Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 121 of 222
Found at i:39261961 original size:41 final size:41
Alignment explanation
Indices: 39261893--39262035 Score: 180
Period size: 41 Copynumber: 3.5 Consensus size: 41
39261883 CCCGAGCATT
* * *
39261893 AAAAACACGGCTAAAGGCCCGATCATTAGCGGTGCTTTTCC
1 AAAAACGCCGCTAAAGGCCCGAGCATTAGCGGTGCTTTTCC
* * *
39261934 AAAATCGCCGCTAAAGGCCCGAGCATTAGTGGCT-CTTTTTC
1 AAAAACGCCGCTAAAGGCCCGAGCATTAGCGG-TGCTTTTCC
* *
39261975 AAAAACGCCGCTAAAGGCCCAAGCATTAGCGGCGCTTTTCC
1 AAAAACGCCGCTAAAGGCCCGAGCATTAGCGGTGCTTTTCC
* *
39262016 AAAAACGCAGCTAAATGCCC
1 AAAAACGCCGCTAAAGGCCC
39262036 TCAAAACTCT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 86 0.99
42 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGCCCGAGCATTAGCGGTGCTTTTCC
Found at i:39262195 original size:40 final size:40
Alignment explanation
Indices: 39262083--39262205 Score: 110
Period size: 40 Copynumber: 3.1 Consensus size: 40
39262073 TTTGCAGCGC
* * *
39262083 TTTTTGGAAAA-CACCGCTAATGCTT-ATTTTTAGCGG-G
1 TTTTTGCAAAAGCGCCGCTAATGCTTGCTTTTTAGCGGCG
* * * * *
39262120 GTTTTCCAAAATGCGTCGCTAATGCTCGAC-CTTTAGCGGCG
1 TTTTTGCAAAA-GCGCCGCTAATGCTTG-CTTTTTAGCGGCG
* *
39262161 TTTTTGTAAAAGCGCCGCTAATGCTTGCTTTTTAGTGGCG
1 TTTTTGCAAAAGCGCCGCTAATGCTTGCTTTTTAGCGGCG
39262201 TTTTT
1 TTTTT
39262206 TATCCAAACG
Statistics
Matches: 65, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
37 8 0.12
39 12 0.18
40 36 0.55
41 9 0.14
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (40 bp):
TTTTTGCAAAAGCGCCGCTAATGCTTGCTTTTTAGCGGCG
Found at i:39268647 original size:17 final size:18
Alignment explanation
Indices: 39268622--39268659 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
39268612 ATATTCAAAT
*
39268622 AATTTAATATA-ATTATA
1 AATTAAATATATATTATA
*
39268639 AATTAAATATATATTTTA
1 AATTAAATATATATTATA
39268657 AAT
1 AAT
39268660 AACTAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTAAATATATATTATA
Found at i:39268737 original size:31 final size:32
Alignment explanation
Indices: 39268701--39268795 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 32
39268691 CATGAAATAT
* *
39268701 TTTAAA-AGTTTAAATATAATAATAAATGATG
1 TTTAAATAATTTAAATATAATAATAAATGATA
* *
39268732 TTTAAATAATTTAATATTATAATAATAATTTATA
1 TTTAAATAATTTAA-A-TATAATAATAAATGATA
39268766 TTTAAATAATTTAATAATATAATACATAAA
1 TTTAAATAATTT-A-AATATAATA-ATAAA
39268796 ATATAAATTA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
31 6 0.11
32 6 0.11
33 1 0.02
34 33 0.62
35 6 0.11
36 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (32 bp):
TTTAAATAATTTAAATATAATAATAAATGATA
Found at i:39268758 original size:34 final size:34
Alignment explanation
Indices: 39268713--39268795 Score: 121
Period size: 34 Copynumber: 2.4 Consensus size: 34
39268703 TAAAAGTTTA
*
39268713 AATATAATAATAAATGATGTTTAAATAATTTAAT
1 AATATAATAATAAATGATATTTAAATAATTTAAT
* * *
39268747 ATTATAATAATAATTTATATTTAAATAATTTAAT
1 AATATAATAATAAATGATATTTAAATAATTTAAT
39268781 AATATAATACATAAA
1 AATATAATA-ATAAA
39268796 ATATAAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 38 0.90
35 4 0.10
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (34 bp):
AATATAATAATAAATGATATTTAAATAATTTAAT
Found at i:39268773 original size:18 final size:19
Alignment explanation
Indices: 39268736--39268794 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
39268726 ATGATGTTTA
39268736 AATAATTTAATATTATAAT
1 AATAATTTAATATTATAAT
39268755 AATAATTT-ATATT-T-A-
1 AATAATTTAATATTATAAT
*
39268770 AATAATTTAATAATATAAT
1 AATAATTTAATATTATAAT
39268789 ACATAA
1 A-ATAA
39268795 AATATAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
15 8 0.24
16 5 0.15
17 2 0.06
18 6 0.18
19 9 0.26
20 4 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AATAATTTAATATTATAAT
Found at i:39268775 original size:15 final size:15
Alignment explanation
Indices: 39268732--39268778 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
39268722 ATAAATGATG
39268732 TTTAAATAATTTAATA
1 TTTAAATAATTT-ATA
39268748 TTATAATAATAATTTATA
1 TT-T-A-AATAATTTATA
39268766 TTTAAATAATTTA
1 TTTAAATAATTTA
39268779 ATAATATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 9 0.32
16 3 0.11
17 2 0.07
18 6 0.21
19 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTAAATAATTTATA
Found at i:39269543 original size:16 final size:15
Alignment explanation
Indices: 39269499--39269543 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 15
39269489 ATACCTTTTT
39269499 AATTAATTA-ATATA
1 AATTAATTATATATA
39269513 AATT-ATT-TATA-A
1 AATTAATTATATATA
39269525 AATTAATTATATATGA
1 AATTAATTATATAT-A
39269541 AAT
1 AAT
39269544 ATTTCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.19
13 9 0.35
14 8 0.31
16 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (15 bp):
AATTAATTATATATA
Found at i:39269552 original size:26 final size:26
Alignment explanation
Indices: 39269499--39269554 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
39269489 ATACCTTTTT
*
39269499 AATTAATTAATATAAATTATTTATAA
1 AATTAATTAATATAAATTATTTACAA
39269525 AATTAATTATATATGAAA-TATTT-CAA
1 AATTAATTA-ATAT-AAATTATTTACAA
39269551 AATT
1 AATT
39269555 TTAAATCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 15 0.56
27 9 0.33
28 3 0.11
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTAATTAATATAAATTATTTACAA
Found at i:39269588 original size:21 final size:22
Alignment explanation
Indices: 39269541--39269589 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
39269531 TTATATATGA
*
39269541 AATATTTCAAAATTTTAAATCT
1 AATATTTCAAAATTTTAAATAT
39269563 AATATTTCAATAA-TTT-AATAT
1 AATATTTCAA-AATTTTAAATAT
39269584 AATATT
1 AATATT
39269590 AATTTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 10 0.40
22 13 0.52
23 2 0.08
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATTTCAAAATTTTAAATAT
Found at i:39270229 original size:20 final size:20
Alignment explanation
Indices: 39270162--39270229 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 20
39270152 GTCCAAGACT
*
39270162 TTTTATAAT-AAAGTATTTTA
1 TTTTA-AATAAAAATATTTTA
* *
39270182 -ATTAAATAAATATAATTTT-
1 TTTTAAATAAAAAT-ATTTTA
* *
39270201 TTATCAATAAAAATATTTTA
1 TTTTAAATAAAAATATTTTA
39270221 TTTTAAATA
1 TTTTAAATA
39270230 TGATATAATA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
18 3 0.09
19 11 0.31
20 21 0.60
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (20 bp):
TTTTAAATAAAAATATTTTA
Found at i:39273782 original size:22 final size:22
Alignment explanation
Indices: 39273752--39273804 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
39273742 CTCTCTTATA
*
39273752 TTCTTTCAATTTCCTCT-AAAT
1 TTCTCTCAATTTCCTCTGAAAT
*
39273773 TTGCTCTCAATTTCCTTTGAAAT
1 TT-CTCTCAATTTCCTCTGAAAT
39273796 TTCTCTCAA
1 TTCTCTCAA
39273805 ATCCCTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 20 0.71
23 6 0.21
ACGTcount: A:0.23, C:0.25, G:0.04, T:0.49
Consensus pattern (22 bp):
TTCTCTCAATTTCCTCTGAAAT
Found at i:39275681 original size:18 final size:18
Alignment explanation
Indices: 39275655--39275693 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
39275645 AGGTGCATAC
* *
39275655 CCTAGCCCTTTTATGTAT
1 CCTAACCCTTATATGTAT
*
39275673 CCTAACCCTTATATGTTT
1 CCTAACCCTTATATGTAT
39275691 CCT
1 CCT
39275694 TTTTCGAGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.31, G:0.08, T:0.44
Consensus pattern (18 bp):
CCTAACCCTTATATGTAT
Found at i:39279581 original size:125 final size:126
Alignment explanation
Indices: 39279344--39279581 Score: 397
Period size: 126 Copynumber: 1.9 Consensus size: 126
39279334 ACGTAGGAGC
* * *
39279344 TTTTTTTAGGAGCTACTGTAGCAAAAGCACGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGA
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCACATCCACGTGGGAGCTTCTTTCAGTACTTCTACTGA
*
39279409 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTTGAAATTA
66 CAAAGCATCCTGCTTAAAACGTTTTTGACACTGTTTGCTCAGAAACGTCTACTTGAAATTA
* * *
39279470 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTTTTTCAGTACTTTTACTGA
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCACATCCACGTGGGAGCTTCTTTCAGTACTTCTACTGA
*
39279535 -AAAGCATCCTGCTTAAAATGTTTTTGACACTGTTTGCTCAGAAACGT
66 CAAAGCATCCTGCTTAAAACGTTTTTGACACTGTTTGCTCAGAAACGT
39279582 TGTAACAACT
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
125 45 0.43
126 59 0.57
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (126 bp):
TTTTTTCAGGAGCTACTGTAGCAAAAGCACATCCACGTGGGAGCTTCTTTCAGTACTTCTACTGA
CAAAGCATCCTGCTTAAAACGTTTTTGACACTGTTTGCTCAGAAACGTCTACTTGAAATTA
Found at i:39281053 original size:30 final size:30
Alignment explanation
Indices: 39281019--39281080 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
39281009 AGAAGGGAAA
39281019 AATGTTCAGCATGTCATAATACATAAGAAT
1 AATGTTCAGCATGTCATAATACATAAGAAT
39281049 AATGTTCAGCATGTCATAATACATAAGAAT
1 AATGTTCAGCATGTCATAATACATAAGAAT
39281079 AA
1 AA
39281081 GGGATGAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (30 bp):
AATGTTCAGCATGTCATAATACATAAGAAT
Found at i:39284016 original size:23 final size:23
Alignment explanation
Indices: 39283990--39284085 Score: 111
Period size: 23 Copynumber: 4.2 Consensus size: 23
39283980 AGTGTTATTG
39283990 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* *
39284013 ATCAATGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * ** *
39284036 TTAAGTGGTAGCTACAACTACGT
1 ATCAGTGGTAGCTACGGCTACAT
* *
39284059 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
39284082 ATCA
1 ATCA
39284086 ATGTGGCACT
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:39285287 original size:49 final size:49
Alignment explanation
Indices: 39285221--39285360 Score: 226
Period size: 49 Copynumber: 2.9 Consensus size: 49
39285211 CGTTCAGTGA
* *
39285221 TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGT
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
* * *
39285270 TATGTGATTAAGTGTAAGACCATAGTTGGGCTATGGCATTGGTATATGT
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
*
39285319 TATGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCGA
1 TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGA
39285361 GAAAATAATT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 82 1.00
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (49 bp):
TATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATATGT
Found at i:39288233 original size:33 final size:33
Alignment explanation
Indices: 39288185--39288247 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
39288175 TGATTAATTT
39288185 GGAAAAAAAAGAAAAAGAA-AAGAAAGAAGAACC
1 GGAAAAAAAAGAAAAAGAAGAAGAAA-AAGAACC
39288218 GGAAAGAAAAA-AAAAAGAAGAAGAAAAAGA
1 GGAAA-AAAAAGAAAAAGAAGAAGAAAAAGA
39288248 GAGGAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 17 0.61
34 11 0.39
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (33 bp):
GGAAAAAAAAGAAAAAGAAGAAGAAAAAGAACC
Found at i:39290086 original size:19 final size:19
Alignment explanation
Indices: 39290062--39290098 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
39290052 AATAATTTTT
39290062 AAAATTC-AAATATTTATAA
1 AAAATTCTAAA-ATTTATAA
39290081 AAAATTCTAAAATTTATA
1 AAAATTCTAAAATTTATA
39290099 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTCTAAAATTTATAA
Found at i:39290092 original size:27 final size:25
Alignment explanation
Indices: 39290061--39290111 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
39290051 AAATAATTTT
39290061 TAAAATTCAAATATTTATAAAAAATTC
1 TAAAATT--AATATTTATAAAAAATTC
* *
39290088 TAAAATTTATATTTTTAAAAAATT
1 TAAAATTAATATTTATAAAAAATT
39290112 TATATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
27 7 0.32
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (25 bp):
TAAAATTAATATTTATAAAAAATTC
Found at i:39290111 original size:17 final size:17
Alignment explanation
Indices: 39290089--39290126 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
39290079 AAAAAATTCT
39290089 AAAATTTATATTTTTAA
1 AAAATTTATATTTTTAA
39290106 AAAATTTATATTTTTAA
1 AAAATTTATATTTTTAA
39290123 AAAA
1 AAAA
39290127 ATCATCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTTATATTTTTAA
