Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 3 of 444
Found at i:681519 original size:36 final size:35
Alignment explanation
Indices: 681358--681519 Score: 128
Period size: 36 Copynumber: 4.5 Consensus size: 35
681348 TGCAAAACTG
* * *
681358 TTCATTGATGATATAAAATGCAAGAAGTGTAGAC-
1 TTCATTGGTGATATAAAATGGAAGAAGTGTAAACA
* ** *
681392 TGTCCGTTGACGATACAAAATGGAAGAAGTGTAAATCA
1 T-T-CATTGGTGATATAAAATGGAAGAAGTGTAAA-CA
* * * *
681430 TTCATTGGTGATATAAAATGTAAGAAGTATAGACC
1 TTCATTGGTGATATAAAATGGAAGAAGTGTAAACA
* * **
681465 GTCTGTTGACGATATAAAATGGAAGAAGTGTAAAGCA
1 TTC-ATTGGTGATATAAAATGGAAGAAGTGTAAA-CA
*
681502 TTCATTGGTGATGTAAAA
1 TTCATTGGTGATATAAAA
681520 GGTAAGCAAT
Statistics
Matches: 96, Mismatches: 26, Indels: 10
0.73 0.20 0.08
Matches are distributed among these distances:
34 1 0.01
35 4 0.04
36 85 0.89
37 5 0.05
38 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (35 bp):
TTCATTGGTGATATAAAATGGAAGAAGTGTAAACA
Found at i:681525 original size:72 final size:72
Alignment explanation
Indices: 681358--681525 Score: 255
Period size: 72 Copynumber: 2.3 Consensus size: 72
681348 TGCAAAACTG
* * * *
681358 TTCATTGATGATATAAAATGCAAGAAGTGTAGACTGTCCGTTGACGATACAAAATGGAAGAAGTG
1 TTCATTGGTGATATAAAATGTAAGAAGTATAGACCGTCCGTTGACGATACAAAATGGAAGAAGTG
*
681423 TAAATCA
66 TAAAGCA
* *
681430 TTCATTGGTGATATAAAATGTAAGAAGTATAGACCGTCTGTTGACGATATAAAATGGAAGAAGTG
1 TTCATTGGTGATATAAAATGTAAGAAGTATAGACCGTCCGTTGACGATACAAAATGGAAGAAGTG
681495 TAAAGCA
66 TAAAGCA
* *
681502 TTCATTGGTGATGTAAAAGGTAAG
1 TTCATTGGTGATATAAAATGTAAG
681526 CAATGCATAT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 87 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (72 bp):
TTCATTGGTGATATAAAATGTAAGAAGTATAGACCGTCCGTTGACGATACAAAATGGAAGAAGTG
TAAAGCA
Found at i:681799 original size:29 final size:29
Alignment explanation
Indices: 681765--681823 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
681755 AAAGGATGAA
* *
681765 GAGTATGGCAACCTGACCAGGATGTTGAC
1 GAGTATAGCAACCTAACCAGGATGTTGAC
* *
681794 GAGTATAGCAACCTAACTAGGTTGTTGAC
1 GAGTATAGCAACCTAACCAGGATGTTGAC
681823 G
1 G
681824 GATGTGACGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (29 bp):
GAGTATAGCAACCTAACCAGGATGTTGAC
Found at i:682599 original size:81 final size:80
Alignment explanation
Indices: 682506--682760 Score: 268
Period size: 81 Copynumber: 3.2 Consensus size: 80
682496 ATACATGCCG
* *
682506 GGGGATATAACCACCTGCAAGAACCCCTCGTGGGCTCTCTTTGTCTCACAATATTCATTATACAA
1 GGGGATATAACCACC-GCAAGAAACCTTCGTGGGCTCTCTTTGTCTCACAATATTCATTATAC-A
*
682571 ATATACAAACATACAAA
64 ATATACAAACATGCAAA
* *** * * *
682588 GGGG-TATAACCACC-CATGAGAATCCTTCACAGGCTCTTTTTATCCCACAATATTCATTATACT
1 GGGGATATAACCACCGCA--AGAAACCTTCGTGGGCTCTCTTTGTCTCACAATATTCATTATAC-
682651 AATATACAAACATGCAAA
63 AATATACAAACATGCAAA
* * * *
682669 GGGGATATAACCATCCGCAAGAAACCTTCGTGGGCTC-CTTTTGTCTAACAATGTACAATATAC-
1 GGGGATATAACCA-CCGCAAGAAACCTTCGTGGGCTCTC-TTTGTCTCACAATATTCATTATACA
*
682732 ATATACCAACATGCAAA
64 ATATACAAACATGCAAA
*
682749 GAGG-TATAACCA
1 GGGGATATAACCA
682761 TATGTGGGAA
Statistics
Matches: 144, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
79 10 0.07
80 19 0.13
81 67 0.47
82 44 0.31
83 2 0.01
84 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (80 bp):
GGGGATATAACCACCGCAAGAAACCTTCGTGGGCTCTCTTTGTCTCACAATATTCATTATACAAT
ATACAAACATGCAAA
Found at i:686095 original size:62 final size:61
Alignment explanation
Indices: 686019--686142 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 61
686009 GAACTGTGCA
686019 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGGAAGAGGCAATCGGTCGACT
1 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAAT-GGGGAAGAGGCAATCGGTCGACT
* *
686081 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGCGGCAATCGGTCTACT
1 AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGAGGCAATCGGTCGACT
686142 A
1 A
686143 CTGAAGCAGT
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 22 0.37
62 38 0.63
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23
Consensus pattern (61 bp):
AAAGACATTAATAGAGTCTGCAATCTGCATGCTGTAATGGGGAAGAGGCAATCGGTCGACT
Found at i:688264 original size:101 final size:101
Alignment explanation
Indices: 688089--688295 Score: 396
Period size: 101 Copynumber: 2.0 Consensus size: 101
688079 ATCAGTCCCA
*
688089 TAATTTATGAAGATTTAAAGAAGATTTAAAGGTTTAGGGAAAGGTTTATGCTTGCTAACTGTTGT
1 TAATTTATGAAGATTTAAAGAAGATTTAAAGGTTTAGAGAAAGGTTTATGCTTGCTAACTGTTGT
688154 AATTGGAATGGAGAATGATATGAAGGTTTTGTTTAT
66 AATTGGAATGGAGAATGATATGAAGGTTTTGTTTAT
*
688190 TAATTTATGAAGATTTAAAGAATATTTAAAGGTTTAGAGAAAGGTTTATGCTTGCTAACTGTTGT
1 TAATTTATGAAGATTTAAAGAAGATTTAAAGGTTTAGAGAAAGGTTTATGCTTGCTAACTGTTGT
688255 AATTGGAATGGAGAATGATATGAAGGTTTTGTTTAT
66 AATTGGAATGGAGAATGATATGAAGGTTTTGTTTAT
688291 TAATT
1 TAATT
688296 GTTACATGTT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 104 1.00
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (101 bp):
TAATTTATGAAGATTTAAAGAAGATTTAAAGGTTTAGAGAAAGGTTTATGCTTGCTAACTGTTGT
AATTGGAATGGAGAATGATATGAAGGTTTTGTTTAT
Found at i:688663 original size:128 final size:121
Alignment explanation
Indices: 688385--688667 Score: 415
Period size: 121 Copynumber: 2.3 Consensus size: 121
688375 TTTTCATTCG
* *
688385 TTTCAAATGCATTGGCTAAGGTTCAAGCTAATTACTGCTTAAAGATTGGAGTATGGTATATCGAT
1 TTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACTGCTTAAAGATTGGAGTATGGTATATCAAT
* **
688450 GTTTAGTGTAGTCGGGCATTCAATACCTTAGTTCATTGATATCATTTTAAGAATCA
66 GTTTAGTGTAGTCGGGCATTCAATACCTTAGTTCATTGACATCATAGTAAGAATCA
*
688506 TTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACTGCTTAAAGATTGGATTATGGTATATCAAT
1 TTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACTGCTTAAAGATTGGAGTATGGTATATCAAT
*
688571 GTTTAGTGTAGTCGGGGCATTGGGCATTCAATAGCTTAGTT-ATTGACATCATAGTAAGAATCA
66 GTTTAGTGTAGT-----C---GGGCATTCAATACCTTAGTTCATTGACATCATAGTAAGAATCA
*
688634 TTTCAAATGCATTGGATAAGGTTCAAGCTAGTTA
1 TTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTA
688668 TATAGCTTGA
Statistics
Matches: 146, Mismatches: 8, Indels: 9
0.90 0.05 0.06
Matches are distributed among these distances:
121 74 0.51
126 1 0.01
128 52 0.36
129 19 0.13
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (121 bp):
TTTCAAATGCATTGGCTAAGGTTCAAGCTAGTTACTGCTTAAAGATTGGAGTATGGTATATCAAT
GTTTAGTGTAGTCGGGCATTCAATACCTTAGTTCATTGACATCATAGTAAGAATCA
Found at i:688814 original size:147 final size:147
