Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 120 of 170
Found at i:36707237 original size:50 final size:50
Alignment explanation
Indices: 36707122--36707264 Score: 169
Period size: 50 Copynumber: 2.8 Consensus size: 50
36707112 GATAATAACA
* * ** *
36707122 TGCCAAAGTCATGTCCCAAACATGGTCTTACATAGGATGTTCTCATATTGG
1 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGA-CCTCTCATATCGG
* * ** *
36707173 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* *
36707223 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGACCTCT
36707265 TTACCCAAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 46 0.60
51 31 0.40
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:36709807 original size:7 final size:7
Alignment explanation
Indices: 36709795--36709826 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
36709785 GATTAAACCC
36709795 AATTTTT
1 AATTTTT
36709802 AATTTTT
1 AATTTTT
36709809 AATTTTT
1 AATTTTT
36709816 AATTTTT
1 AATTTTT
36709823 AATT
1 AATT
36709827 GTAACTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
AATTTTT
Found at i:36709837 original size:21 final size:21
Alignment explanation
Indices: 36709795--36709837 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
36709785 GATTAAACCC
* *
36709795 AATTTTTAATTTTTAATTTTT
1 AATTTTTAATTTGTAATCTTT
36709816 AATTTTTAA-TTGTAACTCTTT
1 AATTTTTAATTTGTAA-TCTTT
36709837 A
1 A
36709838 GTTCGAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (21 bp):
AATTTTTAATTTGTAATCTTT
Found at i:36714430 original size:23 final size:22
Alignment explanation
Indices: 36714379--36714430 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
36714369 CCTCGTCTTT
*
36714379 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
36714401 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
36714424 TTCTTTT
1 TTCTTTT
36714431 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:36724172 original size:11 final size:11
Alignment explanation
Indices: 36724156--36724195 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
36724146 AATTCATATC
36724156 AATTTTAAATA
1 AATTTTAAATA
36724167 AATTTTAAA-A
1 AATTTTAAATA
36724177 GAA--TTAAATA
1 -AATTTTAAATA
36724187 AATTTTAAA
1 AATTTTAAA
36724196 ATTTTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
9 7 0.28
10 2 0.08
11 16 0.64
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (11 bp):
AATTTTAAATA
Found at i:36724207 original size:20 final size:20
Alignment explanation
Indices: 36724158--36724207 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
36724148 TTCATATCAA
36724158 TTTTAAATAAATTTTAAAAG
1 TTTTAAATAAATTTTAAAAG
** *
36724178 AATTAAATAAATTTTAAAAT
1 TTTTAAATAAATTTTAAAAG
*
36724198 TTTTATATAA
1 TTTTAAATAA
36724208 TGTTTATGTA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TTTTAAATAAATTTTAAAAG
Found at i:36724707 original size:29 final size:27
Alignment explanation
Indices: 36724674--36724778 Score: 90
Period size: 29 Copynumber: 3.7 Consensus size: 27
36724664 AATCAGACCT
36724674 TAAACACTAAACCATAAACCTTAAGCCCC
1 TAAACACTAAACCATAAACC-TAA-CCCC
*
36724703 TAAACTA-TAAACTATAAACCCTAAACCCC
1 TAAAC-ACTAAACCATAAA-CCT-AACCCC
* *
36724732 T-AACCCTTAAA-CATTAAATCCTAAACCC
1 TAAACAC-TAAACCA-TAAA-CCTAACCCC
36724760 TAAACACTAAACCATAAAC
1 TAAACACTAAACCATAAAC
36724779 TTATACCCTA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
27 1 0.02
28 18 0.29
29 38 0.61
30 5 0.08
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (27 bp):
TAAACACTAAACCATAAACCTAACCCC
Found at i:36724743 original size:36 final size:37
Alignment explanation
Indices: 36724673--36724764 Score: 86
Period size: 36 Copynumber: 2.5 Consensus size: 37
36724663 AAATCAGACC
* *
36724673 TTAAA-CACTAAACCATAAA-CCTTAAGCCCCTAAAC-
1 TTAAATCA-TAAACCCTAAACCCCTAAGCCCCTAAACA
*
36724708 TATAAA-CTATAAACCCTAAACCCCTAA-CCCTTAAACA
1 T-TAAATC-ATAAACCCTAAACCCCTAAGCCCCTAAACA
*
36724745 TTAAATCCTAAACCCTAAAC
1 TTAAATCATAAACCCTAAAC
36724765 ACTAAACCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
35 1 0.02
36 39 0.81
37 8 0.17
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.22
Consensus pattern (37 bp):
TTAAATCATAAACCCTAAACCCCTAAGCCCCTAAACA
Found at i:36724763 original size:14 final size:14
Alignment explanation
Indices: 36724746--36724860 Score: 51
Period size: 14 Copynumber: 8.4 Consensus size: 14
36724736 CCTTAAACAT
36724746 TAAATCCTAAACCC
1 TAAATCCTAAACCC
*
36724760 TAAA-CACTAAACCA
1 TAAATC-CTAAACCC
* *
36724774 TAAA-CTTATACCC
1 TAAATCCTAAACCC
* * **
36724787 TAAATCATAAGCAT
1 TAAATCCTAAACCC
* *
36724801 TAAAAT-CTTAACAC
1 T-AAATCCTAAACCC
*
36724815 TAAATCATAAACCAC
1 TAAATCCTAAACC-C
*
36724830 -AAATCATAAA-CC
1 TAAATCCTAAACCC
* *
36724842 TACACCCTAAACCC
1 TAAATCCTAAACCC
36724856 TAAAT
1 TAAAT
36724861 ATATATTACA
Statistics
Matches: 73, Mismatches: 21, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
12 1 0.01
13 22 0.30
14 45 0.62
15 5 0.07
ACGTcount: A:0.49, C:0.28, G:0.01, T:0.23
Consensus pattern (14 bp):
TAAATCCTAAACCC
Found at i:36725340 original size:40 final size:40
Alignment explanation
Indices: 36725276--36725490 Score: 231
Period size: 40 Copynumber: 5.4 Consensus size: 40
36725266 GCATTTTGCT
* * * *
36725276 AAAAGTGCAGCTAATGCTCGATCTATAGTGGCGTTTTTCA
1 AAAAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCA
* * *
36725316 ACAAGCGCCGCTAATTCTCGATCTATTGTGGCG-TTTTCTA
1 AAAAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTC-A
* *
36725356 AAAAGCGCCGCTAATTCTCGATCTATTGCGGCG-TTTTCTG
1 AAAAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTC-A
* * *
36725396 AAAAGCGCTGCTAATGCTCGATCTATAGCGGTGTTTTTCA
1 AAAAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCA
* * *
36725436 ACAAGCG-C-CTAATCCTCGATCTATTGCGGCGTTTTTTA
1 AAAAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCA
**
36725474 AAAAGCGCTACTAATGC
1 AAAAGCGCCGCTAATGC
36725491 CACTAAAGCT
Statistics
Matches: 149, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
38 32 0.21
39 5 0.03
40 107 0.72
41 5 0.03
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATCTATTGCGGCGTTTTTCA
Found at i:36728384 original size:39 final size:39
Alignment explanation
Indices: 36728318--36728479 Score: 153
Period size: 40 Copynumber: 4.1 Consensus size: 39
36728308 AATGTGTTTG
* * *
36728318 GCGGCATTCTCTGAAAAGCGTCGCTAATGCTCGATCTATA
1 GCGGCATT-TTTGAAAAGTGCCGCTAATGCTCGATCTATA
* *
36728358 GCGGCATTTTTGAAAAGTGCCACTAATGCTTGATCTATA
1 GCGGCATTTTTGAAAAGTGCCGCTAATGCTCGATCTATA
* * * *
36728397 GCGTCATTTTTCAAAAAGTGCCGCTAATGATCAATCTATA
1 GCGGCATTTTT-GAAAAGTGCCGCTAATGCTCGATCTATA
* * ** * * *
36728437 GCGGCGTTTTTTAAAAAACGTCGCTAATGCTCAACCTATA
1 GCGGC-ATTTTTGAAAAGTGCCGCTAATGCTCGATCTATA
36728477 GCG
1 GCG
36728480 ACGTTTGTTT
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 36 0.35
40 61 0.60
41 5 0.05
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (39 bp):
GCGGCATTTTTGAAAAGTGCCGCTAATGCTCGATCTATA
Found at i:36728425 original size:40 final size:39
Alignment explanation
Indices: 36728339--36728479 Score: 156
Period size: 40 Copynumber: 3.6 Consensus size: 39
36728329 TGAAAAGCGT
*
36728339 CGCTAATGCTCGATCTATAGCGGCATTTTTGAAAAGTGC
1 CGCTAATGCTCGATCTATAGCGGCATTTTTAAAAAGTGC
* * *
36728378 CACTAATGCTTGATCTATAGCGTCATTTTTCAAAAAGTGC
1 CGCTAATGCTCGATCTATAGCGGCATTTTT-AAAAAGTGC
* * * ** *
36728418 CGCTAATGATCAATCTATAGCGGCGTTTTTTAAAAAACGT
1 CGCTAATGCTCGATCTATAGCGGC-ATTTTTAAAAAGTGC
* *
36728458 CGCTAATGCTCAACCTATAGCG
1 CGCTAATGCTCGATCTATAGCG
36728480 ACGTTTGTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
39 27 0.32
40 53 0.62
41 5 0.06
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (39 bp):
CGCTAATGCTCGATCTATAGCGGCATTTTTAAAAAGTGC
Found at i:36733513 original size:12 final size:12
Alignment explanation
Indices: 36733496--36733529 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
36733486 AAAAAATCTG
36733496 AATTTAATTTCC
1 AATTTAATTTCC
*
36733508 AATTTAATTTCT
1 AATTTAATTTCC
*
36733520 AATTTTATTT
1 AATTTAATTT
36733530 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:36738298 original size:44 final size:44
Alignment explanation
Indices: 36738249--36738338 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
36738239 AAGGGTTGGT
36738249 TTGCAGGTCGTATCTGGACTAGCTACGAGAGGAAAAATTGGTGG
1 TTGCAGGTCGTATCTGGACTAGCTACGAGAGGAAAAATTGGTGG
36738293 TTGCAGGTCGTATCTGGACTAGCTACGAGAGGAAAAATTGGTGG
1 TTGCAGGTCGTATCTGGACTAGCTACGAGAGGAAAAATTGGTGG
36738337 TT
1 TT
36738339 AGCATGTTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (44 bp):
TTGCAGGTCGTATCTGGACTAGCTACGAGAGGAAAAATTGGTGG
Found at i:36742870 original size:22 final size:22
Alignment explanation
Indices: 36742845--36742890 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
36742835 GTTAGAAACC
36742845 CTCTACGCAACAAAGTCTTTGG
1 CTCTACGCAACAAAGTCTTTGG
36742867 CTCTACGCAACAAAGTCTTTGG
1 CTCTACGCAACAAAGTCTTTGG
36742889 CT
1 CT
36742891 AACCTATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (22 bp):
CTCTACGCAACAAAGTCTTTGG
Found at i:36746204 original size:23 final size:24
Alignment explanation
Indices: 36746159--36746210 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
36746149 ATTTTTTATA
36746159 AAAAATCAAAATTCAAATATATT-
1 AAAAATCAAAATTCAAATATATTC
* *
36746182 AAAAATACAAAGTTCCAA-ATATTC
1 AAAAAT-CAAAATTCAAATATATTC
36746206 AAAAA
1 AAAAA
36746211 ATAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.25
Consensus pattern (24 bp):
AAAAATCAAAATTCAAATATATTC
Found at i:36746210 original size:25 final size:24
Alignment explanation