Found at i:39294494 original size:2 final size:2
Alignment explanation
Indices: 39294482--39294510 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
39294472 TTAATGTTGG
39294482 AT AT AT A- 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
39294511 GAATATGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:39295959 original size:20 final size:19
Alignment explanation
Indices: 39295934--39296001 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
39295924 TATCATTAGT
39295934 AATATTGGTAAAGTGTTAAA
1 AATATTGGTAAA-TGTTAAA
**
39295954 AATATTGGT-AA-G--ACC
1 AATATTGGTAAATGTTAAA
39295969 AATATTGGTAAATTGTTAAA
1 AATATTGGTAAA-TGTTAAA
39295989 AATATTGGTAAAT
1 AATATTGGTAAAT
39296002 AATTAGATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
15 10 0.26
16 2 0.05
17 1 0.03
18 1 0.03
19 3 0.08
20 22 0.56
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (19 bp):
AATATTGGTAAATGTTAAA
Found at i:39320831 original size:19 final size:20
Alignment explanation
Indices: 39320803--39320844 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
39320793 GGCTCCTTCC
*
39320803 GATATAGTGTGTA-TGGTTG
1 GATATAGTGTGTAGTGGATG
*
39320822 GATATGGTGTGTAGTGGATG
1 GATATAGTGTGTAGTGGATG
39320842 GAT
1 GAT
39320845 GGGTTGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (20 bp):
GATATAGTGTGTAGTGGATG
Found at i:39328125 original size:37 final size:37
Alignment explanation
Indices: 39328066--39328211 Score: 240
Period size: 37 Copynumber: 3.9 Consensus size: 37
39328056 AGCTCAGACG
* *
39328066 AAATCTCCACATGAAGAT-ATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAG-TCATCGGGTCTTACCCGGACA
39328103 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
39328140 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
39328177 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
39328212 ATATATTTCC
Statistics
Matches: 105, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
36 1 0.01
37 104 0.99
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:39328484 original size:47 final size:47
Alignment explanation
Indices: 39328422--39328857 Score: 611
Period size: 47 Copynumber: 9.1 Consensus size: 47
39328412 ACACGTTTCG
* * * **
39328422 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
39328469 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
39328516 CATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
39328563 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
39328610 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
***
39328663 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
39328714 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
39328761 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
39328808 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
39328855 CAT
1 CAT
39328858 AAAATCCTAA
Statistics
Matches: 355, Mismatches: 24, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
47 267 0.75
49 1 0.00
51 45 0.13
53 42 0.12
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:39328789 original size:198 final size:194
Alignment explanation
Indices: 39328422--39328835 Score: 660
Period size: 198 Copynumber: 2.1 Consensus size: 194
39328412 ACACGTTTCG
* *
39328422 CATTAGCCATTCGGCCTTA-C-CAC--ATATAT-T-CATGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGGCCATTC
* * *
39328481 GGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACG
66 GGCCTTATCACATATATACAGGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACG
* *
39328546 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
131 CATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
39328610 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGGCCATTC
* *
39328675 GGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACA
66 GGCCTTAT--CAC--ATATATACAGGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACA
39328740 TACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
127 TACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCA
39328805 TCA
192 TCA
39328808 CATTGGCCATTCGGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCACACATA
39328836 CGCATGTTCA
Statistics
Matches: 205, Mismatches: 11, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
188 18 0.09
189 1 0.00
190 2 0.01
192 6 0.03
193 1 0.00
194 36 0.18
196 2 0.01
198 139 0.68
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (194 bp):
CATTGGCCATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCACATTGGCCATTC
GGCCTTATCACATATATACAGGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACG
CATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:39331165 original size:85 final size:85
Alignment explanation
Indices: 39331032--39331210 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
39331022 TATTTTATTG
* *
39331032 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCTAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
39331097 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
39331117 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
39331182 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
39331202 CCCATGCTC
1 CCCATGCTC
39331211 ATGGCCGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:39332726 original size:23 final size:22
Alignment explanation
Indices: 39332682--39332726 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
39332672 TCAATTCTAA
*
39332682 TTATTTTAATATTTTATTTTAT
1 TTATTTTAATATTTTATATTAT
39332704 TTATTCTTAATGATTTTA-ATTAT
1 TTATT-TTAAT-ATTTTATATTAT
39332727 CTAACTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 9 0.45
24 6 0.30
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTTTAATATTTTATATTAT
Found at i:39344483 original size:17 final size:18
Alignment explanation
Indices: 39344461--39344501 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
39344451 AAAAATCGAT
*
39344461 AGAAATGGTAAA-ATTTG
1 AGAAATGGGAAACATTTG
39344478 AGAAATGGGAAACATTTG
1 AGAAATGGGAAACATTTG
39344496 -GAAATG
1 AGAAATG
39344502 ATTGTGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.46, C:0.02, G:0.27, T:0.24
Consensus pattern (18 bp):
AGAAATGGGAAACATTTG
Found at i:39346741 original size:29 final size:29
Alignment explanation
Indices: 39346699--39346756 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
39346689 GGTTGAGACT
39346699 CATGGCATCGTATGATATGAAAACATTCA
1 CATGGCATCGTATGATATGAAAACATTCA
39346728 CATGGCATCGTATGATATGAAAACATTCA
1 CATGGCATCGTATGATATGAAAACATTCA
39346757 TGGTGTAGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (29 bp):
CATGGCATCGTATGATATGAAAACATTCA
Found at i:39349356 original size:50 final size:50
Alignment explanation
Indices: 39349302--39349579 Score: 326
Period size: 50 Copynumber: 5.5 Consensus size: 50
39349292 GATGGTTACG
39349302 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCA
* * * * * * * *
39349352 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAG-ATAGTTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-G-ATAGGTCGCA
*
39349403 TGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCA
* * ** * * * * *
39349453 TGTGTAGTACTATGTGCAGGCTACTATGCGTACTAG-ATAGTTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-G-ATAGGTCGCA
* *
39349504 TGTGTAGTACTATGTGCAGGATACTACGTGTACTGGAATGATAGGTCGCA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCA
39349554 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
39349580 TGTAAACCGA
Statistics
Matches: 185, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
49 4 0.02
50 101 0.55
51 76 0.41
52 4 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCA
Found at i:39349426 original size:101 final size:101
Alignment explanation
Indices: 39349299--39349581 Score: 530
Period size: 101 Copynumber: 2.8 Consensus size: 101
39349289 AGTGATGGTT
39349299 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCATGTGTAGTACTA
1 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCATGTGTAGTACTA
39349364 TGTGCAGGCTACTATGCGTACCAGATAGTTTCGATC
66 TGTGCAGGCTACTATGCGTACCAGATAGTTTCGATC
*
39349400 ACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGAATGATAGGTCGCATGTGTAGTACTA
1 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCATGTGTAGTACTA
*
39349465 TGTGCAGGCTACTATGCGTACTAGATAGTTTCGATC
66 TGTGCAGGCTACTATGCGTACCAGATAGTTTCGATC
* *
39349501 ACGTGTGTAGTACTATGTGCAGGATACTACGTGTACTGGAATGATAGGTCGCATGTGTAGTACTA
1 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCATGTGTAGTACTA
39349566 TGTGCAGGCTACTATG
66 TGTGCAGGCTACTATG
39349582 TAAACCGAAC
Statistics
Matches: 177, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 177 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (101 bp):
ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCGCATGTGTAGTACTA
TGTGCAGGCTACTATGCGTACCAGATAGTTTCGATC
Found at i:39349641 original size:45 final size:45
Alignment explanation
Indices: 39349585--39349670 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
39349575 TACTATGTAA
* *
39349585 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTCCTGATTCC
*
39349630 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTCCTGA
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTCCTGA
39349671 ATCACTGAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTCCTGATTCC
Found at i:39351274 original size:15 final size:15
Alignment explanation
Indices: 39351254--39351293 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
39351244 AAATTGAATT
39351254 GAATCGTGAACATGA
1 GAATCGTGAACATGA
39351269 GAATCGTGAACATGA
1 GAATCGTGAACATGA
39351284 GAATCGTGAA
1 GAATCGTGAA
39351294 TTAAATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.20
Consensus pattern (15 bp):
GAATCGTGAACATGA
Found at i:39360554 original size:5 final size:5
Alignment explanation
Indices: 39360544--39360590 Score: 62
Period size: 5 Copynumber: 9.6 Consensus size: 5
39360534 TTTAGAAGAA
*
39360544 AATAC AATAC AATTC AGA-A- AATAC AATAC AATAC AATAC AATAC AAT
1 AATAC AATAC AATAC A-ATAC AATAC AATAC AATAC AATAC AATAC AAT
39360591 TTAGTTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 1 0.03
4 2 0.05
5 33 0.89
6 1 0.03
ACGTcount: A:0.60, C:0.17, G:0.02, T:0.21
Consensus pattern (5 bp):
AATAC
Found at i:39373157 original size:13 final size:13
Alignment explanation
Indices: 39373132--39373165 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
39373122 TTTTTATAAA
39373132 ATATATATTGATTT
1 ATATAT-TTGATTT
39373146 ATATATTTGATTT
1 ATATATTTGATTT
*
39373159 ATTTATT
1 ATATATT
39373166 AAAATGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (13 bp):
ATATATTTGATTT
Found at i:39373679 original size:21 final size:22
Alignment explanation
Indices: 39373641--39373681 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
39373631 TTTTTGCGTA
* *
39373641 TTAATTTTTTATTCAAATATTC
1 TTAAATTTTAATTCAAATATTC
39373663 TTAAATTTTAATT-AAATAT
1 TTAAATTTTAATTCAAATAT
39373682 ATGCATCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAAATTTTAATTCAAATATTC
Found at i:39378172 original size:5 final size:5
Alignment explanation
Indices: 39378162--39378186 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
39378152 TCCTCATCTG
39378162 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
39378187 GGATTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:39380698 original size:198 final size:194
Alignment explanation
Indices: 39380359--39380921 Score: 910
Period size: 198 Copynumber: 3.0 Consensus size: 194
39380349 AGTTTCGGAA
*
39380359 AGAGAAATTATCAGAGAGTATGAGCGTGC--AAA---AACCCTTCAGAAATCATGGCCTTTTATA
1 AGAGAAATTATCAGAGAGTATGAGTGTGCAAAAACCTAACCCTTCAGAAATCATGGCCTTTTATA
* *
39380419 AGCATGGAGAGTTTTGAAATTTTGGAAAAAAAAATATCCACAAAATCTGTCATTAAATCAATTTG
66 AGCATGGAGAGTGTTGGAATTTTGGAAAAAAAAATATCCACAAAATCTGTCATTAAATCAATTTG
39380484 ATTTAAATTTTTAATCAGATTTATTGGAATTAAATCAATAAGATAAGTTTCCATATATATAAGC
131 ATTTAAATTTTTAATCAGATTTATTGGAATTAAATCAATAAGATAAGTTTCCATATATATAAGC
39380548 AGAGAAATTATCAGAGAGTATGAGTGTGCAAAAACCTTTCAACCCTTCAGAAATCATGGCCTTTT
1 AGAGAAATTATCAGAGAGTATGAGTGTGCAAAAACC--T-AACCCTTCAGAAATCATGGCCTTTT
39380613 ATAAGCATGGAGAGTGTTGGAATTTTGGAAAAAAAAAATATCCACAAAATCTGTCATTAAATCAA
