 53 0.62
37 8 0.09
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
Found at i:26998 original size:71 final size:72
Alignment explanation
Indices: 26888--27022 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 72
26878 AAAGGAAAAA
* * * *
26888 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATTTGTCTCAAACGAGAC-AAAATTTGTTTTT
1 TGTCTCAAGCGAGACAAAATTTGTTTGAAGAGAAATTGTCTCAAACGAGACAAAAATTTGTTTTT
26952 AGAAAGC
66 AGAAAGC
*
26959 TGTCTCAAGCGAGACAAAATTTGCTTTGAA-AGAAATTGTCTCAAGCGAGACAAAAATTTGTTTT
1 TGTCTCAAGCGAGACAAAATTTG-TTTGAAGAGAAATTGTCTCAAACGAGACAAAAATTTGTTTT
27023 AAAATTCTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
71 40 0.70
72 17 0.30
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (72 bp):
TGTCTCAAGCGAGACAAAATTTGTTTGAAGAGAAATTGTCTCAAACGAGACAAAAATTTGTTTTT
AGAAAGC
Found at i:27392 original size:10 final size:10
Alignment explanation
Indices: 27377--27401 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27367 TTATGTATCA
27377 TGTATGTATG
1 TGTATGTATG
27387 TGTATGTATG
1 TGTATGTATG
27397 TGTAT
1 TGTAT
27402 ACTTTCCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (10 bp):
TGTATGTATG
Found at i:28630 original size:13 final size:12
Alignment explanation
Indices: 28578--28623 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
28568 TCTTTTTGTT
*
28578 CTTTGCTTTTT-
1 CTTTGATTTTTG
28589 CTTTGATTTTTG
1 CTTTGATTTTTG
28601 CTTTGATTTTTG
1 CTTTGATTTTTG
28613 CTTTGATTTTT
1 CTTTGATTTTT
28624 CTCTTTGCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
11 10 0.30
12 23 0.70
ACGTcount: A:0.07, C:0.11, G:0.13, T:0.70
Consensus pattern (12 bp):
CTTTGATTTTTG
Found at i:28649 original size:12 final size:12
Alignment explanation
Indices: 28571--28630 Score: 68
Period size: 12 Copynumber: 4.9 Consensus size: 12
28561 TTTGTCCTCT
28571 TTTTGTTCTTTG-
1 TTTT-TTCTTTGA
*
28583 CTTTTTCTTTGA
1 TTTTTTCTTTGA
*
28595 TTTTTGCTTTGA
1 TTTTTTCTTTGA
*
28607 TTTTTGCTTTGA
1 TTTTTTCTTTGA
28619 TTTTTCTCTTTG
1 TTTTT-TCTTTG
28631 CTCTTTGTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
11 7 0.17
12 30 0.71
13 5 0.12
ACGTcount: A:0.05, C:0.12, G:0.13, T:0.70
Consensus pattern (12 bp):
TTTTTTCTTTGA
Found at i:29329 original size:46 final size:45
Alignment explanation
Indices: 29237--29330 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 45
29227 ATAAATGCAG
* * * *
29237 TGTTTCCAGGTGGAAAGAATGTTTCAAGGCCTTAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTTAAAGAGAGAGAA
* *
29282 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTTAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAGGCCTTAAAGAGAGAGAA
29328 TGT
1 TGT
29331 CAAAAATTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 10 0.24
46 32 0.76
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.28
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGCCTTAAAGAGAGAGAA
Found at i:30576 original size:31 final size:32
Alignment explanation
Indices: 30519--30581 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
30509 ATGACAAAAT
30519 GACACAAACAAAAGAGAAGAAATAAGTTAGTA
1 GACACAAACAAAAGAGAAGAAATAAGTTAGTA
30551 GACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 GACACAAACAAAAGAGAAGAAATAAGTTAGTA
30582 CATGTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.42
32 18 0.58
ACGTcount: A:0.60, C:0.10, G:0.17, T:0.13
Consensus pattern (32 bp):
GACACAAACAAAAGAGAAGAAATAAGTTAGTA
Found at i:30785 original size:2 final size:2
Alignment explanation
Indices: 30778--30841 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
30768 TTCGGGGAAA
30778 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
30820 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
30842 TCTACAAATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33757 original size:19 final size:19
Alignment explanation
Indices: 33704--33756 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
33694 CTCTTTCCTT
33704 TCTCTCTTTTTTTTTTCGAA
1 TCTCTC-TTTTTTTTTCGAA
*
33724 TCTCTCTTTTTTTTTC-TA
1 TCTCTCTTTTTTTTTCGAA
33742 TCT-TCTGTTTTTTTT
1 TCTCTCT-TTTTTTTT
33757 TTGTTTTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 3 0.10
18 12 0.39
19 10 0.32
20 6 0.19
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.72
