Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008759.1 Hibiscus syriacus cultivar Beakdansim tig00111851_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: 899239
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 4
Found at i:808994 original size:31 final size:32
Alignment explanation
Indices: 808932--809007 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
808922 TTATTGATTG
808932 ATTTATTAATATTTATAATAATATAATATTAT
1 ATTTATTAATATTTATAATAATATAATATTAT
*
808964 ATTT-TTAATA-TTAT-ATAAAATAATCAATTAT
1 ATTTATTAATATTTATAATAATATAAT--ATTAT
*
808995 ATTATAATAATAT
1 ATT-TATTAATAT
809008 AAGATATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
29 9 0.24
30 4 0.11
31 14 0.38
32 5 0.14
33 5 0.14
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (32 bp):
ATTTATTAATATTTATAATAATATAATATTAT
Found at i:809123 original size:23 final size:23
Alignment explanation
Indices: 809081--809142 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
809071 TATTATTTAT
*
809081 ATATTTAAATAATATTTTAATAAAG
1 ATATTT-AA-AATATATTAATAAAG
* *
809106 ATATTTAAAATATATTAATTAAT
1 ATATTTAAAATATATTAATAAAG
*
809129 ATTTTTAAAATATA
1 ATATTTAAAATATA
809143 ATATAACACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 25 0.76
24 2 0.06
25 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
ATATTTAAAATATATTAATAAAG
Found at i:809255 original size:19 final size:18
Alignment explanation
Indices: 809209--809261 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
809199 TAAAATATAC
*
809209 AAAAATTA-TTAATTATA
1 AAAAATTATTTAATAATA
*
809226 AAAATAATATTTAATAATA
1 AAAA-ATTATTTAATAATA
809245 AATAAATTATTTTAATA
1 AA-AAATTA-TTTAATA
809262 TTTTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 4 0.14
18 3 0.10
19 13 0.45
20 9 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAAATTATTTAATAATA
Found at i:809502 original size:15 final size:15
Alignment explanation
Indices: 809461--809505 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
809451 TTCAGAAATA
*
809461 TAATTCATTTTTTAG
1 TAATTCATTTTTCAG
**
809476 -AATTCAAATTTCAG
1 TAATTCATTTTTCAG
809490 TAATTCATTTTTCAG
1 TAATTCATTTTTCAG
809505 T
1 T
809506 TTTAGTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (15 bp):
TAATTCATTTTTCAG
Found at i:818738 original size:30 final size:30
Alignment explanation
Indices: 818647--818738 Score: 98
Period size: 31 Copynumber: 3.1 Consensus size: 30
818637 TCCAACTTAG
* * *
818647 TCTTTAAACCTTA-TTTTGGTCCACATTGA
1 TCTTTAAACTTTACTTTTGGTTCACATTAA
** *
818676 TCTTTAAA-TTTGACATTTTATTTCAAATTAA
1 TCTTTAAACTTT-AC-TTTTGGTTCACATTAA
818707 TCTTTAAACTTTACTTTTGGTTCACATTAA
1 TCTTTAAACTTTACTTTTGGTTCACATTAA
818737 TC
1 TC
818739 CTTGAACTCC
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
28 2 0.04
29 9 0.18
30 15 0.30
31 21 0.42
32 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.49
Consensus pattern (30 bp):
TCTTTAAACTTTACTTTTGGTTCACATTAA
Found at i:821253 original size:183 final size:183
Alignment explanation
Indices: 820940--821306 Score: 644
Period size: 183 Copynumber: 2.0 Consensus size: 183
820930 TTGTTTTGGC
*
820940 TGGAAAATTGTTGCGATACTTCGAGGATGTGATCTTATAAGCTGAAATTTCATGGAAAAATTAAG
1 TGGAAAATTGTTGCGATACTTCGAGGATGTGATCTTAGAAGCTGAAATTTCATGGAAAAATTAAG
* *
821005 TGAAAAGTTTTACTATCTGACTTTGATTGATTTTTGTTCTCACTCGTGAGTTGACTGTGGAATTC
66 TGAAAAGTTTTACTATCTGACTTTGATTGATTTTTGTTCTCACTCGTGAGTTGACAGTAGAATTC
*
821070 TTCAAGTTCAGGTTATCCGTATAAGTCTTTAATCATTTTTATAGTGTTTTCTA
131 TTCAAGTTCAGGTTATCCGTATAAGTCTTTAATCATGTTTATAGTGTTTTCTA
*
821123 TGGAAAATTGTTGCGATATTTCGAGGATGTGATCTTAGAAGCTGAAATTTCATGGAAAAATTAAG