63 ATAAGCATGGAGAGTGTTGGAATTTTGG-AAAAAAAAATATCCACAAAATCTGTCATTAAATCAA
39380678 TTTGATTTAAATTTTTAATCAGATTTATTGGAATTAAATCAATAAGATAAGTTTCCATATATATA
127 TTTGATTTAAATTTTTAATCAGATTTATTGGAATTAAATCAATAAGATAAGTTTCCATATATATA
39380743 AGC
192 AGC
39380746 AGAGAAATTATCAGAGAGTATGAGTGTGCAAAAACCT-----TTCAGAAATCATGG-----TATA
1 AGAGAAATTATCAGAGAGTATGAGTGTGCAAAAACCTAACCCTTCAGAAATCATGGCCTTTTATA
* * *
39380801 GGTATGGAGAGTGTTGGAATTTT-G-AAAAAAAATAT-CACAAAATCTGCCATTAAATCAATTTG
66 AGCATGGAGAGTGTTGGAATTTTGGAAAAAAAAATATCCACAAAATCTGTCATTAAATCAATTTG
39380863 ATTTAAATTTTTAATCAGATTTATTGGAATTAAATCAATAAGATAAGTTTCCATATATA
131 ATTTAAATTTTTAATCAGATTTATTGGAATTAAATCAATAAGATAAGTTTCCATATATA
39380922 AGCAGATTTG
Statistics
Matches: 359, Mismatches: 6, Indels: 26
0.92 0.02 0.07
Matches are distributed among these distances:
181 85 0.24
182 11 0.03
184 1 0.00
185 25 0.07
189 28 0.08
190 14 0.04
191 3 0.01
196 1 0.00
197 51 0.14
198 140 0.39
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (194 bp):
AGAGAAATTATCAGAGAGTATGAGTGTGCAAAAACCTAACCCTTCAGAAATCATGGCCTTTTATA
AGCATGGAGAGTGTTGGAATTTTGGAAAAAAAAATATCCACAAAATCTGTCATTAAATCAATTTG
ATTTAAATTTTTAATCAGATTTATTGGAATTAAATCAATAAGATAAGTTTCCATATATATAAGC
Found at i:39388163 original size:6 final size:6
Alignment explanation
Indices: 39388146--39388235 Score: 173
Period size: 6 Copynumber: 15.2 Consensus size: 6
39388136 AAAGTGCTTT
39388146 TATATG -ATATG TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
39388193 TATATG TATATG TATATG TATATG TATATG TATATG TATATG T
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG T
39388236 TAATGGCTTC
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.06
6 78 0.94
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:39392160 original size:15 final size:15
Alignment explanation
Indices: 39392142--39392173 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
39392132 AGCTATATTT
39392142 ATATATGCCCAATCA
1 ATATATGCCCAATCA
39392157 ATATATGCCCAATCA
1 ATATATGCCCAATCA
39392172 AT
1 AT
39392174 CCCTCTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (15 bp):
ATATATGCCCAATCA
Found at i:39397301 original size:16 final size:16
Alignment explanation
Indices: 39397282--39397315 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
39397272 ATTAAAAATC
39397282 AAAATTA-AAAATATTG
1 AAAATTATAAAA-ATTG
39397298 AAAATTATAAAAATTG
1 AAAATTATAAAAATTG
39397314 AA
1 AA
39397316 TCATATACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (16 bp):
AAAATTATAAAAATTG
Found at i:39398432 original size:24 final size:24
Alignment explanation
Indices: 39398404--39398451 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
39398394 ATTTTGTTAA
39398404 CATTTTCTCATATTATAAAATTAT
1 CATTTTCTCATATTATAAAATTAT
39398428 CATTTTCTCATATTATAAAATTAT
1 CATTTTCTCATATTATAAAATTAT
39398452 TTTTTGAGAT
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:0.12, G:0.00, T:0.50
Consensus pattern (24 bp):
CATTTTCTCATATTATAAAATTAT
Found at i:39399120 original size:15 final size:15
Alignment explanation
Indices: 39399090--39399118 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39399080 ACTATTAGTA
39399090 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
39399105 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
39399119 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:39401069 original size:62 final size:62
Alignment explanation
Indices: 39400972--39401098 Score: 209
Period size: 62 Copynumber: 2.0 Consensus size: 62
39400962 TATTAATGTA
** * *
39400972 ACACCCCTTACCCGCATCCGACTCTGGGACAGGGTACGAGGCATTACCAAACTTCTACTCAT
1 ACACCCCTTACCCGCATCCGAAGCCGGGACAGGGTACGAGGCATTACCAAACTTATACTCAT
*
39401034 ACACCCCTTATCCGCATCCGAAGCCGGGACAGGGTACGAGGCATTACCAAACTTATACTCAT
1 ACACCCCTTACCCGCATCCGAAGCCGGGACAGGGTACGAGGCATTACCAAACTTATACTCAT
39401096 ACA
1 ACA
39401099 TTCATGCAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (62 bp):
ACACCCCTTACCCGCATCCGAAGCCGGGACAGGGTACGAGGCATTACCAAACTTATACTCAT
Found at i:39402423 original size:21 final size:21
Alignment explanation
Indices: 39402399--39402442 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
39402389 ACACTGGTGC
39402399 CTCAGTCAATAACATTTTCAA
1 CTCAGTCAATAACATTTTCAA
39402420 CTCAGTCAATAACATTTTCAA
1 CTCAGTCAATAACATTTTCAA
39402441 CT
1 CT
39402443 TCTCAAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (21 bp):
CTCAGTCAATAACATTTTCAA
Found at i:39403229 original size:22 final size:19
Alignment explanation
Indices: 39403203--39403249 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
39403193 GTAAATCTGG
*
39403203 TTAAATTATTGTCGAAAAATAA
1 TTAAATTATTAT--AAAAA-AA
39403225 TTAAA-TATTATAAAAAAA
1 TTAAATTATTATAAAAAAA
39403243 TTAAATT
1 TTAAATT
39403250 GTGTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 7 0.30
19 6 0.26
21 5 0.22
22 5 0.22
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
TTAAATTATTATAAAAAAA
Found at i:39420836 original size:6 final size:6
Alignment explanation
Indices: 39420825--39420851 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
39420815 ATGAATTTAA
39420825 TGGAAT TGGAAT TGGAAT TGGAAT TGG
1 TGGAAT TGGAAT TGGAAT TGGAAT TGG
39420852 TTTATGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (6 bp):
TGGAAT
Found at i:39421712 original size:18 final size:18
Alignment explanation
Indices: 39421669--39421704 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
39421659 ATTCTTTAAA
*
39421669 AATATATGCATGTTTTGG
1 AATATATGCATGTATTGG
39421687 AATATATGCATGTGATTG
1 AATATATGCATGT-ATTG
39421705 AATGTATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.42
Consensus pattern (18 bp):
AATATATGCATGTATTGG
Found at i:39423075 original size:45 final size:44
Alignment explanation
Indices: 39422992--39423086 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
39422982 TTATCACTTA
* * * * *
39422992 ATTTATTTGTTTATTCATAAAGAATAATTTATTTTATACTATTT
1 ATTTTTTTGTTTATTAATAAAAAATAACTTAATTTATACTATTT
*
39423036 ATTTTTTTGTTTGTTAATAAAAAAATAACTTAATTTATACTATTT
1 ATTTTTTTGTTTATTAAT-AAAAAATAACTTAATTTATACTATTT
39423081 ATTTTT
1 ATTTTT
39423087 AACTTTTCTA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 15 0.34
45 29 0.66
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (44 bp):
ATTTTTTTGTTTATTAATAAAAAATAACTTAATTTATACTATTT
Found at i:39425960 original size:16 final size:16
Alignment explanation
Indices: 39425925--39425974 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
39425915 TAAAACAAAT
*
39425925 AAAATTATTAAAAA-TC
1 AAAATTA-TAAAAATTG
39425941 AAAATTA-AAAATATTG
1 AAAATTATAAAA-ATTG
39425957 AAAATTATAAAAATTG
1 AAAATTATAAAAATTG
39425973 AA
1 AA
39425975 TCATCTACAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
14 4 0.13
15 1 0.03
16 21 0.70
17 4 0.13
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (16 bp):
AAAATTATAAAAATTG
Found at i:39426161 original size:6 final size:6
Alignment explanation
Indices: 39426150--39426182 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
39426140 TTAAAGTGAA
*
39426150 TTTTAT TTTTAT TTTTAT TTAT-T TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
39426183 TTCATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:39426175 original size:17 final size:16
Alignment explanation
Indices: 39426151--39426182 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
39426141 TAAAGTGAAT
39426151 TTTATTTTTATTTTTA
1 TTTATTTTTATTTTTA
39426167 TTTATTTTTTATTTTT
1 TTTA-TTTTTATTTTT
39426183 TTCATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:39436061 original size:18 final size:19
Alignment explanation
Indices: 39436019--39436062 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
39436009 TCAGCACCTA
39436019 AACAGTAATCAGTAACGAT
1 AACAGTAATCAGTAACGAT
*
39436038 AGCAGTAAT-AGTAAC-AGT
1 AACAGTAATCAGTAACGA-T
39436056 AACAGTA
1 AACAGTA
39436063 TTCAACATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 1 0.05
18 13 0.59
19 8 0.36
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (19 bp):
AACAGTAATCAGTAACGAT
Found at i:39436108 original size:43 final size:44
Alignment explanation
Indices: 39436042--39436144 Score: 136
Period size: 43 Copynumber: 2.3 Consensus size: 44
39436032 AACGATAGCA
* * * **
39436042 GTAATAGTAACAGTAACAGTATTCAACATAC-AGTGTTGAATTT
1 GTAACAGTAACAGTAACAGTATTCAACACACAAGTGTCGAATAG
*
39436085 GTAACAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATAG
1 GTAACAGTAACAGTAACAGTATTCAACACAC-AAGTGTCGAATAG
39436130 GTAACAGTAACAGTA
1 GTAACAGTAACAGTA
39436145 GTCGGCATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 28 0.55
45 23 0.45
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (44 bp):
GTAACAGTAACAGTAACAGTATTCAACACACAAGTGTCGAATAG
Found at i:39437381 original size:30 final size:29
Alignment explanation
Indices: 39437347--39437403 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
39437337 TTATCAAATA
39437347 AATAAA-ATCTTTTAATATAATAATTTAATT
1 AATAAATATCTTTTAAT-TAA-AATTTAATT
*
39437377 AATAAATATCTTTTACTTAAAATTTAA
1 AATAAATATCTTTTAATTAAAATTTAA
39437404 GAAAATATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 9 0.36
31 9 0.36
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (29 bp):
AATAAATATCTTTTAATTAAAATTTAATT
Found at i:39437527 original size:17 final size:16
Alignment explanation
Indices: 39437496--39437539 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
39437486 GATTTATTTA
39437496 ATAATATAATATCATT
1 ATAATATAATATCATT
*
39437512 ATAATTTAATTATCATT
1 ATAATATAA-TATCATT
*
39437529 AATTATATAAT
1 -ATAATATAAT
39437540 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATAATATCATT
Found at i:39438739 original size:22 final size:22
Alignment explanation
Indices: 39438712--39438755 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
39438702 ATAACCTGTA
39438712 AAAATATACAACTCACGATGTT
1 AAAATATACAACTCACGATGTT
*
39438734 AAAATATACAACTCATGATGTT
1 AAAATATACAACTCACGATGTT
39438756 GGGACAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (22 bp):
AAAATATACAACTCACGATGTT
Found at i:39445788 original size:4 final size:4
Alignment explanation
Indices: 39445779--39445821 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
39445769 TTTTTTTGGC
* * *
39445779 TTAT TTAT TTGT TCAT TTAT TTAT TTGTT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT-AT TTAT TTAT TTAT TT
39445822 CAAAGAAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:39445800 original size:16 final size:17
Alignment explanation
Indices: 39445779--39445821 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
39445769 TTTTTTTGGC
39445779 TTATTTATTTG-TTCAT
1 TTATTTATTTGTTTCAT
*
39445795 TTATTTATTTGTTTTAT
1 TTATTTATTTGTTTCAT
39445812 TTATTTATTT
1 TTATTTATTT
39445822 CAAAGAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (17 bp):
TTATTTATTTGTTTCAT
Found at i:39446587 original size:25 final size:26
Alignment explanation
Indices: 39446532--39446589 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
39446522 ATTTTGAACT
* *
39446532 TATATGATTTATTTTAAATTGTTCTA
1 TATATTATTTATTTTAAATTGTTCCA
**
39446558 T-TATTATTTATTTTATGTT-TTCCA
1 TATATTATTTATTTTAAATTGTTCCA
39446582 TATATTAT
1 TATATTAT
39446590 GCATTTCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 5 0.19
25 21 0.78
26 1 0.04
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (26 bp):
TATATTATTTATTTTAAATTGTTCCA
Found at i:39448566 original size:40 final size:39
Alignment explanation
Indices: 39448468--39448690 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
39448458 TCCTCGTTCA
* * ** * *
39448468 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
39448507 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
39448546 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
39448586 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
39448626 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
39448667 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39448691 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 108 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:39448624 original size:80 final size:79
Alignment explanation
Indices: 39448466--39448690 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
