Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 84 of 204
Found at i:25776800 original size:16 final size:15
Alignment explanation
Indices: 25776739--25776788 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
25776729 TTTCCTTTTG
*
25776739 TTATTATTATTAT-T
1 TTATTGTTATTATAT
*
25776753 TTATT-TTCATTTTTAT
1 TTATTGTT-A-TTATAT
25776769 TTATTGTTATTATAT
1 TTATTGTTATTATAT
25776784 TTATT
1 TTATT
25776789 TGTTTTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 2 0.07
14 6 0.20
15 13 0.43
16 7 0.23
17 2 0.07
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (15 bp):
TTATTGTTATTATAT
Found at i:25776924 original size:22 final size:22
Alignment explanation
Indices: 25776899--25776940 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
25776889 TTAATTGTCA
25776899 TTTTTATTATTT-TTATTCTTGT
1 TTTTTATTATTTATT-TTCTTGT
25776921 TTTTTATTATTTATTTTCTT
1 TTTTTATTATTTATTTTCTT
25776941 TAGTTTTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTATTATTTATTTTCTTGT
Found at i:25778380 original size:18 final size:17
Alignment explanation
Indices: 25778357--25778398 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
25778347 GGACCTCTCC
25778357 GAGTGGTTCACTCATTTT
1 GAGTGGTTCACT-ATTTT
25778375 GAGTGG--CACTATTTT
1 GAGTGGTTCACTATTTT
*
25778390 GAGCGGTTC
1 GAGTGGTTC
25778399 GACAGTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
15 10 0.48
16 4 0.19
17 1 0.05
18 6 0.29
ACGTcount: A:0.17, C:0.17, G:0.29, T:0.38
Consensus pattern (17 bp):
GAGTGGTTCACTATTTT
Found at i:25778551 original size:21 final size:22
Alignment explanation
Indices: 25778527--25778567 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
25778517 TTTTTTTTCA
* *
25778527 GTTTTATTTTTGTTT-TTAGTT
1 GTTTCATTTTTATTTCTTAGTT
25778548 GTTTCATTTTTATTTCTTAG
1 GTTTCATTTTTATTTCTTAG
25778568 ACTTCTTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.12, C:0.05, G:0.12, T:0.71
Consensus pattern (22 bp):
GTTTCATTTTTATTTCTTAGTT
Found at i:25794831 original size:51 final size:51
Alignment explanation
Indices: 25794753--25794927 Score: 256
Period size: 51 Copynumber: 3.6 Consensus size: 51
25794743 TTTGAGTATT
* *
25794753 TCTGATCAGTGTCAAGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
25794804 TCTGATCAGTGACAAGTGACAAATGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
25794855 TCTG---A-T--C-AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
25794899 TCTGATTAGGGACAAGTGACAAGTGATAA
1 TCTGATCAGTGACAAGTGACAAGTGATAA
25794928 ATGTGATCCG
Statistics
Matches: 112, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
44 40 0.36
45 1 0.01
47 2 0.02
48 1 0.01
50 1 0.01
51 67 0.60
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (51 bp):
TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:25794868 original size:44 final size:44
Alignment explanation
Indices: 25794818--25794923 Score: 176
Period size: 44 Copynumber: 2.4 Consensus size: 44
25794808 ATCAGTGACA
*
25794818 AGTGACAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
*
25794862 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATT
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* *
25794906 AGGGACAAGTGACAAGTG
1 AGTGACAAGTGATAAGTG
25794924 ATAAATGTGA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (44 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
Found at i:25799252 original size:17 final size:18
Alignment explanation
Indices: 25799230--25799271 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
25799220 GCAAATACAT
* *
25799230 AATAAAAG-AAATCATCA
1 AATAAAAGTAAATAAACA
25799247 AATAAAAGTAAATAAACA
1 AATAAAAGTAAATAAACA
25799265 AATAAAA
1 AATAAAA
25799272 ATTAAAGCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (18 bp):
AATAAAAGTAAATAAACA
Found at i:25799441 original size:3 final size:3
Alignment explanation
Indices: 25799433--25799465 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
25799423 AATAAATAGG
25799433 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25799466 AGATACTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:25801795 original size:31 final size:29
Alignment explanation
Indices: 25801757--25801833 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
25801747 TTAACGGCTC
* *
25801757 AGTGACTAAAATGTTACATCATGATAACATA
1 AGTGACTAAAATGTAACAT-ATCA-AACATA
* *
25801788 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACATATCAAACATA
*
25801817 AATGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
25801834 CTGAACCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 21 0.52
30 2 0.05
31 17 0.43
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTAACATATCAAACATA
Found at i:25802201 original size:20 final size:22
Alignment explanation
Indices: 25802158--25802201 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
25802148 ACGAAGATAT
* *
25802158 ATTAGATTACTTTTTTTTTACA
1 ATTAAATTACTTTTTTATTACA
25802180 ATTAAATTA-TTTTTTATT-CA
1 ATTAAATTACTTTTTTATTACA
25802200 AT
1 AT
25802202 AATACTACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 8 0.40
22 8 0.40
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTAAATTACTTTTTTATTACA
Found at i:25802755 original size:24 final size:24
Alignment explanation
Indices: 25802711--25802757 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
25802701 AAATTCACAT
* *
25802711 TTTATATATAATTATATTAAATTA
1 TTTAAATATAATTATAATAAATTA
25802735 TTTAAATATAATT-TAAATAAATT
1 TTTAAATATAATTAT-AATAAATT
25802758 TATTATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTAAATATAATTATAATAAATTA
Found at i:25802767 original size:53 final size:50
Alignment explanation
Indices: 25802658--25802768 Score: 127
Period size: 49 Copynumber: 2.2 Consensus size: 50
25802648 TATGTACCAT
*
25802658 TTATTTTATAAATAATTTATATTAATTATTTAAAATATATATAAAATTCA
1 TTATTTTATAAATAATTTATATTAATTATTTAAAATATATAAAAAATTCA
* * * *
25802708 -CATTTTATATATAA-TTATATTAAATTATTTAAATATAATTTAAATAAATTTA
1 TTATTTTATAAATAATTTATATT-AATTATTTAAA-AT-ATATAAA-AAATTCA
25802760 TTATTTTAT
1 TTATTTTAT
25802769 TTTCTAACAT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
48 7 0.14
49 23 0.46
50 2 0.04
51 5 0.10
52 6 0.12
53 7 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (50 bp):
TTATTTTATAAATAATTTATATTAATTATTTAAAATATATAAAAAATTCA
Found at i:25803291 original size:15 final size:15
Alignment explanation
Indices: 25803266--25803300 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
25803256 GACTCTATTT
*
25803266 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
25803280 TAATTAATATTAAGA
1 TAATTAATATTAAGA
25803295 TAATTA
1 TAATTA
25803301 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:25807231 original size:12 final size:11
Alignment explanation
Indices: 25807211--25807281 Score: 81
Period size: 12 Copynumber: 6.3 Consensus size: 11
25807201 GCAGCCCAAT
25807211 TTTTATTTTTA
1 TTTTATTTTTA
25807222 TTTTATTTTTA
1 TTTTATTTTTA
*
25807233 TTTTTTTCTTTA
1 TTTTATT-TTTA
*
25807245 CTTTATTTATTA
1 TTTTATTT-TTA
*
25807257 CTTTA-TTTTA
1 TTTTATTTTTA
25807267 TTTTATTATTTA
1 TTTTATT-TTTA
25807279 TTT
1 TTT
25807282 GGATATTAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
10 7 0.13
11 21 0.40
12 24 0.46
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:25807231 original size:17 final size:18
Alignment explanation
Indices: 25807209--25807281 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 18
25807199 AGGCAGCCCA
25807209 ATTTTTATT-TTTATTTT
1 ATTTTTATTATTTATTTT
*
25807226 ATTTTTATT-TTTTTCTTT
1 ATTTTTATTATTTAT-TTT
25807244 ACTTTATTTATTACTTTATTTT
1 A--TT-TTTATTA-TTTATTTT
25807266 A-TTTTATTATTTATTT
1 ATTTTTATTATTTATTT
25807282 GGATATTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
17 20 0.42
18 11 0.23
19 1 0.02
20 2 0.04
21 6 0.12
22 4 0.08
23 4 0.08
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (18 bp):
ATTTTTATTATTTATTTT
Found at i:25808921 original size:15 final size:15
Alignment explanation
Indices: 25808896--25808930 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
25808886 GACTCTATTT
*
25808896 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
25808910 TAATTAATATTAAGA
1 TAATTAATATTAAGA
25808925 TAATTA
1 TAATTA
25808931 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:25808931 original size:29 final size:29
Alignment explanation
Indices: 25808896--25808954 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
25808886 GACTCTATTT
*
25808896 TAATTATATTAGGA-TAATTAATATTAAGA
1 TAATTAT-TAAGGATTAATTAATATTAAGA
* *
25808925 TAATTATTAAGGATTATTTAATTTTAAGA
1 TAATTATTAAGGATTAATTAATATTAAGA
25808954 T
1 T
25808955 TTAATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (29 bp):
TAATTATTAAGGATTAATTAATATTAAGA
Found at i:25810400 original size:27 final size:29
Alignment explanation
Indices: 25810370--25810435 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 29
25810360 CTAAAAACCC
* *
25810370 AAAATTCAAAATTACTA-TAAAAAAA-CT
1 AAAATACAAAATCACTATTAAAAAAATCT
*
25810397 AAAA-ACCAAATCACTATTAAAAAAATCT
1 AAAATACAAAATCACTATTAAAAAAATCT
*
25810425 AAAATAAAAAA
1 AAAATACAAAA
25810436 ATTAACAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 9 0.29
27 12 0.39
28 6 0.19
29 4 0.13
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (29 bp):
AAAATACAAAATCACTATTAAAAAAATCT
Found at i:25812088 original size:2 final size:2
Alignment explanation
Indices: 25812074--25812111 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
25812064 TTGCATCATG
25812074 GA GA GA GCA -A GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA G-A GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
25812112 ATACAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:25812786 original size:26 final size:25
Alignment explanation
Indices: 25812744--25812794 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
25812734 GGCCATGGGA
*
25812744 TTGTCTGTATGTGGGAGTTGGGATT
1 TTGTCTGTATGTGGGAGTGGGGATT
