Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006936.1 Hibiscus syriacus cultivar Beakdansim tig00017808_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2176229
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:798564 original size:18 final size:18
Alignment explanation
Indices: 798537--798578 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
798527 AGAACCAGGT
*
798537 CGACCTGACCCGCCTGTC
1 CGACCCGACCCGCCTGTC
*
798555 TGACCCGACCCGCCTGTC
1 CGACCCGACCCGCCTGTC
798573 CGACCC
1 CGACCC
798579 AACCTGCTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.52, G:0.21, T:0.14
Consensus pattern (18 bp):
CGACCCGACCCGCCTGTC
Found at i:799343 original size:32 final size:32
Alignment explanation
Indices: 799307--799394 Score: 140
Period size: 32 Copynumber: 2.8 Consensus size: 32
799297 AAGGTGACCG
* *
799307 TTGGGTAGGCTCTGCGGTCCCAAGAAACGTTC
1 TTGGGTAGGCTCTGAGGCCCCAAGAAACGTTC
*
799339 TTGGGTAGGCTCTGAGGCCCCAAGAAACGTTT
1 TTGGGTAGGCTCTGAGGCCCCAAGAAACGTTC
*
799371 TTGGGTAGGCTCTTAGGCCCCAAG
1 TTGGGTAGGCTCTGAGGCCCCAAG
799395 GCACTCCCTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.19, C:0.24, G:0.32, T:0.25
Consensus pattern (32 bp):
TTGGGTAGGCTCTGAGGCCCCAAGAAACGTTC
Found at i:801723 original size:15 final size:14
Alignment explanation
Indices: 801687--801737 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
801677 CTCGATTTTT
801687 AGTCAACCCGTCTA
1 AGTCAACCCGTCTA
* *
801701 AGTTAACCCGGTCTG
1 AGTCAACCC-GTCTA
* *
801716 AGTCAACCCATTTA
1 AGTCAACCCGTCTA
801730 AGTCAACC
1 AGTCAACC
801738 AGTTGACTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (14 bp):
AGTCAACCCGTCTA
Found at i:802146 original size:17 final size:18
Alignment explanation
Indices: 802124--802158 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
802114 TTTAATTATT
802124 ATTGGACTAA-GACATAA
1 ATTGGACTAAGGACATAA
*
802141 ATTGGATTAAGGACATAA
1 ATTGGACTAAGGACATAA
802159 CAAGGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.26
Consensus pattern (18 bp):
ATTGGACTAAGGACATAA
Found at i:802721 original size:27 final size:28
Alignment explanation
Indices: 802678--802732 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
802668 TTAGAATTAT
* *
802678 AAAATTGCCCCTGAAGTGTACAATGACC
1 AAAATTGCCCCTAAAGTGTAAAATGACC
802706 AAAA-TGCCCCTAAAGTGTAAAATGACC
1 AAAATTGCCCCTAAAGTGTAAAATGACC
802733 TAAAGTATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (28 bp):
AAAATTGCCCCTAAAGTGTAAAATGACC
Found at i:812863 original size:15 final size:15
Alignment explanation
Indices: 812843--812872 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
812833 GGAGTTCGAG
812843 CTAACTAGGTTGGGA
1 CTAACTAGGTTGGGA
812858 CTAACTAGGTTGGGA
1 CTAACTAGGTTGGGA
812873 GGATTGTCTC
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:0.13, G:0.33, T:0.27
Consensus pattern (15 bp):
CTAACTAGGTTGGGA
Found at i:816501 original size:46 final size:44
Alignment explanation
Indices: 816393--816562 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 44
816383 ATAGACTTGA
* * * *
816393 TTTTATTTATTGTATTTCTTAATGTTTTTATT-TAATAATGGACT
1 TTTTATTTATTTTGTTTCTTAAT-TTTTTATTATAATTATGAACT
***
816437 TTTTATTTATTTTGTTTCTTAATTTTTTATTAT-ATTATGGTTTTT
1 TTTTATTTATTTTGTTTCTTAATTTTTTATTATAATTAT-G-AACT
816482 TATTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATGAACT
1 T-TTTATTTATTTTGTTTCTTAAT-TTTTTATTA--TAATTATGAACT
*
816530 TTTTATTTATTTTATTTCTTAATTTTTTATTAT
1 TTTTATTTATTTTGTTTCTTAATTTTTTATTAT
816563 TTAATTGTTT
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 12 0.11
44 24 0.22
45 2 0.02
46 31 0.29
47 30 0.28
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.68
Consensus pattern (44 bp):
TTTTATTTATTTTGTTTCTTAATTTTTTATTATAATTATGAACT
Found at i:816548 original size:93 final size:90
Alignment explanation
Indices: 816394--816562 Score: 266
Period size: 93 Copynumber: 1.8 Consensus size: 90
816384 TAGACTTGAT
* *
816394 TTTATTTATTGTATTTCTTAATGTTTTTATTTAATAATGGACTTTTTATTTATTTTGTTTCTTAA
1 TTTATTTATTGTATTTCTTAATGTTTTTATTTAATAATGAACTTTTTATTTATTTTATTTCTTAA
816459 TTTTTTATTATATTATGGTTTTTTA
66 TTTTTTATTATATTATGGTTTTTTA
* * *
816484 TTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATGAACTTTTTATTTATTTTATTTCT
1 TTTATTTATTGTATTTCTTAATG--TTT-TTATTTAATAATGAACTTTTTATTTATTTTATTTCT
816549 TAATTTTTTATTAT
63 TAATTTTTTATTAT
816563 TTAATTGTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
90 21 0.30
92 3 0.04
93 47 0.66
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.68
Consensus pattern (90 bp):
TTTATTTATTGTATTTCTTAATGTTTTTATTTAATAATGAACTTTTTATTTATTTTATTTCTTAA
TTTTTTATTATATTATGGTTTTTTA
Found at i:816592 original size:46 final size:46
Alignment explanation
Indices: 816444--816620 Score: 138
Period size: 46 Copynumber: 3.9 Consensus size: 46
816434 ACTTTTTATT
* * ** *
816444 TATTTTGTTTCTTAATTTTTTATTATATT-ATGGTTTTTTATT-TATT
1 TATTTTATTTCTTAATTTTTTATTAT-TTAATTG-TTTGAATTGTATA
* * * *
816490 TATTTTGTTTCTTAATGTTTTTATTATTTAA-T-TATGAACTTTTTATT
1 TATTTTATTTCTTAAT-TTTTTATTATTTAATTGTTTGAA--TTGTATA
816537 TATTTTATTTCTTAATTTTTTATTATTTAATTGTTTGAATTGTA-A
1 TATTTTATTTCTTAATTTTTTATTATTTAATTGTTTGAATTGTATA
* * *
816582 TA-TTTATAT-TTAA-TGTTTA-TATTTAATTGTTTTAATTGT
1 TATTTTATTTCTTAATTTTTTATTATTTAATTGTTTGAATTGT
816621 TTTTATTATA
Statistics
Matches: 113, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
41 19 0.17
42 5 0.04
43 4 0.04
44 9 0.08
45 2 0.02
46 38 0.34
47 31 0.27
48 5 0.04
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (46 bp):
TATTTTATTTCTTAATTTTTTATTATTTAATTGTTTGAATTGTATA
Found at i:816600 original size:13 final size:14
Alignment explanation
Indices: 816548--816613 Score: 66
Period size: 13 Copynumber: 4.7 Consensus size: 14
816538 ATTTTATTTC
*
816548 TTAATTTTTTATTAT
1 TTAATTGTTTA-TAT
816563 TTAATTGTTTGA-AT
1 TTAATTGTTT-ATAT
*
816577 TGTAA-TATTTATAT
1 T-TAATTGTTTATAT
816591 TTAA-TGTTTATAT
1 TTAATTGTTTATAT
816604 TTAATTGTTT
1 TTAATTGTTT
816614 TAATTGTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
13 16 0.36
14 15 0.34
15 12 0.27
16 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.64
Consensus pattern (14 bp):
TTAATTGTTTATAT
Found at i:824757 original size:23 final size:22
Alignment explanation
Indices: 824698--824821 Score: 164
Period size: 22 Copynumber: 5.7 Consensus size: 22
824688 ATAGGGCAGA
*
824698 GGGAATCGATACCCCCGTAAAG
1 GGGAACCGATACCCCCGTAAAG
*
824720 GGGAATCGATACCCCCGTAAAG
1 GGGAACCGATACCCCCGTAAAG
824742 GGGAACCGATACCCCCGTAAAG
1 GGGAACCGATACCCCCGTAAAG
* * *
824764 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCC-GTAAAG
*
824787 GGGAACCGATTCCCCC-T--AG
1 GGGAACCGATACCCCCGTAAAG
824806 GGGAACCGATACCCCC
1 GGGAACCGATACCCCC
824822 CTGGGGTTCT
Statistics
Matches: 96, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
19 17 0.18
21 1 0.01
22 58 0.60
23 20 0.21
ACGTcount: A:0.27, C:0.32, G:0.27, T:0.14
Consensus pattern (22 bp):
GGGAACCGATACCCCCGTAAAG
Found at i:827103 original size:13 final size:13
Alignment explanation
Indices: 827087--827113 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
827077 GGGGAGTAGT
827087 ATTTTTCAAAATC
1 ATTTTTCAAAATC
827100 ATTTTTCAAAATC
1 ATTTTTCAAAATC
827113 A
1 A
827114 AAATTCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTTTCAAAATC
Found at i:836796 original size:2 final size:2
Alignment explanation
Indices: 836789--836823 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
836779 GATTGAAACA
836789 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
836824 GTTATATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:840389 original size:16 final size:15
Alignment explanation
Indices: 840368--840403 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
840358 ATAGTCCTTA
840368 TATTTATGTTTATGTT
1 TATTTATGTTTAT-TT
840384 TATTTATGTTTATTT
1 TATTTATGTTTATTT
840399 TATTT
1 TATTT
840404 TTTTACTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (15 bp):
TATTTATGTTTATTT
Found at i:847516 original size:14 final size:15
Alignment explanation
Indices: 847490--847523 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
847480 CACTAACTTT
*
847490 TTTTATATTATTTCA
1 TTTTATATTATTTAA
847505 TTTTAT-TTATTTAA
1 TTTTATATTATTTAA
847519 TTTTA
1 TTTTA
847524 AATTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATATTATTTAA
Found at i:847590 original size:13 final size:13
Alignment explanation
Indices: 847555--847591 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
847545 TCTATTTACG
847555 TTTATT-TTATTT
1 TTTATTATTATTT
*
847567 TTT-TTACTATTT
1 TTTATTATTATTT
847579 TTTATTATTATTT
1 TTTATTATTATTT
847592 GTTGTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
11 2 0.10
12 11 0.52
13 8 0.38
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTATTATTT
Found at i:853455 original size:59 final size:58
Alignment explanation
Indices: 853360--853569 Score: 247
Period size: 59 Copynumber: 3.7 Consensus size: 58
853350 TTCAAAATAA
* *
853360 TTTTAAAGAAACTAAGCCTGA-TTTTCGTGGGTTTCTTGATAAATGATTTCCAATGAAT
1 TTTTAAAGAAACTAAGCCTAATTTTTAG-GGGTTTCTTGATAAATGATTTCCAATGAAT
* * * *
853418 TTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGCTTCTTG----ATGCTTTCAAAT-AAGT
