Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 368 of 425
Found at i:113343811 original size:46 final size:44
Alignment explanation
Indices: 113343707--113343814 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
113343697 TGTCTTTGAC
** * * *
113343707 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
113343751 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
113343797 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
113343815 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:113351181 original size:46 final size:44
Alignment explanation
Indices: 113351077--113351184 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
113351067 TGTCTTTGAC
** * * *
113351077 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
113351121 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
113351167 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
113351185 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:113353197 original size:13 final size:13
Alignment explanation
Indices: 113353189--113353222 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
113353179 ATTAATGTAT
113353189 TATAATAATATAA
1 TATAATAATATAA
113353202 TATAATATAATATAA
1 TAT-A-ATAATATAA
113353217 TATAAT
1 TATAAT
113353223 TTACTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.26
14 2 0.11
15 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATAATAATATAA
Found at i:113353203 original size:5 final size:5
Alignment explanation
Indices: 113353193--113353237 Score: 63
Period size: 5 Copynumber: 8.8 Consensus size: 5
113353183 ATGTATTATA
* *
113353193 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT TTACTT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT ATAA
113353238 GCAAATACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 32 0.91
6 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:113358136 original size:28 final size:28
Alignment explanation
Indices: 113358080--113358136 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
113358070 AATTCTTTCA
* * * *
113358080 ACGGAGAATAGTTTTTAGAGAATATTCG
1 ACGGAGAATAGATTTCAGAGAACACTCG
*
113358108 ACGGAGAATAGATTTCGGAGAACACTCG
1 ACGGAGAATAGATTTCAGAGAACACTCG
113358136 A
1 A
113358137 TAGGAGACTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (28 bp):
ACGGAGAATAGATTTCAGAGAACACTCG
Found at i:113359011 original size:46 final size:46
Alignment explanation
Indices: 113358959--113359054 Score: 174
Period size: 46 Copynumber: 2.1 Consensus size: 46
113358949 ACAAGTCAGT
113358959 ACATTTTATACAAAGCAATAATACAAAACAAGAAATAACAAATAGA
1 ACATTTTATACAAAGCAATAATACAAAACAAGAAATAACAAATAGA
* *
113359005 ACATTTTATACAAAGCAATAATACAAAGCAAGAAATAATAAATAGA
1 ACATTTTATACAAAGCAATAATACAAAACAAGAAATAACAAATAGA
113359051 ACAT
1 ACAT
113359055 CTATTTGGGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.59, C:0.12, G:0.07, T:0.21
Consensus pattern (46 bp):
ACATTTTATACAAAGCAATAATACAAAACAAGAAATAACAAATAGA
Found at i:113367721 original size:116 final size:114
Alignment explanation
Indices: 113367517--113367856 Score: 500
Period size: 116 Copynumber: 2.9 Consensus size: 114
113367507 GGCTTAGAGA
* *
113367517 CCCGCAGGCTTCGCGCTGGTAATATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATAT
* * *
113367582 ATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAAT
64 ATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATTCAGGTTAAAT
*
113367633 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAATATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
* * **
113367698 CCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGTATTATATTTGGGTTAAAT
66 CCGGG-TTAAA-TCCCGCAGGCTTAGTGCTGGTATTATATTCAGGTTAAAT
* * *
113367749 TCCGCAGGCTTCGTACTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAATATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
* * *
113367814 TCGGGTTAAATCCCGCAGGCCTAGTACTGGTATTATATTCAGG
66 CCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATTCAGG
113367857 CCTTTGAGCC
Statistics
Matches: 202, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
114 58 0.29
115 15 0.07
116 129 0.64
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.30
Consensus pattern (114 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
CCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATTATATTCAGGTTAAAT
Found at i:113367802 original size:154 final size:154
Alignment explanation
Indices: 113367517--113367851 Score: 535
Period size: 154 Copynumber: 2.2 Consensus size: 154
113367507 GGCTTAGAGA
*
113367517 CCCGCAGGCTTCGCGCTGGTAATATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATAT
*
113367582 ATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGT
66 ATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGT
*
113367647 GCTGGTAATATATCCGGGTTAAAT
131 GCTAGTAATATATCCGGGTTAAAT
* * *
113367671 CCCGTAGGCTTCGTGCTGGTAATATATCCGGGCTTAAAGACCCGCAGGCTTTGTGCTGGTATTAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATAT
** * *
113367736 ATTTGGGTTAAATTCCGCAGGCTTCGTACTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCGT
66 ATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGT
*
113367801 GCTAGTAATATATTCGGGTTAAAT
131 GCTAGTAATATATCCGGGTTAAAT
* * * *
113367825 CCCGCAGGCCTAGTACTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTAATATAT
113367852 TCAGGCCTTT
Statistics
Matches: 165, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
154 165 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (154 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAATAT
ATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATCCAGGTTAAATCCCGCAGGCTTCGT
GCTAGTAATATATCCGGGTTAAAT
Found at i:113367853 original size:38 final size:38
Alignment explanation
Indices: 113367517--113367851 Score: 481
Period size: 38 Copynumber: 8.7 Consensus size: 38
113367507 GGCTTAGAGA
* *
113367517 CCCGCAGGCTTCGCGCTGGTAATATATCCGGGCTTAAAGA
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGG-TTAAA-T
113367557 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
113367595 CCCGCAGGCTTCGTGCTGGTAATATATCCAGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
113367633 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* *
113367671 CCCGTAGGCTTCGTGCTGGTAATATATCCGGGCTTAAAGA
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGG-TTAAA-T
* * **
113367711 CCCGCAGGCTTTGTGCTGGTATTATATTTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* *
113367749 TCCGCAGGCTTCGTACTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* *
113367787 CCCGCAGGCTTCGTGCTAGTAATATATTCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* * * *
113367825 CCCGCAGGCCTAGTACTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTAATATAT
113367852 TCAGGCCTTT
Statistics
Matches: 266, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
38 193 0.73
39 15 0.06
40 58 0.22
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
Found at i:113367904 original size:45 final size:45
Alignment explanation
Indices: 113367848--113367979 Score: 148
Period size: 45 Copynumber: 3.0 Consensus size: 45
113367838 TACTGGTATT
* * *
113367848 ATATTCAGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGAT-
1 ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
*
113367892 ACTATTCGGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGACATG
1 A-TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
* * * *
113367938 AT-GTCGAGCC-TTGAGCCTAGCAGGC-AAAATACCGGTGA-ATG
1 ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
113367979 A
1 A
113367980 ATAAAAGTCT
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
41 4 0.05
42 11 0.14
43 14 0.18
44 7 0.09
45 40 0.52
46 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (45 bp):
ATATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
Found at i:113378245 original size:18 final size:18
Alignment explanation
Indices: 113378224--113378263 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
113378214 TTAAAATGCA
113378224 TGCAGGCTATT-TGCATGT
1 TGCA-GCTATTGTGCATGT
*
113378242 TGCAGCTCTTGTGCATGT
1 TGCAGCTATTGTGCATGT
113378260 TGCA
1 TGCA
113378264 CTAACAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.15, C:0.20, G:0.28, T:0.38
Consensus pattern (18 bp):
TGCAGCTATTGTGCATGT
Found at i:113381073 original size:28 final size:28
Alignment explanation
Indices: 113381041--113381118 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
113381031 TTTCTATATA
113381041 ATTTTTATAATGTTTACAAAA-TTTTAAT
1 ATTTTTATAAT-TTTACAAAATTTTTAAT
*
113381069 ATTTTTATATATTTTATAAAATTTTTAAT
1 ATTTTTATA-ATTTTACAAAATTTTTAAT
* *
113381098 TTTTTTATAA-TTTAAAAAATT
1 ATTTTTATAATTTTACAAAATT
113381119 ACATCTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
27 10 0.22
28 18 0.40
29 17 0.38
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (28 bp):
ATTTTTATAATTTTACAAAATTTTTAAT
Found at i:113381635 original size:14 final size:15
Alignment explanation
Indices: 113381618--113381658 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
113381608 TAAGACCAAA
113381618 AAAAATTAAATTT-T
1 AAAAATTAAATTTAT
*
113381632 AAAAATTAGATTTGAT
1 AAAAATTAAATTT-AT
113381648 AAAAA-TAAATT
1 AAAAATTAAATT
113381659 ACGGTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.52
15 5 0.22