1 TGGAAAATTGTTGCGATACTTCGAGGATGTGATCTTAGAAGCTGAAATTTCATGGAAAAATTAAG
* *
821188 TGAAAAGTTTTACTATCTGACTTTGATTGATTTTTGTTCTGACTCTTGAGTTGACAGTAGAATTC
66 TGAAAAGTTTTACTATCTGACTTTGATTGATTTTTGTTCTCACTCGTGAGTTGACAGTAGAATTC
* * *
821253 TTCAAGTTCAGGTTATGCGTATACGTCTTTAGTCATGTTTATAGTGTTTTCTA
131 TTCAAGTTCAGGTTATCCGTATAAGTCTTTAATCATGTTTATAGTGTTTTCTA
821306 T
1 T
821307 TTTAAGTTTA
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 174 1.00
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.41
Consensus pattern (183 bp):
TGGAAAATTGTTGCGATACTTCGAGGATGTGATCTTAGAAGCTGAAATTTCATGGAAAAATTAAG
TGAAAAGTTTTACTATCTGACTTTGATTGATTTTTGTTCTCACTCGTGAGTTGACAGTAGAATTC
TTCAAGTTCAGGTTATCCGTATAAGTCTTTAATCATGTTTATAGTGTTTTCTA
Found at i:822251 original size:97 final size:98
Alignment explanation
Indices: 822087--822263 Score: 232
Period size: 97 Copynumber: 1.8 Consensus size: 98
822077 TGTTATCGAG
* * * *
822087 TTTCAATTACTTGAACTGTAGAGCAAGTGTTTTGACTTCAAGCAAGATTTCTCTTAGCTTTTATC
1 TTTCAATTAATTGAACTGTAGAGCAAGTGTTTTGACTTCAAACAAGATTTCTCCTAGCTTTAATC
* *
822152 AAATTATTTTGACCAAGAATTGATTCTACTGAA
66 AAATTACTTTAACCAAGAATTGATTCTACTGAA
** * * *
822185 TTTCAATTAATTGATGTGTAGAGCAA-T-TATTTGACTTTAAATAAGATTTCTCCTATCTTTAAT
1 TTTCAATTAATTGAACTGTAGAGCAAGTGT-TTTGACTTCAAACAAGATTTCTCCTAGCTTTAAT
822248 CAAATTACTTTAACCA
65 CAAATTACTTTAACCA
822264 TAATAATATT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
96 1 0.01
97 43 0.64
98 23 0.34
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (98 bp):
TTTCAATTAATTGAACTGTAGAGCAAGTGTTTTGACTTCAAACAAGATTTCTCCTAGCTTTAATC
AAATTACTTTAACCAAGAATTGATTCTACTGAA
Found at i:824581 original size:42 final size:42
Alignment explanation
Indices: 824522--824602 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
824512 TGCATGAGTT
824522 GATTATTTAATCAGATCTCCCATTGGTGATTTGGTTTCTGTC
1 GATTATTTAATCAGATCTCCCATTGGTGATTTGGTTTCTGTC
*
824564 GATTATTTAGTCAGATCTCCCATTGGTGATTTGGTTTCT
1 GATTATTTAATCAGATCTCCCATTGGTGATTTGGTTTCT
824603 TTACGCATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.46
Consensus pattern (42 bp):
GATTATTTAATCAGATCTCCCATTGGTGATTTGGTTTCTGTC
Found at i:826100 original size:13 final size:13
Alignment explanation
Indices: 826084--826109 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
826074 TCAGGTCAAC
826084 TATAAAGGTAAAG
1 TATAAAGGTAAAG
826097 TATAAAGGTAAAG
1 TATAAAGGTAAAG
826110 CAAAGTTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
TATAAAGGTAAAG
Found at i:834221 original size:60 final size:60
Alignment explanation
Indices: 834079--834221 Score: 148
Period size: 60 Copynumber: 2.4 Consensus size: 60
834069 AAGTTTGGGG
* * * * *
834079 ATCAATTTGAAATGATGATCATATTTTAGGGAAGAATTTAAAATGTTTAAAAGTATACAA
1 ATCAATTTAAAATGAGGATCATATTTTAGGGAAGAATTTAAAATATTAAAAAATATACAA
* * * *
834139 ATCAATTTATAATGA-GATTCATATTTTAGGGATATAA-TTAAAATATTAAAAAATTTATGAA
1 ATCAATTTAAAATGAGGA-TCATATTTTAGGGA-AGAATTTAAAATATTAAAAAATATA-CAA
*
834200 A-CAATTTAAAATGAGGGTCATA
1 ATCAATTTAAAATGAGGATCATA
834222 GTCTAAAAAC
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
59 2 0.03
60 60 0.87
61 7 0.10
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (60 bp):
ATCAATTTAAAATGAGGATCATATTTTAGGGAAGAATTTAAAATATTAAAAAATATACAA
Found at i:839385 original size:51 final size:52
Alignment explanation
Indices: 839318--839419 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 52
839308 TGGACACAAA
* *
839318 TAAATTTTAGGATGAATACCTTTAATAAAATTAATAATTAGCAT-AAAAAAT
1 TAAATTTTAGGATGAATACCTTTAATAAAATTAACAATTAACATGAAAAAAT
*
839369 TAAATTTTGAGG-TGAATATCTTTAATAAAATTAACAATTAACATGAAAAAA