1 TTTT-AAAGAAACTAAGCCTAATTTTTAGGGGTTTCTTGATAAATGATTTCCAATGAA-T
* *
853473 TGTT--AGAAACTAAGCCTAATTTTTAGGGGATTCTTGATAAATGATTTCCAATGAAT
1 TTTTAAAGAAACTAAGCCTAATTTTTAGGGGTTTCTTGATAAATGATTTCCAATGAAT
*
853529 TTTTAAAAGAAACTAAGCCTAATTTTTAGAGGTTTCTTGAT
1 TTTT-AAAGAAACTAAGCCTAATTTTTAGGGGTTTCTTGAT
853570 GATAACTAAA
Statistics
Matches: 127, Mismatches: 14, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
52 30 0.24
54 2 0.02
55 14 0.11
56 14 0.11
57 2 0.02
58 4 0.03
59 56 0.44
60 5 0.04
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (58 bp):
TTTTAAAGAAACTAAGCCTAATTTTTAGGGGTTTCTTGATAAATGATTTCCAATGAAT
Found at i:853548 original size:111 final size:111
Alignment explanation
Indices: 853366--853570 Score: 340
Period size: 111 Copynumber: 1.8 Consensus size: 111
853356 ATAATTTTAA
* * * *
853366 AGAAACTAAGCCTGATTTTCGTGGGTTTCTTGATAAATGATTTCCAATGAATTTTTAAAAGAAGC
1 AGAAACTAAGCCTAATTTTAGTGGGATTCTTGATAAATGATTTCCAATGAATTTTTAAAAGAAAC
*
853431 TAAGCCTAATTTTTAGGGGCTTCTTGATGCTTTCAAATAAGTTGTT
66 TAAGCCTAATTTTTAGAGGCTTCTTGATGCTTTCAAATAAGTTGTT
853477 AGAAACTAAGCCTAATTTTTAG-GGGATTCTTGATAAATGATTTCCAATGAATTTTTAAAAGAAA
1 AGAAACTAAGCCTAA-TTTTAGTGGGATTCTTGATAAATGATTTCCAATGAATTTTTAAAAGAAA
*
853541 CTAAGCCTAATTTTTAGAGGTTTCTTGATG
65 CTAAGCCTAATTTTTAGAGGCTTCTTGATG
853571 ATAACTAAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
111 82 0.94
112 5 0.06
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (111 bp):
AGAAACTAAGCCTAATTTTAGTGGGATTCTTGATAAATGATTTCCAATGAATTTTTAAAAGAAAC
TAAGCCTAATTTTTAGAGGCTTCTTGATGCTTTCAAATAAGTTGTT
Found at i:854137 original size:136 final size:137
Alignment explanation
Indices: 853892--854184 Score: 410
Period size: 136 Copynumber: 2.1 Consensus size: 137
853882 TAAAACCAAT
** * *
853892 GACACCTTTCTTGAAGGATTAACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCAAC
1 GACACCTCACTTGAGGGATTAACATCTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCAAC
* *
853957 AGAGGGACAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCATGACATCTTG
66 AGAGGGACAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTATCACTCGATTCATGACATCTTG
*
854022 AATCAGC
131 AATCAAC
* * *
854029 GACACCTCACTTGAGGGATTAACA-CTTCAAATGGAGGGTTCATAATGATAAGAACTCATCTGAA
1 GACACCTCACTTGAGGGATTAACATCTTCAAATGGAGAGTTCATAATGAGAAGAACTCATC-CAA
* * * * *
854093 -AGAGGGAGAAGAAGTTCATAATGAGAAGAATTTGTTCAATCTATCGCTCGATTCATGACATTTT
65 CAGAGGGACAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTATCACTCGATTCATGACATCTT
854157 GAATCAAC
130 GAATCAAC
*
854165 GAACGCCTCACTTGAGGGAT
1 G-ACACCTCACTTGAGGGAT
854185 CGACATCTCG
Statistics
Matches: 138, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
136 98 0.71
137 40 0.29
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (137 bp):
GACACCTCACTTGAGGGATTAACATCTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCAAC
AGAGGGACAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTATCACTCGATTCATGACATCTTG
AATCAAC
Found at i:854231 original size:39 final size:39
Alignment explanation
Indices: 854189--854479 Score: 503
Period size: 39 Copynumber: 7.5 Consensus size: 39
854179 AGGGATCGAC
*
854189 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTC
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
854228 ATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
854267 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
854306 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
854345 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
854384 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* * * *
854423 ATCTTGCTTGAGATAGTTTCACTCAAAAAAAAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
* *
854461 ATCTCACTTGAGATTGTTT
1 ATCTCGCTTGAGATAGTTT
854480 TTCTTAAAAT
Statistics
Matches: 242, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
38 19 0.08
39 223 0.92
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
Found at i:856077 original size:12 final size:12
Alignment explanation
Indices: 856057--856110 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
856047 AATATAGTCC
*
856057 TTATATTTATAT
1 TTATTTTTATAT
* *
856069 TTATGTTTATGT
1 TTATTTTTATAT
* *
856081 TTATTTTTTTAC
1 TTATTTTTATAT
*
856093 TTATTTTTATTT
1 TTATTTTTATAT
856105 TTATTT
1 TTATTT
856111 GTTGTTTTAA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (12 bp):
TTATTTTTATAT
Found at i:857530 original size:20 final size:20
Alignment explanation
Indices: 857505--857573 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
857495 ATCTTCTAAA
857505 AATTGATCTGAGTTAACTTG
1 AATTGATCTGAGTTAACTTG
* *
857525 AATTGATCTGA-TTAAAATGG
1 AATTGATCTGAGTT-AACTTG
* * *
857545 GATTGGTCTGAGTCAACTTG
1 AATTGATCTGAGTTAACTTG
*
857565 AATCGATCT
1 AATTGATCT
857574 AAGTCAACTC
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
19 2 0.05
20 34 0.92
21 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (20 bp):
AATTGATCTGAGTTAACTTG
Found at i:857613 original size:20 final size:20
Alignment explanation
Indices: 857571--857615 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
857561 CTTGAATCGA
* **
857571 TCTAAGTCAACTCAAACTTG
1 TCTAAATCAACTCAAACCAG
*
857591 TCTAAATCAACTCACACCAG
1 TCTAAATCAACTCAAACCAG
857611 TCTAA
1 TCTAA
857616 CCCGTTGACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.29, G:0.07, T:0.27
Consensus pattern (20 bp):
TCTAAATCAACTCAAACCAG
Found at i:863132 original size:23 final size:23
Alignment explanation
Indices: 863088--863138 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
863078 TTTAGTTTAC
863088 TTAGGATTTTAATTATTTTATT-A
1 TTAGGATTTT-ATTATTTTATTAA
863111 TTAGGATTTT-TTATTTAATATTAA
1 TTAGGATTTTATTATTT--TATTAA
863135 TTAG
1 TTAG
863139 CAATTATGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.24
23 14 0.56
24 5 0.20
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (23 bp):
TTAGGATTTTATTATTTTATTAA
Found at i:868821 original size:26 final size:26
Alignment explanation
Indices: 868770--868823 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
868760 ACTTAGCATT
*
868770 AGTAAAGAAAATAAAGAAAACTTAAA
1 AGTAAAGAAAATAAAGAAAACATAAA
868796 AGTAAGAGAAAATAAA-AAGAA-ATAAA
1 AGTAA-AGAAAATAAAGAA-AACATAAA
868822 AG
1 AG
868824 AAAAACTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.70, C:0.02, G:0.15, T:0.13
Consensus pattern (26 bp):
AGTAAAGAAAATAAAGAAAACATAAA
Found at i:869252 original size:23 final size:23
Alignment explanation
Indices: 869222--869268 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
869212 AGAAAATAAG
869222 TGAAAACTCACAAATCAACAACA
1 TGAAAACTCACAAATCAACAACA
869245 TGAAAACTCACAAATCAACAACA
1 TGAAAACTCACAAATCAACAACA
869268 T
1 T
869269 AAACAAATCA
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:0.55, C:0.26, G:0.04, T:0.15
Consensus pattern (23 bp):
TGAAAACTCACAAATCAACAACA
Found at i:870009 original size:25 final size:25
Alignment explanation
Indices: 869955--870012 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
869945 CTGTTCGAAC
* *
869955 ATATTTTTTCTTTTCTTTTTTTTTT
1 ATATTTTTTCTTTTCTTTTTTCTAT
869980 A-ATTTTCTTC-TTTCTTTTTTCTAT
1 ATATTTT-TTCTTTTCTTTTTTCTAT
870004 ATATTTTTT
1 ATATTTTTT
870013 TTCTTTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 20 0.69
25 9 0.31
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (25 bp):
ATATTTTTTCTTTTCTTTTTTCTAT
Found at i:881434 original size:40 final size:40
Alignment explanation
Indices: 881359--881435 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
881349 AAACATTCTA
* *
881359 GATTTTATTATTTAATTAATTAGGATTCTAGTTTACTTTG
1 GATTTTATTATTTAATTAATTAGAATTCTAATTTACTTTG
*
881399 GATTTTAATTATTT-ATT-ATTAGAATTTTTAATTTACT
1 GATTTT-ATTATTTAATTAATTAGAA-TTCTAATTTACT
881436 ATTAATTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 6 0.19
40 19 0.59
41 7 0.22
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (40 bp):
GATTTTATTATTTAATTAATTAGAATTCTAATTTACTTTG
Found at i:884624 original size:34 final size:34
Alignment explanation
Indices: 884562--884626 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
884552 AAGGGGTTTT
* *
884562 GGTTCTAGCTTAGCCTGCTAAAAGCTAGGGAAAA
1 GGTTCTAGCTTAGCCCGCTAAAAACTAGGGAAAA
*
884596 GGTTCTAGTTTAGCCCG-TGAAAAACTAGGGA
1 GGTTCTAGCTTAGCCCGCT-AAAAACTAGGGA
884627 GTTGTAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 26 0.96
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (34 bp):
GGTTCTAGCTTAGCCCGCTAAAAACTAGGGAAAA
Found at i:894317 original size:18 final size:18
Alignment explanation
Indices: 894250--894355 Score: 72
Period size: 20 Copynumber: 5.6 Consensus size: 18
894240 ATCATATAAA
894250 AACCTGAATTTTTAGGTTGC
1 AACCT-AATTTTTA-GTTGC
* * *
894270 GACCTGATTTATCATA-TTGA
1 AACCTAATTT-T--TAGTTGC
*
894290 AACCTGATTTTTAGTTGC
1 AACCTAATTTTTAGTTGC
*
894308 AACCTAATTTATCATA-TTGA
1 AACCTAATTT-T--TAGTTGC
*
894328 AACCTGATTTTTAGTTGC
1 AACCTAATTTTTAGTTGC
894346 AACCTAATTT
1 AACCTAATTT
894356 ATCATATAGC
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
17 4 0.06
18 24 0.35
19 7 0.10
20 29 0.43
21 2 0.03
22 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (18 bp):
AACCTAATTTTTAGTTGC