25812769 TTGTCATGTAATGT-GGAGTGGGGATT
1 TTGTC-TGT-ATGTGGGAGTGGGGATT
25812795 ATAAGCCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 14 0.61
27 4 0.17
ACGTcount: A:0.16, C:0.04, G:0.39, T:0.41
Consensus pattern (25 bp):
TTGTCTGTATGTGGGAGTGGGGATT
Found at i:25822144 original size:3 final size:3
Alignment explanation
Indices: 25822132--25822171 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
25822122 ATAACGTATT
25822132 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
25822172 GCAAAAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25822207 original size:36 final size:37
Alignment explanation
Indices: 25822155--25822224 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 37
25822145 AATAATAATA
25822155 ATAATAATAATAATAATGCAAAAAACACAAGAATGTT
1 ATAATAATAATAATAATGCAAAAAACACAAGAATGTT
* *
25822192 ATAA-AATAATAATAATGCAAAGAACATAAGAAT
1 ATAATAATAATAATAATGCAAAAAACACAAGAAT
25822225 AATATATCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 27 0.87
37 4 0.13
ACGTcount: A:0.61, C:0.07, G:0.09, T:0.23
Consensus pattern (37 bp):
ATAATAATAATAATAATGCAAAAAACACAAGAATGTT
Found at i:25822239 original size:36 final size:36
Alignment explanation
Indices: 25822146--25822231 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
25822136 AATAATAATA
*
25822146 ATAATAATAATA-ATAATAATAATAATGCAAAAAAC
1 ATAAGAATAATATATAATAATAATAATGCAAAAAAC
* ** * *
25822181 ACAAGAATGTTATAAAATAATAATAATGCAAAGAAC
1 ATAAGAATAATATATAATAATAATAATGCAAAAAAC
25822217 ATAAGAATAATATAT
1 ATAAGAATAATATAT
25822232 CAGAATAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
35 8 0.20
36 32 0.80
ACGTcount: A:0.62, C:0.06, G:0.07, T:0.26
Consensus pattern (36 bp):
ATAAGAATAATATATAATAATAATAATGCAAAAAAC
Found at i:25826041 original size:24 final size:25
Alignment explanation
Indices: 25825998--25826045 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
25825988 TAATTATATA
25825998 GTTTCTTTTAAAAAGAAAAAAAAAC
1 GTTTCTTTTAAAAAGAAAAAAAAAC
25826023 GTTTCTTTTAAAAAGAAAAAAAA
1 GTTTCTTTTAAAAAGAAAAAAAA
25826046 TTTTGTCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.29
Consensus pattern (25 bp):
GTTTCTTTTAAAAAGAAAAAAAAAC
Found at i:25829310 original size:18 final size:18
Alignment explanation
Indices: 25829287--25829323 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
25829277 TATATTTTCG
* *
25829287 TATTCGATTTATTTGAAT
1 TATTCGAGTTATTCGAAT
25829305 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
25829323 T
1 T
25829324 CAAATACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:25830058 original size:23 final size:23
Alignment explanation
Indices: 25830032--25830076 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
25830022 AAAGAAGTCT
25830032 TACAAATAAAAATAAAAATAAAG
1 TACAAATAAAAATAAAAATAAAG
* * *
25830055 TACAACTGAAAATAATAATAAA
1 TACAAATAAAAATAAAAATAAA
25830077 TAAAGCAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.69, C:0.07, G:0.04, T:0.20
Consensus pattern (23 bp):
TACAAATAAAAATAAAAATAAAG
Found at i:25830764 original size:21 final size:19
Alignment explanation
Indices: 25830740--25830781 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
25830730 TAAAAGTCAA
25830740 AATAATAAAAATTAATATAAT
1 AATAATAAAAA-T-ATATAAT
*
25830761 AATAATAAAGATATATAAT
1 AATAATAAAAATATATAAT
25830780 AA
1 AA
25830782 ATAAAAGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 1 0.05
21 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AATAATAAAAATATATAAT
Found at i:25830784 original size:17 final size:17
Alignment explanation
Indices: 25830754--25830786 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25830744 ATAAAAATTA
25830754 ATATAATAATAATAAAG
1 ATATAATAATAATAAAG
25830771 ATAT-ATAATAAATAAA
1 ATATAATAAT-AATAAA
25830787 AGGAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
ATATAATAATAATAAAG
Found at i:25833406 original size:19 final size:20
Alignment explanation
Indices: 25833381--25833429 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
25833371 ACAAACGAAA
*
25833381 AAAATAAAAATGTAAAA-ATT
1 AAAATAAAAAT-AAAAATATT
25833401 -AAATAAAAATAAAAATATT
1 AAAATAAAAATAAAAATATT
25833420 AAAATAAAAA
1 AAAATAAAAA
25833430 ATGGATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 4 0.15
19 13 0.50
20 9 0.35
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAATAAAAATAAAAATATT
Found at i:25838944 original size:79 final size:79
Alignment explanation
Indices: 25838811--25838971 Score: 295
Period size: 79 Copynumber: 2.0 Consensus size: 79
25838801 GCTTTCATCG
25838811 AACTAATGATAGTAGAACTTCTGATTTTAGACTGAATAGTGACGGGGTTCTGTGTTTTAGGAGTT
1 AACTAATGATAGTAGAACTTCTGATTTTAGACTGAATAGTGACGGGGTTCTGTGTTTTAGGAGTT
*
25838876 AGATCTGTATGCTT
66 AGATCTGTATGCCT
*
25838890 AACTAATGATAGTAGAACTTCTGATTTTAGACTGAATAGTGACGGGGTTTTGTGTTTTAGGAGTT
1 AACTAATGATAGTAGAACTTCTGATTTTAGACTGAATAGTGACGGGGTTCTGTGTTTTAGGAGTT
*
25838955 GGATCTGTATGCCT
66 AGATCTGTATGCCT
25838969 AAC
1 AAC
25838972 GATGTTGTGT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.37
Consensus pattern (79 bp):
AACTAATGATAGTAGAACTTCTGATTTTAGACTGAATAGTGACGGGGTTCTGTGTTTTAGGAGTT
AGATCTGTATGCCT
Found at i:25840583 original size:19 final size:21
Alignment explanation
Indices: 25840537--25840584 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
25840527 AAAAAAAATG
*
25840537 TTTCTTTCTTCTCCTTTCTTAC
1 TTTC-TTCTTCTCCCTTCTTAC
25840559 TGTTCTTCTTCTCCCTTC-T-C
1 T-TTCTTCTTCTCCCTTCTTAC
25840579 TTTCTT
1 TTTCTT
25840585 TCCTCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 5 0.21
20 2 0.08
21 1 0.04
22 13 0.54
23 3 0.12
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTCTTCTTCTCCCTTCTTAC
Found at i:25841522 original size:5 final size:5
Alignment explanation
Indices: 25841512--25841542 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
25841502 TGAGCATTCG
25841512 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
25841543 AATTTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:25842479 original size:9 final size:9
Alignment explanation
Indices: 25842465--25842501 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
25842455 TATAGTTTGA
25842465 TATTCGAAT
1 TATTCGAAT
25842474 TATTCGAAT
1 TATTCGAAT
*
25842483 TATTCGAGT
1 TATTCGAAT
25842492 TATTCGAAT
1 TATTCGAAT
25842501 T
1 T
25842502 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:25842873 original size:20 final size:20
Alignment explanation
Indices: 25842850--25842904 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 20
25842840 TTTTATAAAA
25842850 AAATATTTTATTTTTTATTT
1 AAATATTTTATTTTTTATTT
25842870 -AA-ATTTTATTTTTAATATTT
1 AAATATTTTATTTTT--TATTT
*
25842890 AAAT-TTATATTTTTT
1 AAATATTTTATTTTTT
25842905 TATCAAACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
18 11 0.37
19 3 0.10
20 5 0.17
21 11 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
AAATATTTTATTTTTTATTT
Found at i:25843082 original size:20 final size:20
Alignment explanation
Indices: 25843043--25843082 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25843033 TAGAATTATT
* **
25843043 AAAATTATTAAAAAGGTATA
1 AAAATTATAAAAAAAATATA
25843063 AAAATTATAAAAAAAATATA
1 AAAATTATAAAAAAAATATA
25843083 TTTTTAATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAATTATAAAAAAAATATA
Found at i:25849837 original size:21 final size:21
Alignment explanation
Indices: 25849807--25849847 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
25849797 TTTTCCAAAG
* *
25849807 ATGTGTATTGGATTGAATTGA
1 ATGTGAATTGGATTAAATTGA
*
25849828 ATGTGAATTGTATTAAATTG
1 ATGTGAATTGGATTAAATTG
25849848 TGTTAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (21 bp):
ATGTGAATTGGATTAAATTGA
Found at i:25850232 original size:25 final size:25
Alignment explanation
Indices: 25850204--25850316 Score: 99
Period size: 24 Copynumber: 4.6 Consensus size: 25
25850194 CCGTTATATA
*
25850204 GATCTCACGAGCTTCCCAATTAATG
1 GATCTCATGAGCTTCCCAATTAATG
* * *
25850229 GATCTCTTAAGCTTCCC-ATTTATG
1 GATCTCATGAGCTTCCCAATTAATG
*
25850253 GCTCGT-ATGAGCTTCCCAATTAATG
1 GATC-TCATGAGCTTCCCAATTAATG
* * *
25850278 GATCTCTTAAGCTTCCC-ATTTATG
1 GATCTCATGAGCTTCCCAATTAATG
*
25850302 GCTCGT-ATGAGCTTC
1 GATC-TCATGAGCTTC
25850317 TCGATAATTG
Statistics
Matches: 69, Mismatches: 15, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
24 35 0.51
25 34 0.49
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (25 bp):
GATCTCATGAGCTTCCCAATTAATG
Found at i:25850333 original size:49 final size:49
Alignment explanation
Indices: 25850212--25850316 Score: 210
Period size: 49 Copynumber: 2.1 Consensus size: 49
25850202 TAGATCTCAC
25850212 GAGCTTCCCAATTAATGGATCTCTTAAGCTTCCCATTTATGGCTCGTAT
1 GAGCTTCCCAATTAATGGATCTCTTAAGCTTCCCATTTATGGCTCGTAT
25850261 GAGCTTCCCAATTAATGGATCTCTTAAGCTTCCCATTTATGGCTCGTAT
1 GAGCTTCCCAATTAATGGATCTCTTAAGCTTCCCATTTATGGCTCGTAT
25850310 GAGCTTC
1 GAGCTTC
25850317 TCGATAATTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 56 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (49 bp):
GAGCTTCCCAATTAATGGATCTCTTAAGCTTCCCATTTATGGCTCGTAT
Found at i:25850340 original size:49 final size:49
Alignment explanation
Indices: 25850212--25850343 Score: 194
Period size: 49 Copynumber: 2.7 Consensus size: 49
25850202 TAGATCTCAC
*
25850212 GAGCTTCCCAATTAATGGATCTCTTAAGCTTCCCATTTATGGCTCGTAT
1 GAGCTTCCCAATTAATGGATCTCTGAAGCTTCCCATTTATGGCTCGTAT
*
25850261 GAGCTTCCCAATTAATGGATCTCTTAAGCTTCCCATTTATGGCTCGTAT
1 GAGCTTCCCAATTAATGGATCTCTGAAGCTTCCCATTTATGGCTCGTAT
* * * *
25850310 GAGCTTCTCGA-TAATTGGCTCTCTGGAGCTTCCC
1 GAGCTTCCCAATTAA-TGGATCTCTGAAGCTTCCC
25850344 GATAAAAGAC
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 3 0.04
49 74 0.96
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (49 bp):
GAGCTTCCCAATTAATGGATCTCTGAAGCTTCCCATTTATGGCTCGTAT
Found at i:25850356 original size:25 final size:25
Alignment explanation
Indices: 25850212--25850399 Score: 96
