Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 296 of 444
Found at i:85546679 original size:228 final size:221
Alignment explanation
Indices: 85546063--85546968 Score: 1584
Period size: 228 Copynumber: 4.0 Consensus size: 221
85546053 TAAGGAACAG
85546063 TTTAT-GTTAGATTTTAAATTATCTTTATTTGTTTACTTGTAACTTTATGATTGTAATTTGAACT
1 TTTATGGTTAGATTTTAAATTATCTTTATTTGTTTACTTGTAACTTTATGATTGTAATTTGAACT
*
85546127 GCATGTTATTTACCATACATGTGTGGGTGGGTTTGGGGGGGGGTGTTTGGAGAGCAATAGATTAA
66 GCATGTTATTTACCATACATGTGTGGGTGGGTTTGGGGGGGGGTGTTTGGAGAGCAACAGATTAA
85546192 GCATGGACAGCTACATGTCAATAGTTC-TTTTTTTTTTTTTTGTACATTCTCATCTATGATTGAT
131 GCATGGACAGCTACATGTCAATAGTTCTTTTTTTTTTTTTTTGTACATTCTCATCTATGATTGAT
85546256 TATATTGCAATTGGTAGAGTTTTATC
196 TATATTGCAATTGGTAGAGTTTTATC
85546282 TTTATGGTTAGATTTTAAATTATCTTTATTTGTTTACTTGTAACTTTATGATTGTAATTTGAACT
1 TTTATGGTTAGATTTTAAATTATCTTTATTTGTTTACTTGTAACTTTATGATTGTAATTTGAACT
85546347 GCATGTTATTTACCATACATGTGTGGGTGGGTTTGGGGGGGGGTGTTTGGAGAGCAACAGATTAA
66 GCATGTTATTTACCATACATGTGTGGGTGGGTTTGGGGGGGGGTGTTTGGAGAGCAACAGATTAA
*
85546412 GCATGCACAGCTACATGTCAATAGTTCTTTTTTTTTTTTTTTTTTTTTTGTACATTCTCATCTAT
131 GCATGGACAGCTACATGTCAATAGTTC-------TTTTTTTTTTTTTTTGTACATTCTCATCTAT
85546477 GATTGATTATATTGCAATTGGTAGAGTTTTATC
189 GATTGATTATATTGCAATTGGTAGAGTTTTATC
85546510 TTTATGGTTAGATTTTAAATTATCTTTATTTGTTTACTTGTAACTTTATGATTGTAATTTGAACT
1 TTTATGGTTAGATTTTAAATTATCTTTATTTGTTTACTTGTAACTTTATGATTGTAATTTGAACT
85546575 GCATGTTATTTACCATACATGTGTGGGTGGGTGGGTTTTGGGGGGGGGGTGTTTGGAGAGCAACA
66 GCATGTTATTTACCATACA--TGT--GTGGGTGGG-TTT-GGGGGGGGGTGTTTGGAGAGCAACA
85546640 GATTAAGCATGGACAGCTACATGTCAATAGTTCTTTTTTTTTTTTTTTTTTGTACATTCTCATCT
125 GATTAAGCATGGACAGCTACATGTCAATAGTTC---TTTTTTTTTTTTTTTGTACATTCTCATCT
85546705 ATGATTGATTATATTGCAATTGGTAGAGTTTTATC
187 ATGATTGATTATATTGCAATTGGTAGAGTTTTATC
85546740 TTTATGGTTAGATTTTAAATTATCTTTATTTGTTTACTTGTAACTTTATGATTGTAATTTGAACT
1 TTTATGGTTAGATTTTAAATTATCTTTATTTGTTTACTTGTAACTTTATGATTGTAATTTGAACT
*
85546805 GCATGTTATTTACCATACATGTGTGGGTGGGTGGGTGGGGGGGGGGGTGTTTGGAGAGCAACAGA
66 GCATGTTATTTACCATACATGTGTGGGTGGGT---T-TGGGGGGGGGTGTTTGGAGAGCAACAGA
85546870 TTAAGCATGGACAGCTACATGTCAATAGTTC-TTTTTTTTTTTTTTGTACATTCTCATCTATGAT
127 TTAAGCATGGACAGCTACATGTCAATAGTTCTTTTTTTTTTTTTTTGTACATTCTCATCTATGAT
85546934 TGATTATATTGCAATTGGTAGAGTTTTATC
192 TGATTATATTGCAATTGGTAGAGTTTTATC
85546964 TTTAT
1 TTTAT
85546969 CCCTTTGCTT
Statistics
Matches: 664, Mismatches: 4, Indels: 33
0.95 0.01 0.05
Matches are distributed among these distances:
219 5 0.01
220 149 0.22
224 68 0.10
225 1 0.00
226 9 0.01
228 209 0.31
230 154 0.23
232 9 0.01
233 3 0.00
234 57 0.09
ACGTcount: A:0.23, C:0.10, G:0.22, T:0.46
Consensus pattern (221 bp):
TTTATGGTTAGATTTTAAATTATCTTTATTTGTTTACTTGTAACTTTATGATTGTAATTTGAACT
GCATGTTATTTACCATACATGTGTGGGTGGGTTTGGGGGGGGGTGTTTGGAGAGCAACAGATTAA
GCATGGACAGCTACATGTCAATAGTTCTTTTTTTTTTTTTTTGTACATTCTCATCTATGATTGAT
TATATTGCAATTGGTAGAGTTTTATC
Found at i:85547246 original size:149 final size:149
Alignment explanation
Indices: 85546971--85547269 Score: 580
Period size: 149 Copynumber: 2.0 Consensus size: 149
85546961 ATCTTTATCC
* *
85546971 CTTTGCTTCCACTCGCAGCAATATTTATGTTGGGTCTACTTCATATTAAAATTTTTTCTAGGTTG
1 CTTTACTTCCACTCGCAACAATATTTATGTTGGGTCTACTTCATATTAAAATTTTTTCTAGGTTG
85547036 CTTAGTAAAATTGATAATTTTGTTAACCCAATGATCTACTGATAAGAACGCTGTCTGTAAAAGAC
66 CTTAGTAAAATTGATAATTTTGTTAACCCAATGATCTACTGATAAGAACGCTGTCTGTAAAAGAC
85547101 ACTTTCATCCAATGAAGAG
131 ACTTTCATCCAATGAAGAG
85547120 CTTTACTTCCACTCGCAACAATATTTATGTTGGGTCTACTTCATATTAAAATTTTTTCTAGGTTG
1 CTTTACTTCCACTCGCAACAATATTTATGTTGGGTCTACTTCATATTAAAATTTTTTCTAGGTTG
85547185 CTTAGTAAAATTGATAATTTTGTTAACCCAATGATCTACTGATAAGAACGCTGTCTGTAAAAGAC
66 CTTAGTAAAATTGATAATTTTGTTAACCCAATGATCTACTGATAAGAACGCTGTCTGTAAAAGAC
85547250 ACTTTCATCCAATGAAGAG
131 ACTTTCATCCAATGAAGAG
85547269 C
1 C
85547270 CATGACCTTT
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 148 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (149 bp):
CTTTACTTCCACTCGCAACAATATTTATGTTGGGTCTACTTCATATTAAAATTTTTTCTAGGTTG
CTTAGTAAAATTGATAATTTTGTTAACCCAATGATCTACTGATAAGAACGCTGTCTGTAAAAGAC
ACTTTCATCCAATGAAGAG
Found at i:85549925 original size:69 final size:69
Alignment explanation
Indices: 85549814--85549952 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
85549804 GATAGGAAAA
*
85549814 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTTGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
85549879 GCTG
66 GCTG
85549883 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
1 ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
85549948 GCTG
66 GCTG
85549952 A
1 A
85549953 TAGAGTCTTG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.28
Consensus pattern (69 bp):
ACAGGTTCCAAAACAGGAATAACAGTGGCTGTAGGATTTTCAGCAGGTTTTGTAGTGGTGGTAGG
GCTG
Found at i:85560646 original size:3 final size:3
Alignment explanation
Indices: 85560638--85560687 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
85560628 CCCTCGTGTT
85560638 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
85560686 TT
1 TT
85560688 TAATTTAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:85561693 original size:7 final size:7
Alignment explanation
Indices: 85561681--85561706 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
85561671 ATAACTCAAA
85561681 AAAATTT
1 AAAATTT
85561688 AAAATTT
1 AAAATTT
85561695 AAAATTT
1 AAAATTT
85561702 AAAAT
1 AAAAT
85561707 ATATAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:85562179 original size:26 final size:26
Alignment explanation
Indices: 85562133--85562185 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
85562123 AATAGTGAAC
*
85562133 TAAAATTAAAGTTAAA-TTTTTTTTT
1 TAAAATTAAAGTTAAAGTTTTTATTT
* *
85562158 TAAAATTTAAGGTTAACGTTTTTATTT
1 TAAAA-TTAAAGTTAAAGTTTTTATTT
85562185 T
1 T
85562186 CAATTGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 9 0.39
27 9 0.39
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (26 bp):
TAAAATTAAAGTTAAAGTTTTTATTT
Found at i:85564451 original size:12 final size:12
Alignment explanation
Indices: 85564436--85564460 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85564426 ACTTGCAAGA
85564436 GAGAAAACTTAT
1 GAGAAAACTTAT
85564448 GAGAAAACTTAT
1 GAGAAAACTTAT
85564460 G
1 G
85564461 TATGAAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (12 bp):
GAGAAAACTTAT
Found at i:85567382 original size:111 final size:111
Alignment explanation
Indices: 85567258--85567766 Score: 483
Period size: 111 Copynumber: 4.7 Consensus size: 111
85567248 ATAAAAGTGA
* * * *
85567258 TTTTTTTT-ATTATTTTAAAGTTTTTTTGTTAGTGATATATGATTAGGTTATAAATTGTGTGTGT
1 TTTTTTTTAATTATCTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTGTGTGT
* * *
85567322 TGAATTTAGTG-TT-TTGTGAATTT-TTATTAATGTAAATTTTTTGTT
66 TTAGTTTAGTGTTTATTGTG-ATTTCTTATGAATGTAAATTTTTT-TT
* * * * * *
85567367 TTTTTTTTAAATTATTTTATACTTATTTTGTTAGTAATTTATGATTATGTTATAAATTGTTTCTG
1 TTTTTTTT-AATTATCTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTGTGTG
85567432 TTTAGTTTAGTG-TT-TTGTGATTTCTTATGAATGT-AATTTTTTTT
65 TTTAGTTTAGTGTTTATTGTGATTTCTTATGAATGTAAATTTTTTTT
* * *
85567476 TGTATTTTTAAAATTATCTTAAAGTCATTTTGTTAGTAATTTATGATTAGATTATAAATTGTTTG
1 T-T-TTTTT-TAATTATCTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAA----TTG
* *
85567541 TGTGTGTTTTGTTTAATGTTTATTGTGACTTT-TTATGAATGTAAA--------
59 TGTGTGTTTAGTTTAGTGTTTATTGTGA-TTTCTTATGAATGTAAATTTTTTTT
* * * *
85567586 TTTTTTTTAATTATCTGAAAGTTATTTTATTAGCAATTTATGATTAGGTTATAAATTGTTTGTGT
1 TTTTTTTTAATTATCTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTGTGTGT
*
85567651 TTAGTTTAGTGTTTATTGTGATTTGTTATGAATGTAAA--------
66 TTAGTTTAGTGTTTATTGTGATTTCTTATGAATGTAAATTTTTTTT
* * * * * *
85567689 -TTTTTTAAATTATTTTAAAGTTATTTTATTAGTAATTTATGATTAGCTTATAAATTATTTGTGT
1 TTTTTTTTAATTATCTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTGTGTGT
85567753 TTAGTTTAGTGTTT
66 TTAGTTTAGTGTTT
85567767 TAAAATTATT
Statistics
Matches: 348, Mismatches: 37, Indels: 37
0.82 0.09 0.09
Matches are distributed among these distances:
102 75 0.22
103 41 0.12
107 42 0.12
108 5 0.01
109 12 0.03
110 14 0.04
111 119 0.34
115 17 0.05
116 2 0.01
117 16 0.05
118 5 0.01
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.58
Consensus pattern (111 bp):
TTTTTTTTAATTATCTTAAAGTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTGTGTGT
TTAGTTTAGTGTTTATTGTGATTTCTTATGAATGTAAATTTTTTTT
Found at i:85567728 original size:102 final size:102
Alignment explanation
Indices: 85567479--85567766 Score: 407
Period size: 102 Copynumber: 2.8 Consensus size: 102
85567469 TTTTTTTTGT
* * *
85567479 ATTTTTAAAATTATCTTAAAGTCATTTTGTTAGTAATTTATGATTAGATTATAAATTGTTTGTGT
1 ATTTTTTAAATTATCTTAAAGTTATTTTATTAGTAATTTATGATTAGATTATAAATTG--T-T-T
* *
85567544 GTGTTTTGTTTAATGTTTATTGTGACTTTTTATGAATGTAA
62 GTGTTTAGTTTAGTGTTTATTGTGACTTTTTATGAATGTAA
* * * *
85567585 ATTTTTTTTAATTATCTGAAAGTTATTTTATTAGCAATTTATGATTAGGTTATAAATTGTTTGTG
1 A-TTTTTTAAATTATCTTAAAGTTATTTTATTAGTAATTTATGATTAGATTATAAATTGTTTGTG
85567650 TTTAGTTTAGTGTTTATTGTGA-TTTGTTATGAATGTAA
65 TTTAGTTTAGTGTTTATTGTGACTTT-TTATGAATGTAA
* * *
85567688 ATTTTTTAAATTATTTTAAAGTTATTTTATTAGTAATTTATGATTAGCTTATAAATTATTTGTGT
1 ATTTTTTAAATTATCTTAAAGTTATTTTATTAGTAATTTATGATTAGATTATAAATTGTTTGTGT
85567753 TTAGTTTAGTGTTT
66 TTAGTTTAGTGTTT
85567767 TAAAATTATT
Statistics
Matches: 165, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
102 75 0.45
103 37 0.22
104 1 0.01
105 1 0.01
106 1 0.01
107 50 0.30
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.55
Consensus pattern (102 bp):
ATTTTTTAAATTATCTTAAAGTTATTTTATTAGTAATTTATGATTAGATTATAAATTGTTTGTGT
TTAGTTTAGTGTTTATTGTGACTTTTTATGAATGTAA
Found at i:85568116 original size:11 final size:12
Alignment explanation
Indices: 85568089--85568118 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
85568079 TTATGAGATA
*
85568089 TTTTTTATTGTG
1 TTTTTTACTGTG
85568101 TTTTTTACTGTG
1 TTTTTTACTGTG
85568113 TTTTTT
1 TTTTTT
85568119 GTTACTTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.03, G:0.13, T:0.77
Consensus pattern (12 bp):
TTTTTTACTGTG
Found at i:85577064 original size:128 final size:127
Alignment explanation
Indices: 85576923--85577231 Score: 395
Period size: 128 Copynumber: 2.5 Consensus size: 127
85576913 TCCTCTGAGT
85576923 GAAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCT
1 GAAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCT
* ** * *
85576988 CGTTTT-AGTTTAAAAAAACGTGGATGAAATTTTAAAAAAGGATATTCCATATTTTAG-TCGAAT
66 CATTTTAAGTTTAAAAAAAAATGGACGAAATTTT--AAAAGGATATTCCATATTTTAGCT-GAAC
85577051 GAAAAAAAT-GAAACCCAGCACGATTGGGCACGATCTCTCAAAC-T-C---C-CGAAATATTGCC
1 G-AAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCC
* * **
85577109 TCATTTTAATTTTAAAAAAAAATGGACGAAATTTTTAAAGGATATTCTGTATTTTAGCTGAAC
65 TCATTTTAAGTTTAAAAAAAAATGGACGAAATTTTAAAAGGATATTCCATATTTTAGCTGAAC
* * * *
85577172 G-AAAAATCGAAACCCAGCACGATTGGGCACGACCCCTCGAACTCCCAAACACGAAATATT
1 GAAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATT
85577232 TCCTAATGTT
Statistics