16 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (15 bp):
AAAAATTAAATTTAT
Found at i:113385903 original size:106 final size:106
Alignment explanation
Indices: 113385713--113385925 Score: 336
Period size: 106 Copynumber: 2.0 Consensus size: 106
113385703 AAATATTGCT
*
113385713 AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTCGAGTTAATCGAGAAGAAAATCATGCAT
1 AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTCGAGTTAATCGAGAAGAAAATCATGCAC
* *
113385778 CGTAAGTTAGGGCATAATGTCTCAAATCCTTGAAAATAAGA
66 CGTAAGTTAGGGCACAATGTCTCAAATCCCTGAAAATAAGA
* * * * * *
113385819 AATTAAATCAAATTTTATGAAGAATGTCTTTGTATTTCGAGTTAATTGGGAAGAGAATCATGCAC
1 AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTCGAGTTAATCGAGAAGAAAATCATGCAC
*
113385884 CGTAAGTTAGGGCACAATGTCTTAAATCCCTGAAAATAAGA
66 CGTAAGTTAGGGCACAATGTCTCAAATCCCTGAAAATAAGA
113385925 A
1 A
113385926 TGCTCATTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
106 97 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (106 bp):
AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTCGAGTTAATCGAGAAGAAAATCATGCAC
CGTAAGTTAGGGCACAATGTCTCAAATCCCTGAAAATAAGA
Found at i:113389687 original size:24 final size:25
Alignment explanation
Indices: 113389642--113389694 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
113389632 ATCTAGTTGT
113389642 ATAA-TAGGAAGCTCATAAGAGCC-
1 ATAATTAGGAAGCTCATAAGAGCCA
* **
113389665 ATAATTAGGAAGCTTATGCGAGCCA
1 ATAATTAGGAAGCTCATAAGAGCCA
113389690 ATAAT
1 ATAAT
113389695 GGGTAGCTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.16
24 16 0.64
25 5 0.20
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.23
Consensus pattern (25 bp):
ATAATTAGGAAGCTCATAAGAGCCA
Found at i:113389807 original size:26 final size:26
Alignment explanation
Indices: 113389768--113389842 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
113389758 ACAATATCGA
*
113389768 GAAGCTC-CAAAGAGCCATTAATTAG
1 GAAGCTCACAAAGAGCCATTAATCAG
* *
113389793 GAAGCTCACAAAGAGCCTTTAGTCAG
1 GAAGCTCACAAAGAGCCATTAATCAG
*
113389819 GAAGCTCACGAAGAGCCATGTAAT
1 GAAGCTCACAAAGAGCCAT-TAAT
113389843 GGGATGCTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.17
26 32 0.76
27 3 0.07
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCATTAATCAG
Found at i:113404724 original size:54 final size:55
Alignment explanation
Indices: 113404645--113404765 Score: 158
Period size: 55 Copynumber: 2.2 Consensus size: 55
113404635 AAAAAAATGT
*
113404645 TTTGGGGGTTTGAGAGGAAATAAAAGTTTT-AG-GGGAAAGCAAAAGGAAAAAAAA
1 TTTGGGGGTTTGAGAGGAAATAAAAGTTTTGAGAGGGAAA-CAAAAGAAAAAAAAA
* *
113404699 TTTGAGGGGTTTGA-AGGAAGTAAAAGTTTTGGGAGGGAAACAAAAGAAAAAAAAA
1 TTTG-GGGGTTTGAGAGGAAATAAAAGTTTTGAGAGGGAAACAAAAGAAAAAAAAA
* *
113404754 TGTGGAGGTTTG
1 TTTGGGGGTTTG
113404766 GGGAATGATA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
54 26 0.44
55 27 0.46
56 6 0.10
ACGTcount: A:0.43, C:0.02, G:0.33, T:0.22
Consensus pattern (55 bp):
TTTGGGGGTTTGAGAGGAAATAAAAGTTTTGAGAGGGAAACAAAAGAAAAAAAAA
Found at i:113416505 original size:15 final size:15
Alignment explanation
Indices: 113416485--113416514 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
113416475 CATTTTATTT
*
113416485 ATATTAGGATAATTA
1 ATATTAAGATAATTA
113416500 ATATTAAGATAATTA
1 ATATTAAGATAATTA
113416515 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:113416556 original size:10 final size:10
Alignment explanation
Indices: 113416539--113416570 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
113416529 TTATAGGATT
113416539 TTAT-TTTAA
1 TTATCTTTAA
113416548 TTATCTTTAA
1 TTATCTTTAA
113416558 TTATCTTTAA
1 TTATCTTTAA
113416568 TTA
1 TTA
113416571 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:113422870 original size:22 final size:20
Alignment explanation
Indices: 113422845--113422929 Score: 64
Period size: 22 Copynumber: 4.0 Consensus size: 20
113422835 CCAATCTTTA
113422845 ATTTTTAATTTTAATTTTATTT
1 ATTTTTAA-TTT-ATTTTATTT
*
113422867 ATTTATTTATTTATTATTATTT
1 ATTT-TTAATTTATT-TTATTT
* * *
113422889 CTTATTTTATTTCATTTTGTTTT
1 ATT-TTTAATTT-ATTTT-ATTT
113422912 ATTTTTAA-TTATTTTATT
1 ATTTTTAATTTATTTTATT
113422930 ATAATAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
19 2 0.04
20 5 0.10
21 5 0.10
22 28 0.54
23 12 0.23
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.73
Consensus pattern (20 bp):
ATTTTTAATTTATTTTATTT
Found at i:113422899 original size:30 final size:30
Alignment explanation
Indices: 113422847--113422929 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 30
113422837 AATCTTTAAT
* *
113422847 TTTTAATTTTAATTTTATTTATTT-ATTTAT-
1 TTTTATTTTTAATTAT-TTTATTTCATTT-TG
*
113422877 TTATTATTATTT-CTTATTTTATTTCATTTTG
1 TT-TTATT-TTTAATTATTTTATTTCATTTTG
113422908 TTTTATTTTTAATTATTTTATT
1 TTTTATTTTTAATTATTTTATT
113422930 ATAATAATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
29 3 0.07
30 25 0.57
31 13 0.30
32 3 0.07
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.73
Consensus pattern (30 bp):
TTTTATTTTTAATTATTTTATTTCATTTTG
Found at i:113425754 original size:96 final size:95
Alignment explanation
Indices: 113425571--113425756 Score: 277
Period size: 96 Copynumber: 1.9 Consensus size: 95
113425561 TAATTTCTAA
* *
113425571 GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGT
1 GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGT
* *
113425636 TCGATATGTTCTTAGGAAAAATAAAAATTAG
66 TCAATATGTTCCTA-GAAAAATAAAAATTAG
113425667 GAATGTGTTGGGCTGAGTAACCGGGGT-AGGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGG
1 GAATGTGTTGGGCTGAGTAACCGGGGTGA-GGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGG
*
113425731 TTCAATATTTATCCT-GAATAAATAAA
65 TTCAATATGT-TCCTAGAA-AAATAAA
113425757 TAAAGTTGAA
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
95 4 0.05
96 75 0.91
97 3 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (95 bp):
GAATGTGTTGGGCTGAGTAACCGGGGTGAGGTGCTTGGCTATCATCTCTCTTCGCATCAAAAGGT
TCAATATGTTCCTAGAAAAATAAAAATTAG
Found at i:113426394 original size:15 final size:15
Alignment explanation
Indices: 113426374--113426403 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
113426364 CATTTTATTT
*
113426374 ATATTAGGATAATTA
1 ATATTAAGATAATTA
113426389 ATATTAAGATAATTA
1 ATATTAAGATAATTA
113426404 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:113426431 original size:27 final size:26
Alignment explanation
Indices: 113426370--113426432 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
113426360 ACTCCATTTT
113426370 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
113426397 ATAATTATTAGGATTATTAAATTTTAGG
1 AT-TTTATTAGGATAATT-AATATTAAG
113426425 ATTTTATT
1 ATTTTATT
113426433 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:113428942 original size:23 final size:22
Alignment explanation
Indices: 113428884--113428943 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
113428874 TCAATTAAAA
113428884 TATATTAAATT-ATTTTATAAT
1 TATATTAAATTAATTTTATAAT
*
113428905 TTTATATAAATTTAATTTTATAAT
1 TATAT-TAAA-TTAATTTTATAAT
*
113428929 TGATATTATATTAAT
1 T-ATATTAAATTAAT
113428944 CAGTTTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 4 0.12
22 4 0.12
23 7 0.22
24 14 0.44
25 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TATATTAAATTAATTTTATAAT
Found at i:113437265 original size:471 final size:470
Alignment explanation
Indices: 113436379--113437291 Score: 1673
Period size: 471 Copynumber: 1.9 Consensus size: 470
113436369 ATTTAGGGTG
*
113436379 TAAATGTGGTTGTTGATGAACTTTATTACACAACTGTTGCATTTTAAGATCACTAACACAAGAAT
1 TAAATGTGGTTGTTGATGAACTTTATTACACAACTGGTGCATTTTAAGATCACTAACACAAGAAT
* *
113436444 CCAATACCCTTGTCTAAAGGTGGGACCAGTTAGACTTGCTAAGACACTGAATGAGCTGATTATCT
66 CCAATACCCTTGTCTAAAGGTGGGACCAGTTAGACTTGCTAAGACACTGAAGGAGCTGATCATCT
*
113436509 TCCTCTTGTGGCCTCCTGGATACAGCATTTGCAACCAGATTATGAGTACATTTTCTGTAAGTCTA
131 TCCTCTTATGGCCTCCTGGATACAGCATTTGCAACCAGATTATGAGTACATTTTCTGTAAGTCTA
* *
113436574 ACACAGTCATACCCGAGCATTTTTTAAACCTATTTCTACTGATAGAGAGCAATAGCTTGGTTGTC
196 ACACAATCATACCCGAGCATTTTTTAAACCTATTTCTACTGATAGAGAGCAATAGCTTGCTTGTC
*
113436639 AGATAAGAGCCTCAAACTTTGATGGTCGATTCTAATCTAAAACCATCTACCAACCAAGTAGGAGT
261 AGATAAGAGCCTCAAACTTTGATGGTCGATTCTAATCTAAAACCATCTACCAACCAAGTAAGAGT
*
113436704 GCCATTTTTTTAATGCTAACAAGAAAACGATCATCTCCTTATCATAAATAAAATGTGTCTGATGT
326 GCCATTTTTTTAATGCTAACAAGAAAACGAGCATCTCCTTATCATAAATAAAATGTGTCTGATGT
*
113436769 TTTATTCCTAAGGCATTGCTAAAGAAGGCAATTGGCTTCCCATGTTGTTGTAAATGCCATAACCA
391 TTTATTCCTAAGGCATTGATAAAGAAGGCAATTGGCTTCCCATGTTGTTGTAAATGCCATAACCA
113436834 CTGGCATCAGTGCCA
456 CTGGCATCAGTGCCA
113436849 TAAATGTGGTTGTTGATGAACTTTATTACACAACTGGTGCATTTTAAGATCACTAACACAAGAAT
1 TAAATGTGGTTGTTGATGAACTTTATTACACAACTGGTGCATTTTAAGATCACTAACACAAGAAT
*
113436914 CCAATACCCTTGTCTAAAGGTGGGACTAGTTAGACTTGCTAAGACACTGAAGGAGCTGATCATCT
66 CCAATACCCTTGTCTAAAGGTGGGACCAGTTAGACTTGCTAAGACACTGAAGGAGCTGATCATCT
*
113436979 TCCTCTTATGGCCTCCTGGATACAGCATTTGCAACCAGATTATGAGTACATTTTTCTTTAAGTCT
131 TCCTCTTATGGCCTCCTGGATACAGCATTTGCAACCAGATTATGAGTACA-TTTTCTGTAAGTCT
* *
113437044 AACACAATCATACCCGAGCATTTTTTAAACCTATTTCTACTGATAGGGAGTAATAGCTTGCTTGT
195 AACACAATCATACCCGAGCATTTTTTAAACCTATTTCTACTGATAGAGAGCAATAGCTTGCTTGT
113437109 CAGATAAGAGCCTCAAACTTTGATGGTCGATTCTAATCTAAAACCATCTACCAACCAAGTAAGAG