Period size: 25 Copynumber: 7.5 Consensus size: 25
25850202 TAGATCTCAC
* * * *
25850212 GAGCTTCCCAATTAATGGATCTCTT
1 GAGCTTCCCGATAAATGGCTCTCTG
* ** *
25850237 AAGCTTCCC-ATTTATGGCTCGTAT-
1 GAGCTTCCCGATAAATGGCTC-TCTG
* * * *
25850261 GAGCTTCCCAATTAATGGATCTCTT
1 GAGCTTCCCGATAAATGGCTCTCTG
* ** *
25850286 AAGCTTCCC-ATTTATGGCTCGTAT-
1 GAGCTTCCCGATAAATGGCTC-TCTG
* *
25850310 GAGCTTCTCGATAATTGGCTCTCTG
1 GAGCTTCCCGATAAATGGCTCTCTG
* * *
25850335 GAGCTTCCCGATAAAAGACTCTCTCAT
1 GAGCTTCCCGATAAATGGCTCTCT--G
* *
25850362 GAGCTTCCGGATTAATGGCTCTCTG
1 GAGCTTCCCGATAAATGGCTCTCTG
*
25850387 GAGCTACCCGATA
1 GAGCTTCCCGATA
25850400 TTAGCTCACA
Statistics
Matches: 124, Mismatches: 31, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
24 37 0.30
25 67 0.54
27 20 0.16
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCGATAAATGGCTCTCTG
Found at i:25850489 original size:25 final size:25
Alignment explanation
Indices: 25850403--25850489 Score: 74
Period size: 25 Copynumber: 3.5 Consensus size: 25
25850393 CCCGATATTA
* *
25850403 GCTCACATGATCTTCTCG-TTACATG
1 GCTCACATGAGC-TCTCGTTTATATG
*
25850428 GCTCACATGAGCT-TCCTGTTATATG
1 GCTCACATGAGCTCTCGT-TTATATG
*
25850453 GCTCGA-AAGAGCTACTCGTTTATAT-
1 GCTC-ACATGAGCT-CTCGTTTATATG
25850478 GCTCACATGAGC
1 GCTCACATGAGC
25850490 ATTCCTGAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
23 2 0.04
24 2 0.04
25 36 0.72
26 7 0.14
27 3 0.06
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (25 bp):
GCTCACATGAGCTCTCGTTTATATG
Found at i:25858036 original size:25 final size:25
Alignment explanation
Indices: 25857999--25858055 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
25857989 CTTCTCGAAT
**
25857999 ATGGCTCTTATGAGCTTCCCGTTAC
1 ATGGCTCACATGAGCTTCCCGTTAC
* * *
25858024 ATGGCTCACATGAGCTTTCTGTTAT
1 ATGGCTCACATGAGCTTCCCGTTAC
25858049 ATGGCTC
1 ATGGCTC
25858056 GAAAGAGCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.37
Consensus pattern (25 bp):
ATGGCTCACATGAGCTTCCCGTTAC
Found at i:25871382 original size:35 final size:33
Alignment explanation
Indices: 25871328--25871392 Score: 94
Period size: 35 Copynumber: 1.9 Consensus size: 33
25871318 TCTAATACAT
*
25871328 ATTTCATTTCATGTCATTTGCTATTTCAATAGC
1 ATTTCATTTCATGTCATTTGCCATTTCAATAGC
*
25871361 ATTTCATCTTCAATTTCATTTGCCATTTCAAT
1 ATTTCAT-TTC-ATGTCATTTGCCATTTCAAT
25871393 TTCCATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 7 0.25
34 3 0.11
35 18 0.64
ACGTcount: A:0.25, C:0.20, G:0.06, T:0.49
Consensus pattern (33 bp):
ATTTCATTTCATGTCATTTGCCATTTCAATAGC
Found at i:25882372 original size:2 final size:2
Alignment explanation
Indices: 25882365--25882389 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25882355 TTAAATGATG
25882365 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
25882390 GGAAATCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25887361 original size:25 final size:23
Alignment explanation
Indices: 25887301--25887354 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
25887291 ATGAATAAAG
25887301 ATGAACAGGAAATATTCTTTGGC
1 ATGAACAGGAAATATTCTTTGGC
*
25887324 ATGAATAGGAAATATT-TTCTGGC
1 ATGAACAGGAAATATTCTT-TGGC
25887347 ATGAACAG
1 ATGAACAG
25887355 TAGAAATCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 2 0.07
23 26 0.93
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (23 bp):
ATGAACAGGAAATATTCTTTGGC
Found at i:25887434 original size:23 final size:23
Alignment explanation
Indices: 25887301--25887434 Score: 80
Period size: 23 Copynumber: 5.9 Consensus size: 23
25887291 ATGAATAAAG
** *
25887301 ATGAACAGGAAATATTCTTTGGC
1 ATGAACAATAAATATTCTCTGGC
* ** *
25887324 ATGAATAGGAAATATTTTCTGGC
1 ATGAACAATAAATATTCTCTGGC
* *
25887347 ATGAACAGTAGAA-A-TCTCT--A
1 ATGAACAATA-AATATTCTCTGGC
* *
25887367 ATAGAAACAAT-AAGATTCTCTTGC
1 AT-G-AACAATAAATATTCTCTGGC
*
25887391 ATGAACAGTAAATATTCTCTGGC
1 ATGAACAATAAATATTCTCTGGC
* *
25887414 ATGAATAATGAATATTCTCTG
1 ATGAACAATAAATATTCTCTG
25887435 TAGTTTTTAT
Statistics
Matches: 88, Mismatches: 15, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
20 4 0.05
21 2 0.02
22 19 0.22
23 59 0.67
24 4 0.05
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (23 bp):
ATGAACAATAAATATTCTCTGGC
Found at i:25898985 original size:9 final size:9
Alignment explanation
Indices: 25898968--25899004 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
25898958 TAAGTTTTCG
25898968 AATTCGAAT
1 AATTCGAAT
*
25898977 AACTCGAAT
1 AATTCGAAT
*
25898986 AATTCGGAT
1 AATTCGAAT
25898995 AATTCGAAT
1 AATTCGAAT
25899004 A
1 A
25899005 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:25906541 original size:15 final size:15
Alignment explanation
Indices: 25906516--25906560 Score: 83
Period size: 15 Copynumber: 3.1 Consensus size: 15
25906506 GTTGGCTTGA
25906516 GGTTA-GGTTTCCAT
1 GGTTAGGGTTTCCAT
25906530 GGTTAGGGTTTCCAT
1 GGTTAGGGTTTCCAT
25906545 GGTTAGGGTTTCCAT
1 GGTTAGGGTTTCCAT
25906560 G
1 G
25906561 CTTTTAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 5 0.17
15 25 0.83
ACGTcount: A:0.13, C:0.13, G:0.33, T:0.40
Consensus pattern (15 bp):
GGTTAGGGTTTCCAT
Found at i:25907628 original size:4 final size:4
Alignment explanation
Indices: 25907619--25907661 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
25907609 TTTGAAAAGT
25907619 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
25907662 GCTCTCTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:25908295 original size:25 final size:26
Alignment explanation
Indices: 25908267--25908374 Score: 89
Period size: 25 Copynumber: 4.3 Consensus size: 26
25908257 TGGCAAATTG
*
25908267 TTTGGGAAA-TCTTTGTGGTGAGTCA
1 TTTGGGAAAGCCTTTGTGGTGAGTCA
* * **
25908292 TTT-GTAAAGCCTTTGTGGTGAATTG
1 TTTGGGAAAGCCTTTGTGGTGAGTCA
* * **
25908317 TTTGGGAAA-TCTTAGTGGCAAGTCA
1 TTTGGGAAAGCCTTTGTGGTGAGTCA
*
25908342 TTT-GGAAAGCCTTTGTGGGGAGTCA
1 TTTGGGAAAGCCTTTGTGGTGAGTCA
*
25908367 TCTGGGAA
1 TTTGGGAA
25908375 GTTTGTAAGG
Statistics
Matches: 61, Mismatches: 18, Indels: 7
0.71 0.21 0.08
Matches are distributed among these distances:
24 9 0.15
25 44 0.72
26 8 0.13
ACGTcount: A:0.22, C:0.10, G:0.31, T:0.36
Consensus pattern (26 bp):
TTTGGGAAAGCCTTTGTGGTGAGTCA
Found at i:25908353 original size:50 final size:50
Alignment explanation
Indices: 25908198--25908359 Score: 198
Period size: 50 Copynumber: 3.2 Consensus size: 50
25908188 AAACCAAACC
* ** * * *
25908198 AAGCCTTTGTAGTGAATTGTTTGGGAAGCCTTTGTGACGAGTCATCTGGG
1 AAGCCTTTGTGGTGAATTGTTTGGGAAATCTTTGTGGCGAGTCATTTGGA
* * ** * *
25908248 AAGCCCTTATGGCAAATTGTTTGGGAAATCTTTGTGGTGAGTCATTTGTA
1 AAGCCTTTGTGGTGAATTGTTTGGGAAATCTTTGTGGCGAGTCATTTGGA
* *
25908298 AAGCCTTTGTGGTGAATTGTTTGGGAAATCTTAGTGGCAAGTCATTTGGA
1 AAGCCTTTGTGGTGAATTGTTTGGGAAATCTTTGTGGCGAGTCATTTGGA
25908348 AAGCCTTTGTGG
1 AAGCCTTTGTGG
25908360 GGAGTCATCT
Statistics
Matches: 92, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 92 1.00
ACGTcount: A:0.22, C:0.12, G:0.30, T:0.36
Consensus pattern (50 bp):
AAGCCTTTGTGGTGAATTGTTTGGGAAATCTTTGTGGCGAGTCATTTGGA
Found at i:25908373 original size:50 final size:50
Alignment explanation
Indices: 25908269--25908374 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 50
25908259 GCAAATTGTT
* ** * * ** *
25908269 TGGGAAATCTTTGTGGTGAGTCATTTGTAAAGCCTTTGTGGTGAATTGTT
1 TGGGAAATCTTAGTGGCAAGTCATTTGGAAAGCCTTTGTGGGGAATCATC
*
25908319 TGGGAAATCTTAGTGGCAAGTCATTTGGAAAGCCTTTGTGGGGAGTCATC
1 TGGGAAATCTTAGTGGCAAGTCATTTGGAAAGCCTTTGTGGGGAATCATC
25908369 TGGGAA
1 TGGGAA
25908375 GTTTGTAAGG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (50 bp):
TGGGAAATCTTAGTGGCAAGTCATTTGGAAAGCCTTTGTGGGGAATCATC
Found at i:25910106 original size:39 final size:39
Alignment explanation
Indices: 25909947--25910123 Score: 183
Period size: 39 Copynumber: 4.5 Consensus size: 39
25909937 ATTCACTTTT
** * * * **
25909947 AAGCATATATCATATTACACATATAATCACATAAAATTT
1 AAGCATATATCGCAATACTCATATAATCACATAACATCC
* * * *
25909986 AAGTATATATCACAATACTCATATAATTACATAACTTCC
1 AAGCATATATCGCAATACTCATATAATCACATAACATCC
* * * * * *
25910025 AAGCACATATCGCAATAATGATATAATAACATAGCATTC
1 AAGCATATATCGCAATACTCATATAATCACATAACATCC
25910064 AAGCATATATCGCAATACTCATATAATCACATAACATCC
1 AAGCATATATCGCAATACTCATATAATCACATAACATCC
* *
25910103 AAGCATATGTTGCAATACTCA
1 AAGCATATATCGCAATACTCA
25910124 AAAACATGTT
Statistics
Matches: 112, Mismatches: 26, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (39 bp):
AAGCATATATCGCAATACTCATATAATCACATAACATCC
Found at i:25918517 original size:25 final size:25
Alignment explanation
Indices: 25918443--25918520 Score: 88
Period size: 25 Copynumber: 3.1 Consensus size: 25
25918433 GTCATTAGGG
* *
25918443 TTACCGATTCTCAACTCGTATGAGC
1 TTACCGATTCTCAGCTCATATGAGC
*
25918468 TTACCGATT-TGCAGCTCTTGA-GAGC
1 TTACCGATTCT-CAGCTCAT-ATGAGC
*
25918493 TTACCGATTCTTAGCTCATATGAGC
1 TTACCGATTCTCAGCTCATATGAGC
25918518 TTA
1 TTA
25918521 TAGATTTACA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
24 2 0.04
25 41 0.91
26 2 0.04
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (25 bp):
TTACCGATTCTCAGCTCATATGAGC
Found at i:25927858 original size:19 final size:19
Alignment explanation
Indices: 25927834--25927870 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
25927824 TAGGTCAAAG
25927834 TGTAATAGTTAATTTAATA
1 TGTAATAGTTAATTTAATA
25927853 TGTAATAGTTAATTTAAT
1 TGTAATAGTTAATTTAAT
25927871 TTGATGTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (19 bp):
TGTAATAGTTAATTTAATA
Found at i:25930152 original size:22 final size:22
Alignment explanation
Indices: 25930122--25930165 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
25930112 GAAAGTTTCA
* *
25930122 CCTTTGAAGAAAGTATTTTGGT
1 CCTTGGAAGAAAGTACTTTGGT
25930144 CCTTGGAAGAAAGTACTTTGGT
1 CCTTGGAAGAAAGTACTTTGGT
25930166 TTGACAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.36
Consensus pattern (22 bp):
CCTTGGAAGAAAGTACTTTGGT
Found at i:25933562 original size:13 final size:13