39448456 GCTCCTCGTT
* * ** * *
39448466 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
39448531 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
39448545 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
39448610 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
39448625 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
39448688 GGA
63 GGA
39448691 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 41 0.33
80 77 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:39448690 original size:120 final size:119
Alignment explanation
Indices: 39448468--39448690 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
39448458 TCCTCGTTCA
* * *
39448468 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
39448533 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
39448587 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
39448651 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
39448691 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:39456474 original size:40 final size:39
Alignment explanation
Indices: 39456377--39456598 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
39456367 TCCTCGTTCA
* * ** * *
39456377 AATGCCTTCGGGACATAGCCC-GATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
39456415 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
39456454 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
39456494 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
39456534 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
39456575 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
39456599 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
38 20 0.13
39 18 0.12
40 108 0.70
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:39456532 original size:80 final size:79
Alignment explanation
Indices: 39456375--39456598 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
39456365 GCTCCTCGTT
* * ** * *
39456375 CAAATGCCTTCGGGACATAGCCC-GATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
39456439 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
39456453 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
39456518 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
39456533 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
39456596 GGA
63 GGA
39456599 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 20 0.16
79 20 0.16
80 77 0.63
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:39456582 original size:120 final size:118
Alignment explanation
Indices: 39456377--39456598 Score: 277
Period size: 120 Copynumber: 1.9 Consensus size: 118
39456367 TCCTCGTTCA
* * *
39456377 AATGCCTTCGGGACATAGCCCGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATTT
1 AATGCCTTCGGGACATAACCCGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATAT
* *
39456442 AACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 AACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
39456495 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCC-GATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
39456559 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
63 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
39456599 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
118 19 0.22
119 18 0.21
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (118 bp):
AATGCCTTCGGGACATAACCCGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATAT
AACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:39476677 original size:15 final size:15
Alignment explanation
Indices: 39476657--39476686 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39476647 CTAGAATTAG
*
39476657 GGGATTACAATTAAT
1 GGGATTACAACTAAT
39476672 GGGATTACAACTAAT
1 GGGATTACAACTAAT
39476687 TATAATATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (15 bp):
GGGATTACAACTAAT
Found at i:39477335 original size:24 final size:25
Alignment explanation
Indices: 39477289--39477349 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
39477279 GATTTAGATA
*
39477289 ATTTTGAATTTTGTAAGTTATAAAT-
1 ATTTT-AATTTTGTAAGTAATAAATC
*
39477314 ATTTTAATTTTG-AATGTAATAATTC
1 ATTTTAATTTTGTAA-GTAATAAATC
*
39477339 ATTTTACTTTT
1 ATTTTAATTTT
39477350 ATATGATTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 2 0.06
24 14 0.45
25 15 0.48
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (25 bp):
ATTTTAATTTTGTAAGTAATAAATC
Found at i:39477994 original size:7 final size:7
Alignment explanation
Indices: 39477982--39478013 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
39477972 AGAGTAGTAC
39477982 ATTATAT
1 ATTATAT
39477989 ATTATAT
1 ATTATAT
39477996 ATTATAT
1 ATTATAT
39478003 ATTATTAT
1 ATTA-TAT
39478011 ATT
1 ATT
39478014 GGTTGAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTATAT
Found at i:39478469 original size:17 final size:16
Alignment explanation
Indices: 39478439--39478472 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
39478429 AGTCGTACAT
39478439 TATATATTACTTATTA
1 TATATATTACTTATTA
*
39478455 TATATCATTATTTATTA
1 TATAT-ATTACTTATTA
39478472 T
1 T
39478473 TATGCTAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (16 bp):
TATATATTACTTATTA
Found at i:39478639 original size:5 final size:5
Alignment explanation
Indices: 39478631--39478730 Score: 98
Period size: 5 Copynumber: 19.6 Consensus size: 5
39478621 CATGTAATAC
39478631 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATGTAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA--TAT
* * * *
39478683 TAGTA- -ATAGT TATAT ATATAT T-TAT TTTAT TTTAT TTTAT TATTT
1 TA-TAT TATA-T TATAT -TATAT TATAT TATAT TATAT TATAT TATAT
39478728 TAT
1 TAT
39478731 GTATTAGTAA
Statistics
Matches: 86, Mismatches: 2, Indels: 14
0.84 0.02 0.14
Matches are distributed among these distances:
3 2 0.02
4 5 0.06
5 63 0.73
6 11 0.13
7 5 0.06
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:39478696 original size:52 final size:52
Alignment explanation
Indices: 39478640--39478742 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
39478630 CTATATTATA
39478640 TTATAT-TATATTATATTATATTATATTATATTATATTATGTATTAGTAATAG
1 TTATATATATATT-TATTATATTATATTATATTATATTATGTATTAGTAATAG
* * * *
39478692 TTATATATATATTTATTTTATTTTATTTTATTATTTTATGTATTAGTAATA
1 TTATATATATATTTATTATATTATATTATATTATATTATGTATTAGTAATA
39478743 TAATAATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 40 0.87
53 6 0.13
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (52 bp):
TTATATATATATTTATTATATTATATTATATTATATTATGTATTAGTAATAG
Found at i:39478914 original size:16 final size:17
Alignment explanation
Indices: 39478893--39478925 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
39478883 ATAATTATAG
39478893 TATTAAA-AATATTTTA
1 TATTAAATAATATTTTA
39478909 TATTAAATTAATATTTT
1 TATTAAA-TAATATTTT
39478926 TAAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTAAATAATATTTTA
Found at i:39480568 original size:12 final size:13
Alignment explanation
Indices: 39480529--39480568 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
39480519 ATTTTGTGCA
39480529 TTTTTAACTTAAT
1 TTTTTAACTTAAT
* *
39480542 TTTATAACCTAAT
1 TTTTTAACTTAAT
39480555 TTTTTAA-TTAAT
1 TTTTTAACTTAAT
39480567 TT
1 TT
39480569 GCAACTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTTAACTTAAT
Found at i:39487422 original size:18 final size:18
Alignment explanation
Indices: 39487401--39487438 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
39487391 ATTTGGGTAA
39487401 AACCGAAAAAATTCGGTT
1 AACCGAAAAAATTCGGTT
**
39487419 AACCGACCAAATTCGGTT
1 AACCGAAAAAATTCGGTT
39487437 AA
1 AA
39487439 TCAGTCGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (18 bp):
AACCGAAAAAATTCGGTT
Found at i:39487812 original size:18 final size:18
Alignment explanation
Indices: 39487791--39487831 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
39487781 ATAATTAAGG
39487791 TAATTCGATTAATTCAAT
1 TAATTCGATTAATTCAAT
* * *
39487809 TAATTTGGTTAATTCAGT
1 TAATTCGATTAATTCAAT
39487827 TAATT
1 TAATT
39487832 TTTAACCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (18 bp):
TAATTCGATTAATTCAAT
Found at i:39491340 original size:12 final size:10
Alignment explanation
Indices: 39491315--39491352 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
39491305 TTTCACTTTC
39491315 ATATATTTTT
1 ATATATTTTT
39491325 ATATATTTTT
1 ATATATTTTT
*
39491335 AAATATTTTT
1 ATATATTTTT
39491345 ATA-ATTTT
1 ATATATTTT
39491353 CTATGAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 5 0.19
10 21 0.81
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
ATATATTTTT
Found at i:39491377 original size:10 final size:10
Alignment explanation
Indices: 39491320--39491382 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
39491310 CTTTCATATA
39491320 TTTTTAT-AT
1 TTTTTATAAT
39491329 ATTTTTA-AAT
1 -TTTTTATAAT
39491339 ATTTTTATAAT
1 -TTTTTATAAT
* * *
39491350 TTTCTATGAG
1 TTTTTATAAT
*
39491360 TTTCTATAAT
1 TTTTTATAAT
39491370 TTTTTATAAT
1 TTTTTATAAT
39491380 TTT
1 TTT
39491383 AATGATTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
10 42 0.93
11 3 0.07
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:39494856 original size:309 final size:304
Alignment explanation
Indices: 39494536--39495364 Score: 861
Period size: 309 Copynumber: 2.7 Consensus size: 304
39494526 TGCCGACCGG
* * *
39494536 GGGAA-TAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
*
39494600 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTATTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCA-TCTATTCCACTA-TGCC
39494665 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCAGCCAT
129 CAGGGAGATAGAATT-CTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCA-CCAT
* * * ** * * * * *
39494730 CTTCGATCTGCTTCGCTGT-CTATGTAGGAAGGCAAGATCTGCTATCTTTGATCTACTTCAAGCC
192 CTTCGATCTGCTCCACTGTACCACAT-GG-AGGCAAAATCTGCCATCTTCGATCTACTCCAAGAC
*
39494794 AACTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCTA
255 AACTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGCTGCCTA
*
39494844 GGGAAGTAGAATTACTGGCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * * * * *
39494909 TCGATCTGCTTCGCTGTCTA-TGC--AGGAAGGCAAGATCTGCT-ATCTTTGATCTACTTCACGC
66 TTGATCTGC-TC-C--ACTACTGCTTAGGGAGACAAGATCTG-TAATC-TTCATCTA-TTC-CAC
* ** * * * * * * ** * *
39494970 CA-GCTTAAGGAGACA-AGA-TCTGAAATCTACAATCTATTCCACTGTTGCCT-AGGGAAGTAGA
123 TATGCCCAGGGAGATAGA-ATTCTG---GCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAA
* *** * * * * *
39495031 ATTACTGGCTTCAATGTACTCCACTGTAACCACATGGAGGTAAAATCTGCCATCTTCGATCTGCT
184 ATCACCATCTTCGATCTGCTCCACTGT-ACCACATGGAGGCAAAATCTGCCATCTTCGATCTACT
** *** * * *
39495096 CCACTACTGTTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCTA
248 CCAAGACAACTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGCTGCCTA
39495153 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* *
39495218 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTC-ATCTATTCCACT-ATGCC
*
39495283 CAGGGA-AGTAGAATTTCTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCA
129 CAGGGAGA-TAGAA-TTCTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA-TCACCA
*
39495347 TCTTTGATCTGCTCCACT
191 TCTTCGATCTGCTCCACT
39495365 ACTGCTTAGG
Statistics
Matches: 410, Mismatches: 83, Indels: 55
0.75 0.15 0.10
Matches are distributed among these distances:
305 3 0.01
306 5 0.01
307 25 0.06
308 50 0.12
309 238 0.58
310 50 0.12
311 30 0.07
312 6 0.01
313 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (304 bp):
GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCATCTATTCCACTATGCCCA
GGGAGATAGAATTCTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCACCATCTTC
GATCTGCTCCACTGTACCACATGGAGGCAAAATCTGCCATCTTCGATCTACTCCAAGACAACTTA
AGGAGACAAGATCTGAAATCTACAATCTATTCCACTGCTGCCTA
Found at i:39494892 original size:177 final size:177
Alignment explanation
Indices: 39494619--39495095 Score: 812
Period size: 177 Copynumber: 2.7 Consensus size: 177
39494609 TCCACTACTG
* * * * * * *
39494619 CTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTATTGCCCAGGG-AGATAGAATTACT