Found at i:894318 original size:38 final size:38
Alignment explanation
Indices: 894216--894434 Score: 235
Period size: 38 Copynumber: 5.6 Consensus size: 38
894206 TTAGGAAACA
* *
894216 GATTTTTAGGTTGCAACTTGATTTATCATATAAAAACCT
1 GATTTTTA-GTTGCAACCTGATTTATCATATAGAAACCT
* *
894255 GAATTTTTAGGTTGCGACCTGATTTATCATATTGAAACCT
1 G-ATTTTTA-GTTGCAACCTGATTTATCATATAGAAACCT
* *
894295 GATTTTTAGTTGCAACCTAATTTATCATATTGAAACCT
1 GATTTTTAGTTGCAACCTGATTTATCATATAGAAACCT
* * *
894333 GATTTTTAGTTGCAACCTAATTTATCATATAGCAACTT
1 GATTTTTAGTTGCAACCTGATTTATCATATAGAAACCT
* * *
894371 GATTTTTTTTAGTTGCAACCTGATTTTTGCATATAG-AATCA
1 GA---TTTTTAGTTGCAACCTGATTTAT-CATATAGAAACCT
*
894412 GA-TTTTATGTTGCAATCTGATTT
1 GATTTTTA-GTTGCAACCTGATTT
894435 TTTTATGGGA
Statistics
Matches: 159, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
37 5 0.03
38 79 0.50
39 8 0.05
40 35 0.22
41 25 0.16
42 7 0.04
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (38 bp):
GATTTTTAGTTGCAACCTGATTTATCATATAGAAACCT
Found at i:894424 original size:79 final size:76
Alignment explanation
Indices: 894216--894426 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 76
894206 TTAGGAAACA
* * * * * * *
894216 GATTTTTAGGTTGCAACTTGATTTATCATATAAAAACCTGAATTTTTAGGTTGCGACCTGATTTA
1 GATTTTTA-GTTGCAACCTAATTTATCATATAGAAACCAG-A-TTTTATGTTGCAACCTAATTTA
*
894281 TCATATTGAAACCT
63 TCATATAGAAACCT
* *
894295 GATTTTTAGTTGCAACCTAATTTATCATATTGAAACCTGATTTT-TAGTTGCAACCTAATTTATC
1 GATTTTTAGTTGCAACCTAATTTATCATATAGAAACCAGATTTTAT-GTTGCAACCTAATTTATC
* *
894359 ATATAGCAACTT
65 ATATAGAAACCT
* * *
894371 GATTTTTTTTAGTTGCAACCTGATTTTTGCATATAG-AATCAGATTTTATGTTGCAA
1 GA---TTTTTAGTTGCAACCTAATTTAT-CATATAGAAACCAGATTTTATGTTGCAA
894427 TCTGATTTTT
Statistics
Matches: 111, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
76 31 0.28
77 1 0.01
78 27 0.24
79 45 0.41
80 7 0.06
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.43
Consensus pattern (76 bp):
GATTTTTAGTTGCAACCTAATTTATCATATAGAAACCAGATTTTATGTTGCAACCTAATTTATCA
TATAGAAACCT
Found at i:895663 original size:61 final size:64
Alignment explanation
Indices: 895542--895671 Score: 185
Period size: 63 Copynumber: 2.1 Consensus size: 64
895532 CTCTCTCTTT
* * * *
895542 CTCTCTCTCTATAGTTATAAATATTGTTTCTATCAAAGGGATTTTGTTTTCTCCCTTTTTAAC-
1 CTCTCTCTCTATAGATATAAAGACTGTTTCTATCAAAGGGATTTTGTTCTCTCCCTTTTTAACA
* *
895605 CTCTCTCTCTATAGATGTAAAGGCTGTTTCTATCAAA-GGATTTT-TTCTCTCCCTTTTTAACA
1 CTCTCTCTCTATAGATATAAAGACTGTTTCTATCAAAGGGATTTTGTTCTCTCCCTTTTTAACA
895667 CTCTC
1 CTCTC
895672 ATTTTATTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 16 0.27
62 12 0.20
63 32 0.53
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (64 bp):
CTCTCTCTCTATAGATATAAAGACTGTTTCTATCAAAGGGATTTTGTTCTCTCCCTTTTTAACA
Found at i:896891 original size:4 final size:4
Alignment explanation
Indices: 896884--896913 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
896874 GAGCTAAAAA
896884 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
896914 TATAAAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:911090 original size:22 final size:22
Alignment explanation
Indices: 911064--911113 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
911054 GAGTTAGGAT
911064 GGTTGTTCGTGCTAAGTTACAG
1 GGTTGTTCGTGCTAAGTTACAG
*
911086 GGTTGTTCGTGCTAAGTTACAT
1 GGTTGTTCGTGCTAAGTTACAG
911108 GGTTGT
1 GGTTGT
911114 AGTATTAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.16, C:0.12, G:0.32, T:0.40
Consensus pattern (22 bp):
GGTTGTTCGTGCTAAGTTACAG
Found at i:912232 original size:30 final size:29
Alignment explanation
Indices: 912169--912254 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 29
912159 TATATAAATT
* *
912169 AAAGGAC-TGAAAT-TAAATTACTAAAAAAT
1 AAAGGACAT-AAATGTAAATAAC-AAAAAAC
912198 AAAGGACATAAAT-TAAAATAACATAAAAAC
1 AAAGGACATAAATGT-AAATAACA-AAAAAC
912228 AAAGGACATAAATGTAAATAACAAAAA
1 AAAGGACATAAATGTAAATAACAAAAA
912255 TTAAAAGTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
29 17 0.33
30 33 0.65
31 1 0.02
ACGTcount: A:0.64, C:0.08, G:0.09, T:0.19
Consensus pattern (29 bp):
AAAGGACATAAATGTAAATAACAAAAAAC
Found at i:913967 original size:20 final size:20
Alignment explanation
Indices: 913926--913971 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
913916 CTAAGCCTTT
* * *
913926 AGTATCGATACTGTCTCTTG
1 AGTATCGATACTGACCCCTG
913946 AGTATCGATACTGACCCCTG
1 AGTATCGATACTGACCCCTG
913966 AGTATC
1 AGTATC
913972 AATATCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (20 bp):
AGTATCGATACTGACCCCTG
Found at i:915209 original size:21 final size:21
Alignment explanation
Indices: 915183--915223 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
915173 AAAAAAATAC
915183 TACTCCCCCTTACTTTAACAG
1 TACTCCCCCTTACTTTAACAG
915204 TACTCCCCCTTACTTTAACA
1 TACTCCCCCTTACTTTAACA
915224 CTTCTCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.39, G:0.02, T:0.34
Consensus pattern (21 bp):
TACTCCCCCTTACTTTAACAG
Found at i:917498 original size:17 final size:17
Alignment explanation
Indices: 917473--917506 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
917463 GAACCCTCAG
*
917473 GGGGTATCGATTCCCCT
1 GGGGAATCGATTCCCCT
*
917490 GGGGAATCGGTTCCCCT
1 GGGGAATCGATTCCCCT
917507 TCAAAGGGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.29, G:0.32, T:0.26
Consensus pattern (17 bp):
GGGGAATCGATTCCCCT
Found at i:917532 original size:23 final size:22
Alignment explanation
Indices: 917490--917538 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 22
917480 CGATTCCCCT
917490 GGGGAATCGGTTCCCCTTCAAAG
1 GGGGAATCGGTTCCCCTTC-AAG
**
917513 GGGGAATCGGTTCCTTTTCAAG
1 GGGGAATCGGTTCCCCTTCAAG
917535 GGGG
1 GGGG
917539 TATCTATTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.18, C:0.20, G:0.37, T:0.24
Consensus pattern (22 bp):
GGGGAATCGGTTCCCCTTCAAG
Found at i:927835 original size:20 final size:20
Alignment explanation
Indices: 927810--927856 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
927800 TAGAACCAGA
927810 TCTACCTCTTTGATTTAAGC
1 TCTACCTCTTTGATTTAAGC
927830 TCTACCTCTTTGATTTAAGC
1 TCTACCTCTTTGATTTAAGC
927850 TCTACCT
1 TCTACCT
927857 AGTCATTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.45
Consensus pattern (20 bp):
TCTACCTCTTTGATTTAAGC
Found at i:932131 original size:406 final size:406
Alignment explanation
Indices: 931379--932190 Score: 1437
Period size: 406 Copynumber: 2.0 Consensus size: 406
931369 TACATCTTGA
931379 TGAGAATTCAAAGCTTGATTTCTCACATCATGTTGTAATATGGTTAATTGATTTTGCAATTGATC
1 TGAGAATTCAAAGCTTGATTTCTCACATCATGTTGTAATATGGTTAATTGATTTTGCAATTGATC
* *
931444 TCATAATTCACCTTGAGACTTCACTATTTCTTCCAACCTCTTATCCATGATTACGATGGAGTGGT
66 TCATAAATCACCTTGAGACTTCACTATTTATTCCAACCTCTTATCCATGATTACGATGGAGTGGT
* *
931509 ATGTGAATGGATAATCTTGGTATTATTTCAACATAAACCTCTATAAATTATATTCATATTTGTAT
131 ATGTGAATGGATAATCTTAGAATTATTTCAACATAAACCTCTATAAATTATATTCATATTTGTAT
* *
931574 AATTAATGCATAGAAAATGATTAATTAAACATATGCGATGCAAATGCGTATATGCAAAAGGGTAT
196 AATTAATGCATAGAAAATGATTAATTAAACATATGCGATACAAATACGTATATGCAAAAGGGTAT
* * *
931639 CAGTCCAGAGTGGAAATCTTAAAATAATTTTCATTGAACATGAAGATTTCATTACATTAAACAAA
261 CAGTCCAGAGTGAAAATCTTAAAATAATTTTCATTGAACATAAAGATTTCATTACATCAAACAAA
931704 CTTTACAGATAAGGAATAACTTTACCTCTTAGCTTATATATATATTTCAGAAGCCAAGTTCACTT
326 CTTTACAGATAAGGAATAACTTTACCTCTTAGCTTATATATATATTTCAGAAGCCAAGTTCACTT
931769 CCAAGCATGATCTGGT
391 CCAAGCATGATCTGGT
* *
931785 TGAGAATTCAAA-TTGTGATTTCTCATATCATGTTGTAATATGGTTAATTGATTTTGCAATTGAT
1 TGAGAATTCAAAGCT-TGATTTCTCACATCATGTTGTAATATGGTTAATTGATTTTGCAATTGAT
*
931849 CTTATAAATCACCTTGAGACTTCACTATTTATTCCAACCTCTTATCCATGATTACGATGGAGTGG
65 CTCATAAATCACCTTGAGACTTCACTATTTATTCCAACCTCTTATCCATGATTACGATGGAGTGG
* *
931914 TATGTGAATGGATAATCTTAGAATTATTTCCACATAAACCTCTATAAATTATATTCATATTTTTA
130 TATGTGAATGGATAATCTTAGAATTATTTCAACATAAACCTCTATAAATTATATTCATATTTGTA
*
931979 TAATTAATGCATAGAAAATGATTAATTAAACATATGCGATACAAATACGTATATGCAAAAGGGTT
195 TAATTAATGCATAGAAAATGATTAATTAAACATATGCGATACAAATACGTATATGCAAAAGGGTA
* *
932044 TCAGTCTAGAGTGAAAATCTTAAAATAATTTTCATTGAACATAAAGGTTTCATTACATCAAACAA
260 TCAGTCCAGAGTGAAAATCTTAAAATAATTTTCATTGAACATAAAGATTTCATTACATCAAACAA
*
932109 ACTTTACAGATAAGGAATAACTTTACCTCTTAGCTTATATATCTATTTCAGAAGCCAAGTTCACT
325 ACTTTACAGATAAGGAATAACTTTACCTCTTAGCTTATATATATATTTCAGAAGCCAAGTTCACT
*
932174 TCCAAGCATGATTTGGT
390 TCCAAGCATGATCTGGT
932191 GCTGAGTTAT
Statistics
Matches: 386, Mismatches: 19, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
405 1 0.00
406 385 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (406 bp):
TGAGAATTCAAAGCTTGATTTCTCACATCATGTTGTAATATGGTTAATTGATTTTGCAATTGATC
TCATAAATCACCTTGAGACTTCACTATTTATTCCAACCTCTTATCCATGATTACGATGGAGTGGT
ATGTGAATGGATAATCTTAGAATTATTTCAACATAAACCTCTATAAATTATATTCATATTTGTAT
AATTAATGCATAGAAAATGATTAATTAAACATATGCGATACAAATACGTATATGCAAAAGGGTAT
CAGTCCAGAGTGAAAATCTTAAAATAATTTTCATTGAACATAAAGATTTCATTACATCAAACAAA
CTTTACAGATAAGGAATAACTTTACCTCTTAGCTTATATATATATTTCAGAAGCCAAGTTCACTT
CCAAGCATGATCTGGT
Found at i:944739 original size:21 final size:20
Alignment explanation
Indices: 944707--944751 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
944697 AAGTATAAAT
*
944707 ATGA-TGAATAGTGTCGATA