Alignment explanation
Indices: 25933546--25933570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25933536 TTAAAATAAA
25933546 ATTTTAATATTTT
1 ATTTTAATATTTT
25933559 ATTTTAATATTT
1 ATTTTAATATTT
25933571 AAAATAAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTTAATATTTT
Found at i:25945320 original size:27 final size:29
Alignment explanation
Indices: 25945272--25945338 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 29
25945262 TTTTTGCAGG
25945272 TTTTGA-ATTTTGAATTTCGAGTTT-AAA
1 TTTTGAGATTTTGAATTTCGAGTTTCAAA
** *
25945299 -TTTGAGATTTTGGGTTTTGAGTTTCAAA
1 TTTTGAGATTTTGAATTTCGAGTTTCAAA
*
25945327 TTTTGAGTTTTT
1 TTTTGAGATTTT
25945339 TTATTTATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 5 0.15
27 15 0.45
28 3 0.09
29 10 0.30
ACGTcount: A:0.22, C:0.03, G:0.19, T:0.55
Consensus pattern (29 bp):
TTTTGAGATTTTGAATTTCGAGTTTCAAA
Found at i:25949263 original size:21 final size:23
Alignment explanation
Indices: 25949215--25949264 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
25949205 ATTAAAAATA
25949215 GTTTAATTAAAGAATAAATTAAG
1 GTTTAATTAAAGAATAAATTAAG
*
25949238 G-TTAATT-AAGATTAAA-TAAG
1 GTTTAATTAAAGAATAAATTAAG
25949258 GTTTAAT
1 GTTTAAT
25949265 ATTAGTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 13 0.52
22 6 0.24
23 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (23 bp):
GTTTAATTAAAGAATAAATTAAG
Found at i:25950686 original size:20 final size:20
Alignment explanation
Indices: 25950646--25950687 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
25950636 ATTTAAATTT
*
25950646 TTTTTGAAAATTATTTAGAA
1 TTTTTGAAAATAATTTAGAA
25950666 TTTTTGAAAATCAATTT-GAA
1 TTTTTGAAAAT-AATTTAGAA
25950686 TT
1 TT
25950688 ATTTTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTTTGAAAATAATTTAGAA
Found at i:25951320 original size:290 final size:286
Alignment explanation
Indices: 25950778--25951327 Score: 755
Period size: 290 Copynumber: 1.9 Consensus size: 286
25950768 CTGTTATTCG
**
25950778 AATTATTCAAGTTAATCGAATTACAAAATTTAACTTGACTCAAACTCAAAACTTGAATTACTTAT
1 AATTATTCAAGTTAATCGAATTACAAAATTTAACTTGACTCAAACTCAAAACTCAAATTACTTAT
* * *
25950843 CCGAGTTTACTCAAATAACTCAATTGGATGAACTTAAAATTCGATTTTTTTTCACTTTTTTTAAT
66 CCGAGTTTACTCAAATAACTCAATTGGATGAACTCAAAATTCGATTTTTTTTCAATTTTTTGAAT
*
25950908 CGAATTGAGTTTTTCTCACCCTAGTTGGCATGCCATAGGGTCAAGATATTGATTAGAAATCATCA
131 CGAATTGAGTTTTTCTCACCCTAGTTGGCATGCCATAGGGTCAAGATATTGATTAGAAACCATCA
** * ** * ** *
25950973 TTTCTTAGGAATTCCGGGTGGTAGATTGTGCATATAAAGTCATCGTTGTTGTAACACCCCATACA
196 TTTCTTAGGAACCCCAGGTAATAGATTGTACATATAAAGTCATCGTTACTATAACACCCCATACA
25951038 TGACTCGGTTGCCAATCCGTTATTTA
261 TGACTCGGTTGCCAATCCGTTATTTA
* * * * ** *
25951064 AATTA-TCGAGTTATTCGAATTACAAATTTTAACTCT-ACTCGAGTTCGAAACTCAAATTACTTA
1 AATTATTCAAGTTAATCGAATTACAAAATTTAACT-TGACTCAAACTCAAAACTCAAATTACTTA
** * *
25951127 TCCGAGTTTACTCAAATAACTTTATTGGATGAACTCAAATTTTGATTTTTTTTTTCCAATTTTTT
65 TCCGAGTTTACTCAAATAACTCAATTGGATGAACTCAAAATTCGA--TTTTTTTT-CAATTTTTT
* *
25951192 CGAATCGAATTGAGTTTTTCTCACCCCTATTTGGCATGCCATATGGTCAAGATATTGATTAGAAA
127 -GAATCGAATTGAGTTTTTCTCA-CCCTAGTTGGCATGCCATAGGGTCAAGATATTGATTAGAAA
*
25951257 CCATCATTT-TTGGGCAACCCCAGGTAATAGATTGTACATATAAAGTCATCGTTACTATAACACC
190 CCATCATTTCTTAGG-AACCCCAGGTAATAGATTGTACATATAAAGTCATCGTTACTATAACACC
25951321 CCATACA
254 CCATACA
25951328 CGACCCGATT
Statistics
Matches: 228, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
285 87 0.38
286 6 0.03
287 8 0.04
288 8 0.04
289 25 0.11
290 94 0.41
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (286 bp):
AATTATTCAAGTTAATCGAATTACAAAATTTAACTTGACTCAAACTCAAAACTCAAATTACTTAT
CCGAGTTTACTCAAATAACTCAATTGGATGAACTCAAAATTCGATTTTTTTTCAATTTTTTGAAT
CGAATTGAGTTTTTCTCACCCTAGTTGGCATGCCATAGGGTCAAGATATTGATTAGAAACCATCA
TTTCTTAGGAACCCCAGGTAATAGATTGTACATATAAAGTCATCGTTACTATAACACCCCATACA
TGACTCGGTTGCCAATCCGTTATTTA
Found at i:25952397 original size:14 final size:14
Alignment explanation
Indices: 25952353--25952400 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
25952343 TAGTTATTTG
25952353 TTTATTTTATTGTTTA
1 TTTATTTT-TTG-TTA
*
25952369 TTTA-TTTTAGTTA
1 TTTATTTTTTGTTA
*
25952382 TTTATTTTTTGATA
1 TTTATTTTTTGTTA
25952396 TTTAT
1 TTTAT
25952401 CTCTTTTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 7 0.25
14 14 0.50
15 3 0.11
16 4 0.14
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (14 bp):
TTTATTTTTTGTTA
Found at i:25953454 original size:6 final size:6
Alignment explanation
Indices: 25953434--25953466 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
25953424 GGGACTGCTG
25953434 AAAA-A AAAAGAA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAG-A AAAAGA AAAAGA AAAAGA AAA
25953467 GAATAATAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 16 0.62
7 6 0.23
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:25955699 original size:44 final size:43
Alignment explanation
Indices: 25955635--25955717 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
25955625 AAAATTTTTA
*
25955635 TTTAATCTTTTAAAAAATATAAACTCTTA-AAATGATATTACAT
1 TTTAATCTTATAAAAAATATAAACTCTTATAAAT-ATATTACAT
**
25955678 TTTAATTCTTATAAAAAATATAATTTCTTATAAATATATT
1 TTTAA-TCTTATAAAAAATATAAACTCTTATAAATATATT
25955718 CAAATAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 5 0.14
44 26 0.74
45 4 0.11
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (43 bp):
TTTAATCTTATAAAAAATATAAACTCTTATAAATATATTACAT
Found at i:25956247 original size:20 final size:19
Alignment explanation
Indices: 25956222--25956261 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25956212 TATTAATTTC
25956222 ATTAATAATATAATTGTAAA
1 ATTAATAATA-AATTGTAAA
* *
25956242 ATTAATACTAAATTTTAAA
1 ATTAATAATAAATTGTAAA
25956261 A
1 A
25956262 ACATGAATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (19 bp):
ATTAATAATAAATTGTAAA
Found at i:25961167 original size:27 final size:27
Alignment explanation
Indices: 25961129--25961196 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
25961119 TTTTAGTCCT
*
25961129 GTGCCGCCTCTGGCAAAGGCACCTTTG
1 GTGCCGCCTCTGGCAAAGGAACCTTTG
* *
25961156 GTGCCGCCTCTGCCACAGGAACCTTTG
1 GTGCCGCCTCTGGCAAAGGAACCTTTG
*
25961183 GTG-CGCCTGTGGCA
1 GTGCCGCCTCTGGCA
25961197 TCCGATTTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 9 0.25
27 27 0.75
ACGTcount: A:0.13, C:0.34, G:0.31, T:0.22
Consensus pattern (27 bp):
GTGCCGCCTCTGGCAAAGGAACCTTTG
Found at i:25961683 original size:27 final size:27
Alignment explanation
Indices: 25961646--25961701 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
25961636 TGATACATTC
*
25961646 ATATAACTAAAATAAAAATT-AAATTAT
1 ATATAAATAAAATAAAAATTGAAA-TAT
* *
25961673 ATATAAATAAATTAATAATTGAAATAT
1 ATATAAATAAAATAAAAATTGAAATAT
25961700 AT
1 AT
25961702 TTGAATAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
ATATAAATAAAATAAAAATTGAAATAT
Found at i:25963336 original size:20 final size:19
Alignment explanation
Indices: 25963286--25963336 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
25963276 AATAGTTCTG
*
25963286 TCTCTTGATGAACATTTGTA
1 TCTCTTG-TGAACAATTGTA
25963306 TCT-TT-TGAACAATTGTA
1 TCTCTTGTGAACAATTGTA
25963323 TCTCTTGGTGAACA
1 TCTCTT-GTGAACA
25963337 GATTTATTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 14 0.52
18 2 0.07
19 2 0.07
20 9 0.33
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (19 bp):
TCTCTTGTGAACAATTGTA
Found at i:25966812 original size:42 final size:41
Alignment explanation
Indices: 25966679--25966820 Score: 164
Period size: 42 Copynumber: 3.4 Consensus size: 41
25966669 CTCGGTGGAT
* * *
25966679 TCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAA-TCAATAATATGGGGAA
* *
25966720 TCAGCACATAACAACC-CCTTTCACAATCAA-AGATATGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-A-AATCAATA-ATATGG-GGAA
25966763 TCAGCACTTAGCAACCACCTTTAAAGTCAATAATATGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAA-TCAATAATATGGGGAA
25966805 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
25966821 CCTCGGGGAA
Statistics
Matches: 86, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
40 2 0.02
41 16 0.19
42 31 0.36
43 31 0.36
44 6 0.07
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (41 bp):
TCAGCACTTAGCAACCACCTTTAAATCAATAATATGGGGAA
Found at i:25966837 original size:26 final size:26
Alignment explanation
Indices: 25966799--25966849 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
25966789 TCAATAATAT
25966799 GGGGAATCAGCACTTAGCAACCCCTC
1 GGGGAATCAGCACTTAGCAACCCCTC
* *
25966825 GGGGAATCTGCACTTAGCGACCCCT
1 GGGGAATCAGCACTTAGCAACCCCT
25966850 TTTTATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.33, G:0.25, T:0.18
Consensus pattern (26 bp):
GGGGAATCAGCACTTAGCAACCCCTC
Found at i:25974353 original size:42 final size:42
Alignment explanation
Indices: 25974220--25974359 Score: 144
Period size: 42 Copynumber: 3.3 Consensus size: 42
25974210 CTCGGTGGAT
* * *
25974220 TCAGCACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAAATCAATAATACGGGGAA
*
25974261 TCAGCACATT-GCAACC-CCTTTCACAATCAA-AGATACGGTGGAA
1 TCAGCAC-TTAGCAACCACCTTT-AAAATCAATA-ATACGG-GGAA
* * * *
25974304 TCAGCACTTAGCAACCACCTTTAGAGTCAATAATTCAGGGAA
1 TCAGCACTTAGCAACCACCTTTAAAATCAATAATACGGGGAA
25974346 TCAGCACTTAGCAA
1 TCAGCACTTAGCAA
25974360 ACCCTCAAGG
Statistics
Matches: 83, Mismatches: 8, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
40 2 0.02
41 15 0.18
42 33 0.40
43 27 0.33
44 6 0.07
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTAAAATCAATAATACGGGGAA
Found at i:25978982 original size:20 final size:20
Alignment explanation
Indices: 25978957--25978994 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25978947 CAAATTAAAC
*
25978957 AATAGTTCTGTCTTTTGATG
1 AATAGTTCTATCTTTTGATG
*
25978977 AATAGTTGTATCTTTTGA
1 AATAGTTCTATCTTTTGA
25978995 ACAATTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (20 bp):
AATAGTTCTATCTTTTGATG