Matches: 158, Mismatches: 13, Indels: 22
0.82 0.07 0.11
Matches are distributed among these distances:
119 6 0.04
120 31 0.20
121 23 0.15
122 20 0.13
123 24 0.15
125 1 0.01
126 10 0.06
127 1 0.01
128 35 0.22
129 7 0.04
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (127 bp):
GAAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCT
CATTTTAAGTTTAAAAAAAAATGGACGAAATTTTAAAAGGATATTCCATATTTTAGCTGAAC
Found at i:85577199 original size:120 final size:121
Alignment explanation
Indices: 85576923--85577217 Score: 364
Period size: 120 Copynumber: 2.4 Consensus size: 121
85576913 TCCTCTGAGT
85576923 GAAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCT
1 GAAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAAC-T-C---C-CGAAATATTGCCT
* ** * *
85576988 CGTTTTAGTTTAAAAAAACGTGGATGAAATTTTAAAAAAGGATATTCCATATTTTAGTCGAAT
60 CATTTTAGTTTAAAAAAAAATGGACGAAATTTT-AAAAAGGATATTCCATATTTTAGTCGAAC
85577051 GAAAAAAAT-GAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCGAAATATTGCCTCATTT
1 G-AAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCGAAATATTGCCTCATTT
* * **
85577115 TAATTTTAAAAAAAAATGGACGAAATTTT-TAAAGGATATTCTGTATTTTAG-CTGAAC
65 T-AGTTTAAAAAAAAATGGACGAAATTTTAAAAAGGATATTCCATATTTTAGTC-GAAC
* * *
85577172 G-AAAAATCGAAACCCAGCACGATTGGGCACGACCCCTCGAACTCCC
1 GAAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCC
85577218 AAACACGAAA
Statistics
Matches: 151, Mismatches: 12, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
119 6 0.04
120 36 0.24
121 23 0.15
122 18 0.12
123 24 0.16
126 1 0.01
127 1 0.01
128 35 0.23
129 7 0.05
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (121 bp):
GAAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCGAAATATTGCCTCATTTT
AGTTTAAAAAAAAATGGACGAAATTTTAAAAAGGATATTCCATATTTTAGTCGAAC
Found at i:85577920 original size:17 final size:17
Alignment explanation
Indices: 85577880--85577927 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
85577870 ATATAAGAAG
85577880 ATTTAAAAT-AAAC-AA
1 ATTTAAAATAAAACAAA
*
85577895 ATTACAAAATAAAACAAA
1 ATT-TAAAATAAAACAAA
*
85577913 ATTTAAAAAAAAACA
1 ATTTAAAATAAAACA
85577928 CGTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.11
16 5 0.19
17 14 0.52
18 5 0.19
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (17 bp):
ATTTAAAATAAAACAAA
Found at i:85577961 original size:19 final size:18
Alignment explanation
Indices: 85577936--85577979 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
85577926 CACGTAAAAT
*
85577936 ATTAAAATAGA-TAAATAA
1 ATTAAAA-AGAGTAAAGAA
*
85577954 ATTAAAAAGAGTAAAGGA
1 ATTAAAAAGAGTAAAGAA
85577972 ATTAAAAA
1 ATTAAAAA
85577980 AACTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (18 bp):
ATTAAAAAGAGTAAAGAA
Found at i:85579339 original size:84 final size:83
Alignment explanation
Indices: 85579247--85579557 Score: 392
Period size: 84 Copynumber: 3.7 Consensus size: 83
85579237 CTTTGGGATA
* * * * * **
85579247 AGATCTGTATTTTTCAGCTTGTTACACTACTGCTTAGGGGATTACA-GTTTGCTGTCTTTGATCT
1 AGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTA-AGGCTCACTGT-TTTGATCT
* *
85579311 GCTCCCCTACTATTTAGGGG
64 GCTCCACTACTGTTTAGGGG
*
85579331 AGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCCCTGTTTTCGATCTG
1 AGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTTTT-GATCTG
85579396 CTCCACTACTGTTTAGGGG
65 CTCCACTACTGTTTAGGGG
*
85579415 AGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTATTTTTGATCTG
1 AGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACT-GTTTTGATCTG
*
85579480 CTCCACTATTGTTTA-GGG
65 CTCCACTACTGTTTAGGGG
* * * * * * * *
85579498 AGATCTGTATTTTCTAGCCTGTCAGCTTATTGCTTAGGGGGTTAAAGCTCGCTGTCTTGA
1 AGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTTTTGA
85579558 CCGATGCCCC
Statistics
Matches: 203, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
82 5 0.02
83 53 0.26
84 141 0.69
85 4 0.02
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (83 bp):
AGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTTTTGATCTGC
TCCACTACTGTTTAGGGG
Found at i:85579368 original size:40 final size:40
Alignment explanation
Indices: 85579315--85579454 Score: 122
Period size: 40 Copynumber: 3.4 Consensus size: 40
85579305 TGATCTGCTC
**
85579315 CCCTACTATTTAGGGGAGATCTGTATTTTCCAGCCTGTTA
1 CCCTACTGCTTAGGGGAGATCTGTATTTTCCAGCCTGTTA
* ** * * * *
85579355 CCCTACTGCTTAGGGGGTTAAGGCTCCCTGTTTTCGA-TCTGCT-
1 CCCTACTGCTTA-GGGG---A-GATCTGTATTTTCCAGCCTGTTA
*
85579398 CCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTA
1 CC-CTACTGCTTAGGGGAGATCTGTATTTTCCAGCCTGTTA
85579439 CCCTACTGCTTAGGGG
1 CCCTACTGCTTAGGGG
85579455 GTTAAGGCTC
Statistics
Matches: 74, Mismatches: 18, Indels: 16
0.69 0.17 0.15
Matches are distributed among these distances:
39 10 0.14
40 28 0.38
41 6 0.08
43 6 0.08
44 14 0.19
45 10 0.14
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (40 bp):
CCCTACTGCTTAGGGGAGATCTGTATTTTCCAGCCTGTTA
Found at i:85579747 original size:65 final size:65
Alignment explanation
Indices: 85579606--85579731 Score: 189
Period size: 65 Copynumber: 1.9 Consensus size: 65
85579596 TCGGTTTCCT
* * * **
85579606 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGAATTGA
1 ATGCTAATGACAAATAACTAGGATGCTATGATAAAAATGAATCAAATGCTCCTAACTAGAATTGA
*
85579671 ATGCTTATGACAAATAACTAGGATGCTATGATAAAAAATGAATCAAATGCTCCTAACTAGA
1 ATGCTAATGACAAATAACTAGGATGCTATGAT-AAAAATGAATCAAATGCTCCTAACTAGA
85579732 TGTATCATGA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
65 30 0.54
66 26 0.46
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (65 bp):
ATGCTAATGACAAATAACTAGGATGCTATGATAAAAATGAATCAAATGCTCCTAACTAGAATTGA
Found at i:85591238 original size:129 final size:128
Alignment explanation
Indices: 85590874--85591306 Score: 582
Period size: 129 Copynumber: 3.4 Consensus size: 128
85590864 GGTAAATTGC
* * * * * * ** *
85590874 AACCCAGCATGATTGGGCACGATTTATCGAATTTCCAAATATAAAATATTGTCTCATTTTAATTT
1 AACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGTCTCGTTTTAATTT
* * * *** * *
85590939 AAGAAAACATGGATGAAATGTC--GAAAGGATATTTTGTATCTTAGTCGAATGAAAAAATCGA
66 AAGAAAACGTGGATGAAATTTCAAAAAAGGATATTCCATATTTTAGTCGAATGAAAAAAACGA
* **
85591000 AACCCATCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGTCTCGTTTTAGCTT
1 AACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGTCTCGTTTTAATTT
85591065 AAGAAAACGTGGATGAAATTTCAAAAAAGGATATTCCATATTTTAGTCGAATGAAAAAAACGA
66 AAGAAAACGTGGATGAAATTTCAAAAAAGGATATTCCATATTTTAGTCGAATGAAAAAAACGA
*
85591128 AACCCAGCATGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGTCTCGTTTTAATTT
1 AACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGTCTCGTTTTAA-TT
*
85591193 TAAGAAAACGTGGATGAAATTTCAAAAAAGGATATTCCATATTTTAGTCGAATGAAAAAAACAA
65 TAAGAAAACGTGGATGAAATTTCAAAAAAGGATATTCCATATTTTAGTCGAATGAAAAAAACGA
* * * * * * *
85591257 AACCCAGCACAATTGGGCACGACCCCTCGAACTCCCAGACACGTAATATT
1 AACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATT
85591307 TCATTATGTT
Statistics
Matches: 271, Mismatches: 33, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
126 73 0.27
128 92 0.34
129 106 0.39
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (128 bp):
AACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGTCTCGTTTTAATTT
AAGAAAACGTGGATGAAATTTCAAAAAAGGATATTCCATATTTTAGTCGAATGAAAAAAACGA
Found at i:85592185 original size:15 final size:15
Alignment explanation
Indices: 85592165--85592195 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
85592155 CAATCAGGAA
85592165 CTAAAAATGCAAATT
1 CTAAAAATGCAAATT
85592180 CTAAAAATGCAAATT
1 CTAAAAATGCAAATT
85592195 C
1 C
85592196 CCCAAGTCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.26
Consensus pattern (15 bp):
CTAAAAATGCAAATT
Found at i:85596706 original size:20 final size:20
Alignment explanation
Indices: 85596662--85596708 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
85596652 TATTGGTTAT
**
85596662 ATTTTA-ATATTTAAAATTT
1 ATTTTATATATTTAAAATAA
*
85596681 AGTTTATATATTTAAAATAA
1 ATTTTATATATTTAAAATAA
85596701 ATTTTATA
1 ATTTTATA
85596709 AATTATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTTTATATATTTAAAATAA
Found at i:85602595 original size:47 final size:48
Alignment explanation
Indices: 85602514--85602604 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
85602504 CCAATGCTTT
*
85602514 TTTCTATAAACCTCCCCCATGCATCTAGGAGCAGGGCCACTTTACCAC
1 TTTCTATAAACCTCCCCCATGCATCGAGGAGCAGGGCCACTTTACCAC
* * *
85602562 TTTCTATAAGCCTCTCCTATG-ATCGAGGAGCAGGGCCACTTTA
1 TTTCTATAAACCTCCCCCATGCATCGAGGAGCAGGGCCACTTTA
85602605 TCACCTCCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 21 0.54
48 18 0.46
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
TTTCTATAAACCTCCCCCATGCATCGAGGAGCAGGGCCACTTTACCAC
Found at i:85602967 original size:33 final size:33
Alignment explanation
Indices: 85602915--85602980 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
85602905 AAAAGCTATA
**
85602915 TTCAAACAGTAAGTGTACTTGTTTGCAAACATG
1 TTCAAACAGTAAGCATACTTGTTTGCAAACATG
* *
85602948 TTCAAACATTAAGCATACTTGTTTGCGAACATG
1 TTCAAACAGTAAGCATACTTGTTTGCAAACATG
85602981 ATTGAACATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (33 bp):
TTCAAACAGTAAGCATACTTGTTTGCAAACATG
Found at i:85605627 original size:23 final size:24
Alignment explanation
Indices: 85605601--85605658 Score: 70
Period size: 23 Copynumber: 2.5 Consensus size: 24
85605591 TTATTTCCTA
85605601 TAATATAATATCT-TAA-TTTTAAT
1 TAATATAATAT-TATAAGTTTTAAT
85605624 TAATATAAT-TTATAATGTTTTAAT
1 TAATATAATATTATAA-GTTTTAAT
85605648 TAA-ATAATATT
1 TAATATAATATT
85605659 TTTATAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 1 0.03
22 4 0.13
23 14 0.45
24 12 0.39
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TAATATAATATTATAAGTTTTAAT
Found at i:85610249 original size:25 final size:23
Alignment explanation
Indices: 85610181--85610268 Score: 85
Period size: 22 Copynumber: 3.9 Consensus size: 23
85610171 TACATATTAG
*
85610181 AAATA-ATAATAATATTAAAAAC
1 AAATACATAATAATATTAAAAAT
* * *
85610203 AACTA-TTAATAATACTACATAAAT
1 AAATACATAATAATATTA-A-AAAT
*
85610227 ATATACAT-AT-ATATTAAAAAT
1 AAATACATAATAATATTAAAAAT
85610248 AAATACATAATAATATTAAAA
1 AAATACATAATAATATTAAAA
85610269 TGATGATAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
21 11 0.21
22 17 0.33
23 15 0.29
24 8 0.15
25 1 0.02
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATACATAATAATATTAAAAAT
Found at i:85610423 original size:3 final size:3
Alignment explanation
Indices: 85610330--85610405 Score: 75
Period size: 3 Copynumber: 25.7 Consensus size: 3
85610320 CATATAAGTG
* * *
85610330 TAA TAA TAG TAT TAA -AA TTAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
85610375 TGA TAA TGA TAA TGA TAA TAA T-A TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
85610406 GTAGCTATAG
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
2 4 0.07
3 53 0.90
4 2 0.03
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:85611114 original size:9 final size:8
Alignment explanation
Indices: 85611098--85611122 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
85611088 AAAAAAAAGG
