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 391 of 425
Found at i:120067528 original size:57 final size:58
Alignment explanation
Indices: 120067466--120067574 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
120067456 TCTTGTTTCC
* *
120067466 AACATATGCTCATA-AGAGCTTA-ATCAAGATTACCCGTCCGGGCTAAATCCTATCTAT
1 AACATATGCTCA-AGAGAGCTTATATCAAGATTACCAGTCCAGGCTAAATCCTATCTAT
* * *
120067523 AACATATGCTCAAGAGGGCTTATATTAGGATTACCAGTCCAGGCTAAATCCT
1 AACATATGCTCAAGAGAGCTTATATCAAGATTACCAGTCCAGGCTAAATCCT
120067575 TTCTGTAATG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 1 0.02
57 19 0.42
58 25 0.56
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (58 bp):
AACATATGCTCAAGAGAGCTTATATCAAGATTACCAGTCCAGGCTAAATCCTATCTAT
Found at i:120072001 original size:23 final size:23
Alignment explanation
Indices: 120071974--120072034 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
120071964 TTTTGGAGAG
120071974 TAAATTATA-ATTTTACTATATAT
1 TAAATTA-AGATTTTACTATATAT
120071997 TAAATTAAGATTTTACTATATAT
1 TAAATTAAGATTTTACTATATAT
*
120072020 TAACTTAAGATTTTA
1 TAAATTAAGATTTTA
120072035 TAAATTTGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 1 0.03
23 35 0.97
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (23 bp):
TAAATTAAGATTTTACTATATAT
Found at i:120073708 original size:17 final size:15
Alignment explanation
Indices: 120073689--120073727 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
120073679 TTGTTTGATA
*
120073689 AAAATAATATAATCAT
1 AAAATAATATAA-AAT
120073705 AAAATAA-ATAAAAT
1 AAAATAATATAAAAT
120073719 AAAATAATA
1 AAAATAATA
120073728 ATTGGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 9 0.43
15 5 0.24
16 7 0.33
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATAATATAAAAT
Found at i:120073719 original size:22 final size:22
Alignment explanation
Indices: 120073686--120073728 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
120073676 AGATTGTTTG
* *
120073686 ATAAAAATAATATAATCATAAA
1 ATAAAAATAATAAAATAATAAA
120073708 ATAAATAA-AATAAAATAATAA
1 ATAAA-AATAATAAAATAATAA
120073729 TTGGATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
ATAAAAATAATAAAATAATAAA
Found at i:120079485 original size:31 final size:32
Alignment explanation
Indices: 120079439--120079502 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
120079429 TTATTTGTAT
* *
120079439 TTATTTATTTCATAAAAAT-A-TTATAATATAA
1 TTATTTAATTAATAAAAATCATTTATAA-ATAA
*
120079470 TTATTTAATTAATAAATATCATTTATAAATAA
1 TTATTTAATTAATAAAAATCATTTATAAATAA
120079502 T
1 T
120079503 AAATATCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 16 0.57
32 6 0.21
33 6 0.21
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TTATTTAATTAATAAAAATCATTTATAAATAA
Found at i:120090312 original size:15 final size:15
Alignment explanation
Indices: 120090292--120090325 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
120090282 AAGTGTCTCA
120090292 ATAAATATTTAACAC
1 ATAAATATTTAACAC
120090307 ATAAATATTTAACAC
1 ATAAATATTTAACAC
120090322 ATAA
1 ATAA
120090326 TTATATCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAATATTTAACAC
Found at i:120091189 original size:2 final size:2
Alignment explanation
Indices: 120091182--120091217 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
120091172 TGAAGTACAA
*
120091182 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120091218 CACTCTGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:120093793 original size:19 final size:18
Alignment explanation
Indices: 120093769--120093814 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
120093759 TAAAATATAA
*
120093769 AAAATTATAAAAATGATTC
1 AAAATTATAAAAATG-TAC
120093788 AAAATTCA-AAAAATGTAC
1 AAAATT-ATAAAAATGTAC
120093806 -AAATTATAA
1 AAAATTATAA
120093815 TATTTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.29
18 2 0.08
19 13 0.54
20 1 0.04
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (18 bp):
AAAATTATAAAAATGTAC
Found at i:120103231 original size:28 final size:27
Alignment explanation
Indices: 120103200--120103255 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
120103190 TAATTAGATC
*
120103200 TAAATTAT-AAAATTTAAAAATAATAAAT
1 TAAATTATGAAAA-ATAAAAATAA-AAAT
*
120103228 TAAATTTTGAAAAATAAAAATAAAAAT
1 TAAATTATGAAAAATAAAAATAAAAAT
120103255 T
1 T
120103256 TTAAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 16 0.64
29 4 0.16
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (27 bp):
TAAATTATGAAAAATAAAAATAAAAAT
Found at i:120103243 original size:22 final size:21
Alignment explanation
Indices: 120103205--120103260 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
120103195 AGATCTAAAT
*
120103205 TATAAAATTTAAAAATAATAAA
1 TATAAATTTTAAAAATAA-AAA
120103227 T-TAAATTTTGAAAAATAAAAA
1 TATAAATTTT-AAAAATAAAAA
*
120103248 TAAAAATTTTAAA
1 TATAAATTTTAAA
120103261 TTTTAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TATAAATTTTAAAAATAAAAA
Found at i:120103251 original size:20 final size:20
Alignment explanation
Indices: 120103206--120103252 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
120103196 GATCTAAATT
120103206 ATAAAATTTAAAAATAATAA
1 ATAAAATTTAAAAATAATAA
*
120103226 ATTAAATTTTGAAAAATAA-AA
1 A-TAAAATTT-AAAAATAATAA
120103247 ATAAAA
1 ATAAAA
120103253 ATTTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
ATAAAATTTAAAAATAATAA
Found at i:120103679 original size:30 final size:30
Alignment explanation
Indices: 120103635--120103698 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
120103625 AATTTAAATT
* *
120103635 TTAATTCTTATATTTTTTA-ATTTTACAAAC
1 TTAACTCTTATATTTTTAATATTTTA-AAAC
* *
120103665 TTAACTCTTTTATTTTTAATATTTTAAAAT
1 TTAACTCTTATATTTTTAATATTTTAAAAC
120103695 TTAA
1 TTAA
120103699 GTTTAATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (30 bp):
TTAACTCTTATATTTTTAATATTTTAAAAC
Found at i:120106868 original size:28 final size:29
Alignment explanation
Indices: 120106828--120106887 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
120106818 ATTTAAGCTT
*
120106828 TAAAGCTT-TTTAAAAAATGAATAAAAAA
1 TAAAGCTTCTTAAAAAAATGAATAAAAAA
120106856 TAAAGCTTCTTAAAAAAATGAATAAAAAA
1 TAAAGCTTCTTAAAAAAATGAATAAAAAA
120106885 TAA
1 TAA
120106888 GATTCGTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.27
Consensus pattern (29 bp):
TAAAGCTTCTTAAAAAAATGAATAAAAAA
Found at i:120108496 original size:21 final size:20
Alignment explanation
Indices: 120108470--120108509 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
120108460 GTAAAAAATG
*
120108470 TTTATTGTATAAAAATGAAAC
1 TTTATT-TACAAAAATGAAAC
*
120108491 TTTATTTCCAAAAATGAAA
1 TTTATTTACAAAAATGAAA
120108510 ATATGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (20 bp):
TTTATTTACAAAAATGAAAC
Found at i:120108663 original size:24 final size:27
Alignment explanation
Indices: 120108604--120108664 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 27
120108594 TAAGTGGTTG
*
120108604 AATAAAACAATAAAATATTTTATTTATT
1 AATAAAA-AATAAAATATTTTATTTACT
*
120108632 AA-ATAAAAT-AAA-ATTTTA-TTACT
1 AATAAAAAATAAAATATTTTATTTACT
120108655 AATAAAAAAT
1 AATAAAAAAT
120108665 TATATTCGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 6 0.21
24 12 0.41
25 3 0.10
26 3 0.10
27 3 0.10
28 2 0.07
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (27 bp):
AATAAAAAATAAAATATTTTATTTACT
Found at i:120109368 original size:25 final size:23
Alignment explanation
Indices: 120109327--120109372 Score: 74
Period size: 25 Copynumber: 1.9 Consensus size: 23
120109317 TTAGTCCTTA
120109327 TACTTTTTATTTTAAAATTTAAT
1 TACTTTTTATTTTAAAATTTAAT
120109350 TACTTTTTAGATTTTAAAATTTA
1 TACTTTTT--ATTTTAAAATTTA
120109373 GGTCAGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (23 bp):
TACTTTTTATTTTAAAATTTAAT
Found at i:120113362 original size:59 final size:60
Alignment explanation
Indices: 120113222--120113368 Score: 149
Period size: 59 Copynumber: 2.5 Consensus size: 60
120113212 ATTCAGGCCC
* * * * ** *
120113222 CAATGTGGGAACATTTGCCAAATTCAGGGACTAGTTTGGATAAAAAAAAAGTTTAAGCTT
1 CAATGTAGAAACAATTGCCAAGTTCAGGGACTAACTTAGATAAAAAAAAAGTTTAAGCTT
* * *
120113282 CAATGTAGAAACAATTACCAAGTTCAGGGCCTAACTTAGAT-AAAAAAAGGTTTAAGC-T
1 CAATGTAGAAACAATTGCCAAGTTCAGGGACTAACTTAGATAAAAAAAAAGTTTAAGCTT
120113340 CTAATGT-GAAA-ATAGTTGCCAAGTTCAGG
1 C-AATGTAGAAACA-A-TTGCCAAGTTCAGG
120113369 TCCCAAGTAG
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
57 1 0.01
58 7 0.10
59 33 0.45
60 32 0.44
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (60 bp):
CAATGTAGAAACAATTGCCAAGTTCAGGGACTAACTTAGATAAAAAAAAAGTTTAAGCTT
Found at i:120121715 original size:15 final size:15
Alignment explanation
Indices: 120121692--120121722 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
120121682 AATGAAAGAG
*
120121692 AAAAGGAAAAAAAAA
1 AAAAAGAAAAAAAAA
120121707 AAAAAGAAAAAAAAA
1 AAAAAGAAAAAAAAA
120121722 A
1 A
120121723 GGAAGGAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAA
Found at i:120121717 original size:16 final size:16
Alignment explanation
Indices: 120121692--120121722 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
120121682 AATGAAAGAG
*
120121692 AAAAGGAAAAAAAAAA
1 AAAAGAAAAAAAAAAA
120121708 AAAAGAAAAAAAAAA
1 AAAAGAAAAAAAAAA
120121723 GGAAGGAAAG
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:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAA
Found at i:120121794 original size:7 final size:6
Alignment explanation
Indices: 120121763--120121790 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
120121753 GAGATCTTTT
120121763 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
120121791 TAATAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:120125218 original size:22 final size:22
Alignment explanation
Indices: 120125193--120125237 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
120125183 TTAAAAGGTT
* *
120125193 TAAAAAAGTTGCCAAAATTATA
1 TAAAAAAGTTACCAAAATAATA
*