Found at i:25984250 original size:77 final size:76
Alignment explanation
Indices: 25984112--25984875 Score: 720
Period size: 77 Copynumber: 9.9 Consensus size: 76
25984102 AGTTCGCTTT
* * * * *
25984112 ATTTAATATCGCGACTGTTATTTTTAAGGTTTGCTCGAATTAAGATCGTGACCTTCGGTATTCTA
1 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCGCTCGATTTAAGATCGTGACCTTC-GTATTCTA
* **
25984177 ACAATTTGCTCG
65 ACAGTTCACTCG
* * * * * * * *
25984189 ATTGAAGATTGCGACTTTTATTTTTATGGTTCACTTGATTTAATATCATGACCTTCAGTATTCTA
1 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCGCTCGATTTAAGATCGTGACCTTC-GTATTCTA
** *
25984254 ACAGTTTGCTCA
65 ACAGTTCACTCG
* ** *
25984266 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCGCTAGATTTAAGATCGCAATCTTCGATATTCTA
1 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCGCTCGATTTAAGATCGTGACCTTCG-TATTCTA
25984331 ACAGTTCACTCG
65 ACAGTTCACTCG
** * * ** * **
25984343 ATTTAAGACCGTGACTGTTATTTTTAAGGTTCTTTTGATTTAAGATCCAGACCTTCGATATTCTA
1 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCGCTCGATTTAAGATCGTGACCTTCG-TATTCTA
25984408 ACAGTTCACTCG
65 ACAGTTCACTCG
* * * *
25984420 ATTTAAGATTGCGACTGTCATTTTTACGGTTCACTCGATTTAAGATTGCGACCTTCGGTATTCTA
1 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCGCTCGATTTAAGATCGTGACCTTC-GTATTCTA
*
25984485 ATAGTTCACTCG
65 ACAGTTCACTCG
* * * * *
25984497 ATTTAAGATCGCGACTGTCATTTTTATGGTTTGCTCAATTTAATATCGTGACCTTCAGTATTCTA
1 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCGCTCGATTTAAGATCGTGACCTTC-GTATTCTA
**
25984562 ACAGTTTGCTCG
65 ACAGTTCACTCG
* * *** * * * * * * *
25984574 ATTGAATATCAAGACTGTTATTTTTACGGTTTGCTCGTTTTGAGATCGAGACTTTCGGTATTCTA
1 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCGCTCGATTTAAGATCGTGACCTTC-GTATTCTA
*
25984639 ATAGTTCACTCG
65 ACAGTTCACTCG
* *** * * * *
25984651 ATTTAATATAATGACTTTCATTTTTACGGTTCGCTCGATTTAAGATCGTGACTTTTTGTATTCTA
1 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCGCTCGATTTAAGATCGTGAC-CTTCGTATTCTA
25984716 ACAGTTCACTCG
65 ACAGTTCACTCG
* *** * * * *
25984728 ATTTAATATAATGACTTTCATTTTTACGGTTCGCTCGATTTAAGATCGTGACTTTTTGTATTCTA
1 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCGCTCGATTTAAGATCGTGAC-CTTCGTATTCTA
25984793 ACAGTTCACTCG
65 ACAGTTCACTCG
* * * *
25984805 ATTTAAGATTGTGTCTGTCATTTTTAAGGATT-GCTCGATTTAAGATTGAGACCTTCGATATTCT
1 ATTTAAGATTGCGACTGTCATTTTTAAGG-TTCGCTCGATTTAAGATCGTGACCTTCG-TATTCT
*
25984869 AATAGTT
64 AACAGTT
25984876 TGACCTTGGT
Statistics
Matches: 581, Mismatches: 101, Indels: 10
0.84 0.15 0.01
Matches are distributed among these distances:
76 4 0.01
77 571 0.98
78 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (76 bp):
ATTTAAGATTGCGACTGTCATTTTTAAGGTTCGCTCGATTTAAGATCGTGACCTTCGTATTCTAA
CAGTTCACTCG
Found at i:25984308 original size:37 final size:37
Alignment explanation
Indices: 25984266--25984527 Score: 181
Period size: 40 Copynumber: 6.8 Consensus size: 37
25984256 AGTTTGCTCA
* *
25984266 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCGCTAG
1 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCACTCG
* * * *
25984303 ATTTAAGATCGCAATCT-TCGATATTCTAACAGTTCACTCG
1 ATTTAAGATTGCGA-CTGTC-AT-TTTTAA-GGTTCACTCG
** * * ** *
25984343 ATTTAAGACCGTGACTGTTATTTTTAAGGTTCTTTTG
1 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCACTCG
* * *
25984380 ATTTAAGA-TCCAGACCT-TCGATATTCTAACAGTTCACTCG
1 ATTTAAGATTGC-GA-CTGTC-AT-TTTTAA-GGTTCACTCG
*
25984420 ATTTAAGATTGCGACTGTCATTTTTACGGTTCACTCG
1 ATTTAAGATTGCGACTGTCATTTTTAAGGTTCACTCG
* * *
25984457 ATTTAAGATTGCGACCT-TCGGTATTCTAATAGTTCACTCG
1 ATTTAAGATTGCGA-CTGTC-AT-TTTTAA-GGTTCACTCG
* *
25984497 ATTTAAGATCGCGACTGTCATTTTTATGGTT
1 ATTTAAGATTGCGACTGTCATTTTTAAGGTT
25984528 TGCTCAATTT
Statistics
Matches: 171, Mismatches: 37, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
37 59 0.35
38 24 0.14
39 25 0.15
40 61 0.36
41 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (37 bp):
ATTTAAGATTGCGACTGTCATTTTTAAGGTTCACTCG
Found at i:25984561 original size:231 final size:230
Alignment explanation
Indices: 25984112--25984875 Score: 857
Period size: 231 Copynumber: 3.3 Consensus size: 230
25984102 AGTTCGCTTT
* * * * *
25984112 ATTTAATATCGCGACTGTTATTTTTAAGGTTTGCTCGAATTAAGATCGTGACCTTCGGTATTCTA
1 ATTTAAGATCGTGACTGTTATTTTTAAGGTTTGCTCGATTTAAGATCGAGACCTTCGATATTCTA
* ** * * * * * *
25984177 ACAATTTGCTCGATTGAAGATTGCGACTTTTATTTTTATGGTTCACTTGATTTAATATCATGACC
66 ACAGTTCACTCGATTTAAGATTGCGACTTTCATTTTTACGGTTCACTCGATTTAAGATCGTGACC
** * *
25984242 TTCAGTATTCTAACAGTTTGCTCAATTTAAGATTGCGACTGTCATTTTTAAGGTTCGCT-AGATT
131 TTCAGTATTCTAACAGTTCACTCGATTTAAGATAGCGACTGTCATTTTTAAGGTTCGCTCA-ATT
** *
25984306 TAAGATCGCAATCTTCGATATTCTAACAGTTCACTCG
195 TAAGATCGTGACCTTCG-TATTCTAACAGTTCACTCG
* * * *
25984343 ATTTAAGACCGTGACTGTTATTTTTAAGGTTCT-TTTGATTTAAGATCCAGACCTTCGATATTCT
1 ATTTAAGATCGTGACTGTTATTTTTAAGGTT-TGCTCGATTTAAGATCGAGACCTTCGATATTCT
* * *
25984407 AACAGTTCACTCGATTTAAGATTGCGACTGTCATTTTTACGGTTCACTCGATTTAAGATTGCGAC
65 AACAGTTCACTCGATTTAAGATTGCGACTTTCATTTTTACGGTTCACTCGATTTAAGATCGTGAC
* * * * *
25984472 CTTCGGTATTCTAATAGTTCACTCGATTTAAGATCGCGACTGTCATTTTTATGGTTTGCTCAATT
130 CTTCAGTATTCTAACAGTTCACTCGATTTAAGATAGCGACTGTCATTTTTAAGGTTCGCTCAATT
* **
25984537 TAATATCGTGACCTTCAGTATTCTAACAGTTTGCTCG
195 TAAGATCGTGACCTTC-GTATTCTAACAGTTCACTCG
* * ** * * * * *
25984574 ATTGAATATCAAGACTGTTATTTTTACGGTTTGCTCGTTTTGAGATCGAGACTTTCGGTATTCTA
1 ATTTAAGATCGTGACTGTTATTTTTAAGGTTTGCTCGATTTAAGATCGAGACCTTCGATATTCTA
* * *** * *
25984639 ATAGTTCACTCGATTTAATATAATGACTTTCATTTTTACGGTTCGCTCGATTTAAGATCGTGACT
66 ACAGTTCACTCGATTTAAGATTGCGACTTTCATTTTTACGGTTCACTCGATTTAAGATCGTGACC
** * ** * * *
25984704 TTTTGTATTCTAACAGTTCACTCGATTTAATATAATGACTTTCATTTTTACGGTTCGCTCGATTT
131 TTCAGTATTCTAACAGTTCACTCGATTTAAGATAGCGACTGTCATTTTTAAGGTTCGCTCAATTT
* *
25984769 AAGATCGTGACTTTTTGTATTCTAACAGTTCACTCG
196 AAGATCGTGAC-CTTCGTATTCTAACAGTTCACTCG
* * * * *
25984805 ATTTAAGATTGTGTCTGTCATTTTTAAGGATTGCTCGATTTAAGATTGAGACCTTCGATATTCTA
1 ATTTAAGATCGTGACTGTTATTTTTAAGGTTTGCTCGATTTAAGATCGAGACCTTCGATATTCTA
*
25984870 ATAGTT
66 ACAGTT
25984876 TGACCTTGGT
Statistics
Matches: 440, Mismatches: 88, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
230 1 0.00
231 434 0.99
232 5 0.01
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (230 bp):
ATTTAAGATCGTGACTGTTATTTTTAAGGTTTGCTCGATTTAAGATCGAGACCTTCGATATTCTA
ACAGTTCACTCGATTTAAGATTGCGACTTTCATTTTTACGGTTCACTCGATTTAAGATCGTGACC
TTCAGTATTCTAACAGTTCACTCGATTTAAGATAGCGACTGTCATTTTTAAGGTTCGCTCAATTT
AAGATCGTGACCTTCGTATTCTAACAGTTCACTCG
Found at i:25984690 original size:37 final size:37
Alignment explanation
Indices: 25984642--25984770 Score: 152
Period size: 37 Copynumber: 3.4 Consensus size: 37
25984632 TATTCTAATA
25984642 GTTCACTCGATTTAATATAATGACTTTCATTTTTACG
1 GTTCACTCGATTTAATATAATGACTTTCATTTTTACG
* * ** * *
25984679 GTTCGCTCGATTTAAGATCGTGACTTT-TTGTATTCTAACA
1 GTTCACTCGATTTAATATAATGACTTTCAT-T-TT-T-ACG
25984719 GTTCACTCGATTTAATATAATGACTTTCATTTTTACG
1 GTTCACTCGATTTAATATAATGACTTTCATTTTTACG
*
25984756 GTTCGCTCGATTTAA
1 GTTCACTCGATTTAA
25984771 GATCGTGACT
Statistics
Matches: 74, Mismatches: 13, Indels: 10
0.76 0.13 0.10
Matches are distributed among these distances:
36 1 0.01
37 40 0.54
38 3 0.04
39 3 0.04
40 26 0.35
41 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (37 bp):
GTTCACTCGATTTAATATAATGACTTTCATTTTTACG
Found at i:25984894 original size:22 final size:23
Alignment explanation
Indices: 25984854--25984898 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
25984844 TTAAGATTGA
*
25984854 GACCTTCGATATTCTAATAGTTT
1 GACCTTCGATATTCGAATAGTTT
*
25984877 GACCTT-GGTATTCGAATAGTTT
1 GACCTTCGATATTCGAATAGTTT
25984899 ATTCGATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (23 bp):
GACCTTCGATATTCGAATAGTTT
Found at i:25985023 original size:37 final size:36
Alignment explanation
Indices: 25984981--25985105 Score: 97
Period size: 37 Copynumber: 3.3 Consensus size: 36
25984971 AATTTCCTCG
* *
25984981 ATTTAATATCACAACTGTTATTTTTAAGGTTCGCTCA
1 ATTTAAGATCACAACTGTTATTTCTAA-GTTCGCTCA
* * *
25985018 ATTTAAGATCTCAACAGTTGATATTCTAACAGTTCGCTCG
1 ATTTAAGATCACAACTGTT-AT-TTCT-A-AGTTCGCTCA
*** * *
25985058 ATTTAAGATCATGTCTGTCATTTCTACAGTTCACTCA
1 ATTTAAGATCACAACTGTTATTTCTA-AGTTCGCTCA
*
25985095 ATTTAATATCA
1 ATTTAAGATCA
25985106 TGACTTTCAT
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
37 36 0.51
38 6 0.09
39 5 0.07
40 22 0.31
41 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.40
Consensus pattern (36 bp):
ATTTAAGATCACAACTGTTATTTCTAAGTTCGCTCA
Found at i:25985043 original size:77 final size:77
Alignment explanation
Indices: 25984901--25985068 Score: 189
Period size: 77 Copynumber: 2.2 Consensus size: 77
25984891 AATAGTTTAT
** * * * * * *
25984901 TCGATTTAAGATCGTAACTATCATTTTTACGGTTCGCTCAATTTAAGATAGTGACCTTTAGTATT
1 TCGATTTAAGATCACAACTGTTATTTTTAAGGTTCGCTCAATTTAAGATACTAACCTTGAGTATT
*
25984966 CTAACAATTTC-C
66 CTAAC-AGTTCGC
* *
25984978 TCGATTTAATATCACAACTGTTATTTTTAAGGTTCGCTCAATTTAAGAT-CTCAACAGTTGA-TA
1 TCGATTTAAGATCACAACTGTTATTTTTAAGGTTCGCTCAATTTAAGATACT-AAC-CTTGAGTA
25985041 TTCTAACAGTTCGC
64 TTCTAACAGTTCGC
25985055 TCGATTTAAGATCA
1 TCGATTTAAGATCA
25985069 TGTCTGTCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
76 5 0.07
77 68 0.89
78 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (77 bp):
TCGATTTAAGATCACAACTGTTATTTTTAAGGTTCGCTCAATTTAAGATACTAACCTTGAGTATT
CTAACAGTTCGC
Found at i:25985106 original size:37 final size:37
Alignment explanation
Indices: 25985041--25985137 Score: 124
Period size: 37 Copynumber: 2.6 Consensus size: 37
25985031 ACAGTTGATA
* * *
25985041 TTCTAACAGTTCGCTCGATTTAAGATCATGTCTGTCAT
1 TTCT-ACAGTTCACTCAATTTAAGATCATGACTGTCAT
* *
25985079 TTCTACAGTTCACTCAATTTAATATCATGACTTTCAT
1 TTCTACAGTTCACTCAATTTAAGATCATGACTGTCAT
*
25985116 TTTTACAGTTCACT-AATTTAAG
1 TTCTACAGTTCACTCAATTTAAG
25985138 GTCGCGACCT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