85611098 TATTTTTT
1 TATTTTTT
85611106 TATTTTTT
1 TATTTTTT
85611114 TATTTTTT
1 TATTTTTT
85611122 T
1 T
85611123 GTTTGAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TATTTTTT
Found at i:85612056 original size:44 final size:45
Alignment explanation
Indices: 85611970--85612057 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 45
85611960 TTCTTCTCTT
*
85611970 CTGCAACTTCAGAAAGGCAAGATCTGATATCCTCGATCAGCTCCG
1 CTGCAACTTCAGAAAGACAAGATCTGATATCCTCGATCAGCTCCG
** * * * *
85612015 CTGCAACTTCAGGGAGACAA-ATCTGGTGTCTTCGATTAGCTCC
1 CTGCAACTTCAGAAAGACAAGATCTGATATCCTCGATCAGCTCC
85612058 AATCTCTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 19 0.53
45 17 0.47
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (45 bp):
CTGCAACTTCAGAAAGACAAGATCTGATATCCTCGATCAGCTCCG
Found at i:85612272 original size:88 final size:88
Alignment explanation
Indices: 85612093--85612482 Score: 457
Period size: 88 Copynumber: 4.4 Consensus size: 88
85612083 GACTCTGGGT
** * * *
85612093 TCAACTCACCTCTCGCGCTATGAGTTGACTTTTTGAAAAAAAGACATTAAAAAAACCAG-AATGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAACAGAAATT-GAAAAA-CAGAAAT-T
* **
85612157 GAAAATAACTTGGCATGTGACCCGAGGC
61 GAAAATACCTCAGCATGTGACCCGAGGC
* *
85612185 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGAAAAACAG-ATTGTGAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAAAT-TGAAA
85612249 ATACCTCAGCATGTGACCCGAGGC
65 ATACCTCAGCATGTGACCCGAGGC
* * * *
85612273 TCAAGTCACCTCTCGCAATATGAGCTGATTTTTTTG-AAACATAAATTGAAGAACAGAAATT-AA
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAAAACAGAAATTGAA
* * *
85612336 AATTACCTCAGCGTGTGAGCAGAGGC
64 AA-TACCTCAGCATGTGACCCGAGGC
* *
85612362 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAACAGAAATTAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAAAACAGAAATTGAAA
*
85612426 ATACCTCAGCATGTGAACCGAGGC
65 ATACCTCAGCATGTGACCCGAGGC
* *
85612450 TGAACTCACCTCTCGCAATATGAATTGATTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
85612483 TTGATGAACA
Statistics
Matches: 261, Mismatches: 29, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
86 5 0.02
88 130 0.50
89 77 0.30
90 17 0.07
91 6 0.02
92 26 0.10
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (88 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAGAAATTGAAAA
TACCTCAGCATGTGACCCGAGGC
Found at i:85612539 original size:75 final size:73
Alignment explanation
Indices: 85612410--85612574 Score: 210
Period size: 75 Copynumber: 2.2 Consensus size: 73
85612400 CAGAAATTGA
*
85612410 AAAACAGAAATTAAAAATACCTCAGCATGTGAACCGAGGCTGAACTCACCTCTCGCAATATGAAT
1 AAAACAGAAATTAAAAATACCTCAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATGAAT
85612475 TGATTTTTTTG
65 TG--TTTTTTG
* * * * *
85612486 ATGAACAGAAATTAAAATTACCTTAGC-GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 A-AAACAGAAATTAAAAATACCTCAGCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATGAA
85612549 TTGTTTTTTG
64 TTGTTTTTTG
85612559 AAAACAGAAA-TAAAAA
1 AAAACAGAAATTAAAAA
85612575 CATCAGAATA
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
71 5 0.06
72 8 0.10
73 8 0.10
74 2 0.03
75 33 0.42
76 1 0.01
77 22 0.28
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (73 bp):
AAAACAGAAATTAAAAATACCTCAGCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATGAATT
GTTTTTTG
Found at i:85619732 original size:11 final size:11
Alignment explanation
Indices: 85619716--85619767 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
85619706 TGGATGAATG
85619716 AATAAATGACA
1 AATAAATGACA
85619727 AATAAATGACA
1 AATAAATGACA
***
85619738 AATAAATGTTG
1 AATAAATGACA
*
85619749 AATAAATGACG
1 AATAAATGACA
85619760 AATAAATG
1 AATAAATG
85619768 TTAGTCATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.58, C:0.06, G:0.13, T:0.23
Consensus pattern (11 bp):
AATAAATGACA
Found at i:85619768 original size:22 final size:22
Alignment explanation
Indices: 85619727--85619769 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
85619717 ATAAATGACA
85619727 AATAAATGACAAATAAATGTTG
1 AATAAATGACAAATAAATGTTG
*
85619749 AATAAATGACGAATAAATGTT
1 AATAAATGACAAATAAATGTT
85619770 AGTCATGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (22 bp):
AATAAATGACAAATAAATGTTG
Found at i:85623304 original size:12 final size:12
Alignment explanation
Indices: 85623287--85623312 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85623277 AAATATTTTT
85623287 AAAGAAAAATAA
1 AAAGAAAAATAA
85623299 AAAGAAAAATAA
1 AAAGAAAAATAA
85623311 AA
1 AA
85623313 CTAATATCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAGAAAAATAA
Found at i:85623559 original size:45 final size:46
Alignment explanation
Indices: 85623510--85623612 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 46
85623500 CATATAATGC
* *
85623510 TAGTATTAAAAAAATATACA-CA-ATATA-ATATTAGAAGTATATACA
1 TAGTATTAAAAAAATATACATAATATATACATATTAGAAATA-ATA-A
* *
85623555 TAGTATTGAAAATATATACATAATATATACATATTAGAAATAATAA
1 TAGTATTAAAAAAATATACATAATATATACATATTAGAAATAATAA
*
85623601 TAATATTAAAAA
1 TAGTATTAAAAA
85623613 CAACTATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
45 18 0.37
46 12 0.24
47 8 0.16
48 11 0.22
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (46 bp):
TAGTATTAAAAAAATATACATAATATATACATATTAGAAATAATAA
Found at i:85623660 original size:25 final size:23
Alignment explanation
Indices: 85623592--85623679 Score: 85
Period size: 22 Copynumber: 3.9 Consensus size: 23
85623582 TACATATTAG
*
85623592 AAATA-ATAATAATATTAAAAAC
1 AAATACATAATAATATTAAAAAT
* * *
85623614 AACTA-TTAATAATACTACATAAAT
1 AAATACATAATAATATTA-A-AAAT
*
85623638 ATATACAT-AT-ATATTAAAAAT
1 AAATACATAATAATATTAAAAAT
85623659 AAATACATAATAATATTAAAA
1 AAATACATAATAATATTAAAA
85623680 TGATGATAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
21 11 0.21
22 17 0.33
23 15 0.29
24 8 0.15
25 1 0.02
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATACATAATAATATTAAAAAT
Found at i:85623765 original size:3 final size:3
Alignment explanation
Indices: 85623741--85623801 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
85623731 CATATAAGTG
* * *
85623741 TAA TAA TAG TAT TAA -AA TTAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
85623786 TGA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TA
85623802 TAGTAGCTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
2 4 0.08
3 42 0.88
4 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:85626507 original size:41 final size:41
Alignment explanation
Indices: 85626439--85626740 Score: 453
Period size: 41 Copynumber: 7.4 Consensus size: 41
85626429 CGTTCTAGAA
85626439 AAAACGCCGCT-AAAACCAGAGCATTAGCGGCGCTTTTCCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCCT
* *
85626479 AAAACGCCGCAAAAAACCAGAGCATTAGCAGCGCTTTTCCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCCT
85626520 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCCT
* * *
85626561 AAAACGTCGCAAAAAACCAGAGCATTAGCGTCGCTTTTCCT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCCT
* * *
85626602 AAAACGCCGCAAAAAACCAGAGCATCAGCGGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCCT
* * * *
85626643 AAAATGCCGCTAAACACCAGAGCATCAGCGGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCCT
* * *
85626684 AAAACGCCGCTAAACACCAGAGCATCAGCGGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCCT
*
85626725 AAAATGCCGCTAAAAA
1 AAAACGCCGCTAAAAA
85626741 TCTCATAACC
Statistics
Matches: 244, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
40 10 0.04
41 234 0.96
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCCT
Found at i:85626919 original size:14 final size:14
Alignment explanation
Indices: 85626897--85626936 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
85626887 TTAATTATCA
* *
85626897 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
85626911 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
85626925 ATATGGTTTAAG
1 TTATGGTTTAAG
85626937 CATGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:85627894 original size:24 final size:24
Alignment explanation
Indices: 85627844--85627894 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
85627834 TATATGAGAT
* * *
85627844 AAATATATATAAAATATTATTTTA
1 AAATATATATAAAATATCATATGA
85627868 AAATATATAT-AAATATACATATGA
1 AAATATATATAAAATAT-CATATGA
85627892 AAA
1 AAA
85627895 GTGGTTAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATATAAAATATCATATGA
Found at i:85628880 original size:18 final size:17
Alignment explanation
Indices: 85628859--85628901 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
85628849 ATGATCTTAA
85628859 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
85628877 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
85628894 TCGATGAT
1 T-GATGAT
85628902 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:85630107 original size:15 final size:15
Alignment explanation
Indices: 85630087--85630118 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
85630077 AAACATATAA
85630087 TCCAAATATTCACTG
1 TCCAAATATTCACTG
85630102 TCCAAATATTCACTG
1 TCCAAATATTCACTG
85630117 TC
1 TC
85630119 AAAACATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (15 bp):
TCCAAATATTCACTG
Found at i:85631792 original size:289 final size:290
Alignment explanation
Indices: 85631273--85631989 Score: 1400
Period size: 289 Copynumber: 2.5 Consensus size: 290
85631263 CCAACCTTAT
85631273 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
85631338 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
85631403 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
*
85631468 TCCAATTTACTTATAAAGATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTA-T
196 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
85631532 TTTTTATATTAATAATGTTTGATTTTAATA
261 TTTTTATATTAATAATGTTTGATTTTAATA
* *
85631562 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGATGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
85631627 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
85631692 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
85631757 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
196 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
85631822 TTTTTATATTAATAATGTTTGATTTTAATA
261 TTTTTATATTAATAATGTTTGATTTTAATA
85631852 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
85631917 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
85631982 AAAGACTT
131 AAAGACTT
85631990 TTTATCACAA
Statistics
Matches: 422, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
289 255 0.60
290 167 0.40
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (290 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
TTTTTATATTAATAATGTTTGATTTTAATA
Found at i:85632238 original size:15 final size:15
Alignment explanation
Indices: 85632194--85632249 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
85632184 AACGACATGT
*
85632194 ATATTACTTAATTAAA
1 ATATTATTTAATT-AA
85632210 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
85632223 ATATTATTTAATTAA
1 ATATTATTTAATTAA
85632238 ATATTATTTAAT
1 ATATTATTTAAT