120125215 TAAAGAAGTTACCAAAATAATA
1 TAAAAAAGTTACCAAAATAATA
120125237 T
1 T
120125238 CGCACGGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.27
Consensus pattern (22 bp):
TAAAAAAGTTACCAAAATAATA
Found at i:120131726 original size:24 final size:24
Alignment explanation
Indices: 120131692--120131759 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
120131682 TATATAACGG
*
120131692 GAAGCTTATAAGAGCCATAATCAA
1 GAAGCTCATAAGAGCCATAATCAA
* *
120131716 GAAGTTCATAAAGAACCAT-ATCAA
1 GAAGCTCAT-AAGAGCCATAATCAA
*
120131740 GAAGCTCACAAAGAGCCATA
1 GAAGCTCA-TAAGAGCCATA
120131760 TAATGGGAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 27 0.77
25 8 0.23
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (24 bp):
GAAGCTCATAAGAGCCATAATCAA
Found at i:120131760 original size:24 final size:24
Alignment explanation
Indices: 120131701--120131760 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
120131691 GGAAGCTTAT
* *
120131701 AAGAGCCATAATCAAGAAGTTCATA
1 AAGAGCCAT-ATCAAGAAGCTCACA
*
120131726 AAGAACCATATCAAGAAGCTCACA
1 AAGAGCCATATCAAGAAGCTCACA
120131750 AAGAGCCATAT
1 AAGAGCCATAT
120131761 AATGGGAGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.17
Consensus pattern (24 bp):
AAGAGCCATATCAAGAAGCTCACA
Found at i:120143577 original size:2 final size:2
Alignment explanation
Indices: 120143572--120143603 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
120143562 AAAAACTAGA
120143572 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120143604 TAAAAGATGT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120143630 original size:23 final size:22
Alignment explanation
Indices: 120143604--120143648 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
120143594 ATATATATAT
*
120143604 TAAAAGATGTAATATTTTTAATA
1 TAAAA-ATGCAATATTTTTAATA
* *
120143627 TAAAAATGCATTGTTTTTAATA
1 TAAAAATGCAATATTTTTAATA
120143649 AGTGAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (22 bp):
TAAAAATGCAATATTTTTAATA
Found at i:120148148 original size:2 final size:2
Alignment explanation
Indices: 120148143--120148168 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
120148133 GACTTTTTTA
120148143 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
120148169 TTAAAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120160735 original size:22 final size:22
Alignment explanation
Indices: 120160707--120160751 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
120160697 AGGGGGAGTG
120160707 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
120160729 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
120160751 T
1 T
120160752 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:120167324 original size:2 final size:2
Alignment explanation
Indices: 120167312--120167344 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
120167302 TCAAAACTCT
*
120167312 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
120167345 TTAAAAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:120176955 original size:15 final size:15
Alignment explanation
Indices: 120176935--120176973 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
120176925 TTTTCATCAC
120176935 TCAATTCAATTTGAT
1 TCAATTCAATTTGAT
120176950 TCAATTCAATTTGAT
1 TCAATTCAATTTGAT
120176965 TCAATTCAA
1 TCAATTCAA
120176974 AACACTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (15 bp):
TCAATTCAATTTGAT
Found at i:120177034 original size:5 final size:5
Alignment explanation
Indices: 120177024--120177072 Score: 73
Period size: 5 Copynumber: 9.6 Consensus size: 5
120177014 CATAATTCAT
120177024 AATTC AATTC AATTC AATTC AATTC AATT- ACATTC AATTC AATATC AAT
1 AATTC AATTC AATTC AATTC AATTC AATTC A-ATTC AATTC AAT-TC AAT
120177073 ACTCACCTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
4 1 0.02
5 34 0.83
6 6 0.15
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTC
Found at i:120178242 original size:28 final size:28
Alignment explanation
Indices: 120178210--120178265 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
120178200 TAAGAAAAAC
120178210 TTGTACTTGAAAACTTCTATTTCATAGT
1 TTGTACTTGAAAACTTCTATTTCATAGT
120178238 TTGTACTTGAAAACTTCTATTTCATAGT
1 TTGTACTTGAAAACTTCTATTTCATAGT
120178266 AAAACATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (28 bp):
TTGTACTTGAAAACTTCTATTTCATAGT
Found at i:120179048 original size:15 final size:14
Alignment explanation
Indices: 120179026--120179149 Score: 78
Period size: 15 Copynumber: 8.6 Consensus size: 14
120179016 TATTCTAATA
120179026 CTATTATTATTTAT
1 CTATTATTATTTAT
120179040 CTAATTATTATTTAT
1 CT-ATTATTATTTAT
* *
120179055 CTATTTTTATTTCT
1 CTATTATTATTTAT
120179069 ACTATTATTATATT-T
1 -CTATTATTAT-TTAT
120179084 CTATTTATTATATT-T
1 CTA-TTATTAT-TTAT
*
120179099 TTATT-TCTATTTATAT
1 CTATTAT-TA-TT-TAT
*
120179115 ACTAATATTATTT-T
1 -CTATTATTATTTAT
*
120179129 C-ATTATTATTTTT
1 CTATTATTATTTAT
*
120179142 CTAATATT
1 CTATTATT
120179150 TGTTTTTCAC
Statistics
Matches: 90, Mismatches: 8, Indels: 24
0.74 0.07 0.20
Matches are distributed among these distances:
12 9 0.10
13 4 0.04
14 26 0.29
15 40 0.44
16 5 0.06
17 5 0.06
18 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (14 bp):
CTATTATTATTTAT
Found at i:120179072 original size:44 final size:44
Alignment explanation
Indices: 120179023--120179140 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 44
120179013 TGTTATTCTA
*
120179023 ATACTATTATTATTTATCTAATTATTATTTATCTATTTTTA-TT-T
1 ATACTATTATTATTT-TCTAATTATTATTT-TCTATTTCTATTTAT
* * *
120179067 CTACTATTATTATATTTCTATTTATTATATTTTTATTTCTATTTAT
1 ATACTATTATTAT-TTTCTAATTATTAT-TTTCTATTTCTATTTAT
*
120179113 ATACTAATATTATTTTC--ATTATTATTTT
1 ATACTATTATTATTTTCTAATTATTATTTT
120179141 TCTAATATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 3 0.05
43 7 0.11
44 31 0.49
45 10 0.16
46 12 0.19
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.64
Consensus pattern (44 bp):
ATACTATTATTATTTTCTAATTATTATTTTCTATTTCTATTTAT
Found at i:120179103 original size:29 final size:30
Alignment explanation
Indices: 120178972--120179094 Score: 101
Period size: 29 Copynumber: 4.2 Consensus size: 30
120178962 TAATTTAATA
** *
120178972 TATTATTGCTATTATTTTTATATTTCTATT
1 TATTATTTATATTATTATTATATTTCTATT
* * * * *
120179002 TA-TATTTATTTTGTTATTCTAATACTA-T
1 TATTATTTATATTATTATTATATTTCTATT
* *
120179030 TATTATTTATCTAATTATTAT-TTATCTATT
1 TATTATTTATATTATTATTATATT-TCTATT
* *
120179060 T-TTATTTCTACTATTATTATATTTCTATT
1 TATTATTTATATTATTATTATATTTCTATT
120179089 TATTAT
1 TATTAT
120179095 ATTTTTATTT
Statistics
Matches: 70, Mismatches: 18, Indels: 10
0.71 0.18 0.10
Matches are distributed among these distances:
28 4 0.06
29 56 0.80
30 10 0.14
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (30 bp):
TATTATTTATATTATTATTATATTTCTATT
Found at i:120179105 original size:21 final size:19
Alignment explanation
Indices: 120179048--120179112 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 19
120179038 ATCTAATTAT
120179048 TATTTATCTATTTTTATTTC
1 TATTTAT-TATTTTTATTTC
* *
120179068 TA-CTATTA-TTATATTTC
1 TATTTATTATTTTTATTTC
120179085 TATTTATTATATTTTTATTTC
1 TATTTA-T-TATTTTTATTTC
120179106 TATTTAT
1 TATTTAT
120179113 ATACTAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 10 0.27
18 4 0.11
19 4 0.11
20 5 0.14
21 14 0.38
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.68
Consensus pattern (19 bp):
TATTTATTATTTTTATTTC
Found at i:120179127 original size:38 final size:39
Alignment explanation
Indices: 120179030--120179141 Score: 99
Period size: 38 Copynumber: 2.8 Consensus size: 39
120179020 CTAATACTAT
*
120179030 TATTATTTATCTAATTATTATTTA-TCTATTTTTATTTCTAC
1 TATTA-TTA-CTAA-TATTATTTATTATATTTTTATTTCTAC
*
120179071 TATTATTA-T-ATTTCTATTTATTATATTTTTATTTCTA-
1 TATTATTACTAATAT-TATTTATTATATTTTTATTTCTAC
120179108 T-TTATATACTAATATTATTTTCATTATTATTTTT
1 TATTAT-TACTAATATTA-TTT-ATTA-TATTTTT
120179142 CTAATATTTG
Statistics
Matches: 60, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
36 6 0.10
37 10 0.17
38 19 0.32
39 6 0.10
40 7 0.12
41 12 0.20
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (39 bp):
TATTATTACTAATATTATTTATTATATTTTTATTTCTAC
Found at i:120181158 original size:19 final size:20
Alignment explanation
Indices: 120181134--120181171 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
120181124 TAATTAGATT
120181134 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
120181153 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
120181172 TGTAATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:120181375 original size:19 final size:19
Alignment explanation
Indices: 120181342--120181395 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
120181332 TTACTTATAT
120181342 TATAAGTAA-ATAATAATAA
1 TATAA-TAATATAATAATAA
*
120181361 T-TACTAAATATAATAATAA
1 TATAAT-AATATAATAATAA
120181380 TATAATAATATAATAA
1 TATAATAATATAATAA
120181396 AAGAATAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 1 0.03
18 4 0.13
19 22 0.73
20 3 0.10
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
TATAATAATATAATAATAA
Found at i:120182315 original size:6 final size:6
Alignment explanation
Indices: 120182306--120182343 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
120182296 CCTGACTATG
* *
120182306 ACTGTT ACTGTT ATTGTT ACTGTT ATTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
120182344 CCTATGGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.13, G:0.16, T:0.53
Consensus pattern (6 bp):
ACTGTT
Found at i:120182325 original size:12 final size:12
Alignment explanation
Indices: 120182308--120182342 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
120182298 TGACTATGAC
120182308 TGTTACTGTTAT
1 TGTTACTGTTAT
120182320 TGTTACTGTTAT
1 TGTTACTGTTAT
120182332 TGTTACTGTTA
1 TGTTACTGTTA
120182343 CCCTATGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (12 bp):
TGTTACTGTTAT
Found at i:120186051 original size:44 final size:48