36 7 0.13
37 41 0.79
38 4 0.08
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (37 bp):
TTCTACAGTTCACTCAATTTAAGATCATGACTGTCAT
Found at i:25985154 original size:37 final size:37
Alignment explanation
Indices: 25985046--25985164 Score: 98
Period size: 37 Copynumber: 3.2 Consensus size: 37
25985036 TGATATTCTA
* * * * *
25985046 ACAGTTCGCTCGATTTAAGATCATGTCTGT-CATTTCT
1 ACAGTTCACTCAATTTAAGATCACGACT-TCCATTTTT
* * *
25985083 ACAGTTCACTCAATTTAATATCATGACTTTCATTTTT
1 ACAGTTCACTCAATTTAAGATCACGACTTCCATTTTT
* *
25985120 ACAGTTCACT-AATTTAAGGTCGCGACCTTCCATTTTCT
1 ACAGTTCACTCAATTTAAGATCACGA-CTTCCATTTT-T
25985158 AACAGTT
1 -ACAGTT
25985165 TGCTTTGTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
36 12 0.18
37 49 0.72
38 1 0.01
39 6 0.09
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (37 bp):
ACAGTTCACTCAATTTAAGATCACGACTTCCATTTTT
Found at i:25991527 original size:32 final size:32
Alignment explanation
Indices: 25991483--25991731 Score: 164
Period size: 32 Copynumber: 7.8 Consensus size: 32
25991473 AATGTGATTG
* *
25991483 GCACAAAGCCATCAGTAGCAATGATATGATCG
1 GCACAAAGCCATCAGTAACAATGATATGATCA
* ** * *
25991515 GTACACAA-CCATCAGTAACGGTAACATGATCA
1 GCACA-AAGCCATCAGTAACAATGATATGATCA
* * * * *
25991547 GCATAAAGCCATCAGTAGCAGTGGTTTGATCA
1 GCACAAAGCCATCAGTAACAATGATATGATCA
* * *
25991579 GCACACAGCCATCAGTAACAATGAAATGGTCA
1 GCACAAAGCCATCAGTAACAATGATATGATCA
* * * * *
25991611 GTACACAA-CCATCGGTAACGATAATATGATCG
1 GCACA-AAGCCATCAGTAACAATGATATGATCA
* * * *
25991643 GTACAAAGCCATCAATAACGAT-ACTATGATCG
1 GCACAAAGCCATCAGTAACAATGA-TATGATCA
*** *
25991675 GCACAAAGCCATCAGTAATGGT-ACTATGATCG
1 GCACAAAGCCATCAGTAACAATGA-TATGATCA
* *
25991707 GAACAAAGCCATCAGTAACAGTGAT
1 GCACAAAGCCATCAGTAACAATGAT
25991732 TGTGGTAGAG
Statistics
Matches: 171, Mismatches: 40, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
31 5 0.03
32 162 0.95
33 4 0.02
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (32 bp):
GCACAAAGCCATCAGTAACAATGATATGATCA
Found at i:25991651 original size:96 final size:96
Alignment explanation
Indices: 25991483--25991692 Score: 251
Period size: 96 Copynumber: 2.2 Consensus size: 96
25991473 AATGTGATTG
* * * *
25991483 GCACAAAGCCATCAGTAGCAATGATATGATCGGTACACAACCATCAGTAACGGTAACATGATCAG
1 GCACAAAGCCATCAGTAACAATGAAATGATCAGTACACAACCATCAGTAACGATAACATGATCAG
*
25991548 CATAAAGCCATCAGTAGCAGTGGTTTGATCA
66 CACAAAGCCATCAGTAGCAGTGGTTTGATCA
* * * * *
25991579 GCACACAGCCATCAGTAACAATGAAATGGTCAGTACACAACCATCGGTAACGATAATATGATCGG
1 GCACAAAGCCATCAGTAACAATGAAATGATCAGTACACAACCATCAGTAACGATAACATGATCAG
* * * ** * *
25991644 TACAAAGCCATCAATAAC-GATACTATGATCG
66 CACAAAGCCATCAGTAGCAG-TGGTTTGATCA
25991675 GCACAAAGCCATCAGTAA
1 GCACAAAGCCATCAGTAA
25991693 TGGTACTATG
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
95 1 0.01
96 94 0.99
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.20
Consensus pattern (96 bp):
GCACAAAGCCATCAGTAACAATGAAATGATCAGTACACAACCATCAGTAACGATAACATGATCAG
CACAAAGCCATCAGTAGCAGTGGTTTGATCA
Found at i:26000913 original size:24 final size:25
Alignment explanation
Indices: 26000875--26000924 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
26000865 AATCTTTTAG
* *
26000875 AAACTAAATATAACTAAGTTAAATA
1 AAACTAAATAGAACTAAGTAAAATA
26000900 AAACT-AATAGAACTAAGTAAAATA
1 AAACTAAATAGAACTAAGTAAAATA
26000924 A
1 A
26000925 CAAAACCAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.24
Consensus pattern (25 bp):
AAACTAAATAGAACTAAGTAAAATA
Found at i:26001643 original size:41 final size:41
Alignment explanation
Indices: 26001581--26001674 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
26001571 TACAAGTGTC
26001581 AATCGAATTTTAATCCAACCAATCCAACCCTTTTAGAATTAG
1 AATC-AATTTTAATCCAACCAATCCAACCCTTTTAGAATTAG
26001623 AATCAATTTTAATCCAACCAATCCAACCCTTTTAGAATTAG
1 AATCAATTTTAATCCAACCAATCCAACCCTTTTAGAATTAG
26001664 AATCAATTTTA
1 AATCAATTTTA
26001675 GAAGTATGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 48 0.92
42 4 0.08
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.33
Consensus pattern (41 bp):
AATCAATTTTAATCCAACCAATCCAACCCTTTTAGAATTAG
Found at i:26014415 original size:20 final size:21
Alignment explanation
Indices: 26014390--26014430 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
26014380 GAGTTTTATT
26014390 TATTTTATGTA-CTAA-TTAGA
1 TATTTTA-GTATCTAAGTTAGA
26014410 TATTTTAGTATCTAAGTTAGA
1 TATTTTAGTATCTAAGTTAGA
26014431 ACTGATCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 11 0.58
21 5 0.26
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (21 bp):
TATTTTAGTATCTAAGTTAGA
Found at i:26020887 original size:14 final size:14
Alignment explanation
Indices: 26020863--26020898 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
26020853 AATTGAATAT
26020863 AATTA-GGTTACAC
1 AATTAGGGTTACAC
26020876 AATTAGGGTTACAC
1 AATTAGGGTTACAC
*
26020890 AATTTGGGT
1 AATTAGGGT
26020899 CGGGTCAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (14 bp):
AATTAGGGTTACAC
Found at i:26028402 original size:7 final size:6
Alignment explanation
Indices: 26028357--26028424 Score: 65
Period size: 6 Copynumber: 12.0 Consensus size: 6
26028347 GACCCCTTTT
* *
26028357 ATTAAA A-T-AA A-TAAA ACTAAC ATTAAA ATTAAA ATTAAA GATT-AA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA -ATTAAA
*
26028402 ATTGAA ATT-AA ATTAAA ATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA
26028425 GACAAAGATA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
4 4 0.07
5 12 0.22
6 35 0.65
7 3 0.06
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (6 bp):
ATTAAA
Found at i:26028413 original size:11 final size:11
Alignment explanation
Indices: 26028357--26028424 Score: 77
Period size: 12 Copynumber: 6.1 Consensus size: 11
26028347 GACCCCTTTT
26028357 ATTAAAA-TAA
1 ATTAAAATTAA
*
26028367 A-TAAAACTAA
1 ATTAAAATTAA
26028377 CATTAAAATTAAA
1 -ATTAAAATT-AA
26028390 ATTAAAGATTAA
1 ATTAAA-ATTAA
*
26028402 ATTGAAATTAA
1 ATTAAAATTAA
26028413 ATTAAAATTAA
1 ATTAAAATTAA
26028424 A
1 A
26028425 GACAAAGATA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
9 5 0.10
10 4 0.08
11 17 0.34
12 19 0.38
13 5 0.10
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (11 bp):
ATTAAAATTAA
Found at i:26037828 original size:45 final size:45
Alignment explanation
Indices: 26037779--26037957 Score: 202
Period size: 45 Copynumber: 4.0 Consensus size: 45
26037769 ATTCACACTG
* * *
26037779 TATTATCAACTTTTATTTGCATCGAA-TAGTGGTTTATCCACTCCA
1 TATTATCAACTTTTATCTACATC-AAGTAGTGGTTTATCCACACCA
* * *
26037824 TATTAGCAACTTTTATCTACACCAAGTAGCGGTTTATCCACACCA
1 TATTATCAACTTTTATCTACATCAAGTAGTGGTTTATCCACACCA
* * *
26037869 TATT-TGTAACTTTTATCTACATCAAGTAGTGGTTTATCCACATCG
1 TATTAT-CAACTTTTATCTACATCAAGTAGTGGTTTATCCACACCA
* * *
26037914 TATTAGT-AGCTTTTATCTACATCAATTAGTGGTCTATCCACACC
1 TATTA-TCAACTTTTATCTACATCAAGTAGTGGTTTATCCACACC
26037958 GTACTAGCAA
Statistics
Matches: 114, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
44 2 0.02
45 111 0.97
47 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.39
Consensus pattern (45 bp):
TATTATCAACTTTTATCTACATCAAGTAGTGGTTTATCCACACCA
Found at i:26037906 original size:21 final size:21
Alignment explanation
Indices: 26037880--26037951 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
26037870 ATTTGTAACT
*
26037880 TTTATCTACATCAAGTAGTGG
1 TTTATCTACATCAATTAGTGG
* * *
26037901 TTTATCCACATCGTATTAGTAGCT
1 TTTATCTACATC-AATTAGT-G-G
26037925 TTTATCTACATCAATTAGTGG
1 TTTATCTACATCAATTAGTGG
*
26037946 TCTATC
1 TTTATC
26037952 CACACCGTAC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
21 16 0.40
22 6 0.15
23 7 0.17
24 11 0.28
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (21 bp):
TTTATCTACATCAATTAGTGG
Found at i:26037927 original size:90 final size:90
Alignment explanation
Indices: 26037786--26037957 Score: 231
Period size: 90 Copynumber: 1.9 Consensus size: 90
26037776 CTGTATTATC
* *
26037786 AACTTTTATTTGCATCGAATAGTGGTTTATCCACTCCATATTAGCAACTTTTATCTACACCAAGT
1 AACTTTTATCTACATCGAATAGTGGTTTATCCACTCCATATTAGCAACTTTTATCTACACCAAGT
*
26037851 AGCGGTTTATCCACACCATATTTGT
66 AGCGGTCTATCCACACCATATTTGT
* * * *
26037876 AACTTTTATCTACATC-AAGTAGTGGTTTATCCACAT-CGTATTAGTAGCTTTTATCTACATCAA
1 AACTTTTATCTACATCGAA-TAGTGGTTTATCCAC-TCCATATTAGCAACTTTTATCTACACCAA
* *
26037939 TTAGTGGTCTATCCACACC
64 GTAGCGGTCTATCCACACC
26037958 GTACTAGCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
89 2 0.03
90 68 0.96
91 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (90 bp):
AACTTTTATCTACATCGAATAGTGGTTTATCCACTCCATATTAGCAACTTTTATCTACACCAAGT
AGCGGTCTATCCACACCATATTTGT
Found at i:26043970 original size:27 final size:27
Alignment explanation
Indices: 26043926--26044017 Score: 107
Period size: 26 Copynumber: 3.4 Consensus size: 27
26043916 GTGTTTAGGA
26043926 TTAGGGTTTTTG-AAAAAAAATAGGGT
1 TTAGGGTTTTTGAAAAAAAAATAGGGT
* *
26043952 TTAGGGTTTTTGAAAAAAAATTAAGGT
1 TTAGGGTTTTTGAAAAAAAAATAGGGT
* * *
26043979 TTAGGG-TTTTAAAAAAATAAATTTGAGT
1 TTAGGGTTTTTGAAAAAA-AAA-TAGGGT
26044007 TTAGGGTTTTT
1 TTAGGGTTTTT
26044018 AATTGGTAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
26 22 0.40
27 20 0.36
28 9 0.16
29 4 0.07
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (27 bp):
TTAGGGTTTTTGAAAAAAAAATAGGGT
Found at i:26043995 original size:28 final size:27
Alignment explanation
Indices: 26043926--26044016 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
26043916 GTGTTTAGGA
** *
26043926 TTAGGGTTTTTGAAAAAAAA-TAGGGT
1 TTAGGGTTTTAAAAAAAAAATTAAGGT
**
26043952 TTAGGGTTTTTGAAAAAAAATTAAGGT
1 TTAGGGTTTTAAAAAAAAAATTAAGGT
*
26043979 TTAGGGTTTTAAAAAAATAAATT-TGAGT
1 TTAGGGTTTTAAAAAAA-AAATTAAG-GT
26044007 TTAGGGTTTT
1 TTAGGGTTTT
26044017 TAATTGGTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 20 0.34
27 21 0.36
28 17 0.29
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (27 bp):
TTAGGGTTTTAAAAAAAAAATTAAGGT