1 ATGATTGAATAGTATCGATA
*
944726 CTGATTGAAGTAGTATCGATA
1 ATGATTGAA-TAGTATCGATA
944747 ATGAT
1 ATGAT
944752 GTGGAGGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.14
20 4 0.19
21 14 0.67
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (20 bp):
ATGATTGAATAGTATCGATA
Found at i:945367 original size:15 final size:15
Alignment explanation
Indices: 945347--945407 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
945337 ATTAAATGAT
945347 TATGTGAATAAATGC
1 TATGTGAATAAATGC
*
945362 TATGTGAAATGAAATAC
1 TATGTG-AAT-AAATGC
* ** *
945379 TATGAGAATAGGTTC
1 TATGTGAATAAATGC
945394 TATGTGAATAAATG
1 TATGTGAATAAATG
945408 ATAAACTTGG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
15 19 0.54
16 6 0.17
17 10 0.29
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (15 bp):
TATGTGAATAAATGC
Found at i:945606 original size:24 final size:24
Alignment explanation
Indices: 945561--945606 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
945551 GAAAAATTTA
* * *
945561 TACGTGGTCCTTCATGATAAATTC
1 TACGCGGTCCTTCAGGACAAATTC
*
945585 TACGCGGTCCTTCGGGACAAAT
1 TACGCGGTCCTTCAGGACAAAT
945607 CTATCTGGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (24 bp):
TACGCGGTCCTTCAGGACAAATTC
Found at i:961069 original size:25 final size:24
Alignment explanation
Indices: 961029--961124 Score: 90
Period size: 24 Copynumber: 4.0 Consensus size: 24
961019 TTATACGCGA
*
961029 TCCTTCGGGACCAATTTCTATGTGG
1 TCCTTCGGGA-CAAATTCTATGTGG
* * *
961054 TCCTTCGGGAAAAATTCTACGCGG
1 TCCTTCGGGACAAATTCTATGTGG
*
961078 TCCTTTGGGACAAA-TCTATGTGG
1 TCCTTCGGGACAAATTCTATGTGG
*
961101 -CACTTCGGTG-CATATTCTATGTGG
1 TC-CTTCGG-GACAAATTCTATGTGG
961125 CACTACGATA
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
22 1 0.02
23 15 0.26
24 32 0.55
25 10 0.17
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (24 bp):
TCCTTCGGGACAAATTCTATGTGG
Found at i:961145 original size:24 final size:24
Alignment explanation
Indices: 961094--961145 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
961084 GGGACAAATC
* * * * *
961094 TATGTGGCACTTCGGTGCATATTC
1 TATGTGGCACTACGATACAAATTA
961118 TATGTGGCACTACGATACAAATTA
1 TATGTGGCACTACGATACAAATTA
961142 TATG
1 TATG
961146 AGCAGTGGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (24 bp):
TATGTGGCACTACGATACAAATTA
Found at i:966739 original size:64 final size:64
Alignment explanation
Indices: 966670--966877 Score: 201
Period size: 65 Copynumber: 3.2 Consensus size: 64
966660 TGCACTAAGA
* * * *
966670 GTGCATCGATGTATAAAATGCAATCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGG-CT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATACCCTGAGTGCATCGATGCATGGTAT
* * *
966733 GTTGCATTGATGCATTAAATGCATTTGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCATGGT
1 G-TGCATCGATGCATAAAATGCATTCGATG-TTTCA-AAATACCCTGAGTGCATCGATGCATGGT
966797 AT
63 AT
* * * * *
966799 GTGCATCGATGCATGAAATACATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGG-A
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA--AATACCCTGAGTGCATCGATGCATGGTA
966861 TT
64 -T
*
966863 GGTGCATCGGTGCAT
1 -GTGCATCGATGCAT
966878 CACTTTGAAA
Statistics
Matches: 121, Mismatches: 15, Indels: 16
0.80 0.10 0.11
Matches are distributed among these distances:
62 1 0.01
63 6 0.05
64 41 0.34
65 68 0.56
66 5 0.04
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATACCCTGAGTGCATCGATGCATGGTAT
Found at i:969548 original size:23 final size:21
Alignment explanation
Indices: 969519--969619 Score: 87
Period size: 23 Copynumber: 4.6 Consensus size: 21
969509 GCATGGCCTT
969519 GTGCATCGATGCACATTCAAG
1 GTGCATCGATGCACATTCAAG
* *
969540 GCTTGCATCGGTGCACATTCACG
1 G--TGCATCGATGCACATTCAAG
*
969563 GTGTATCGATGCACATTCAAGAG
1 GTGCATCGATGCACATTC-A-AG
* **
969586 GATGCATCGATACAC-TTTTAG
1 G-TGCATCGATGCACATTCAAG
*
969607 GTGTATCGATGCA
1 GTGCATCGATGCA
969620 TTAAGCACAA
Statistics
Matches: 64, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
20 10 0.16
21 19 0.30
22 1 0.02
23 23 0.36
24 11 0.17
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (21 bp):
GTGCATCGATGCACATTCAAG
Found at i:969573 original size:44 final size:44
Alignment explanation
Indices: 969523--969619 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
969513 GGCCTTGTGC
* * *
969523 ATCGATGCACATTCAAG-GCTTGCATCGGTGCACATTCACGGTGT
1 ATCGATGCACATTCAAGAGCATGCATCGATACACATTCA-GGTGT
* * *
969567 ATCGATGCACATTCAAGAGGATGCATCGATACACTTTTAGGTGT
1 ATCGATGCACATTCAAGAGCATGCATCGATACACATTCAGGTGT
969611 ATCGATGCA
1 ATCGATGCA
969620 TTAAGCACAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 31 0.67
45 15 0.33
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (44 bp):
ATCGATGCACATTCAAGAGCATGCATCGATACACATTCAGGTGT
Found at i:973524 original size:46 final size:45
Alignment explanation
Indices: 973419--973525 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
973409 GGTGCACTAA
* *
973419 GAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAAAACCCT
* *
973464 GAGTGCATCAATGCATCAAATGCATTCGATGTTTTCAAAAAACCCT
1 GAGTGCATCGATGCATAAAATGCATTCGATG-TTTCAAAAAACCCT
*
973510 GAGTGCATTGATGCAT
1 GAGTGCATCGATGCAT
973526 GGTAAGTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
45 29 0.53
46 26 0.47
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (45 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAAAACCCT
Found at i:974904 original size:30 final size:30
Alignment explanation
Indices: 974852--974964 Score: 156
Period size: 30 Copynumber: 3.8 Consensus size: 30
974842 TCATTCCCTA
* *
974852 TTCTAACATCTGTCTGGGATAAACTCCATG
1 TTCTGACATCTGTATGGGATAAACTCCATG
* *
974882 TTCTGACATTTGTATTGGATAAACTCCATG
1 TTCTGACATCTGTATGGGATAAACTCCATG
*
974912 TTCTGACATCTGTATGGGATAAACTCCCTG
1 TTCTGACATCTGTATGGGATAAACTCCATG
*
974942 TT-TCGACATCTGCATGGGATAAA
1 TTCT-GACATCTGTATGGGATAAA
974965 TTCCCTATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 1 0.01
30 73 0.99
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (30 bp):
TTCTGACATCTGTATGGGATAAACTCCATG
Found at i:974950 original size:60 final size:60
Alignment explanation
Indices: 974852--974983 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 60
974842 TCATTCCCTA
* * * *
974852 TTCTAACATCTGTCTGGGATAAACTCCATGTTCTGACATTTGTATTGGATAAACTCCATG
1 TTCTAACATCTGTATGGGATAAACTCCATGTTCTGACATCTGCATGGGATAAACTCCATG
* * * * *
974912 TTCTGACATCTGTATGGGATAAACTCCCTGTT-TCGACATCTGCATGGGATAAATTCCCTA
1 TTCTAACATCTGTATGGGATAAACTCCATGTTCT-GACATCTGCATGGGATAAACTCCATG
*
974972 TTTTAACATCTG
1 TTCTAACATCTG
974984 CATGAGATTA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 1 0.02
60 59 0.98
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (60 bp):
TTCTAACATCTGTATGGGATAAACTCCATGTTCTGACATCTGCATGGGATAAACTCCATG
Found at i:974970 original size:30 final size:30
Alignment explanation
Indices: 974852--974987 Score: 141
Period size: 30 Copynumber: 4.5 Consensus size: 30
974842 TCATTCCCTA
*
974852 TTCTAACATCTGTC-TGGGATAAACTCCATG
1 TTCTGACATCTG-CATGGGATAAACTCCATG
* * *
974882 TTCTGACATTTGTATTGGATAAACTCCATG
1 TTCTGACATCTGCATGGGATAAACTCCATG
* *
974912 TTCTGACATCTGTATGGGATAAACTCCCTG
1 TTCTGACATCTGCATGGGATAAACTCCATG
* * *
974942 TT-TCGACATCTGCATGGGATAAATTCCCTA
1 TTCT-GACATCTGCATGGGATAAACTCCATG
* *
974972 TTTTAACATCTGCATG
1 TTCTGACATCTGCATG
974988 AGATTATATC
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.01
30 90 0.98
31 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (30 bp):
TTCTGACATCTGCATGGGATAAACTCCATG
Found at i:976693 original size:17 final size:16
Alignment explanation
Indices: 976671--976745 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 16
976661 TAGATTAATA
976671 AATGAACTAGTTTGATG
1 AATGAACTAGTTT-ATG
* *
976688 AATGAACTAGTTCAATT
1 AATGAACTAGTT-TATG
*
976705 AATGAACTAGCTTTATTC
1 AATGAACTAG-TTTA-TG
*
976723 AATGAACTAGATTCATG
1 AATGAACTAG-TTTATG
976740 AATGAA
1 AATGAA
976746 GTATCTTACT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
17 32 0.67
18 16 0.33
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (16 bp):
AATGAACTAGTTTATG
Found at i:976732 original size:35 final size:34
Alignment explanation
Indices: 976661--976745 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 34
976651 AATTAAGAAT
* * *
976661 TAGATTAATAAATGAACTAGTTTGATGAATGAAC
1 TAGATTCATGAATGAACTAGTTTGATCAATGAAC
*
976695 TAG-TTCAATTAATGAACTAGCTTT-ATTCAATGAAC
1 TAGATTC-ATGAATGAACTAG-TTTGA-TCAATGAAC
976730 TAGATTCATGAATGAA
1 TAGATTCATGAATGAA
976746 GTATCTTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
33 2 0.05
34 16 0.37
35 22 0.51
36 3 0.07
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.34
Consensus pattern (34 bp):
TAGATTCATGAATGAACTAGTTTGATCAATGAAC
Found at i:977546 original size:18 final size:18
Alignment explanation
Indices: 977515--977549 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
977505 AACAAAATAG
**
977515 AAAATAATTTAATATTTC
1 AAAATAATAAAATATTTC
977533 AAAATAATAAAATATTT
1 AAAATAATAAAATATTT
977550 ATTCAATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATAATAAAATATTTC
Found at i:983953 original size:23 final size:21
Alignment explanation
Indices: 983922--983964 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