1 TAAATTTT-AGGATGAATACCTTTAATAAAATTAACAATTAACATGAAAAAA
839420 AATTGAATGT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 37 0.80
52 9 0.20
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (52 bp):
TAAATTTTAGGATGAATACCTTTAATAAAATTAACAATTAACATGAAAAAAT
Found at i:840286 original size:30 final size:29
Alignment explanation
Indices: 840230--840286 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
840220 TTTTATGTTC
* * *
840230 AGGGAGCGAACTTGAACTTTTGAAATTCT
1 AGGGAGCGAACTTAAACTTATAAAATTCT
840259 AGGGAGACGAACTTAAACTTATAAAATT
1 AGGGAG-CGAACTTAAACTTATAAAATT
840287 TCAGGAGGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (29 bp):
AGGGAGCGAACTTAAACTTATAAAATTCT
Found at i:840776 original size:22 final size:23
Alignment explanation
Indices: 840745--840787 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
840735 TATACTATTT
*
840745 TTTTACAAATTATATAAATTAAA
1 TTTTACAAATTAGATAAATTAAA
*
840768 TTTTA-AAATTGGATAAATTA
1 TTTTACAAATTAGATAAATTA
840788 CGAATTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (23 bp):
TTTTACAAATTAGATAAATTAAA
Found at i:841187 original size:43 final size:40
Alignment explanation
Indices: 841140--841393 Score: 127
Period size: 41 Copynumber: 5.9 Consensus size: 40
841130 TAGAGGTTTT
* *
841140 AATTACAAAGCTAGAAAGTGAGATTGGAAAAATTAGGAACATC
1 AATTATAAAGCTA-AAAGTGAGATT-AAAAAATTAGGAAC-TC
* * * *
841183 AATTATAAAGGTAAAAATGAGATTTAAAAAAATAAGG-GCTC
1 AATTATAAAGCTAAAAGTGAGA-TT-AAAAAATTAGGAACTC
* *
841224 AATCATAAAGCTATAAAGTGAAATTAAAAAATTTAGGAACCTC
1 AATTATAAAGCTA-AAAGTGAGATTAAAAAA-TTAGGAA-CTC
* **
841267 AATTATAAATG-TAAAAAGTAGGTAGGAATGAAAAAATTAGAGGTCTC
1 AATTATAAA-GCT-AAAAGT--G-A-G-ATTAAAAAATTAG-GAACTC
* ** **
841314 AATCATAAATGGAAAAAGTGAGA-TAAAAAATTAGGTCCTTC
1 AATTATAAA-GCTAAAAGTGAGATTAAAAAATTAGGAAC-TC
* * * *
841355 AATTATAAAGGCAAAAAATAAGATTATAAAAAGTAGGAA
1 AATTATAAA-GCTAAAAGTGAGATTA-AAAAATTAGGAA
841394 TTTCAATCGC
Statistics
Matches: 163, Mismatches: 31, Indels: 34
0.71 0.14 0.15
Matches are distributed among these distances:
40 8 0.05
41 49 0.30
42 19 0.12
43 49 0.30
44 3 0.02
45 2 0.01
46 1 0.01
47 23 0.14
48 9 0.06
ACGTcount: A:0.52, C:0.07, G:0.17, T:0.24
Consensus pattern (40 bp):
AATTATAAAGCTAAAAGTGAGATTAAAAAATTAGGAACTC
Found at i:841371 original size:88 final size:89
Alignment explanation
Indices: 841167--841371 Score: 205
Period size: 84 Copynumber: 2.4 Consensus size: 89
841157 GTGAGATTGG
* * * *
841167 AAAAA-TTAGGAACATCAATTATAAAGGTAAAAA-T--G-A-GATTTAAAAAAATAAGGGCTCAA
1 AAAAATTTAGGAACCTCAATTATAAAGGCAAAAAGTAGGTAGGAATGAAAAAAATAAGGGCTCAA
* *
841226 TCATAAAGCTATAAAGTGAAATTA
66 TCATAAAGCGAAAAAGTGAAATTA
* * * *
841250 AAAAATTTAGGAACCTCAATTATAAATGTAAAAAGTAGGTAGGAATGAAAAAATTAGAGGTCTCA
1 AAAAATTTAGGAACCTCAATTATAAAGGCAAAAAGTAGGTAGGAATGAAAAAAATA-AGGGCTCA
*
841315 ATCATAAATG-GAAAAAGTGAGA-TA
65 ATCATAAA-GCGAAAAAGTGAAATTA
*
841339 AAAAA-TTAGG-TCCTTCAATTATAAAGGCAAAAA
1 AAAAATTTAGGAACC-TCAATTATAAAGGCAAAAA
841372 ATAAGATTAT
Statistics
Matches: 101, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
83 5 0.05
84 26 0.26
85 1 0.01
87 3 0.03
88 23 0.23
89 18 0.18
90 24 0.24
91 1 0.01
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (89 bp):
AAAAATTTAGGAACCTCAATTATAAAGGCAAAAAGTAGGTAGGAATGAAAAAAATAAGGGCTCAA
TCATAAAGCGAAAAAGTGAAATTA
Found at i:847741 original size:18 final size:19
Alignment explanation
Indices: 847715--847752 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
847705 TCTTTGAGTA
*
847715 TTTATATTTT-TATAAAAT
1 TTTAAATTTTATATAAAAT
847733 TTTAAATTTTCATATAAAAT
1 TTTAAATTTT-ATATAAAAT