Found at i:26044046 original size:36 final size:37
Alignment explanation
Indices: 26044006--26044108 Score: 120
Period size: 36 Copynumber: 2.8 Consensus size: 37
26043996 TAAATTTGAG
26044006 TTTAGGGTTTTTAATTGGTAAGTGATGTGTTTA-GGA
1 TTTAGGGTTTTTAATTGGTAAGTGATGTGTTTAGGGA
**** * * * *
26044042 TTTAGGGTTTTTAAAAAATAAAT-TTGGGTTTAGGGT
1 TTTAGGGTTTTTAATTGGTAAGTGATGTGTTTAGGGA
26044078 TTTAGGGTTTTTAATTGGTAAGTGATGTGTT
1 TTTAGGGTTTTTAATTGGTAAGTGATGTGTT
26044109 CTAAAAAATT
Statistics
Matches: 50, Mismatches: 15, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
35 7 0.14
36 38 0.76
37 5 0.10
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (37 bp):
TTTAGGGTTTTTAATTGGTAAGTGATGTGTTTAGGGA
Found at i:26044866 original size:109 final size:109
Alignment explanation
Indices: 26044662--26044974 Score: 402
Period size: 110 Copynumber: 2.9 Consensus size: 109
26044652 TGGATTAAAC
* * * * * *
26044662 TTTAAGAGGATATTTGGCAATTTGGTT-ATACGAG-AAATCGAAACCCAGCACCTTAGGGCACG-
1 TTTAAAAGGATATTTAGCTATTTGGTTGA-ACGAGAAAATAGACACCCAGCACCTTAGGGCATGT
* * * **
26044724 TTCCTCGAATTTCCAAACGCAAAACATTACCTTATTTT-GAAATT
65 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAAA
*
26044768 TTTGAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATAGACACCCAGCACCTTAGGGCATGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAG-AAAATAGACACCCAGCACCTTAGGGCATGT
* *
26044833 TTTCTCGAGTTTTCAAACGCAAAACATTGCCTTATTTTAAAAAAAA
65 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTT-AAAAAAA
* * *
26044879 TTTAAAAGGATATTAAG-TCATTTGGTTGAACGACAAAATTGACACCCAGCACCTTAGGGCATGT
1 TTTAAAAGGATATTTAGCT-ATTTGGTTGAACGAGAAAATAGACACCCAGCACCTTAGGGCATGT
26044943 TTTCTCGAATTTCCAAACGCAAAACATTGCCT
65 TTTCTCGAATTTCCAAACGCAAAACATTGCCT
26044975 CAATTAAAAA
Statistics
Matches: 180, Mismatches: 20, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
106 28 0.16
107 1 0.01
108 25 0.14
109 34 0.19
110 60 0.33
111 32 0.18
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (109 bp):
TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAATAGACACCCAGCACCTTAGGGCATGTT
TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAAAA
Found at i:26045206 original size:20 final size:18
Alignment explanation
Indices: 26045168--26045206 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
26045158 AAAATAAAGG
*
26045168 AAAATATAAAAAATTTAT
1 AAAATATAAAAAATGTAT
26045186 AAAATATGAAAAATATGTAT
1 AAAATAT-AAAAA-ATGTAT
26045206 A
1 A
26045207 TGTATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 5 0.28
20 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
AAAATATAAAAAATGTAT
Found at i:26045303 original size:14 final size:14
Alignment explanation
Indices: 26045284--26045346 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
26045274 GAGTACATAG
26045284 ATATATGTAAATAA
1 ATATATGTAAATAA
* *
26045298 ATATATATATATAA
1 ATATATGTAAATAA
*
26045312 ATATATATTAAATAA
1 ATATAT-GTAAATAA
*
26045327 ATTATATG-AAATAT
1 A-TATATGTAAATAA
26045341 ATATAT
1 ATATAT
26045347 AAAAGCACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
13 5 0.12
14 24 0.59
15 7 0.17
16 5 0.12
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
ATATATGTAAATAA
Found at i:26045360 original size:27 final size:24
Alignment explanation
Indices: 26045295--26045349 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
26045285 TATATGTAAA
*
26045295 TAAATATATATATATAAATATATAT
1 TAAATAAAT-TATATAAATATATAT
26045320 TAAATAAATTATATGAAATATATAT
1 TAAATAAATTATAT-AAATATATAT
26045345 ATAAA
1 -TAAA
26045350 AGCACTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 18 0.67
26 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
TAAATAAATTATATAAATATATAT
Found at i:26045499 original size:3 final size:3
Alignment explanation
Indices: 26045418--26045480 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
26045408 TTATTAATGG
26045418 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26045466 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
26045481 GGTAACATTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:26050176 original size:126 final size:126
Alignment explanation
Indices: 26049897--26050376 Score: 608
Period size: 126 Copynumber: 3.8 Consensus size: 126
26049887 GGGCTGTTAC
26049897 AAGATGGTTT-TAAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTAC
1 AAGAT-GTTTCTAAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTAC
* * * * *
26049961 TGAAAAAAGCTCCCAGCTGG-CGCTCTTTTTGTACAATAGTTTCAGAAAAAATAACTTTGAG
65 TAAAAAAAGCTCCCAGCTGGAAGCTCTTTTTGTACAGTAGTTTCTGAAAAAATAATTTTGAG
* ** * *** * *
26050022 AAGATGTTTCTGAGGAAATAAGTTGAAAAATAATTCAAGTAGGATGCACTGTGAGCAAAAGTACT
1 AAGATGTTTCTAAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACT
* * * * *
26050087 AAAAAAATCTCCCAGTTGGATGCTCTTTTTGTACAGTAGTTTTTGAACAAATAATTTTGAG
66 AAAAAAAGCTCCCAGCTGGAAGCTCTTTTTGTACAGTAGTTTCTGAAAAAATAATTTTGAG
* * * *
26050148 AAGATGTTTCTAAAAGAATAGGTAGAAAAACGCTTCAAACAGGATGCACTGTCAACAAAAGTACT
1 AAGATGTTTCTAAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACT
* * *
26050213 GAAATAAA-CTCCTAGCTGGAAGCTCTTTTTGTATAGTAGTTTCT-AAAAAATTAATTTTGAG
66 -AAAAAAAGCTCCCAGCTGGAAGCTCTTTTTGTACAGTAGTTTCTGAAAAAA-TAATTTTGAG
* * * *
26050274 AAGATGTTTCCAAAAAAATAGGTTGAAAAATGCTTCAAGTAGGATGCACTGTTAGCAAAAGTACT
1 AAGATGTTTCTAAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACT
* * *
26050339 GAGAAAAGCTCCCAACTGGAAGCTCTTTTTGTACAGTA
66 AAAAAAAGCTCCCAGCTGGAAGCTCTTTTTGTACAGTA
26050377 CATCCTACTT
Statistics
Matches: 298, Mismatches: 52, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
124 4 0.01
125 76 0.26
126 212 0.71
127 6 0.02
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (126 bp):
AAGATGTTTCTAAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACT
AAAAAAAGCTCCCAGCTGGAAGCTCTTTTTGTACAGTAGTTTCTGAAAAAATAATTTTGAG
Found at i:26050366 original size:252 final size:251
Alignment explanation
Indices: 26049897--26050376 Score: 687
Period size: 252 Copynumber: 1.9 Consensus size: 251
26049887 GGGCTGTTAC
* * *
26049897 AAGATGGTTTTAAAAAAATAGGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACT
1 AAGATGGTTTTAAAAAAATAGGTAGAAAAACGCTTCAAACAGGATGCACTGTCAACAAAAGTACT
*
26049962 GAAAAAAGCTCCCAGCTGGCGCTCTTTTTGTACAATAGTTTCAGAAAAAATAACTTTGAGAAGAT
66 GAAAAAAGCTCCCAGCTGGAGCTCTTTTTGTACAATAGTTTCAGAAAAAATAACTTTGAGAAGAT
** **
26050027 GTTTCTGAGGAAATAAGTTGAAAAATAATTCAAGTAGGATGCACTGTGAGCAAAAGTACTAAAAA
131 GTTTCCAAAAAAATAAGTTGAAAAATAATTCAAGTAGGATGCACTGTGAGCAAAAGTACTAAAAA
* ** *
26050092 AATCTCCCAGTTGGATGCTCTTTTTGTACAGTAGTTTTTGAACAAATAATTTTGAG
196 AAGCTCCCAACTGGAAGCTCTTTTTGTACAGTAGTTTTTGAACAAATAATTTTGAG
*
26050148 AAGAT-GTTTCTAAAAGAATAGGTAGAAAAACGCTTCAAACAGGATGCACTGTCAACAAAAGTAC
1 AAGATGGTTT-TAAAAAAATAGGTAGAAAAACGCTTCAAACAGGATGCACTGTCAACAAAAGTAC
* * * * *
26050212 TGAAATAAA-CTCCTAGCTGGAAGCTCTTTTTGTATAGTAGTTTCTA-AAAAATTAATTTTGAGA
65 TGAAA-AAAGCTCCCAGCTGG-AGCTCTTTTTGTACAATAGTTTC-AGAAAAAATAACTTTGAGA
* ** * *
26050275 AGATGTTTCCAAAAAAATAGGTTGAAAAATGCTTCAAGTAGGATGCACTGTTAGCAAAAGTACTG
127 AGATGTTTCCAAAAAAATAAGTTGAAAAATAATTCAAGTAGGATGCACTGTGAGCAAAAGTACTA
*
26050340 AGAAAAGCTCCCAACTGGAAGCTCTTTTTGTACAGTA
192 AAAAAAGCTCCCAACTGGAAGCTCTTTTTGTACAGTA
26050377 CATCCTACTT
Statistics
Matches: 201, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
250 4 0.02
251 70 0.35
252 126 0.63
253 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.28
Consensus pattern (251 bp):
AAGATGGTTTTAAAAAAATAGGTAGAAAAACGCTTCAAACAGGATGCACTGTCAACAAAAGTACT
GAAAAAAGCTCCCAGCTGGAGCTCTTTTTGTACAATAGTTTCAGAAAAAATAACTTTGAGAAGAT
GTTTCCAAAAAAATAAGTTGAAAAATAATTCAAGTAGGATGCACTGTGAGCAAAAGTACTAAAAA
AAGCTCCCAACTGGAAGCTCTTTTTGTACAGTAGTTTTTGAACAAATAATTTTGAG
Found at i:26054757 original size:105 final size:104
Alignment explanation
Indices: 26054581--26054776 Score: 259
Period size: 105 Copynumber: 1.9 Consensus size: 104
26054571 AATTTTTAAA
* * * **
26054581 TGTAAGACCATAGTTGGGCTATGGCATTTTAATGAAAAGACCATAACTGGGTTATGACGCCTTGA
1 TGTAAGACCATAGCTGGGCTATGGCATTCTAATGAAAAGACAATAACTGGGTTATGA-GCCTCAA
* *
26054646 ACGTAAGACTATGGTTGGACCATGGCCGTATAGATACATG
65 ACGTAAGACCATGGTAGGACCATGGCCGTATAGATACATG
* *
26054686 TGTAAGACCATAGCTGGGCTGTGGCATTCTAATGATAAGACAATAACTGGGTTATG-GCACTACA
1 TGTAAGACCATAGCTGGGCTATGGCATTCTAATGAAAAGACAATAACTGGGTTATGAGC-CT-CA
* *
26054750 AATGTAAGACCATGGTAGGGCCATGGC
64 AACGTAAGACCATGGTAGGACCATGGC
26054777 AATGCATGTG
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
103 2 0.03
104 2 0.03
105 74 0.95
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.26
Consensus pattern (104 bp):
TGTAAGACCATAGCTGGGCTATGGCATTCTAATGAAAAGACAATAACTGGGTTATGAGCCTCAAA
CGTAAGACCATGGTAGGACCATGGCCGTATAGATACATG
Found at i:26064345 original size:30 final size:30
Alignment explanation
Indices: 26064304--26064373 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
26064294 CATGTCTCTT
*
26064304 GGCCTTGTGAGTCACACAGCCTGGCCACAC
1 GGCCATGTGAGTCACACAGCCTGGCCACAC
* *
26064334 GGCCATGTGAGTTACACGGCCTGGCCACAC
1 GGCCATGTGAGTCACACAGCCTGGCCACAC
26064364 GGCCATGTGA
1 GGCCATGTGA
26064374 CCCCTGCAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.20, C:0.33, G:0.30, T:0.17
Consensus pattern (30 bp):
GGCCATGTGAGTCACACAGCCTGGCCACAC
Found at i:26066629 original size:33 final size:32
Alignment explanation
Indices: 26066548--26066629 Score: 74
Period size: 33 Copynumber: 2.5 Consensus size: 32
26066538 ATGGCAATGT
** * *
26066548 TTAAATGTAAGACCATAGTTGGGCTATGGCAT
1 TTAAATGTAAGACCATAACTGGGCTATGACAC
* * * *
26066580 TTTAATGAAAATACCATAACTGGGTTATGACACC
1 TTAAATG-TAAGACCATAACTGGGCTATGACA-C
26066614 TTAAATGTAAGACCAT
1 TTAAATGTAAGACCAT
26066630 GGTTGGACCA
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
32 6 0.16
33 25 0.68
34 6 0.16
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (32 bp):
TTAAATGTAAGACCATAACTGGGCTATGACAC
Found at i:26066730 original size:33 final size:32
Alignment explanation