983912 GAGTCAAAAT
983922 ATAAGAAAATGTAATACTTCAAA
1 ATAAGAAAATGT-ATA-TTCAAA
*
983945 ATAATAAAATGTATATTCAA
1 ATAAGAAAATGTATATTCAA
983965 TTAAAACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
ATAAGAAAATGTATATTCAAA
Found at i:986199 original size:8 final size:8
Alignment explanation
Indices: 986188--986232 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
986178 TTCCAAACAA
986188 CCAAATAT
1 CCAAATAT
986196 CCAAATAT
1 CCAAATAT
986204 CCAAA-A-
1 CCAAATAT
*
986210 -CAAACAT
1 CCAAATAT
986217 CCAAATAT
1 CCAAATAT
*
986225 TCAAATAT
1 CCAAATAT
986233 ATAAATTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 4 0.12
6 1 0.03
7 1 0.03
8 26 0.81
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.22
Consensus pattern (8 bp):
CCAAATAT
Found at i:986218 original size:21 final size:21
Alignment explanation
Indices: 986189--986229 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
986179 TCCAAACAAC
*
986189 CAAATATCCAAATATCCAAAA
1 CAAACATCCAAATATCCAAAA
*
986210 CAAACATCCAAATATTCAAA
1 CAAACATCCAAATATCCAAA
986230 TATATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (21 bp):
CAAACATCCAAATATCCAAAA
Found at i:988182 original size:20 final size:21
Alignment explanation
Indices: 988157--988208 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
988147 CTTGACAGGA
*
988157 GGTATCGGTAC-CCCTCAAGG
1 GGTATCGGTACACACTCAAGG
* *
988177 GGTATCGATACACATTCAAGG
1 GGTATCGGTACACACTCAAGG
*
988198 TGTATCGGTAC
1 GGTATCGGTAC
988209 TGTTAAGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (21 bp):
GGTATCGGTACACACTCAAGG
Found at i:989496 original size:24 final size:23
Alignment explanation
Indices: 989469--989517 Score: 75
Period size: 21 Copynumber: 2.2 Consensus size: 23
989459 AGAACCAAAT
989469 ATTATATCATCAGTATAAATTTGA
1 ATTATA-CATCAGTATAAATTTGA
989493 A-T-TACATCAGTATAAATTTGA
1 ATTATACATCAGTATAAATTTGA
989514 ATTA
1 ATTA
989518 CCAATAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 18 0.78
22 3 0.13
23 1 0.04
24 1 0.04
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (23 bp):
ATTATACATCAGTATAAATTTGA
Found at i:989502 original size:21 final size:21
Alignment explanation
Indices: 989476--989518 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
989466 AATATTATAT
989476 CATCAGTATAAATTTGAATTA
1 CATCAGTATAAATTTGAATTA
989497 CATCAGTATAAATTTGAATTA
1 CATCAGTATAAATTTGAATTA
989518 C
1 C
989519 CAATAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (21 bp):
CATCAGTATAAATTTGAATTA
Found at i:991976 original size:20 final size:20
Alignment explanation
Indices: 991934--991976 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
991924 TTGAAAGAAG
* *
991934 TTTTAAGATCATCAATTTTC
1 TTTTAAGATCATCAATATAC
991954 TTTTAATGATCATC-ATATAC
1 TTTTAA-GATCATCAATATAC
991974 TTT
1 TTT
991977 AGAAAGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTAAGATCATCAATATAC
Found at i:993112 original size:21 final size:21
Alignment explanation
Indices: 993086--993128 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
993076 CACATGTCTG
*
993086 AATCTGTGGATGGTTCAGAGT
1 AATCTGTGGATAGTTCAGAGT
993107 AATCTGTGGATAGTTCAGAGT
1 AATCTGTGGATAGTTCAGAGT
993128 A
1 A
993129 TCCTCTCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (21 bp):
AATCTGTGGATAGTTCAGAGT
Found at i:995889 original size:21 final size:21
Alignment explanation
Indices: 995864--995903 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
995854 GAGAAATTGT
995864 TTTCAAAATAT-AAAAATGATG
1 TTTCAAAAT-TGAAAAATGATG
995885 TTTCAAAATTGAAAAATGA
1 TTTCAAAATTGAAAAATGA
995904 AAACAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.33
Consensus pattern (21 bp):
TTTCAAAATTGAAAAATGATG
Found at i:999745 original size:21 final size:22
Alignment explanation
Indices: 999710--999790 Score: 87
Period size: 21 Copynumber: 3.8 Consensus size: 22
999700 TTTGTGCAGA
999710 GGGAATCGA-TCCCCCCATGA-
1 GGGAATCGATTCCCCCCATGAG
**
999730 GGGAATCGATTCCCCCTTTGAAG
1 GGGAATCGATTCCCCCCATG-AG
* *
999753 GGGAACCGATTCCCCCCA-CAG
1 GGGAATCGATTCCCCCCATGAG
*
999774 GGGAATCGATACCCCCC
1 GGGAATCGATTCCCCCC
999791 TGGGGTTCTG
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
20 9 0.18
21 25 0.50
22 1 0.02
23 15 0.30
ACGTcount: A:0.23, C:0.36, G:0.25, T:0.16
Consensus pattern (22 bp):
GGGAATCGATTCCCCCCATGAG
Found at i:1000176 original size:20 final size:22
Alignment explanation
Indices: 1000153--1000192 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1000143 AAAACACAAG
1000153 AATTTTTC-AAA-AAAAAAATT
1 AATTTTTCGAAATAAAAAAATT
1000173 AATTTTTCGAAATAAAAAAA
1 AATTTTTCGAAATAAAAAAA
1000193 ATGTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (22 bp):
AATTTTTCGAAATAAAAAAATT
Found at i:1003815 original size:18 final size:18
Alignment explanation
Indices: 1003792--1003882 Score: 102
Period size: 18 Copynumber: 5.2 Consensus size: 18
1003782 ACCGGTCACA
*
1003792 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
1003810 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
1003827 ----GACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1003841 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
1003859 ACTCGACCCATTGACCCGTTG
1 ACCCGACCC---GACCCGTTG
1003880 ACC
1 ACC
1003883 GTTGACCACT
Statistics
Matches: 63, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
13 13 0.21
18 39 0.62
21 11 0.17
ACGTcount: A:0.18, C:0.47, G:0.20, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:1003833 original size:31 final size:31
Alignment explanation
Indices: 1003796--1003876 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
1003786 GTCACAACCC
*
1003796 GACCCGACCCGTTTACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
1003827 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
* *
1003858 GACTCGACCCATTGACCCG
1 GACCCGACCCGTTGACCCG
1003877 TTGACCGTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.17, C:0.47, G:0.21, T:0.15
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:1003867 original size:13 final size:13
Alignment explanation
Indices: 1003814--1003850 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
1003804 CCGTTTACCC
1003814 GACCCGACCCGTT
1 GACCCGACCCGTT
1003827 GACCCGACCCGTT
1 GACCCGACCCGTT
1003840 GACCCGACCCG
1 GACCCGACCCG
1003851 ACCCGTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.49, G:0.24, T:0.11
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1005195 original size:18 final size:18
Alignment explanation
Indices: 1005169--1005203 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1005159 TCGAAAGGAC
*
1005169 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1005187 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
1005204 CGGATGGAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1009004 original size:18 final size:18
Alignment explanation
Indices: 1008981--1009040 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
1008971 ACCGGTCACA
*
1008981 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
1008999 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
1009017 ACTCGACCCGTTGACCCGTTG
1 ACCCGACCC---GACCCGTTG
1009038 ACC
1 ACC
1009041 GTTGACCACT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 25 0.69
21 11 0.31
ACGTcount: A:0.17, C:0.47, G:0.20, T:0.17
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:1009023 original size:13 final size:13
Alignment explanation
Indices: 1009007--1009031 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1008997 TTACCCGACC
1009007 CGACCCGTTGACT
1 CGACCCGTTGACT
1009020 CGACCCGTTGAC
1 CGACCCGTTGAC
1009032 CCGTTGACCG
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:0.16, C:0.40, G:0.24, T:0.20
Consensus pattern (13 bp):
CGACCCGTTGACT
Found at i:1009044 original size:15 final size:17
Alignment explanation
Indices: 1009024--1009057 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
1009014 TTGACTCGAC
1009024 CCGTTGACC-C-GTTGA
1 CCGTTGACCACTGTTGA
1009039 CCGTTGACCACTGTTGA
1 CCGTTGACCACTGTTGA
1009056 CC
1 CC
1009058 AAAACTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 1 0.06
17 7 0.41
ACGTcount: A:0.15, C:0.35, G:0.24, T:0.26
Consensus pattern (17 bp):
CCGTTGACCACTGTTGA
Found at i:1010353 original size:18 final size:18
Alignment explanation
Indices: 1010327--1010361 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1010317 TCGAAAGGAC
*
1010327 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1010345 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
1010362 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1016107 original size:12 final size:12
Alignment explanation
Indices: 1016090--1016142 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
1016080 AGAATTCTAG
1016090 TTATATATTATA
1 TTATATATTATA
1016102 TTATATA-TATA
1 TTATATATTATA
*
1016113 ATATAATATTTATA
1 TTAT-ATA-TTATA
*
1016127 TTATATGTTATA
1 TTATATATTATA
1016139 TTAT
1 TTAT
1016143 CTACTTGGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
11 7 0.20
12 19 0.54
13 2 0.06
14 7 0.20
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (12 bp):
TTATATATTATA
Found at i:1016108 original size:14 final size:14