Indices: 36746155--36746218 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
36746145 TATAATTTTT
36746155 TATAAAAAAT-CAAAATTCAAATA
1 TATAAAAAATACAAAATTCAAATA
* *
36746178 TATTAAAAATACAAAGTTCCAAATA
1 TATAAAAAATACAAAATT-CAAATA
*
36746203 T-TCAAAAAATAAAAAA
1 TAT-AAAAAATACAAAA
36746219 AATGATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 9 0.27
24 7 0.21
25 17 0.52
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (24 bp):
TATAAAAAATACAAAATTCAAATA
Found at i:36748672 original size:20 final size:20
Alignment explanation
Indices: 36748634--36748673 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
36748624 GTTATAATTA
* *
36748634 ATATATATTTTTAATTATTT
1 ATATATATTTTAAAATATTT
*
36748654 ATATTTATTTTAAAATATTT
1 ATATATATTTTAAAATATTT
36748674 TAAATTTTTT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATATATTTTAAAATATTT
Found at i:36750575 original size:11 final size:11
Alignment explanation
Indices: 36750559--36750616 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 11
36750549 AAATTATATA
36750559 TTAAAATAAAT
1 TTAAAATAAAT
36750570 TTAAAATAAAT
1 TTAAAATAAAT
36750581 AATATATAAATCAAAAT
1 --T-TA-AAAT--AAAT
36750598 TTAAAATAAAT
1 TTAAAATAAAT
*
36750609 TAAAAATA
1 TTAAAATA
36750617 CGGTTAAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
11 22 0.55
13 5 0.12
14 4 0.10
15 5 0.12
17 4 0.10
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
TTAAAATAAAT
Found at i:36750990 original size:15 final size:15
Alignment explanation
Indices: 36750953--36751012 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
36750943 AACTAATATA
36750953 AATAATAAT-ACTAAT
1 AATAATAATAAC-AAT
* * *
36750968 AGTTATAATAACATT
1 AATAATAATAACAAT
36750983 AATAATAATAACAAT
1 AATAATAATAACAAT
36750998 AATAATGAA-AACAAT
1 AATAAT-AATAACAAT
36751013 TGAGTAATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:36751489 original size:248 final size:248
Alignment explanation
Indices: 36751051--36751550 Score: 982
Period size: 248 Copynumber: 2.0 Consensus size: 248
36751041 AATTGCAGTC
*
36751051 AAAACAGAATTAACAGGCCACAAATGTAGTTTAAAAAACGGAGGGACAAACTGCAATTCGCAAAT
1 AAAACAGAATTAACAGGCCACAAATGTAGTTTAAAAAACGGAGGGACAAACTACAATTCGCAAAT
*
36751116 TACGAGGGGGCCAGATCGGAAATTATTCCATCCCCCAAAACGCAGCGTAGTGAAGCGAACTAAAA
66 TACGAGGGGGCCAGATCGGAAATTATTCCATCCCCCAAAACGCAGCGCAGTGAAGCGAACTAAAA
36751181 TGAGACAAAAATAAAATGAAAAGTTAAATTTAAGAGGAAACAAAATATATAAAAAAAGTCAAATT
131 TGAGACAAAAATAAAATGAAAAGTTAAATTTAAGAGGAAACAAAATATATAAAAAAAGTCAAATT
36751246 GAAATACTATTGCAAGGTGGAGGGACCAGGGTTGCAAATAACCCAACTAACAA
196 GAAATACTATTGCAAGGTGGAGGGACCAGGGTTGCAAATAACCCAACTAACAA
36751299 AAAACAGAATTAACAGGCCACAAATGTAGTTTAAAAAACGGAGGGACAAACTACAATTCGCAAAT
1 AAAACAGAATTAACAGGCCACAAATGTAGTTTAAAAAACGGAGGGACAAACTACAATTCGCAAAT
36751364 TACGAGGGGGCCAGATCGGAAATTATTCCATCCCCCAAAACGCAGCGCAGTGAAGCGAACTAAAA
66 TACGAGGGGGCCAGATCGGAAATTATTCCATCCCCCAAAACGCAGCGCAGTGAAGCGAACTAAAA
36751429 TGAGACAAAAATAAAATGAAAAGTTAAATTTAAGAGGAAACAAAATATATAAAAAAAGTCAAATT
131 TGAGACAAAAATAAAATGAAAAGTTAAATTTAAGAGGAAACAAAATATATAAAAAAAGTCAAATT
36751494 GAAATACTATTGCAAGGTGGAGGGACCAGGGTTGCAAATAACCCAACTAACAA
196 GAAATACTATTGCAAGGTGGAGGGACCAGGGTTGCAAATAACCCAACTAACAA
36751547 AAAA
1 AAAA
36751551 AAGCGCGGAT
Statistics
Matches: 250, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
248 250 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.17
Consensus pattern (248 bp):
AAAACAGAATTAACAGGCCACAAATGTAGTTTAAAAAACGGAGGGACAAACTACAATTCGCAAAT
TACGAGGGGGCCAGATCGGAAATTATTCCATCCCCCAAAACGCAGCGCAGTGAAGCGAACTAAAA
TGAGACAAAAATAAAATGAAAAGTTAAATTTAAGAGGAAACAAAATATATAAAAAAAGTCAAATT
GAAATACTATTGCAAGGTGGAGGGACCAGGGTTGCAAATAACCCAACTAACAA
Found at i:36763722 original size:22 final size:23
Alignment explanation
Indices: 36763696--36763739 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
36763686 GTGATGAGGT
**
36763696 TATCTTGTGAATATGTT-AAATC
1 TATCTTGAAAATATGTTGAAATC
36763718 TATCTTGAAAATATGTTGAAAT
1 TATCTTGAAAATATGTTGAAAT
36763740 GGATTGGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (23 bp):
TATCTTGAAAATATGTTGAAATC
Found at i:36765829 original size:46 final size:46
Alignment explanation
Indices: 36765779--36765870 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
36765769 ACTTTCATAT
36765779 TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
1 TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
36765825 TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
1 TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
36765871 CTAAACCTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.48
Consensus pattern (46 bp):
TGTTTTCCATTGCTATGTTAATTTTCTTTACGGTGAGCATGTATAG
Found at i:36768053 original size:17 final size:17
Alignment explanation
Indices: 36768000--36768053 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
36767990 TTAAAAATTA
*
36768000 TAAAATAAA-T-AAAAA
1 TAAAATAAATTCAAAAT
36768015 TAAAATAAATTCAAAAT
1 TAAAATAAATTCAAAAT
* * *
36768032 AAAAATAAATTTAGAAT
1 TAAAATAAATTCAAAAT
36768049 TAAAA
1 TAAAA
36768054 AATATAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
15 9 0.28
16 1 0.03
17 22 0.69
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (17 bp):
TAAAATAAATTCAAAAT
Found at i:36768214 original size:31 final size:31
Alignment explanation
Indices: 36768155--36768219 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
36768145 CAACAATTTG
* *
36768155 ACTCTTTTTAAAAAGTTGATGGTCAAATTAA
1 ACTCTTTGTAAAAAGTTGATGCTCAAATTAA
*
36768186 ACTCTTTGTAAAAAGTTGAGTGCT-AAATTTA
1 ACTCTTTGTAAAAAGTTGA-TGCTCAAATTAA
36768217 ACT
1 ACT
36768220 TAAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (31 bp):
ACTCTTTGTAAAAAGTTGATGCTCAAATTAA
Found at i:36768417 original size:26 final size:24
Alignment explanation
Indices: 36768375--36768424 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
36768365 TATTTGTATT
36768375 TTTATATATTATATAAAGATTAAA
1 TTTATATATTATATAAAGATTAAA
* *
36768399 TTTATTATATTAATGTAAATATTAAA
1 TTTA-TATATT-ATATAAAGATTAAA
36768425 AAGTATGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 6 0.27
26 12 0.55
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
TTTATATATTATATAAAGATTAAA
Found at i:36769046 original size:17 final size:17
Alignment explanation
Indices: 36769024--36769056 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36769014 ATATTTAATA
36769024 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
36769041 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
36769057 TAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:36770222 original size:2 final size:2
Alignment explanation
Indices: 36770217--36770243 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36770207 TTTTTTTGGT
36770217 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
36770244 TATCTGGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:36779741 original size:25 final size:26
Alignment explanation
Indices: 36779690--36779770 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 26
36779680 ACATAAGGCC
* *
36779690 ATAACCGTCATTTCATCTCCTAG-GGGT
1 ATAACAGTCATTTTA-C-CCTAGAGGGT
*
36779717 ATAACAGTCATTTTATCCT-GAGGGT
1 ATAACAGTCATTTTACCCTAGAGGGT
** *
36779742 ATTTCGGTCATTTTACCCTAAGAGGGT
1 ATAACAGTCATTTTACCCT-AGAGGGT
36779769 AT
1 AT
36779771 TTCGATCATT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
24 1 0.02
25 22 0.50
27 21 0.48
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (26 bp):
ATAACAGTCATTTTACCCTAGAGGGT
Found at i:36779771 original size:27 final size:26
Alignment explanation
Indices: 36779723--36779928 Score: 144
Period size: 27 Copynumber: 7.4 Consensus size: 26
36779713 GGGTATAACA
* *
36779723 GTCATTTTATCCTGA-GGGTATTTCG
1 GTCATTTTACCCTAAGGGGTATTTCG
36779748 GTCATTTTACCCTAAGAGGGTATTTCG
1 GTCATTTTACCCTAAG-GGGTATTTCG
* * * *
36779775 ATCATTTTACCTTATGGGGGTATTTAG
1 GTCATTTTACCCTA-AGGGGTATTTCG
* *
36779802 GTCATTTTACCTTATAGGGATATTTCAGTTATTCG
1 GTCATTTTACCCTA-AGGG----GT-A--T-TTCG
* * *
36779837 GTCATTTTACCCTATGGGGGTGTTTCA
1 GTCATTTTACCCTA-AGGGGTATTTCG
* *
36779864 GTCATTTTATCCTATGGAGGTATTTCG
1 GTCATTTTACCCTAAGG-GGTATTTCG
*
36779891 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTA-AGGGGTATTTCG
*
36779918 GTTATTTTACC
1 GTCATTTTACC
36779929 TATTTTAGGG
Statistics
Matches: 145, Mismatches: 23, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
25 13 0.09
26 2 0.01
27 102 0.70
28 4 0.03
31 2 0.01
32 1 0.01
34 1 0.01
35 20 0.14
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (26 bp):
GTCATTTTACCCTAAGGGGTATTTCG
Found at i:36779806 original size:54 final size:53
Alignment explanation
Indices: 36779738--36779928 Score: 168
Period size: 54 Copynumber: 3.4 Consensus size: 53
36779728 TTTATCCTGA
* *
36779738 GGGTATTTCGGTCATTTTACCCTAAGAGGGTATTTCGATCATTTTACCTTATGG
1 GGGTATTTAGGTCATTTTACCCTAAG-GGGTATTTCGATCATTTTACCCTATGG
* *
36779792 GGGTATTTAGGTCATTTTACCTTATAGGGATATTTCAGTTATTCGGTCATTTTACCCTATGG
1 GGGTATTTAGGTCATTTTACCCTA-AGGGGTATTTC-G--A-----TCATTTTACCCTATGG
* * * * *
36779854 GGGTGTTTCA-GTCATTTTATCCTATGGAGGTATTTCGGTCATTTTACCCTATAG
1 GGGTATTT-AGGTCATTTTACCCTAAGG-GGTATTTCGATCATTTTACCCTATGG
* *
36779908 GGGTATTTTGGTTATTTTACC
1 GGGTATTTAGGTCATTTTACC
36779929 TATTTTAGGG
Statistics
Matches: 110, Mismatches: 15, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
54 61 0.55
55 3 0.03
57 1 0.01
61 3 0.03
62 41 0.37
63 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.43
Consensus pattern (53 bp):
GGGTATTTAGGTCATTTTACCCTAAGGGGTATTTCGATCATTTTACCCTATGG