Indices: 26066658--26066734 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
26066648 TAGATACATG
** * **
26066658 TGTAAGACCATAGTTGGGCTATGGCATTCTGA
1 TGTAAGACCATAACTGGGCTATGGCATACAAA
*
26066690 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAACTGGGCTATGGCA-TACAAA
26066724 TGTAAGACCAT
1 TGTAAGACCAT
26066735 GGTACGGTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.05
33 30 0.81
34 5 0.14
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGGCATACAAA
Found at i:26066747 original size:105 final size:99
Alignment explanation
Indices: 26066553--26066782 Score: 275
Period size: 105 Copynumber: 2.3 Consensus size: 99
26066543 AATGTTTAAA
* * *
26066553 TGTAAGACCATAGTTGGGCTATGGCATTTTAATGAAAATACCATAACTGGGTTATGACACCTTAA
1 TGTAAGACCATAGTTGGGCTATGGCATTCTAATGAAAAGACCATAACTGGGTTATGACACCTCAA
* *
26066618 ATGTAAGACCATGGTTGGACCATGGTAGTATAGATACATG
66 ATGTAAGACCATGGTCGGACCATGGCA--AT-G---CATG
* * *
26066658 TGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGGCA-CTACA
1 TGTAAGACCATAGTTGGGCTATGGCATTCTAATGAAAAGACCATAACTGGGTTATGACACCT-CA
*
26066722 AATGTAAGACCATGGTACGG-TCATGGCAATGCATG
65 AATGTAAGACCATGGT-CGGACCATGGCAATGCATG
* *
26066757 TGTAAGACCATAGTTGGACTTTGGCA
1 TGTAAGACCATAGTTGGGCTATGGCA
26066783 CAAAAAGAAT
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
99 28 0.25
102 1 0.01
103 2 0.02
104 2 0.02
105 77 0.69
106 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (99 bp):
TGTAAGACCATAGTTGGGCTATGGCATTCTAATGAAAAGACCATAACTGGGTTATGACACCTCAA
ATGTAAGACCATGGTCGGACCATGGCAATGCATG
Found at i:26068143 original size:10 final size:10
Alignment explanation
Indices: 26068130--26068154 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
26068120 CATAAATGAA
26068130 AAAAAATATT
1 AAAAAATATT
26068140 AAAAAATATT
1 AAAAAATATT
26068150 AAAAA
1 AAAAA
26068155 TTTAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAAATATT
Found at i:26068532 original size:19 final size:19
Alignment explanation
Indices: 26068508--26068551 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
26068498 CTTTTGTCAT
26068508 GTCAGCAAAGCGCTTCCAC
1 GTCAGCAAAGCGCTTCCAC
**
26068527 GTCAGCGCAGCGCTTCCAC
1 GTCAGCAAAGCGCTTCCAC
26068546 GTCAGC
1 GTCAGC
26068552 GCGCTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.20, C:0.39, G:0.25, T:0.16
Consensus pattern (19 bp):
GTCAGCAAAGCGCTTCCAC
Found at i:26068552 original size:19 final size:19
Alignment explanation
Indices: 26068516--26068553 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
26068506 ATGTCAGCAA
26068516 AGCGCTTCCACGTCAGCGC
1 AGCGCTTCCACGTCAGCGC
26068535 AGCGCTTCCACGTCAGCGC
1 AGCGCTTCCACGTCAGCGC
26068554 GCTTTTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.42, G:0.26, T:0.16
Consensus pattern (19 bp):
AGCGCTTCCACGTCAGCGC
Found at i:26069395 original size:30 final size:31
Alignment explanation
Indices: 26069338--26069397 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
26069328 ACTCGTGTTT
*
26069338 AAAAAATTTTAAATAAATTATTATATATTTG
1 AAAAAATTATAAATAAATTATTATATATTTG
* *
26069369 AAAATATTATAAATAACTTA-TATATATTT
1 AAAAAATTATAAATAAATTATTATATATTT
26069398 ATAATCAGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (31 bp):
AAAAAATTATAAATAAATTATTATATATTTG
Found at i:26073488 original size:91 final size:91
Alignment explanation
Indices: 26073330--26073561 Score: 315
Period size: 91 Copynumber: 2.5 Consensus size: 91
26073320 CTTGAGGCTG
* * * ** *
26073330 CAAAAAG-CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCTCCTACCCTTTTCTTTGCACTCATT
1 CAAAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTTCTTTGCACTCAAT
* *
26073394 TGGGTACTTGAACTTTCAAAATGCAT
66 TGGGTACTTGAAATTTCAAAATACAT
* *
26073420 CAAAAAGACCCTCAAACCTTTTCAAAAAAACCAATTAAGCCCCTGCTTTTTTTTTTGCACTCAAT
1 CAAAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTTCTTTGCACTCAAT
26073485 TGGGTACTTGAAATTTCAAAATACAT
66 TGGGTACTTGAAATTTCAAAATACAT
***
26073511 CAAAAAGACCCTCAAA-CTTAAAAAAAAAAGAGCAATTAAGCCCCTGCTTTT
1 CAAAAAGACCCTCAAACCTT-TTCAAAAAA-AGCAATTAAGCCCCTGCTTTT
26073562 ATTAAAAATT
Statistics
Matches: 125, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
90 10 0.08
91 95 0.76
92 20 0.16
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (91 bp):
CAAAAAGACCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTTCTTTGCACTCAAT
TGGGTACTTGAAATTTCAAAATACAT
Found at i:26073588 original size:10 final size:10
Alignment explanation
Indices: 26073560--26073705 Score: 59
Period size: 8 Copynumber: 15.8 Consensus size: 10
26073550 GCCCCTGCTT
*
26073560 TTATTAAAAA
1 TTATAAAAAA
*
26073570 TTAGAAAAAAA
1 TTA-TAAAAAA
26073581 TTATAAAAAA
1 TTATAAAAAA
*
26073591 -T-TAAAATA
1 TTATAAAAAA
*
26073599 -TAT-AAATA
1 TTATAAAAAA
* **
26073607 TTATTAAATT
1 TTATAAAAAA
26073617 TTAATAAAAAA
1 TT-ATAAAAAA
* *
26073628 -T-TCAAATA
1 TTATAAAAAA
26073636 TT--AAAAAA
1 TTATAAAAAA
26073644 TTAT-AAAAA
1 TTATAAAAAA
*
26073653 TTGTAAAAAA
1 TTATAAAAAA
26073663 TTAT--AAAA
1 TTATAAAAAA
*
26073671 TTATAAAATA
1 TTATAAAAAA
*
26073681 -TAT-AGAAA
1 TTATAAAAAA
*
26073689 -TATAAAAAT
1 TTATAAAAAA
26073698 TTATAAAA
1 TTATAAAA
26073706 TTTTATAAAG
Statistics
Matches: 104, Mismatches: 19, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
8 37 0.36
9 20 0.19
10 34 0.33
11 13 0.12
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:26073609 original size:16 final size:16
Alignment explanation
Indices: 26073577--26073696 Score: 64
Period size: 18 Copynumber: 6.8 Consensus size: 16
26073567 AAATTAGAAA
26073577 AAAATTATAAAAAATT
1 AAAATTATAAAAAATT
*
26073593 AAAATATATAAATATTATT
1 AAAAT-TATAAA-A-AATT
*
26073612 AAATTTTAATAAAAAATT
1 AAA-ATT-ATAAAAAATT
*
26073630 CAAATATTA-AAAAATTATA
1 -AAA-ATTATAAAAA--ATT
*
26073649 AAAATTGTAAAAAATTAT
1 AAAATTATAAAAAA-T-T
*
26073667 AAAATTATAAAATATAT
1 AAAATTATAAAAAAT-T
26073684 AGAAA-TATAAAAA
1 A-AAATTATAAAAA
26073697 TTTATAAAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
16 6 0.07
17 26 0.32
18 28 0.34
19 16 0.20
20 6 0.07
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (16 bp):
AAAATTATAAAAAATT
Found at i:26073710 original size:10 final size:10
Alignment explanation
Indices: 26073637--26073714 Score: 62
Period size: 10 Copynumber: 8.4 Consensus size: 10
26073627 ATTCAAATAT
*
26073637 TAAAAAATTA
1 TAAAAATTTA
26073647 TAAAAATTGTA
1 TAAAAATT-TA
26073658 -AAAAA-TTA
1 TAAAAATTTA
26073666 T-AAAA-TTA
1 TAAAAATTTA
*
26073674 T-AAAATATA
1 TAAAAATTTA
*
26073683 TAGAAA--TA
1 TAAAAATTTA
26073691 TAAAAATTTA
1 TAAAAATTTA
*
26073701 TAAAATTTTA
1 TAAAAATTTA
26073711 TAAA
1 TAAA
26073715 GTTGTAAGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
8 21 0.37
9 4 0.07
10 30 0.53
11 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:26073906 original size:19 final size:17
Alignment explanation
Indices: 26073866--26073926 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 17
26073856 ATAAAAAAAT
** *
26073866 TAATTTTTAATTTTTTA
1 TAATTTTTAAAATTTAA
*
26073883 T-ATTTTTATTAATTTAA
1 TAATTTTTA-AAATTTAA
26073900 TAAATTTTCTAAAATTTAA
1 T-AATTTT-TAAAATTTAA
26073919 TAATTTTT
1 TAATTTTT
26073927 TTATATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 7 0.20
17 7 0.20
18 6 0.17
19 13 0.37
20 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TAATTTTTAAAATTTAA
Found at i:26074052 original size:89 final size:90
Alignment explanation
Indices: 26073958--26074122 Score: 228
Period size: 91 Copynumber: 1.8 Consensus size: 90
26073948 ATAAGTGCAA
* *
26073958 GGGCTTAATTGCTTTTTTGAAAAATTTTGA-GGAT-CTTTTTGATGCGTTTTGAAAGTTCAAGTA
1 GGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGATCCTTTTT-ATGCATTTTGAAAGTTCAAG-A
26074021 GCT-AATTGAGTAGGGGAAAAAAACAG
64 GCTCAATTGAGTAGGGGAAAAAAACAG
* * * *
26074047 GGGCTTAATTGCTTTTTTTAACAAGTTTGAGGGGGTCCTTTTTATGCATTTTGAAAGTTCAAGGG
1 GGGCTTAATTGCTTTTTTGAAAAAGTTTGA-GGGATCCTTTTTATGCATTTTGAAAGTTCAAGAG
26074112 CTCAATTGAGT
65 CTCAATTGAGT
26074123 GCAAAAATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
89 27 0.41
90 3 0.05
91 30 0.45
92 6 0.09
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.38
Consensus pattern (90 bp):
GGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGATCCTTTTTATGCATTTTGAAAGTTCAAGAGC
TCAATTGAGTAGGGGAAAAAAACAG
Found at i:26074145 original size:91 final size:87
Alignment explanation
Indices: 26073957--26074147 Score: 199
Period size: 91 Copynumber: 2.1 Consensus size: 87
26073947 AATAAGTGCA
* *
26073957 AGGGCTTAATTGCTTTTTTGAAAAATTTTGAGGATCTTTTTGATGCGTTTTGAAAGTTCAAGTAG
1 AGGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAGTTCAAGTAG
**
26074022 CTAATTGAGTAGGGGAAAAAAAC
66 CTAATTGAGTA-GCAAAAAAAAC
* * *
26074045 AGGGGCTTAATTGCTTTTTTTAACAAGTTTGAGGGGGTCCTTTTT-ATGCATTTTGAAAGTTCAA
1 A-GGGCTTAATTGCTTTTTTGAAAAAGTTTGA--GGAT-CTTTTTGATGCATTTTGAAAGTTCAA
* *
26074109 G-GGCTCAATTGAGT-GCAAAAATAAAGG
62 GTAGCT-AATTGAGTAGCAAAAA-AAA-C
26074136 AGGGACTTAATT
1 AGGG-CTTAATT
26074148 ATTATTATTA
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
88 1 0.01
89 32 0.37
90 9 0.10
91 38 0.44
92 6 0.07
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (87 bp):
AGGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAGTTCAAGTAG
CTAATTGAGTAGCAAAAAAAAC
Found at i:26074153 original size:3 final size:3
Alignment explanation
Indices: 26074145--26074169 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
26074135 GAGGGACTTA
26074145 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
26074170 GTTTGAGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:26075843 original size:15 final size:15
Alignment explanation
Indices: 26075825--26075858 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
26075815 AATTAAATGC
26075825 TGAAAAAATAAGTAT
1 TGAAAAAATAAGTAT
**
26075840 TGAAAATTTAAGTAT
1 TGAAAAAATAAGTAT
26075855 TGAA
1 TGAA
26075859 CTTAAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.32
Consensus pattern (15 bp):
TGAAAAAATAAGTAT
Done.