Alignment explanation
Indices: 1016091--1016132 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
1016081 GAATTCTAGT
1016091 TATATATTATATTA
1 TATATATTATATTA
*
1016105 TATATATAATA-TA
1 TATATATTATATTA
1016118 -ATAT-TTATATTA
1 TATATATTATATTA
1016130 TAT
1 TAT
1016133 GTTATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 4 0.17
12 6 0.25
13 4 0.17
14 10 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATATATTATATTA
Found at i:1016110 original size:16 final size:16
Alignment explanation
Indices: 1016091--1016132 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
1016081 GAATTCTAGT
1016091 TATATATTATAT--TA
1 TATATATTATATAATA
*
1016105 TATATATAATATAATA
1 TATATATTATATAATA
*
1016121 TTTATATTATAT
1 TATATATTATAT
1016133 GTTATATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
16 12 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATTATATAATA
Found at i:1036388 original size:19 final size:18
Alignment explanation
Indices: 1036333--1036376 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1036323 TAATGAAATT
**
1036333 AAATAAATAATAA-ATACT
1 AAATAAATAATAAGA-AGA
1036351 AAATAAATAATAAGAAGA
1 AAATAAATAATAAGAAGA
1036369 AAATAAAT
1 AAATAAAT
1036377 TAAGTAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAAATAATAAGAAGA
Found at i:1038654 original size:21 final size:19
Alignment explanation
Indices: 1038608--1038661 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
1038598 CTTTCATGAC
1038608 ATTCTAAGATATTCATCAAA
1 ATTC-AAGATATTCATCAAA
* *
1038628 ACTCAAGATATTCAATAGAAA
1 ATTCAAGATATTC-AT-CAAA
*
1038649 ATTCAACATATTC
1 ATTCAAGATATTC
1038662 TAACTAAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 9 0.32
20 5 0.18
21 14 0.50
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (19 bp):
ATTCAAGATATTCATCAAA
Found at i:1039289 original size:26 final size:27
Alignment explanation
Indices: 1039260--1039322 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
1039250 ATGGTATACC
1039260 TAAAAAATATAAAG-AAAAATAAAT-AA
1 TAAAAAATATAAAGTAAAAA-AAATAAA
* * *
1039286 TAAAATATTTAAAGTAAACAAAATAAA
1 TAAAAAATATAAAGTAAAAAAAATAAA
1039313 TAAATAAATA
1 TAAA-AAATA
1039323 ATAATAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 16 0.55
27 10 0.34
28 3 0.10
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (27 bp):
TAAAAAATATAAAGTAAAAAAAATAAA
Found at i:1042775 original size:26 final size:26
Alignment explanation
Indices: 1042746--1042806 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
1042736 TTAATGAATA
* *
1042746 TTTAATTAAAAATATTTAAATAAGGT
1 TTTAATTAAAAATAGTTAAATAAGAT
* ***
1042772 TTTATTTTGGAATAGTTAAATAAGAT
1 TTTAATTAAAAATAGTTAAATAAGAT
1042798 TTTAATTAA
1 TTTAATTAA
1042807 TTTTGAATTA
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (26 bp):
TTTAATTAAAAATAGTTAAATAAGAT
Found at i:1043587 original size:29 final size:30
Alignment explanation
Indices: 1043553--1043624 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
1043543 AATAAAAGTT
* *
1043553 AATAAAAAATAAATACTAAATAAATAC-TA
1 AATAAAAAATAAAGACAAAATAAATACATA
*
1043582 AATAAAAAATAAAGAGAAAATAAATACATTA
1 AATAAAAAATAAAGACAAAATAAATACA-TA
*
1043613 AATAAAATATAA
1 AATAAAAAATAA
1043625 GAATTCAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 24 0.65
31 13 0.35
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (30 bp):
AATAAAAAATAAAGACAAAATAAATACATA
Found at i:1044233 original size:13 final size:13
Alignment explanation
Indices: 1044209--1044245 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1044199 TTTAGCATTG
1044209 TGAAACGAAAACAA
1 TGAAA-GAAAACAA
1044223 TGAAAGAAAACAA
1 TGAAAGAAAACAA
*
1044236 AGAAAGAAAA
1 TGAAAGAAAA
1044246 TGGAGATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.70, C:0.08, G:0.16, T:0.05
Consensus pattern (13 bp):
TGAAAGAAAACAA
Found at i:1065330 original size:12 final size:12
Alignment explanation
Indices: 1065313--1065338 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1065303 ACGGATTCAC
1065313 CTGAATTTGATT
1 CTGAATTTGATT
1065325 CTGAATTTGATT
1 CTGAATTTGATT
1065337 CT
1 CT
1065339 AGATATGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (12 bp):
CTGAATTTGATT
Found at i:1073887 original size:20 final size:21
Alignment explanation
Indices: 1073839--1073911 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
1073829 AAGTGAACTC
1073839 AGTATCGATACCC--CTCATATG
1 AGTATCGATACCCAGCT-A-ATG
* *
1073860 ACTATCGATACCCAGCTAGT-
1 AGTATCGATACCCAGCTAATG
*
1073880 AGTATCGATACCCTGCTAATG
1 AGTATCGATACCCAGCTAATG
*
1073901 AGTAGCGATAC
1 AGTATCGATAC
1073912 TTCTAGCCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
20 17 0.40
21 23 0.53
22 1 0.02
23 2 0.05
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (21 bp):
AGTATCGATACCCAGCTAATG
Found at i:1073909 original size:21 final size:20
Alignment explanation
Indices: 1073865--1073911 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
1073855 ATATGACTAT
* *
1073865 CGATACCCAGCTAGTAGTAT
1 CGATACCCAGCTAATAGTAG
*
1073885 CGATACCCTGCTAATGAGTAG
1 CGATACCCAGCTAAT-AGTAG
1073906 CGATAC
1 CGATAC
1073912 TTCTAGCCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (20 bp):
CGATACCCAGCTAATAGTAG
Found at i:1079804 original size:110 final size:110
Alignment explanation
Indices: 1079604--1079807 Score: 268
Period size: 110 Copynumber: 1.9 Consensus size: 110
1079594 GAAGGGTTCC
* * * **
1079604 TAATTAGAAGAATTCATCAGATGACAGAGAATAAGTTCTTAATGAGAAGAATTTATTCAACCTTG
1 TAATGAGAAGAACTCATCAGATGACAGAGAATAAGTTCTTAATGAGAAGAACTTATTCAACCTCA
*
1079669 GCTCATCCATCACATAAGAAGTTGGATCATTATTTTCTAGTGGAA
66 GCTCATACATCACATAAGAAGTTGGATCATTATTTTCTAGTGGAA
** * *
1079714 TAATGAGAAGAACTCATCCA-ATGAGGGAGAATAAGTTCTTAATGAGAAGACCTTGTTCAACCTC
1 TAATGAGAAGAACTCAT-CAGATGACAGAGAATAAGTTCTTAATGAGAAGAACTTATTCAACCTC
* *
1079778 ATCTCGTACATCACATAAAGAA-TTGGATCA
65 AGCTCATACATCACAT-AAGAAGTTGGATCA
1079808 GTATCACTCT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
110 73 0.91
111 7 0.09
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (110 bp):
TAATGAGAAGAACTCATCAGATGACAGAGAATAAGTTCTTAATGAGAAGAACTTATTCAACCTCA
GCTCATACATCACATAAGAAGTTGGATCATTATTTTCTAGTGGAA
Found at i:1080196 original size:21 final size:21
Alignment explanation
Indices: 1080172--1080235 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
1080162 GCAAATTCGC
1080172 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
** *
1080193 GTTG-AGAATCGCGTTGCGCT-
1 GTTGCA-TTTCGCGTTGCGATA
* *
1080213 TTTCCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
1080234 GT
1 GT
1080236 CTACAGTTGT
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.14, C:0.20, G:0.28, T:0.38
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:1080410 original size:19 final size:19
Alignment explanation
Indices: 1080386--1080454 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 19
1080376 CAACGAATTT
1080386 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
* * **
1080405 TCGCAACGACAACTGTAGACTA
1 TCGCAACG--AA-TTTGGAAAA
1080427 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
1080446 TCGCAACGA
1 TCGCAACGA
1080455 CAACTGTAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 22 0.56
20 2 0.05
21 2 0.05
22 13 0.33
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:1080431 original size:41 final size:41
Alignment explanation
Indices: 1080386--1080475 Score: 180
Period size: 41 Copynumber: 2.2 Consensus size: 41
1080376 CAACGAATTT
1080386 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1080427 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1080468 TCGCAACG
1 TCGCAACG
1080476 CGAAATGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (41 bp):
TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
Found at i:1080432 original size:22 final size:22
Alignment explanation
Indices: 1080404--1080475 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
1080394 AATTTGGAAA
1080404 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
1080426 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
1080445 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
1080467 ATCGCAACG
1 ATCGCAACG
1080476 CGAAATGAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 22 0.56
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:1080486 original size:41 final size:41
Alignment explanation
Indices: 1080386--1080495 Score: 168
Period size: 41 Copynumber: 2.7 Consensus size: 41
1080376 CAACGAATTT
*
1080386 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATATGGAAAATCGCAACGACAACTGTAGACTA
*
1080427 TCGCAACGAATTTGGAAAATCGCAACGACAACTGTAGACTA
1 TCGCAACGAATATGGAAAATCGCAACGACAACTGTAGACTA
*
1080468 TCGCAACGCGAA-ATGAAAAATCGCAACG
1 TCGCAA--CGAATATGGAAAATCGCAACG
1080496 CGATTTTCAA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
41 47 0.72
42 14 0.22
43 4 0.06
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (41 bp):
TCGCAACGAATATGGAAAATCGCAACGACAACTGTAGACTA
Found at i:1084318 original size:140 final size:141
Alignment explanation
Indices: 1084021--1084533 Score: 513
Period size: 140 Copynumber: 3.7 Consensus size: 141
1084011 ATTTATAGGA
* * * * *