Found at i:36779923 original size:89 final size:89
Alignment explanation
Indices: 36779744--36779915 Score: 249
Period size: 89 Copynumber: 1.9 Consensus size: 89
36779734 CTGAGGGTAT
*
36779744 TTCGGTCATTTTACCCTAAGAGGGTATTTCGATCATTTTACCTTATGGGGGTATTTAGGTCATTT
1 TTCGGTCATTTTACCCTAAGAGGGTATTTCGATCATTTTACCTTATGGAGGTATTTAGGTCATTT
*
36779809 TACCTTATAGGGATATTTCAGTTA
66 TACCCTATAGGGATATTTCAGTTA
* * * *
36779833 TTCGGTCATTTTACCCTATGGGGGTGTTTC-AGTCATTTTATCC-TATGGAGGTATTTCGGTCAT
1 TTCGGTCATTTTACCCTAAGAGGGTATTTCGA-TCATTTTA-CCTTATGGAGGTATTTAGGTCAT
*
36779896 TTTACCCTATAGGGGTATTT
64 TTTACCCTATAGGGATATTT
36779916 TGGTTATTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
88 1 0.01
89 71 0.96
90 2 0.03
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.43
Consensus pattern (89 bp):
TTCGGTCATTTTACCCTAAGAGGGTATTTCGATCATTTTACCTTATGGAGGTATTTAGGTCATTT
TACCCTATAGGGATATTTCAGTTA
Found at i:36785627 original size:43 final size:42
Alignment explanation
Indices: 36785560--36785730 Score: 197
Period size: 43 Copynumber: 4.0 Consensus size: 42
36785550 ACATAGGATT
* *
36785560 TCGATATGTGTTTTCGTGAAAGACCACGTCTGGGACGTTGGCA
1 TCGAT-TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
* *
36785603 TCGACTTGTGTTTACGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGA-TTGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
*
36785646 TCGTATT-TGATTT--GTGTAAGACCATGTCTGGGACAG-TGGCA
1 TCG-ATTGTG-TTTACGTGTAAGACCACGTCTGGGAC-GTTGGCA
* *
36785687 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGAT-TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
36785730 T
1 T
36785731 TGTACGACTC
Statistics
Matches: 111, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
40 2 0.02
41 32 0.29
42 5 0.05
43 70 0.63
44 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (42 bp):
TCGATTGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:36785920 original size:16 final size:17
Alignment explanation
Indices: 36785891--36785922 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
36785881 TGAATTGATG
36785891 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
36785908 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
36785923 TTGTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:36789645 original size:23 final size:23
Alignment explanation
Indices: 36789613--36789669 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
36789603 AAACACTCCA
*
36789613 CAGAATGAATCACACCATAGTGC
1 CAGAATGAATCACACCAAAGTGC
* *
36789636 CAGAAAGAATTCGCACCAAAGTGC
1 CAGAATGAA-TCACACCAAAGTGC
*
36789660 TAGAATGAAT
1 CAGAATGAAT
36789670 TACATTGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (23 bp):
CAGAATGAATCACACCAAAGTGC
Found at i:36798395 original size:6 final size:6
Alignment explanation
Indices: 36798386--36798474 Score: 72
Period size: 6 Copynumber: 14.5 Consensus size: 6
36798376 TAAGCCTAAG
* * *
36798386 AAAATA AAAATAA AACAACTA AAAATA AAAATA AACATA AACATA AACAT-
1 AAAATA AAAAT-A AA-AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
* * * * *
36798436 AAAATA AAACTA AAACTA AAACTA AAACTA AAAAGA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
36798475 CAAATAAAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
5 4 0.05
6 59 0.80
7 5 0.07
8 5 0.07
9 1 0.01
ACGTcount: A:0.74, C:0.10, G:0.01, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:36800017 original size:3 final size:3
Alignment explanation
Indices: 36800002--36800096 Score: 56
Period size: 3 Copynumber: 32.7 Consensus size: 3
36799992 CAAATAATGA
* * *
36800002 AAT AAT CAT AAT AAT AAT AGT AA- AA- AAT AAT AAT AA- GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
36800047 AAT AA- AGCT AAG AAA AAT AA- AAC AACC AAG AAT AAT AAT AAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
36800092 AAT AA
1 AAT AA
36800097 ATAGATAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
2 8 0.11
3 61 0.84
4 4 0.05
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:36800256 original size:5 final size:5
Alignment explanation
Indices: 36800246--36800299 Score: 71
Period size: 5 Copynumber: 11.4 Consensus size: 5
36800236 TAAGCATAGG
36800246 AATAA AAT-A AAT-A AATAA AATTAA AAT-- AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AA-TAA AATAA AATAA AATAA AATAA AATAA
36800293 AATAA AA
1 AATAA AA
36800300 AATAGGGCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
3 3 0.07
4 8 0.18
5 29 0.64
6 5 0.11
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:36800270 original size:19 final size:18
Alignment explanation
Indices: 36800246--36800298 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 18
36800236 TAAGCATAGG
36800246 AATAAAATAAATAAATAA
1 AATAAAATAAATAAATAA
36800264 AATTAAAAT-AATAAAATAA
1 AA-TAAAATAAAT-AAATAA
36800283 AATAAAATAAAATAAA
1 AATAAAAT-AAATAAA
36800299 AAATAGGGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 11 0.35
19 17 0.55
20 3 0.10
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAAATAAATAAATAA
Found at i:36800282 original size:23 final size:21
Alignment explanation
Indices: 36800254--36800303 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 21
36800244 GGAATAAAAT
36800254 AAATAAATAAAATTAAAATAATA
1 AAATAAATAAAA-TAAAATAA-A
36800277 AAATAAAATAAAATAAAATAAA
1 AAAT-AAATAAAATAAAATAAA
36800299 AAATA
1 AAATA
36800304 GGGCAAGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 1 0.04
22 5 0.19
23 12 0.46
24 8 0.31
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAAATAAAATAAAATAAA
Found at i:36805975 original size:61 final size:59
Alignment explanation
Indices: 36805899--36806012 Score: 149
Period size: 58 Copynumber: 1.9 Consensus size: 59
36805889 ACTGTTTAAT
***
36805899 TATAAGTTAATAAAAATAAAAATAAATAATTTAATCTTATT-TTAATATAATTATTATTACA
1 TATAAGTTAATAAAAAT---AATAAATAATTTAATAACATTCTTAATATAATTATTATTACA
* *
36805960 TATAATTTAATAAAAATAATATATAATTTAATAACATTCTTAATATAATTATT
1 TATAAGTTAATAAAAATAATAAATAATTTAATAACATTCTTAATATAATTATT
36806013 TTTATATTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 17 0.36
59 14 0.30
61 16 0.34
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (59 bp):
TATAAGTTAATAAAAATAATAAATAATTTAATAACATTCTTAATATAATTATTATTACA
Found at i:36806045 original size:33 final size:33
Alignment explanation
Indices: 36806008--36806072 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
36805998 CTTAATATAA
36806008 TTATTTTTATATTAAATTATATTAAAAGATTTT
1 TTATTTTTATATTAAATTATATTAAAAGATTTT
*
36806041 TTATTTTTATATTAAATTATATTAAAATATTT
1 TTATTTTTATATTAAATTATATTAAAAGATTT
36806073 AATTTACTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (33 bp):
TTATTTTTATATTAAATTATATTAAAAGATTTT
Found at i:36809427 original size:16 final size:16
Alignment explanation
Indices: 36809406--36809445 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
36809396 CGTTTGATTC
36809406 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
36809422 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
36809438 GTTGTAAT
1 GCTGTAAT
36809446 AGTAATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:36809491 original size:45 final size:44
Alignment explanation
Indices: 36809427--36809519 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
36809417 ATAGAGCTGT
**
36809427 AATGGAATAGAGTTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
36809472 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
36809516 AATG
1 AATG
36809520 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.52
45 20 0.45
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:36809528 original size:39 final size:41
Alignment explanation
Indices: 36809427--36809531 Score: 110
Period size: 44 Copynumber: 2.5 Consensus size: 41
36809417 ATAGAGCTGT
36809427 AATGGAATAGA-GTTGTAATAGTAATTCAATTGTTTGGTTG
1 AATGGAATAGATGTTGTAATAGTAATTCAATTGTTTGGTTG
* * *
36809467 AATGGAATGGAATAGAACTGTAATAGT-ATTC-TTGTGTTTGGTTG
1 AATGGAATAG-AT-G--TTGTAATAGTAATTCAAT-TGTTTGGTTG
36809511 AATGGAAT-GATGTTGTAATAG
1 AATGGAATAGATGTTGTAATAG
36809532 CATAAGGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
39 8 0.15
40 9 0.16
41 2 0.04
42 2 0.04
43 3 0.05
44 22 0.40
45 9 0.16
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (41 bp):
AATGGAATAGATGTTGTAATAGTAATTCAATTGTTTGGTTG
Found at i:36809794 original size:120 final size:120
Alignment explanation
Indices: 36809663--36810133 Score: 851
Period size: 120 Copynumber: 4.0 Consensus size: 120
36809653 ATATTGTAAC
36809663 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
36809728 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
36809783 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* *
36809848 TTTTATATGAATTTACTAAAATTATAATATATAATACTATAAAATATAATTTAAA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
*
36809903 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
*
36809968 TCTTATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
* *
36810023 ATAATCATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAA-T-TTAATA-TAATTAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
*
36810085 TCTTATATGAATTTATTAAAATCATAATATATAATACTATAAAA-ATAAT
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAAT
36810134 ATATAATCTA
Statistics
Matches: 341, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
116 5 0.01
117 48 0.14
118 6 0.02
119 1 0.00
120 281 0.82
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAA
Found at i:36809799 original size:26 final size:26
Alignment explanation
Indices: 36809769--36809927 Score: 85
Period size: 26 Copynumber: 6.5 Consensus size: 26