847753 ATGTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAATTTTATATAAAAT
Found at i:853388 original size:31 final size:31
Alignment explanation
Indices: 853348--853406 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
853338 AGTTTTGATC
*
853348 ACTTACATTATTGATTTATTAAATTTTGGTT
1 ACTTACATTATTGATTGATTAAATTTTGGTT
*
853379 ACTTGCATTATTGATTGATTAAATTTTG
1 ACTTACATTATTGATTGATTAAATTTTG
853407 ACCATTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.53
Consensus pattern (31 bp):
ACTTACATTATTGATTGATTAAATTTTGGTT
Found at i:854722 original size:33 final size:33
Alignment explanation
Indices: 854646--854722 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
854636 ACCTCCGCCT
* *
854646 CCACCATCACAAGACCCTTTTGCACCACCTCCC
1 CCACCACCACAAGACCCTTTTGCACCACCACCC
* * *
854679 CCGCTACCACAAGACCCTTTTGCACCACCACCG
1 CCACCACCACAAGACCCTTTTGCACCACCACCC
*
854712 CCACCGCCACA
1 CCACCACCACA
854723 CCTATATGGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.25, C:0.52, G:0.09, T:0.14
Consensus pattern (33 bp):
CCACCACCACAAGACCCTTTTGCACCACCACCC
Found at i:856234 original size:2 final size:2
Alignment explanation
Indices: 856227--856254 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
856217 TGTCTATGAA
856227 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
856255 GATTAGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:858884 original size:6 final size:6
Alignment explanation
Indices: 858873--858898 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
858863 TCTCTCCGGT
858873 TCTGTC TCTGTC TCTGTC TCTGTC TC
1 TCTGTC TCTGTC TCTGTC TCTGTC TC
858899 CTTTTTCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.15, T:0.50
Consensus pattern (6 bp):
TCTGTC
Found at i:859372 original size:3 final size:3
Alignment explanation
Indices: 859364--859436 Score: 121
Period size: 3 Copynumber: 24.7 Consensus size: 3
859354 TTAATATATT
859364 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
859411 TAA TAT TAA TAA TGA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
859437 TGGATAAAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:859798 original size:118 final size:118
Alignment explanation
Indices: 859591--860119 Score: 883
Period size: 118 Copynumber: 4.5 Consensus size: 118
859581 TTCTCCAGAT
* ** * *
859591 GAGTTCTTCTCATTACGAA--CTTTCTGCTGGGGATGATGTTCCATCAAATGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTTCT-CTGGAAATGATGATCCATCAAGTGATGAATTCAAGCA
859654 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
65 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
859708 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
1 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
859773 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
*
859826 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
1 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
859891 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
66 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
* *
859944 GAGTTCTTCTCATTATGAACTCTTCCTCTGGAAAAGATTGATCCATCAAGTGATGAATTCAAGCA
1 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGA-TGATCCATCAAGTGATGAATTCAAGCA
*
860009 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGAT---
65 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
* *
860060 GAGTTCTTCTCATTATGAA--CTTTCTCTGGAAAAGAATGATCCATCAAGTGATGGATTCAA
1 GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATG-ATGATCCATCAAGTGATGAATTCAA
860120 ATCTTTGCTA
Statistics
Matches: 398, Mismatches: 10, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
114 37 0.09
115 1 0.00
116 19 0.05
117 18 0.05
118 240 0.60