85632250 CCCGCTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 2 0.06
15 16 0.46
16 4 0.11
17 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:85632394 original size:9 final size:9
Alignment explanation
Indices: 85632354--85632514 Score: 198
Period size: 9 Copynumber: 18.0 Consensus size: 9
85632344 TATTTGATAT
*
85632354 CATAATTTA
1 CATAACTTA
*
85632363 TATAACTTA
1 CATAACTTA
* *
85632372 CAAAACGTA
1 CATAACTTA
85632381 CATAACTTA
1 CATAACTTA
*
85632390 TATAACTTA
1 CATAACTTA
* *
85632399 GATAA-ATA
1 CATAACTTA
*
85632407 TATAACTTA
1 CATAACTTA
*
85632416 TATAACTTA
1 CATAACTTA
85632425 CATAACTTA
1 CATAACTTA
* *
85632434 TATAACATA
1 CATAACTTA
85632443 CATAACTTA
1 CATAACTTA
85632452 CATAACTTA
1 CATAACTTA
*
85632461 TATAACTTA
1 CATAACTTA
85632470 CATAACTTA
1 CATAACTTA
85632479 CATAACTTA
1 CATAACTTA
85632488 CATAACTTA
1 CATAACTTA
*
85632497 TATAACTTA
1 CATAACTTA
85632506 CATAACTTA
1 CATAACTTA
85632515 TATGTTGTCA
Statistics
Matches: 130, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
8 6 0.05
9 124 0.95
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:85638410 original size:43 final size:40
Alignment explanation
Indices: 85638361--85638476 Score: 144
Period size: 43 Copynumber: 2.8 Consensus size: 40
85638351 ATCTGCCAAA
85638361 TTTAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCGTTT-T--AAAAAGCGCCGCTAAAAGCCTTGACC
*
85638404 TTTAGCGGCGCTTTTCCCACAAA-CGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCG-TTTT---AAAAAGCGCCGCTAAAAGCCTTGACC
*
85638447 TTTAGCGGCGTTTTAGAAAGCGCCGCTAAA
1 TTTAGCGGCGTTTTAAAAAGCGCCGCTAAA
85638477 GGCTAAAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
39 4 0.06
40 10 0.15
42 4 0.06
43 41 0.62
44 7 0.11
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTTAGCGGCGTTTTAAAAAGCGCCGCTAAAAGCCTTGACC
Found at i:85638659 original size:48 final size:47
Alignment explanation
Indices: 85638567--85638659 Score: 107
Period size: 48 Copynumber: 1.9 Consensus size: 47
85638557 CTAATAAGAG
* * * * *
85638567 TGTAGTAAGGTTGAAATACCTTATTCTAATCAATACATATAGAAGAAT
1 TGTAATAAGGTTGAAAAACCATATTCTAA-CAATAAATAAAGAAGAAT
85638615 TGTAATAAGGTTGAAAAACCATATTCTAA-AATAAAATAAAAGAAG
1 TGTAATAAGGTTGAAAAACCATATTCTAACAAT-AAAT-AAAGAAG
85638660 TGTAGTTCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
46 3 0.08
47 3 0.08
48 32 0.84
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.29
Consensus pattern (47 bp):
TGTAATAAGGTTGAAAAACCATATTCTAACAATAAATAAAGAAGAAT
Found at i:85649409 original size:161 final size:161
Alignment explanation
Indices: 85649144--85649468 Score: 623
Period size: 161 Copynumber: 2.0 Consensus size: 161
85649134 ACCAAATTAA
*
85649144 TGTGATTTCAGTTAACTTTTGCTACAACTATTGAATCAGATCTTTTTACCTCAAGTTTAGAATAT
1 TGTGATTTCAGTTAACTTTTGCTACAACTATTGAATCAGATCTTTTTACCTCAAGTTTAGAACAT
85649209 GTCTCTTCCTGAGTCATAAAATTCTATTTCTTTCTTTTTGCTGAAGGGCTGGGATTTAAGACTTT
66 GTCTCTTCCTGAGTCATAAAATTCTATTTCTTTCTTTTTGCTGAAGGGCTGGGATTTAAGACTTT
*
85649274 AGATGGCCAAAAGTCTAGAACGTAGTTCTGC
131 AGATGGCCAAAAGTCTAGAACATAGTTCTGC
*
85649305 TGTGATTTCAGTTAACTTTTGCTACAACTATTGAATCAGATCTTTTTACCTCAAGTTTGGAACAT
1 TGTGATTTCAGTTAACTTTTGCTACAACTATTGAATCAGATCTTTTTACCTCAAGTTTAGAACAT
85649370 GTCTCTTCCTGAGTCATAAAATTCTATTTCTTTCTTTTTGCTGAAGGGCTGGGATTTAAGACTTT
66 GTCTCTTCCTGAGTCATAAAATTCTATTTCTTTCTTTTTGCTGAAGGGCTGGGATTTAAGACTTT
85649435 AGATGGCCAAAAGTCTAGAACATAGTTCTGC
131 AGATGGCCAAAAGTCTAGAACATAGTTCTGC
85649466 TGT
1 TGT
85649469 CTTTTTGCAG
Statistics
Matches: 161, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 161 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (161 bp):
TGTGATTTCAGTTAACTTTTGCTACAACTATTGAATCAGATCTTTTTACCTCAAGTTTAGAACAT
GTCTCTTCCTGAGTCATAAAATTCTATTTCTTTCTTTTTGCTGAAGGGCTGGGATTTAAGACTTT
AGATGGCCAAAAGTCTAGAACATAGTTCTGC
Found at i:85650258 original size:275 final size:272
Alignment explanation
Indices: 85649756--85650273 Score: 829
Period size: 275 Copynumber: 1.9 Consensus size: 272
85649746 AATGAGCTAC
* * * * *
85649756 TTACAGCATCACGTCTACCTAAAGGAGGAACACAACATACTTTTGATAATGTTGACCTTGCCAAG
1 TTACAGAATCACGCCTACCTAAAGAAGCAACACAACATACTTTTGATAATGTTGACATTGCCAAG
* * * *
85649821 CATGATGCGGGTGAGTTCCATGATGCCAATTCTGATCAGCAATGGCGACAAGTATTTGAACCCTT
66 CATGATGCAGGTAAGTTCAATGATGCCAATTCTGATCAGCAATGGCGACAAGTATTTGAACCATT
**
85649886 CTACAATGGTGAAGATGGTGAGTTATCAAAGCTTGAAGAAAACTCATCATGGTTCTCCGGATATG
131 CTACAATGGTGAAGATCATGAGTTATCAAAGCTTGAAGAAAACTCATCATGGTTCTCCGGATATG
85649951 ATCGTTGCAATATTTAGATCACACTTAACTGCAGAATCATGTATGTATTATTAGTAACAGTTTCT
196 ATCGTTGCAATATTTAGATCACACTTAACTGCAGAATCATGTATGTATTATTAGTAACAGTTTCT
85650016 CTCACGTTTAAT
261 CTCACGTTTAAT
* * **
85650028 TTACAGAATCATGCCTACCTAAAGAAGCAATACAACATACTTTTGATAATGTTGACATTGCTGAG
1 TTACAGAATCACGCCTACCTAAAGAAGCAACACAACATACTTTTGATAATGTTGACATTGCCAAG
85650093 CATGATGCAGGTAAGTTCAATGATGCCAATGATACTGATCAGCAATGGCGACAAGTATTTGAACC
66 CATGATGCAGGTAAGTTCAATGATGCCAAT--T-CTGATCAGCAATGGCGACAAGTATTTGAACC
** *
85650158 ATTCTGTAATGGTGAAGATCATGAGTTATCAAAGCTTGAAGAAAACTCGTCATGGTTCTCCGGAT
128 ATTCTACAATGGTGAAGATCATGAGTTATCAAAGCTTGAAGAAAACTCATCATGGTTCTCCGGAT
**
85650223 ATGATCGTTGCAATATTTAGATCACGTTTAACTGCAGAATCATGTATGTAT
193 ATGATCGTTGCAATATTTAGATCACACTTAACTGCAGAATCATGTATGTAT
85650274 ACTAACAATT
Statistics
Matches: 223, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
272 83 0.37
274 1 0.00
275 139 0.62
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (272 bp):
TTACAGAATCACGCCTACCTAAAGAAGCAACACAACATACTTTTGATAATGTTGACATTGCCAAG
CATGATGCAGGTAAGTTCAATGATGCCAATTCTGATCAGCAATGGCGACAAGTATTTGAACCATT
CTACAATGGTGAAGATCATGAGTTATCAAAGCTTGAAGAAAACTCATCATGGTTCTCCGGATATG
ATCGTTGCAATATTTAGATCACACTTAACTGCAGAATCATGTATGTATTATTAGTAACAGTTTCT
CTCACGTTTAAT
Found at i:85655850 original size:179 final size:178
Alignment explanation
Indices: 85655515--85655873 Score: 479
Period size: 179 Copynumber: 2.0 Consensus size: 178
85655505 AACAGTAAAT
* ** *
85655515 ACTCGCCAAATCAATAACAATCTGTAATATTCAATCACCAAAATCAACCTAAATGACTTGCACAA
1 ACTCACCAAATCAATAACAATCCATAATATTCAATCACCAAAATCAACCCAAATGACTTGCACAA
** *
85655580 AACTTCCAAAAGAACATCCACACGCTTACCTCTTACGAACAGCCACCACATTAGTTCTACGTCGT
66 AACTTCCAAAAGAACATCCACAC-CTTACCTCTTACGAACAGCCACCACACGAGTTCTACGTCGC
** * * * *
85655645 TAGAGGCTTACTAATCGCTTCTTGGACCTCTCCTAAGCATAACGAACCA
130 TAGAGGCGCACCAACCGCTGCTTGGACCTCTCCTAAGCATAACAAACCA
* * *
85655694 ACTCACCAAATTAGTAACAATCCATAATATTTAATCACCAAAATCAACCCAAATGACTTGCACAA
1 ACTCACCAAATCAATAACAATCCATAATATTCAATCACCAAAATCAACCCAAATGACTTGCACAA
* *
85655759 CACTTCCAAAAGAACATCCATCTA-CTTACCTCTTGCGAACAGCCACCACACGAGTTCTACGTCG
66 AACTTCCAAAAGAACATCCA-C-ACCTTACCTCTTACGAACAGCCACCACACGAGTTCTACGTCG
* * *
85655823 CTGGAGGCGCACCAGCCG-TGGCTTGGACCTCTCCTAAGCATAGCAAACCA
129 CTAGAGGCGCACCAACCGCT-GCTTGGACCTCTCCTAAGCATAACAAACCA
85655873 A
1 A
85655874 TTAGATAGCA
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
178 1 0.01
179 153 0.98
180 1 0.01
181 1 0.01
ACGTcount: A:0.35, C:0.31, G:0.12, T:0.22
Consensus pattern (178 bp):
ACTCACCAAATCAATAACAATCCATAATATTCAATCACCAAAATCAACCCAAATGACTTGCACAA
AACTTCCAAAAGAACATCCACACCTTACCTCTTACGAACAGCCACCACACGAGTTCTACGTCGCT
AGAGGCGCACCAACCGCTGCTTGGACCTCTCCTAAGCATAACAAACCA
Found at i:85666203 original size:20 final size:19
Alignment explanation
Indices: 85666178--85666219 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
85666168 AAAAAGAATT
85666178 GAAGAAAA-GAAAGAAACAGA
1 GAAGAAAATG-AAGAAA-AGA
85666198 GAAGAAAATGAAGAAAAGA
1 GAAGAAAATGAAGAAAAGA
85666217 GAA
1 GAA
85666220 ATACCATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 14 0.67
21 1 0.05
ACGTcount: A:0.69, C:0.02, G:0.26, T:0.02
Consensus pattern (19 bp):
GAAGAAAATGAAGAAAAGA
Found at i:85666603 original size:56 final size:53
Alignment explanation
Indices: 85666533--85666642 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 53
85666523 GGGGCATTAC
* *
85666533 AGGTTAGCTATAAGGAATATCAACAAGTAAGCTTTTTAAGTAAGATTTACTTTTTA
1 AGGTTAGCTATAAGGAATATCAAAAAGTAAGC---TTAAGTAAGATTCACTTTTTA
85666589 AGGTTAGCTATAAGGAATATCAAAAAGTAAGCTTAAGTAAGATTCACTTTTTA
1 AGGTTAGCTATAAGGAATATCAAAAAGTAAGCTTAAGTAAGATTCACTTTTTA
85666642 A
1 A
85666643 ACTAACTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
53 21 0.40
56 31 0.60
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (53 bp):
AGGTTAGCTATAAGGAATATCAAAAAGTAAGCTTAAGTAAGATTCACTTTTTA
Found at i:85666960 original size:3 final size:3
Alignment explanation
Indices: 85666952--85666987 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
85666942 ACAATAGTAG
85666952 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
85666988 AAGAGAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:85697979 original size:25 final size:25
Alignment explanation
Indices: 85697910--85697979 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
85697900 CTGTGAATCA
* * * *
85697910 GTATGCTCACTCGAGATGTAAATTG
1 GTATGCTCACACTAGCTATAAATTG
* *
85697935 GTATGCTCTCACTAGTTATAAATTG
1 GTATGCTCACACTAGCTATAAATTG
85697960 GTATGCTCACA-TAAGCTATA
1 GTATGCTCACACT-AGCTATA
85697980 GATTAGAACG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (25 bp):
GTATGCTCACACTAGCTATAAATTG
Found at i:85699722 original size:25 final size:25
Alignment explanation
Indices: 85699691--85699810 Score: 118
Period size: 25 Copynumber: 4.8 Consensus size: 25
85699681 CGTTCCCACC
*
85699691 CACAGCTCGTGTGAGCATACTGATT
1 CACAGCTCGTGTGAGCATACCGATT
* * * *
85699716 -AGTAGCTTGTGAGAGCATACC-AAT
1 CA-CAGCTCGTGTGAGCATACCGATT
* *
85699740 CTATAGCTCGAGTGAGCATACCGATT
1 C-ACAGCTCGTGTGAGCATACCGATT
* *
85699766 CACAGCTCGAGTGAGCATATCGATT
1 CACAGCTCGTGTGAGCATACCGATT
*
85699791 CACAGCTCGTTTGAGCATAC
1 CACAGCTCGTGTGAGCATAC
85699811 ATGTACATGA
Statistics
Matches: 77, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
24 3 0.04
25 70 0.91
26 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCATACCGATT
Found at i:85702014 original size:21 final size:21
Alignment explanation
Indices: 85701974--85702020 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
85701964 ATTTTAGATA
*
85701974 TTTATGTATTTTTGTTTTTAT
1 TTTATGTATTTTTGTATTTAT
85701995 TTTATGTATTTATT-TATTTAT
1 TTTATGTATTT-TTGTATTTAT
*
85702016 CTTAT
1 TTTAT
85702021 TTTAGTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.72
Consensus pattern (21 bp):
TTTATGTATTTTTGTATTTAT
Found at i:85702857 original size:21 final size:21
Alignment explanation
Indices: 85702833--85702877 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
85702823 TGCCCCCTCT
85702833 ACACGGCCATGTGTGGCCTTC
1 ACACGGCCATGTGTGGCCTTC
* *
85702854 ACACGGGCGTGTGTGGCCTTC
1 ACACGGCCATGTGTGGCCTTC
85702875 ACA
1 ACA
85702878 TAGGCGTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.31, G:0.31, T:0.22
Consensus pattern (21 bp):
ACACGGCCATGTGTGGCCTTC
Found at i:85702883 original size:21 final size:21
Alignment explanation
Indices: 85702842--85702907 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
85702832 TACACGGCCA
*
85702842 TGTGTGGCCTTCACACGGGCG
1 TGTGTGGCCTTCACATGGGCG
*
85702863 TGTGTGGCCTTCACATAGGCG
1 TGTGTGGCCTTCACATGGGCG
** *
85702884 TGCATGGCCTTTACATGGGCG
1 TGTGTGGCCTTCACATGGGCG