36809759 TAATACTATA
36809769 AAATATAATTTAAAATAATTATTATT
1 AAATATAATTTAAAATAATTATTATT
*
36809795 AAATATAATTTAATAA-AAATA-TA-T
1 AAATATAATTTAA-AATAATTATTATT
* ** *
36809819 -AATTTAA--TAAAATTCTTAATATT
1 AAATATAATTTAAAATAATTATTATT
* * *
36809842 AAATAT--TTTTATATGAA-T-TTACTA
1 AAATATAATTTAAAAT-AATTATTA-TT
* * *
36809866 AAATTATAA--T-ATATAA-TACTATA
1 AAA-TATAATTTAAAATAATTATTATT
36809889 AAATATAATTTAAAATAATTATTATT
1 AAATATAATTTAAAATAATTATTATT
36809915 AAATATAATTTAA
1 AAATATAATTTAA
36809928 TAAAAATATA
Statistics
Matches: 100, Mismatches: 16, Indels: 34
0.67 0.11 0.23
Matches are distributed among these distances:
20 2 0.02
21 5 0.05
22 7 0.07
23 17 0.17
24 21 0.21
25 11 0.11
26 35 0.35
27 2 0.02
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (26 bp):
AAATATAATTTAAAATAATTATTATT
Found at i:36809963 original size:15 final size:17
Alignment explanation
Indices: 36809943--36809977 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
36809933 ATATATAATT
36809943 TAATAAA-ATTCTTA-A
1 TAATAAATATTCTTATA
36809958 TAATAAATATTCTTATA
1 TAATAAATATTCTTATA
36809975 TAA
1 TAA
36809978 ATTTACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 7 0.39
17 4 0.22
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATAAATATTCTTATA
Found at i:36810072 original size:10 final size:10
Alignment explanation
Indices: 36810036--36810082 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
36810026 ATCATTATTA
36810036 AATATAATTT
1 AATATAATTT
**
36810046 AATA-AAAAT
1 AATATAATTT
36810055 -ATATAATTT
1 AATATAATTT
*
36810064 AATAAAATTT
1 AATATAATTT
36810074 AATATAATT
1 AATATAATT
36810083 ATTCTTATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
8 3 0.10
9 6 0.21
10 20 0.69
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
AATATAATTT
Found at i:36811594 original size:49 final size:49
Alignment explanation
Indices: 36811522--36811625 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
36811512 GAAAAAAAAC
* * *
36811522 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
36811571 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
36811620 AAATTA
1 AAATTA
36811626 TAACACATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATA
Found at i:36814062 original size:41 final size:41
Alignment explanation
Indices: 36814012--36814185 Score: 142
Period size: 41 Copynumber: 4.2 Consensus size: 41
36814002 ATTTATAGAA
* **
36814012 CATAGAGCCTTGTATAAAACACCGGCATAAAGCCTGCTAGG
1 CATAAAGCCTTGTATAATTCACCGGCATAAAGCCTGCTAGG
* * *
36814053 CACAAAGCC-TG-ATACATTTCACCGGCACAAAGCCTGCTAGA
1 CATAAAGCCTTGTATA-A-TTCACCGGCATAAAGCCTGCTAGG
* * *
36814094 CATAAAG-TTTGATATAATTCATCGGCACT-GAGCCTGCTAGG
1 CATAAAGCCTTG-TATAATTCACCGGCA-TAAAGCCTGCTAGG
* * * *
36814135 CATAAAGCC-TGATGTAATTCACCGACATCAAGTCTGCTAGG
1 CATAAAGCCTTG-TATAATTCACCGGCATAAAGCCTGCTAGG
*
36814176 CATTAAGCCT
1 CATAAAGCCT
36814186 GAAAATCTCA
Statistics
Matches: 105, Mismatches: 19, Indels: 17
0.74 0.13 0.12
Matches are distributed among these distances:
39 3 0.03
40 4 0.04
41 94 0.90
42 1 0.01
43 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (41 bp):
CATAAAGCCTTGTATAATTCACCGGCATAAAGCCTGCTAGG
Found at i:36814524 original size:21 final size:22
Alignment explanation
Indices: 36814485--36814529 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
36814475 CAAAGAACTT
36814485 ATATCATACATTCAAACTTTAA
1 ATATCATACATTCAAACTTTAA
36814507 ATAT-ATA-ATTCATAACTTTAA
1 ATATCATACATTCA-AACTTTAA
36814528 AT
1 AT
36814530 TCAATTCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.23
21 13 0.59
22 4 0.18
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATCATACATTCAAACTTTAA
Found at i:36814537 original size:19 final size:21
Alignment explanation
Indices: 36814490--36814538 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
36814480 AACTTATATC
36814490 ATAC-ATTCA-AACTTTAAAT
1 ATACAATTCATAACTTTAAAT
*
36814509 ATATAATTCATAACTTTAAAT
1 ATACAATTCATAACTTTAAAT
36814530 -T-CAATTCAT
1 ATACAATTCAT
36814539 GAAATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 10 0.38
20 6 0.23
21 10 0.38
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (21 bp):
ATACAATTCATAACTTTAAAT
Found at i:36817523 original size:16 final size:16
Alignment explanation
Indices: 36817504--36817539 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
36817494 AAATTGGAAA
36817504 ATTAAAAATAAAAAAT
1 ATTAAAAATAAAAAAT
36817520 ATTAAAAATAAAAAAT
1 ATTAAAAATAAAAAAT
36817536 -TTAA
1 ATTAA
36817540 TTTAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATTAAAAATAAAAAAT
Found at i:36819160 original size:78 final size:78
Alignment explanation
Indices: 36819016--36819162 Score: 195
Period size: 78 Copynumber: 1.9 Consensus size: 78
36819006 GGGGTTGACA
* * * **
36819016 AGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAGGCAGTGACA
1 AGGACTGAATTTGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAGACAGCAACA
36819081 CTCGGGGTTAATG
66 CTCGGGGTTAATG
* * * * * *
36819094 AGGACTGAATTTGTAATGGTGATTCTATCTTATTTGGCTTAGCTTCCTTTGGTAAGATAGCAACA
1 AGGACTGAATTTGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAGACAGCAACA
36819159 CTCG
66 CTCG
36819163 AAACTTGCAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 58 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (78 bp):
AGGACTGAATTTGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCCATTGATAAGACAGCAACA
CTCGGGGTTAATG
Found at i:36824156 original size:25 final size:25
Alignment explanation
Indices: 36824115--36824162 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
36824105 GGGTCGGAAC
*
36824115 GGGCTCGGGCTTAACAATTTTTTTT
1 GGGCTCGGGCTTAACAAATTTTTTT
*
36824140 GGGC-CGGGCTTGGACAAATTTTT
1 GGGCTCGGGCTT-AACAAATTTTT
36824163 AGGCCCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.17, C:0.17, G:0.29, T:0.38
Consensus pattern (25 bp):
GGGCTCGGGCTTAACAAATTTTTTT
Found at i:36829164 original size:14 final size:15
Alignment explanation
Indices: 36829136--36829172 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
36829126 GTTATTTTAA
*
36829136 TTAATTTGA-TTAGT
1 TTAATTTAACTTAGT
36829150 TT-ATTTAACTTAGT
1 TTAATTTAACTTAGT
36829164 TTAATTTAA
1 TTAATTTAA
36829173 TTTCTATAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 9 0.45
15 6 0.30
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (15 bp):
TTAATTTAACTTAGT
Found at i:36840267 original size:28 final size:23
Alignment explanation
Indices: 36840212--36840255 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
36840202 GGTAATAGAA
36840212 AGTAAATAAATTAGGGGCACTCC
1 AGTAAATAAATTAGGGGCACTCC
36840235 AGTAAATAAATTAGGGGCACT
1 AGTAAATAAATTAGGGGCACT
36840256 TCGCTGCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (23 bp):
AGTAAATAAATTAGGGGCACTCC
Found at i:36848108 original size:29 final size:29
Alignment explanation
Indices: 36848064--36848120 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
36848054 CTGTCTTCTC
*
36848064 CCCCAAACGTTTTTTCCCCTCTGCTGGTT
1 CCCCAAACGTTCTTTCCCCTCTGCTGGTT
36848093 CCCCAAACGTTCTTTCCCCTCTGCTGGT
1 CCCCAAACGTTCTTTCCCCTCTGCTGGT
36848121 GAAATTGGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.11, C:0.40, G:0.14, T:0.35
Consensus pattern (29 bp):
CCCCAAACGTTCTTTCCCCTCTGCTGGTT
Found at i:36849921 original size:16 final size:16
Alignment explanation
Indices: 36849900--36849933 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
36849890 CAACTTTGTG
36849900 TGATTCTCATCCTTAT
1 TGATTCTCATCCTTAT
36849916 TGATTCTCATCCTTAT
1 TGATTCTCATCCTTAT
36849932 TG
1 TG
36849934 CAAGTGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.24, G:0.09, T:0.50
Consensus pattern (16 bp):
TGATTCTCATCCTTAT
Found at i:36850805 original size:19 final size:19
Alignment explanation
Indices: 36850760--36850820 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
36850750 ATCTAACTAC
36850760 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
36850781 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
36850800 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
36850819 AA
1 AA
36850821 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:36851068 original size:13 final size:13
Alignment explanation
Indices: 36851047--36851110 Score: 85
Period size: 13 Copynumber: 4.9 Consensus size: 13
36851037 ACACTCAAAT
36851047 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
36851060 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
36851073 TTTTCCACAA-CAC
1 TTTT-CAAAAGCAC
36851086 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
36851099 TTTTCAAAAGCA
1 TTTTCAAAAGCA
36851111 ATGAAGAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
12 4 0.09
13 35 0.81
14 4 0.09
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:36852780 original size:52 final size:54
Alignment explanation
Indices: 36852715--36852832 Score: 145
Period size: 54 Copynumber: 2.2 Consensus size: 54
36852705 CTCAAGTAAA
* * *
36852715 AGAGTTACACGGTCT-G-GCACAAGGCTTGACACGC-T-TGTGAGACTCCAGTCAG
1 AGAGTTACACGGTCTAGCGCAC-A-GCTTGACACACATCTGTGAGACTCAAGCCAG
* *
36852767 AGAGTTACTCGGTCTAGCGCACAGCTTGACACACATCTGTGTGACTCAAGCCAG
1 AGAGTTACACGGTCTAGCGCACAGCTTGACACACATCTGTGAGACTCAAGCCAG
36852821 AGAGTTACACGG
1 AGAGTTACACGG
36852833 CTTGACACAC
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
52 24 0.43
53 3 0.05
54 29 0.52
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.21
Consensus pattern (54 bp):
AGAGTTACACGGTCTAGCGCACAGCTTGACACACATCTGTGAGACTCAAGCCAG
Found at i:36852823 original size:54 final size:52