119 83 0.21
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (118 bp):
GAGTTCTTCTCATTATGAACTCTTTCTCTGGAAATGATGATCCATCAAGTGATGAATTCAAGCAA
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAC
Found at i:860895 original size:50 final size:50
Alignment explanation
Indices: 860835--860986 Score: 286
Period size: 50 Copynumber: 3.0 Consensus size: 50
860825 CAATGATTGG
*
860835 TTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
1 TTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
860885 TTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
1 TTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
*
860935 TTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
1 TTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
860985 TT
1 TT
860987 AGTCTCTTTC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 100 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (50 bp):
TTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
Found at i:862154 original size:14 final size:13
Alignment explanation
Indices: 862124--862203 Score: 92
Period size: 12 Copynumber: 6.0 Consensus size: 13
862114 ACCCCCTTTC
*
862124 TTTTTCTTCTCTT
1 TTTTTCTTTTCTT
862137 TTTTTCATTTTCTAT
1 TTTTTC-TTTTCT-T
862152 TTTTTCTTTTC-T
1 TTTTTCTTTTCTT
862164 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
862177 TCTTTTCTTTTTCTT
1 T-TTTTC-TTTTCTT
*
862192 TTCTT-TTTTCTT
1 TTTTTCTTTTCTT
862204 CAAGCATAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
12 19 0.32
13 8 0.13
14 18 0.30
15 15 0.25
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:862163 original size:5 final size:5
Alignment explanation
Indices: 862120--862198 Score: 67
Period size: 5 Copynumber: 15.6 Consensus size: 5
862110 CTTGACCCCC
* *
862120 TTTCT TTT-T CTTCT CTTT-T TTTCAT TTTCT ATT-T TTTCT TTTCTTT
1 TTTCT TTTCT TTTCT -TTTCT TTTC-T TTTCT TTTCT TTTCT TTTC--T
862166 TTTCT TTTC- TTTCT TTTCTT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTC-T TTTCT TTTCT TTT
862199 TTCTTCAAGC
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
4 13 0.21
5 31 0.51
6 12 0.20
7 5 0.08
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:862168 original size:21 final size:20
Alignment explanation
Indices: 862144--862203 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
862134 CTTTTTTTCA
862144 TTTTCTATTTTTTCTTTTCTT
1 TTTTCT-TTTTTTCTTTTCTT
862165 TTTTCTTTTCTTTCTTTTC-T
1 TTTTCTTTT-TTTCTTTTCTT
*
862185 TTTTCTTTTCTT-TTTTCTT
1 TTTTCTTTTTTTCTTTTCTT
862204 CAAGCATAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 5 0.14
19 3 0.08
20 13 0.36
21 15 0.42
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTCTTTTTTTCTTTTCTT
Found at i:862191 original size:20 final size:20
Alignment explanation
Indices: 862120--862197 Score: 106
Period size: 20 Copynumber: 3.9 Consensus size: 20
862110 CTTGACCCCC
*
862120 TTTCTTTTTCTTCTCTTT-T
1 TTTCTTTTTCTTTTCTTTCT
*
862139 TTTCATTTTCTATTT-TTTCT
1 TTTCTTTTTCT-TTTCTTTCT
862159 TTTCTTTTTTCTTTTCTTTCT
1 TTTC-TTTTTCTTTTCTTTCT
862180 TTTCTTTTTCTTTTCTTT
1 TTTCTTTTTCTTTTCTTT
862198 TTTCTTCAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
19 13 0.25
20 24 0.46
21 15 0.29
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCTTTTTCTTTTCTTTCT
Found at i:874490 original size:6 final size:6
Alignment explanation
Indices: 874479--874504 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
874469 TCTCTCCGGT
874479 TCTGTC TCTGTC TCTGTC TCTGTC TC
1 TCTGTC TCTGTC TCTGTC TCTGTC TC
874505 CTTTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.15, T:0.50
Consensus pattern (6 bp):