Alignment explanation
Indices: 688537--688931 Score: 544
Period size: 147 Copynumber: 2.6 Consensus size: 147
688527 TTCAAGCTAG
688537 TTACTGCTTAAAGATTGGATTATGGTATATCAATGTTTAG-TGTAGTCGGGGCATTGGGCATTCA
1 TTACTGCTTAAAGATTGGATTATGGTATATCAATGTTTAGCT-TAGT-----C---GGGCATTCA
**
688601 ATAGCTTAGTT-ATTGACATCATAGTAAGAATCATTTCAAATGCATTGGATAAGGTTCAAGCTAG
57 ATAGCTTAGTTCATTGACATCATAGTAAGAATCATTTCAAATGCATCAGATAAGGTTCAAGCTAG
* *
688665 TTATATAGCTTGACTTATAGCTGTCC
122 TTATATAGCTTGACGTATAGCTGGCC
*
688691 TTGCTGCTTAAAGATTGGATTATGGTATATCAATGTTTAGCTTAGTCGGGCATTCAATAGCTTAG
1 TTACTGCTTAAAGATTGGATTATGGTATATCAATGTTTAGCTTAGTCGGGCATTCAATAGCTTAG
* *
688756 TTCATTGACATCATAGTAAGATTCATTTCAAATGCATCAGCTAAGGTTCAAGCTAGTTATATAGC
66 TTCATTGACATCATAGTAAGAATCATTTCAAATGCATCAGATAAGGTTCAAGCTAGTTATATAGC
*
688821 TTGACGTGTAGCTGGCC
131 TTGACGTATAGCTGGCC
* * * ** *
688838 TTACTGCCTAAAGAGTGGATCATGGTATATTGATGTTTAGCTTAGTCGGGCATTCAATACCTTA-
1 TTACTGCTTAAAGATTGGATTATGGTATATCAATGTTTAGCTTAGTCGGGCATTCAATAGCTTAG
*
688902 TATCATTGACATCATGGTAAGAATCATTTC
66 T-TCATTGACATCATAGTAAGAATCATTTC
688932 TTGACCTGTA
Statistics
Matches: 221, Mismatches: 17, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
146 21 0.10
147 155 0.70
149 1 0.00
154 43 0.19
155 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.36
Consensus pattern (147 bp):
TTACTGCTTAAAGATTGGATTATGGTATATCAATGTTTAGCTTAGTCGGGCATTCAATAGCTTAG
TTCATTGACATCATAGTAAGAATCATTTCAAATGCATCAGATAAGGTTCAAGCTAGTTATATAGC
TTGACGTATAGCTGGCC
Found at i:690984 original size:19 final size:19
Alignment explanation
Indices: 690957--691020 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
690947 TACAAAAAAA
*
690957 AAAAATCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
*
690976 AAAATTCAAAAT-ATTTATA
1 AAAATTCAAAATAATTT-TT
*
690995 AAAATTTCAAATTTATATTTTT
1 AAAA-TTCAAA-ATA-ATTTTT
691017 AAAA
1 AAAA
691021 AAAATTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 4 0.11
19 16 0.44
20 6 0.17
21 1 0.03
22 5 0.14
23 4 0.11
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:693107 original size:43 final size:42
Alignment explanation
Indices: 693045--693126 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 42
693035 TGTGTACAGT
*
693045 AGGACCCATTTGAAAGAAAAGCTAGCCGTTGAAGAGGAGAGA
1 AGGACCCATTTGAAAGAAAAGCTAGCCGTTAAAGAGGAGAGA
* *
693087 AGGACCCATTTTGATAGAAAAGCTAGCCGTTAAAGGGGAG
1 AGGACCCA-TTTGAAAGAAAAGCTAGCCGTTAAAGAGGAG
693127 CGGCCACAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 8 0.22
43 28 0.78
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.17
Consensus pattern (42 bp):
AGGACCCATTTGAAAGAAAAGCTAGCCGTTAAAGAGGAGAGA
Found at i:693866 original size:21 final size:23
Alignment explanation
Indices: 693840--693881 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
693830 ACAAGCTCAC
693840 AGGTTC-TGTCCCT-GCTTCATT
1 AGGTTCATGTCCCTCGCTTCATT
*
693861 AGGTTCATGTCCTTCGCTTCA
1 AGGTTCATGTCCCTCGCTTCA
693882 AACACTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 6 0.33
23 6 0.33
ACGTcount: A:0.12, C:0.29, G:0.19, T:0.40
Consensus pattern (23 bp):
AGGTTCATGTCCCTCGCTTCATT
Found at i:694633 original size:18 final size:18
Alignment explanation
Indices: 694610--694645 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
694600 AACCCACCTT
694610 CATCAGGACATAAACATA
1 CATCAGGACATAAACATA
*
694628 CATCAGGACATAACCATA
1 CATCAGGACATAAACATA
694646 GGAAACTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.25, G:0.11, T:0.17
Consensus pattern (18 bp):
CATCAGGACATAAACATA
Found at i:696168 original size:31 final size:33
Alignment explanation
Indices: 696133--696200 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 33
696123 GGCATAATAG
*
696133 CAATTTTA-ACCCTCAACA-TTATACATTATGT
1 CAATTTTAGACCCTCAAAATTTATACATTATGT
* *
696164 CAA-TTTAGTCCCTCAAAATTTATACATTGTGT
1 CAATTTTAGACCCTCAAAATTTATACATTATGT
696196 -AATTT
1 CAATTT
696201 GTTTTTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 4 0.13
31 13 0.42
32 14 0.45
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (33 bp):
CAATTTTAGACCCTCAAAATTTATACATTATGT
Found at i:711305 original size:16 final size:16
Alignment explanation
Indices: 711286--711317 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
711276 AATATACTTA
*
711286 AATTTGAGATTTAATT
1 AATTTGACATTTAATT
711302 AATTTGACATTTAATT
1 AATTTGACATTTAATT
711318 CTTATCCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (16 bp):
AATTTGACATTTAATT
Found at i:722502 original size:3 final size:3
Alignment explanation
Indices: 722496--722523 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
722486 TCGGCAGCAG
722496 CCA CCA CCA CCA CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA C
722524 AAACAACCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:723168 original size:4 final size:4
Alignment explanation
Indices: 723159--723186 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
723149 AACATATAAT
723159 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
723187 TATATGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:724422 original size:26 final size:26
Alignment explanation
Indices: 724379--724428 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
724369 TTAACCCTAG
724379 CCCCTTTTTTCTAATTATATATTCTC
1 CCCCTTTTTTCTAATTATATATTCTC
*
724405 CCCCTTTTCTT-TATTTATATATTC
1 CCCCTTTT-TTCTAATTATATATTC
724429 ATCTGGTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (26 bp):
CCCCTTTTTTCTAATTATATATTCTC
Found at i:726752 original size:16 final size:17
Alignment explanation
Indices: 726731--726764 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
726721 AGCAAAGTGT
*
726731 AATTTTATTAATT-TAA
1 AATTTTATAAATTATAA
726747 AATTTTATAAATTATAA
1 AATTTTATAAATTATAA
726764 A
1 A
726765 GACCTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTTATAAATTATAA
Found at i:729630 original size:16 final size:16
Alignment explanation
Indices: 729609--729648 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
729599 TTCTAGTTAT
729609 TTCAAGTTTCAATC-A
1 TTCAAGTTTCAATCAA
729624 TTCCAAG-TTCAATCAA
1 TT-CAAGTTTCAATCAA
729640 TTCAAGTTT
1 TTCAAGTTT
729649 GAAGTTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (16 bp):
TTCAAGTTTCAATCAA
Found at i:730921 original size:22 final size:21
Alignment explanation
Indices: 730872--730924 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
730862 TAATCACATT
* *