85702905 TGT
1 TGT
85702908 AGACTCCCAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (21 bp):
TGTGTGGCCTTCACATGGGCG
Found at i:85709018 original size:19 final size:19
Alignment explanation
Indices: 85708996--85709062 Score: 98
Period size: 19 Copynumber: 3.5 Consensus size: 19
85708986 AATAATTATC
85708996 TTAATATTATTTTATTAAT
1 TTAATATTATTTTATTAAT
85709015 TTAATATTATTTTATTAAT
1 TTAATATTATTTTATTAAT
* * *
85709034 TTAATATTAATGTGATTATT
1 TTAATATT-ATTTTATTAAT
85709054 TTAATATTA
1 TTAATATTA
85709063 AATTTAATCT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 28 0.64
20 16 0.36
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
TTAATATTATTTTATTAAT
Found at i:85712051 original size:20 final size:19
Alignment explanation
Indices: 85712007--85712051 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
85711997 TGGTGAGATC
*
85712007 TAAAATAAATCAAACTAAT
1 TAAAATAAATAAAACTAAT
* *
85712026 TGAAATATATAAAACTTAAT
1 TAAAATAAATAAAAC-TAAT
85712046 TAAAAT
1 TAAAAT
85712052 CGACTCTACC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAATAAATAAAACTAAT
Found at i:85723101 original size:28 final size:29
Alignment explanation
Indices: 85723064--85723119 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
85723054 ACACCGGCGA
*
85723064 GGACACGGGCTTGT-CTAGGCAGTGTGAG
1 GGACACGGGCGTGTGCTAGGCAGTGTGAG
* *
85723092 GGACACGGGCGTGTGCTTGGCCGTGTGA
1 GGACACGGGCGTGTGCTAGGCAGTGTGA
85723120 AAATCCTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.14, C:0.20, G:0.45, T:0.21
Consensus pattern (29 bp):
GGACACGGGCGTGTGCTAGGCAGTGTGAG
Found at i:85724996 original size:13 final size:13
Alignment explanation
Indices: 85724963--85724996 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
85724953 AGAAATTGAA
*
85724963 TGGAATTAGAATT
1 TGGAATTCGAATT
85724976 TGGAATTCGAATT
1 TGGAATTCGAATT
85724989 TGGAATTC
1 TGGAATTC
85724997 AAAATCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (13 bp):
TGGAATTCGAATT
Found at i:85747766 original size:25 final size:25
Alignment explanation
Indices: 85747729--85747778 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
85747719 GAGATTGTAA
85747729 GACTGCATAGGGTCCCTGTCTCTAT
1 GACTGCATAGGGTCCCTGTCTCTAT
*
85747754 GACTGCATGGGGTCCCTGTCTCTAT
1 GACTGCATAGGGTCCCTGTCTCTAT
85747779 CATTTCCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.14, C:0.28, G:0.26, T:0.32
Consensus pattern (25 bp):
GACTGCATAGGGTCCCTGTCTCTAT
Found at i:85764977 original size:20 final size:20
Alignment explanation
Indices: 85764908--85764974 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
85764898 TCAAATATAC
85764908 CATGAACTTAGACCACAACT
1 CATGAACTTAGACCACAACT
* * *
85764928 CAT-AACTTCAAATCACATATTT
1 CATGAACTT-AGACCACA-A-CT
*
85764950 CATGAGCTTAGACCACAACT
1 CATGAACTTAGACCACAACT
85764970 CATGA
1 CATGA
85764975 GCTCAGATCA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
19 5 0.14
20 15 0.42
21 2 0.06
22 10 0.28
23 4 0.11
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.25
Consensus pattern (20 bp):
CATGAACTTAGACCACAACT
Found at i:85764986 original size:20 final size:20
Alignment explanation
Indices: 85764949--85764987 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
85764939 ATCACATATT
*
85764949 TCATGAGCTTAGACCACAAC
1 TCATGAGCTCAGACCACAAC
*
85764969 TCATGAGCTCAGATCACAA
1 TCATGAGCTCAGACCACAA
85764988 AGTACCTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (20 bp):
TCATGAGCTCAGACCACAAC
Found at i:85771865 original size:47 final size:47
Alignment explanation
Indices: 85771771--85771899 Score: 163
Period size: 47 Copynumber: 2.7 Consensus size: 47
85771761 GTGCGAATAA
* * * *
85771771 TACCTTAATTTGGCTACGACCATGGTATAGGTA-TTCAGAGAGGAGT
1 TACCTTGATTTGGCTACGGCCATGGTATAGGTACTCCAGAGAGAAGT
* * *
85771817 TACCTTGATTTGGCTACAGGCAATAGTATAGGTACTCCAG-GATAAGT
1 TACCTTGATTTGGCTAC-GGCCATGGTATAGGTACTCCAGAGAGAAGT
85771864 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTAC-GGCCATGGTATAGGTACT
85771900 TATCGATTGA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
46 16 0.23
47 51 0.72
48 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGCCATGGTATAGGTACTCCAGAGAGAAGT
Found at i:85777733 original size:49 final size:49
Alignment explanation
Indices: 85777004--85777726 Score: 1230
Period size: 49 Copynumber: 14.8 Consensus size: 49
85776994 TATTAAAATT
*
85777004 TGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
85777053 TGTGATAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATAAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
85777102 TGTGATAGTGTATGTATATGTGATAAGGCCTAATGGCTGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
85777151 TGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
85777200 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
85777249 TGTGATAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
85777298 TGTGATAGTGCATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
85777347 TGTGATAGTGCATATATATGTGATAAGGCCAAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
85777396 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
85777445 TGTGAAAGTGCATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
85777494 TGTGATAGTGTATATATATGTGATAAGGCCAAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
85777543 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
85777592 TGTGATAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
85777641 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAA
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * *
85777690 TGTGAAAGTGTATGTATATGTGGTAAAGCCGAATGGC
1 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
85777727 TAATGTGAAT
Statistics
Matches: 642, Mismatches: 32, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 642 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.31
Consensus pattern (49 bp):
TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:85777832 original size:37 final size:37
Alignment explanation
Indices: 85777791--85777861 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
85777781 CCGGGTGAGT
85777791 CCCGATGACTACGTGTGGAGATTATGTCCGGGTACGA
1 CCCGATGACTACGTGTGGAGATTATGTCCGGGTACGA
85777828 CCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 CCCGATGACTACGTGTGGAGATTATGTCCGGGTA
85777862 AGACTTCGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
CCCGATGACTACGTGTGGAGATTATGTCCGGGTACGA
Found at i:85787331 original size:96 final size:96
Alignment explanation
Indices: 85787167--85787368 Score: 379
Period size: 96 Copynumber: 2.1 Consensus size: 96
85787157 CCCGGTAACT
85787167 TGATTAAGCTTATTCTAGCAATAATTTAACCTAGGATTTATATTTGGAAAAATACCCATCGGTGA
1 TGATTAAGCTTATTCTAGCAATAATTTAACCTAGGATTTATATTTGGAAAAATACCCATCGGTGA
85787232 AATATGTTTATTTTGATGTTTTATGGTAGAA
66 AATATGTTTATTTTGATGTTTTATGGTAGAA
*
85787263 TGATTAAGCTTATTCTAGCAATAATTTAACCTAGGATTTATATTTGGAAAAATACCTATCGGTGA
1 TGATTAAGCTTATTCTAGCAATAATTTAACCTAGGATTTATATTTGGAAAAATACCCATCGGTGA
85787328 AATATGTTTATTTTGATGTTTTATGGTAGAA
66 AATATGTTTATTTTGATGTTTTATGGTAGAA
*
85787359 T-ATGAAGCTT
1 TGATTAAGCTT
85787369 GAAATTGTGT
Statistics
Matches: 104, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
95 8 0.08
96 96 0.92
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (96 bp):
TGATTAAGCTTATTCTAGCAATAATTTAACCTAGGATTTATATTTGGAAAAATACCCATCGGTGA
AATATGTTTATTTTGATGTTTTATGGTAGAA
Found at i:85788084 original size:49 final size:50
Alignment explanation
Indices: 85787950--85788094 Score: 159
Period size: 49 Copynumber: 2.9 Consensus size: 50
85787940 ATTAGGATTT
* * * * *
85787950 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTCGTGAGTTCATAAGG
1 AAGGATACCATGTAAGACCATGACAAGACATGGCAATGGTAAGTT-ATAA-G
* *
85788002 CAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT-TGAA-
1 -AAGGATACCATGTAAGACCATGACAAGACATGGCAATGGTAAGTTAT-AAG
* *
85788052 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGACAAGACATGGCAATGGTAAG
85788095 GTACCCGTGT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
49 39 0.48
51 1 0.01
52 2 0.02
53 39 0.48
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (50 bp):
AAGGATACCATGTAAGACCATGACAAGACATGGCAATGGTAAGTTATAAG
Found at i:85788309 original size:16 final size:16
Alignment explanation
Indices: 85788288--85788318 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85788278 ATAAATTTGA
85788288 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
85788304 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
85788319 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:85795842 original size:25 final size:25
Alignment explanation
Indices: 85795823--85795904 Score: 105
Period size: 25 Copynumber: 3.3 Consensus size: 25
85795813 CGAGTGGAAG
85795823 ATTGGTATGCTCTCATGAGTAATAA
1 ATTGGTATGCTCTCATGAGTAATAA
85795848 ATTGGTATGCTCTCATGAGCT-ATAA
1 ATTGGTATGCTCTCATGAG-TAATAA
* *
85795873 ATCGGTATGCTCTCACGAGCT-ATAA
1 ATTGGTATGCTCTCATGAG-TAATAA
*
85795898 ATCGGTA
1 ATTGGTA
85795905 ACTCTAATGA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
25 53 0.98
26 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (25 bp):
ATTGGTATGCTCTCATGAGTAATAA
Found at i:85796860 original size:36 final size:36
Alignment explanation
Indices: 85796813--85796885 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
85796803 TGTCCACTTA
* *
85796813 AATAAGAAATGGTCTAATTACCACATACGGACTCAT
1 AATAAGAAATGGTCTAATTACCACATAAGGACACAT
* *
85796849 AATAAGAAATGGTTTAATTACGACATAAGGACACAT
1 AATAAGAAATGGTCTAATTACCACATAAGGACACAT
85796885 A
1 A
85796886 CTTTAAGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (36 bp):
AATAAGAAATGGTCTAATTACCACATAAGGACACAT
Found at i:85797595 original size:13 final size:13
Alignment explanation
Indices: 85797574--85797612 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
85797564 AACTCTCTGA
*
85797574 GTCGGGTCACACG
1 GTCGCGTCACACG
*
85797587 GTCGCGTCACACA
1 GTCGCGTCACACG
*
85797600 GTCGTGTCACACG
1 GTCGCGTCACACG
85797613 CCCGTGTGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.18, C:0.33, G:0.31, T:0.18
Consensus pattern (13 bp):
GTCGCGTCACACG
Found at i:85797673 original size:12 final size:12
Alignment explanation
Indices: 85797656--85797685 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
85797646 CCCCACAAGC
85797656 CCATGTGCCAGG
1 CCATGTGCCAGG
*
85797668 CCATGTGCTAGG
1 CCATGTGCCAGG
85797680 CCATGT
1 CCATGT
85797686 AACTGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (12 bp):
CCATGTGCCAGG
Found at i:85799796 original size:112 final size:112
Alignment explanation
Indices: 85799619--85799843 Score: 423
Period size: 112 Copynumber: 2.0 Consensus size: 112
85799609 GATAAGATGA
*
85799619 TACATCTTTTCTCTACTTTAATTTTAAGTCTATTTATTAATTTACTATTTTAACCTTAGATTTTA
1 TACATCTTTTCTCTACTTTAATTTTAAGTATATTTATTAATTTACTATTTTAACCTTAGATTTTA
*
85799684 ACGTAAAAATCATTTAAATTTGTGTCCATAAAAGTCCACTAACATAT
66 AAGTAAAAATCATTTAAATTTGTGTCCATAAAAGTCCACTAACATAT
85799731 TACATCTTTTCTCTACTTTAATTTTAAGTATATTTATTAATTTACTATTTTAACCTTAGATTTTA
1 TACATCTTTTCTCTACTTTAATTTTAAGTATATTTATTAATTTACTATTTTAACCTTAGATTTTA
*