Alignment explanation
Indices: 36852699--36852832 Score: 155
Period size: 52 Copynumber: 2.5 Consensus size: 52
36852689 TCACATTGTC
* * *
36852699 GTGTGACTCAAGTAAAAGAGTTACACGGTCTGGCACAAGGCTTGACACGCTT
1 GTGTGACTCAAGTCAGAGAGTTACACGGTCTGGCACAAGGCTTGACACACTT
* * *
36852751 GTGAGACTCCAGTCAGAGAGTTACTCGGTCTAGCGCAC-A-GCTTGACACACATCT
1 GTGTGACTCAAGTCAGAGAGTTACACGGTCT-G-GCACAAGGCTTGACACAC-T-T
*
36852805 GTGTGACTCAAGCCAGAGAGTTACACGG
1 GTGTGACTCAAGTCAGAGAGTTACACGG
36852833 CTTGACACAC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
52 36 0.53
53 3 0.04
54 29 0.43
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.22
Consensus pattern (52 bp):
GTGTGACTCAAGTCAGAGAGTTACACGGTCTGGCACAAGGCTTGACACACTT
Found at i:36862984 original size:108 final size:108
Alignment explanation
Indices: 36862792--36863023 Score: 279
Period size: 108 Copynumber: 2.1 Consensus size: 108
36862782 CACGGATTGT
* * * *
36862792 CACACGGCCTAACATATAGTCGTGTGACTCAAGTTAGAGAGTTAGATAGTCTGACACATGGCCTG
1 CACACGGCCTAACACATAGTCGTGTGACTCAAGTCAAAGAGTTAGACAGTCTGACACATGGCCTG
* * *
36862857 ACACACGCCCGTGTGACTCAAGTCAAAGAGTTACACAGTCTAA
66 ACACACACCCGTCTAACTCAAGTCAAAGAGTTACACAGTCTAA
* * *
36862900 CACACGGCCTGACACAT-GCTCGTGTGACTCAAGTCAAAGAGTTATACGGTCT-AGCACATGGCC
1 CACACGGCCTAACACATAG-TCGTGTGACTCAAGTCAAAGAGTTAGACAGTCTGA-CACATGGCC
* * * **
36862963 TGACACATACCCGTCTAACTCAAGTCAGAGAGTTACACGGTCTGG
64 TGACACACACCCGTCTAACTCAAGTCAAAGAGTTACACAGTCTAA
* *
36863008 CATAGGGCCTAACACA
1 CACACGGCCTAACACA
36863024 CGGCTGTGTT
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
107 2 0.02
108 102 0.98
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.21
Consensus pattern (108 bp):
CACACGGCCTAACACATAGTCGTGTGACTCAAGTCAAAGAGTTAGACAGTCTGACACATGGCCTG
ACACACACCCGTCTAACTCAAGTCAAAGAGTTACACAGTCTAA
Found at i:36863023 original size:54 final size:54
Alignment explanation
Indices: 36862812--36863005 Score: 244
Period size: 54 Copynumber: 3.6 Consensus size: 54
36862802 AACATATAGT
* * * * * *
36862812 CGTGTGACTCAAGTTAGAGAGTTAGATAGTCTGACACATGGCCTGACACACGCC
1 CGTGTGACTCAAGTCAAAGAGTTACACAGTCTAACACATGGCCTGACACATGCC
* *
36862866 CGTGTGACTCAAGTCAAAGAGTTACACAGTCTAACACACGGCCTGACACATGCT
1 CGTGTGACTCAAGTCAAAGAGTTACACAGTCTAACACATGGCCTGACACATGCC
* * * *
36862920 CGTGTGACTCAAGTCAAAGAGTTATACGGTCTAGCACATGGCCTGACACATACC
1 CGTGTGACTCAAGTCAAAGAGTTACACAGTCTAACACATGGCCTGACACATGCC
* * * *
36862974 CGTCTAACTCAAGTCAGAGAGTTACACGGTCT
1 CGTGTGACTCAAGTCAAAGAGTTACACAGTCT
36863006 GGCATAGGGC
Statistics
Matches: 122, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 122 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (54 bp):
CGTGTGACTCAAGTCAAAGAGTTACACAGTCTAACACATGGCCTGACACATGCC
Found at i:36865880 original size:51 final size:50
Alignment explanation
Indices: 36865818--36865999 Score: 154
Period size: 51 Copynumber: 3.6 Consensus size: 50
36865808 GTTCACATAG
* * *
36865818 TAGCCTACACATAGTACTACACATGTGACCATTTTCATCCGATACATGTAA
1 TAGCCTGCACATAGTACTACACACGTGACCA-TATCATCCGATACATGTAA
* * ** * *** *
36865869 TAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATTTGGTACGCATAG
1 TAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCCGATACATGTAA
* * * *
36865920 TAGCCTGCACATAGTACTAGACATGCGACC-TATCATTCC-AGTACATGTAT
1 TAGCCTGCACATAGTACTACACACGTGACCATATCA-TCCGA-TACATGTAA
36865970 TAGCCTGCACATAGTACTACACACGTGACC
1 TAGCCTGCACATAGTACTACACACGTGACC
36866000 TAGCAACTTC
Statistics
Matches: 99, Mismatches: 27, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
49 1 0.01
50 37 0.37
51 59 0.60
52 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGCCTGCACATAGTACTACACACGTGACCATATCATCCGATACATGTAA
Found at i:36865989 original size:101 final size:101
Alignment explanation
Indices: 36865813--36865997 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 101
36865803 ACCCGGTTCA
* *
36865813 CATAGTAGCCTACACATAGTACTACACATGTGACCATTTTCATCCGATACATGTAATAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TATCATCCGATACATGTAATAGCCTGCA
36865878 CATAGTACTACACACGTGATCGAAGCTATTTGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATTTGGTACG
* * *
36865915 CATAGTAGCCTGCACATAGTACTAGACATGCGACC-TATCATTCC-AGTACATGTATTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATATCA-TCCGA-TACATGTAATAGCCTGC
36865978 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
36865998 CCTAGCAACT
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 5 0.07
101 39 0.51
102 32 0.42
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATATCATCCGATACATGTAATAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATTTGGTACG
Found at i:36872309 original size:89 final size:90
Alignment explanation
Indices: 36872152--36872318 Score: 230
Period size: 90 Copynumber: 1.9 Consensus size: 90
36872142 CTTTTTTTTG
* * * * *
36872152 CACTTAATTGAGCACTTGAACTTTCAAAATGCATCAAAAAGGCCTTCAAGCTTCTCCAAAAAAAG
1 CACTTAATTGAGCACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAGATTCTCCAAAAAAAG
36872217 CAATTAAGCCCCTACTTTTTCCCCC
66 CAATTAAGCCCCTACTTTTTCCCCC
* * * *
36872242 CACTTAATTGGGTACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAA-ATTGTTTC-AAAAAA
1 CACTTAATTGAGCACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAGATT-CTCCAAAAAAA
36872305 GCAATTAAGCCCCT
65 GCAATTAAGCCCCT
36872319 GCTCTTATTA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
89 22 0.33
90 45 0.67
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (90 bp):
CACTTAATTGAGCACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAGATTCTCCAAAAAAAG
CAATTAAGCCCCTACTTTTTCCCCC
Found at i:36872421 original size:19 final size:20
Alignment explanation
Indices: 36872394--36872431 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
36872384 AATATAAAAA
36872394 ATAAATTTTGT-TAAAAATT
1 ATAAATTTTGTGTAAAAATT
* *
36872413 ATAATTTTTTTGTAAAAAT
1 ATAAATTTTGTGTAAAAAT
36872432 CGTAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATAAATTTTGTGTAAAAATT
Found at i:36872691 original size:29 final size:28
Alignment explanation
Indices: 36872658--36872746 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 28
36872648 TTACATTTTG
36872658 TATAATTTTCTTATGACTTTATAAAATTT
1 TATAATTTT-TTATGACTTTATAAAATTT
* *
36872687 TATAATTTTTTTTAT-A-TTTCTATATATTT
1 TATAA--TTTTTTATGACTTTATA-AAATTT
* * *
36872716 TATAAATTTTTACGACATTTATAAATTTT
1 TATAATTTTTTATGAC-TTTATAAAATTT
36872745 TA
1 TA
36872747 AAATATTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
27 6 0.13
28 6 0.13
29 22 0.47
30 9 0.19
31 4 0.09
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (28 bp):
TATAATTTTTTATGACTTTATAAAATTT
Found at i:36872724 original size:19 final size:18
Alignment explanation
Indices: 36872675--36872790 Score: 92
Period size: 19 Copynumber: 6.1 Consensus size: 18
36872665 TTCTTATGAC
*
36872675 TTTATAAAATTTTATAATTT
1 TTTAT-AAATTTT-TAATAT
* * *
36872695 TTTTTATATTTCTATATAT
1 TTTATAAATTTTTA-ATAT
*
36872714 TTTATAAATTTTTACGACA-
1 TTTATAAATTTTTA--ATAT
*
36872733 TTTATAAATTTTTAAAAT
1 TTTATAAATTTTTAATAT
36872751 ATTTATAAATTTTTAA-ATT
1 -TTTATAAATTTTTAATA-T
36872770 TTTAATAAATTTTTAATAT
1 TTT-ATAAATTTTTAATAT
36872789 TT
1 TT
36872791 GAATTTTTTA
Statistics
Matches: 79, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
17 2 0.03
18 6 0.08
19 64 0.81
20 7 0.09
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.59
Consensus pattern (18 bp):
TTTATAAATTTTTAATAT
Found at i:36872748 original size:8 final size:8
Alignment explanation
Indices: 36872712--36872774 Score: 54
Period size: 8 Copynumber: 7.0 Consensus size: 8
36872702 ATTTCTATAT
36872712 ATTTTATAA
1 ATTTT-TAA
36872721 ATTTTTACGA
1 ATTTTTA--A
*
36872731 CATTTATAA
1 -ATTTTTAA
36872740 ATTTTTAAA
1 ATTTTT-AA
36872749 ATATTTATAA
1 AT-TTT-TAA
36872759 ATTTTTAA
1 ATTTTTAA
36872767 ATTTTTAA
1 ATTTTTAA
36872775 TAAATTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
8 18 0.39
9 13 0.28
10 8 0.17
11 7 0.15
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (8 bp):
ATTTTTAA
Found at i:36872781 original size:27 final size:26
Alignment explanation
Indices: 36872732--36872798 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
36872722 TTTTTACGAC
*
36872732 ATTTATAAATTTTTAAAATATTTATAA
1 ATTTTTAAATTTTTAAAATATTT-TAA
*
36872759 ATTTTTAAATTTTTAATAA-ATTTTTA
1 ATTTTTAAATTTTTAA-AATATTTTAA
* *
36872785 ATATTTGAATTTTT
1 ATTTTTAAATTTTT
36872799 TATTAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.40
27 19 0.54
28 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (26 bp):
ATTTTTAAATTTTTAAAATATTTTAA
Found at i:36872787 original size:11 final size:10
Alignment explanation
Indices: 36872675--36872784 Score: 79
Period size: 10 Copynumber: 11.4 Consensus size: 10
36872665 TTCTTATGAC
*
36872675 TTTATAAAAT
1 TTTATAAATT
*
36872685 TTTATAATTT
1 TTTATAAATT
* *
36872695 TTTTTATATT
1 TTTATAAATT
* *
36872705 TCTATATA-T
1 TTTATAAATT
36872714 TTTATAAATT
1 TTTATAAATT
* *
36872724 TTTACGACA--
1 TTTA-TAAATT
36872733 TTTATAAATT
1 TTTATAAATT
*
36872743 TTTA-AAATA
1 TTTATAAATT
36872752 TTTATAAA-T
1 TTTATAAATT
36872761 TTT-TAAATT
1 TTTATAAATT
36872770 TTTAATAAATT
1 TTT-ATAAATT
36872781 TTTA
1 TTTA
36872785 ATATTTGAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
8 6 0.08
9 26 0.34
10 34 0.44
11 11 0.14
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (10 bp):
TTTATAAATT
Found at i:36876324 original size:12 final size:13
Alignment explanation
Indices: 36876307--36876344 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
36876297 CAAAATAAAT
36876307 ATTAATT-AATTA