1 CTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAG-TAGAATTACT
* *
39494683 GGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCAGCCATCTTCGATCTGCTTCGCTG
65 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTG
*
39494748 TCTATGTAGGAAGGCAAGATCTGCTATCTTTGATCTACTTCAAGCCAA
130 TCTATGCAGGAAGGCAAGATCTGCTATCTTTGATCTACTTCAAGCCAA
39494796 CTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTG
1 CTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTG
*
39494861 GCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGT
66 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGT
* *
39494926 CTATGCAGGAAGGCAAGATCTGCTATCTTTGATCTACTTCACGCCAG
131 CTATGCAGGAAGGCAAGATCTGCTATCTTTGATCTACTTCAAGCCAA
39494973 CTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTG
1 CTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTG
*
39495038 GCTTCAATGTACTCCACTGTAACCACATGGAGGTAAAATCTGCCATCTTCGATCTGCT
66 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
39495096 CCACTACTGT
Statistics
Matches: 284, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
177 282 0.99
178 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (177 bp):
CTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTG
GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGT
CTATGCAGGAAGGCAAGATCTGCTATCTTTGATCTACTTCAAGCCAA
Found at i:39495155 original size:44 final size:44
Alignment explanation
Indices: 39495108--39495420 Score: 135
Period size: 44 Copynumber: 7.1 Consensus size: 44
39495098 ACTACTGTTT
* *
39495108 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
* * *
39495152 AGGGA-AGT-AGAATTACTG---GCTTCAATGTACTCCACTG-TAACCAC
1 AGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTGCT-GCC-C
* * ** ** * * **
39495196 AGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
* *
39495240 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
* ** * * *
39495284 AGGGAAGTAGAATTTCTG---GCTTCAATGTACTCCACTG-TAACCAC
1 AGGG-AG-ATAAGATCTGAAATCTTCAATCTACTCCACTGCT-GCC-C
* * * * ** * * **
39495328 AGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGA-AATCTTCAATCTACTCCACTGCTGCCC
* *
39495372 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
39495416 AGGGA
1 AGGGA
39495421 AGTAGAATTA
Statistics
Matches: 186, Mismatches: 61, Indels: 44
0.64 0.21 0.15
Matches are distributed among these distances:
41 1 0.01
42 8 0.04
43 42 0.23
44 89 0.48
45 34 0.18
46 12 0.06
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTGCTGCCC
Found at i:39495180 original size:132 final size:132
Alignment explanation
Indices: 39494972--39495491 Score: 907
Period size: 132 Copynumber: 3.9 Consensus size: 132
39494962 CTTCACGCCA
* * * *
39494972 GCTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACT
1 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
*
39495037 GGCTTCAATGTACTCCACTGTAACCACATGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTA
66 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTA
39495102 CT
131 CT
* * *
39495104 GTTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTACT
1 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
*
39495169 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTA
66 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTA
39495234 CT
131 CT
*
39495236 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTTCT
1 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
* *
39495301 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCACT
66 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATCTTCGATCTGCTCCACT
39495365 ACT
130 ACT
39495368 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
1 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
*
39495433 GGCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
66 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
39495492 TCGCTGTCTA
Statistics
Matches: 370, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
131 1 0.00
132 368 0.99
133 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTA
CT
Found at i:39495218 original size:88 final size:87
Alignment explanation
Indices: 39495108--39495673 Score: 215
Period size: 88 Copynumber: 6.4 Consensus size: 87
39495098 ACTACTGTTT
* * * * *
39495108 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTACTGGCT
1 AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
*
39495173 TCAATGTACTCCACTGTAACCAC
66 TCAATCTACTCCACTGT-ACCAC
* ** * * ** * *
39495196 AGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGG-AG-ACAA-GATCTGAA
1 AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTA-CTG--
* * *
39495258 ATCTTCAATCTATTCCACTGCTGCC-C
63 -GCTTCAATCTACTCCACTG-TACCAC
* * * *** * * * * **
39495284 AGGGAAGTAGAAT-TTCTGGCTTCAATGTACTCCACTG-TAACCACAGGGAGGTAAAATTCACCA
1 AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACTGCT-GCC-CAGGGAAGTAGAATT-ACTG
* ** * **
39495347 TCTTTGATCTGCTCCAC--TACTGCTT
63 GCTTCAATCTACTCCACTGTAC--CAC
** * * *
39495372 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
1 AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
* *
39495437 TCAATGTACTCTACTGTAACCAC
66 TCAATCTACTCCACTGT-ACCAC
* * * * * *** * *
39495460 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGTCTATGCA-GGAAGGCA-AGATCTGCT
1 AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACTG-CTGCCCAGGGAA-GTAGA-AT-TACT
** ** *
39495523 ATCTTTGATCTACTTCAC-G--CCAGC
62 GGCTTCAATCTACTCCACTGTACCA-C
* ** * * * * *
39495547 TTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGG
1 --AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
*
39495612 CTTCAATATACTCCACTGTAACCAC
64 CTTCAATCTACTCCACTGT-ACCAC
* * *
39495637 ATGGAGGTAAAATCTGTC-ATCTTCGATCTGCTCCACT
1 AGGGAGGTAAAATCTG-CAATCTTCAATCTACTCCACT
39495674 ACTGTTTAGG
Statistics
Matches: 324, Mismatches: 121, Indels: 66
0.63 0.24 0.13
Matches are distributed among these distances:
85 3 0.01
86 10 0.03
87 48 0.15
88 157 0.48
89 79 0.24
90 22 0.07
91 4 0.01
92 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (87 bp):
AGGGAGGTAAAATCTGCAATCTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
TCAATCTACTCCACTGTACCAC
Found at i:39495626 original size:309 final size:309
Alignment explanation
Indices: 39495207--39495802 Score: 996
Period size: 309 Copynumber: 1.9 Consensus size: 309
39495197 GGGAGGTAAA
* * * * *
39495207 ATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATT
1 ATCTGCCATCTTTGATCTACTCCACGACAGCTTAAGGAGACAAGATCTGAAATCTACAATCTATT
* *
39495272 CCACTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTA
66 CCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTA
*
39495337 AAAT-TCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCT
131 AAATCT-ACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCT
*
39495401 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCTACTGTAACCACAGGGAG
195 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
39495466 GTAAAATCTGCCATCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAG
260 GTAAAATCTGCCATCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAG
* * *
39495516 ATCTGCTATCTTTGATCTACTTCACGCCAGCTTAAGGAGACAAGATCTGAAATCTACAATCTATT
1 ATCTGCCATCTTTGATCTACTCCACGACAGCTTAAGGAGACAAGATCTGAAATCTACAATCTATT
* *
39495581 CCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACATGGAGGTA
66 CCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTA
** * **
39495646 AAATCTGTCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATGAGATCTGAAATCTTCAATCTA
131 AAATCTACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTA
39495711 TTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGG
196 TTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGG
*
39495776 TAAAATCTGCCATCTTTGATCTGCTTC
261 TAAAATCTGCCATCTTCGATCTGCTTC
39495803 ACTACTGCTT
Statistics
Matches: 266, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
309 265 1.00
310 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (309 bp):
ATCTGCCATCTTTGATCTACTCCACGACAGCTTAAGGAGACAAGATCTGAAATCTACAATCTATT
CCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTA
AAATCTACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTA
TTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGG
TAAAATCTGCCATCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAG
Found at i:39495628 original size:264 final size:263
Alignment explanation
Indices: 39494980--39495628 Score: 670
Period size: 264 Copynumber: 2.5 Consensus size: 263
39494970 CAGCTTAAGG
* ** * * * * *
39494980 AGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAA-TTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCAGCCCAAGGAAGTACAAGAT-CTGGCTACA
* * * * * * * * *
39495044 ATGTACTCCACTGTAACCACATGGAGGTAAAA-TCTGCCATCTTCGATCTGCTCCACTACTGTTT
65 ATCTACTCCACTGTAACCACAGGGAAGTAAAATTC-ACCAGCTTCAATATACTCCACTACTGCTT
* *
39495108 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTACTGGCT
129 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
*
39495173 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGC
194 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGC
*
39495238 TTAGGG
259 -TAGGA
* * * ** *
39495244 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCAGCCCAAGGAAGTACAAGATCTGGCTACAA
* * * ** * *
39495309 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
66 TCTACTCCACTGTAACCACAGGGAAGTAAAATTCACCAGCTTCAATATACTCCACTACTGCTTAG
39495374 GGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
131 GGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
* *
39495439 AATGTACTCTACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGTCTA-T
196 AATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGC-TC-C--ACTACT
39495503 GC-AGGA
257 GCTAGGA
* ** ** ** *
39495509 AGGCAAGATCTGCTATCTTTGATCTACTT-CAC-GCCAGCTTAAGG-AG-ACAAGATCTGAAATC
1 AGACAAGATCTGAAATCTTCAATCTA-TTCCACTG-CAGCCCAAGGAAGTACAAGATCTG---GC
* ** * **
39495570 TACAATCTATTCCACTGTTGCC-CAGGGAAGTAGAATT-ACTGGCTTCAATATACTCCACT
61 TACAATCTACTCCACTGTAACCACAGGGAAGTAAAATTCACCAGCTTCAATATACTCCACT
39495629 GTAACCACAT
Statistics
Matches: 334, Mismatches: 40, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
263 7 0.02
264 248 0.74
265 52 0.16
266 21 0.06
267 3 0.01
268 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (263 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCACTGCAGCCCAAGGAAGTACAAGATCTGGCTACAA
TCTACTCCACTGTAACCACAGGGAAGTAAAATTCACCAGCTTCAATATACTCCACTACTGCTTAG
GGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTC
AATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGCTA
GGA
Found at i:39495756 original size:132 final size:132
Alignment explanation
Indices: 39495545--39496064 Score: 821
Period size: 132 Copynumber: 3.9 Consensus size: 132
39495535 CTTCACGCCA
* * *
39495545 GCTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACT
1 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
* * *
39495610 GGCTTCAATATACTCCACTGTAACCACATGGAGGTAAAATCTGTCATCTTCGATCTGCTCCACTA
66 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTA
39495675 CT
131 CT
* **
39495677 GTTTAGGGAGATGAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
1 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
* *
39495742 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCACTA
66 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTA
39495807 CT
131 CT
* * * *
39495809 GCTTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGAAAGTAGAATTTCT
1 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
* *
39495874 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCACT
66 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATCTTCGATCTGCTCCACT
39495938 ACT
130 ACT
*
39495941 GCTTAGGGAGACAAGA-CTTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAAGTAGAATTAC
1 GCTTAGGGAGACAAGATC-TGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTAC
*
39496005 TGGCTTCAATGTACTCTAC-GATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
65 TGGCTTCAATGTACTCCACTG-TAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
39496065 TCGCTGTCTA
Statistics
Matches: 356, Mismatches: 28, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