Alignment explanation
Indices: 120185931--120186065 Score: 163
Period size: 44 Copynumber: 2.8 Consensus size: 48
120185921 GATGGTAATT
120185931 GCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTGATGGCA
1 GCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTGAT-G-A
* * * *
120185981 GATTTGATCTGACCCTACTGCAACTTCAGAG-GTATAGGA-TT-T-AT-A
1 GCTTTAATCTG-CTCTACTGCAACTTCAGAGAG-ATAAGATTTGTGATGA
120186026 GCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATT
1 GCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATT
120186066 CGCTAATTCA
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
44 23 0.32
45 12 0.16
48 2 0.03
49 1 0.01
50 12 0.16
51 23 0.32
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (48 bp):
GCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTGATGA
Found at i:120186079 original size:44 final size:44
Alignment explanation
Indices: 120185933--120186101 Score: 162
Period size: 44 Copynumber: 3.7 Consensus size: 44
120185923 TGGTAATTGC
120185933 TTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTGATGGCAGA
1 TTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGA--T-TGAT---AGA
* * * * *
120185983 TTTGATCTGACCCTACTGCAACTTCAGAG-GTATAGGATTTATAGC
1 TTTAATCTG-CTCTACTGCAACTTCAGAGAG-ATAAGATTGATAGA
*
120186028 TTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTA-A
1 TTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATT-GATAGA
* * *
120186072 TTCAATCTGCTCCACTGCAACTCCAGAGAG
1 TTTAATCTGCTCTACTGCAACTTCAGAGAG
120186102 GCAAGATCTG
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
44 52 0.51
45 13 0.13
48 3 0.03
49 1 0.01
50 9 0.09
51 23 0.23
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
TTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTGATAGA
Found at i:120186272 original size:134 final size:134
Alignment explanation
Indices: 120186076--120186421 Score: 586
Period size: 134 Copynumber: 2.6 Consensus size: 134
120186066 CGCTAATTCA
* * *
120186076 ATCTGCTCCACTGCAACTCCAGAGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTTCTGCTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTA
* * *
120186141 AGGGGTTAAGGCTTGGTGGCTTGAATCTGTTTCACTGCAACTTCAGGAAAGTGAGATTCGTCATC
66 AGGGGTTAAGGCTTGGTGGCTTGAATCTGCTTCACTGCAACTTCAGAAAAGCGAGATTCGTCATC
120186206 TCTG
131 TCTG
120186210 ATCTGCTCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTA
* *
120186275 AGGGGTTAAGGCTTGGTGGCTTGAATCTGCTTCACTGCTACTTCAGAAAAGCGAGATTCGTCGTC
66 AGGGGTTAAGGCTTGGTGGCTTGAATCTGCTTCACTGCAACTTCAGAAAAGCGAGATTCGTCATC
120186340 TCTG
131 TCTG
* *
120186344 ATCTGCTCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAACCTATTACCCTACGGCTT-
1 ATCTGCTCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTA
120186408 AGGGAGTTAAGGCT
66 AGGG-GTTAAGGCT
120186422 CGTAAATTTA
Statistics
Matches: 201, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
133 4 0.02
134 197 0.98
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (134 bp):
ATCTGCTCCACTGCAACTTCAGGGAGGCAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTA
AGGGGTTAAGGCTTGGTGGCTTGAATCTGCTTCACTGCAACTTCAGAAAAGCGAGATTCGTCATC
TCTG
Found at i:120186442 original size:43 final size:43
Alignment explanation
Indices: 120186394--120186590 Score: 229
Period size: 43 Copynumber: 4.6 Consensus size: 43
120186384 TTTCAACCTA
* * *
120186394 TTACCCTACGGCTTAGGGAGTTAAGGCTCGTAAATTTAGCTTG
1 TTACCCTACTGCTTAGGGGGTTAAAGCTCGTAAATTTAGCTTG
120186437 TTACCCTACTGCTTAGGGGGTTAAAGCTCGTAAATTTAGCTTG
1 TTACCCTACTGCTTAGGGGGTTAAAGCTCGTAAATTTAGCTTG
* * * * * *
120186480 TTACCCTACTACTTA-GGGGTTAAAGCCCAT-CATCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAAGCTCGTAAAT-TTAGCT-TG
* * *
120186523 TTTCCCTACTGCTTAGGGGGTT-AAGATCTGTAAATTTAGCCTG
1 TTACCCTACTGCTTAGGGGGTTAAAGCTC-GTAAATTTAGCTTG
120186566 TTACCCTACTGCTTAGGGGGGTTAA
1 TTACCCTACTGCTTA-GGGGGTTAA
120186591 GCCCTTTGTC
Statistics
Matches: 128, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
41 2 0.02
42 17 0.13
43 89 0.70
44 17 0.13
45 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (43 bp):
TTACCCTACTGCTTAGGGGGTTAAAGCTCGTAAATTTAGCTTG
Found at i:120186539 original size:86 final size:86
Alignment explanation
Indices: 120186435--120186783 Score: 393
Period size: 86 Copynumber: 4.0 Consensus size: 86
120186425 AAATTTAGCT
* * * *
120186435 TGTTACCCTACTGCTTAGGGGGTTAA-AGCTCGTAAATTTAGCTTGTTACCCTACTACTTAGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCT-GTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
* *
120186499 TTAAAGCCCATCATCTTCGATC
65 TTAAAGCCCTTCGTCTTCGATC
120186521 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGG
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTA--GGG
*
120186586 GTT-AAGCCCTTTGTCTTCGATC
64 GTTAAAGCCCTTCGTCTTCGATC
* * * *
120186608 TGTTTCCCTACTGCTTAGGGAGATAAGATCTGT-AATTCAACCTGTTACCCTACTGCTTAGGGGT
1 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG-
* **
120186672 TTAAGGTTCTTCGTCTTCGATC
65 TTAAAGCCCTTCGTCTTCGATC
* * * * * *
120186694 TG-CTCCACTACTGCTTAGGGAGATAAGATCTG-CAATTCAACCTGTTACCCTACTGCTTAGGGA
1 TGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGG-
* * **
120186757 TTTAAGGTTCTTCGTCTTCGATC
64 GTTAAAGCCCTTCGTCTTCGATC
120186780 TGTT
1 TGTT
120186784 ACACCATTCT
Statistics
Matches: 236, Mismatches: 18, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
84 4 0.02
85 5 0.02
86 171 0.72
87 50 0.21
88 6 0.03
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (86 bp):
TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGT
TAAAGCCCTTCGTCTTCGATC
Found at i:120186624 original size:173 final size:172
Alignment explanation
Indices: 120186435--120186755 Score: 414
Period size: 173 Copynumber: 1.9 Consensus size: 172
120186425 AAATTTAGCT
* * * * * *
120186435 TGTTACCCTACTGCTTAGGGGGTTAA-AGCTCGTAAATTTAGCTTGTTACCCTACTACTTAGGGG
1 TGTTACCCTACTGCTTAGGGAGATAAGATCT-GT-AATTCAACCTGTTACCCTACTACTTAGGGG
* * * * *
120186499 -TTAAAGCCCATCATCTTCGATCTGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG
64 TTTAAAGCCCATCATCTTCGATCTG-CTCCACTACTGCTTAGGGAGATAAGATCTG-AAATTCAA
120186562 CCTGTTACCCTACTGCTTAGGGGGGTTAAGCCCTTTGTCTTCGATC
127 CCTGTTACCCTACTGCTTAGGGGGGTTAAGCCCTTTGTCTTCGATC
* *
120186608 TGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAATTCAACCTGTTACCCTACTGCTTAGGGGTT
1 TGTTACCCTACTGCTTAGGGAGATAAGATCTGTAATTCAACCTGTTACCCTACTACTTAGGGGTT
* ** * * *
120186673 TAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTCAACCTG
66 TAAAGCCCATCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTCAACCTG
120186738 TTACCCTACTGCTTAGGG
131 TTACCCTACTGCTTAGGG
120186756 ATTTAAGGTT
Statistics
Matches: 126, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
172 56 0.44
173 67 0.53
174 3 0.02
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (172 bp):
TGTTACCCTACTGCTTAGGGAGATAAGATCTGTAATTCAACCTGTTACCCTACTACTTAGGGGTT
TAAAGCCCATCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATTCAACCTG
TTACCCTACTGCTTAGGGGGGTTAAGCCCTTTGTCTTCGATC
Found at i:120194860 original size:19 final size:20
Alignment explanation
Indices: 120194832--120194873 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
120194822 GTCTTTTCAC
* *
120194832 GAAATTTAATGCACATG-AT
1 GAAATGTAATGCAAATGAAT
120194851 GAAATGTAATGCAAATGAAT
1 GAAATGTAATGCAAATGAAT
120194871 GAA
1 GAA
120194874 TGCAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (20 bp):
GAAATGTAATGCAAATGAAT
Found at i:120203216 original size:39 final size:39
Alignment explanation
Indices: 120203157--120203374 Score: 323
Period size: 39 Copynumber: 5.6 Consensus size: 39
120203147 ATCGTGATCT
** * *
120203157 GAAGCCCGAAATCTAGCTGAAGCACATAAGTGCCAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
120203196 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
120203235 GAAGCCC-AGAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGA-AGGCTAACTGAAGCACATAAGTGCTAAACG
*
120203274 GAAGCCC-AGAGGCTAATTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGA-AGGCTAACTGAAGCACATAAGTGCTAAACG
* * *
120203313 GAAGCCCGAAAGCTAGCTGAAGCATATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
120203352 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
120203375 TCATCAGAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 163 0.99
40 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:120206858 original size:9 final size:9
Alignment explanation
Indices: 120206844--120206928 Score: 100
Period size: 9 Copynumber: 9.6 Consensus size: 9
120206834 ATAAATATAA
120206844 AATTAACCG
1 AATTAACCG
*
120206853 AATTAATCG
1 AATTAACCG
*
120206862 AATTAATCG
1 AATTAACCG
120206871 AATTAACC-
1 AATTAACCG
*
120206879 AATTACCCG
1 AATTAACCG
* *
120206888 AATTACCCA
1 AATTAACCG
120206897 AATTAACCG
1 AATTAACCG
*
120206906 AATTAACCA
1 AATTAACCG
*
120206915 AATTAACCA
1 AATTAACCG
120206924 AATTA
1 AATTA
120206929 TTTGTATAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
8 7 0.10
9 61 0.90
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:120206867 original size:18 final size:18
Alignment explanation
Indices: 120206843--120206928 Score: 111
Period size: 18 Copynumber: 4.8 Consensus size: 18
120206833 AATAAATATA
*
120206843 AAATTAACCGAATTAATC
1 AAATTAACCGAATTAACC
* *
120206861 GAATTAATCGAATTAACC
1 AAATTAACCGAATTAACC
* *
120206879 -AATTACCCGAATTACCC
1 AAATTAACCGAATTAACC
120206896 AAATTAACCGAATTAACC
1 AAATTAACCGAATTAACC
*
120206914 AAATTAACCAAATTA
1 AAATTAACCGAATTA
120206929 TTTGTATAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
17 14 0.24
18 44 0.76
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATTAACCGAATTAACC
Found at i:120206889 original size:35 final size:35
Alignment explanation
Indices: 120206844--120206928 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 35
120206834 ATAAATATAA
* * *
120206844 AATTAACCGAATTAATCGAATTAATCGAATTAACC
1 AATTAACCGAATTAACCAAATTAACCGAATTAACC
* *
120206879 AATTACCCGAATTACCCAAATTAACCGAATTAACC