1 ATTAATTAAATTA
36876319 ATTAATTAAATTA
1 ATTAATTAAATTA
*
36876332 ACTAAATTAAATT
1 A-TTAATTAAATT
36876345 CTCAATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 7 0.30
13 6 0.26
14 10 0.43
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTAATTAAATTA
Found at i:36878899 original size:20 final size:20
Alignment explanation
Indices: 36878876--36878914 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
36878866 CAGGGGTAAT
*
36878876 TACGTGCAGTCAGGTGCACA
1 TACGTGCAGTCAGGGGCACA
36878896 TACGTGCAGTCAGGGGCAC
1 TACGTGCAGTCAGGGGCAC
36878915 CGAAGTGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.26, G:0.33, T:0.18
Consensus pattern (20 bp):
TACGTGCAGTCAGGGGCACA
Found at i:36878994 original size:20 final size:19
Alignment explanation
Indices: 36878971--36879021 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
36878961 GTATATAAGG
36878971 GCACTGAAGTGCAAATAGGA
1 GCACTGAAGTGCAAATA-GA
* *
36878991 GCACAGTAGTGCAAATAGA
1 GCACTGAAGTGCAAATAGA
36879010 GACACTGAAGTG
1 G-CACTGAAGTG
36879022 TATACAGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.39, C:0.16, G:0.29, T:0.16
Consensus pattern (19 bp):
GCACTGAAGTGCAAATAGA
Found at i:36880187 original size:20 final size:20
Alignment explanation
Indices: 36880162--36880199 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36880152 ACATTCAAAA
36880162 TACCATAATCACAA-CCAAGT
1 TACCATAA-CACAAGCCAAGT
36880182 TACCATAACACAAGCCAA
1 TACCATAACACAAGCCAA
36880200 ACCATATGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.47, C:0.32, G:0.05, T:0.16
Consensus pattern (20 bp):
TACCATAACACAAGCCAAGT
Found at i:36881339 original size:34 final size:34
Alignment explanation
Indices: 36881292--36881359 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
36881282 CCTGTACATG
** *
36881292 TATGCTCATATGAGCTGTGAATTGGTATGCTCAC
1 TATGCTCATATGAGCTGCAAAATGGTATGCTCAC
36881326 TATGCTC-TCATGAGCTGCAAAATGGTATGCTCAC
1 TATGCTCAT-ATGAGCTGCAAAATGGTATGCTCAC
36881360 ACGAGCTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 1 0.03
34 29 0.97
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (34 bp):
TATGCTCATATGAGCTGCAAAATGGTATGCTCAC
Found at i:36881354 original size:25 final size:25
Alignment explanation
Indices: 36881326--36881385 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
36881316 GTATGCTCAC
*
36881326 TATGCTCTCATGAGCTGCAAAAT-GG
1 TATGCTCTCACGAGCTG-AAAATCGG
* * *
36881351 TATGCTCACACGAGCTGTAGATCGG
1 TATGCTCTCACGAGCTGAAAATCGG
36881376 TATGCTCTCA
1 TATGCTCTCA
36881386 AGAGTTGTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 3 0.10
25 26 0.90
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (25 bp):
TATGCTCTCACGAGCTGAAAATCGG
Found at i:36885350 original size:3 final size:3
Alignment explanation
Indices: 36885342--36885375 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
36885332 CTTATGGCAT
*
36885342 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
36885376 AAATTGAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:36887711 original size:15 final size:15
Alignment explanation
Indices: 36887682--36887725 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
36887672 TTATCCCAAT
36887682 CAAATAAAG-AAAAA
1 CAAATAAAGCAAAAA
36887696 CAAATAAAGCAAAAA
1 CAAATAAAGCAAAAA
* * *
36887711 CGATTAAATCAAAAA
1 CAAATAAAGCAAAAA
36887726 AACTAATGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.70, C:0.11, G:0.07, T:0.11
Consensus pattern (15 bp):
CAAATAAAGCAAAAA
Found at i:36900388 original size:13 final size:13
Alignment explanation
Indices: 36900370--36900412 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
36900360 TAGATTTTTC
36900370 CTAAATATTATCA
1 CTAAATATTATCA
36900383 CTAAATA--ATC-
1 CTAAATATTATCA
36900393 CTAAATATTATCA
1 CTAAATATTATCA
36900406 CTAAATA
1 CTAAATA
36900413 ATATAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:36900396 original size:23 final size:23
Alignment explanation
Indices: 36900368--36900414 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
36900358 GCTAGATTTT
36900368 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
36900391 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
36900414 T
1 T
36900415 ATAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:36900421 original size:23 final size:23
Alignment explanation
Indices: 36900371--36900419 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
36900361 AGATTTTTCC
*
36900371 TAAATATTATCACTAAATAATCC
1 TAAATATTATCACTAAATAATCA
36900394 TAAATATTATCACTAAATAAT-A
1 TAAATATTATCACTAAATAATCA
36900416 TAAA
1 TAAA
36900420 ATTTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATATTATCACTAAATAATCA
Found at i:36913841 original size:17 final size:17
Alignment explanation
Indices: 36913796--36913846 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
36913786 ACCGTAAAAC
36913796 ATTTATTATTAATATAT
1 ATTTATTATTAATATAT
36913813 -TTATAATT-TTAATATAT
1 ATT-T-ATTATTAATATAT
*
36913830 ATTTATTATTAAAATAT
1 ATTTATTATTAATATAT
36913847 TAATATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
16 5 0.17
17 19 0.66
18 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTATTATTAATATAT
Found at i:36913845 original size:19 final size:19
Alignment explanation
Indices: 36913807--36913846 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36913797 TTTATTATTA
**
36913807 ATATATTTATAATTTTAAT
1 ATATATTTATAATTAAAAT
*
36913826 ATATATTTATTATTAAAAT
1 ATATATTTATAATTAAAAT
36913845 AT
1 AT
36913847 TAATATATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATATTTATAATTAAAAT
Found at i:36913908 original size:15 final size:16
Alignment explanation
Indices: 36913888--36913918 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36913878 TTATTTAAAC
36913888 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
36913903 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
36913919 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:36921756 original size:19 final size:18
Alignment explanation
Indices: 36921712--36921756 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
36921702 ATGTCGTTCG
36921712 TTTCCAAAACATTATTCA
1 TTTCCAAAACATTATTCA
* *
36921730 TTTACAAATCATTATTCAA
1 TTTCCAAAACATTATTC-A
36921749 TTTCCAAA
1 TTTCCAAA
36921757 CTTTTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTCCAAAACATTATTCA
Found at i:36922036 original size:16 final size:16
Alignment explanation
Indices: 36922015--36922048 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36922005 ACAAAAAAAG
*
36922015 AAGAAAGGAAAGGGGA
1 AAGAAAGGAAAAGGGA
*
36922031 AAGAAATGAAAAGGGA
1 AAGAAAGGAAAAGGGA
36922047 AA
1 AA
36922049 AACTAGGGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.35, T:0.03
Consensus pattern (16 bp):
AAGAAAGGAAAAGGGA
Found at i:36922642 original size:23 final size:23
Alignment explanation
Indices: 36922613--36922687 Score: 123
Period size: 23 Copynumber: 3.3 Consensus size: 23
36922603 AGCTGTGTCG
36922613 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
36922636 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* *
36922659 ATCAGACACTTTATGTGTCATAT
1 ATCAGGCACTTTATGTGTCGTAT
*
36922682 TTCAGG
1 ATCAGG
36922688 AACCTCGCGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:36922700 original size:46 final size:44
Alignment explanation
Indices: 36922613--36922707 Score: 100
Period size: 46 Copynumber: 2.1 Consensus size: 44
36922603 AGCTGTGTCG
* * * * * *
36922613 ATCAGGCACTTTATGTGTCGTATATCAGGCACTTTATGTGTCGTAT
1 ATCAGACACTTTATGTGTCATATATCAGGAACCTCACGTGTC--AT
* *
36922659 ATCAGACACTTTATGTGTCATATTTCAGGAACCTCGCGTGTCAT
1 ATCAGACACTTTATGTGTCATATATCAGGAACCTCACGTGTCAT
36922703 ATCAG
1 ATCAG
36922708 GCACCTCGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 7 0.17
46 34 0.83
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (44 bp):
ATCAGACACTTTATGTGTCATATATCAGGAACCTCACGTGTCAT
Found at i:36922713 original size:21 final size:21
Alignment explanation
Indices: 36922673--36922732 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
36922663 GACACTTTAT
*
36922673 GTGTCATATTTCAGGAACCTCGC
1 GTGTCATA--TCAGGCACCTCGC
*
36922696 GTGTCATATCAGGCACCTCGT
1 GTGTCATATCAGGCACCTCGC
* *
36922717 GTGTCATTTTAGGCAC
1 GTGTCATATCAGGCAC
36922733 TTATGTGTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 25 0.76
23 8 0.24
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (21 bp):
GTGTCATATCAGGCACCTCGC
Found at i:36930536 original size:7 final size:7
Alignment explanation
Indices: 36930520--36930559 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
36930510 AAAAAAGGGG
*
36930520 TGAAAGA
1 TGAAAAA
36930527 TGAAAAA
1 TGAAAAA
36930534 TG-AAAA
1 TGAAAAA
36930540 TGAAAAA
1 TGAAAAA
36930547 TG-AAAA
1 TGAAAAA
36930553 TGAAAAA
1 TGAAAAA
36930560 GTAAAAACGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 12 0.40
7 18 0.60
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
TGAAAAA
Found at i:36930541 original size:6 final size:6
Alignment explanation
Indices: 36930520--36930558 Score: 51
Period size: 6 Copynumber: 6.0 Consensus size: 6
36930510 AAAAAAGGGG
36930520 TGAAAGA TGAAAAA TGAAAA TGAAAAA TGAAAA TGAAAA
1 TGAAA-A TG-AAAA TGAAAA TG-AAAA TGAAAA TGAAAA
36930559 AGTAAAAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 16 0.53
7 11 0.37
8 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (6 bp):
TGAAAA
Found at i:36930565 original size:13 final size:13
Alignment explanation
Indices: 36930520--36930559 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