1084021 ATATTCAATTTGGACCTCGCCTTAATGCCCG-GTGTTCCATTTTGATTATTCAATTCAATAATTG
1 ATATTCGATTTGGTCCTCGCATTAATGCCCGAGGGTTCCATTTCGATTATTCAATTCAATAATTG
* * * * * * ** *
1084085 ATT-AAATTAATTAGGATTAATAATTAGAGCCTTTAATTCATATGAATTAAACTTTTACT-ACTT
66 ATTAAAATAAATTAGGATTAATGATTAGAGCCTATACTTTATATTAATTTCACTTTTAGTCA-TT
*
1084148 TAATATAGG-GG
130 TAATTTAGGTGG
* * *
1084159 AATATTCAATTTGGCCCTCGCATTAATGCCCGAGGGTT-CATTTCGATTATTCGATTCAATAATT
1 -ATATTCGATTTGGTCCTCGCATTAATGCCCGAGGGTTCCATTTCGATTATTCAATTCAATAATT
* * *
1084223 GTTTAAAATAAATTAAGATTAATGATTAAAGCCTATACTTTATATTAATTTCACTTTTAGTCATT
65 GATTAAAATAAATTAGGATTAATGATTAGAGCCTATACTTTATATTAATTTCACTTTTAGTCATT
1084288 TAATTTAGGTGG
130 TAATTTAGGTGG
* * ** * **
1084300 ATATTTGATTTGGTCCTCGCTTTAATGTTCGAGGG-TCCATTTTGATTATTTGATTCAATAATTG
1 ATATTCGATTTGGTCCTCGCATTAATGCCCGAGGGTTCCATTTCGATTATTCAATTCAATAATTG
* * * * * * *
1084364 GTTAAAATCAATTAGGATTAATGATTAGAGTCTATACCTTAAATTAATTTCACCTTTAGTCCTTT
66 ATTAAAATAAATTAGGATTAATGATTAGAGCCTATACTTTATATTAATTTCACTTTTAGTCATTT
* *
1084429 AATTTATGTGA
131 AATTTAGGTGG
** * * * *
1084440 ATGCTCGATTTGATCCTCGTATTAATGCTCGA-GGTTCCATTTCGATTATTCAATTCCATAATTT
1 ATATTCGATTTGGTCCTCGCATTAATGCCCGAGGGTTCCATTTCGATTATTCAATTCAATAA-TT
* **
1084504 G-CTAAAATATGTTTAGGATTAAT-ATTAGAG
65 GATTAAAATA-AATTAGGATTAATGATTAGAG
1084534 GCTACATTTT
Statistics
Matches: 314, Mismatches: 52, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
139 59 0.19
140 238 0.76
141 17 0.05
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (141 bp):
ATATTCGATTTGGTCCTCGCATTAATGCCCGAGGGTTCCATTTCGATTATTCAATTCAATAATTG
ATTAAAATAAATTAGGATTAATGATTAGAGCCTATACTTTATATTAATTTCACTTTTAGTCATTT
AATTTAGGTGG
Found at i:1091625 original size:18 final size:19
Alignment explanation
Indices: 1091584--1091627 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1091574 TTTTTAATAT
*
1091584 TAAAAAATAATTTTACAAA
1 TAAAAAATAATATTACAAA
1091603 TAAAAAATAA-ATTA-AAA
1 TAAAAAATAATATTACAAA
1091620 TGAAAAAA
1 T-AAAAAA
1091628 AACGTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 9 0.39
19 10 0.43
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
TAAAAAATAATATTACAAA
Found at i:1092400 original size:17 final size:17
Alignment explanation
Indices: 1092375--1092414 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
1092365 GAGTCTCACT
* *
1092375 GAGAGCAATTCATAACG
1 GAGATCAATTCATAACA
1092392 GAGATCAATTCATAACA
1 GAGATCAATTCATAACA
1092409 GAGATC
1 GAGATC
1092415 TTCCGCGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (17 bp):
GAGATCAATTCATAACA
Found at i:1094433 original size:22 final size:21
Alignment explanation
Indices: 1094408--1094457 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
1094398 ATTTATTTTA
*
1094408 TAAAAAAGCTTTACGTAAATAT
1 TAAAAAA-CTTAACGTAAATAT
* *
1094430 TAAAATACTTAACGTCAATAT
1 TAAAAAACTTAACGTAAATAT
*
1094451 GAAAAAA
1 TAAAAAA
1094458 ATAAAATACT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (21 bp):
TAAAAAACTTAACGTAAATAT
Found at i:1095252 original size:18 final size:18
Alignment explanation
Indices: 1095229--1095264 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1095219 TTATGTAATT
*
1095229 TTTTAAAAAATAATATAA
1 TTTTAAAAAATAAAATAA
*
1095247 TTTTAAAATATAAAATAA
1 TTTTAAAAAATAAAATAA
1095265 ATATAGGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTTTAAAAAATAAAATAA
Found at i:1108281 original size:116 final size:116
Alignment explanation
Indices: 1108072--1108284 Score: 311
Period size: 116 Copynumber: 1.8 Consensus size: 116
1108062 ATATCTGCCG
* * * * *
1108072 CATCCATCTAAAAAATTAAGCAACAGGTTTAGGTATGTTGTTTTCCTTAACAAATATATCACATT
1 CATCAATCTAAAAAATTAAACAACACGTGTAGGTATGTTGTTTCCCTTAACAAATATATCACATT
* * *
1108137 TATCTGCACGACATATATATCGGAACACCACGACTTCCACATATTTGCCCA
66 TATCAGCACGACACATATATCAGAACACCACGACTTCCACATATTTGCCCA
* *
1108188 CATCAATCTAAAAAATTAAACAACACGTGTAGGTATGTTGTTTCCCTTAACAAGTGTATCACATA
1 CATCAATCTAAAAAATTAAACAACACGTGTAGGTATGTTGTTTCCCTTAACAAATATATCACAT-
*
1108253 TT-TCAGCACGACACATATATTAGAACACCACG
65 TTATCAGCACGACACATATATCAGAACACCACG
1108285 GCCAATAAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
116 83 0.98
117 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.30
Consensus pattern (116 bp):
CATCAATCTAAAAAATTAAACAACACGTGTAGGTATGTTGTTTCCCTTAACAAATATATCACATT
TATCAGCACGACACATATATCAGAACACCACGACTTCCACATATTTGCCCA
Found at i:1117594 original size:21 final size:20
Alignment explanation
Indices: 1117546--1117594 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
1117536 CATATCATTT
*
1117546 TTATTTTACTTTCATTTTTA
1 TTATTTTACTTTCATTTTCA
* *
1117566 TTAGTTTTACTTGTTATTTTCC
1 TTA-TTTTACTT-TCATTTTCA
1117588 TTATTTT
1 TTATTTT
1117595 TTTCAGGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 12 0.50
22 9 0.38
ACGTcount: A:0.16, C:0.10, G:0.04, T:0.69
Consensus pattern (20 bp):
TTATTTTACTTTCATTTTCA
Found at i:1126616 original size:13 final size:12
Alignment explanation
Indices: 1126584--1126617 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1126574 AATTCCGTTA
*
1126584 TATTTTTATTTT
1 TATTTTTTTTTT
*
1126596 TATTTTTTCTTT
1 TATTTTTTTTTT
1126608 TATTTTTTTT
1 TATTTTTTTT
1126618 CCGATTAAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (12 bp):
TATTTTTTTTTT
Found at i:1127500 original size:17 final size:19
Alignment explanation
Indices: 1127478--1127515 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1127468 AAAAAAAAAC
1127478 AAAAAG-CAG-CTGTTCGA
1 AAAAAGACAGACTGTTCGA
*
1127495 AAAAAGAGAGACTGTTCGA
1 AAAAAGACAGACTGTTCGA
1127514 AA
1 AA
1127516 GAAAAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.47, C:0.13, G:0.24, T:0.16
Consensus pattern (19 bp):
AAAAAGACAGACTGTTCGA
Found at i:1132076 original size:12 final size:11
Alignment explanation
Indices: 1132061--1132096 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
1132051 AATTCTGTTA
1132061 TATTTTTATTTT
1 TATTTTT-TTTT
1132073 TATTTTTTCTTT
1 TATTTTTT-TTT
1132085 TATTTTTTTTT
1 TATTTTTTTTT
1132096 T
1 T
1132097 CCGATTAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.22
12 18 0.78
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (11 bp):
TATTTTTTTTT
Found at i:1132966 original size:19 final size:19
Alignment explanation
Indices: 1132944--1132991 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1132934 AATGTTGAAT
1132944 GAAAAAAAAGTAG-CTGTTC
1 GAAAAAAAAG-AGACTGTTC
*
1132963 GAAAAAAGAGAGACTGTTC
1 GAAAAAAAAGAGACTGTTC
1132982 GAAAGAAAAA
1 GAAA-AAAAA
1132992 AAGAACACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 19 0.76
20 4 0.16
ACGTcount: A:0.54, C:0.08, G:0.23, T:0.15
Consensus pattern (19 bp):
GAAAAAAAAGAGACTGTTC
Found at i:1141918 original size:176 final size:173
Alignment explanation
Indices: 1141618--1141964 Score: 579
Period size: 176 Copynumber: 2.0 Consensus size: 173
1141608 GACAAAAATA
1141618 GGAAGAAAATTTTATTACCTTTTTACTTTTTGAAGTTTTTTAGGGTTTTTAGGGTTCACTTTGTC
1 GGAAGAAAATTTTATTACCTTTTTACTTTTTGAAGTTTTTTAGGGTTTTTAGGGTTCACTTTGTC
*
1141683 ATTTATTTTTTTTCCTTTCCCCCAACCAACACCCCATCCACCCGTTAAATAATATTCTTTTTCAT
66 ATTTATTTTTTTTCCTTTCCCCCAACCAACACCCCATCCACCCGTTAAATAACATTCTTTTTCAT
*
1141748 TTTCTTACCTTATATTTTTACTCTCTCACTTAATCTCTTTAAT
131 TTTCTTACCTTATATTTTTACTCTCTCACTTAATCTATTTAAT
* *
1141791 GGAAGAAAATTTTATTACCTTTTTACTTTTTGAAG-TTTTTATGGTTTTTAGGGTTCACTTTTTT
1 GGAAGAAAATTTTATTACCTTTTTACTTTTTGAAGTTTTTTAGGGTTTTTAGGGTTCAC--TTTG
* * * *
1141855 TCATTTATTATTTTTTTCTTTTCCCCTAACCAATACCCCATCCACCGGTTAAATAACATTCTTTT
64 TCATTTA-T-TTTTTTTCCTTTCCCCCAACCAACACCCCATCCACCCGTTAAATAACATTCTTTT
1141920 TCATTTTCTTACCTTATATTTTTACTCTCTCACTTAATCTATTTA
127 TCATTTTCTTACCTTATATTTTTACTCTCTCACTTAATCTATTTA
1141965 GTTTCTTCTT
Statistics
Matches: 162, Mismatches: 8, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
172 22 0.14
173 35 0.22
174 10 0.06
175 1 0.01
176 94 0.58
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.50
Consensus pattern (173 bp):
GGAAGAAAATTTTATTACCTTTTTACTTTTTGAAGTTTTTTAGGGTTTTTAGGGTTCACTTTGTC
ATTTATTTTTTTTCCTTTCCCCCAACCAACACCCCATCCACCCGTTAAATAACATTCTTTTTCAT
TTTCTTACCTTATATTTTTACTCTCTCACTTAATCTATTTAAT
Found at i:1147091 original size:21 final size:19
Alignment explanation
Indices: 1147059--1147105 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
1147049 TTAAATTGAA
*
1147059 ATAAATCATTACCATAATATT
1 ATAAAT-ATTACAATAA-ATT
1147080 ATAAATATTTACAATAAATT
1 ATAAATA-TTACAATAAATT
1147100 -TAAATA
1 ATAAATA
1147106 GAAAATCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.25
20 4 0.17
21 14 0.58
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAATATTACAATAAATT
Found at i:1148359 original size:42 final size:42
Alignment explanation
Indices: 1148312--1148397 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 42
1148302 AACATCTTGC
1148312 CACTAGTCTAAG-TTGATGATTTGTGAAGACAATTATTTTTGT
1 CACTAGTCTAAGTTTG-TGATTTGTGAAGACAATTATTTTTGT
* * *
1148354 CACTAGTCTTAGTTTGTGATTTGTGACGATAATTATTTTTGT
1 CACTAGTCTAAGTTTGTGATTTGTGAAGACAATTATTTTTGT
1148396 CA
1 CA
1148398 TTATTGAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 37 0.93
43 3 0.08
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (42 bp):