1 AATTAACCGAATTAACCAAATTAACCGAATTAACC
*
120206914 AAATTAACCAAATTA
1 -AATTAACCGAATTA
120206929 TTTGTATAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 30 0.71
36 12 0.29
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (35 bp):
AATTAACCGAATTAACCAAATTAACCGAATTAACC
Found at i:120206963 original size:5 final size:6
Alignment explanation
Indices: 120206948--120206988 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
120206938 AATTATATGT
*
120206948 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
120206989 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:120207688 original size:13 final size:15
Alignment explanation
Indices: 120207659--120207692 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
120207649 GGTTCAATAA
120207659 TTTTTTTAATCTATT
1 TTTTTTTAATCTATT
120207674 TTTTTTTAAT-T-TT
1 TTTTTTTAATCTATT
120207687 TTTTTT
1 TTTTTT
120207693 CATAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 1 0.05
15 10 0.53
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTAATCTATT
Found at i:120213373 original size:15 final size:16
Alignment explanation
Indices: 120213353--120213389 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
120213343 AAATGAGTGG
120213353 TTAATTAGAATTTAA-
1 TTAATTAGAATTTAAT
120213368 TTAATT-GAATTTAAT
1 TTAATTAGAATTTAAT
120213383 TTAATTA
1 TTAATTA
120213390 AGAGTGATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TTAATTAGAATTTAAT
Found at i:120228234 original size:13 final size:13
Alignment explanation
Indices: 120228216--120228240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
120228206 TTTAAATTAA
120228216 ATTAATTTATTCG
1 ATTAATTTATTCG
120228229 ATTAATTTATTC
1 ATTAATTTATTC
120228241 AACCGCTTAT
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:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
ATTAATTTATTCG
Found at i:120228720 original size:14 final size:14
Alignment explanation
Indices: 120228701--120228738 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
120228691 TGTTGTATTG
120228701 AAAATAACTTT-TAA
1 AAAATAA-TTTCTAA
120228715 AAAATAATTTCTAA
1 AAAATAATTTCTAA
120228729 AAAATAATTT
1 AAAATAATTT
120228739 ATTTTCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 3 0.13
14 20 0.87
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATAATTTCTAA
Found at i:120229296 original size:20 final size:21
Alignment explanation
Indices: 120229271--120229315 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
120229261 ATTAAAATAA
120229271 ATTAAAATAT-TAAATAAATT
1 ATTAAAATATATAAATAAATT
* *
120229291 ATTAAAATATATTAATAATTT
1 ATTAAAATATATAAATAAATT
120229312 ATTA
1 ATTA
120229316 TATGACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTAAAATATATAAATAAATT
Found at i:120239087 original size:19 final size:21
Alignment explanation
Indices: 120239049--120239092 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
120239039 TTTTACTTTT
120239049 TGTTCAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
*
120239070 TGTTCAGCT-TT-TGAGCTTC
1 TGTTCAGCTCTTACGAGCTTC
120239089 TGTT
1 TGTT
120239093 GGCTTATTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 2 0.09
21 9 0.41
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.45
Consensus pattern (21 bp):
TGTTCAGCTCTTACGAGCTTC
Found at i:120240824 original size:129 final size:130
Alignment explanation
Indices: 120240513--120240824 Score: 429
Period size: 129 Copynumber: 2.4 Consensus size: 130
120240503 AGCACAGTAA
* *** * * *
120240513 GGCACGATTCCTCGAATTTTTAGACATCGAACATTGCCTT-ATTTT-AGAA-TTTAGAGAACATG
1 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGAATTTTAAAGAACATG
* *
120240575 AGTGAAATTCTAAAGCGATATTCAATTATTTTGAACAAACGGGAAATTGCAACCCAGCACGATAG
66 AGTGAAATTCTAAAGCGATATTCAATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAG
* * *
120240640 GGCACGATTTCCCGAATTGCCAAACATCAAACATTACCTTCGTTTTGAAGAATTTTAAAG-ACAT
1 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTT-AAGAATTTTAAAGAACAT
* *
120240704 GAGTGAAATTCTAAAG-GAATATTCGATTATTTTGAACAAACGAGAAATTGCAA-TCAACACGAT
65 GAGTGAAATTCTAAAGCG-ATATTCAATTATTTTGAACAAACGAGAAATTGCAACCCAACACGAT
120240767 AG
129 AG
120240769 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAATTTT
1 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTT-AAGAATTTT
120240825 TGAATGAATA
Statistics
Matches: 162, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
127 32 0.20
128 4 0.02
129 63 0.39
130 57 0.35
131 6 0.04
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (130 bp):
GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGAATTTTAAAGAACATG
AGTGAAATTCTAAAGCGATATTCAATTATTTTGAACAAACGAGAAATTGCAACCCAACACGATAG
Found at i:120244261 original size:18 final size:18
Alignment explanation
Indices: 120244236--120244275 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
120244226 TATGAAAAAA
*
120244236 AATAATTTGTAGAAAATTT
1 AATATTTTGTA-AAAATTT
*
120244255 AATATTTTTTAAAAATTT
1 AATATTTTGTAAAAATTT
120244273 AAT
1 AAT
120244276 TTAACTCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
AATATTTTGTAAAAATTT
Found at i:120248213 original size:16 final size:14
Alignment explanation
Indices: 120248182--120248226 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
120248172 AATCCATCTA
*
120248182 TAATTAATTTTTTT
1 TAATAAATTTTTTT
120248196 TAGATAAATTTTTATT
1 TA-ATAAATTTTT-TT
120248212 TAATAATATTTTTTT
1 TAATAA-ATTTTTTT
120248227 AAAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 2 0.07
15 15 0.56
16 10 0.37
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TAATAAATTTTTTT
Found at i:120248907 original size:13 final size:13
Alignment explanation
Indices: 120248889--120248925 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
120248879 TTTTAAATTT
120248889 CAACTTGGATGTC
1 CAACTTGGATGTC
120248902 CAACTTGGATGTC
1 CAACTTGGATGTC
*
120248915 CAACTAGGATG
1 CAACTTGGATG
120248926 AGAATAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (13 bp):
CAACTTGGATGTC
Found at i:120249973 original size:30 final size:30
Alignment explanation
Indices: 120249937--120249999 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
120249927 ACTTATTTTA
*
120249937 TTGTTAATTTTTTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
120249967 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
120249997 TTG
1 TTG
120250000 CTTGCTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:120251265 original size:2 final size:2
Alignment explanation
Indices: 120251258--120251287 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
120251248 GACAGACAGG
120251258 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
120251288 TCTTTGTTAT
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:120256024 original size:19 final size:20
Alignment explanation
Indices: 120255995--120256044 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
120255985 TGAAAATAAG
120255995 CAAAATGAATTAAAAAAAAT-
1 CAAAAT-AATTAAAAAAAATA
***
120256015 CAAAATAATTTTCAAAAATA
1 CAAAATAATTAAAAAAAATA
120256035 CAAAATAATT
1 CAAAATAATT
120256045 TTTAAAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.26
Consensus pattern (20 bp):
CAAAATAATTAAAAAAAATA
Found at i:120256031 original size:20 final size:20
Alignment explanation
Indices: 120256009--120256046 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
120255999 ATGAATTAAA
120256009 AAAAAT-CAAAATAATTTTC
1 AAAAATACAAAATAATTTTC
120256028 AAAAATACAAAATAATTTT
1 AAAAATACAAAATAATTTT
120256047 TAAAGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATACAAAATAATTTTC
Found at i:120256329 original size:22 final size:22
Alignment explanation
Indices: 120256286--120256330 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
120256276 TGTAACAAGA
***
120256286 TTTTAATTTAACATGTTTAATT
1 TTTTAATTTAACATGAACAATT
*
120256308 TTTTAATTTAACTTGAACAATT
1 TTTTAATTTAACATGAACAATT
120256330 T
1 T
120256331 CACTCGATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTAATTTAACATGAACAATT
Found at i:120257611 original size:2 final size:2
Alignment explanation
Indices: 120257563--120257601 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
120257553 AATAAAGTAA
120257563 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120257602 TCAAATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120258680 original size:32 final size:31
Alignment explanation
Indices: 120258621--120258680 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
120258611 TAATCTCACG
**
120258621 AAAATTTAATTAAACCCTTAATTTTTTTAAA
1 AAAATTTAATTAAACCCTTAAAATTTTTAAA
* *
120258652 AAAATTCTCATTAAACTCTTAAAATTTTT
1 AAAATT-TAATTAAACCCTTAAAATTTTT
120258681 GAATTTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 6 0.25
32 18 0.75
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (31 bp):
AAAATTTAATTAAACCCTTAAAATTTTTAAA
Found at i:120268249 original size:2 final size:2
Alignment explanation
Indices: 120268242--120268298 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
120268232 ATCTAACATG
120268242 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
120268284 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
120268299 GAGAGAGAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120268303 original size:2 final size:2
Alignment explanation
Indices: 120268298--120268334 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
120268288 ATATATATAT
120268298 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
120268335 ATGTCAATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:120273040 original size:17 final size:17
Alignment explanation
Indices: 120273018--120273057 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
120273008 GTTATATATA
*
120273018 TATATTTCAAATTATTT
1 TATATTTCAAATTATTG
* *
120273035 TATATTTTAAGTTATTG
1 TATATTTCAAATTATTG
120273052 TATATT
1 TATATT
120273058 ATATATTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (17 bp):
TATATTTCAAATTATTG