TCTGTC
Found at i:874985 original size:3 final size:3
Alignment explanation
Indices: 874970--875036 Score: 100
Period size: 3 Copynumber: 22.7 Consensus size: 3
874960 TTAATATATT
* *
874970 TAA TAA -AA AAA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
875017 TAA TAA TGA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
875037 TGGATAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
2 2 0.03
3 56 0.97
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:875265 original size:24 final size:24
Alignment explanation
Indices: 875232--875283 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
875222 TAAGATTATA
875232 TTTTAAATAAGTA-TCTAAAGTATT
1 TTTTAAATAAGTACT-TAAAGTATT
* *
875256 TTTTATATAAGTACTTGAAGTATT
1 TTTTAAATAAGTACTTAAAGTATT
875280 TTTT
1 TTTT
875284 GGTAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
TTTTAAATAAGTACTTAAAGTATT
Found at i:875524 original size:30 final size:30
Alignment explanation
Indices: 875455--875536 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
875445 AATATTTTAT
*
875455 GTACTTATTTTGACCGAAAAAT-ACTTCAA
1 GTACTTATTTTGACCAAAAAATAACTTCAA
* * *
875484 GTATTTATTTTGACCAAAAAATAAGTT-TA
1 GTACTTATTTTGACCAAAAAATAACTTCAA
875513 GATACTTATTTTGACCAAAAAATA
1 G-TACTTATTTTGACCAAAAAATA
875537 CTTTCTATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 22 0.48
30 24 0.52
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (30 bp):
GTACTTATTTTGACCAAAAAATAACTTCAA
Found at i:875546 original size:29 final size:29
Alignment explanation
Indices: 875456--875549 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 29
875446 ATATTTTATG
*
875456 TACTTATTTTGACCGAAAAATAC-TTCAA
1 TACTTATTTTGACCAAAAAATACTTTCAA
* *
875484 GTATTTATTTTGACCAAAAAATAAGTTT-AGA
1 -TACTTATTTTGACCAAAAAAT-ACTTTCA-A
*
875515 TACTTATTTTGACCAAAAAATACTTTCTA
1 TACTTATTTTGACCAAAAAATACTTTCAA
875544 TACTTA
1 TACTTA
875550 AAAGGTGATA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
29 30 0.55
30 22 0.40
31 3 0.05
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.39
Consensus pattern (29 bp):
TACTTATTTTGACCAAAAAATACTTTCAA
Found at i:876443 original size:29 final size:29
Alignment explanation
Indices: 876369--876445 Score: 145
Period size: 29 Copynumber: 2.7 Consensus size: 29
876359 TGCCCCCTAT
*
876369 AATTTTATAAGTTCAAATTCGTCCCCTGA
1 AATTTTATAAGTTCAAGTTCGTCCCCTGA
876398 AATTTTATAAGTTCAAGTTCGTCCCCTGA
1 AATTTTATAAGTTCAAGTTCGTCCCCTGA
876427 AATTTTATAAGTTCAAGTT
1 AATTTTATAAGTTCAAGTT
876446 TTTCCACTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (29 bp):
AATTTTATAAGTTCAAGTTCGTCCCCTGA
Found at i:877258 original size:54 final size:53
Alignment explanation
Indices: 877172--877284 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 53
877162 TTTACTGATA
* * * *
877172 TTTT-AAGGTTACGAGAATTGAACTTATGACCTTCT-AAGTAAAATTTAATATGT
1 TTTTGAAGGTTACGAGAATTGAAATCACGACCTTCTAAAG--AAATTTAATATAT
* *
877225 TTTTGAAGGTTATGAGAATTGAAATCACGACCTTCTAAAGCAATTTAATATAT
1 TTTTGAAGGTTACGAGAATTGAAATCACGACCTTCTAAAGAAATTTAATATAT
877278 TTTTGAA
1 TTTTGAA
877285 AATCTTGATT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 22 0.42
54 27 0.52
55 3 0.06
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (53 bp):
TTTTGAAGGTTACGAGAATTGAAATCACGACCTTCTAAAGAAATTTAATATAT
Found at i:879856 original size:4 final size:4
Alignment explanation
Indices: 879815--879841 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
879805 ATACTTTAAA
879815 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
879842 GATATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:879958 original size:67 final size:69