260 CAGATAAGAGCCTCAAACTTTGATGGTCGATTCTAATCTAAAACCATCTACCAACCAAGTAAGAG
* *
113437174 TGCCATTTTTTTAATGCTAACAAGACAATGAGCATCTCCTTATCATAAATAAAATGTGTCTGATG
325 TGCCATTTTTTTAATGCTAACAAGAAAACGAGCATCTCCTTATCATAAATAAAATGTGTCTGATG
*
113437239 TTTTATTCCTAAGGCATTGATAAAGAAGGCAATTGGCTTCTCATGTTGTTGTA
390 TTTTATTCCTAAGGCATTGATAAAGAAGGCAATTGGCTTCCCATGTTGTTGTA
113437292 GCATAACTCC
Statistics
Matches: 426, Mismatches: 16, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
470 175 0.41
471 251 0.59
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (470 bp):
TAAATGTGGTTGTTGATGAACTTTATTACACAACTGGTGCATTTTAAGATCACTAACACAAGAAT
CCAATACCCTTGTCTAAAGGTGGGACCAGTTAGACTTGCTAAGACACTGAAGGAGCTGATCATCT
TCCTCTTATGGCCTCCTGGATACAGCATTTGCAACCAGATTATGAGTACATTTTCTGTAAGTCTA
ACACAATCATACCCGAGCATTTTTTAAACCTATTTCTACTGATAGAGAGCAATAGCTTGCTTGTC
AGATAAGAGCCTCAAACTTTGATGGTCGATTCTAATCTAAAACCATCTACCAACCAAGTAAGAGT
GCCATTTTTTTAATGCTAACAAGAAAACGAGCATCTCCTTATCATAAATAAAATGTGTCTGATGT
TTTATTCCTAAGGCATTGATAAAGAAGGCAATTGGCTTCCCATGTTGTTGTAAATGCCATAACCA
CTGGCATCAGTGCCA
Found at i:113439775 original size:53 final size:53
Alignment explanation
Indices: 113439619--113439784 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
113439609 GACGAAAAAT
* **
113439619 ATGTGATAA-GTGCAC-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAATGTG-ACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
113439671 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
113439724 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
113439778 TATGTGA
1 -ATGTGA
113439785 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
52 12 0.12
53 84 0.82
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:113447279 original size:53 final size:53
Alignment explanation
Indices: 113447138--113447288 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
113447128 ATAAGTGCGC
* **
113447138 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
113447191 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
113447244 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
113447289 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:113448573 original size:23 final size:23
Alignment explanation
Indices: 113448546--113448593 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
113448536 TAAAGAAAAA
* * *
113448546 AAATAACTTGTTCGATTGAGTTC
1 AAATAACTTGCTCAAGTGAGTTC
113448569 AAATAACTTGCTCAAGTGAGTTC
1 AAATAACTTGCTCAAGTGAGTTC
113448592 AA
1 AA
113448594 GAAATAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (23 bp):
AAATAACTTGCTCAAGTGAGTTC
Found at i:113450421 original size:15 final size:15
Alignment explanation
Indices: 113450401--113450430 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
113450391 CCCACTAGAA
113450401 ATAGTCAAGGGGTTG
1 ATAGTCAAGGGGTTG
113450416 ATAGTCAAGGGGTTG
1 ATAGTCAAGGGGTTG
113450431 GTTGTGGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.40, T:0.27
Consensus pattern (15 bp):
ATAGTCAAGGGGTTG
Found at i:113454922 original size:3 final size:3
Alignment explanation
Indices: 113454914--113454951 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
113454904 AATTATAAAG
113454914 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
113454952 AACAGGGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:113456107 original size:18 final size:16
Alignment explanation
Indices: 113456084--113456118 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
113456074 AATTTAAGTT
113456084 TAATTAAATTATTTAAAA
1 TAATT-AATT-TTTAAAA
113456102 TAATTAATTTTTAAAA
1 TAATTAATTTTTAAAA
113456118 T
1 T
113456119 TATAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTAATTTTTAAAA
Found at i:113461523 original size:9 final size:9
Alignment explanation
Indices: 113461511--113461541 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
113461501 GAAGATTGAA
*
113461511 GAAGCTAAG
1 GAAGCCAAG
113461520 GAAGCCAAG
1 GAAGCCAAG
113461529 GAAGCCAAG
1 GAAGCCAAG
113461538 GAAG
1 GAAG
113461542 AGAAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.45, C:0.16, G:0.35, T:0.03
Consensus pattern (9 bp):
GAAGCCAAG
Found at i:113463240 original size:23 final size:24
Alignment explanation
Indices: 113463213--113463274 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
113463203 GTATTTAATT
113463213 AATTTTTATAAAAATTAT-TTTTA
1 AATTTTTATAAAAATTATATTTTA
* *
113463236 AATTTTAATAAATA-TATATTTTA
1 AATTTTTATAAAAATTATATTTTA
*
113463259 AAATTTTA-AAAAATTA
1 AATTTTTATAAAAATTA
113463275 ATTAATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 7 0.22
23 25 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AATTTTTATAAAAATTATATTTTA
Found at i:113463255 original size:24 final size:23
Alignment explanation
Indices: 113463213--113463272 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
113463203 GTATTTAATT
* * *
113463213 AATTTTTATAAAAATTATTTTTA
1 AATTTTAATAAATATTATTTTAA
113463236 AATTTTAATAAATATATATTTTAA
1 AATTTTAATAAATAT-TATTTTAA
*
113463260 AATTTTAAAAAAT
1 AATTTTAATAAAT
113463273 TAATTAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
AATTTTAATAAATATTATTTTAA
Found at i:113463611 original size:31 final size:26
Alignment explanation
Indices: 113463548--113463605 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
113463538 GTATAAACAG
113463548 ACTAAAAACTGATACAATCTAGGTTA
1 ACTAAAAACTGATACAATCTAGGTTA
* *
113463574 ACTAAAAACTGATATAATCTAGGCTA
1 ACTAAAAACTGATACAATCTAGGTTA
113463600 ACTAAA
1 ACTAAA
113463606 CTAAAACTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (26 bp):
ACTAAAAACTGATACAATCTAGGTTA
Found at i:113479470 original size:21 final size:22
Alignment explanation
Indices: 113479446--113479486 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
113479436 ACAAACTGTT
*
113479446 AAACTATAATAAAA-AAACATA
1 AAACTACAATAAAACAAACATA
*
113479467 AAACTGCAATAAAACAAACA
1 AAACTACAATAAAACAAACA
113479487 AGAAGCAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.68, C:0.15, G:0.02, T:0.15
Consensus pattern (22 bp):
AAACTACAATAAAACAAACATA
Found at i:113480724 original size:39 final size:39
Alignment explanation
Indices: 113480677--113480756 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
113480667 ATTCAATTTT
113480677 AAGCATATATCA-AATTACACATATAATCACATAACATTC
1 AAGCATATATCACAA-TACACATATAATCACATAACATTC
* *
113480716 AAGCATATATCACAATACTCATATAATTACATAACATTC
1 AAGCATATATCACAATACACATATAATCACATAACATTC
113480755 AA
1 AA
113480757 ACGTTTATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 36 0.95
40 2 0.05
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACATAACATTC
Found at i:113480766 original size:39 final size:39
Alignment explanation
Indices: 113480680--113480775 Score: 122
Period size: 39 Copynumber: 2.5 Consensus size: 39
113480670 CAATTTTAAG
* *
113480680 CATATATCA-AATTACACATATAATCACATAACATTCAAG
1 CATATATCACAA-TACTCATATAATCACATAACATTCAAA
*
113480719 CATATATCACAATACTCATATAATTACATAACATTCAAA
1 CATATATCACAATACTCATATAATCACATAACATTCAAA
* * *
113480758 CGTTTATCACCATACTCA
1 CATATATCACAATACTCA
113480776 AAAACATCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
39 48 0.96
40 2 0.04
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (39 bp):
CATATATCACAATACTCATATAATCACATAACATTCAAA
Found at i:113487021 original size:17 final size:17
Alignment explanation
Indices: 113486960--113487042 Score: 103
Period size: 17 Copynumber: 4.8 Consensus size: 17
113486950 TTGGTTAAAA
* *
113486960 ATTAACCGAATTAAACG
1 ATTACCCGAATTAACCG
* *
113486977 AATTACTCGAATTAACCAA
1 -ATTACCCGAATTAACC-G
*
113486996 ATTAACCGAATTAACCG
1 ATTACCCGAATTAACCG
113487013 ATTACCCGAATTAACCG
1 ATTACCCGAATTAACCG
113487030 ATTACCCGAATTA
1 ATTACCCGAATTA
113487043 CTCAAATTGA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
17 29 0.52
18 27 0.48
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (17 bp):
ATTACCCGAATTAACCG
Found at i:113487043 original size:9 final size:9
Alignment explanation
Indices: 113486959--113487042 Score: 102
Period size: 9 Copynumber: 9.6 Consensus size: 9
113486949 TTTGGTTAAA
113486959 AATTAACCG
1 AATTAACCG
*
113486968 AATTAAACG
1 AATTAACCG
113486977 AATT-ACTCG
1 AATTAAC-CG
*
113486986 AATTAACCA
1 AATTAACCG
113486995 AATTAACCG
1 AATTAACCG
113487004 AATTAACCG
1 AATTAACCG
*
113487013 -ATTACCCG
1 AATTAACCG
113487021 AATTAACCG
1 AATTAACCG
*
113487030 -ATTACCCG
1 AATTAACCG
113487038 AATTA
1 AATTA
113487043 CTCAAATTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
8 15 0.23
9 47 0.73
10 2 0.03
ACGTcount: A:0.43, C:0.23, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:113487080 original size:17 final size:17
Alignment explanation
Indices: 113487058--113487118 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
113487048 ATTGAATCAC
113487058 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
113487075 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
113487095 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
113487112 TACATAA
1 TACATAA
113487119 GTCTTGAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:113487090 original size:37 final size:37
Alignment explanation
Indices: 113487049--113487123 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
113487039 ATTACTCAAA