Found at i:120273187 original size:27 final size:28
Alignment explanation
Indices: 120273157--120273213 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
120273147 ATCATATATT
* *
120273157 TTAAACTTCT-TATTAATTATTTTTAAA
1 TTAAACTTATATATTAATTATTTTAAAA
* *
120273184 TT-AATTTATATATTATTTATTTTAAAA
1 TTAAACTTATATATTAATTATTTTAAAA
120273211 TTA
1 TTA
120273214 TTCATATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (28 bp):
TTAAACTTATATATTAATTATTTTAAAA
Found at i:120273220 original size:26 final size:27
Alignment explanation
Indices: 120273167--120273222 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
120273157 TTAAACTTCT
* *
120273167 TATTAATTATTTTTAAATTAATTTATA
1 TATTAATTATTTTAAAATTAATTCATA
*
120273194 TATTATTTATTTTAAAATT-ATTCATA
1 TATTAATTATTTTAAAATTAATTCATA
120273220 TAT
1 TAT
120273223 GTCATTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (27 bp):
TATTAATTATTTTAAAATTAATTCATA
Found at i:120273303 original size:27 final size:26
Alignment explanation
Indices: 120273230--120273323 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
120273220 TATGTCATTC
* * * **
120273230 TTTAATTTGCTTTGTGTATTATAAAT
1 TTTAAATTGTTTTATGTATTATTCAT
* * ** *
120273256 TTTAAAATGCTTTATACATTATTTAT
1 TTTAAATTGTTTTATGTATTATTCAT
120273282 TTTAAACTTGTTTTATGTATTATTCAT
1 TTTAAA-TTGTTTTATGTATTATTCAT
120273309 TTTAAATTGTTTTAT
1 TTTAAATTGTTTTAT
120273324 TGTTTACTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 34 0.62
27 21 0.38
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (26 bp):
TTTAAATTGTTTTATGTATTATTCAT
Found at i:120277472 original size:14 final size:15
Alignment explanation
Indices: 120277453--120277489 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
120277443 GTATAATGAT
120277453 AAATTTA-ACCCTCA
1 AAATTTATACCCTCA
*
120277467 AAATTTATGCCCTCA
1 AAATTTATACCCTCA
120277482 AAATTTAT
1 AAATTTAT
120277490 GCATTCTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.35
Consensus pattern (15 bp):
AAATTTATACCCTCA
Found at i:120277481 original size:15 final size:15
Alignment explanation
Indices: 120277461--120277491 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
120277451 ATAAATTTAA
120277461 CCCTCAAAATTTATG
1 CCCTCAAAATTTATG
120277476 CCCTCAAAATTTATG
1 CCCTCAAAATTTATG
120277491 C
1 C
120277492 ATTCTATCAA
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:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (15 bp):
CCCTCAAAATTTATG
Found at i:120278275 original size:125 final size:127
Alignment explanation
Indices: 120278098--120278341 Score: 359
Period size: 126 Copynumber: 1.9 Consensus size: 127
120278088 CCACTTATTG
*
120278098 TGAAAATAAAATTTACAAAAAAAAGTTTTTATATAAATTCTAAGTCTCATTTCCCTT-GTTTATT
1 TGAAAATAAAATTTACAAAAAAAAGTTTTTATATAAATTCTAAGTATCATTTCCCTTAGTTTATT
* *
120278162 AAGCGATGTGAGATATGAGTTTATATAGACTCATAATTCATTTACAGATTATTCCTATACTC
66 AAGCGATATGAGATATGAGTCTATATAGACTCATAATTCATTTACAGATTATTCCTATACTC
* * * * *
120278224 TGAAAATAAAATTTAC-AAAATAAGTTTTTATATAAACTTC-AAGTATTATTTCTCTTATTTTCT
1 TGAAAATAAAATTTACAAAAAAAAGTTTTTATATAAA-TTCTAAGTATCATTTCCCTTAGTTTAT
* * *
120278287 TAAGCGATATGAGATATGGGTCTATATAGACTCCTAATTCATTTACAGTTTATTC
65 TAAGCGATATGAGATATGAGTCTATATAGACTCATAATTCATTTACAGATTATTC
120278342 TTAATGAGAA
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
125 32 0.30
126 73 0.70
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (127 bp):
TGAAAATAAAATTTACAAAAAAAAGTTTTTATATAAATTCTAAGTATCATTTCCCTTAGTTTATT
AAGCGATATGAGATATGAGTCTATATAGACTCATAATTCATTTACAGATTATTCCTATACTC
Found at i:120279611 original size:30 final size:30
Alignment explanation
Indices: 120279573--120279658 Score: 120
Period size: 30 Copynumber: 2.9 Consensus size: 30
120279563 AAAACCCTAG
120279573 CCACCTTGCTTCCCACTTGCACCTACTCCA
1 CCACCTTGCTTCCCACTTGCACCTACTCCA
* * * *
120279603 CTATCTTGCCTCCCACTTGCACCAACTCCA
1 CCACCTTGCTTCCCACTTGCACCTACTCCA
120279633 CCACCTTG-TCTCCCACTTGCACCTAC
1 CCACCTTGCT-TCCCACTTGCACCTAC
120279659 ACCATCAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.17, C:0.49, G:0.07, T:0.27
Consensus pattern (30 bp):
CCACCTTGCTTCCCACTTGCACCTACTCCA
Found at i:120280191 original size:3 final size:3
Alignment explanation
Indices: 120280157--120280243 Score: 65
Period size: 3 Copynumber: 28.0 Consensus size: 3
120280147 TTATTTTTTG
* *
120280157 TAT T-T TAT TAT TTT TAC TAT TACT TA- TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
120280200 CTCAT GTAT ATAT TAT TAT T-T ATAT TAT TAT TAT TAT ATAT TAT
1 -T-AT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT -TAT TAT
120280244 ATATACCCTC
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
2 6 0.09
3 49 0.71
4 12 0.17
5 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:120280213 original size:21 final size:18
Alignment explanation
Indices: 120280160--120280236 Score: 82
Period size: 18 Copynumber: 4.1 Consensus size: 18
120280150 TTTTTTGTAT
* *
120280160 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
*
120280179 CTTATATTATTATTATTA
1 TTTATATTATTATTATTA
*
120280197 TTTCTCATGTATATATTATTA
1 TTTAT-AT-TAT-TATTATTA
120280218 TTTATATTATTATTATTA
1 TTTATATTATTATTATTA
120280236 T
1 T
120280237 ATATTATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
18 24 0.49
19 8 0.16
20 5 0.10
21 12 0.24
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:120280324 original size:3 final size:3
Alignment explanation
Indices: 120280318--120280380 Score: 56
Period size: 3 Copynumber: 20.0 Consensus size: 3
120280308 TTCTGACTAC
* * *
120280318 TAT TAT TAT ATAT AAA TAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT
120280366 TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
120280381 CACCCCTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 1 0.02
3 39 0.78
4 10 0.20
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:120292470 original size:86 final size:87
Alignment explanation
Indices: 120292322--120293430 Score: 963
Period size: 86 Copynumber: 12.9 Consensus size: 87
120292312 AGAATCAGTG
* * * * * ** **
120292322 AATTTGCAGATCTTATCTCCCTAAGCAGTAG-GGAAACAAATCGAGGTTGATGGGCCTTAAACCC
1 AATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAAGGCCTTAAACCC
*
120292386 CTAAGCAGTAGGGTAACAGACCG
65 CTAAGCAGTAGGGTAACAGACCA
* * ** * * *
120292409 AA-TTGCAGATTTTATTTCCCTAAGCAATAGTAGG-GCTGATCGAAGACGAAAGGTCTTAAACCC
1 AATTTACAGATCTTATCCCCCTAAGCAGTAGT-GGAGCAGATCGAAGACGAAAGGCCTTAAACCC
120292472 CTAAGCAGTAGGGTAACAGACCA
65 CTAAGCAGTAGGGTAACAGACCA
* * *
120292495 AA-TTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAACCCC
1 AATTTACAGATCTTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAAGGCCTTAAACCCC
*
120292559 GAAGCAGTAGGGTAACAGACCA
66 TAAGCAGTAGGGTAACAGACCA
* * *
120292581 AA-TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGAAAGGCCTTAAACCCC
1 AATTTACAGATCTTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAAGGCCTTAAACCCC
* *
120292645 TAAGCAGTAGGGTAACAGGCTA
66 TAAGCAGTAGGGTAACAGACCA
* * * *
120292667 AATTTTCAGATCTTAACCCCCTATA-CAGTAG-GGAAGCAGATCGAAGACGAAGGGTCTTAAACC
1 AATTTACAGATCTTATCCCCCTA-AGCAGTAGTGG-AGCAGATCGAAGACGAAAGGCCTTAAACC
* **
120292730 CCTAAGCAGTAGGGTAACAGGCTG
64 CCTAAGCAGTAGGGTAACAGACCA
* *
120292754 AATTTACAGATCTTAT-CCCCTAAGCAGTAGTGGAGCAGATCGAAGGCG-AAGGCCTTAACCCCC
1 AATTTACAGATCTTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAAGGCCTTAAACCCC
* * *
120292817 TAAGCAGTAGGGTAGCAGGCTA
66 TAAGCAGTAGGGTAACAGACCA
* * * * * *
120292839 AATTTTCAGATTTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGATG-ATGAGCCTTAAACC
1 AATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAAG-GCCTTAAACC
****
120292902 CCTAAGCAGTAGGGTAACAGGTTG
64 CCTAAGCAGTAGGGTAACAGACCA
* * * * *
120292926 AATTTAAAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGGCG-ATGGACCTT-AACC
1 AATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAAGG-CCTTAAACC
* *
120292988 CCTAAGCAGTAGGGTAACAGGCTA
64 CCTAAGCAGTAGGGTAACAGACCA
* * * **
120293012 AATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGGCGATGGGCCTTAAA-CC
1 AATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAAGGCCTTAAACCC
* **
120293075 CTAAGCAGTAGGGTAACAGGCTG
65 CTAAGCAGTAGGGTAACAGACCA
* * **
120293098 AATTTACAGATCTTA-ACCCCTAAGCAGTAG-GGAAACAGATTAAAGACGATAA-GCCTTAAACC
1 AATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGA-AAGGCCTTAAACC
* * ***
120293160 CCTAAGTAGTAAGGTAACAGGTTA
64 CCTAAGCAGTAGGGTAACAGACCA
* * * **
120293184 AATTTACAG-----A---CCCTAAACAGTAG-GGAAACAGATTGAAGGTGACAA-GCCTTAAACC
1 AATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGA-AAGGCCTTAAACC
***
120293239 CCTAAGCAGTAGGGTAACAAGTTGA
64 CCTAAGCAGTAGGGTAAC-AGACCA
* * **
120293264 AGATTTACAGATCTTAAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGGTGACAA-GCCTT-AA
1 A-ATTTACAGATCTT-ATCCCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGA-AAGGCCTTAAA
* *
120293326 CCCCTAAACAGTAGGGTAACA-AGCTA
62 CCCCTAAGCAGTAGGGTAACAGA-CCA
* * * * **
120293352 AATTTACAGATCTTAACACCCTAAGCAGTAG-GGAAACAGATCGAAGATGATGGGCCTTAAACCC
1 AATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAAGGCCTTAAACCC
*
120293416 CTAAGCAGTAAGGTA
65 CTAAGCAGTAGGGTA
120293431 CCAAGCTAAA
Statistics
Matches: 897, Mismatches: 95, Indels: 60
0.85 0.09 0.06
Matches are distributed among these distances:
79 56 0.06
80 5 0.01
81 9 0.01
85 88 0.10
86 467 0.52
87 207 0.23
88 6 0.01
89 21 0.02
90 38 0.04
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (87 bp):
AATTTACAGATCTTATCCCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAAGGCCTTAAACCCC
TAAGCAGTAGGGTAACAGACCA
Found at i:120292567 original size:44 final size:43
Alignment explanation
Indices: 120292426--120292834 Score: 186
Period size: 44 Copynumber: 9.5 Consensus size: 43
120292416 GATTTTATTT
* * *
120292426 CCCTAAGCAATAGTAGG-GCTGATCGAAGACGAAAGGTCTTAAAC
1 CCCTAAGCAGTAGT-GGAGCAGATCAAAGACG-AAGGTCTTAAAC
* * * * *