730872 TTAAATTTATTTCATAGAAAA
1 TTAAAATTATTTAATAGAAAA
*
730893 TTAAAATTATTTAATTGAAAA
1 TTAAAATTATTTAATAGAAAA
*
730914 TTGCAAATTAT
1 TT-AAAATTAT
730925 ATTTTAACCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 20 0.74
22 7 0.26
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (21 bp):
TTAAAATTATTTAATAGAAAA
Found at i:742971 original size:26 final size:25
Alignment explanation
Indices: 742922--742980 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
742912 AATTTTTTTT
* * *
742922 TATTTTTTATTTATATAAGGGAAAAA
1 TATTTTATATTTAAATAAAGG-AAAA
*
742948 TATTTTATATTTAAATAAATGAAAA
1 TATTTTATATTTAAATAAAGGAAAA
742973 TAATTTTA
1 T-ATTTTA
742981 AATTATTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (25 bp):
TATTTTATATTTAAATAAAGGAAAA
Found at i:744730 original size:34 final size:34
Alignment explanation
Indices: 744687--744751 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
744677 TACTTGACTT
744687 GTTGAGGGACCCATAGGTTCCTGACAGATAAAAC
1 GTTGAGGGACCCATAGGTTCCTGACAGATAAAAC
744721 GTTGAGGGACCCATAGGTTCCTGACAGATAA
1 GTTGAGGGACCCATAGGTTCCTGACAGATAA
744752 CACTTCGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (34 bp):
GTTGAGGGACCCATAGGTTCCTGACAGATAAAAC
Found at i:746281 original size:31 final size:31
Alignment explanation
Indices: 746244--746303 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
746234 CAAAATAAGT
*
746244 AAATTAGTCCTTGTACATTAAATCAAAGAAA
1 AAATTAGTCATTGTACATTAAATCAAAGAAA
*
746275 AAATTAGTCATTGTGCATTAAATCAAAGA
1 AAATTAGTCATTGTACATTAAATCAAAGA
746304 CAAAGACCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (31 bp):
AAATTAGTCATTGTACATTAAATCAAAGAAA
Found at i:747955 original size:44 final size:44
Alignment explanation
Indices: 747904--747994 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
747894 TATTGTTTGG
747904 ACTGGCTAATGAAATTATAAAGGCATAATTAAGTAGAGGGGCTA
1 ACTGGCTAATGAAATTATAAAGGCATAATTAAGTAGAGGGGCTA
747948 ACTGGCTAATGAAATTATAAAGGCATAATTAAGTAGAGGGGCTA
1 ACTGGCTAATGAAATTATAAAGGCATAATTAAGTAGAGGGGCTA
747992 ACT
1 ACT
747995 CAATTTTTCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (44 bp):
ACTGGCTAATGAAATTATAAAGGCATAATTAAGTAGAGGGGCTA
Found at i:755567 original size:34 final size:34
Alignment explanation
Indices: 755481--755567 Score: 81
Period size: 34 Copynumber: 2.6 Consensus size: 34
755471 GTAATGTGGC
* * * *
755481 ATACTTATAATAGA-TCAATACGATAGCATTTAAT
1 ATACTTATACTA-ATTCAATACGAAAACAATTAAT
*
755515 ATACTTATAGC--ATATCAATACGAAAACAATTATT
1 ATACTTATA-CTAAT-TCAATACGAAAACAATTAAT
755549 ATACTTATACTAATTCAAT
1 ATACTTATACTAATTCAAT
755568 TCAGTAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
32 1 0.02
33 1 0.02
34 39 0.91
35 2 0.05
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.36
Consensus pattern (34 bp):
ATACTTATACTAATTCAATACGAAAACAATTAAT
Found at i:759517 original size:14 final size:14
Alignment explanation
Indices: 759480--759519 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
759470 AAATTGTAAC
*
759480 TATTTATATATAAA
1 TATTTATATTTAAA
* *
759494 TATATATATTTATA
1 TATTTATATTTAAA
759508 TATTTATATTTA
1 TATTTATATTTA
759520 CTTTTTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTATATTTAAA
Found at i:760266 original size:21 final size:23
Alignment explanation
Indices: 760230--760275 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
760220 AGATTGCAAG
760230 ATATATGATAGAGTATATATTAT
1 ATATATGATAGAGTATATATTAT
* *
760253 ATATAT-ATAG-GTATCTTTTAT
1 ATATATGATAGAGTATATATTAT
760274 AT
1 AT
760276 CCATTTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 4 0.19
23 6 0.29
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (23 bp):
ATATATGATAGAGTATATATTAT
Found at i:761609 original size:22 final size:22
Alignment explanation
Indices: 761574--761630 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 22
761564 TCGCCTGAAT
761574 ATAAAAAAAGTTTAGAGACTAAA
1 ATAAAAAAA-TTTAGAGACTAAA
761597 ATAAAAAAATTTAGAGACTAAA
1 ATAAAAAAATTTAGAGACTAAA
761619 ATCAAAAAAATT
1 AT-AAAAAAATT
761631 ATTTTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 15 0.45
23 18 0.55
ACGTcount: A:0.63, C:0.05, G:0.09, T:0.23
Consensus pattern (22 bp):
ATAAAAAAATTTAGAGACTAAA
Found at i:765223 original size:31 final size:28
Alignment explanation
Indices: 765188--765263 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 28
765178 TCAATTTTGT
*
765188 ATTAATTTATAATTTTTTCATTTTTTAAGG
1 ATTAA-TTATAATTTTTTCA-TCTTTAAGG
*
765218 AATTAAATATAAATTTTTTCATCTTTAAGG
1 -ATTAATTAT-AATTTTTTCATCTTTAAGG
*
765248 ATTAAATTACAATTTT
1 ATT-AATTATAATTTT
765264 ATCCCACATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 9 0.23
30 15 0.38
31 15 0.38
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (28 bp):
ATTAATTATAATTTTTTCATCTTTAAGG
Found at i:765252 original size:29 final size:31
Alignment explanation
Indices: 765188--765263 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
765178 TCAATTTTGT
* * *
765188 ATTAATTTATAATTTTTTCATTTTTTAAGGA
1 ATTAAATTACAATTTTTTCATTCTTTAAGGA
765219 ATTAAATATA-AATTTTTTCA-TCTTTAAGG-
1 ATTAAAT-TACAATTTTTTCATTCTTTAAGGA
765248 ATTAAATTACAATTTT
1 ATTAAATTACAATTTT
765264 ATCCCACATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 2 0.05
29 13 0.32
30 8 0.20
31 16 0.39
32 2 0.05
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (31 bp):
ATTAAATTACAATTTTTTCATTCTTTAAGGA
Found at i:765417 original size:2 final size:2
Alignment explanation
Indices: 765410--765443 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
765400 GAAGTAAGGC
765410 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
765444 CGGTTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:766906 original size:2 final size:2
Alignment explanation
Indices: 766856--766887 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
766846 TTTTTTCATA
766856 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
766888 GTATTGATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:767731 original size:2 final size:2
Alignment explanation
Indices: 767724--767757 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
767714 CCTCTAACCC
767724 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
767758 TCATGTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:770464 original size:35 final size:35
Alignment explanation
Indices: 770418--770491 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
770408 TTTTATAGTA
770418 TTGTTAATGTTTGTTTTAAGATTTATGTTCGAGAT