CACTAGTCTAAGTTTGTGATTTGTGAAGACAATTATTTTTGT
Found at i:1150959 original size:53 final size:53
Alignment explanation
Indices: 1150891--1151001 Score: 168
Period size: 53 Copynumber: 2.1 Consensus size: 53
1150881 TTTTGTGCAC
* * *
1150891 TTTCGACACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTGCCA
1 TTTCGACACTATGTGTGCAACCATGATATTCATAATGACTTTGTGAATTACCA
* * *
1150944 TTTCGGCACTTTGTGTGCACCCATGATATTCATAATGACTTTGTGAATTACCA
1 TTTCGACACTATGTGTGCAACCATGATATTCATAATGACTTTGTGAATTACCA
1150997 TTTCG
1 TTTCG
1151002 TTACCTTAGC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (53 bp):
TTTCGACACTATGTGTGCAACCATGATATTCATAATGACTTTGTGAATTACCA
Found at i:1154661 original size:32 final size:32
Alignment explanation
Indices: 1154620--1154685 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
1154610 AATGATGAGA
*
1154620 TTAAGGACTTTTGAGGTCAGGTTCGATGGATG
1 TTAAGGACTTTTGAGGTCAGGTTCGACGGATG
1154652 TTAAGGACTTTTGAGGTCAGGTTCGACGGATG
1 TTAAGGACTTTTGAGGTCAGGTTCGACGGATG
1154684 TT
1 TT
1154686 TTTACTATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.21, C:0.11, G:0.33, T:0.35
Consensus pattern (32 bp):
TTAAGGACTTTTGAGGTCAGGTTCGACGGATG
Found at i:1157621 original size:89 final size:90
Alignment explanation
Indices: 1157509--1157689 Score: 283
Period size: 89 Copynumber: 2.0 Consensus size: 90
1157499 TTCATAAAAT
* *
1157509 TTATGAAAATGATTTTACAAATAATTTTAAAGTATGAATTGCTCTAAAATATATGGATGAAATTA
1 TTATGAAAATGAATTTACAAATAATTTTAAAGTATGAATTGCTCTAAAATAGATGGATGAAATTA
*
1157574 TATATTA-TTTAACAGTTATCGATG
66 TATATTATTTTAACAGCTATCGATG
** * *
1157598 TTATGAAAATGAATTTATGAATAATTTTATAGTATGAATTGCTCTAAAATAGATGGATGAAATTC
1 TTATGAAAATGAATTTACAAATAATTTTAAAGTATGAATTGCTCTAAAATAGATGGATGAAATTA
*
1157663 TATATTATTTTAACAGCTATTGATG
66 TATATTATTTTAACAGCTATCGATG
1157688 TT
1 TT
1157690 TCAAATAAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 66 0.80
90 17 0.20
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (90 bp):
TTATGAAAATGAATTTACAAATAATTTTAAAGTATGAATTGCTCTAAAATAGATGGATGAAATTA
TATATTATTTTAACAGCTATCGATG
Found at i:1157909 original size:53 final size:53
Alignment explanation
Indices: 1157843--1157951 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
1157833 CTTTGTGTAC
* *
1157843 TTTCGGCACTATGTGTGCAACCATGGTATTCATAATGAGTTTGTGAATTACCA
1 TTTCGGCACTATGTGTGCAACCATGATATTCATAATGAGTTTATGAATTACCA
*
1157896 TTTCGGCACTATGTGTGCACCCATGATATTCATAATGAGTTTATGAATTACCA
1 TTTCGGCACTATGTGTGCAACCATGATATTCATAATGAGTTTATGAATTACCA
1157949 TTT
1 TTT
1157952 TGTTACCTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TTTCGGCACTATGTGTGCAACCATGATATTCATAATGAGTTTATGAATTACCA
Found at i:1159380 original size:165 final size:167
Alignment explanation
Indices: 1159108--1159439 Score: 650
Period size: 165 Copynumber: 2.0 Consensus size: 167
1159098 CCTTTTGTCT
1159108 AGATAGTGATTCTTAGATTCGAGAGAATTAAGATAGATCTACGTGAACAATATAACGGTTCCGAG
1 AGATAGTGATTCTTAGATTCGAGAGAATTAAGATAGATCTACGTGAACAATATAACGGTTCCGAG
1159173 ATATTGATGTTCTAACTTGTCTACCTTAGGATTAGGAGCGGGTTTCATTCGTCTAAAAGGGAT-A
66 ATATTGATGTTCTAACTTGTCTACCTTAGGATTAGGAGCGGGTTTCATTCGTCTAAAAGGGATAA
1159237 ATGCTACAGTA-GATAGACAACGACTATACTTCACGC
131 ATGCTACAGTAGGATAGACAACGACTATACTTCACGC
1159273 AGATAGTGATTCTTAGATTCGAGAGAATTAAGATAGATCTACGTGAACAATATAACGGTTCCGAG
1 AGATAGTGATTCTTAGATTCGAGAGAATTAAGATAGATCTACGTGAACAATATAACGGTTCCGAG
1159338 ATATTGATGTTCTAACTTGTCTACCTTAGGATTAGGAGCGGGTTTCATTCGTCTAAAAGGGATAA
66 ATATTGATGTTCTAACTTGTCTACCTTAGGATTAGGAGCGGGTTTCATTCGTCTAAAAGGGATAA
1159403 ATGCTACAGTAGGATAGACAACGACTATACTTCACGC
131 ATGCTACAGTAGGATAGACAACGACTATACTTCACGC
1159440 CGAGAGGTAT
Statistics
Matches: 165, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
165 128 0.78
166 12 0.07
167 25 0.15
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (167 bp):
AGATAGTGATTCTTAGATTCGAGAGAATTAAGATAGATCTACGTGAACAATATAACGGTTCCGAG
ATATTGATGTTCTAACTTGTCTACCTTAGGATTAGGAGCGGGTTTCATTCGTCTAAAAGGGATAA
ATGCTACAGTAGGATAGACAACGACTATACTTCACGC
Found at i:1160670 original size:21 final size:20
Alignment explanation
Indices: 1160642--1160680 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1160632 TGGGATAGGA
*
1160642 ATTTATGGCATCGACAAAAG
1 ATTTATGGCATCAACAAAAG
*
1160662 ATTTCATGGCCTCAACAAA
1 ATTT-ATGGCATCAACAAA
1160681 GACCTTGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (20 bp):
ATTTATGGCATCAACAAAAG
Found at i:1167796 original size:10 final size:10
Alignment explanation
Indices: 1167781--1167805 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1167771 TGCACAGTAT
1167781 TTTAGTTGCA
1 TTTAGTTGCA
1167791 TTTAGTTGCA
1 TTTAGTTGCA
1167801 TTTAG
1 TTTAG
1167806 GTTATATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.20, T:0.52
Consensus pattern (10 bp):
TTTAGTTGCA
Found at i:1175303 original size:155 final size:156
Alignment explanation
Indices: 1174995--1175320 Score: 593
Period size: 156 Copynumber: 2.1 Consensus size: 156
1174985 TGGAGTTTTT
1174995 ATTTTTTTAATTTTTTAATGCCACGTAATACTCCCGTTAAGGGGTTAACAAGACTTGAAGAAGCA
1 ATTTTTTTAATTTTTTAATGCCACGTAATACTCCCGTTAAGGGGTTAACAAGACTTGAAGAAGCA
*
1175060 GAACAAGACGCACAAAACGTGAAGATTTTGGATTTTTTTGTGTAATTTTTTAATGCTACGTAACA
66 GAACAAGACACACAAAACGTGAAGATTTTGGATTTTTTTGTGTAATTTTTTAATGCTACGTAACA
1175125 CTTCTGTTAACATGCAACATGTGGAG
131 CTTCTGTTAACATGCAACATGTGGAG
*
1175151 ATTTTTTTAATTTTTTAATGCCATGTAATACTCCCGTTAAGGGGTTAACAAGACTTGAAGAAGCA
1 ATTTTTTTAATTTTTTAATGCCACGTAATACTCCCGTTAAGGGGTTAACAAGACTTGAAGAAGCA
*
1175216 GAACAAGACACGCAAAACGTGAAGATTTTGGA-TTTTTTGTGTAATTTTTTAATGCTACGTAACA
66 GAACAAGACACACAAAACGTGAAGATTTTGGATTTTTTTGTGTAATTTTTTAATGCTACGTAACA
1175280 CTTCTGTTAACATGCAACATGTGGAG
131 CTTCTGTTAACATGCAACATGTGGAG
**
1175306 -TTTTTAGAATTTTTT
1 ATTTTTTTAATTTTTT
1175321 TTAAAAAAAA
Statistics
Matches: 165, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
154 13 0.08
155 58 0.35
156 94 0.57
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (156 bp):
ATTTTTTTAATTTTTTAATGCCACGTAATACTCCCGTTAAGGGGTTAACAAGACTTGAAGAAGCA
GAACAAGACACACAAAACGTGAAGATTTTGGATTTTTTTGTGTAATTTTTTAATGCTACGTAACA
CTTCTGTTAACATGCAACATGTGGAG
Found at i:1180846 original size:37 final size:37
Alignment explanation
Indices: 1180770--1180846 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
1180760 TTTTTATATT
*
1180770 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
1180807 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
1180844 TTT
1 TTT
1180847 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:1181051 original size:20 final size:20
Alignment explanation
Indices: 1180994--1181044 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
1180984 ATCCTATTCC
1180994 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
1181014 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
1181034 CTGGTAATCTT
1 CTGGTAATCTT
1181045 ACATTCCGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:1182336 original size:172 final size:173
Alignment explanation
Indices: 1182039--1182381 Score: 679
Period size: 172 Copynumber: 2.0 Consensus size: 173
1182029 AACAAAACAG
1182039 AGAGGAAAAGAAAAATTACTGACGTAAGAAAGAAGTGGGGAAAAGTATACAACAGTAGAGCTACC
1 AGAGGAAAAGAAAAATTACTGACGTAAGAAAGAAGTGGGGAAAAGTATACAACAGTAGAGCTACC
1182104 TTAAAAATCGGCGATTGTTCGATAAATCTTTCTAGATAAACTAACATATAAATTTATGTCAATAC
66 TTAAAAATCGGCGATTGTTCGATAAATCTTTCTAGATAAACTAACATATAAATTTATGTCAATAC
1182169 ATAGTGTGATTCTAAAGTACCCTTTAGTTTCGGTCGTTATTAC
131 ATAGTGTGATTCTAAAGTACCCTTTAGTTTCGGTCGTTATTAC
1182212 AGAGGAAAAG-AAAATTACTGACGTAAGAAAGAAGTGGGGAAAAGTATACAACAGTAGAGCTACC
1 AGAGGAAAAGAAAAATTACTGACGTAAGAAAGAAGTGGGGAAAAGTATACAACAGTAGAGCTACC
1182276 TTAAAAATCGGCGATTGTTCGATAAATCTTTCTAGATAAACTAACATATAAATTTATGTCAATAC
66 TTAAAAATCGGCGATTGTTCGATAAATCTTTCTAGATAAACTAACATATAAATTTATGTCAATAC
1182341 ATAGTGTGATTCTAAAGTACCCTTTAGTTTCGGTCGTTATT
131 ATAGTGTGATTCTAAAGTACCCTTTAGTTTCGGTCGTTATT
1182382 GAATTTTCTA
Statistics
Matches: 170, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
172 160 0.94
173 10 0.06
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (173 bp):
AGAGGAAAAGAAAAATTACTGACGTAAGAAAGAAGTGGGGAAAAGTATACAACAGTAGAGCTACC
TTAAAAATCGGCGATTGTTCGATAAATCTTTCTAGATAAACTAACATATAAATTTATGTCAATAC
ATAGTGTGATTCTAAAGTACCCTTTAGTTTCGGTCGTTATTAC
Found at i:1186167 original size:100 final size:101
Alignment explanation
Indices: 1186036--1186232 Score: 351
Period size: 100 Copynumber: 2.0 Consensus size: 101
1186026 ATCGTTGGAT
1186036 GAAGGGAAATCAAAGGCTGAGATTAACAGTAGGAAATGAAAAAATATTCACTTAAAAAACAATGA
1 GAAGGGAAATCAAAGGCTGAGATTAACAGTAGGAAATGAAAAAATATTCACTTAAAAAACAATGA
*
1186101 GTTAATCTCAGTTTTTGATTTCCCTCATCTAACGAC
66 GTTAATCTCAGTCTTTGATTTCCCTCATCTAACGAC
* *
1186137 GAAGGGAAA-CAAAGGCTGAGATTAATAGTAGGAAATGAAACAATATTCACTTAAAAAACAATGA
1 GAAGGGAAATCAAAGGCTGAGATTAACAGTAGGAAATGAAAAAATATTCACTTAAAAAACAATGA
*
1186201 GTTAATCTCTGTCTTTGATTTCCCTCATCTAA
66 GTTAATCTCAGTCTTTGATTTCCCTCATCTAA
1186233 TGATTCTTAA
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
100 83 0.90
101 9 0.10
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (101 bp):
GAAGGGAAATCAAAGGCTGAGATTAACAGTAGGAAATGAAAAAATATTCACTTAAAAAACAATGA
GTTAATCTCAGTCTTTGATTTCCCTCATCTAACGAC
Done.