Consensus pattern (19 bp):
TCTCTCTTTTTTTTTCGAA
Found at i:33765 original size:18 final size:18
Alignment explanation
Indices: 33708--33772 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
33698 TTCCTTTCTC
*
33708 TCTTTTTTTTTTCGAATC-
1 TCTTTTTTTTTTC-TATCT
33726 TCTCTTTTTTTTTCTATCT
1 TCT-TTTTTTTTTCTATCT
* *
33745 TCTGTTTTTTTTT-TGTTT
1 TCT-TTTTTTTTTCTATCT
33763 TCTTTTTTTT
1 TCTTTTTTTT
33773 CTTTTTCTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 7 0.17
18 12 0.29
19 22 0.54
ACGTcount: A:0.05, C:0.14, G:0.05, T:0.77
Consensus pattern (18 bp):
TCTTTTTTTTTTCTATCT
Found at i:34310 original size:25 final size:25
Alignment explanation
Indices: 34279--34353 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
34269 ATTTAGGGGA
34279 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
34304 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
34329 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
34354 GGGTTGATTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGAT
Found at i:34443 original size:23 final size:23
Alignment explanation
Indices: 34417--34465 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
34407 ATGTAAAATG
*
34417 TAATATTAATAATAAAATAACGA
1 TAATAATAATAATAAAATAACGA
34440 TAATAATAATAATAAAATAACGA
1 TAATAATAATAATAAAATAACGA
34463 TAA
1 TAA
34466 AAAACCCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (23 bp):
TAATAATAATAATAAAATAACGA
Found at i:41021 original size:23 final size:22
Alignment explanation
Indices: 40995--41049 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
40985 TTTTTGTTTC
40995 AATCAATTTTAATATCCA-ATATA
1 AATCAATTTT--TATCCATATATA
*
41018 AATCAGTTTTTATCCATATATA
1 AATCAATTTTTATCCATATATA
41040 AA-CATATTTT
1 AATCA-ATTTT
41050 GGGGGGGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 8 0.29
22 11 0.39
23 9 0.32
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.44
Consensus pattern (22 bp):
AATCAATTTTTATCCATATATA
Found at i:54929 original size:2 final size:2
Alignment explanation
Indices: 54922--54959 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
54912 ACATGTGTCC
54922 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
54960 ATAGTTTTTA
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:71519 original size:24 final size:24
Alignment explanation
Indices: 71492--71539 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
71482 ACAATATGTG
*
71492 TCATGT-TATCATTTTAGACATATA
1 TCATGTCT-TCATTTAAGACATATA
*
71516 TCATGTCTTCATTTAAGACGTATA
1 TCATGTCTTCATTTAAGACATATA
71540 ACACATTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (24 bp):
TCATGTCTTCATTTAAGACATATA
Found at i:72392 original size:18 final size:17
Alignment explanation
Indices: 72352--72394 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
72342 TTTATTTAAA
72352 TTAAAAAAATAAAAACC
1 TTAAAAAAATAAAAACC
** *
72369 CAAAAAAAATGAAAAACT
1 TTAAAAAAAT-AAAAACC
72387 TTAAAAAA
1 TTAAAAAA
72395 CCTCAAAACT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.16
Consensus pattern (17 bp):
TTAAAAAAATAAAAACC
Found at i:81499 original size:4 final size:4
Alignment explanation
Indices: 81490--83108 Score: 3140
Period size: 4 Copynumber: 408.2 Consensus size: 4
81480 TTTGCATTAG
81490 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
81538 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
81586 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
81634 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
81682 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
81730 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
81778 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
81826 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
81874 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATC- -TCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
81920 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