1 TTGTTAATGTTTGTTTTAAGATTTATGTTCGAGAT
* *
770453 TTGTTGATGTTTGTTTTAAGATTTATGTTTGAGAT
1 TTGTTAATGTTTGTTTTAAGATTTATGTTCGAGAT
770488 TTGT
1 TTGT
770492 GGTTATCTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.20, C:0.01, G:0.22, T:0.57
Consensus pattern (35 bp):
TTGTTAATGTTTGTTTTAAGATTTATGTTCGAGAT
Found at i:770482 original size:18 final size:18
Alignment explanation
Indices: 770424--770483 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
770414 AGTATTGTTA
770424 ATGTTTGTTTTAAGATTT
1 ATGTTTGTTTTAAGATTT
* * *
770442 ATGTTCGAGATTT--G-TTG
1 ATGTT--TGTTTTAAGATTT
770459 ATGTTTGTTTTAAGATTT
1 ATGTTTGTTTTAAGATTT
770477 ATGTTTG
1 ATGTTTG
770484 AGATTTGTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
15 4 0.13
17 8 0.26
18 15 0.48
20 4 0.13
ACGTcount: A:0.20, C:0.02, G:0.22, T:0.57
Consensus pattern (18 bp):
ATGTTTGTTTTAAGATTT
Found at i:770505 original size:35 final size:35
Alignment explanation
Indices: 770431--770506 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
770421 TTAATGTTTG
* * * *
770431 TTTTAAGATTTATGTTCGAGATTTGTTGATGTTTG
1 TTTTAAGATTTATGTTCGAGATTTGTGGATATCTC
* *
770466 TTTTAAGATTTATGTTTGAGATTTGTGGTTATCTC
1 TTTTAAGATTTATGTTCGAGATTTGTGGATATCTC
770501 TTTTAA
1 TTTTAA
770507 TAATGTTATC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.21, C:0.04, G:0.20, T:0.55
Consensus pattern (35 bp):
TTTTAAGATTTATGTTCGAGATTTGTGGATATCTC
Found at i:780305 original size:17 final size:17
Alignment explanation
Indices: 780272--780312 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 17
780262 ACATTACCTC
780272 AAATAAAATTTTAAAAA
1 AAATAAAATTTTAAAAA
780289 AAATCAAAATTTTAAAAA
1 AAAT-AAAATTTTAAAAA
780307 AGAATA
1 A-AATA
780313 TATATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.18
18 15 0.68
19 3 0.14
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (17 bp):
AAATAAAATTTTAAAAA
Found at i:788298 original size:40 final size:40
Alignment explanation
Indices: 788247--788322 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
788237 GGAACTCCTT
788247 AACTTTGTGAACCCTGTTAGGTTCTTCTTAGAGTATCTTA
1 AACTTTGTGAACCCTGTTAGGTTCTTCTTAGAGTATCTTA
*
788287 AACTTTGTGAACCCTGTTGGGTTCTTCTTAGAGTAT
1 AACTTTGTGAACCCTGTTAGGTTCTTCTTAGAGTAT
788323 GAGAGACAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (40 bp):
AACTTTGTGAACCCTGTTAGGTTCTTCTTAGAGTATCTTA
Found at i:789111 original size:11 final size:11
Alignment explanation
Indices: 789095--789131 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
789085 TTACAAAATT
789095 AAAAATTCTAA
1 AAAAATTCTAA
*
789106 AAAAATTC-AT
1 AAAAATTCTAA
789116 AAAAATTCTAA
1 AAAAATTCTAA
789127 AAAAA
1 AAAAA
789132 AAATTAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATTCTAA
Found at i:789139 original size:21 final size:21
Alignment explanation
Indices: 789089--789139 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
789079 CAACTATTAC
789089 AAAATTAAAAATTCTAAAAAA
1 AAAATTAAAAATTCTAAAAAA
**
789110 ATTCA-TAAAAATTCTAAAAAA
1 A-AAATTAAAAATTCTAAAAAA
789131 AAAATTAAA
1 AAAATTAAA
789140 GAAGAGATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAATTAAAAATTCTAAAAAA
Found at i:792594 original size:18 final size:17
Alignment explanation
Indices: 792561--792594 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
792551 ATCACTTCAA
*
792561 TCTATATATAATTTGTC
1 TCTATATATAACTTGTC
792578 TCTATATCATAACTTGT
1 TCTATAT-ATAACTTGT
792595 TGACTTTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (17 bp):
TCTATATATAACTTGTC
Found at i:794272 original size:31 final size:31
Alignment explanation
Indices: 794182--794279 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 31
794172 AAGTGTAAAC
* *
794182 TTGTAAACTTACTAATAGTTGAGTGACCAAT
1 TTGTAAACTTACTAATAGTTGAGCGACCAAA
** * *
794213 TTGT-AACTTTTTAA-AATTCAGCGACCAAA
1 TTGTAAACTTACTAATAGTTGAGCGACCAAA
* *
794242 TTGTAAACTTGCTAATAGTTGAGCAACCAAA
1 TTGTAAACTTACTAATAGTTGAGCGACCAAA
*
794273 TTTTAAA
1 TTGTAAA
794280 TTTATCAGTC
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
29 15 0.28
30 16 0.30
31 22 0.42
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (31 bp):
TTGTAAACTTACTAATAGTTGAGCGACCAAA
Found at i:796931 original size:45 final size:48
Alignment explanation
Indices: 796852--796972 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 48
796842 CTCAACCAGG
* * * *
796852 ACACGAAGCACGACCTAATGTTTCTACTCCGTCCCC-T-T-CATCGAAA
1 ACACAAAGTACGACCCAATGCTTCTACTCCGTCCCCTTCTCCATC-AAA
* *
796898 A-ACAAAGTACGACCCAATGCTTCTATTCTGTCCCCTTCTCCATCAAA
1 ACACAAAGTACGACCCAATGCTTCTACTCCGTCCCCTTCTCCATCAAA
* *
796945 ACACAAAGTACAATCCAATGCTTCTACT
1 ACACAAAGTACGACCCAATGCTTCTACT
796973 GCTTCTACTT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
45 28 0.45
46 2 0.03
47 5 0.08
48 27 0.44
ACGTcount: A:0.31, C:0.33, G:0.10, T:0.26
Consensus pattern (48 bp):
ACACAAAGTACGACCCAATGCTTCTACTCCGTCCCCTTCTCCATCAAA
Found at i:801972 original size:34 final size:34
Alignment explanation
Indices: 801934--801998 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
801924 TAAAATATGA
*
801934 ATATAAAT-TTAATTATAAACTATTATTATTCTAT
1 ATATAAATGTTAATAATAAAC-ATTATTATTCTAT
* *
801968 ATATAAATGTTTATAATAATCATTATTATTC
1 ATATAAATGTTAATAATAAACATTATTATTC
801999 AGCATAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 18 0.67
35 9 0.33
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (34 bp):
ATATAAATGTTAATAATAAACATTATTATTCTAT
Found at i:804093 original size:2 final size:2
Alignment explanation
Indices: 804086--804119 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
804076 CTTACACATG
804086 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
804120 TAATCTACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:810912 original size:4 final size:4
Alignment explanation
Indices: 810903--810927 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
810893 TGGTAATAGC
810903 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
810928 CCCATTGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:812327 original size:4 final size:4
Alignment explanation
Indices: 812318--812348 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
812308 ATTTTTTGTG
812318 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
812349 TATATATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:816677 original size:11 final size:11
Alignment explanation