113487049 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
113487086 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
113487123 T
1 T
113487124 GAAATTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:113487137 original size:37 final size:37
Alignment explanation
Indices: 113487049--113487140 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
113487039 ATTACTCAAA
*
113487049 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
*
113487086 TTGAATCACTACATAATTAAAAACATTACATAAGTC-
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
113487122 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
113487141 GAAATGTAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
36 3 0.06
37 46 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGTCT
Found at i:113489582 original size:21 final size:21
Alignment explanation
Indices: 113489553--113489611 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
113489543 GCAAGAAAAA
113489553 AATTATATAATAAATTAAAATAC
1 AATT-TATAAT-AATTAAAATAC
113489576 -ATTTATAAT-ATTAAAATAC
1 AATTTATAATAATTAAAATAC
113489595 ATATTTATAAT-ATTAAA
1 A-ATTTATAATAATTAAA
113489612 CAATTTTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.29
21 21 0.62
22 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTATAATAATTAAAATAC
Found at i:113489588 original size:19 final size:20
Alignment explanation
Indices: 113489562--113489611 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
113489552 AAATTATATA
113489562 ATAA-ATTAAAATAC-ATTT
1 ATAATATTAAAATACAATTT
113489580 ATAATATTAAAATACATATTT
1 ATAATATTAAAATACA-ATTT
113489601 ATAATATTAAA
1 ATAATATTAAA
113489612 CAATTTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.14
19 10 0.34
21 15 0.52
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATATTAAAATACAATTT
Found at i:113505934 original size:21 final size:22
Alignment explanation
Indices: 113505900--113505941 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
113505890 TACCGATCAA
113505900 TCACAGAATAAATCATTCATTT
1 TCACAGAATAAATCATTCATTT
*
113505922 TCACATAA-AAATCATTCATT
1 TCACAGAATAAATCATTCATT
113505942 ACCGATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (22 bp):
TCACAGAATAAATCATTCATTT
Found at i:113505963 original size:51 final size:51
Alignment explanation
Indices: 113505887--113505986 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
113505877 GGTTACGAGG
113505887 CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCATT
1 CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCATT
113505938 CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCA
1 CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCA
113505987 ATTATATATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (51 bp):
CATTACCGATCAATCACAGAATAAATCATTCATTTTCACATAAAAATCATT
Found at i:113507546 original size:43 final size:44
Alignment explanation
Indices: 113507465--113507575 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 44
113507455 AATGTCACTG
* * *
113507465 TCCCAAACAGGGTCTCACACG-AAATCATATAAAGATGCCAATA
1 TCCCAAACATGGTCTTACACGTAATTCATATAAAGATGCCAATA
* *
113507508 TCCCAAACATGGTCTTACACGTAATTACA-ATACA-ATGCCAATG
1 TCCCAAACATGGTCTTACACGTAATT-CATATAAAGATGCCAATA
* *
113507551 TCCCAGACATGGTCTTACATGTAAT
1 TCCCAAACATGGTCTTACACGTAAT
113507576 CACATCTCGA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 50 0.85
44 7 0.12
45 2 0.03
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (44 bp):
TCCCAAACATGGTCTTACACGTAATTCATATAAAGATGCCAATA
Found at i:113509007 original size:149 final size:149
Alignment explanation
Indices: 113508816--113509119 Score: 608
Period size: 149 Copynumber: 2.0 Consensus size: 149
113508806 ATCTAATCAT
113508816 AAATTTAATCCATTTCATAGTTAATTGAATTCAATTTACACCTTAGGAAAAATTGCCATTTTGCC
1 AAATTTAATCCATTTCATAGTTAATTGAATTCAATTTACACCTTAGGAAAAATTGCCATTTTGCC
113508881 CCTAAACTTTCCATAAATTCCAATTTCGTTCCTAGGCTCGAAAAATGAAATTCATGCAATTTAAT
66 CCTAAACTTTCCATAAATTCCAATTTCGTTCCTAGGCTCGAAAAATGAAATTCATGCAATTTAAT
113508946 CCTTATTCCAAGCATAACC
131 CCTTATTCCAAGCATAACC
113508965 AAATTTAATCCATTTCATAGTTAATTGAATTCAATTTACACCTTAGGAAAAATTGCCATTTTGCC
1 AAATTTAATCCATTTCATAGTTAATTGAATTCAATTTACACCTTAGGAAAAATTGCCATTTTGCC
113509030 CCTAAACTTTCCATAAATTCCAATTTCGTTCCTAGGCTCGAAAAATGAAATTCATGCAATTTAAT
66 CCTAAACTTTCCATAAATTCCAATTTCGTTCCTAGGCTCGAAAAATGAAATTCATGCAATTTAAT
113509095 CCTTATTCCAAGCATAACC
131 CCTTATTCCAAGCATAACC
113509114 AAATTT
1 AAATTT
113509120 TACATATTAC
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 155 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (149 bp):
AAATTTAATCCATTTCATAGTTAATTGAATTCAATTTACACCTTAGGAAAAATTGCCATTTTGCC
CCTAAACTTTCCATAAATTCCAATTTCGTTCCTAGGCTCGAAAAATGAAATTCATGCAATTTAAT
CCTTATTCCAAGCATAACC
Found at i:113518508 original size:11 final size:11
Alignment explanation
Indices: 113518494--113518519 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
113518484 TGACACGAGA
113518494 AAAATAGAAGC
1 AAAATAGAAGC
113518505 AAAATAGAAGC
1 AAAATAGAAGC
113518516 AAAA
1 AAAA
113518520 AAGGGAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (11 bp):
AAAATAGAAGC
Found at i:113522449 original size:18 final size:17
Alignment explanation
Indices: 113522406--113522453 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
113522396 AAGGATGTAG
*
113522406 ATTTAAAAAATGAGTTT
1 ATTTAAAAAATAAGTTT
* *
113522423 AGATAAAAAAATAAGTTTT
1 A-TTTAAAAAATAAG-TTT
113522442 ATTTAAAAAATA
1 ATTTAAAAAATA
113522454 GATCAGGCCC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.04
18 19 0.79
19 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (17 bp):
ATTTAAAAAATAAGTTT
Found at i:113522541 original size:22 final size:22
Alignment explanation
Indices: 113522513--113522555 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
113522503 TAAAAAAAAT
*
113522513 ATGTTATTTTCTTGTTGTTTTA
1 ATGTTATTTTCTTATTGTTTTA
113522535 ATGTTATTTTCTTATTGTTTT
1 ATGTTATTTTCTTATTGTTTT
113522556 CTCCCTATTT
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:0.14, C:0.05, G:0.12, T:0.70
Consensus pattern (22 bp):
ATGTTATTTTCTTATTGTTTTA
Found at i:113522605 original size:11 final size:11
Alignment explanation
Indices: 113522561--113522608 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
113522551 GTTTTCTCCC
*
113522561 TATTTTGTTAT
1 TATTTTATTAT
*
113522572 CATTTTATTAT
1 TATTTTATTAT
* *
113522583 TATATTACTAT
1 TATTTTATTAT
*
113522594 TATTTTGTTAT
1 TATTTTATTAT
113522605 TATT
1 TATT
113522609 GTTTAGATAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:113531291 original size:19 final size:19
Alignment explanation
Indices: 113531243--113531291 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
113531233 CATTTCTATC
*
113531243 TTTATTA-TTGTAAAAAAA
1 TTTATTATTTATAAAAAAA
*
113531261 TTTAATTTTTTATAAAAAAA
1 TTT-ATTATTTATAAAAAAA
113531281 TTTATTATTTA
1 TTTATTATTTA
113531292 AAATTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 3 0.12
19 10 0.38
20 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTATTATTTATAAAAAAA
Found at i:113539013 original size:28 final size:29
Alignment explanation
Indices: 113538982--113539041 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
113538972 GATTTCGAGT
*
113538982 AAAAATGCACATT-AGGGATTAAATTGAG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
* * * *
113539010 AAAAGTGTAAATTGAGGGGTTAAATTGTG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
113539039 AAA
1 AAA
113539042 TAAATGAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.45, C:0.03, G:0.25, T:0.27
Consensus pattern (29 bp):
AAAAATGCAAATTGAGGGATTAAATTGAG
Found at i:113539518 original size:40 final size:41
Alignment explanation
Indices: 113539453--113539547 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 41
113539443 ACTATGTTTG
* *
113539453 GCACTTAGTGTGCG-TTTCGAGATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCGAATTCGAGATAGCTCCGGCTATATAAA
* ***
113539493 GCACTTAGTGTGCGAATTGGA-ATAGCTCCGGCTATATGTG
1 GCACTTAGTGTGCGAATTCGAGATAGCTCCGGCTATATAAA
*
113539533 GCACTAAGTGTGCGA
1 GCACTTAGTGTGCGA
113539548 TACTAGGATA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 43 0.91
41 4 0.09
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (41 bp):
GCACTTAGTGTGCGAATTCGAGATAGCTCCGGCTATATAAA
Found at i:113555851 original size:28 final size:28
Alignment explanation
Indices: 113555820--113555883 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
113555810 TTATTTTTTA
*
113555820 AAATTATTAAATAATA-TAAT-TTCATTTC
1 AAATTATTAAATAAGACTAATATT-A-TTC
* *
113555848 AAATAATTAATTAAGACTAATATTATTC
1 AAATTATTAAATAAGACTAATATTATTC
113555876 AAATTATT
1 AAATTATT
113555884 GAACTTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 23 0.77
29 5 0.17
30 2 0.07
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (28 bp):
AAATTATTAAATAAGACTAATATTATTC
Found at i:113561474 original size:28 final size:28
Alignment explanation
Indices: 113561443--113561509 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
113561433 AGCTTTTGGC
* *
113561443 TTTAGGGTTTAGTC-TTTAATATTTTAAG
1 TTTAGGGTTTAG-CATTTAAGATTTAAAG
* *
113561471 TTTAGGGTGTAGCATTTAAGGTTTAAAG
1 TTTAGGGTTTAGCATTTAAGATTTAAAG
113561499 TTTAGGGTTTA
1 TTTAGGGTTTA
113561510 TGTATTTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.48