Alignment explanation
Indices: 879831--879959 Score: 210
Period size: 67 Copynumber: 1.9 Consensus size: 69
879821 TTTATTTATT
*
879831 TATTTATTTATGATATAATTTATTTAAAATTATATAAATTAAAAACTCAAGAAAGATTTCAACTT
1 TATTTATTTATGATATAATTTATTTAAAATTATATAAATTAAAAACTCAAAAAAGATTTCAACTT
879896 TAAA
66 TAAA
*
879900 TATTTATTTGTGATAT-ATTT-TTTAAAATTATATAAATTAAAAACTCAAAAAA-AGTTTCAA
1 TATTTATTTATGATATAATTTATTTAAAATTATATAAATTAAAAACTCAAAAAAGA-TTTCAA
879960 AGATAAAAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
66 1 0.02
67 37 0.65
68 4 0.07
69 15 0.26
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (69 bp):
TATTTATTTATGATATAATTTATTTAAAATTATATAAATTAAAAACTCAAAAAAGATTTCAACTT
TAAA
Found at i:880873 original size:64 final size:64
Alignment explanation
Indices: 880750--880874 Score: 214
Period size: 65 Copynumber: 1.9 Consensus size: 64
880740 TATAATTTTT
* *
880750 TGTCCGAAATACGATTTTTATAAATTTTAAAGAATTCGAAACTAAATCATTAATAAAAAAAATA
1 TGTCCGAAATACGAATTTTATAAATTTTAAAGAATTCGAAACTAAATAATTAATAAAAAAAATA
*
880814 TGTCCGAAATACGAATTTTATAAAATTTTAAATAATTCGAAACTAAATAATTAATAAAAAA
1 TGTCCGAAATACGAATTTTAT-AAATTTTAAAGAATTCGAAACTAAATAATTAATAAAAAA
880875 TATAAAGAGA
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
64 20 0.35
65 37 0.65
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (64 bp):
TGTCCGAAATACGAATTTTATAAATTTTAAAGAATTCGAAACTAAATAATTAATAAAAAAAATA
Found at i:880943 original size:16 final size:15
Alignment explanation
Indices: 880922--880964 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
880912 TTTACATATG
*
880922 AAAAAAACATACGAT
1 AAAAAAATATACGAT
880937 AAAAAAATATACGAT
1 AAAAAAATATACGAT
880952 AAAAAAAATATAC
1 -AAAAAAATATAC
880965 AGTAAGCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.70, C:0.09, G:0.05, T:0.16
Consensus pattern (15 bp):
AAAAAAATATACGAT
Found at i:882855 original size:18 final size:18
Alignment explanation
Indices: 882829--882864 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
882819 CAGATGGCGT
*
882829 TAAACCAAGAGTAAAGTA
1 TAAAACAAGAGTAAAGTA
*
882847 TAAAACAAGGGTAAAGTA
1 TAAAACAAGAGTAAAGTA
882865 CACAAATGAT
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:0.56, C:0.08, G:0.19, T:0.17
Consensus pattern (18 bp):
TAAAACAAGAGTAAAGTA
Found at i:884518 original size:26 final size:27
Alignment explanation
Indices: 884487--884541 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
884477 AGAGAAAATT
884487 TTAAAAAAAATATTTT-AAGATGT-AAA
1 TTAAAAAAAATATTTTGAAG-TGTCAAA
*
884513 TTAAAAAATATATTTTGAAGTGTCAAA
1 TTAAAAAAAATATTTTGAAGTGTCAAA
884540 TT
1 TT
884542 TAGAACTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (27 bp):
TTAAAAAAAATATTTTGAAGTGTCAAA
Found at i:885514 original size:21 final size:20
Alignment explanation
Indices: 885488--885835 Score: 298
Period size: 21 Copynumber: 16.8 Consensus size: 20
885478 CATATTAGCA
885488 TTGCGATAG-TCCAAGTTCGCG
1 TTGCGATAGCTCCAAGTT--CG
*
885509 TTGCGATAG-TCGAAGTTCGCG
1 TTGCGATAGCTCCAAGTT--CG
** *
885530 TTGCGAT-TTTCCAAATTCG
1 TTGCGATAGCTCCAAGTTCG
885549 TTGCGATAG-TCCAAGTTTGCG
1 TTGCGATAGCTCCAAG-TT-CG
* * *
885570 TTGCGATTTA-TTCTAAATTCG
1 TTGCGA--TAGCTCCAAGTTCG
885591 TTGCGATAG-TCCAAGTTCGCG
1 TTGCGATAGCTCCAAGTT--CG
* * * *
885612 TTACGATTTA-TTACAAATTCG
1 TTGCGA--TAGCTCCAAGTTCG
885633 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG-CTCCAAGTTCG
885654 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG-CTCCAAGTTCG
*
885675 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAG-CTCCAAGTTCG
* * *
885696 TTGCGGTAGTCTCCAAATTTG
1 TTGCGATAG-CTCCAAGTTCG