131 3 0.01
132 352 0.99
133 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTA
CT
Found at i:39496137 original size:441 final size:437
Alignment explanation
Indices: 39494536--39496487 Score: 1808
Period size: 441 Copynumber: 4.4 Consensus size: 437
39494526 TGCCGACCGG
* * *
39494536 GGGAA-TAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * * *
39494600 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTATTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCC
* *
39494665 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCAGCCAT
131 CAGGGAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACC-CAGGGAGGTAAAATTA-CCAG
* * * * * * * * * *
39494730 CTTCGATCTGCTTCGCTGT-CTATGTAGGAAGGCAAGATCTGCTATCTTTGATCTACTTCAAGCC
193 CTTCAATCTACTCCACTGTACCA--CAGGAAGACAAGATCTGCTATCTTTGATCTACTCCACGAC
* * *
39494794 AACTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTAC
256 AGCTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTAC
*
39494859 TGGCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
321 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGC-TC-C-
* * ** ** * **
39494924 GTCTA-TGC--AGGAAGGCAAGATCTGCTATCTTTGATCTACTT-CAC-GCCAGCTTA
383 -ACTACTGCTTAGGAAGACAAGATCTGAAATCTTCAATCTA-TTCCACTG-CTGCCCA
* * * * * * * ** * * * * *
39494977 AGG-AG-ACAA-GATCTGAAATCTACAATCTATTCCACTGTTGCC-TAGGGAAGTAGAAT-TACT
1 GGGAAGTAGAATTA-CTG---GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCC
** ** * * ** * ** * ** * **
39495037 GGCTTCAATGTACTCCACTGTAAC--CACATGGAGGTAAAATCTGCCATCTTCGATCTGCTCCAC
62 ATCTTTGATCTGCTCCAC--T-ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCAC
*** * * * * * *
39495100 TACTGTTTAGGGAGATA-AGA-T-CTGAAATCTTCAATCTATTCCACTGCT-GCCTAGGGAAGTA
124 TACTGCCCAGGGAG-TAGA-ATTACTG---GCTTCAATGTACTCCACTG-TAACCCAGGGAGGTA
* ** * * ** * * *
39495161 GAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTG
183 AAATTACCAGCTTCAATCTACTCCACTGT-ACCACAGGAAGACAAGATCTGCTATCTTTGATCTA
* * * *
39495226 CTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG
247 CTCCACGACAGCTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGCTGCCCAGGGAAG
* * *
39495291 TAGAATTTCTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATCTTTGAT
312 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATCTTCGAT
*
39495355 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCA
376 CTGCTCCACTACTGCTTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCA
*
39495417 GGGAAGTAGAATTACTGGCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * * * ** ** **
39495482 TCGATCTGCTTCGCTGTCTA-TGC--AGGAAGGCAAGATCTGCTATCTTTGATCTACTT-CACGC
66 TTGATCTGC-TC-C--ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTA-TTCCACTA
* ** * * * * * * * ** * *
39495543 CAGCTTAAGGAG-ACAA-GATCTGAAATCTACAATCTATTCCACTGTTGCCCAGGGAAGTAGAAT
126 CTGCCCAGGGAGTAGAATTA-CTG---GCTTCAATGTACTCCACTGTAACCCAGGGAGGTAAAAT
** * * * *
39495606 TACTGGCTTCAATATACTCCACTGTAACCACATGGAGGTA-AA-ATCTG-TCATCTTCGATCTGC
187 TACCAGCTTCAATCTACTCCACTGT-ACCACA-GGAAG-ACAAGATCTGCT-ATCTTTGATCTAC
* * * * ** *
39495668 TCCACTACTGTTTAGGGAGATGAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGT
248 TCCACGACAGCTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGCTGCCCAGGGAAGT
*
39495733 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCT
313 AGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCT
* *
39495798 GCTTCACTACTGCTTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCA
378 GCTCCACTACTGCTTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCA
* * *
39495858 GGAAAGTAGAATTTCTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATC
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATC
39495922 TTTGATCTGCTCCACTACTGCTTAGGGAGACAAGA-CTTGAAATCTTCAATCTATTCCACTACTG
65 TTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATC-TGAAATCTTCAATCTATTCCACTACTG
* *
39495986 CCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCTAC-GATAACCACAGGGAGGTAAAATCTGC
129 CCCAGGG-AGTAGAATTACTGGCTTCAATGTACTCCACTG-TAACC-CAGGGAGGTAAAAT-TAC
* * * * * * * *
39496050 CATCTTCGATCTGCTTCGCTGT-CTATGCAGGAAGACAAGATCTGCTATCTTTGATTTACTTCAC
190 CAGCTTCAATCTACTCCACTGTACCA--CAGGAAGACAAGATCTGCTATCTTTGATCTACTCCAC
* * *
39496114 GCCAGCTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAAT
253 GACAGCTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
* * *
39496179 TACTGGCTTCAATATACTCCACTGTAACCACATGGATGTAAAATCTGCCATCTTCGATCTGCTCC
318 TACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCC
* * * *
39496244 ACTACTGTTTAGGGAGATAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCA
383 ACTACTGCTTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCA
* *
39496299 GGGAAGTAGAATTACTGGCTTCAATGTACTCTACTGTAACCACAGGAAGGTAAAATCTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* *
39496364 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCC
*
39496429 CAGGGAAGTAGAATTTCTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATT
131 CAGGG-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC-CAGGGAGGTAAAATT
39496488 CATCATCTTT
Statistics
Matches: 1243, Mismatches: 207, Indels: 123
0.79 0.13 0.08
Matches are distributed among these distances:
437 6 0.00
438 7 0.01
439 45 0.04
440 112 0.09
441 935 0.75
442 91 0.07
443 43 0.03
444 3 0.00
445 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (437 bp):
GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCC
CAGGGAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCCAGGGAGGTAAAATTACCAGCTT
CAATCTACTCCACTGTACCACAGGAAGACAAGATCTGCTATCTTTGATCTACTCCACGACAGCTT
AAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGC
TTAGGAAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCA
Found at i:39496201 original size:264 final size:261
Alignment explanation
Indices: 39495553--39496201 Score: 598
Period size: 264 Copynumber: 2.5 Consensus size: 261
39495543 CAGCTTAAGG
* * * * * * * *
39495553 AGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCCAGGGAAGTAGAA-TTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCGCAGCT--CCAAGGAAGTACAAGAT-CTGGCTACA
* * * ** * * * * *
39495617 ATATACTCCACTGTAACCACATGGAGGTAAAA-TCTGTCATCTTCGATCTGCTCCACTACTGTTT
63 ATCTACTCCACTGTAACCACAGGGAAGTAAAATTC-ACCAGCTTCAATATACTCCACTACTGCTT
** *
39495681 AGGGAGATGAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCT
127 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAAGTAGAATTACTGGCT
*
39495746 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCACTACTGC
192 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCACTACTGC
39495811 TTAGGA
257 -TAGGA
* * * ** *
39495817 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGAAAGTAGAATTTCTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCGCAGCT-CCAAGG-AAGTACAAGATCTGGCTACAA
* * * ** * *
39495882 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAG
64 TCTACTCCACTGTAACCACAGGGAAGTAAAATTCACCAGCTTCAATATACTCCACTACTGCTTAG
39495947 GGAGACAAGA-CTTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAAGTAGAATTACTGGCTT
129 GGAGACAAGATC-TGAAATCTTCAATCTATTCCACTACTGCCCAGGGAAGTAGAATTACTGGCTT
* * *
39496011 CAATGTACTCTAC-GATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGTCTA
193 CAATGTACTCCACTG-TAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCACT-AC--
39496075 TGC-AGGA
254 TGCTAGGA
** ** * * *
39496082 AGACAAGATCTGCTATCTTTGATTTACTTCACGCCAGCT-TAAGG-AG-ACAAGATCTGAAATCT
1 AGACAAGATCTGAAATCTTCAATCTA-TTC-CG-CAGCTCCAAGGAAGTACAAGATCTG---GCT
* ** * * **
39496144 ACAATCTATTCCACTGTTGCC-TAGGGAAGTAGAATT-ACTGGCTTCAATATACTCCACT
60 ACAATCTACTCCACTGTAACCACAGGGAAGTAAAATTCACCAGCTTCAATATACTCCACT
39496202 GTAACCACAT
Statistics
Matches: 325, Mismatches: 46, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
263 13 0.04
264 237 0.73
265 42 0.13
266 24 0.07
267 5 0.02
268 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (261 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCGCAGCTCCAAGGAAGTACAAGATCTGGCTACAATC
TACTCCACTGTAACCACAGGGAAGTAAAATTCACCAGCTTCAATATACTCCACTACTGCTTAGGG
AGACAAGATCTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAAGTAGAATTACTGGCTTCAA
TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCACTACTGCTAGG
A
Found at i:39496209 original size:309 final size:309
Alignment explanation
Indices: 39495780--39496373 Score: 917
Period size: 309 Copynumber: 1.9 Consensus size: 309
39495770 GGGAGGTAAA
* * * *
39495780 ATCTGCCATCTTTGATCTGCTTCACTACTGCTTAGGAAGACAAGATCTGAAATCTTCAATCTATT
1 ATCTGCCATCTTTGATCTACTTCACGACAGCTTAGGAAGACAAGATCTGAAATCTACAATCTATT
* * *
39495845 CCGCTGCTGCCCAGGAAAGTAGAATTTCTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTA
66 CCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTA
*
39495910 AAAT-TCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGA-CTTGAAATCTTCAATC
131 AAATCT-ACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATC-TGAAATCTTCAATC
*
39495973 TATTCCACTACTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCTAC-GATAACCACAGGG
194 TATTCCACTACTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCTACTG-TAACCACAGGA
39496037 AGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGTCTATGCAGGAAGACAAG
258 AGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGTCTATGCAGGAAGACAAG
* * *
39496089 ATCTGCTATCTTTGATTTACTTCACGCCAGCTTAAGG-AGACAAGATCTGAAATCTACAATCTAT
1 ATCTGCCATCTTTGATCTACTTCACGACAGCTT-AGGAAGACAAGATCTGAAATCTACAATCTAT
* * * * *
39496153 TCCACTGTTGCCTAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACATGGATGT
65 TCCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGT
* * * *
39496218 AAAATCTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGAAATCTTTAATCT
130 AAAATCTACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCT
*
39496283 ATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCTACTGTAACCACAGGAAG
195 ATTCCACTACTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCTACTGTAACCACAGGAAG
*
39496348 GTAAAATCTGCCATCTTTGATCTGCT
260 GTAAAATCTGCCATCTTCGATCTGCT
39496374 CCACTACTGC
Statistics
Matches: 258, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
309 252 0.98
310 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (309 bp):
ATCTGCCATCTTTGATCTACTTCACGACAGCTTAGGAAGACAAGATCTGAAATCTACAATCTATT
CCACTGCTGCCCAGGAAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTA
AAATCTACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTA
TTCCACTACTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCTACTGTAACCACAGGAAGG
TAAAATCTGCCATCTTCGATCTGCTTCGCTGTCTATGCAGGAAGACAAG
Found at i:39496329 original size:132 final size:131
Alignment explanation
Indices: 39496118--39496939 Score: 1191
Period size: 132 Copynumber: 6.2 Consensus size: 131
39496108 CTTCACGCCA
* * * *
39496118 GCTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACT
1 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
* * *
39496183 GGCTTCAATATACTCCACTGTAACCACATGGATGTAAAATCTGCCATCTTCGATCTGCTCCACTA
66 GGCTTCAATGTACTCCACTGTAACCACA-GGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTA
39496248 CT
130 CT
* * *
39496250 GTTTAGGGAGATAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
1 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
*
39496315 GGCTTCAATGTACTCTACTGTAACCACAGGAAGGTAAAATCTGCCATCTTTGATCTGCTCCACTA
66 GGCTTCAATGTACTCCACTGTAACCACAGG-AGGTAAAATCTGCCATCTTTGATCTGCTCCACTA
39496380 CT
130 CT
* *
39496382 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTTCT
1 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
39496447 GGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-T-CATCATCTTTGATCTGCTCCAC
66 GGCTTCAATGTACTCCACTGTAACCACA-GGAGGTAAAATCTGC--CATCTTTGATCTGCTCCAC
39496510 TACT
128 TACT
*
39496514 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACT
1 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
** * * *
39496579 GGCTTCAATGTACTCCACTGTATTCACAGAGAGGTAAAAT-TCACCATCTTTGATTTGCCCCACT
66 GGCTTCAATGTACTCCACTGTAACCACAG-GAGGTAAAATCT-GCCATCTTTGATCTGCTCCACT
39496643 ACT
129 ACT
* * *
39496646 GCTTAGGGAGACAATATCTGAAATCTTCAATCTATTCCACTGCTGTCCAGGGAAGTAGAATTGCT
1 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