120292470 CCCTAAGCAGTAG-GGTAACAGACCAAATTAC--AGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCAAA-GACGAAGGTCTTAAAC
*
120292511 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGGGTCTTAAAC
1 -CCCTAAGCAGTAGTGGAGCAGATCAAAGACGAA-GGTCTTAAAC
* * * ** * * *
120292556 CCCGAAGCAGTAG-GGTAACAGACCAAA-TTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCAAAGACGAAGGTCTTAAAC
*
120292597 TCCCTAAGCAGTAGTGGAGCAGATCAAAGACGAAAGGCCTTAAAC
1 -CCCTAAGCAGTAGTGGAGCAGATCAAAGACG-AAGGTCTTAAAC
* * ***** * *
120292642 CCCTAAGCAGTAG-GGTAACAG-GCTAAATTTTCAGATCTTAACC
1 CCCTAAGCAGTAGTGG-AGCAGATC-AAAGACGAAGGTCTTAAAC
*
120292685 CCCTATA-CAGTAG-GGAAGCAGATCGAAGACGAAGGGTCTTAAAC
1 CCCTA-AGCAGTAGTGG-AGCAGATCAAAGACGAA-GGTCTTAAAC
* * * ** * *
120292729 CCCTAAGCAGTAG-GGTAACAGGCTGAATTTAC--AGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCA-GATCAA-AGACGAAGGTCTTAAAC
* * * *
120292771 CCCTAAGCAGTAGTGGAGCAGATCGAAGGCGAAGGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGATCAAAGACGAAGGTCTTAAAC
120292814 CCCTAAGCAGTAG-GGTAGCAG
1 CCCTAAGCAGTAGTGG-AGCAG
120292835 GCTAAATTTT
Statistics
Matches: 265, Mismatches: 72, Indels: 57
0.67 0.18 0.14
Matches are distributed among these distances:
40 1 0.00
41 9 0.03
42 80 0.30
43 69 0.26
44 95 0.36
45 9 0.03
46 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (43 bp):
CCCTAAGCAGTAGTGGAGCAGATCAAAGACGAAGGTCTTAAAC
Found at i:120292629 original size:172 final size:172
Alignment explanation
Indices: 120292322--120293430 Score: 1222
Period size: 172 Copynumber: 6.5 Consensus size: 172
120292312 AGAATCAGTG
* * * * * *
120292322 AATTTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAACCCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCC
* * ** *
120292387 TAAGCAGTAGGGTAACAGACCG-AATTGCAGATTTTATTTCCCTAAGCAATAGTAGGG---CTGA
66 TAAGCAGTAGGGTAACAGA-CGAAATTACAGATCTTA-ACCCCTAAGC---AGTAGGGAAACAGA
* * *
120292448 TCGAAGACGAAAGGTCTTAAACCCCTAAGCAGTAGGGTAACAGACCA
126 TCGAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTA
* * * * * *
120292495 AA-TTACAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAACCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGATGATGGGCCTTAAACCC
* * * * *
120292558 CGAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATC
65 CTAAGCAGTAGGGTAACAGACGAAATTACAGATCTTAAC-CCCTAAGCAGTAG-GGAAACAGATC
*
120292622 AAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTA
128 GAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTA
* * * * *
120292667 AATTTTCAGATCTTAACCCCCTATA-CAGTAGGGAAGCAGATCGAAGACGAAGGGTCTTAAACCC
1 AATTTACAGATCTTAACCCCCTA-AGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCC
* * * *
120292731 CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCCCCTAAGCAGTAGTGG-AGCAGATC
65 CTAAGCAGTAGGGTAACAGAC-GAAATTACAGATCTTAACCCCTAAGCAGTAG-GGAAACAGATC
* * *
120292795 GAAGGCG-AAGGCCTTAACCCCCTAAGCAGTAGGGTAGCAGGCTA
128 GAAGACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTA
* * *
120292839 AATTTTCAGATTTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAGCCTTAAACCCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCC
** * *
120292904 TAAGCAGTAGGGTAACAGGTTGAATTTAAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCG
66 TAAGCAGTAGGGTAACA-GACGAAATTACAGATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCG
* *
120292969 AAGGCG-ATGGACCTT-AACCCCTAAGCAGTAGGGTAACAGGCTA
129 AAGACGAAAGG-CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTA
**
120293012 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAA-CCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCC
* * **
120293076 TAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAACAGATTAA
66 TAAGCAGTAGGGTAACAGAC-GAAATTACAGATCTTAACCCCTAAGCAGTAGGGAAACAGATCGA
* * *
120293141 AGACGATAA-GCCTTAAACCCCTAAGTAGTAAGGTAACAGGTTA
130 AGACGA-AAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTA
* * * ***
120293184 AATTTACAG------A--CCCTAAACAGTAGGGAAACAGATTGAAGGTGACAAGCCTTAAACCCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCC
**
120293241 TAAGCAGTAGGGTAACAAGTTGAAGATTTACAGATCTTAAACCCCCTAAGCAGTAGGGAAACAGA
66 TAAGCAGTAGGGTAAC-AGACGAA-A-TTACAGATCTT-AA-CCCCTAAGCAGTAGGGAAACAGA
** * *
120293306 TCGAAGGTGACAA-GCCTT-AACCCCTAAACAGTAGGGTAACAAGCTA
126 TCGAAGACGA-AAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTA
*
120293352 AATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCC
1 AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCC
*
120293417 TAAGCAGTAAGGTA
66 TAAGCAGTAGGGTA
120293431 CCAAGCTAAA
Statistics
Matches: 819, Mismatches: 84, Indels: 63
0.85 0.09 0.07
Matches are distributed among these distances:
164 37 0.05
165 22 0.03
166 3 0.00
167 11 0.01
168 34 0.04
169 41 0.05
170 2 0.00
171 37 0.05
172 337 0.41
173 220 0.27
174 21 0.03
176 54 0.07
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (172 bp):
AATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCC
TAAGCAGTAGGGTAACAGACGAAATTACAGATCTTAACCCCTAAGCAGTAGGGAAACAGATCGAA
GACGAAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTA
Found at i:120292696 original size:43 final size:43
Alignment explanation
Indices: 120292635--120293390 Score: 266
Period size: 43 Copynumber: 17.7 Consensus size: 43
120292625 GACGAAAGGC
*
120292635 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAGAT
* * *** *
120292678 CTTAACCCCCTATA-CAGTAGGG-AAGCAGATCGAAGA--CGAAGGGT
1 CTTAACCCCCTA-AGCAGTAGGGTAA-CAG-GCTAA-ATTTTCA-GAT
* * *
120292722 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAGAT
* * * * ***** **
120292765 CTT-ATCCCCTAAGCAGTAGTGG-AGCA-GATCGAAGGCGAAGGC
1 CTTAACCCCCTAAGCAGTAG-GGTAACAGGCT-AAATTTTCAGAT
*
120292807 CTTAACCCCCTAAGCAGTAGGGTAGCAGGCTAAATTTTCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAGAT
* * * * ** * *
120292850 TTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGAG-C
1 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTAA-ATTTTCAGAT
* * * **
120292894 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTAAAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAGAT
* * * **** * *
120292937 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGAT-GGAC
1 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTAA-ATTTTCAGAT
*
120292981 CTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAGAT
* * * **** * **
120293023 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGAT-GGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAG-GCTAA-ATTTTCAGAT
* * *
120293067 CTTAA-ACCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAGAT
* ** *** * *
120293109 CTTAA-CCCCTAAGCAGTAGGGAAACAGATTAAAGACGATAAG-C
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AA-ATTTTCAGAT
* * * * *
120293152 CTTAAACCCCTAAGTAGTAAGGTAACAGGTTAAATTTACAG--
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAGAT
* * ** ** ** *
120293193 ----A--CCCTAAACAGTAGGGAAACAGATTGAAGGTGACA-AGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAATTTTCAGA-T
* * * *
120293231 CTTAAACCCCTAAGCAGTAGGGTAACAAGTTGAAGATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AA-ATTTTCAGAT
* * * ** ** *
120293276 CTTAAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACA-AGC
1 CTT-AACCCCCTAAGCAGTAGGGTAACAG-GCTAAATTTTCAGA-T
* * *
120293321 CTTAA-CCCCTAAACAGTAGGGTAACAAGCTAAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAGAT
* *
120293363 CTTAACACCCTAAGCAGTAGGGAAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
120293391 ATCGAAGATG
Statistics
Matches: 507, Mismatches: 162, Indels: 88
0.67 0.21 0.12
Matches are distributed among these distances:
35 19 0.04
36 6 0.01
37 1 0.00
41 2 0.00
42 90 0.18
43 216 0.43
44 126 0.25
45 22 0.04
46 25 0.05
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTTCAGAT
Found at i:120292785 original size:259 final size:260
Alignment explanation
Indices: 120292322--120293440 Score: 1203
Period size: 259 Copynumber: 4.3 Consensus size: 260
120292312 AGAATCAGTG
* * * * * **
120292322 AATTTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAACCCC
1 AATTTACAGATCTTAACTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAAGGCCTTAAACCCC
* ** * * *** *
120292387 TAAGCAGTAGGGTAACAGACCGAA-TTGCAGATTTTATTTCCCTAAGCAATAGTAGGG---CTGA
66 TAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGC---AGTAGGGAAACAGA
* * * * * * *
120292448 TCGAAGACGAAAGGTCTTAAACCCCTAAGCAGTAGGGTAACAGAC-CAAATTACAGATCTTATCT
128 TCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACC
* * * *
120292512 CCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAACCCCGAAGCAGTAGGGTAACA
193 CCCTAAGCAGTAG-GGAAACAGATCGAAGGCGAA-GGCCTTAAACCCCTAAGCAGTAGGGTAACA
*
120292576 GACCA
256 GACTA
* * * * *
120292581 AA-TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCAAAGACGAAAGGCCTTAAACCC
1 AATTTACAGATCTTAACTCCCTAAGCAGTAG-GGAAACAGATCGAAGATGAAAGGCCTTAAACCC
* *
120292644 CTAAGCAGTAGGGTAACAGGCTAAATTTTCAGATCTTAACCCCCTATA-CAGTAGGGAAGCAGAT
65 CTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTA-AGCAGTAGGGAAACAGAT
* *
120292708 CGAAGACGAAGGGTCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTT-ATCC
129 CGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCC
* * * *
120292772 CCTAAGCAGTAGTGG-AGCAGATCGAAGGCGAAGGCCTTAACCCCCTAAGCAGTAGGGTAGCAGG
194 CCTAAGCAGTAG-GGAAACAGATCGAAGGCGAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGA
120292836 CTA
258 CTA
* * * *
120292839 AATTTTCAGATTTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATG-ATGAGCCTTAAACCC
1 AATTTACAGATCTTAACTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAAG-GCCTTAAACCC
* * *
120292903 CTAAGCAGTAGGGTAACAGGTTGAATTTAAAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC
65 CTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC
* * * *
120292968 GAAGGCGATGGACCTT-AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCC
130 GAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCC
* *
120293032 CTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAA-CCCTAAGCAGTAGGGTAACAGGC