Consensus pattern (28 bp):
TTTAGGGTTTAGCATTTAAGATTTAAAG
Found at i:113563849 original size:14 final size:15
Alignment explanation
Indices: 113563813--113563850 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
113563803 GGGGTCAAGA
113563813 TTTATGGTTTCATGT
1 TTTATGGTTTCATGT
*
113563828 TTT-GGGTTT-ATGT
1 TTTATGGTTTCATGT
113563841 TTTATGGTTT
1 TTTATGGTTT
113563851 GAGCTTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 7 0.35
14 10 0.50
15 3 0.15
ACGTcount: A:0.11, C:0.03, G:0.24, T:0.63
Consensus pattern (15 bp):
TTTATGGTTTCATGT
Found at i:113587154 original size:23 final size:23
Alignment explanation
Indices: 113587128--113587174 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
113587118 GTTTCGGTAG
113587128 TTGGAAGAATTGAGAAAGATTAT
1 TTGGAAGAATTGAGAAAGATTAT
113587151 TTGGAAGAATTGAGAAAGATTAT
1 TTGGAAGAATTGAGAAAGATTAT
113587174 T
1 T
113587175 CTTTCTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.32
Consensus pattern (23 bp):
TTGGAAGAATTGAGAAAGATTAT
Found at i:113589876 original size:47 final size:47
Alignment explanation
Indices: 113589822--113589915 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
113589812 TGAAGATGCC
113589822 AATACCAAAATCCCAAACTTGGATTCTTATTTGTTGCTGCAACGGAA
1 AATACCAAAATCCCAAACTTGGATTCTTATTTGTTGCTGCAACGGAA
113589869 AATACCAAAATCCCAAACTTGGATTCTTATTTGTTGCTGCAACGGAA
1 AATACCAAAATCCCAAACTTGGATTCTTATTTGTTGCTGCAACGGAA
113589916 GAGGAAACAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (47 bp):
AATACCAAAATCCCAAACTTGGATTCTTATTTGTTGCTGCAACGGAA
Found at i:113612646 original size:34 final size:34
Alignment explanation
Indices: 113612608--113612672 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
113612598 ATAAATTCCA
*
113612608 ATTTAATCTAAACAAGTTTAGTTATTTTATTAGT
1 ATTTAATCTAAACAAATTTAGTTATTTTATTAGT
* *
113612642 ATTTAATCTGAACAAATTTAGTTTTTTTATT
1 ATTTAATCTAAACAAATTTAGTTATTTTATT
113612673 TTTGTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (34 bp):
ATTTAATCTAAACAAATTTAGTTATTTTATTAGT
Found at i:113612789 original size:29 final size:29
Alignment explanation
Indices: 113612756--113612817 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
113612746 ATGAAATTCC
*
113612756 AATTTAACCTTAAAACTAAATCAAAATTT
1 AATTTAACCTTAAAACTAAATAAAAATTT
** * *
113612785 AATTTAGTCTTAAGATTAAATAAAAATTT
1 AATTTAACCTTAAAACTAAATAAAAATTT
113612814 AATT
1 AATT
113612818 AGGTTTGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (29 bp):
AATTTAACCTTAAAACTAAATAAAAATTT
Found at i:113615288 original size:22 final size:23
Alignment explanation
Indices: 113615263--113615308 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
113615253 CAACCAAACC
113615263 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
113615285 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
113615308 A
1 A
113615309 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:113615314 original size:23 final size:23
Alignment explanation
Indices: 113615270--113615314 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
113615260 ACCAATTCAA
*
113615270 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
113615293 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
113615315 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:113627042 original size:1 final size:1
Alignment explanation
Indices: 113627036--113627065 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
113627026 TGCCAACTCT
113627036 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
113627066 CAACCCGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:113630439 original size:33 final size:30
Alignment explanation
Indices: 113630377--113630439 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 30
113630367 ATTTAAATAT
**
113630377 TTTTTAAAATTTTATATATTTTATTTTTAA
1 TTTTTAAAATTTTATATAAATTATTTTTAA
113630407 TTTTTAAAATTTATATAAATAAATTATTTTTAA
1 TTTTTAAAATTT-TAT--ATAAATTATTTTTAA
113630440 AATTTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 12 0.43
31 3 0.11
33 13 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTAAAATTTTATATAAATTATTTTTAA
Found at i:113630747 original size:3 final size:3
Alignment explanation
Indices: 113630739--113630764 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
113630729 AATTTTCTAG
113630739 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
113630765 TGAAGGGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:113632604 original size:23 final size:23
Alignment explanation
Indices: 113632560--113632604 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
113632550 ATCAATTTAA
*
113632560 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
113632583 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
113632605 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:113637272 original size:48 final size:48
Alignment explanation
Indices: 113637201--113637297 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
113637191 TAGAAAGCAA
* *
113637201 TCAGTCAGTTGAAGCGAAAGCAACAACTCTGGAAGTGCTCCACTTACT
1 TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
113637249 TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
1 TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
113637297 T
1 T
113637298 TTATGTATTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.24
Consensus pattern (48 bp):
TCAGTCAGTTAAAGCGAAAGCAACAACTCTCGAAGTGCTCCACTTACT
Found at i:113638927 original size:24 final size:24
Alignment explanation
Indices: 113638899--113638948 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
113638889 GATTAAAGTT
*
113638899 TCAACGTCTTGTTTCTTCATTCTG
1 TCAACGTCTTGTTTCTTCATCCTG
*
113638923 TCAACTTCTTGTTTCTTCATCCTG
1 TCAACGTCTTGTTTCTTCATCCTG
113638947 TC
1 TC
113638949 TATTGCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.28, G:0.10, T:0.50
Consensus pattern (24 bp):
TCAACGTCTTGTTTCTTCATCCTG
Found at i:113638961 original size:24 final size:24
Alignment explanation
Indices: 113638899--113638961 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
113638889 GATTAAAGTT
* * *
113638899 TCAACGTCTTGTTTCTTCATTCTG
1 TCAACTTCTTATTTCTTCATCCTG
*
113638923 TCAACTTCTTGTTTCTTCATCCTG
1 TCAACTTCTTATTTCTTCATCCTG
*
113638947 TCTA-TTGCTTATTTC
1 TCAACTT-CTTATTTC
113638962 ATCACATCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.13, C:0.25, G:0.10, T:0.52
Consensus pattern (24 bp):
TCAACTTCTTATTTCTTCATCCTG
Found at i:113641129 original size:20 final size:21
Alignment explanation
Indices: 113641104--113641144 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
113641094 TAAATTTTTG
*
113641104 AATTTTA-ATTTTTTAAATAA
1 AATTTTAGATTTTATAAATAA
113641124 AATTTTAGGATTTTATAAATA
1 AATTTTA-GATTTTATAAATA
113641145 TAATATAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (21 bp):
AATTTTAGATTTTATAAATAA
Found at i:113641871 original size:23 final size:23
Alignment explanation
Indices: 113641844--113641890 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
113641834 ACATATGATA
*
113641844 TTTATCGTACACTTGTATTTATT
1 TTTATCATACACTTGTATTTATT
*
113641867 TTTATCATACACTTGTCTTTATT
1 TTTATCATACACTTGTATTTATT
113641890 T
1 T
113641891 CATTTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.06, T:0.57
Consensus pattern (23 bp):
TTTATCATACACTTGTATTTATT
Found at i:113644205 original size:54 final size:54
Alignment explanation
Indices: 113644123--113644232 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
113644113 ATATTGCATG
113644123 TAATTTCCATGCTACACATCCATACTTGATCTATGTCATTTGGTTGTGTTAATA
1 TAATTTCCATGCTACACATCCATACTTGATCTATGTCATTTGGTTGTGTTAATA
113644177 TAATTTCCATGCTACACATCCATACTTGATCTATGTCATTTGGTTGTGTTAATA
1 TAATTTCCATGCTACACATCCATACTTGATCTATGTCATTTGGTTGTGTTAATA
113644231 TA
1 TA
113644233 CGTGATCATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (54 bp):
TAATTTCCATGCTACACATCCATACTTGATCTATGTCATTTGGTTGTGTTAATA
Found at i:113647211 original size:15 final size:16
Alignment explanation
Indices: 113647191--113647225 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
113647181 ATTAAAGTAT
113647191 AATAAA-ATATTAAAA
1 AATAAATATATTAAAA
*
113647206 AATAAATATTTTAAAA
1 AATAAATATATTAAAA
113647222 AATA
1 AATA
113647226 TGTTCCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAAATATATTAAAA
Found at i:113649383 original size:46 final size:44
Alignment explanation
Indices: 113649279--113649386 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
113649269 TGTCTTTGAC
** * * *
113649279 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
113649323 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
113649369 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
113649387 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:113651453 original size:25 final size:25
Alignment explanation
Indices: 113651425--113651475 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
113651415 ACATTCAACG
113651425 TGTTACATTTTTGCACGACATAGTA
1 TGTTACATTTTTGCACGACATAGTA
113651450 TGTTACATTTTTGCACGACATAGTA
1 TGTTACATTTTTGCACGACATAGTA
113651475 T
1 T
113651476 AACTCATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (25 bp):
TGTTACATTTTTGCACGACATAGTA
Found at i:113660167 original size:32 final size:32
Alignment explanation