36930510 AAAAAAGGGG
36930520 TGAAAGATGAAAAA
1 TGAAA-ATGAAAAA
36930534 TGAAAATGAAAAA
1 TGAAAATGAAAAA
36930547 TGAAAATGAAAAA
1 TGAAAATGAAAAA
36930560 GTAAAAACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 21 0.81
14 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (13 bp):
TGAAAATGAAAAA
Found at i:36931897 original size:45 final size:45
Alignment explanation
Indices: 36931857--36932348 Score: 378
Period size: 45 Copynumber: 11.1 Consensus size: 45
36931847 GAGCAGGTTA
* *
36931857 AAGATAGCAGGTCTTGCCTTCCTGCATTGACAACGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCG
* * * * * * * * * *
36931902 AAGGTACCAGCT-TTGCCTCCCT-CGGTT-ACAGTGGAGTAGGTTG
1 AAGATAGCAGATCTTGCCTTCCTGC-ATTGACAGCGAAGCAGATCG
* *
36931945 AAGATAGCAGATCTTGCCTTCCTGCATCGACAACGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCG
* * *
36931990 AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCAAAACAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCG
* * * * * * * * *
36932035 AAGATACCAG-CCTTGCCTCCCT-CGGTTG-CAGTGGAGTAGGTTG
1 AAGATAGCAGATCTTGCCTTCCTGC-ATTGACAGCGAAGCAGATCG
* * *
36932078 AAGATAGCAGATCTTGCCTTTCTGCATCGACAACGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCG
* * *
36932123 AAGATAGCAGATCTTGCCTTTCTGCACTAACAGCGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCG
* * * * * * * *
36932168 AAGATACCAG-CCTTGTCTCCCT-CAGTTG-CAGTGGAGTAGGTCG
1 AAGATAGCAGATCTTGCCTTCCTGCA-TTGACAGCGAAGCAGATCG
* * *
36932211 AAGATAGTAGATCTTGCCTTCCTGCACTGACAGCAAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCG
* * * * * * * * *
36932256 AAGATACCAG-CCTTGCCTCCCT-CGGTTG-CAGTGGAGTAGGTTG
1 AAGATAGCAGATCTTGCCTTCCTGC-ATTGACAGCGAAGCAGATCG
* *
36932299 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCG
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCG
36932344 AAGAT
1 AAGAT
36932349 TACAAGTCCT
Statistics
Matches: 332, Mismatches: 99, Indels: 32
0.72 0.21 0.07
Matches are distributed among these distances:
43 78 0.23
44 88 0.27
45 166 0.50
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (45 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCG
Found at i:36931937 original size:88 final size:88
Alignment explanation
Indices: 36931825--36932348 Score: 444
Period size: 88 Copynumber: 5.9 Consensus size: 88
36931815 AAACAACGCC
* ** * *
36931825 TTGCCTCCCTCGGTTGCAGTTGGAGCAGGTTAAAGATAGCAGGTCTTGCCTTCCTGCATTGACAA
1 TTGCCTCCCTCGGTTACAG-TGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGCATTGACAG
*
36931890 CGAAGCAGATCGAAGGTACCAGCT
65 CGAAGCAGATCGAAGATACCAGCT
* * * *
36931914 TTGCCTCCCTCGGTTACAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAAC
1 TTGCCTCCCTCGGTTACAGTGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGC
* *
36931979 GAAGCAGATCGAAGATAGCAGAT
66 GAAGCAGATCGAAGATACCAGCT
* ** * *** * * * * * *
36932002 CTTGCCTTCCTGCACTGACAGCAAAACAGATCGAAGATACCAG-CCTTGCCTCCCT-CGGTTG-C
1 -TTGCCTCCCT-CGGTTACAGTGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGC-ATTGAC
* * * * * * *
36932064 AGTGGAGTAGGTTGAAGATAGCAGAT
63 AGCGAAGCAGATCGAAGATACCAGCT
** * * ** * * * * *
36932090 CTTGCCTTTCT-GCATCGACAACGAAGCAGATCGAAGATAGCAGATCTTGCCTTTCTGCACTAAC
1 -TTGCCTCCCTCG-GT-TACAGTGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGCATTGAC
*
36932154 AGCGAAGCAGATCGAAGATACCAGCC
63 AGCGAAGCAGATCGAAGATACCAGCT
* * * * * *
36932180 TTGTCTCCCTCAGTTGCAGTGGAGTAGGTCGAAGATAGTAGATCTTGCCTTCCTGCACTGACAGC
1 TTGCCTCCCTCGGTTACAGTGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGC
* *
36932245 AAAGCAGATCGAAGATACCAGCC
66 GAAGCAGATCGAAGATACCAGCT
* * * * *
36932268 TTGCCTCCCTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGT
1 TTGCCTCCCTCGGTTACAGTGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGC
36932333 GAAGCAGATCGAAGAT
66 GAAGCAGATCGAAGAT
36932349 TACAAGTCCT
Statistics
Matches: 351, Mismatches: 75, Indels: 19
0.79 0.17 0.04
Matches are distributed among these distances:
87 1 0.00
88 253 0.72
89 57 0.16
90 40 0.11
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (88 bp):
TTGCCTCCCTCGGTTACAGTGGAGCAGGTCGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGC
GAAGCAGATCGAAGATACCAGCT
Found at i:36932032 original size:133 final size:133
Alignment explanation
Indices: 36931857--36932261 Score: 641
Period size: 133 Copynumber: 3.0 Consensus size: 133
36931847 GAGCAGGTTA
* * * * *
36931857 AAGATAGCAGGTCTTGCCTTCCTGCATTGACAACGAAGCAGATCGAAGGTACCAGCTTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
*
36931922 CTCGGTTACAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAACGAAGCAGA
66 CTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAACGAAGCAGA
36931987 TCG
131 TCG
* *
36931990 AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCAAAACAGATCGAAGATACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
*
36932055 CTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTTCTGCATCGACAACGAAGCAGA
66 CTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAACGAAGCAGA
36932120 TCG
131 TCG
* * *
36932123 AAGATAGCAGATCTTGCCTTTCTGCACTAACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCC
1 AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
* * * * *
36932188 CTCAGTTGCAGTGGAGTAGGTCGAAGATAGTAGATCTTGCCTTCCTGCA-CTGACAGCAAAGCAG
66 CTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAACGAAGCAG
36932252 ATCG
130 ATCG
36932256 AAGATA
1 AAGATA
36932262 CCAGCCTTGC
Statistics
Matches: 251, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
132 1 0.00
133 250 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (133 bp):
AAGATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCC
CTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAACGAAGCAGA
TCG
Found at i:36932214 original size:221 final size:221
Alignment explanation
Indices: 36931822--36932348 Score: 709
Period size: 221 Copynumber: 2.4 Consensus size: 221
36931812 CGAAAACAAC
* * * *
36931822 GCCTTGCCTCCCTCGGTTGCAGTTGGAGCAGGTTAAAGATAGCAGGTCTTGCCTTCCTGCATTGA
1 GCCTTGCCTCCCTCGGTTGCAG-TGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
* * ** * * * * * * *
36931887 CAACGAAGCAGATCGAAGGTACCAGCTTTGCCTCCCTCGGTTACAGTGGAGTAGGTTGAAGATAG
65 CAACGAAGCAGATCGAAGATACCAGATTTGCCTCCCTCACTAACAGCGAAGCAGATCGAAGATAC
* *
36931952 CAGATCTTGCCTTCCTGCATCGACAACGAAGCAGATCGAAGATAGCAGATCTTGCCTTCCTGCAC
130 CAGACCTTGCCTCCCTGCATCGACAACGAAGCAGATCGAAGATAGCAGATCTTGCCTTCCTGCAC
36932017 TGACAGCAAAACAGATCGAAGATACCA
195 TGACAGCAAAACAGATCGAAGATACCA
*
36932044 GCCTTGCCTCCCTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTTCTGCATCGAC
1 GCCTTGCCTCCCTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGAC
* **
36932109 AACGAAGCAGATCGAAGATAGCAGATCTTGCCTTTCTGCACTAACAGCGAAGCAGATCGAAGATA
66 AACGAAGCAGATCGAAGATACCAGAT-TTGCCTCCCT-CACTAACAGCGAAGCAGATCGAAGATA
* * ** * * * *
36932174 CCAG-CCTTGTCTCCCT-CAGTTG-CAGTGGAGTAGGTCGAAGATAGTAGATCTTGCCTTCCTGC
129 CCAGACCTTGCCTCCCTGCA-TCGACAACGAAGCAGATCGAAGATAGCAGATCTTGCCTTCCTGC
*
36932236 ACTGACAGCAAAGCAGATCGAAGATACCA
193 ACTGACAGCAAAACAGATCGAAGATACCA
36932265 GCCTTGCCTCCCTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGAC
1 GCCTTGCCTCCCTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGAC
**
36932330 AGTGAAGCAGATCGAAGAT
66 AACGAAGCAGATCGAAGAT
36932349 TACAAGTCCT
Statistics
Matches: 269, Mismatches: 33, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
221 206 0.77
222 41 0.15
223 22 0.08
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (221 bp):
GCCTTGCCTCCCTCGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGAC
AACGAAGCAGATCGAAGATACCAGATTTGCCTCCCTCACTAACAGCGAAGCAGATCGAAGATACC
AGACCTTGCCTCCCTGCATCGACAACGAAGCAGATCGAAGATAGCAGATCTTGCCTTCCTGCACT
GACAGCAAAACAGATCGAAGATACCA
Found at i:36932575 original size:44 final size:44
Alignment explanation
Indices: 36932516--36932675 Score: 130
Period size: 44 Copynumber: 3.6 Consensus size: 44
36932506 GATTAAAAGG
*
36932516 ATCTTATCTCTCTGAAGTTGCAGTGGAGAAGACTG-AGAAAACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTGAAG-AAACAA
* * ** * * *
36932560 GTCTTATCCCCCTGAAGTCACAGTGGGGCAGACTGAAGAAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTGAAGAAACAA
* * * *
36932604 ATCTTATCTCCCT-AAGGTTGCAATGGAGCAGATTGAAG--TCGATA
1 ATCTTATCTCCCTGAA-GTTGCAGTGGAGAAGACTGAAGAAAC-A-A
* *
36932648 ATCCTATTTCCCTGAAGTTGCAGTGGAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG
36932676 CGGATTAAAG
Statistics
Matches: 92, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 84 0.91
45 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTGAAGAAACAA
Found at i:36932676 original size:44 final size:44
Alignment explanation
Indices: 36932603--36932686 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
36932593 TGAAGAAGCA
* *
36932603 AATCTTATCTCCCTAAGGTTGCAATGGAGCAGATTGAAGTCGAT
1 AATCCTATCTCCCTAAGGTTGCAATGGAGCAGATTAAAGTCGAT
* * *
36932647 AATCCTATTTCCCTGAA-GTTGCAGTGGAGCGGATTAAAGT
1 AATCCTATCTCCCT-AAGGTTGCAATGGAGCAGATTAAAGT
36932687 AATAGATCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 32 0.94
45 2 0.06
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (44 bp):
AATCCTATCTCCCTAAGGTTGCAATGGAGCAGATTAAAGTCGAT
Found at i:36940131 original size:7 final size:8
Alignment explanation
Indices: 36940103--36940135 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
36940093 ATATTTATAC
36940103 TTTTTAATA
1 TTTTTAA-A
36940112 TTTTTAAA
1 TTTTTAAA
36940120 TTTTTAAA
1 TTTTTAAA
36940128 TTTTTAAA
1 TTTTTAAA
36940136 AATTAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTTAAA
Found at i:36943768 original size:7 final size:7