* * * * * *
39496711 GGCTTCAATGTACTCCAATGTAACTACGATGAGGTAAAATCTGCCATTTTTTATCTGCTCTACTA
66 GGCTTCAATGTACTCCACTGTAACCAC-AGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTA
39496776 CT
130 CT
* * *
39496778 GCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCCGCTGCTACCCAGGGAAGTAGAATTACT
1 GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
* ** ** *
39496843 GGCTTCAATATACTCCACTACAACTTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTA
66 GGCTTCAATGTACTCCACTGTAACCACA-GGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTA
39496908 CT
130 CT
* *
39496910 GCTTAGGGAGGCAAGATCTGTAATCTTCAA
1 GCTTAGGGAGACAAGATCTGAAATCTTCAA
39496940 CCTGCTCCAC
Statistics
Matches: 624, Mismatches: 56, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
130 1 0.00
131 5 0.01
132 613 0.98
133 4 0.01
134 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (131 bp):
GCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
GGCTTCAATGTACTCCACTGTAACCACAGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTAC
T
Found at i:39496628 original size:573 final size:573
Alignment explanation
Indices: 39494796--39496618 Score: 3380
Period size: 573 Copynumber: 3.2 Consensus size: 573
39494786 TTCAAGCCAA
* * * *
39494796 CTTAAGGAGACAAGATCTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTG
1 CTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTG
39494861 GCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGT
66 GCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGT
39494926 CTATGCAGGAAGGCAAGATCTGCTATCTTTGATCTACTTCACGCCAGCTTAAGGAGACAAGATCT
131 CTATGCAGGAAGGCAAGATCTGCTATCTTTGATCTACTTCACGCCAGCTTAAGGAGACAAGATCT
*
39494991 GAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACT
196 GAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTGGCTTCAATATACTCCACT
39495056 GTAACCACATGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGAT
261 GTAACCACATGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGAT
*
39495121 CTGAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCA
326 CTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCA
39495186 CTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAG
391 CTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAG
*
39495251 ATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAATGTACTC
456 ATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAATGTACTC
39495316 CACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
521 CACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
39495369 CTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTG
1 CTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTG
39495434 GCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGT
66 GCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGT
39495499 CTATGCAGGAAGGCAAGATCTGCTATCTTTGATCTACTTCACGCCAGCTTAAGGAGACAAGATCT
131 CTATGCAGGAAGGCAAGATCTGCTATCTTTGATCTACTTCACGCCAGCTTAAGGAGACAAGATCT
*
39495564 GAAATCTACAATCTATTCCACTGTTGCCCAGGGAAGTAGAATTACTGGCTTCAATATACTCCACT
196 GAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTGGCTTCAATATACTCCACT
* *
39495629 GTAACCACATGGAGGTAAAATCTGTCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATGAGAT
261 GTAACCACATGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGAT
39495694 CTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCA
326 CTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCA
* *
39495759 CTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCACTACTGCTTAGGAAGACAAG
391 CTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAG
*
39495824 ATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGAAAGTAGAATTTCTGGCTTCAATGTACTC
456 ATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAATGTACTC
39495889 CACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
521 CACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
*
39495942 CTTAGGGAGACAAGA-CTTGAAATCTTCAATCTATTCCACTACTGCCCAGGGAAGTAGAATTACT
1 CTTAGGGAGACAAGATC-TGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACT
39496006 GGCTTCAATGTACTCTAC-GATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
65 GGCTTCAATGTACTCTACTG-TAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCT
* *
39496070 GTCTATGCAGGAAGACAAGATCTGCTATCTTTGATTTACTTCACGCCAGCTTAAGGAGACAAGAT
129 GTCTATGCAGGAAGGCAAGATCTGCTATCTTTGATCTACTTCACGCCAGCTTAAGGAGACAAGAT
39496135 CTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTGGCTTCAATATACTCCA
194 CTGAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTGGCTTCAATATACTCCA
*
39496200 CTGTAACCACATGGATGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAG
259 CTGTAACCACATGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAG
*
39496265 ATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTC
324 ATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTC
* *
39496330 TACTGTAACCACAGGAAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACA
389 CACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACA
39496395 AGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAATGTAC
454 AGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAATGTAC
*
39496460 TCCACTGTAACCACAGGGAGGTAAAATTCATCATCTTTGATCTGCTCCACTACTG
519 TCCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
*
39496515 CTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTG
1 CTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTG
* ** *
39496580 GCTTCAATGTACTCCACTGTATTCACAGAGAGGTAAAAT
66 GCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAAT
39496619 TCACCATCTT
Statistics
Matches: 1213, Mismatches: 33, Indels: 8
0.97 0.03 0.01
Matches are distributed among these distances:
572 2 0.00
573 1209 1.00
574 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (573 bp):
CTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTG
GCTTCAATGTACTCTACTGTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGT
CTATGCAGGAAGGCAAGATCTGCTATCTTTGATCTACTTCACGCCAGCTTAAGGAGACAAGATCT
GAAATCTACAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTGGCTTCAATATACTCCACT
GTAACCACATGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGAT
CTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCA
CTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAG
ATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTTCTGGCTTCAATGTACTC
CACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTG
Found at i:39496929 original size:44 final size:45
Alignment explanation
Indices: 39496855--39496950 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 45
39496845 CTTCAATATA
* * * *
39496855 CTCCACTACAACTTCAGGGAGGTAAAATCTGCCATCTTCGATCTG
1 CTCCACTACAACTTCAGGGAGGCAAAATCTGCAATCTTCAACCTG
** * *
39496900 CTCCACTACTGCTT-AGGGAGGCAAGATCTGTAATCTTCAACCTG
1 CTCCACTACAACTTCAGGGAGGCAAAATCTGCAATCTTCAACCTG
39496944 CTCCACT
1 CTCCACT
39496951 GTCTCCGAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 31 0.72
45 12 0.28
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (45 bp):
CTCCACTACAACTTCAGGGAGGCAAAATCTGCAATCTTCAACCTG
Found at i:39498292 original size:8 final size:7
Alignment explanation
Indices: 39498248--39498289 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
39498238 TTAGCCTCTC
39498248 CATTTTT
1 CATTTTT
39498255 -ACTTTTT
1 CA-TTTTT
39498262 CATTTTT
1 CATTTTT
39498269 CA-TTTT
1 CATTTTT
39498275 CATCTTTT
1 CAT-TTTT
39498283 CATTTTT
1 CATTTTT
39498290 TCACATCACT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.23
7 16 0.52
8 8 0.26
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:39503108 original size:29 final size:27
Alignment explanation
Indices: 39503071--39503130 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 27
39503061 ACTGCTGGGC
39503071 TAGGGTTAGTTTGGGGCTTAGGTGGGTAT
1 TAGGGTTAGTTT-GGGCTTAGGTGGGT-T
* *
39503100 TAGGTTTAGTTTGGGCTTGGGTGGGTT
1 TAGGGTTAGTTTGGGCTTAGGTGGGTT
39503127 TAGG
1 TAGG
39503131 CCTGCTAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 13 0.45
29 11 0.38
ACGTcount: A:0.12, C:0.03, G:0.45, T:0.40
Consensus pattern (27 bp):
TAGGGTTAGTTTGGGCTTAGGTGGGTT
Found at i:39503605 original size:33 final size:33
Alignment explanation
Indices: 39503548--39503689 Score: 123
Period size: 34 Copynumber: 4.4 Consensus size: 33
39503538 GGTTTAAGAA
39503548 TTTTAAAA-AA-TAAATTAGGGTTTAGAGTTTT
1 TTTTAAAATAATTAAATTAGGGTTTAGAGTTTT
* * *
39503579 TTTTAAAATAATTAAATTAGGTTTTAGGGATTTC
1 TTTTAAAATAATTAAATTAGGGTTTAGAG-TTTT
*** * *
39503613 AAATAAATTAATTAAATTAGGGTTTAGCGTTTT
1 TTTTAAAATAATTAAATTAGGGTTTAGAGTTTT
***
39503646 TAAGAAAATTAATTAAATTAGGGTTTA-A--TTT
1 TTTTAAAA-TAATTAAATTAGGGTTTAGAGTTTT
*
39503677 TTTAAAAATAATT
1 TTTTAAAATAATT
39503690 TTTGTGTTTA
Statistics
Matches: 90, Mismatches: 17, Indels: 9
0.78 0.15 0.08
Matches are distributed among these distances:
30 5 0.06
31 16 0.18
32 2 0.02
33 23 0.26
34 44 0.49
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.44
Consensus pattern (33 bp):
TTTTAAAATAATTAAATTAGGGTTTAGAGTTTT
Found at i:39503930 original size:126 final size:125
Alignment explanation
Indices: 39503774--39504294 Score: 706
Period size: 126 Copynumber: 4.1 Consensus size: 125
39503764 ATTTTACTTT
* * * *
39503774 TTTTTCTACAGTAGTTTCAGAAAAATTAATTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAA-ATAATGTCAAAA
* *
39503839 ACACTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTC
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
39503900 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACAATTTTGAAAAACTAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAA-TAATGTCAAAA
* *
39503965 ACGCTTCAAGCAGGATGCACTGTTAGCAAAATTACTAAAAAAAAGCTCCCACGTGGA-GACTC
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-GAAAAAAGCTCCCACGTGGACG-CTC
* * *
39504027 TTTTTCTACAG-AGTTCCTG-AAAAATCACTTTGAGAAGACGATTTTGAAAAATATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAATA-A-TGTCAAA
* * * *
39504090 AACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTTCCACGTGGACACTT
64 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
39504152 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTG-AAAAATAATGTCAAAA
* ** * **
39504217 ACGCGTCAAGCAGGATGTGCTGTTAGCAAAATTTTTGAAAAAAGCTCCCACGTGGACGCTC
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
39504278 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
39504295 TTGCTTGGCC
Statistics
Matches: 347, Mismatches: 39, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
124 2 0.01
125 61 0.18
126 223 0.64
127 54 0.16
128 7 0.02
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGATTCTGAAAAATAATGTCAAAAA
CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:39510540 original size:33 final size:33
Alignment explanation
Indices: 39510452--39510567 Score: 99
Period size: 33 Copynumber: 3.5 Consensus size: 33
39510442 CTACTATGGT
* * ** *
39510452 CCAACCATGGTCTTACATTCAAGGTGCCATAAC
1 CCAACTATGGTCTTACATTTAAAATGCCATAGC
* *
39510485 CCAATTATGGTCTTTTCA-TTAAAATGCCATAGC
1 CCAACTATGGTC-TTACATTTAAAATGCCATAGC
* * *
39510518 CCAGCTATGGTCTTACATTTAAACATTGCCATGGT
1 CCAACTATGGTCTTACATTTAAA-A-TGCCATAGC
*
39510553 CCAACCATGGTCTTA
1 CCAACTATGGTCTTA
39510568 TCCGTCAATT
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
32 4 0.06
33 36 0.55
34 5 0.08
35 20 0.31
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (33 bp):
CCAACTATGGTCTTACATTTAAAATGCCATAGC
Found at i:39513829 original size:78 final size:78
Alignment explanation
Indices: 39513669--39513837 Score: 191
Period size: 78 Copynumber: 2.2 Consensus size: 78
39513659 TTGGACTTGG
* *
39513669 TTAAAGGTATGAATGTTATATATATGTATATGTGAGTTGGAACATATATGTATATACATGAATAA
1 TTAAAGGTATGAATGTTATATATATGTATATGTAAGTTCGAACATATATGTATATACATGAATAA
*
39513734 GTCTTGAATATAT
66 GTCTTGAATATAA
* * * * * *
39513747 TTAAAGGTATGAATG-T-TATGTATGTATATGTAATTTCGAATATGTATTTATAATACATGTATA
1 TTAAAGGTATGAATGTTATATATATGTATATGTAAGTTCGAACATATATGTAT-ATACATGAATA
* *
39513810 AGTTTTTGTAT-TGAA
65 AG-TCTTGAATAT-AA
39513825 TTAAAGGTATGAA
1 TTAAAGGTATGAA
39513838 ATTGTTAGCT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
76 28 0.36
77 14 0.18
78 35 0.45