Indices: 113660126--113660189 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
113660116 AGATCTAAAC
113660126 AGATTAGAGGAAAGTTAAGATTGGTATTTAAT
1 AGATTAGAGGAAAGTTAAGATTGGTATTTAAT
113660158 AGATTAGAGGAAAGTTAAGATTGGTATTTAAT
1 AGATTAGAGGAAAGTTAAGATTGGTATTTAAT
113660190 TACCAACCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (32 bp):
AGATTAGAGGAAAGTTAAGATTGGTATTTAAT
Found at i:113668486 original size:46 final size:46
Alignment explanation
Indices: 113668419--113668645 Score: 337
Period size: 46 Copynumber: 4.9 Consensus size: 46
113668409 GTGTGCTCCA
113668419 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
113668465 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* *
113668511 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* *** *
113668557 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * * * * *
113668603 TGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
113668646 TCATGTCAAA
Statistics
Matches: 167, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 167 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:113683795 original size:22 final size:22
Alignment explanation
Indices: 113683730--113683795 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 22
113683720 TAAAAATGAT
*
113683730 AAAATTTTGATTTAATAATT-TA
1 AAAATTATGATTTAAT-ATTGTA
** * *
113683752 AAAATTATTTTTTTACTGTTGTA
1 AAAATTA-TGATTTAATATTGTA
*
113683775 AAAATTATGATTTAATTTTGT
1 AAAATTATGATTTAATATTGT
113683796 CCCCTCCTAA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
22 18 0.55
23 15 0.45
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.53
Consensus pattern (22 bp):
AAAATTATGATTTAATATTGTA
Found at i:113688346 original size:37 final size:35
Alignment explanation
Indices: 113688295--113688366 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 35
113688285 TATAGGTATA
*
113688295 ACAATTTTTCTAATTTAGTATTTAGAATTTAAATTTG
1 ACAATTTTTCTAATTTAGTACTTA-AATTT-AATTTG
*
113688332 ACAATTTTTTTAATTTAGTACTTAAATTTAATTTG
1 ACAATTTTTCTAATTTAGTACTTAAATTTAATTTG
113688367 TTACCCAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 6 0.18
36 5 0.15
37 22 0.67
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.53
Consensus pattern (35 bp):
ACAATTTTTCTAATTTAGTACTTAAATTTAATTTG
Found at i:113691321 original size:22 final size:23
Alignment explanation
Indices: 113691278--113691324 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
113691268 CAATTATGAA
*
113691278 TTTTGTTCTTGTACTTGGAAATT
1 TTTTGTTCTTGTACTTAGAAATT
* *
113691301 TTTTGTT-TTGTATTTATAAATT
1 TTTTGTTCTTGTACTTAGAAATT
113691323 TT
1 TT
113691325 AAAATTACAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.19, C:0.04, G:0.13, T:0.64
Consensus pattern (23 bp):
TTTTGTTCTTGTACTTAGAAATT
Found at i:113693404 original size:75 final size:75
Alignment explanation
Indices: 113693285--113693456 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
113693275 CATGGCAAAG
** *
113693285 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
113693344 CCATACTGAGC
65 CCATACCGAGC
113693355 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
113693420 CATACCGAGT
66 CATACCGAGC
***
113693430 TAAAAAAATGTAGGTATGGTATT-TCAA
1 T-GTGAAATGTAGGTATGGTATTATCAA
113693457 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 1 0.01
75 46 0.53
76 18 0.21
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:113693423 original size:35 final size:35
Alignment explanation
Indices: 113693288--113693454 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
113693278 GGCAAAGTGT
* **
113693288 GAAATGTAGGTATGGTATCAT-CCATACTGAGTTGT
1 GAAATGTAGGTATGGTAT-TTCCCATACTGAGTTAA
* **
113693323 GAAATGTAGGTATGGTATTAT-CCATACTGAGCTGT
1 GAAATGTAGGTATGGTATT-TCCCATACTGAGTTAA
113693358 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC----CCATACTGAGTTAA
* *
113693398 GAAATGTAGGTATGGCATTTCCCATACCGAGTTAAA
1 GAAATGTAGGTATGGTATTTCCCATACTGAGTT-AA
*
113693434 AAAATGTAGGTATGGTATTTC
1 GAAATGTAGGTATGGTATTTC
113693455 AATGAGGAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
35 64 0.55
36 21 0.18
39 2 0.02
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
GAAATGTAGGTATGGTATTTCCCATACTGAGTTAA
Found at i:113693446 original size:36 final size:35
Alignment explanation
Indices: 113693384--113693454 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
113693374 ATTATCAAAT
* *
113693384 CCATACTGAGTTAAGAAATGTAGGTATGGCATTTC
1 CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
*
113693419 CCATACCGAGTTAAAAAAATGTAGGTATGGTATTTC
1 CCATACCGAGTT-AAAAAATGTAGGTATGGCATTTC
113693455 AATGAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (35 bp):
CCATACCGAGTTAAAAAATGTAGGTATGGCATTTC
Found at i:113695034 original size:31 final size:30
Alignment explanation
Indices: 113694996--113695063 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
113694986 AATTTTTTTG
* *
113694996 TATTTTTAAAATTTTTAAAATTTTCGGATTT
1 TATTTTTAAAA-ATATAAAATTTTCGGATTT
** *
113695027 TATTTTTAAAAATATACTATTTTCGTATTT
1 TATTTTTAAAAATATAAAATTTTCGGATTT
113695057 TATTTTT
1 TATTTTT
113695064 TTATATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (30 bp):
TATTTTTAAAAATATAAAATTTTCGGATTT
Found at i:113695165 original size:152 final size:152
Alignment explanation
Indices: 113695006--113695421 Score: 717
Period size: 152 Copynumber: 2.7 Consensus size: 152
113694996 TATTTTTAAA
113695006 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
* *
113695071 ATTTTAATACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACC
66 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAATAAAAAACC
*
113695136 CTGATTTTGGCCATTTGTTTGT
131 CTGATTTTGGCCATTTCTTTGT
*
113695158 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTTGTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
* *
113695223 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAATAAATAACC
66 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAATAAAAAACC
*
113695288 CTGATTTTGGCCCTTTCTTTGT
131 CTGATTTTGGCCATTTCTTTGT
* * *
113695310 ATTTTTAATATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
1 ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
* *
113695374 ATTTTAGTACATAATGTTTTAAATGTATTATTTTAGTATTTTTTATAT
66 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATAT
113695422 AAAAAACCGA
Statistics
Matches: 250, Mismatches: 14, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
151 56 0.22
152 194 0.78
ACGTcount: A:0.30, C:0.06, G:0.07, T:0.58
Consensus pattern (152 bp):
ATTTTTAAAATTTTCGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTATTTTTTATATTAATTTAATAAAAAACC
CTGATTTTGGCCATTTCTTTGT
Found at i:113722162 original size:2 final size:2
Alignment explanation
Indices: 113722155--113722184 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
113722145 GTGGTGTGAA
113722155 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113722185 TTAGTTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113723357 original size:19 final size:17
Alignment explanation
Indices: 113723335--113723377 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
113723325 TTCTTAAAAA
*
113723335 TTAAAAAAATTATTAAATT
1 TTAAAAAAA-TA-AAAATT
113723354 TTAATAAAAATAAAAATT
1 TTAA-AAAAATAAAAATT
113723372 TTAAAA
1 TTAAAA
113723378 TTATTAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.09
18 9 0.41
19 6 0.27
20 5 0.23
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTAAAAAAATAAAAATT
Found at i:113723674 original size:28 final size:26
Alignment explanation
Indices: 113723643--113723740 Score: 83
Period size: 29 Copynumber: 3.5 Consensus size: 26
113723633 ATTTTGTATA
113723643 ATTTTCTTATGACTTTATAAAATTTTAC
1 ATTTT-TTATGA-TTTATAAAATTTTAC
* * *
113723671 ATTTTTTTAT-ATTTCTATATATTTTATA
1 A-TTTTTTATGATTTATA-AAATTTTA-C
113723699 ATTTTTTATGATTTTTATAAAATTTTAC
1 ATTTTTTATGA--TTTATAAAATTTTAC
113723727 AATTTTTTAT-ATTT
1 -ATTTTTTATGATTT
113723741 CTTTTACGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
26 8 0.14
27 16 0.28
28 8 0.14
29 20 0.35
30 5 0.09
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
ATTTTTTATGATTTATAAAATTTTAC
Found at i:113723714 original size:19 final size:19
Alignment explanation
Indices: 113723692--113723773 Score: 60
Period size: 19 Copynumber: 4.3 Consensus size: 19
113723682 TTTCTATATA
**
113723692 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTACAAT
**
113723711 TTTTATAAAATTTTACAATT
1 TTTTATAATTTTTTACAA-T
* *
113723731 TTTTATATTTCTTTTACGA-
1 TTTTATAATT-TTTTACAAT
*
113723750 TTTTAT-ATTTTTTTCTAAT
1 TTTTATAATTTTTTAC-AAT
113723769 TTTTA
1 TTTTA
113723774 ATATTTGAGT
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
17 5 0.10
18 3 0.06
19 25 0.52
20 8 0.17
21 7 0.15
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTTTACAAT
Found at i:113723733 original size:20 final size:19
Alignment explanation
Indices: 113723656--113723737 Score: 62
Period size: 19 Copynumber: 4.3 Consensus size: 19
113723646 TTCTTATGAC
113723656 TTTATAAAATTTTACATTT
1 TTTATAAAATTTTACATTT
* * *
113723675 TTT-T-ATATTTCTATATAT
1 TTTATAAAATTT-TACATTT
** *
113723693 TTTATAATTTTTTATGA-TT
1 TTTATAAAATTTTA-CATTT
113723712 TTTATAAAATTTTACAATTT
1 TTTATAAAATTTTAC-ATTT
113723732 TTTATA
1 TTTATA
113723738 TTTCTTTTAC