Indices: 816663--816692 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
816653 ATAACATTAG
816663 AATATATATAT
1 AATATATATAT
*
816674 AATATAAATAT
1 AATATATATAT
816685 AATATATA
1 AATATATA
816693 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:817402 original size:12 final size:12
Alignment explanation
Indices: 817385--817426 Score: 84
Period size: 12 Copynumber: 3.5 Consensus size: 12
817375 GGTGGTAGAC
817385 AATGGGAGGAAA
1 AATGGGAGGAAA
817397 AATGGGAGGAAA
1 AATGGGAGGAAA
817409 AATGGGAGGAAA
1 AATGGGAGGAAA
817421 AATGGG
1 AATGGG
817427 GCAAGTGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.43, T:0.10
Consensus pattern (12 bp):
AATGGGAGGAAA
Found at i:817492 original size:24 final size:25
Alignment explanation
Indices: 817452--817498 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
817442 GTTAGGTGGC
817452 TAGGTTTTTTTAGTTTTT-TTTTGT
1 TAGGTTTTTTTAGTTTTTCTTTTGT
**
817476 TAGGTTTTTTTCTTTTTTCTTTT
1 TAGGTTTTTTTAGTTTTTCTTTT
817499 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.06, C:0.04, G:0.13, T:0.77
Consensus pattern (25 bp):
TAGGTTTTTTTAGTTTTTCTTTTGT
Found at i:818382 original size:30 final size:30
Alignment explanation
Indices: 818346--818407 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
818336 TTTTGAAGAA
*
818346 CAGAAATT-AAGAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
818376 CAGAAATTAAAAAGCTCAACTCATCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
818406 CA
1 CA
818408 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.21
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:818460 original size:175 final size:173
Alignment explanation
Indices: 818216--818530 Score: 488
Period size: 175 Copynumber: 1.8 Consensus size: 173
818206 GTGAGCCAAG
* ** * *
818216 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACTTAACTTGAAAAGCAGATTTTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAACAGAAATTGAAAAACAGATTTTGA
* * * * *
818281 AAATACCTCGATATGTGACCGGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAGAA
66 AAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTGAAAAA
818346 -CAGAAATTAAGAGACTCAACTCAACTCTCGCAGAAATTAAAAA
130 GCAGAAATTAAGAGACTCAACTCAACTCTCGCAGAAATTAAAAA
*
818389 GCTCAACTCATCTCTCGCAATATGAGTTGAAATTTTTTGAAAACAGAAATTGAAAAACAGATTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTG-AATTTTTTG-AAACAGAAATTGAAAAACAGATTTT
818454 GAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAA
64 GAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAA
*
818519 AGTAGAAATTAA
129 AGCAGAAATTAA
818531 AAGGTTCAAC
Statistics
Matches: 127, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
173 28 0.22
174 17 0.13
175 82 0.65
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (173 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAACAGAAATTGAAAAACAGATTTTGA
AAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAG
CAGAAATTAAGAGACTCAACTCAACTCTCGCAGAAATTAAAAA
Found at i:818686 original size:72 final size:72
Alignment explanation
Indices: 818536--818730 Score: 250
Period size: 72 Copynumber: 2.7 Consensus size: 72
818526 ATTAAAAGGT
* * * * * * * *
818536 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TATTGAAAAACAAAAATTGAAAATACCTCAGCGTGC
*
818601 CCTGAGGC
65 CCCGAGGC
*
818609 TCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAA-ACAAAAATTGAAAATACCTCAGCGTGC
818673 CCCGAGGC
65 CCCGAGGC
* *
818681 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATT-AAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAAACAAAAATTGAAAA
818731 GGCTTAACTC
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
71 7 0.07
72 69 0.64
73 31 0.29
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATATTGAAAAACAAAAATTGAAAATACCTCAGCGTGCC
CCGAGGC
Found at i:818887 original size:260 final size:261
Alignment explanation
Indices: 818536--819089 Score: 961
Period size: 260 Copynumber: 2.1 Consensus size: 261
818526 ATTAAAAGGT
* * * * *
818536 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAGATTACCTCATCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGACAAACAGAAATTAAAAATACCTCAACGTGT
818601 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTC
65 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTC
818666 AGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAAACAAAAATTAAA
130 AGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAACAAAAATTAAA
818730 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAAATACCTCAGCGTGCCCCGA
195 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAAATACCTCAGCGTG-CCCGA
818795 GGC
259 GGC
*
818798 TCAACTCACTTCTCGCAATATGAGTTGATTTTGA-AAACA-ACAATTAAAAATACCTCAACGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGA-AATTAAAAATACCTCAACGTGT
* * * *
818861 CTTGAGGCTCAACTCATCTGTCGCAATATGAGTTGAAATTAAAATACAAAAATTGAAAATACCTC
65 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTC
*
818926 AGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAACAAAAATTAAA
130 AGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAACAAAAATTAAA
818991 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAAATACCTCAGCGTGCCCGAG
195 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAAATACCTCAGCGTGCCCGAG
819056 GC
260 GC
819058 TCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTT
819090 CCTTGAAAAG
Statistics
Matches: 278, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
259 1 0.00
260 170 0.61
261 79 0.28
262 28 0.10
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (261 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTAAAAATACCTCAACGTGTC
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCA
GCGTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAACAAAAATTAAAA
GGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAAATACCTCAGCGTGCCCGAGG
C
Found at i:818888 original size:71 final size:70
Alignment explanation
Indices: 818772--818982 Score: 280
Period size: 72 Copynumber: 3.0 Consensus size: 70
818762 TTTAAAACTA
*
818772 AAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACA
1 AAAAATACCTCAGCGTGTCCCGAGGCTCAACTCAC-TCTCGCAATATGAGTTGATTTTGAAAACA
818837 ACAATT
65 ACAATT
* ** * ** *
818843 AAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTGTCGCAATATGAGTTGAAATTAAAATAC
1 AAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTGAAA-AC
*
818908 AAAAATT
64 AACAATT
* *
818915 GAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAA-A