85799796 AATTAAAAATCATTTAAATTTGTGTCCATAAAAGTCCACTAACATAT
66 AAGTAAAAATCATTTAAATTTGTGTCCATAAAAGTCCACTAACATAT
85799843 T
1 T
85799844 GAATGGTCTA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 110 1.00
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (112 bp):
TACATCTTTTCTCTACTTTAATTTTAAGTATATTTATTAATTTACTATTTTAACCTTAGATTTTA
AAGTAAAAATCATTTAAATTTGTGTCCATAAAAGTCCACTAACATAT
Found at i:85803977 original size:27 final size:27
Alignment explanation
Indices: 85803939--85803991 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
85803929 CGACGATGAG
85803939 TATGACTTTCCCATAAGCCTTTTTTCA
1 TATGACTTTCCCATAAGCCTTTTTTCA
*
85803966 TATGACTTTCCCATAATCCTTTTTTC
1 TATGACTTTCCCATAAGCCTTTTTTC
85803992 CGTGTCACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.26, G:0.06, T:0.47
Consensus pattern (27 bp):
TATGACTTTCCCATAAGCCTTTTTTCA
Found at i:85806084 original size:35 final size:35
Alignment explanation
Indices: 85806038--85806108 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
85806028 TTCGACGAGC
*
85806038 TTCCAATTATATATAAAACATAGGAAAGAAAACTA
1 TTCCAATTATATATAAAACATAAGAAAGAAAACTA
85806073 TTCCAATTATATATAAAACATAAGAAAGAAAACTA
1 TTCCAATTATATATAAAACATAAGAAAGAAAACTA
85806108 T
1 T
85806109 GTGAGCACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.27
Consensus pattern (35 bp):
TTCCAATTATATATAAAACATAAGAAAGAAAACTA
Found at i:85809317 original size:23 final size:23
Alignment explanation
Indices: 85809285--85809328 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
85809275 TTTACCATTT
85809285 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
85809308 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
85809329 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:85809321 original size:13 final size:11
Alignment explanation
Indices: 85809289--85809331 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
85809279 CCATTTTCTA
*
85809289 AATAAAATAAT
1 AATAAAATATT
85809300 AAT-AAATATCT
1 AATAAAATAT-T
85809311 AAGTAAAATATT
1 AA-TAAAATATT
85809323 AATAAAATA
1 AATAAAATA
85809332 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:85811034 original size:13 final size:13
Alignment explanation
Indices: 85811016--85811040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85811006 ATGCATGCAC
85811016 ACTCCTTTAAAAT
1 ACTCCTTTAAAAT
85811029 ACTCCTTTAAAA
1 ACTCCTTTAAAA
85811041 GTTTTAAAAC
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:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (13 bp):
ACTCCTTTAAAAT
Found at i:85812453 original size:22 final size:22
Alignment explanation
Indices: 85812406--85812470 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
85812396 ATATAGTTTG
* * **
85812406 CATAATCAACAAATAGGGTTTG
1 CATAAACAACATATAGGGTTCA
* * *
85812428 CATATACTACATGTAGGGTTCA
1 CATAAACAACATATAGGGTTCA
85812450 CATAAACAACATATAGGGTTC
1 CATAAACAACATATAGGGTTC
85812471 GTATATTTGA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (22 bp):
CATAAACAACATATAGGGTTCA
Found at i:85812513 original size:22 final size:22
Alignment explanation
Indices: 85812436--85812513 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
85812426 TGCATATACT
*
85812436 ACATGTAGGGTTCACATAAACA
1 ACATGTAGGGTTCACATAAATA
* ** **
85812458 ACATATAGGGTTCGTATATTTGA
1 ACATGTAGGGTTCACATAAAT-A
*
85812481 ACA-GATTGGGTTCACATAAATA
1 ACATG-TAGGGTTCACATAAATA
85812503 ACATGTAGGGT
1 ACATGTAGGGT
85812514 CTGCATAGTA
Statistics
Matches: 40, Mismatches: 13, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
22 24 0.60
23 16 0.40
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (22 bp):
ACATGTAGGGTTCACATAAATA
Found at i:85816164 original size:16 final size:16
Alignment explanation
Indices: 85816145--85816208 Score: 71
Period size: 15 Copynumber: 4.2 Consensus size: 16
85816135 ATAATAGAGA
85816145 AATTTAATAAATATTT
1 AATTTAATAAATATTT
* *
85816161 AATTTAATAAAAAATT
1 AATTTAATAAATATTT
*
85816177 AA-TTAATTAAT-TTT
1 AATTTAATAAATATTT
*
85816191 AGTTTAA-AAATATTT
1 AATTTAATAAATATTT
85816206 AAT
1 AAT
85816209 ATTAGTTGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
14 6 0.16
15 16 0.42
16 16 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
AATTTAATAAATATTT
Found at i:85823755 original size:18 final size:19
Alignment explanation
Indices: 85823722--85823758 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
85823712 ATTCAGTTTG
85823722 TATTTTCAGAAAAAACCAT
1 TATTTTCAGAAAAAACCAT
*
85823741 TATTTTC-GTAAAAACCAT
1 TATTTTCAGAAAAAACCAT
85823759 GTTTCTAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (19 bp):
TATTTTCAGAAAAAACCAT
Found at i:85824689 original size:17 final size:18
Alignment explanation
Indices: 85824654--85824690 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
85824644 GGCCGTATGG
*
85824654 CATGCTCGTGTGAGCCCA
1 CATGCTCATGTGAGCCCA
85824672 CATGCTCATGTG-GCCCA
1 CATGCTCATGTGAGCCCA
85824689 CA
1 CA
85824691 CGCCCAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.19, C:0.35, G:0.24, T:0.22
Consensus pattern (18 bp):
CATGCTCATGTGAGCCCA
Found at i:85838162 original size:25 final size:25
Alignment explanation
Indices: 85838128--85838184 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
85838118 AAATATGAGA
85838128 TTTGACTATGCAAACGTGACTATTC
1 TTTGACTATGCAAACGTGACTATTC
*
85838153 TTTGACTATGCAAATGTGACTATTC
1 TTTGACTATGCAAACGTGACTATTC
*
85838178 TATGACT
1 TTTGACT
85838185 TGTGTCCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (25 bp):
TTTGACTATGCAAACGTGACTATTC
Found at i:85840509 original size:55 final size:55
Alignment explanation
Indices: 85840444--85840553 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
85840434 CATTTTGAAG
85840444 AAAAATCAACTTTTACTCTTTTCTTTTACAAATTTAACCTTTGTTAGAACGTAAA
1 AAAAATCAACTTTTACTCTTTTCTTTTACAAATTTAACCTTTGTTAGAACGTAAA
85840499 AAAAATCAACTTTTACTCTTTTCTTTTACAAATTTAACCTTTGTTAGAACGTAAA
1 AAAAATCAACTTTTACTCTTTTCTTTTACAAATTTAACCTTTGTTAGAACGTAAA
85840554 TCAATTTGTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.42
Consensus pattern (55 bp):
AAAAATCAACTTTTACTCTTTTCTTTTACAAATTTAACCTTTGTTAGAACGTAAA
Found at i:85843578 original size:19 final size:19
Alignment explanation
Indices: 85843540--85843580 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
85843530 AAATCCATCC
*
85843540 ATTTTAAGAAAACCCCTTT
1 ATTTTAAGAAAACCCATTT
85843559 ATTTTAGAGAAAA-CCATTT
1 ATTTTA-AGAAAACCCATTT
85843578 ATT
1 ATT
85843581 CGTTGAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (19 bp):
ATTTTAAGAAAACCCATTT
Found at i:85844461 original size:31 final size:31
Alignment explanation
Indices: 85844419--85844479 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
85844409 TTTAGTAAAA
* *
85844419 ATGGGCTCACACACCCATGTGGCCTGCTCGT
1 ATGGGCCCACACACCCATGTGGCCTACTCGT
85844450 ATGGGCCCACACACCCATGTGGCCTACTCG
1 ATGGGCCCACACACCCATGTGGCCTACTCG
85844480 GTCCAAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.18, C:0.38, G:0.25, T:0.20
Consensus pattern (31 bp):
ATGGGCCCACACACCCATGTGGCCTACTCGT
Found at i:85865939 original size:19 final size:19
Alignment explanation
Indices: 85865915--85865953 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
85865905 AAATTAATAT
85865915 TATTATAATGATATTTTAA
1 TATTATAATGATATTTTAA
85865934 TATTATAATGATATTTTAA
1 TATTATAATGATATTTTAA
85865953 T
1 T
85865954 CTTTTTATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TATTATAATGATATTTTAA
Found at i:85868272 original size:20 final size:20
Alignment explanation
Indices: 85868247--85868287 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
85868237 TCACATGCTG
*
85868247 TGTGTTTGAAAACCGTAACT
1 TGTGTTGGAAAACCGTAACT
*
85868267 TGTGTTGGAAAACTGTAACT
1 TGTGTTGGAAAACCGTAACT
85868287 T
1 T
85868288 TGCTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (20 bp):
TGTGTTGGAAAACCGTAACT
Found at i:85870061 original size:91 final size:91
Alignment explanation
Indices: 85869930--85870112 Score: 357
Period size: 91 Copynumber: 2.0 Consensus size: 91
85869920 GAAATGCCAA
*
85869930 GGTTAGGGGAAGAGAAGTAGAATTCAGCGGCAATGGGAGGAATTGAGGAAAGAAAACGGTAGAGA
1 GGTTAGGGGAAGAGAAGTAGAATTCAGCGGCAAGGGGAGGAATTGAGGAAAGAAAACGGTAGAGA
85869995 TGAGGAAAGAAATCGTCAAGAAGATG
66 TGAGGAAAGAAATCGTCAAGAAGATG
85870021 GGTTAGGGGAAGAGAAGTAGAATTCAGCGGCAAGGGGAGGAATTGAGGAAAGAAAACGGTAGAGA
1 GGTTAGGGGAAGAGAAGTAGAATTCAGCGGCAAGGGGAGGAATTGAGGAAAGAAAACGGTAGAGA
85870086 TGAGGAAAGAAATCGTCAAGAAGATG
66 TGAGGAAAGAAATCGTCAAGAAGATG
85870112 G
1 G
85870113 AGAGAAAACT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.42, C:0.07, G:0.38, T:0.14
Consensus pattern (91 bp):
GGTTAGGGGAAGAGAAGTAGAATTCAGCGGCAAGGGGAGGAATTGAGGAAAGAAAACGGTAGAGA
TGAGGAAAGAAATCGTCAAGAAGATG
Found at i:85872316 original size:17 final size:17
Alignment explanation
Indices: 85872296--85872334 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
85872286 ATTTTAGATA
*
85872296 TTTATGTATTTTTTTAT
1 TTTATGTATTTATTTAT
85872313 TTTATGTATTTATTTAT
1 TTTATGTATTTATTTAT
*
85872330 CTTAT
1 TTTAT
85872335 TTTAGTTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTATGTATTTATTTAT
Found at i:85876088 original size:14 final size:14
Alignment explanation
Indices: 85876071--85876098 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
85876061 GTCTATAATG
85876071 CCACTAAGTCAATA
1 CCACTAAGTCAATA
85876085 CCACTAAGTCAATA
1 CCACTAAGTCAATA
85876099 AATAAAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (14 bp):
CCACTAAGTCAATA
Found at i:85877979 original size:43 final size:43
Alignment explanation
Indices: 85877918--85878108 Score: 210
Period size: 43 Copynumber: 4.4 Consensus size: 43
85877908 GTTATCGAGA
85877918 TGTGATTACATGTAAGACCCTGTGTGGGACAGTGGCATTGTAT
1 TGTGATTACATGTAAGACCCTGTGTGGGACAGTGGCATTGTAT
* *
85877961 TGTGATTACATGTAAGACCCTGAGTGGGACAATGGCATTGTAT
1 TGTGATTACATGTAAGACCCTGTGTGGGACAGTGGCATTGTAT
* * * *
85878004 TGTGATTACGTGTAAGACCATGTGTGGGACA-TCGGCATCGTTAA
1 TGTGATTACATGTAAGACCCTGTGTGGGACAGT-GGCATTG-TAT
* ** **
85878048 T-CGACTT-TGTGTAAGACCCTGTGTGGGACAGTGGCA-TCAAT
1 TGTGA-TTACATGTAAGACCCTGTGTGGGACAGTGGCATTGTAT
*
85878089 ATGTGATAACATGTAAGACC
1 -TGTGATTACATGTAAGACC
85878109 ATATCTAGGA
Statistics
Matches: 123, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 3 0.02
43 113 0.92
44 6 0.05
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCCTGTGTGGGACAGTGGCATTGTAT
Found at i:85879493 original size:19 final size:19
Alignment explanation
Indices: 85879469--85879516 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
85879459 GGCACGGCCT
85879469 GAACACGGGCGTGTGAAGG
1 GAACACGGGCGTGTGAAGG
85879488 GAACACGGGCGTGTGAAGG
1 GAACACGGGCGTGTGAAGG
85879507 GAACACGGGC
1 GAACACGGGC
85879517 TGGACACACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.46, T:0.08
Consensus pattern (19 bp):
GAACACGGGCGTGTGAAGG
Found at i:85881306 original size:40 final size:40
Alignment explanation
Indices: 85881257--85881368 Score: 127
Period size: 41 Copynumber: 2.8 Consensus size: 40
85881247 AATAAGGCTT
* *
85881257 TAGCGGCGTTTTACCAAAAACGCCACTAAAAACAGAGCAA
1 TAGCGGCGTTTTACAAAAAACGCCGCTAAAAACAGAGCAA
* * * *
85881297 TAGCAGCGTTTTAGTAAAAAACGCCGCTAAAAACCGAGCAT