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
17 5 0.10
18 9 0.19
19 20 0.42
20 14 0.29
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTATAAAATTTTACATTT
Found at i:113723761 original size:56 final size:55
Alignment explanation
Indices: 113723618--113723763 Score: 193
Period size: 56 Copynumber: 2.5 Consensus size: 55
113723608 TTTCACAAAA
*
113723618 TTTATATTTCTTTACATTTTGTATAATTTTCTTATGACTTTATAAAATTTTACATTTT
1 TTTATATTTCTTTACA-TTT-TATAATTTT-TTATGACTTTATAAAATTTTACAATTT
* * *
113723676 TTTATATTTCTATATATTTTATAATTTTTTATGATTTTTATAAAATTTTACAATTT
1 TTTATATTTCTTTACATTTTATAATTTTTTATGA-CTTTATAAAATTTTACAATTT
*
113723732 TTTATATTTCTTTTACGATTTTATATTTTTTT
1 TTTATATTTC-TTTAC-ATTTTATAATTTTTT
113723764 CTAATTTTTA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
55 6 0.08
56 38 0.49
57 6 0.08
58 28 0.36
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (55 bp):
TTTATATTTCTTTACATTTTATAATTTTTTATGACTTTATAAAATTTTACAATTT
Found at i:113723762 original size:58 final size:56
Alignment explanation
Indices: 113723618--113723773 Score: 188
Period size: 58 Copynumber: 2.7 Consensus size: 56
113723608 TTTCACAAAA
* * *
113723618 TTTATATTTCTTTACATTTTGTATAATTTTCTTATGA-CTTTATAAAATTTTACATTTT
1 TTTATATTTCTTTACA-TTT-TAT-ATTTTTTTATGATTTTTATAAAATTTTACAATTT
* * *
113723676 TTTATATTTCTATATATTTTATAATTTTTTATGATTTTTATAAAATTTTACAATTT
1 TTTATATTTCTTTACATTTTATATTTTTTTATGATTTTTATAAAATTTTACAATTT
* *
113723732 TTTATATTTCTTTTACGATTTTATATTTTTTTCTAATTTTTA
1 TTTATATTTC-TTTAC-ATTTTATATTTTTTTATGATTTTTA
113723774 ATATTTGAGT
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
55 10 0.12
56 32 0.38
57 6 0.07
58 36 0.43
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (56 bp):
TTTATATTTCTTTACATTTTATATTTTTTTATGATTTTTATAAAATTTTACAATTT
Found at i:113724061 original size:86 final size:87
Alignment explanation
Indices: 113723863--113724068 Score: 271
Period size: 86 Copynumber: 2.4 Consensus size: 87
113723853 TAATAAAAGT
* *
113723863 AAGGGCTTAATTGCTTTTTTTGAAAAA-AATTG-AGGATCTTTTTAATGCATTTTGAAAGTTTAA
1 AAGGGCTTAATTGCTTTTTTTGAAAAAGATTTGAAGGATCTTTTTAATGCATTTTGAAAGTTCAA
*
113723926 GTATTCAATTAAGTGCAAAAAA
66 GTATTCAATGAAGTGCAAAAAA
* * * *
113723948 AAGGGGTTTAATTGTTTTTTTTG-AAAAGATTTGAAGGCT-TTTTTTATGCATTTTGAAAGTTCA
1 AA-GGGCTTAATTGCTTTTTTTGAAAAAGATTTGAAGGATCTTTTTAATGCATTTTGAAAGTTCA
113724011 AGTATTCAAATGAA-TGCAAAAAA
65 AGTATTC-AATGAAGTGCAAAAAA
* *
113724034 AAGGACTTAATTACTTTTTTTGAAAAAG-TTTGAAG
1 AAGGGCTTAATTGCTTTTTTTGAAAAAGATTTGAAG
113724069 ACCTTTTGCA
Statistics
Matches: 105, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
85 29 0.28
86 67 0.64
87 9 0.09
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.40
Consensus pattern (87 bp):
AAGGGCTTAATTGCTTTTTTTGAAAAAGATTTGAAGGATCTTTTTAATGCATTTTGAAAGTTCAA
GTATTCAATGAAGTGCAAAAAA
Found at i:113732178 original size:20 final size:18
Alignment explanation
Indices: 113732141--113732271 Score: 90
Period size: 20 Copynumber: 6.9 Consensus size: 18
113732131 TTCAAATATA
*
113732141 TATAATTTTTTTACATTTTT
1 TATAA-TTTTATA-ATTTTT
113732161 TATAAGTTATTATAATTTTT
1 TATAA-TT-TTATAATTTTT
* *
113732181 CATAATTTCTAT-ATATTT
1 TATAATTT-TATAATTTTT
*
113732199 TAT-ATTTTATATTTTTT
1 TATAATTTTATAATTTTT
*
113732216 TATGATTTTTATAATTTTTT
1 TAT-AATTTTATAA-TTTTT
*
113732236 TATAATTTT-CAATATTTT
1 TATAATTTTATAAT-TTTT
113732254 TAT-ATTTGTAGTAATTTT
1 TATAATTT-TA-TAATTTT
113732272 AATTGAAAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.03
17 16 0.18
18 18 0.20
19 20 0.22
20 28 0.31
21 4 0.04
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
TATAATTTTATAATTTTT
Found at i:113732185 original size:10 final size:9
Alignment explanation
Indices: 113732141--113732271 Score: 74
Period size: 9 Copynumber: 14.0 Consensus size: 9
113732131 TTCAAATATA
113732141 TATAATTTT
1 TATAATTTT
*
113732150 TTTACATTTTT
1 TATA-A-TTTT
*
113732161 TATAAGTTAT
1 TATAA-TTTT
113732171 TATAATTTT
1 TATAATTTT
*
113732180 TCATAATTTC
1 T-ATAATTTT
113732190 TAT-ATATTT
1 TATAAT-TTT
113732199 TAT-A-TTT
1 TATAATTTT
*
113732206 TATATTTTTT
1 TATA-ATTTT
*
113732216 TATGATTTT
1 TATAATTTT
113732225 TATAATTTTTT
1 TATAA--TTTT
113732236 TATAATTTT
1 TATAATTTT
*
113732245 CA-ATATTTT
1 TATA-ATTTT
*
113732254 TAT-ATTTG
1 TATAATTTT
113732262 TAGTAATTTT
1 TA-TAATTTT
113732272 AATTGAAAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
7 6 0.06
8 9 0.10
9 35 0.37
10 28 0.30
11 16 0.17
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (9 bp):
TATAATTTT
Found at i:113732225 original size:11 final size:11
Alignment explanation
Indices: 113732141--113732244 Score: 60
Period size: 11 Copynumber: 9.8 Consensus size: 11
113732131 TTCAAATATA
113732141 TATAATTTTTT
1 TATAATTTTTT
*
113732152 TA-CA-TTTTT
1 TATAATTTTTT
* *
113732161 TATAA-GTTAT
1 TATAATTTTTT
113732171 TATAA-TTTTT
1 TATAATTTTTT
* * *
113732181 CATAATTTCTA
1 TATAATTTTTT
113732192 TAT-ATTTTATAT
1 TATAATTTT-T-T
*
113732204 TTTATATTTTTT
1 TATA-ATTTTTT
*
113732216 TATGA--TTTT
1 TATAATTTTTT
113732225 TATAATTTTTT
1 TATAATTTTTT
113732236 TATAATTTT
1 TATAATTTT
113732245 CAATATTTTT
Statistics
Matches: 69, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
9 15 0.22
10 21 0.30
11 22 0.32
12 5 0.07
13 1 0.01
14 5 0.07
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (11 bp):
TATAATTTTTT
Found at i:113732235 original size:55 final size:55
Alignment explanation
Indices: 113732156--113732260 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 55
113732146 TTTTTTTACA
*
113732156 TTTTTTATAAGTTATTATAATTTTTCATAA-TTTCTATATATTTTATATTTTATAT
1 TTTTTTATAAGTTATTATAATTTTTCATAATTTTCAATAT-TTTTATATTTTATAT
* * *
113732211 TTTTTTATGA-TTTTTATAATTTTTTTATAATTTTCAATATTTTTATATTT
1 TTTTTTATAAGTTATTATAA-TTTTTCATAATTTTCAATATTTTTATATTT
113732261 GTAGTAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
54 8 0.18
55 28 0.64
56 8 0.18
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (55 bp):
TTTTTTATAAGTTATTATAATTTTTCATAATTTTCAATATTTTTATATTTTATAT
Found at i:113734596 original size:24 final size:23
Alignment explanation
Indices: 113734546--113734597 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
113734536 TTTTTTCTCA
113734546 TTTTAATTTGTATAGTTCATTATT
1 TTTTAATTTGTATAG-TCATTATT
* *
113734570 TTTTAATTTGTTTAG-CATTCATC
1 TTTTAATTTGTATAGTCATT-ATT
113734593 TTTTA
1 TTTTA
113734598 TTTTTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.16
23 7 0.28
24 14 0.56
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (23 bp):
TTTTAATTTGTATAGTCATTATT
Found at i:113742007 original size:47 final size:45
Alignment explanation
Indices: 113741902--113742113 Score: 165
Period size: 47 Copynumber: 4.4 Consensus size: 45
113741892 GATGGTTAAG
* * * * *
113741902 GATACCATGTAAGACCATGTCAAGACATGGCATTAGTAAGACAAG
1 GATACCATGTAAGACCATGTTAGGACATGGCATTGGTAAGATAAA
* *
113741947 GATACCATATAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAA
1 GATACCATGTAAGACCATGTTAGG-ACATGGCA-TTGGTAAGATAAA
* ** *
113741994 GATATCATGTAAGACCATGCCAAGG-CATGGCATTGATAAGTTCTATAAGACAA
1 GATACCATGTAAGACCATG-TTAGGACATGGCATTGGTAAG----AT---A-AA
* *
113742047 GGATACCATGTAAGACCATGTTCGGAACATGGCATTTGGTAAGATAAG
1 -GATACCATGTAAGACCATGTTAGG-ACATGGCA-TTGGTAAGATAAA
*
113742095 GATATCATGTAAGACCATG
1 GATACCATGTAAGACCATG
113742114 CCAAGGCATG
Statistics
Matches: 132, Mismatches: 20, Indels: 28
0.73 0.11 0.16
Matches are distributed among these distances:
45 27 0.20
46 15 0.11
47 45 0.34
48 3 0.02
49 3 0.02
52 3 0.02
53 4 0.03
54 18 0.14
55 7 0.05
56 7 0.05
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (45 bp):
GATACCATGTAAGACCATGTTAGGACATGGCATTGGTAAGATAAA
Found at i:113742058 original size:54 final size:54
Alignment explanation
Indices: 113741985--113742299 Score: 260
Period size: 54 Copynumber: 6.0 Consensus size: 54
113741975 TGGCATTTGG
* * *
113741985 TAAGATAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* *
113742039 TAAGACAAGGATACCATGTAAGACCATGTTC--GGAACATGGCATT--T--G----G
1 TAAGACAAGGATACCATGTAAGACCATG-CCAAGG--CATGGCATTGATAAGTTCTA
* *
113742086 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * ** * * *
113742140 TAAGGA-AAGGAAATCATGTAAGACCATGTTAAGACATTGCATTGATGAGTTACTA
1 TAA-GACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTA
* * * * *
113742195 TAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-A
1 TAAGAC-AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * * * *
113742248 TAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
113742300 AAAAAGAAAA
Statistics
Matches: 211, Mismatches: 32, Indels: 37
0.75 0.11 0.13
Matches are distributed among these distances:
46 10 0.05
47 26 0.12
48 3 0.01
50 1 0.00
51 1 0.00
52 4 0.02
53 44 0.21
54 69 0.33
55 49 0.23
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (54 bp):
TAAGACAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:113742064 original size:101 final size:101
Alignment explanation
Indices: 113741938--113742276 Score: 423
Period size: 101 Copynumber: 3.3 Consensus size: 101
113741928 ATGGCATTAG
* * *
113741938 TAAGACAAGGATACCATATAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAAGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTAGGAACATGGCATTTGGTAAGATAAGGATATCATG