1 AAAAATACCTCAGCGTGTCCCGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTGAAAACA
818979 ACAA
65 ACAA
818983 AAATTAAAAG
Statistics
Matches: 118, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
70 4 0.03
71 53 0.45
72 61 0.52
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (70 bp):
AAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTGAAAACAA
CAATT
Found at i:819967 original size:6 final size:6
Alignment explanation
Indices: 819956--819989 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
819946 GATCCCTCTC
819956 TCTTTT TCTTTT TCTTTT TC-TTT TCTTTT T-TTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
819990 AAGATGCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 9 0.33
6 18 0.67
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TCTTTT
Found at i:819973 original size:12 final size:12
Alignment explanation
Indices: 819956--819989 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
819946 GATCCCTCTC
819956 TCTTTTTCTTTT
1 TCTTTTTCTTTT
819968 TCTTTTTC-TTT
1 TCTTTTTCTTTT
819979 TCTTTTT-TTTT
1 TCTTTTTCTTTT
819990 AAGATGCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (12 bp):
TCTTTTTCTTTT
Found at i:831698 original size:11 final size:11
Alignment explanation
Indices: 831682--831711 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
831672 TAACATTAAG
831682 AATATATATAT
1 AATATATATAT
*
831693 AATATAAATAT
1 AATATATATAT
831704 AATATATA
1 AATATATA
831712 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:832424 original size:12 final size:12
Alignment explanation
Indices: 832407--832436 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
832397 GATGGTAGAC
832407 AATGGGAGGAAA
1 AATGGGAGGAAA
832419 AATGGGAGGAAA
1 AATGGGAGGAAA
832431 AATGGG
1 AATGGG
832437 GCAAGTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.43, T:0.10
Consensus pattern (12 bp):
AATGGGAGGAAA
Found at i:832500 original size:23 final size:22
Alignment explanation
Indices: 832462--832520 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 22
832452 GTTAGGTGGC
* *
832462 TAGGTTTTTTAGTTTTTTTTTGT
1 TAGGTTTTTT-TTTTTTTTTTTT
*
832485 TAGGTTTTTTTTTTTTCTTTTT
1 TAGGTTTTTTTTTTTTTTTTTT
832507 T---TTTTTTTTTTTTT
1 TAGGTTTTTTTTTTTTT
832521 GGGTTAGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 12 0.38
22 10 0.31
23 10 0.31
ACGTcount: A:0.05, C:0.02, G:0.10, T:0.83
Consensus pattern (22 bp):
TAGGTTTTTTTTTTTTTTTTTT
Found at i:832535 original size:1 final size:1
Alignment explanation
Indices: 832489--832520 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
832479 TTTTGTTAGG
*
832489 TTTTTTTTTTTTCTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
832521 GGGTTAGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:837501 original size:103 final size:102
Alignment explanation
Indices: 837322--837651 Score: 543
Period size: 103 Copynumber: 3.2 Consensus size: 102
837312 TTATGTGTTC
* * *
837322 TATTTGAAACACTTTAGCATTAACTTAATTTTGTATTATGAAGCTCTTGAAAAATCATTATTTGA
1 TATTTTAAACATTTTAGCATTCACTTAATTTTGTATTATGAAGCTCTTG-AAAATCATTATTTGA
837387 GCACCTTCGAAAAGGTTTGACCTTTATACGAGCATTTA
65 GCACCTTCGAAAAGGTTTGACCTTTATACGAGCATTTA
837425 TATTTTAAACATTTTAGCATTCACTTAATTTTGTATTATGAAGCTCTTGAAAATTCATTATTTGA
1 TATTTTAAACATTTTAGCATTCACTTAATTTTGTATTATGAAGCTCTTGAAAA-TCATTATTTGA
837490 GCACCTTCGAAAAGGTTTGACCTTTATACGAGCATTTA
65 GCACCTTCGAAAAGGTTTGACCTTTATACGAGCATTTA
* * *
837528 TATTTTAAACATTTTAGCATTCACTTAATTTTGTATTATGAGGCTCTTGTAAAACCTTTATTTGA
1 TATTTTAAACATTTTAGCATTCACTTAATTTTGTATTATGAAGCTCTTG-AAAATCATTATTTGA
* * *
837593 ACACCTTCGAAAAGGTTTGACCTTTATACAAGTATTTA
65 GCACCTTCGAAAAGGTTTGACCTTTATACGAGCATTTA
*
837631 TATTTTAAACATTTTAACATT
1 TATTTTAAACATTTTAGCATT
837652 TATGAGGCGC
Statistics
Matches: 215, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
102 4 0.02
103 207 0.96
104 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (102 bp):
TATTTTAAACATTTTAGCATTCACTTAATTTTGTATTATGAAGCTCTTGAAAATCATTATTTGAG
CACCTTCGAAAAGGTTTGACCTTTATACGAGCATTTA
Found at i:847234 original size:129 final size:129
Alignment explanation
Indices: 846975--847227 Score: 434
Period size: 129 Copynumber: 2.0 Consensus size: 129
846965 AATATTGATC
* *
846975 ATTTGAAGATTCAAATAGAATGTTTTGAAGCTTGGATACTAATTTAAAACCTAAGTCATAGTTCA
1 ATTTGAAGATTCAAATAAAATGTTTTGAAGCTTGAATACTAATTTAAAACCTAAGTCATAGTTCA
* * *
847040 AGCAATGTTGTTGGAACCATATTGGATCGTCTAGTCAGATTGGTTGGATCAAGAATTGACCGGT
66 AGCAATGTTGTTGGAACCATATTCGACCGTCTAGTCAAATTGGTTGGATCAAGAATTGACCGGT
*
847104 ATTTGAAGATTCAAATAAAATGTTTTGAAGCTTGAATACTAATTTAAAACCTAAGTCATAGTTCG
1 ATTTGAAGATTCAAATAAAATGTTTTGAAGCTTGAATACTAATTTAAAACCTAAGTCATAGTTCA
**
847169 AGCAATGTTGTTGGAACCATATTCGACCGTCTAGTCAAATTGGTTGGATCGGGAATTGA
66 AGCAATGTTGTTGGAACCATATTCGACCGTCTAGTCAAATTGGTTGGATCAAGAATTGA
847228 TTGGTATACC
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 116 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (129 bp):
ATTTGAAGATTCAAATAAAATGTTTTGAAGCTTGAATACTAATTTAAAACCTAAGTCATAGTTCA
AGCAATGTTGTTGGAACCATATTCGACCGTCTAGTCAAATTGGTTGGATCAAGAATTGACCGGT
Found at i:847778 original size:16 final size:16
Alignment explanation
Indices: 847757--847789 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
847747 GACTCATATT
847757 TTAAATTAAAT-TAAAA
1 TTAAA-TAAATATAAAA
847773 TTAAATAAATATAAAA
1 TTAAATAAATATAAAA
847789 T
1 T
847790 ATATTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAATAAATATAAAA
Found at i:851926 original size:2 final size:2
Alignment explanation
Indices: 851921--851957 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
851911 TATCAATCTT
851921 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
851958 CTTATGAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:854953 original size:14 final size:15
Alignment explanation
Indices: 854934--854966 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
854924 GTCTAAATAA
854934 AATCATA-AATTTAT
1 AATCATATAATTTAT
854948 AATCATATTAATTTAT
1 AATCATA-TAATTTAT
854964 AAT
1 AAT
854967 TTCGTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
16 10 0.59
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
AATCATATAATTTAT
Found at i:856432 original size:16 final size:17
Alignment explanation
Indices: 856405--856436 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
856395 TAATAAATGA
856405 TAAATATATAAAATTAT
1 TAAATATATAAAATTAT
856422 TAAATAT-TAAAATTA
1 TAAATATATAAAATTA