1 TAGCGGCGTTTTA-CAAAAAACGCCGCTAAAAACAGAGCAA
**
85881338 TAGCGGCGCTTTT-GGAAAAACGCCGCTAAAA
1 TAGCGGCG-TTTTACAAAAAACGCCGCTAAAA
85881369 GTCATATAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
40 28 0.46
41 29 0.48
42 4 0.07
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (40 bp):
TAGCGGCGTTTTACAAAAAACGCCGCTAAAAACAGAGCAA
Found at i:85881540 original size:7 final size:7
Alignment explanation
Indices: 85881525--85881578 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
85881515 TTAATTATCA
*
85881525 TTATAGT
1 TTATGGT
85881532 TTATGGT
1 TTATGGT
85881539 TTATGGT
1 TTATGGT
* *
85881546 TTAAGAT
1 TTATGGT
*
85881553 ATATGGT
1 TTATGGT
*
85881560 TTAGGGT
1 TTATGGT
*
85881567 TTAAGGT
1 TTATGGT
85881574 TTATG
1 TTATG
85881579 AGTTAACTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (7 bp):
TTATGGT
Found at i:85881557 original size:21 final size:21
Alignment explanation
Indices: 85881533--85881617 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
85881523 CATTATAGTT
*
85881533 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* *
85881554 TATGGTTTAGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
**
85881575 TATGAGTTAACTATAGTTTAAGATA
1 TATG-GTT---TAGGGTTTAAGATA
85881600 TATGGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
85881618 GTTTAGGAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 31 0.61
22 3 0.06
24 3 0.06
25 14 0.27
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.45
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:85881596 original size:46 final size:46
Alignment explanation
Indices: 85881544--85881633 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
85881534 ATGGTTTATG
*
85881544 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAACTATA
1 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTATA
85881590 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTA
1 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTA
85881634 GTATTTGAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (46 bp):
GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTATA
Found at i:85881689 original size:7 final size:7
Alignment explanation
Indices: 85881660--85881788 Score: 66
Period size: 7 Copynumber: 18.1 Consensus size: 7
85881650 GATGAATTAT
85881660 GGGTTTA
1 GGGTTTA
*
85881667 GGGATTA
1 GGGTTTA
* *
85881674 TGATTTA
1 GGGTTTA
85881681 GGGTTTA
1 GGGTTTA
*
85881688 GGGGTTA
1 GGGTTTA
85881695 GGG-TT-
1 GGGTTTA
85881700 GGAGTTTA
1 GG-GTTTA
* *
85881708 AGGTGTAA
1 GGGT-TTA
* *
85881716 AGGTTTG
1 GGGTTTA
*
85881723 GGGTTAA
1 GGGTTTA
*
85881730 GGGTTAA
1 GGGTTTA
85881737 GGGTTTA
1 GGGTTTA
*
85881744 GAGTTTA
1 GGGTTTA
*
85881751 GTGTTTA
1 GGGTTTA
*
85881758 TGGG-ATA
1 -GGGTTTA
*
85881765 GGGGTTAA
1 -GGGTTTA
85881773 GAGGTTTA
1 G-GGTTTA
85881781 GGGTTTA
1 GGGTTTA
85881788 G
1 G
85881789 ATTAATTAGT
Statistics
Matches: 92, Mismatches: 23, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 71 0.77
8 16 0.17
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (7 bp):
GGGTTTA
Found at i:85882997 original size:15 final size:15
Alignment explanation
Indices: 85882977--85883007 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
85882967 TTGAAGGTAA
85882977 CCTACTGGTTTTCTT
1 CCTACTGGTTTTCTT
85882992 CCTACTGGTTTTCTT
1 CCTACTGGTTTTCTT
85883007 C
1 C
85883008 TAATTCAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.29, G:0.13, T:0.52
Consensus pattern (15 bp):
CCTACTGGTTTTCTT
Found at i:85884233 original size:12 final size:12
Alignment explanation
Indices: 85884216--85884269 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
85884206 AGTTGCTGGA
85884216 AATTGAGATGTT
1 AATTGAGATGTT
*
85884228 AATTGAGGTGTAT
1 AATTGAGATGT-T
* *
85884241 AAAT--GTTGTT
1 AATTGAGATGTT
85884251 AATTGAGATGTT
1 AATTGAGATGTT
85884263 AATTGAG
1 AATTGAG
85884270 GTATACGCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 4 0.12
11 4 0.12
12 22 0.65
13 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (12 bp):
AATTGAGATGTT
Found at i:85884487 original size:23 final size:23
Alignment explanation
Indices: 85884461--85884884 Score: 350
Period size: 23 Copynumber: 18.4 Consensus size: 23
85884451 AAATGTTGTT
85884461 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTAAAGTGCTGCA
*
85884484 AATTGAAGTGTTTAAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
*
85884507 AATTGAACTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* * *
85884530 AATTAAAGTGTTAGAGTGCTGTA
1 AATTGAAGTGTTAAAGTGCTGCA
* * * *
85884553 AATTGGAGTGTTTAAGTACTACA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
85884576 AATTGAAGTGTT-TAGTTGCTGGA
1 AATTGAAGTGTTAAAG-TGCTGCA
* **
85884599 AATTG-AGATGTTTAAA-TGTTGTT
1 AATTGAAG-TG-TTAAAGTGCTGCA
*
85884622 AATTGAAATGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
85884645 AATTGAAGTGTTTTAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
85884668 AATTGAAGTGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* **
85884691 AATTGAAGTGTTTAAA-TGTTGTT
1 AATTGAAGTG-TTAAAGTGCTGCA
*
85884714 AATTGAAATGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
85884737 AATTGAAGTGTTTGAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
*
85884760 AATTGAAGTGCTTAAA-TGTTGCA
1 AATTGAAGTG-TTAAAGTGCTGCA
** **
85884783 AATTGAAGTGCTATAAA-TATTGTT
1 AATTGAAGTG-T-TAAAGTGCTGCA
*
85884807 AATTGAAATGTTAAAGTGCTGCA
1 AATTGAAGTGTTAAAGTGCTGCA
* *
85884830 AATTGAAGTGTTTTAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
* *
85884853 AATTGAAGTGTTTGAA-TGCTGTA
1 AATTGAAGTG-TTAAAGTGCTGCA
85884876 AATTGAAGT
1 AATTGAAGT
85884885 TGTGGATTAT
Statistics
Matches: 326, Mismatches: 58, Indels: 34
0.78 0.14 0.08
Matches are distributed among these distances:
22 27 0.08
23 254 0.78
24 44 0.13
25 1 0.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (23 bp):
AATTGAAGTGTTAAAGTGCTGCA
Found at i:85884519 original size:46 final size:45
Alignment explanation
Indices: 85884471--85884884 Score: 409
Period size: 46 Copynumber: 9.0 Consensus size: 45
85884461 AATTGAGATG
* * *
85884471 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAACTG-
1 TTAAA-TGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGT
* * * * *
85884517 TTAAAGTGCTGCAAATTAAAGTGTTAGAGTGCTGTAAATTGGAGTGT
1 TTAAA-TGCTGTAAATTGAAGTGTTA-AATGCTGCAAATTGAAGTGT
* * ** ** *
85884564 TTAAGTACTACAAATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGT
1 TTAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAG-TGT
* * *
85884610 TTAAATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGT
*
85884656 TTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGT
* * *
85884702 TTAAATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGT
* *
85884748 TTGAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGCT
1 TTAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTG-T
* ** * *
85884795 ATAAATATTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGT
1 TTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGT
* * *
85884841 TTTAATGCTGTAAATTGAAGTGTTTGAATGCTGTAAATTGAAGT
1 TTAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGT
85884885 TGTGGATTAT
Statistics
Matches: 309, Mismatches: 49, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
45 8 0.03
46 250 0.81
47 51 0.17
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (45 bp):
TTAAATGCTGTAAATTGAAGTGTTAAATGCTGCAAATTGAAGTGT
Found at i:85884634 original size:92 final size:92
Alignment explanation
Indices: 85884477--85884884 Score: 529
Period size: 92 Copynumber: 4.4 Consensus size: 92
85884467 GATGTTAAAG
* * * * **
85884477 TGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAACTG-TTAAAGTGCTGCAAATT-AAAGTG
1 TGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAA-TGTTGTTAATTGAAA-TG
* * *
85884540 TTAGAGTGCTGTAAATTGGAGTG-TTTAA
64 TTAAAGTGCTGCAAATTGAAGTGTTTTAA
* ** ** *
85884568 GTACTACAAATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGTTTAAATGTTGTTAATTGAAATG
1 -TGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAG-TGTTTAAATGTTGTTAATTGAAATG
85884632 TTAAAGTGCTGCAAATTGAAGTGTTTTAA
64 TTAAAGTGCTGCAAATTGAAGTGTTTTAA
85884661 TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGT
1 TGCTGTAAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGT
*
85884725 TAAAGTGCTGCAAATTGAAGTGTTTGAA
65 TAAAGTGCTGCAAATTGAAGTGTTTTAA
* * * *
85884753 TGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGCTATAAATATTGTTAATTGAAATGT
1 TGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTG-TTTAAATGTTGTTAATTGAAATGT
85884818 TAAAGTGCTGCAAATTGAAGTGTTTTAA
65 TAAAGTGCTGCAAATTGAAGTGTTTTAA
* *
85884846 TGCTGTAAATTGAAGTGTTTGAATGCTGTAAATTGAAGT
1 TGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGT
85884885 TGTGGATTAT
Statistics
Matches: 281, Mismatches: 27, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
91 4 0.01
92 173 0.62
93 104 0.37
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (92 bp):
TGCTGTAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGTT
AAAGTGCTGCAAATTGAAGTGTTTTAA
Found at i:85886791 original size:19 final size:19
Alignment explanation
Indices: 85886768--85886814 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
85886758 ATTTAATCTA
*
85886768 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
85886786 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
85886806 ATTTTTATT
1 ATTTTTATT
85886815 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:85887096 original size:43 final size:43
Alignment explanation
Indices: 85886960--85887099 Score: 226
Period size: 43 Copynumber: 3.3 Consensus size: 43
85886950 TTTCATAACT
85886960 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGACC
** *
85887003 TTTAGCTACGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGACA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGACC
* * *
85887046 TTTAGCGGCGTTTGTGGTAAAAGCACCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGACC
85887089 TTTAGCGGCGT
1 TTTAGCGGCGT
85887100 CATCTATAGA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGACC
Found at i:85887380 original size:18 final size:18
Alignment explanation
Indices: 85887353--85887391 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
85887343 GAATAAAATT
*
85887353 ATTAAAATTATGAGTTTA
1 ATTAAAATTATGAATTTA
* *
85887371 ATTAATATTATTAATTTA
1 ATTAAAATTATGAATTTA
85887389 ATT
1 ATT
85887392 TATTTATTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
ATTAAAATTATGAATTTA
Found at i:85889610 original size:73 final size:73
Alignment explanation
Indices: 85889529--85889681 Score: 279
Period size: 73 Copynumber: 2.1 Consensus size: 73
85889519 TGTAATTGTT
*
85889529 CTTAAAGCATTTGATTTTATATAACAAATCAAATTAGATTGTTGACTCAAACTCGTATATTATAT
1 CTTAAAGCATTTGATTTTATATAACAAATCAAATTAGATTGTTGACTCAAACTCATATATTATAT
*
85889594 TTGTTTTC
66 TTGCTTTC
85889602 CTTAAAGCATTTGATTTTATATAACAAATCAAATTAGATTGTTGACTCAAACTCATATATTATAT
1 CTTAAAGCATTTGATTTTATATAACAAATCAAATTAGATTGTTGACTCAAACTCATATATTATAT
85889667 TTGCTTTC
66 TTGCTTTC
85889675 CTGTAAA
1 CT-TAAA
85889682 AAAAAAAAAC