195 CTAAGCAGTAGGGAAACAGATCGAAGGCGA-AGGCCTTAAACCCCTAAGCAGTAGGGTAACAGAC
*
120293096 TG
259 TA
** *
120293098 AATTTACAGATCTTAAC-CCCTAAGCAGTAGGGAAACAGATTAAAGACGATAA-GCCTTAAACCC
1 AATTTACAGATCTTAACTCCCTAAGCAGTAGGGAAACAGATCGAAGATGA-AAGGCCTTAAACCC
* * * * *
120293161 CTAAGTAGTAAGGTAACAGGTTAAATTTACAG------A--CCCTAAACAGTAGGGAAACAGATT
65 CTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC
** * * *
120293218 GAAGGTGACA-AGCCTTAAACCCCTAAGCAGTAGGGTAACAAGTTGAAGATTTACAGATCTTAAA
130 GAAGACGA-AGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTG-A-ATTTACAGATCTT-AA
* * *
120293282 CCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGACAAGCCTT-AACCCCTAAACAGTAGGGTAAC
191 CCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGA-AGGCCTTAAACCCCTAAGCAGTAGGGTAAC
120293346 A-AGCTA
255 AGA-CTA
* **
120293352 AATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCC
1 AATTTACAGATCTTAACTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAAGGCCTTAAACCCC
* * *
120293417 TAAGCAGTAAGGTACCAAGCTAAA
66 TAAGCAGTAGGGTAACAGGCTAAA
120293441 AATTACAACT
Statistics
Matches: 745, Mismatches: 90, Indels: 54
0.84 0.10 0.06
Matches are distributed among these distances:
250 33 0.04
251 25 0.03
252 2 0.00
253 15 0.02
254 78 0.10
255 61 0.08
256 7 0.01
258 218 0.29
259 283 0.38
260 23 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (260 bp):
AATTTACAGATCTTAACTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAAGGCCTTAAACCCC
TAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCG
AAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCC
TAAGCAGTAGGGAAACAGATCGAAGGCGAAGGCCTTAAACCCCTAAGCAGTAGGGTAACAGACTA
Found at i:120293697 original size:16 final size:18
Alignment explanation
Indices: 120293661--120293699 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
120293651 GTAATAGACT
120293661 GAAGTGAAGCTACATGAA
1 GAAGTGAAGCTACATGAA
*
120293679 GAAGTGGAGC-ACA-GAA
1 GAAGTGAAGCTACATGAA
120293695 GAAGT
1 GAAGT
120293700 CGAGACCGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 3 0.15
18 9 0.45
ACGTcount: A:0.44, C:0.10, G:0.33, T:0.13
Consensus pattern (18 bp):
GAAGTGAAGCTACATGAA
Found at i:120293988 original size:30 final size:30
Alignment explanation
Indices: 120293954--120294010 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
120293944 AAAACCCTAG
*
120293954 CCACCTTGCTTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
120293984 CCACCTTGCCTCCCACTTGCACCTACT
1 CCACCTTGCCTCCCACTTGCACCTACT
120294011 TGCCTCCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.16, C:0.51, G:0.07, T:0.26
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:120294012 original size:21 final size:21
Alignment explanation
Indices: 120293988--120294031 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
120293978 ACTCCACCAC
120293988 CTTGCCTCCCACTTGCACCTA
1 CTTGCCTCCCACTTGCACCTA
*
120294009 CTTGCCTCCTACTTGCACCTA
1 CTTGCCTCCCACTTGCACCTA
120294030 CT
1 CT
120294032 CCACCACCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.45, G:0.09, T:0.32
Consensus pattern (21 bp):
CTTGCCTCCCACTTGCACCTA
Found at i:120294028 original size:51 final size:51
Alignment explanation
Indices: 120293958--120294060 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
120293948 CCCTAGCCAC
*
120293958 CTTGCTTCCCACTTGCACCTACTCCACCACCTTGCCTCCCACTTGCACCTA
1 CTTGCCTCCCACTTGCACCTACTCCACCACCTTGCCTCCCACTTGCACCTA
* *
120294009 CTTGCCTCCTACTTGCACCTACTCCACCACCTTGTCTCCCACTTGCACCTA
1 CTTGCCTCCCACTTGCACCTACTCCACCACCTTGCCTCCCACTTGCACCTA
120294060 C
1 C
120294061 ACCATCAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.16, C:0.49, G:0.08, T:0.28
Consensus pattern (51 bp):
CTTGCCTCCCACTTGCACCTACTCCACCACCTTGCCTCCCACTTGCACCTA
Found at i:120294590 original size:3 final size:3
Alignment explanation
Indices: 120294561--120294648 Score: 62
Period size: 3 Copynumber: 29.3 Consensus size: 3
120294551 TTTGTTTTAT
* *
120294561 TTA TT- TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
120294604 TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA
1 TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
120294648 T
1 T
120294649 ATATACCCTC
Statistics
Matches: 69, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
2 9 0.13
3 51 0.74
4 7 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:120294623 original size:21 final size:18
Alignment explanation
Indices: 120294561--120294652 Score: 89
Period size: 18 Copynumber: 4.9 Consensus size: 18
120294551 TTTGTTTTAT
*
120294561 TTATT-TTATTTTATTATTT
1 TTATTATTA-TTTA-TATTA
*
120294580 TTACTATTATTTATATTA
1 TTATTATTATTTATATTA
*
120294598 TTATTATTATTTCTCATGTA
1 TTATTATTATTTAT-AT-TA
120294618 TATATTATTATTTATATTA
1 T-TATTATTATTTATATTA
120294637 TTATTA-TATTATATAT
1 TTATTATTATT-TATAT
120294653 ACCCTCTCCA
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.06
18 26 0.41
19 13 0.21
20 8 0.13
21 12 0.19
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTATTTATATTA
Found at i:120294650 original size:30 final size:31
Alignment explanation
Indices: 120294557--120294652 Score: 92
Period size: 33 Copynumber: 3.0 Consensus size: 31
120294547 GAGCTTTGTT
*
120294557 TTATTTATTT-TATT-TTATTAT-TTTTACTA
1 TTATTTATTTATATTATTATTATATTATA-TA
*
120294586 TTATTTATATTATTATTATTATTTCTCATGTATATA
1 TTATTTAT-TTA-TATTATTA-TTAT-AT-TATATA
120294622 TTA-TTATTTATATTATTATTATATTATATA
1 TTATTTATTTATATTATTATTATATTATATA
120294652 T
1 T
120294653 ACCCTCTCCA
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
29 8 0.14
30 9 0.16
31 2 0.04
32 7 0.12
33 11 0.20
34 6 0.11
35 4 0.07
36 6 0.11
37 3 0.05
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (31 bp):
TTATTTATTTATATTATTATTATATTATATA
Found at i:120294774 original size:12 final size:13
Alignment explanation
Indices: 120294723--120294779 Score: 55
Period size: 12 Copynumber: 4.5 Consensus size: 13
120294713 TTCTGACTAC
*
120294723 TATTATTATATAT
1 TATTATTATGTAT
* *
120294736 AAATATATATGTAT
1 TATTAT-TATGTAT
*
120294750 TATTGTT-TGTAT
1 TATTATTATGTAT
120294762 TATTATTAT-TAT
1 TATTATTATGTAT
120294774 TATTAT
1 TATTAT
120294780 CACCCCTATT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
12 20 0.57
13 6 0.17
14 9 0.26
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (13 bp):
TATTATTATGTAT
Found at i:120296236 original size:24 final size:24
Alignment explanation
Indices: 120296191--120296236 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
120296181 CTATTTCAAT
* *
120296191 TAAAAATTTATTTAATTTTTTATA
1 TAAAAATTTATATAATTATTTATA
120296215 TAAAAATTTA-ATAATATATTTA
1 TAAAAATTTATATAAT-TATTTA
120296237 CTATTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAAAATTTATATAATTATTTATA
Found at i:120299786 original size:43 final size:43
Alignment explanation
Indices: 120299732--120299873 Score: 180
Period size: 43 Copynumber: 3.3 Consensus size: 43
120299722 TTATTTGAAA
*
120299732 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGTTTTTTCC-AC
1 AAACGCCGCTAAAGATCAAGACCTTTAGCGGCG-TTTTTCCTAC
* * *
120299775 AATCGCCGCTAAAGATCAAGACCTTTAGCGACGCTTTTCCTAC
1 AAACGCCGCTAAAGATCAAGACCTTTAGCGGCGTTTTTCCTAC
* * * *
120299818 AAACGCCGCTAAAGATCACGACCTTTACCGGCGCTTTT-CTAAA
1 AAACGCCGCTAAAGATCAAGACCTTTAGCGGCGTTTTTCCT-AC
120299861 AAACGCCGCTAAA
1 AAACGCCGCTAAA
120299874 AGTCATGAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 8 0.09
43 80 0.91
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCAAGACCTTTAGCGGCGTTTTTCCTAC
Found at i:120308204 original size:46 final size:46
Alignment explanation
Indices: 120308137--120308353 Score: 310
Period size: 46 Copynumber: 4.7 Consensus size: 46
120308127 TGGCAACCTG
*
120308137 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
120308183 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
120308229 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
120308275 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * *
120308321 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
120308354 TCACGTAAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 156 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:120308332 original size:138 final size:130
Alignment explanation
Indices: 120308088--120308353 Score: 363
Period size: 138 Copynumber: 2.0 Consensus size: 130
120308078 AGTGTGCTCT
*
120308088 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * * * *
120308153 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
* *
120308218 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAG
120308283 ACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
58 ACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTGAAAGACAC
*
120308347 TATGGCA
122 CATGGCA
120308354 TCACGTAAAA
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
130 47 0.40
133 2 0.02
136 1 0.01
137 1 0.01
138 67 0.57
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:120308659 original size:23 final size:25
Alignment explanation
Indices: 120308614--120308660 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
120308604 AATAAATATA
*
120308614 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
120308639 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
120308661 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:120309420 original size:18 final size:19
Alignment explanation
Indices: 120309383--120309421 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
120309373 AAAACATATT
120309383 TATTATTTTCATATAAAAA
1 TATTATTTTCATATAAAAA
*
120309402 TATTATTTTGATA-AAAAA
1 TATTATTTTCATATAAAAA
120309420 TA
1 TA
120309422 AAAAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTATTTTCATATAAAAA
Found at i:120310039 original size:24 final size:24
Alignment explanation
Indices: 120310011--120310059 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
120310001 ACCAAATAAC
*
120310011 AATTAATTTTTGTATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