Alignment explanation
Indices: 36943756--36943796 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
36943746 AATCTAGAAT
36943756 TCTAAAC
1 TCTAAAC
36943763 TCTAAAC
1 TCTAAAC
*
36943770 CCTAAAC
1 TCTAAAC
36943777 -CTTAAAC
1 TC-TAAAC
36943784 TCTAAAC
1 TCTAAAC
36943791 TC-AAAC
1 TCTAAAC
36943797 ACCAAATTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
6 5 0.16
7 25 0.81
8 1 0.03
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (7 bp):
TCTAAAC
Found at i:36945604 original size:17 final size:19
Alignment explanation
Indices: 36945574--36945608 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
36945564 TTTAATATAT
36945574 ATATATGAATAATTATTTG
1 ATATATGAATAATTATTTG
36945593 ATATAT-AA-AATTATTT
1 ATATATGAATAATTATTT
36945609 TAATTTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (19 bp):
ATATATGAATAATTATTTG
Found at i:36947205 original size:19 final size:22
Alignment explanation
Indices: 36947172--36947224 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 22
36947162 AAATCTTTTT
* *
36947172 TTAATATATATTTT-AAAATAA
1 TTAATAAAAATTTTAAAAATAA
36947193 -T-ATAAAAATTTTAAAAATAA
1 TTAATAAAAATTTTAAAAATAA
36947213 TTAATAAAAATT
1 TTAATAAAAATT
36947225 ACATTGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 9 0.33
20 8 0.30
21 1 0.04
22 9 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATAAAAATTTTAAAAATAA
Found at i:36949898 original size:26 final size:25
Alignment explanation
Indices: 36949828--36949898 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 25
36949818 AATTTTTTTG
*
36949828 TATTTTAATTTAATAATAATATAAAAA
1 TATTATAATTT-ATAA-AATATAAAAA
*
36949855 TATTATAATTTATGAAAATTTAAAAA
1 TATTATAATTTAT-AAAATATAAAAA
36949881 TA-TATAAATTTACTAAAA
1 TATTAT-AATTTA-TAAAA
36949899 AGCATGTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 3 0.08
26 23 0.59
27 13 0.33
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (25 bp):
TATTATAATTTATAAAATATAAAAA
Found at i:36950000 original size:9 final size:9
Alignment explanation
Indices: 36949986--36950014 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
36949976 TAGTGACAAA
36949986 TAATATTTT
1 TAATATTTT
36949995 TAATATTTT
1 TAATATTTT
36950004 TAATATTTT
1 TAATATTTT
36950013 TA
1 TA
36950015 TAAATTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TAATATTTT
Found at i:36950029 original size:18 final size:18
Alignment explanation
Indices: 36949985--36950029 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
36949975 CTAGTGACAA
*
36949985 ATAATATTTTTAATATTT
1 ATAATATTTTTAAAATTT
*
36950003 TTAATATTTTTATAAATTT
1 ATAATATTTTTA-AAATTT
36950022 ATAA-ATTT
1 ATAATATTT
36950030 ATATTTTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATAATATTTTTAAAATTT
Found at i:36952136 original size:29 final size:29
Alignment explanation
Indices: 36952097--36952206 Score: 125
Period size: 29 Copynumber: 3.8 Consensus size: 29
36952087 AGAAAAACTA
*
36952097 TAAAATCTGGAAAACCAGTGGTAAAATTG
1 TAAAATCTGGAAAACCAGTGGCAAAATTG
* *
36952126 TAAAATATGGAAATA-TAGTGGCAAAACTT-
1 TAAAATCTGGAAA-ACCAGTGGCAAAA-TTG
* * *
36952155 TAAAATTTTGAAAACCAGTTGCAAAATTG
1 TAAAATCTGGAAAACCAGTGGCAAAATTG
*
36952184 TAAAATCTGGAAAAACAGTGGCA
1 TAAAATCTGGAAAACCAGTGGCA
36952207 GATCAGTGAA
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 3 0.05
29 60 0.91
30 3 0.05
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.25
Consensus pattern (29 bp):
TAAAATCTGGAAAACCAGTGGCAAAATTG
Found at i:36952152 original size:58 final size:58
Alignment explanation
Indices: 36952090--36952206 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 58
36952080 GAATAGTAGA
* * *
36952090 AAAACTATAAAATCTGGAAAACCAGTGGTAAAATTGTAAAATATGGAAATATAGTGGC
1 AAAACTATAAAATCTGGAAAACCAGTGGCAAAATTGTAAAATATGGAAAAACAGTGGC
* * * * *
36952148 AAAACTTTAAAATTTTGAAAACCAGTTGCAAAATTGTAAAATCTGGAAAAACAGTGGC
1 AAAACTATAAAATCTGGAAAACCAGTGGCAAAATTGTAAAATATGGAAAAACAGTGGC
36952206 A
1 A
36952207 GATCAGTGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (58 bp):
AAAACTATAAAATCTGGAAAACCAGTGGCAAAATTGTAAAATATGGAAAAACAGTGGC
Found at i:36952670 original size:33 final size:33
Alignment explanation
Indices: 36952622--36952684 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
36952612 GATAAATTAT
*
36952622 ATTAGAATTTAAAAAGTAGTAATTTGAATTCTA
1 ATTAGAATTTAAAAAGGAGTAATTTGAATTCTA
* * *
36952655 ATTAGGATTTTAAAAGGATTAATTTGAATT
1 ATTAGAATTTAAAAAGGAGTAATTTGAATT
36952685 TCAAAATAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (33 bp):
ATTAGAATTTAAAAAGGAGTAATTTGAATTCTA
Found at i:36954966 original size:41 final size:41
Alignment explanation
Indices: 36954921--36955019 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
36954911 GCTCTGTGCT
*
36954921 TAGTAGACTTAATGCC-AGTGAAATAATTCAGACTGTACGTC
1 TAGTAGGCTTAATGCCGA-TGAAATAATTCAGACTGTACGTC
* *
36954962 TAGTAGGCTTAATGCCGATGAAATATTTCAGACTTTACGTC
1 TAGTAGGCTTAATGCCGATGAAATAATTCAGACTGTACGTC
*
36955003 TAGCAGGCTTAATGCCG
1 TAGTAGGCTTAATGCCG
36955020 GTGTTCTGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 52 0.98
42 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (41 bp):
TAGTAGGCTTAATGCCGATGAAATAATTCAGACTGTACGTC
Found at i:36961191 original size:13 final size:13
Alignment explanation
Indices: 36961160--36961192 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
36961150 GAAGGAGATC
*
36961160 ACACATGGCCTGG
1 ACACACGGCCTGG
36961173 -CACACGGCCTGG
1 ACACACGGCCTGG
36961185 ACACACGG
1 ACACACGG
36961193 GCATGTCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.24, C:0.36, G:0.30, T:0.09
Consensus pattern (13 bp):
ACACACGGCCTGG
Found at i:36961685 original size:5 final size:5
Alignment explanation
Indices: 36961667--36961775 Score: 50
Period size: 5 Copynumber: 21.8 Consensus size: 5
36961657 CATTTTCCCC
* *
36961667 ATTTT A-TTT ATTATT -TTATT ATTTT ATTTT ATTCCTT -TATT AATTT
1 ATTTT ATTTT ATT-TT ATT-TT ATTTT ATTTT ATT--TT ATTTT ATTTT
* * * ** *
36961713 ATTTT -TCTT ATTTTT ATTTTT ATTTT A-TTT ATTCT A-TTT AGTAC ATTTA
1 ATTTT ATTTT A-TTTT A-TTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
36961762 ATTTT ATTTT ATTT
1 ATTTT ATTTT ATTT
36961776 ATTACTATTT
Statistics
Matches: 80, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
4 16 0.20
5 47 0.59
6 15 0.19
7 2 0.03
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.72
Consensus pattern (5 bp):
ATTTT
Found at i:36961697 original size:21 final size:21
Alignment explanation
Indices: 36961667--36961750 Score: 75
Period size: 21 Copynumber: 4.0 Consensus size: 21
36961657 CATTTTCCCC
36961667 ATTTTA-TTTATTATTTTATT
1 ATTTTATTTTATTATTTTATT
**
36961687 ATTTTATTTTATTCCTTTATT
1 ATTTTATTTTATTATTTTATT
* *
36961708 AATTTATTTTTCTTA-TTT-TT
1 ATTTTA-TTTTATTATTTTATT
*
36961728 ATTTTTATTTTATTTATTCTATT
1 A-TTTTATTTTA-TTATTTTATT
36961751 TAGTACATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 13 0.26
21 27 0.54
22 8 0.16
23 2 0.04
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (21 bp):
ATTTTATTTTATTATTTTATT
Found at i:36967049 original size:64 final size:64
Alignment explanation
Indices: 36966948--36967075 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
36966938 AATTGAAGTC
36966948 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGCGCAAGCATCACAATCCATCACAAAACGA
1 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGCGCAAGCATCACAATCCATCACAAAACGA
36967012 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGCGCAAGCATCACAATCCATCACAAAACGA
1 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGCGCAAGCATCACAATCCATCACAAAACGA
36967076 CAGCGTTCAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (64 bp):
TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGCGCAAGCATCACAATCCATCACAAAACGA
Found at i:36968348 original size:50 final size:50
Alignment explanation
Indices: 36968293--36968451 Score: 142
Period size: 50 Copynumber: 3.2 Consensus size: 50
36968283 TAACTCGTAA
36968293 CTTTAATCTTTTTAACTGCAATGTCGGAGAAGCAAGATTCGCCGTTATGG
1 CTTTAATCTTTTTAACTGCAATGTCGGAGAAGCAAGATTCGCCGTTATGG
** ** ** ** * * *
36968343 CTTTAAT-TTGTTCCACTGCACCG-CCAATGAAATAAGATTTGCCATTATAG
1 CTTTAATCTT-TTTAACTGCAATGTCGGA-GAAGCAAGATTCGCCGTTATGG
* * * * *
36968393 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGG
1 CTTTAATCTTTTTAACTGCAATGTCGGAGAAGCAAGATTCGCCGTTATGG
36968443 CTTTAATCT
1 CTTTAATCT
36968452 ATTCCATTGC
Statistics
Matches: 78, Mismatches: 27, Indels: 8
0.69 0.24 0.07
Matches are distributed among these distances:
49 4 0.05
50 71 0.91
51 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (50 bp):
CTTTAATCTTTTTAACTGCAATGTCGGAGAAGCAAGATTCGCCGTTATGG
Found at i:36968479 original size:100 final size:100
Alignment explanation
Indices: 36968293--36968491 Score: 263
Period size: 100 Copynumber: 2.0 Consensus size: 100
36968283 TAACTCGTAA
* * * *
36968293 CTTTAATCTTTTTAACTGCAATGTCGGAGAAGCAAGATTCGCCGTTATGGCTTTAATTTGTTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGAGAAGCAAGATTCACCGATATGGCTTTAATCTATTCCA
* *
36968358 CTGCACCGCCAATGAAATAAGATTTGCCATTATAG
66 CTGCACCGCCAAGGAAATAAGATTCGCCATTATAG
* * *
36968393 CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTATTCCA
1 CTTTAATCTTTTTAACTGCAATGTCGGAGAAGCAAGATTCACCGATATGGCTTTAATCTATTCCA
* * * * * *
36968458 TTGCACTGCCAGGGGAGTAAGATTCGCCGTTATA
66 CTGCACCGCCAAGGAAATAAGATTCGCCATTATA
36968492 AATGTCAGGG
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (100 bp):
CTTTAATCTTTTTAACTGCAATGTCGGAGAAGCAAGATTCACCGATATGGCTTTAATCTATTCCA
CTGCACCGCCAAGGAAATAAGATTCGCCATTATAG
Done.