856437 AAATTACATA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATATAAAATTAT
Found at i:858944 original size:9 final size:9
Alignment explanation
Indices: 858926--858962 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
858916 GAAATAGCAT
858926 CATCATCAC
1 CATCATCAC
*
858935 CATCACCAC
1 CATCATCAC
858944 CATCATCAC
1 CATCATCAC
858953 CATCATCAC
1 CATCATCAC
858962 C
1 C
858963 CTCGTCCTCT
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:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (9 bp):
CATCATCAC
Found at i:863822 original size:20 final size:21
Alignment explanation
Indices: 863786--863825 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
863776 GGTAATTATG
863786 GATGAAAAAATAATTCGAATTC
1 GATGAAAAAAT-ATTCGAATTC
863808 GATGAAAAAAT-TTCGAAT
1 GATGAAAAAATATTCGAAT
863826 AAGATAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (21 bp):
GATGAAAAAATATTCGAATTC
Found at i:867624 original size:14 final size:14
Alignment explanation
Indices: 867599--867640 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
867589 TTGAACCCTA
867599 AATCTC-AATCTTG
1 AATCTCAAATCTTG
867612 AATCTCAAATCTTG
1 AATCTCAAATCTTG
*
867626 AA-CTCAAATATTG
1 AATCTCAAATCTTG
867639 AA
1 AA
867641 CATTGAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (14 bp):
AATCTCAAATCTTG
Found at i:868546 original size:21 final size:21
Alignment explanation
Indices: 868520--868569 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
868510 ATATCTTTAT
*
868520 AATTTTTAAAGGATTAAATTA
1 AATTTTTAAAGGATTAAATCA
*
868541 AATTTTTAAATGATTAAATCA
1 AATTTTTAAAGGATTAAATCA
868562 AATTTTTA
1 AATTTTTA
868570 TAATTTTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (21 bp):
AATTTTTAAAGGATTAAATCA
Found at i:868779 original size:30 final size:30
Alignment explanation
Indices: 868740--868805 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
868730 TACTTAAAAA
868740 TAAGAATACAATCAATCTCCACTTCAATTCG
1 TAAG-ATACAATCAATCTCCACTTCAATTCG
868771 TAAGATACAATCAATCTCCACTTCAATTCG
1 TAAGATACAATCAATCTCCACTTCAATTCG
868801 TAAGA
1 TAAGA
868806 CATAAAATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (30 bp):
TAAGATACAATCAATCTCCACTTCAATTCG
Found at i:874735 original size:104 final size:104
Alignment explanation
Indices: 874555--874762 Score: 389
Period size: 104 Copynumber: 2.0 Consensus size: 104
874545 TAATTTCTCT
874555 ATGGACGAGTGTATAATAATAACTTCATGTCTTTAAATTTGATGAAGTGACAAAATTACATCGAT
1 ATGGACGAGTGTATAATAATAACTTCATGTCTTTAAATTTGATGAAGTGACAAAATTACATCGAT
874620 GCTTAAAAATTTTAATTTTTAAAATCATCCTTAGATAAA
66 GCTTAAAAATTTTAATTTTTAAAATCATCCTTAGATAAA
* *
874659 ATGGACGAGTGTATAATAATAATTTCATGTCTTTAAATTTGATGAAGTGACAAAATTATATCGAT
1 ATGGACGAGTGTATAATAATAACTTCATGTCTTTAAATTTGATGAAGTGACAAAATTACATCGAT
*
874724 GCTTAAAAATTTTAATTTTTAGAATCATCCTTAGATAAA
66 GCTTAAAAATTTTAATTTTTAAAATCATCCTTAGATAAA
874763 TTATTCCAAA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 101 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.38
Consensus pattern (104 bp):
ATGGACGAGTGTATAATAATAACTTCATGTCTTTAAATTTGATGAAGTGACAAAATTACATCGAT
GCTTAAAAATTTTAATTTTTAAAATCATCCTTAGATAAA
Found at i:878979 original size:29 final size:29
Alignment explanation
Indices: 878947--879014 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 29
878937 TTAGTATATA
878947 TATACTTT-AAGTTGGTTAATTTTAG-CTCC
1 TATACTTTGAA-TTGGTTAATTTTAGTC-CC
878976 TATACTCTTTGAATTGGTTAATTTTAGTCCC
1 TATA--CTTTGAATTGGTTAATTTTAGTCCC
879007 TATACTTT
1 TATACTTT
879015 TCAAATTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
29 8 0.23
31 24 0.69
32 3 0.09
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.50
Consensus pattern (29 bp):
TATACTTTGAATTGGTTAATTTTAGTCCC
Found at i:880244 original size:32 final size:31
Alignment explanation
Indices: 880115--880266 Score: 123
Period size: 31 Copynumber: 4.8 Consensus size: 31
880105 GCTTTTTTGA
*
880115 CTCTCAAAATTTTTGAAAATTTTAATTACA-CC
1 CTCT-AAAATTTTTAAAAATTTTAATTA-AGCC
** * *
880147 CT-TAATTTTTTTAGAAATTTTAATTAATCC
1 CTCTAAAATTTTTAAAAATTTTAATTAAGCC
* * * * *
880177 ATGTAAAAGTTTTGAAAATTTTAATT-AGACT
1 CTCTAAAATTTTTAAAAATTTTAATTAAG-CC
880208 CTCTAAAATTTTTAAAAATTTTCAATTAAGCC
1 CTCTAAAATTTTTAAAAATTTT-AATTAAGCC
*
880240 CTCT-AAATGTTTTAAAAACTTTGAATT
1 CTCTAAAAT-TTTTAAAAA-TTTTAATT
880267 CTCTTTAAGC
Statistics
Matches: 95, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
29 1 0.01
30 23 0.24
31 42 0.44
32 24 0.25
33 5 0.05
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (31 bp):
CTCTAAAATTTTTAAAAATTTTAATTAAGCC
Found at i:888443 original size:28 final size:28
Alignment explanation
Indices: 888378--888450 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 28
888368 TTGATTATTT
*
888378 TTAATAATATA-AAAATTAAATTAATTCA
1 TTAATAATA-ACAAAATTAAATTAATCCA
*
888406 TTAATAATAACAAAATTAATTTAATCCAA
1 TTAATAATAACAAAATTAAATTAATCC-A
888435 TTCATATAAT-ACAAAA
1 TT-A-ATAATAACAAAA
888451 ACTTTTCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 1 0.03
28 23 0.59
29 3 0.08
30 7 0.18
31 5 0.13
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (28 bp):
TTAATAATAACAAAATTAAATTAATCCA
Found at i:890932 original size:52 final size:52
Alignment explanation
Indices: 890714--891058 Score: 432
Period size: 52 Copynumber: 6.7 Consensus size: 52
890704 AGCCCCACAA
* * *
890714 TTAATCCTACCTCAATTAGGATTTATATAAGCTTATCTTTTTAGTTTTTCGT
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCAT
*
890766 TTAATCCCA-CTCTATTAGGATTTATATAA--TT-T-TTTTTAATTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCAT
* * * *
890813 TTAATCCCACCTTAATTATGA-TAATATAAGCTTATCTTTTTATTTTTTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTA---ATTTTTCAT
* * * *
890867 TTAATCCCACCTCAATTAGGATTGAAATAAGTTTTTCTTTTTAATTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCAT
* *
890919 TTAATCCCACCTCAATTAGGATTTATATAAGTTTATCTTTTTAATTTTTTGAT
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAA-TTTTTCAT
* * * *
890972 TTAATCTCACCTTAATTAGGAGTTATATAAGCTTATCCTTTTAATTTTTCAT
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCAT
* *
891024 TTAATCCCACATCAATTAGGATTTATATAAACTTA
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTA
891059 CGTAATTTAC
Statistics
Matches: 252, Mismatches: 31, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
47 29 0.12
48 9 0.04
49 4 0.02
50 1 0.00
51 25 0.10
52 94 0.37
53 46 0.18
54 27 0.11
55 17 0.07
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.50