120310035 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
120310059 A
1 A
120310060 CAAATATACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:120310520 original size:41 final size:41
Alignment explanation
Indices: 120310475--120310616 Score: 225
Period size: 41 Copynumber: 3.5 Consensus size: 41
120310465 TTATATAACT
*
120310475 TTTAGTGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATC
1 TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATC
* *
120310516 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATC
*
120310557 TTTAGCGGCGTTTTACCAAAAGCG-CTCTAATGCTCT-ATT
1 TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATC
*
120310596 TTTAGCGGCGTTTTAACAAAA
1 TTTAGCGGCGTTTTACCAAAA
120310617 ACACCGCTAT
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 21 0.22
40 11 0.12
41 62 0.66
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATC
Found at i:120310624 original size:80 final size:82
Alignment explanation
Indices: 120310475--120310633 Score: 250
Period size: 80 Copynumber: 2.0 Consensus size: 82
120310465 TTATATAACT
* * * *
120310475 TTTAGTGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATCTTTAGCGGCGTTTTACCAAAAGCG
1 TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATCTTTAGCGGCGTTTTAACAAAAACA
120310540 CCGCTAATGCTCTGGTC
66 CCGCTAATGCTCTGGTC
*
120310557 TTTAGCGGCGTTTTACCAAAAGCG-CTCTAATGCTCT-ATTTTTAGCGGCGTTTTAACAAAAACA
1 TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATCTTTAGCGGCGTTTTAACAAAAACA
*
120310620 CCGCTATTGCTCTG
66 CCGCTAATGCTCTG
120310634 TATTTTACAA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
80 36 0.51
81 12 0.17
82 23 0.32
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (82 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATCTTTAGCGGCGTTTTAACAAAAACA
CCGCTAATGCTCTGGTC
Found at i:120310631 original size:40 final size:41
Alignment explanation
Indices: 120310475--120310633 Score: 223
Period size: 41 Copynumber: 3.9 Consensus size: 41
120310465 TTATATAACT
* *
120310475 TTTAGTGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGATC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGATC
*
120310516 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGATC
* *
120310557 TTTAGCGGCGTTTTACCAAAAGCG-CTCTAATGCTCT-ATT
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGATC
* * * *
120310596 TTTAGCGGCGTTTTAACAAAAACACCGCTATTGCTCTG
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTG
120310634 TATTTTACAA
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 22 0.21
40 21 0.20
41 62 0.59
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGATC
Found at i:120312644 original size:21 final size:19
Alignment explanation
Indices: 120312605--120312641 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
120312595 AATAAATTTT
120312605 AAAATTCAAAATATTTATG
1 AAAATTCAAAATATTTATG
120312624 AAAATTCCAAAA-ATTTAT
1 AAAATT-CAAAATATTTAT
120312642 ATGTTTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAATTCAAAATATTTATG
Found at i:120315467 original size:24 final size:24
Alignment explanation
Indices: 120315435--120315482 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
120315425 AAAAAAAGAT
120315435 AGTGTTAATAAAATTTTAGAGTGC
1 AGTGTTAATAAAATTTTAGAGTGC
120315459 AGTGTTAATAAAATTTTAGAGTGC
1 AGTGTTAATAAAATTTTAGAGTGC
120315483 TGTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.38
Consensus pattern (24 bp):
AGTGTTAATAAAATTTTAGAGTGC
Found at i:120328646 original size:20 final size:21
Alignment explanation
Indices: 120328623--120328666 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
120328613 TTCTTTCGGA
*
120328623 TTTCCCCTTTTT-AATTTATT
1 TTTCCACTTTTTAAATTTATT
*
120328643 TTTCTACTTTTTAAATTTATT
1 TTTCCACTTTTTAAATTTATT
120328664 TTT
1 TTT
120328667 TGACAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTCCACTTTTTAAATTTATT
Found at i:120329784 original size:3 final size:3
Alignment explanation
Indices: 120329776--120329814 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
120329766 CATATAGTAA
120329776 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
120329815 AAATTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:120329960 original size:18 final size:18
Alignment explanation
Indices: 120329905--120329961 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
120329895 CTTTATACAT
* *
120329905 TATTTATTTTATATATAT
1 TATTTATTTTATGTATAC
* *
120329923 TATTTATATTA-G-A-CC
1 TATTTATTTTATGTATAC
120329938 T-TTTATTTTATGTATAC
1 TATTTATTTTATGTATAC
120329955 TATTTAT
1 TATTTAT
120329962 ATTAAGTTCC
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 8 0.28
15 2 0.07
16 2 0.07
17 2 0.07
18 15 0.52
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (18 bp):
TATTTATTTTATGTATAC
Found at i:120334198 original size:19 final size:18
Alignment explanation
Indices: 120334155--120334200 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 18
120334145 ACACAAGTGC
120334155 AATAATTAAATATTATTA
1 AATAATTAAATATTATTA
120334173 AATTAATTAAATATTATTA
1 AA-TAATTAAATATTATTA
120334192 AGATAATTA
1 A-ATAATTA
120334201 TTAAATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.08
19 23 0.88
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
AATAATTAAATATTATTA
Found at i:120334200 original size:12 final size:11
Alignment explanation
Indices: 120334159--120334206 Score: 50
Period size: 10 Copynumber: 4.6 Consensus size: 11
120334149 AAGTGCAATA
120334159 ATTAAAT-ATT
1 ATTAAATAATT
*
120334169 ATTAAAT--TA
1 ATTAAATAATT
120334178 ATTAAAT-ATT
1 ATTAAATAATT
120334188 ATTAAGATAATT
1 ATTAA-ATAATT
120334200 ATTAAAT
1 ATTAAAT
120334207 TAAATTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 8 0.24
10 13 0.39
11 4 0.12
12 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
ATTAAATAATT
Found at i:120334960 original size:73 final size:73
Alignment explanation
Indices: 120334853--120334992 Score: 176
Period size: 73 Copynumber: 1.9 Consensus size: 73
120334843 ACTTGGTACT
* *
120334853 TAAAATTTTTTTGGATCTAACTGGTACATAAACTTAAAAACCGTAAA-CTAAAGTGGTACTTT-T
1 TAAAATTTTTTTGGACCTAACTGGTACATAAACTTAAAAACC-TAAATC-AAAGTGATACTTTCT
120334916 TTTAAGTATC
64 TTTAAGTATC
* * * * * *
120334926 TAAACTTTTTTTGGACCTAATTGGTACTTGAACTTGAAAGCCTAAATCAAAGTGATACTTTCTTT
1 TAAAATTTTTTTGGACCTAACTGGTACATAAACTTAAAAACCTAAATCAAAGTGATACTTTCTTT
120334991 TA
66 TA
120334993 GATCCAGTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
72 16 0.28
73 41 0.72
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (73 bp):
TAAAATTTTTTTGGACCTAACTGGTACATAAACTTAAAAACCTAAATCAAAGTGATACTTTCTTT
TAAGTATC
Found at i:120336879 original size:31 final size:31
Alignment explanation
Indices: 120336844--120336921 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
120336834 TTTCTAATTT
120336844 ATCAACAAATTGTCTTTGAAAAGAAAAAAAA
1 ATCAACAAATTGTCTTTGAAAAGAAAAAAAA
*** *
120336875 ATCAACAAATTCGT-TTTGAACCTAAAAAATA
1 ATCAACAAATT-GTCTTTGAAAAGAAAAAAAA
* *
120336906 TTCAACAAATTTTCTT
1 ATCAACAAATTGTCTT
120336922 ATAAAAATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 1 0.03
31 36 0.92
32 2 0.05
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (31 bp):
ATCAACAAATTGTCTTTGAAAAGAAAAAAAA
Found at i:120342062 original size:2 final size:2
Alignment explanation
Indices: 120342055--120342084 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
120342045 GAGGTAGAAC
120342055 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
120342085 TGCATGAAAG
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:120352549 original size:21 final size:21
Alignment explanation
Indices: 120352498--120352549 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
120352488 TTGATTTTTG
*
120352498 AAAAAAATTAGTTAATAAAATT
1 AAAAAAA-AAGTTAATAAAATT
** **
120352520 AAAGGAAAAGTTAATCTAATT
1 AAAAAAAAAGTTAATAAAATT
120352541 AAAAAAAAA
1 AAAAAAAAA
120352550 ATTATTGCAA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (21 bp):
AAAAAAAAAGTTAATAAAATT
Found at i:120352935 original size:22 final size:22
Alignment explanation
Indices: 120352910--120352966 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
120352900 ATCCAAACAT
*
120352910 TAATAATAAAAT-AGTAGCAATA
1 TAATAATAAAATGA-TAGCAAAA
*
120352932 TAATAGTAAAATGATAGCAAAA
1 TAATAATAAAATGATAGCAAAA
120352954 TAATAGA-AAAATG
1 TAATA-ATAAAATG
120352967 GCAACAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.12, T:0.25
Consensus pattern (22 bp):
TAATAATAAAATGATAGCAAAA
Found at i:120352953 original size:11 final size:11
Alignment explanation
Indices: 120352917--120352965 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
120352907 CATTAATAAT
*
120352917 AAAATAGTAGC
1 AAAATAATAGC
* *
120352928 AATATAATAGT
1 AAAATAATAGC
*
120352939 AAAATGATAGC
1 AAAATAATAGC
*
120352950 AAAATAATAGA
1 AAAATAATAGC
120352961 AAAAT
1 AAAAT
120352966 GGCAACAAAC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.61, C:0.04, G:0.12, T:0.22
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:120352974 original size:22 final size:22
Alignment explanation
Indices: 120352931--120352974 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
120352921 TAGTAGCAAT
* * *
120352931 ATAATAGTAAAATGATAGCAAA
1 ATAATAGAAAAATGACAACAAA
*
120352953 ATAATAGAAAAATGGCAACAAA
1 ATAATAGAAAAATGACAACAAA
120352975 CGGCAACAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.61, C:0.07, G:0.14, T:0.18
Consensus pattern (22 bp):
ATAATAGAAAAATGACAACAAA
Found at i:120358334 original size:20 final size:21
Alignment explanation
Indices: 120358309--120358357 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
120358299 CTTAAATTCA
120358309 TTTTAAATAATAAAAAATA-T
1 TTTTAAATAATAAAAAATATT
**
120358329 TTTTAAA-AATTTAAAATATT
1 TTTTAAATAATAAAAAATATT
120358349 TTTTAAATA
1 TTTTAAATA
120358358 CTTTATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.36
20 15 0.60
21 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTTAAATAATAAAAAATATT
Done.