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
73 73 0.95
74 4 0.05
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.42
Consensus pattern (73 bp):
CTTAAAGCATTTGATTTTATATAACAAATCAAATTAGATTGTTGACTCAAACTCATATATTATAT
TTGCTTTC
Found at i:85890981 original size:11 final size:10
Alignment explanation
Indices: 85890965--85890990 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
85890955 GTTAAGATTG
85890965 TTTTTTTTTC
1 TTTTTTTTTC
85890975 TTTTTTTTTC
1 TTTTTTTTTC
85890985 TTTTTT
1 TTTTTT
85890991 GATAGAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:85894262 original size:39 final size:39
Alignment explanation
Indices: 85894208--85894440 Score: 276
Period size: 39 Copynumber: 6.0 Consensus size: 39
85894198 TAGTGATGTT
*
85894208 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
85894247 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
85894286 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
85894325 TAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * * * *
85894364 TGTCCGGGC-TAAAGTCTCGCAGGCT-TCGAGCTGGTATTA
1 TATCCGGACTTAAGGTC-CGCAGGCTAT-GTGCTGGAATTA
** **
85894403 TA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAATT
1 TATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGG-AATT
85894441 GGTTTCAAGT
Statistics
Matches: 172, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 17 0.10
39 154 0.90
40 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:85898928 original size:636 final size:636
Alignment explanation
Indices: 85897716--85898992 Score: 2491
Period size: 636 Copynumber: 2.0 Consensus size: 636
85897706 GCCTAAAGCT
*
85897716 GCTTTCAGAACTGGATACGGTCACTACGAGTTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCC
1 GCTTTCAGAACTAGATACGGTCACTACGAGTTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCC
85897781 TGCGGTATTTATGGACTTGATGAATCGAATCTTTAGACAGTATTTGGACCGGTTTGTAGTTGTGT
66 TGCGGTATTTATGGACTTGATGAATCGAATCTTTAGACAGTATTTGGACCGGTTTGTAGTTGTGT
*
85897846 TTATAGACAACATTTTGATCTATTCGAGAGATGAAACCGAACATGTCGAGCACCTGAGATTAGTG
131 TTATAGACAACATTTTGATCTATTCGAGAGATGAAACCGAACATGCCGAGCACCTGAGATTAGTG
85897911 TTGCAGATTTTACGGGACAAACAGTTATATGCTAAGTTCAGTAAATGTGAGTTCTGGTTGAGAGA
196 TTGCAGATTTTACGGGACAAACAGTTATATGCTAAGTTCAGTAAATGTGAGTTCTGGTTGAGAGA
85897976 AGTTAGCTTTTTGGGGCACGTGGTATCCGCATCGGGTATTCGTGTTGATCCGAGTAAAATATCAG
261 AGTTAGCTTTTTGGGGCACGTGGTATCCGCATCGGGTATTCGTGTTGATCCGAGTAAAATATCAG
85898041 CCATACTTGATTGGAAGCCTCTTAGAAATGTTACTGAAGTTCGGAGCTTTTTGGGACTTGCCGGT
326 CCATACTTGATTGGAAGCCTCTTAGAAATGTTACTGAAGTTCGGAGCTTTTTGGGACTTGCCGGT
85898106 TACTACAGACGGTTTGTAAAAGGTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAGAA
391 TACTACAGACGGTTTGTAAAAGGTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAGAA
*
85898171 AGATGTTAAGTTCGAATGGTCAGAAAAGTGCCAGAAACGGTTCGACCAACTGAAAACCTATTTGA
456 AGATGTTAAGTTCGAATGGTCAGAAAAGTGCCAGAAAAGGTTCGACCAACTGAAAACCTATTTGA
85898236 CTGAAGCTCTAGTGTTAGTGCAGCCTGAATCTAGTAAAGAGTTTGTCATTTACAGTGATGCATCC
521 CTGAAGCTCTAGTGTTAGTGCAGCCTGAATCTAGTAAAGAGTTTGTCATTTACAGTGATGCATCC
*
85898301 TTAAATGGGCTGGGTTGTGTATTGATGCAAGAAGGTTGAGTTGTAACTTAC
586 TTAAATGGGCTGGGTTGTGTATTGATGCAAGAAGGCTGAGTTGTAACTTAC
85898352 GCTTTCAGAACTAGATACGGTCACTACGAGTTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCC
1 GCTTTCAGAACTAGATACGGTCACTACGAGTTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCC
85898417 TGCGGTATTTATGGACTTGATGAATCGAATCTTTAGACAGTATTTGGACCGGTTTGTAGTTGTGT
66 TGCGGTATTTATGGACTTGATGAATCGAATCTTTAGACAGTATTTGGACCGGTTTGTAGTTGTGT
*
85898482 TTATAGACGACATTTTGATCTATTCGAGAGATGAAACCGAACATGCCGAGCACCTGAGATTAGTG
131 TTATAGACAACATTTTGATCTATTCGAGAGATGAAACCGAACATGCCGAGCACCTGAGATTAGTG
*
85898547 TTGCAGATTTTACGGGACAAGCAGTTATATGCTAAGTTCAGTAAATGTGAGTTCTGGTTGAGAGA
196 TTGCAGATTTTACGGGACAAACAGTTATATGCTAAGTTCAGTAAATGTGAGTTCTGGTTGAGAGA
85898612 AGTTAGCTTTTTGGGGCACGTGGTATCCGCATCGGGTATTCGTGTTGATCCGAGTAAAATATCAG
261 AGTTAGCTTTTTGGGGCACGTGGTATCCGCATCGGGTATTCGTGTTGATCCGAGTAAAATATCAG
*
85898677 CCATACTTGATTGGAAGCCTCTTAGAAATGTTACTGAGGTTCGGAGCTTTTTGGGACTTGCCGGT
326 CCATACTTGATTGGAAGCCTCTTAGAAATGTTACTGAAGTTCGGAGCTTTTTGGGACTTGCCGGT
85898742 TACTACAGACGGTTTGTAAAAGGTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAGAA
391 TACTACAGACGGTTTGTAAAAGGTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAGAA
85898807 AGATGTTAAGTTCGAATGGTCAGAAAAGTGCCAGAAAAGGTTCGACCAACTGAAAACCTATTTGA
456 AGATGTTAAGTTCGAATGGTCAGAAAAGTGCCAGAAAAGGTTCGACCAACTGAAAACCTATTTGA
85898872 CTGAAGCTCTAGTGTTAGTGCAGCCTGAATCTAGTAAAGAGTTTGTCATTTACAGTGATGCATCC
521 CTGAAGCTCTAGTGTTAGTGCAGCCTGAATCTAGTAAAGAGTTTGTCATTTACAGTGATGCATCC
85898937 TTAAATGGGCTGGGTTGTGTATTGATGCAAGAAGGCTGAGTTGTAACTTAC
586 TTAAATGGGCTGGGTTGTGTATTGATGCAAGAAGGCTGAGTTGTAACTTAC
85898988 GCTTT
1 GCTTT
85898993 GAGGCAATTG
Statistics
Matches: 634, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
636 634 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (636 bp):
GCTTTCAGAACTAGATACGGTCACTACGAGTTCTTAGTGATGCCGTTTGGGCTCACTAATGCCCC
TGCGGTATTTATGGACTTGATGAATCGAATCTTTAGACAGTATTTGGACCGGTTTGTAGTTGTGT
TTATAGACAACATTTTGATCTATTCGAGAGATGAAACCGAACATGCCGAGCACCTGAGATTAGTG
TTGCAGATTTTACGGGACAAACAGTTATATGCTAAGTTCAGTAAATGTGAGTTCTGGTTGAGAGA
AGTTAGCTTTTTGGGGCACGTGGTATCCGCATCGGGTATTCGTGTTGATCCGAGTAAAATATCAG
CCATACTTGATTGGAAGCCTCTTAGAAATGTTACTGAAGTTCGGAGCTTTTTGGGACTTGCCGGT
TACTACAGACGGTTTGTAAAAGGTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAGAA
AGATGTTAAGTTCGAATGGTCAGAAAAGTGCCAGAAAAGGTTCGACCAACTGAAAACCTATTTGA
CTGAAGCTCTAGTGTTAGTGCAGCCTGAATCTAGTAAAGAGTTTGTCATTTACAGTGATGCATCC
TTAAATGGGCTGGGTTGTGTATTGATGCAAGAAGGCTGAGTTGTAACTTAC
Found at i:85901430 original size:70 final size:70
Alignment explanation
Indices: 85901348--85901487 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
85901338 TAGTTAATTA
85901348 CATAGTTTCCTACGTAACCCATGTTAAAACTTTAGTTTTGGTTGAGGATATAGCATTCGGCCATT
1 CATAGTTTCCTACGTAACCCATGTTAAAACTTTAGTTTTGGTTGAGGATATAGCATTCGGCCATT
85901413 TACAT
66 TACAT
85901418 CATAGTTTCCTACGTAACCCATGTTAAAACTTTAGTTTTGGTTGAGGATATAGCATTCGGCCATT
1 CATAGTTTCCTACGTAACCCATGTTAAAACTTTAGTTTTGGTTGAGGATATAGCATTCGGCCATT
85901483 TACAT
66 TACAT
85901488 GAGTTTTTCT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (70 bp):
CATAGTTTCCTACGTAACCCATGTTAAAACTTTAGTTTTGGTTGAGGATATAGCATTCGGCCATT
TACAT
Found at i:85902790 original size:39 final size:39
Alignment explanation
Indices: 85902730--85902962 Score: 258
Period size: 39 Copynumber: 6.0 Consensus size: 39
85902720 CAATGATGTT
* *
85902730 TATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* *
85902769 TATCAGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
85902808 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
85902847 TAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * * * *
85902886 TGTCCGGGC-TAAAGTCCCGCAGGCT-TCGAGCTGGTATTA
1 TATCCGGACTTAAGGT-CCGCAGGCTAT-GTGCTGGAATTA
** **
85902925 TA-CCGGGTTTAAATTCCCGCAGGCT-TGTGCTGGTAATT
1 TATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGG-AATT
85902963 GGTTTCAAGT
Statistics
Matches: 170, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
38 16 0.09
39 154 0.91
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:85907493 original size:23 final size:24
Alignment explanation
Indices: 85907453--85907500 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
85907443 TTTGTTCGTT
* *
85907453 TGTTTGATTTACTATTTGTAAACA
1 TGTTTGATTTAATATTTGCAAACA
*
85907477 TGTTTG-TTTAATGTTTGCAAACA
1 TGTTTGATTTAATATTTGCAAACA
85907500 T
1 T
85907501 ATAAACGAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (24 bp):
TGTTTGATTTAATATTTGCAAACA
Found at i:85912780 original size:20 final size:20
Alignment explanation
Indices: 85912734--85912785 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
85912724 TCTAACACCA
85912734 ATGTATCGATACATAAAATC
1 ATGTATCGATACATAAAATC
* * *
85912754 ATATATCGATACATCAAGTC
1 ATGTATCGATACATAAAATC
*
85912774 GTGTATCGATAC
1 ATGTATCGATAC
85912786 TTGAAGCAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATAAAATC
Found at i:85913842 original size:18 final size:18
Alignment explanation
Indices: 85913798--85913842 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
85913788 ATATGCACAG
*
85913798 TCAGATACAGATACAAAT
1 TCAGATTCAGATACAAAT
* *
85913816 TCAGTTTCAGATTCAAAT
1 TCAGATTCAGATACAAAT
85913834 TCAGATTCA
1 TCAGATTCA
85913843 TATATGCAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (18 bp):
TCAGATTCAGATACAAAT
Found at i:85917159 original size:19 final size:19
Alignment explanation
Indices: 85917112--85917161 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
85917102 AATAATTAAT
* *
85917112 AAATATATAAT-ATATGTGA
1 AAATA-ATAATAATATATAA
85917131 AAAT-ATAATAATATATAA
1 AAATAATAATAATATATAA
85917149 AAATAATAATAAT
1 AAATAATAATAAT
85917162 TTGAGGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.19
18 10 0.37
19 12 0.44
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
AAATAATAATAATATATAA
Found at i:85924268 original size:50 final size:49
Alignment explanation
Indices: 85924125--85924370 Score: 196
Period size: 50 Copynumber: 5.0 Consensus size: 49
85924115 TGGTACATAT
* * * * *
85924125 CCACAAAGGATTTTTAAGAGATTAGCCAAAAAGG-TTTCCTAGATAATGTG
1 CCACAGAGGCTTTTCAA-AGATTAGCCACAAAGGCTTTCC-AGATAATGCG
* * * * *
85924175 CCACAGAGGCTTTTCAAAGATTATCTATAAATG-TTTCCCAGATAATGCA
1 CCACAGAGGCTTTTCAAAGATTAGCCACAAAGGCTTT-CCAGATAATGCG
* * * *
85924224 CCACGGAGTCTTTTCAAAAGATTAACCACAAAGGCTTTCCAGATAATACG
1 CCACAGAGGCTTTTC-AAAGATTAGCCACAAAGGCTTTCCAGATAATGCG
* * * * * *
85924274 TCATAGAGGCTTTTCAAACATTAGCCACATAGGC-TTCAAAAATAATGCG
1 CCACAGAGGCTTTTCAAAGATTAGCCACAAAGGCTTTC-CAGATAATGCG
*
85924323 TCACAGAGTG-TTTTCAAAAGATTAGCCACAAAGGC-TTCCTAGATAATG
1 CCACAGAG-GCTTTTC-AAAGATTAGCCACAAAGGCTTTCC-AGATAATG
85924371 TTGTTTTTGA
Statistics
Matches: 157, Mismatches: 32, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
48 3 0.02
49 72 0.46
50 79 0.50
51 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (49 bp):
CCACAGAGGCTTTTCAAAGATTAGCCACAAAGGCTTTCCAGATAATGCG
Found at i:85924284 original size:99 final size:100
Alignment explanation
Indices: 85924143--85924369 Score: 253
Period size: 99 Copynumber: 2.3 Consensus size: 100
85924133 GATTTTTAAG
* ** * * * * *
85924143 AGATTAGCCAAAAAGG-TTTCCTAGATAATGTGCCACAGAGGCTTTTCAAAGATTATCTATAAAT
1 AGATTAGCCACAAAGGCTTTCCTAGATAATACGCCACAGAGGCTTTTCAAACATTAGCCACAAAG
* ** * *
85924207 GTTTCCCAGATAATGCACCACGGAGTCTTTTCAAA
66 GCTTCAAAAATAATGCACCACAGAGTCTTTTCAAA
* * * *
85924242 AGATTAACCACAAAGGCTTTCC-AGATAATACGTCATAGAGGCTTTTCAAACATTAGCCACATAG
1 AGATTAGCCACAAAGGCTTTCCTAGATAATACGCCACAGAGGCTTTTCAAACATTAGCCACAAAG
** *
85924306 GCTTCAAAAATAATGCGTCACAGAGTGTTTTCAAA
66 GCTTCAAAAATAATGCACCACAGAGTCTTTTCAAA
85924341 AGATTAGCCACAAAGGC-TTCCTAGATAAT
1 AGATTAGCCACAAAGGCTTTCCTAGATAAT
85924370 GTTGTTTTTG
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
98 4 0.04
99 96 0.91
100 5 0.05
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (100 bp):
AGATTAGCCACAAAGGCTTTCCTAGATAATACGCCACAGAGGCTTTTCAAACATTAGCCACAAAG
GCTTCAAAAATAATGCACCACAGAGTCTTTTCAAA
Done.