885717 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG-CTCCAAGTTCG
885738 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG-CTCCAAGTTCG
885759 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG-CTCCAAGTTCG
885780 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG-CTCCAAGTTCG
* *
885801 TTGCGGTAGTCTCCAAATTCG
1 TTGCGATAG-CTCCAAGTTCG
885822 TTGCGATAG-TCCAA
1 TTGCGATAGCTCCAA
885836 AATCACCAGT
Statistics
Matches: 286, Mismatches: 26, Indels: 32
0.83 0.08 0.09
Matches are distributed among these distances:
19 29 0.10
20 2 0.01
21 239 0.84
22 2 0.01
23 14 0.05
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (20 bp):
TTGCGATAGCTCCAAGTTCG
Found at i:885654 original size:63 final size:62
Alignment explanation
Indices: 885587--885832 Score: 345
Period size: 63 Copynumber: 3.9 Consensus size: 62
885577 TTATTCTAAA
* *
885587 TTCGTTGCGATAG-TCCAAGTTCGCGTTACGATTTA-T-TACAAATTCGTTGCGATAGTCTCCAA
1 TTCGTTGCGATAGCTCCAAGTT--CGTTGCGA--TAGTCTCCAAATTCGTTGCGATAGTCTCCAA
885649 G
62 G
* *
885650 TTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGGTAGTCTCCAAA
1 TTCGTTGCGATAG-CTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAG
* *
885713 TTTGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAG
1 TTCGTTGCGATAG-CTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAG
*
885776 TTCGTTGCGATAGTCTCCAAGTTCGTTGCGGTAGTCTCCAAATTCGTTGCGATAGTC
1 TTCGTTGCGATAG-CTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTC
885833 CAAAATCACC
Statistics
Matches: 168, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
61 2 0.01
62 1 0.01
63 157 0.93
65 8 0.05
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (62 bp):
TTCGTTGCGATAGCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAG
Found at i:885949 original size:42 final size:41
Alignment explanation
Indices: 885896--886011 Score: 171
Period size: 42 Copynumber: 2.8 Consensus size: 41
885886 TGCGATTTTG
*
885896 GACTATCGCAACGAACTTGGTGACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGG-GACTATCGCAACCAATTTGGA
*
885938 GACTATCGCAACGAATTTGGAGACTATCGCAACCAATTTGGA
1 GACTATCGCAACGAACTTGG-GACTATCGCAACCAATTTGGA
885980 GACTATCGCAACGCGAACTT-GGACTATCGCAA
1 GACTATCGCAA--CGAACTTGGGACTATCGCAA
886012 TGCGATAGTC
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
42 61 0.90
43 1 0.01
44 6 0.09
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.22
Consensus pattern (41 bp):
GACTATCGCAACGAACTTGGGACTATCGCAACCAATTTGGA
Found at i:886016 original size:21 final size:21
Alignment explanation
Indices: 885896--885992 Score: 167
Period size: 21 Copynumber: 4.6 Consensus size: 21
885886 TGCGATTTTG
* *
885896 GACTATCGCAACGAACTTGGT
1 GACTATCGCAACGAATTTGGA
885917 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAATTTGGA
885938 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAATTTGGA
*
885959 GACTATCGCAACCAATTTGGA
1 GACTATCGCAACGAATTTGGA
885980 GACTATCGCAACG
1 GACTATCGCAACG
885993 CGAACTTGGA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 72 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (21 bp):
GACTATCGCAACGAATTTGGA
Found at i:898575 original size:19 final size:19
Alignment explanation
Indices: 898532--898589 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 19
898522 TTTTTTAGTT
*
898532 ATTTTAGTATATTTAAATTTT
1 ATTTTA-TAT-TTTAAATTTG
*
898553 ATTTTATATTTTAAGTTTG
1 ATTTTATATTTTAAATTTG
898572 ATTTTATACTTTTTAAAT
1 ATTTTATA--TTTTAAAT
898590 AATAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 16 0.50
20 3 0.09
21 13 0.41
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (19 bp):
ATTTTATATTTTAAATTTG
Done.