81968 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82016 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82064 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82112 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82160 ATCT ATCT ATCT ATCT A-CT ATCT ATCT ATCT ATCT A--T ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82205 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82253 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82301 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT A--T ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82347 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82395 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82443 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82491 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82539 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT A--T ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82585 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82633 ATCT A--T ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82679 ATC- ATCT ATCT ATCT ATCT ATCT A--T ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82724 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82772 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82820 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82868 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82916 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
82964 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
83012 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
83060 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
83108 A
1 A
83109 ATCATACCGT
Statistics
Matches: 1601, Mismatches: 0, Indels: 28
0.98 0.00 0.02
Matches are distributed among these distances:
2 12 0.01
3 6 0.00
4 1583 0.99
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
ATCT
Found at i:91104 original size:14 final size:13
Alignment explanation
Indices: 91085--91118 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
91075 TGTGTTAGGG
91085 TTTAGGGTTTATAA
1 TTTAGGGTTT-TAA
91099 TTTAGGGTTTTAA
1 TTTAGGGTTTTAA
*
91112 ATTAGGG
1 TTTAGGG
91119 GTAAGATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (13 bp):
TTTAGGGTTTTAA
Found at i:91120 original size:14 final size:14
Alignment explanation
Indices: 91086--91118 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
91076 GTGTTAGGGT
*
91086 TTAGGGTTTATAAT
1 TTAGGGTTTATAAA
91100 TTAGGGTTT-TAAA
1 TTAGGGTTTATAAA
91113 TTAGGG
1 TTAGGG
91119 GTAAGATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (14 bp):
TTAGGGTTTATAAA
Found at i:94913 original size:39 final size:39
Alignment explanation
Indices: 94870--94995 Score: 152
Period size: 39 Copynumber: 3.2 Consensus size: 39
94860 AGTTTCTAAT
94870 TTCGCAACGCGAATATGT-AA-TCGCAACACAGA-AGTCAAA
1 TTCGCAACGCG-ATA-GTAAATTCGCAACAC-GATAGTCAAA
94909 TTCGCAACGCGATAGTAAATTCGCAACACGATAGTCAAA
1 TTCGCAACGCGATAGTAAATTCGCAACACGATAGTCAAA
* * *
94948 TTCGCAACAC-ATAAGTTAAATTCGAAACGCGATAGTCAAA
1 TTCGCAACGCGAT-AG-TAAATTCGCAACACGATAGTCAAA
94988 TTCGCAAC
1 TTCGCAAC
94996 ACAAAATTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
37 2 0.03
38 9 0.11
39 38 0.48
40 30 0.38
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.21
Consensus pattern (39 bp):
TTCGCAACGCGATAGTAAATTCGCAACACGATAGTCAAA
Found at i:94915 original size:20 final size:20
Alignment explanation
Indices: 94890--95015 Score: 150
Period size: 20 Copynumber: 6.3 Consensus size: 20
94880 GAATATGTAA
94890 TCGCAACACAGA-AGTCAAAT
1 TCGCAACAC-GATAGTCAAAT
*
94910 TCGCAACGCGATAGT-AAAT
1 TCGCAACACGATAGTCAAAT
94929 TCGCAACACGATAGTCAAAT
1 TCGCAACACGATAGTCAAAT
*
94949 TCGCAACAC-ATAAGTTAAAT
1 TCGCAACACGAT-AGTCAAAT
* *
94969 TCGAAACGCGATAGTCAAAT
1 TCGCAACACGATAGTCAAAT
* * *
94989 TCGCAACACAAAATTCAAAT
1 TCGCAACACGATAGTCAAAT
95009 TCGCAAC
1 TCGCAAC
95016 GCGAACTCCA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
19 22 0.24
20 67 0.74
21 2 0.02
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (20 bp):
TCGCAACACGATAGTCAAAT
Found at i:95435 original size:20 final size:21
Alignment explanation
Indices: 95397--95447 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
95387 CAACGCGATT
95397 TTGCGATTTTCTAAATTCGCG
1 TTGCGATTTTCTAAATTCGCG
*
95418 TTGCGATTTTC-CAATTCGCG
1 TTGCGATTTTCTAAATTCGCG
*
95438 TTACGATTTT
1 TTGCGATTTT
95448 TACTATTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.45
Consensus pattern (21 bp):
TTGCGATTTTCTAAATTCGCG
Done.