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (78 bp):
TTAAAGGTATGAATGTTATATATATGTATATGTAAGTTCGAACATATATGTATATACATGAATAA
GTCTTGAATATAA
Found at i:39529378 original size:24 final size:24
Alignment explanation
Indices: 39529351--39529397 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
39529341 ATTGAAATGG
39529351 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
39529375 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
39529398 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:39539011 original size:14 final size:14
Alignment explanation
Indices: 39538992--39539031 Score: 73
Period size: 13 Copynumber: 2.9 Consensus size: 14
39538982 GTAAGTTTAA
39538992 TTAATAAACTAAAT
1 TTAATAAACTAAAT
39539006 TTAATAAACT-AAT
1 TTAATAAACTAAAT
39539019 TTAATAAACTAAA
1 TTAATAAACTAAA
39539032 AACACATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAATAAACTAAAT
Found at i:39539114 original size:54 final size:54
Alignment explanation
Indices: 39539050--39539175 Score: 216
Period size: 54 Copynumber: 2.3 Consensus size: 54
39539040 CAACAATAAA
* *
39539050 TTATTTCAGCAACTAAATTAACTAAGAAGAACTTAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGAAGAACTCAATTAACTAAGATGAGTAAT
* *
39539104 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGAAGAACTCAATTAACTAAGATGAGTAAT
39539158 TTATTCCAGCAACTAAAT
1 TTATTCCAGCAACTAAAT
39539176 ACTTATTCCA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAACTAAGAAGAACTCAATTAACTAAGATGAGTAAT
Found at i:39539141 original size:19 final size:19
Alignment explanation
Indices: 39539114--39539152 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
39539104 TTATTCCAGC
*
39539114 AACTTAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
39539133 AACTCAATTAACTAAGATG
1 AACTCAATTAACTAAGATG
39539152 A
1 A
39539153 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTCAATTAACTAAGATG
Found at i:39539251 original size:10 final size:10
Alignment explanation
Indices: 39539236--39539281 Score: 60
Period size: 9 Copynumber: 4.8 Consensus size: 10
39539226 GGTTAAACAT
39539236 ATGTGTTTAA
1 ATGTGTTTAA
39539246 ATGTG-TTAA
1 ATGTGTTTAA
39539255 ATGTGTTT-A
1 ATGTGTTTAA
* *
39539264 ATGCGTTTTA
1 ATGTGTTTAA
39539274 ATGTGTTT
1 ATGTGTTT
39539282 GCTAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 17 0.53
10 15 0.47
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.52
Consensus pattern (10 bp):
ATGTGTTTAA
Found at i:39539276 original size:19 final size:19
Alignment explanation
Indices: 39539236--39539281 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
39539226 GGTTAAACAT
*
39539236 ATGTGTTTAAATGTGTTAA
1 ATGTGTTTAAATGCGTTAA
*
39539255 ATGTGTTT-AATGCGTTTTA
1 ATGTGTTTAAATGCG-TTAA
39539274 ATGTGTTT
1 ATGTGTTT
39539282 GCTAATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.52
Consensus pattern (19 bp):
ATGTGTTTAAATGCGTTAA
Found at i:39542327 original size:49 final size:50
Alignment explanation
Indices: 39542109--39542343 Score: 221
Period size: 51 Copynumber: 4.7 Consensus size: 50
39542099 TATCGATGAA
* * * * * *
39542109 CACGTGTGTAGTACTGTGTGAATGCTACCACGTG-TCTCGGT-AAACTACGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAAC-C-GTAAAACT-TGAT
* * * * *
39542160 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACC--AAGAAGCTTTGAG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAA-AA-C-TTGAT
* *
39542211 CACGTGTGTAGTACTGA-GTGAAGGCTACTACGGGAGCCGTAAAACTTGAT
1 CACGTGTGTAGTACT-ATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
* **
39542261 CACGTGTGTAGTACTATGTGAAAGCTACTACGTGAATTGTAAAAC-TGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
39542310 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
39542344 TATCGAATGA
Statistics
Matches: 153, Mismatches: 22, Indels: 20
0.78 0.11 0.10
Matches are distributed among these distances:
49 39 0.25
50 44 0.29
51 63 0.41
52 5 0.03
53 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
Found at i:39545237 original size:9 final size:9
Alignment explanation
Indices: 39545222--39545275 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
39545212 GGTAATTTTT
39545222 GGGTAATTC
1 GGGTAATTC
*
39545231 AGGTAATTTTC
1 GGGTAA--TTC
39545242 GGGTAATTC
1 GGGTAATTC
*
39545251 GGTTAA-TC
1 GGGTAATTC
39545259 GGGTAATTC
1 GGGTAATTC
39545268 GGGTAATT
1 GGGTAATT
39545276 TTTAACCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
8 7 0.18
9 23 0.61
11 8 0.21
ACGTcount: A:0.24, C:0.09, G:0.30, T:0.37
Consensus pattern (9 bp):
GGGTAATTC
Found at i:39545237 original size:20 final size:19
Alignment explanation
Indices: 39545212--39545277 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
39545202 GAACCTTTTG
*
39545212 GGTAATTTTTGGGTAATTC
1 GGTAATTTTCGGGTAATTC
39545231 AGGTAATTTTCGGGTAATTC
1 -GGTAATTTTCGGGTAATTC
39545251 GGTTAA---TCGGGTAATTC
1 GG-TAATTTTCGGGTAATTC
39545268 GGGTAATTTT
1 -GGTAATTTT
39545278 TAACCAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 14 0.35
18 2 0.05
19 2 0.05
20 22 0.55
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (19 bp):
GGTAATTTTCGGGTAATTC
Found at i:39545262 original size:17 final size:17
Alignment explanation
Indices: 39545240--39545274 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
39545230 CAGGTAATTT
*
39545240 TCGGGTAATTCGGTTAA
1 TCGGGTAATTCGGGTAA
39545257 TCGGGTAATTCGGGTAA
1 TCGGGTAATTCGGGTAA
39545274 T
1 T
39545275 TTTTAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.31, T:0.34
Consensus pattern (17 bp):
TCGGGTAATTCGGGTAA
Found at i:39545451 original size:12 final size:12
Alignment explanation
Indices: 39545434--39545458 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39545424 AGTAATTTCG
39545434 GGTCGGTTAACC
1 GGTCGGTTAACC
39545446 GGTCGGTTAACC
1 GGTCGGTTAACC
39545458 G
1 G
39545459 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:39550288 original size:49 final size:50
Alignment explanation
Indices: 39550061--39550294 Score: 221
Period size: 51 Copynumber: 4.7 Consensus size: 50
39550051 TATCGATGAA
* * * * * *
39550061 CACGTGTGTAGTACTGTGTGAATGCTACCACGTG-TCTCGGT-AAACTACGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAAC-C-GTAAAACT-TGAT
* * * * *
39550112 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACC--AAGAAGCTTTGAG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAA-AA-C-TTGAT
* *
39550163 CACGTGTGTAGTACTGA-GTGAAGGCTACTACGGGAGCCGTAAAACTTGAT
1 CACGTGTGTAGTACT-ATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
**
39550213 CACGTGTGTAGTACTATGTGAA-GCTACTACGTGAATTGTAAAAC-TGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
39550261 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
39550295 TATCGAATGA
Statistics
Matches: 153, Mismatches: 20, Indels: 22
0.78 0.10 0.11
Matches are distributed among these distances:
48 26 0.17
49 31 0.20
50 26 0.17
51 63 0.41
52 5 0.03
53 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
Found at i:39553187 original size:9 final size:9
Alignment explanation
Indices: 39553172--39553225 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
39553162 GGTAATTTTT
39553172 GGGTAATTC
1 GGGTAATTC
*
39553181 AGGTAATTTTC
1 GGGTAA--TTC
39553192 GGGTAATTC
1 GGGTAATTC
*
39553201 GGTTAA-TC
1 GGGTAATTC
39553209 GGGTAATTC
1 GGGTAATTC
39553218 GGGTAATT
1 GGGTAATT
39553226 TTTAACCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
8 7 0.18
9 23 0.61
11 8 0.21
ACGTcount: A:0.24, C:0.09, G:0.30, T:0.37
Consensus pattern (9 bp):
GGGTAATTC
Found at i:39553187 original size:20 final size:19
Alignment explanation
Indices: 39553162--39553227 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
39553152 GAACCTTTTG
*
39553162 GGTAATTTTTGGGTAATTC
1 GGTAATTTTCGGGTAATTC
39553181 AGGTAATTTTCGGGTAATTC
1 -GGTAATTTTCGGGTAATTC
39553201 GGTTAA---TCGGGTAATTC
1 GG-TAATTTTCGGGTAATTC
39553218 GGGTAATTTT
1 -GGTAATTTT
39553228 TAACCAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 14 0.35
18 2 0.05
19 2 0.05
20 22 0.55
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (19 bp):
GGTAATTTTCGGGTAATTC
Found at i:39553212 original size:17 final size:17
Alignment explanation
Indices: 39553190--39553224 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
39553180 CAGGTAATTT
*
39553190 TCGGGTAATTCGGTTAA
1 TCGGGTAATTCGGGTAA
39553207 TCGGGTAATTCGGGTAA
1 TCGGGTAATTCGGGTAA
39553224 T
1 T
39553225 TTTTAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.11, G:0.31, T:0.34
Consensus pattern (17 bp):
TCGGGTAATTCGGGTAA
Found at i:39553401 original size:12 final size:12
Alignment explanation
Indices: 39553384--39553408 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39553374 AGTAATTTCG
39553384 GGTCGGTTAACC
1 GGTCGGTTAACC
39553396 GGTCGGTTAACC
1 GGTCGGTTAACC
39553408 G
1 G
39553409 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:39558318 original size:50 final size:49
Alignment explanation
Indices: 39558191--39558375 Score: 232
Period size: 50 Copynumber: 3.7 Consensus size: 49
39558181 TAAACTACGG
* *
39558191 TCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACC--AAGAAGCTTTGA
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTG-ACCGTAA-AA-C-TTGA
*
39558242 GCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGAGCCGTAAAACTTGA
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGA-CCGTAAAACTTGA
* **
39558292 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATTGTAAAAC-TGA
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTG-ACCGTAAAACTTGA
*
39558341 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTG
39558376 TGTCGAATGA
Statistics
Matches: 123, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
49 38 0.31
50 45 0.37
51 36 0.29
52 2 0.02
53 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGAAGGCTACTACGTGACCGTAAAACTTGA
Found at i:39558361 original size:49 final size:49
Alignment explanation
Indices: 39558141--39558375 Score: 233
Period size: 51 Copynumber: 4.7 Consensus size: 49
39558131 TATCGATGAA
* * * * * *
39558141 CACGTGTGTAGTACTGTGTGAATGCTACCACGTGTCTTGGT-AAACTACGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-ATT-GTAAAACT-TGAT
* * * *** *
39558192 CACATGTGTAGTACTAAGTGAAGGCTACTATGTG-TACCAAGAAGCTTTGAG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGATTGTAA-AA-C-TTGAT
* **
39558243 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGAGCCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGA-TTGTAAAACTTGAT
39558293 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATTGTAAAAC-TGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-ATTGTAAAACTTGAT
39558342 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
39558376 TGTCGAATGA
Statistics
Matches: 155, Mismatches: 22, Indels: 16
0.80 0.11 0.08
Matches are distributed among these distances:
49 40 0.26
50 46 0.30
51 64 0.41
52 3 0.02
53 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGATTGTAAAACTTGAT
Found at i:39578066 original size:40 final size:40
Alignment explanation
Indices: 39578007--39578194 Score: 295
Period size: 40 Copynumber: 4.7 Consensus size: 40
39577997 GAGCACTGGA
* *
39578007 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
39578047 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
39578087 ATATATCCGGGATAAGACCCGAAGGCAATTATACAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
*
39578127 ATATATCCGGGTTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
39578167 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
39578195 ATGTGTTTGC
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:39586698 original size:40 final size:40
Alignment explanation
Indices: 39586639--39586826 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
39586629 GAGCACTGGA
* *
39586639 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
39586679 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
39586719 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
*
39586759 ATATATCCGGGTTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
39586799 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
39586827 ATGTGTTTGC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Done.