113742003 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
*
113742039 TAAGACAAGGATACCATGTAAGACCATGTTCGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTAGGAACATGGCATTTGGTAAGATAAGGATATCATG
113742104 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * * ** *
113742140 TAAGGA-AAGGAAATCATGTAAGACCATGTTAAG-ACATTGCATTGATGAGTTACTATAAGGCAA
1 TAA-GACAAGGATACCATGTAAGACCATGTTAGGAACATGGCATT--TG-G-TAAGATAAGG-AT
* * *
113742203 AGGTCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-A
60 A--T--CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* *
113742248 TAAGGCAAGGATACCACGTAAGACCATGT
1 TAAGACAAGGATACCATGTAAGACCATGT
113742277 CAAGACATGG
Statistics
Matches: 209, Mismatches: 18, Indels: 15
0.86 0.07 0.06
Matches are distributed among these distances:
100 9 0.04
101 124 0.59
102 4 0.02
103 1 0.00
104 8 0.04
105 2 0.01
107 2 0.01
108 24 0.11
109 35 0.17
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (101 bp):
TAAGACAAGGATACCATGTAAGACCATGTTAGGAACATGGCATTTGGTAAGATAAGGATATCATG
TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:113763208 original size:29 final size:29
Alignment explanation
Indices: 113763181--113763234 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
113763171 ATTGATAAAG
*
113763181 AAAATA-AAATATA-TATAATAAAATTAA
1 AAAATATAAATATATTAAAATAAAATTAA
*
113763208 AATATATAAATATATTAAAATAAAATT
1 AAAATATAAATATATTAAAATAAAATT
113763235 TTGGTTGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 7 0.30
29 11 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
AAAATATAAATATATTAAAATAAAATTAA
Found at i:113763214 original size:18 final size:17
Alignment explanation
Indices: 113763181--113763229 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
113763171 ATTGATAAAG
*
113763181 AAAATAAAATATATATAA
1 AAAATTAAA-ATATATAA
113763199 TAAAATTAAAATATATAA
1 -AAAATTAAAATATATAA
*
113763217 ATATATTAAAATA
1 A-AAATTAAAATA
113763230 AAATTTTGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 1 0.04
18 18 0.67
19 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTAAAATATATAA
Found at i:113763735 original size:22 final size:21
Alignment explanation
Indices: 113763682--113763736 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
113763672 TAAATTTTTT
* *
113763682 TATTT-ATATAAAATAATAAA
1 TATTTAATATATAATAAAAAA
*
113763702 TATCTAATTATATAATAAAAATA
1 TATTTAA-TATATAATAAAAA-A
113763725 TATTTAATATAT
1 TATTTAATATAT
113763737 GTCAAAGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.14
21 1 0.04
22 16 0.57
23 7 0.25
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TATTTAATATATAATAAAAAA
Found at i:113773271 original size:14 final size:14
Alignment explanation
Indices: 113773252--113773280 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
113773242 AATTCGTCGC
113773252 TGGTTAATAGAGTT
1 TGGTTAATAGAGTT
113773266 TGGTTAATAGAGTT
1 TGGTTAATAGAGTT
113773280 T
1 T
113773281 AGTCAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (14 bp):
TGGTTAATAGAGTT
Found at i:113775222 original size:31 final size:29
Alignment explanation
Indices: 113775150--113775224 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 29
113775140 TAAATTAGTC
* *
113775150 TATAATAAAATTATATTTTAATTTTCAAAAT
1 TATAA-AAAA-TATAATTTAATTTTAAAAAT
*
113775181 GAT-AAAAATATAATTTAATTATTTAAAAAT
1 TATAAAAAATATAATTTAA-T-TTTAAAAAT
113775211 TATAAAAAATATAA
1 TATAAAAAATATAA
113775225 ACTATTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
28 9 0.24
29 5 0.14
30 11 0.30
31 12 0.32
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (29 bp):
TATAAAAAATATAATTTAATTTTAAAAAT
Found at i:113775635 original size:41 final size:40
Alignment explanation
Indices: 113775594--113775736 Score: 198
Period size: 41 Copynumber: 3.5 Consensus size: 40
113775584 TTTAAGCGTT
* *
113775594 TTTTGTTAAAACGCCGCTAAAAACAGAGCAATAGCGGCG-
1 TTTTGATAAAACGCCGCTAAAAACAGAGCATTAGCGGCGC
* * *
113775633 TTTTGGTAAAATGCCGCTAAAAACTAGAGCATTAGCGGCAC
1 TTTTGATAAAACGCCGCTAAAAAC-AGAGCATTAGCGGCGC
*
113775674 TTTTAATAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGC
1 TTTTGATAAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGC
*
113775715 TTTCGATAAAACGCCGCTAAAA
1 TTTTGATAAAACGCCGCTAAAA
113775737 GTCATATAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
39 22 0.24
40 13 0.14
41 55 0.60
42 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (40 bp):
TTTTGATAAAACGCCGCTAAAAACAGAGCATTAGCGGCGC
Found at i:113775861 original size:22 final size:21
Alignment explanation
Indices: 113775823--113775863 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
113775813 AAATCCTAAA
*
113775823 AACCCCTAAACATTAAACTAT
1 AACCCCTAAACACTAAACTAT
*
113775844 AACCCCTAAAACCCTAAACT
1 AACCCCT-AAACACTAAACT
113775864 CTAAAAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCCCTAAACACTAAACTAT
Found at i:113778691 original size:2 final size:2
Alignment explanation
Indices: 113778684--113778715 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
113778674 TGTTGCTTTT
113778684 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
113778716 ATAGATAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:113779998 original size:7 final size:8
Alignment explanation
Indices: 113779979--113780004 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
113779969 AAAAATAGTA
113779979 AAAAAATC
1 AAAAAATC
113779987 AAAAAATC
1 AAAAAATC
113779995 AAAAAATC
1 AAAAAATC
113780003 AA
1 AA
113780005 TTGAAAAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATC
Found at i:113780714 original size:18 final size:20
Alignment explanation
Indices: 113780674--113780725 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
113780664 TCTTTCAACA
*
113780674 AAAAATACAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
*
113780693 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
113780712 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
113780726 TTGTGGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 18 0.64
20 6 0.21
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:113782021 original size:42 final size:42
Alignment explanation
Indices: 113781962--113782046 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
113781952 AATATATATG
* * *
113781962 GTCTTTAGTGGCGTTTTTGGGGAAAGTGTCGATAAAGATCAT
1 GTCTTTAGTGGCATTTTTAGGGAAAGCGTCGATAAAGATCAT
* *
113782004 GTCTTTAGTGGCATTTTTAGGGAAAGCGTCGCTAAAGGTCAT
1 GTCTTTAGTGGCATTTTTAGGGAAAGCGTCGATAAAGATCAT
113782046 G
1 G
113782047 ACATTTTGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.34
Consensus pattern (42 bp):
GTCTTTAGTGGCATTTTTAGGGAAAGCGTCGATAAAGATCAT
Found at i:113783485 original size:40 final size:40
Alignment explanation
Indices: 113783425--113783588 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
113783415 CGGGATTCAA
* ** *
113783425 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
113783465 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
113783505 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * *
113783545 CCGGATATAATC-ACTAGCATAAATGCCTTCGAGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
113783585 CCGG
1 CCGG
113783589 GTATCATTCA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 99 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:113783572 original size:80 final size:80
Alignment explanation
Indices: 113783425--113783588 Score: 195
Period size: 80 Copynumber: 2.0 Consensus size: 80
113783415 CGGGATTCAA
* * ** * *
113783425 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
* *
113783490 CCTTCGGGTCTTAGC
66 CCTTCGAGACTTAGC
** * * *
113783505 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
113783569 GCCTTCGAGACTTAGC
65 GCCTTCGAGACTTAGC
113783585 CCGG
1 CCGG
113783589 GTATCATTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
80 68 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGAGACTTAGC
Found at i:113791572 original size:40 final size:40
Alignment explanation
Indices: 113791512--113791675 Score: 170
Period size: 40 Copynumber: 4.1 Consensus size: 40
113791502 CGGGATTCAA
* ** *
113791512 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
113791552 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
113791592 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * *
113791632 CCGGATATAATC-ACTAGCATAAATGCCTTCGAGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
113791672 CCGG
1 CCGG
113791676 GTATCATTCA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 99 0.95
41 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:113791659 original size:80 final size:80
Alignment explanation
Indices: 113791512--113791675 Score: 195
Period size: 80 Copynumber: 2.0 Consensus size: 80
113791502 CGGGATTCAA
* * ** * *
113791512 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTG
1 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
* *
113791577 CCTTCGGGTCTTAGC
66 CCTTCGAGACTTAGC
** * * *
113791592 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAAT
1 CCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAAT
113791656 GCCTTCGAGACTTAGC
65 GCCTTCGAGACTTAGC
113791672 CCGG
1 CCGG
113791676 GTATCATTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
80 68 0.97
81 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATG
CCTTCGAGACTTAGC
Done.