Consensus pattern (52 bp):
TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTCAT
Found at i:891020 original size:105 final size:102
Alignment explanation
Indices: 890714--891058 Score: 423
Period size: 105 Copynumber: 3.3 Consensus size: 102
890704 AGCCCCACAA
* * *
890714 TTAATCCTACCTCAATTAGGATTTATATAAGCTTATCTTTTTAGTTTTTCG-TTTAATCCCA-CT
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTTGATTTAATCCCACCT
890777 CT-ATTAGGATTTATATAA-TTT-TTTTTAATTTTTCAT
66 -TAATTAGGA-TTATATAAGTTTCTTTTTAATTTTTCAT
* * * * *
890813 TTAATCCCACCTTAATTATGA-TAATATAAGCTTATCTTTTTATTTTTTTTTCATTTAATCCCAC
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTA--ATTTTTTGATTTAATCCCAC
* *
890877 CTCAATTAGGATTGAAATAAGTTTTTCTTTTTAATTTTTCAT
64 CTTAATTAGGATT-ATATAAG--TTTCTTTTTAATTTTTCAT
* *
890919 TTAATCCCACCTCAATTAGGATTTATATAAGTTTATCTTTTTAATTTTTTGATTTAATCTCACCT
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTTGATTTAATCCCACCT
*
890984 TAATTAGGAGTTATATAAGCTTATCCTTTTAATTTTTCAT
66 TAATTAGGA-TTATATAAG-TT-TCTTTTTAATTTTTCAT
* *
891024 TTAATCCCACATCAATTAGGATTTATATAAACTTA
1 TTAATCCCACCTCAATTAGGATTTATATAAGCTTA
891059 CGTAATTTAC
Statistics
Matches: 210, Mismatches: 23, Indels: 20
0.83 0.09 0.08
Matches are distributed among these distances:
98 20 0.10
99 18 0.09
100 5 0.02
101 12 0.06
102 14 0.07
104 2 0.01
105 84 0.40
106 36 0.17
107 19 0.09
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.50
Consensus pattern (102 bp):
TTAATCCCACCTCAATTAGGATTTATATAAGCTTATCTTTTTAATTTTTTGATTTAATCCCACCT
TAATTAGGATTATATAAGTTTCTTTTTAATTTTTCAT
Found at i:891658 original size:4 final size:4
Alignment explanation
Indices: 891649--891678 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
891639 TCATCCAATG
*
891649 ATAC ATAC ATAC ATAT ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
891679 GTATCCACGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (4 bp):
ATAC
Found at i:895914 original size:6 final size:6
Alignment explanation
Indices: 895903--895945 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
895893 TTAAAATTTT
*
895903 ATAAAA ATAAAA ATAAATA CATAAAA ATAAGAA ATAAAT ATAA
1 ATAAAA ATAAAA ATAAA-A -ATAAAA ATAA-AA ATAAAA ATAA
895946 TATATACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 20 0.61
7 8 0.24
8 5 0.15
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (6 bp):
ATAAAA
Found at i:895928 original size:20 final size:21
Alignment explanation
Indices: 895903--895942 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
895893 TTAAAATTTT
895903 ATAAAAATAA-AAATAAATAC
1 ATAAAAATAAGAAATAAATAC
895923 ATAAAAATAAGAAATAAATA
1 ATAAAAATAAGAAATAAATA
895943 TAATATATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (21 bp):
ATAAAAATAAGAAATAAATAC
Found at i:905499 original size:2 final size:2
Alignment explanation
Indices: 905492--905516 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
905482 AGATTAAATT
905492 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
905517 TTTTTTTTTT
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:906570 original size:30 final size:31
Alignment explanation
Indices: 906534--906595 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
906524 GCTTGGATCA
*
906534 AATGTACAATATATATA-AAAAAAAATGTGG
1 AATGTACAATATATATATAAAAAAAATATGG
*
906564 AATGTACAATATATATATACAAAAAATATGG
1 AATGTACAATATATATATAAAAAAAATATGG
906595 A
1 A
906596 TAAGGTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 17 0.59
31 12 0.41
ACGTcount: A:0.56, C:0.05, G:0.11, T:0.27
Consensus pattern (31 bp):
AATGTACAATATATATATAAAAAAAATATGG
Found at i:907818 original size:11 final size:11
Alignment explanation
Indices: 907790--907819 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
907780 TAGAAGTAAT
*
907790 AAGAAAAATAA
1 AAGAAATATAA
907801 AAGAAATATAA
1 AAGAAATATAA
907812 AAGAAATA
1 AAGAAATA
907820 CATACCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (11 bp):
AAGAAATATAA
Found at i:918791 original size:15 final size:15
Alignment explanation
Indices: 918740--918810 Score: 56
Period size: 16 Copynumber: 4.5 Consensus size: 15
918730 ATATAACTGT
*
918740 TTAATATATATTAGAAA
1 TTAA-ATATATT-CAAA
918757 TTAAATATCA-TCAAA
1 TTAAATAT-ATTCAAA
*
918772 TTTAAATATATTTAAA
1 -TTAAATATATTCAAA
918788 TTAAATAT-TTACAAA
1 TTAAATATATT-CAAA
918803 TATAAATA
1 T-TAAATA
918811 AATTTCGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
14 2 0.04
15 16 0.35
16 23 0.50
17 5 0.11
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (15 bp):
TTAAATATATTCAAA
Found at i:918809 original size:31 final size:31
Alignment explanation
Indices: 918745--918849 Score: 83
Period size: 31 Copynumber: 3.4 Consensus size: 31
918735 ACTGTTTAAT
* *
918745 ATATATTAGAAATTAAATATCATCAAATTTAA
1 ATATATT-TAAATTAAATATCATCAAATATAA
*
918777 ATATATTTAAATTAAATAT-TTACAAATATAA
1 ATATATTTAAATTAAATATCAT-CAAATATAA
* * * * *
918808 ATAAATTTCGAA-TATATAT-AT-ATATATAT
1 ATATATTT-AAATTAAATATCATCAAATATAA
918837 ATATATTTAAATT
1 ATATATTTAAATT
918850 TAGTTGAGTT
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
28 2 0.03
29 14 0.24
30 1 0.02
31 33 0.56
32 9 0.15
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (31 bp):
ATATATTTAAATTAAATATCATCAAATATAA
Found at i:931353 original size:13 final size:13
Alignment explanation
Indices: 931337--931361 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
931327 AATTTGATAA
931337 AAATCAATTTTTC
1 AAATCAATTTTTC
931350 AAATCAATTTTT
1 AAATCAATTTTT
931362 GGAAGAGTAT
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:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATCAATTTTTC
Found at i:937606 original size:17 final size:18
Alignment explanation
Indices: 937584--937621 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
937574 CGTTTGGAAT
937584 TTTTTAA-AAATTATATA
1 TTTTTAATAAATTATATA
* *
937601 TTTTTAATAAGTTATTTA
1 TTTTTAATAAATTATATA
937619 TTT
1 TTT
937622 GTTTTGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTTAATAAATTATATA
Found at i:942200 original size:113 final size:107
Alignment explanation
Indices: 942026--942298 Score: 336
Period size: 109 Copynumber: 2.5 Consensus size: 107
942016 GGAAGAACTG
942026 AACCAGTTTATATGTAACAAAACTGGACATGTTT-AAGCTTTAGCTTGGTGTCTGTAATCTAAGC
1 AACCAGTTTATATGT-A-AAAACTGGACATGTTTAAAGC-TTAGCTTGGTGTCTGTAATCTAAGC
* * *
942090 TATAGCCTAGTGTTTTACCGTTGACTGTTTGTTTTAGTG-TT-ATTAGGACTA
63 TAGAG-CTAGTGTTTTA-C--TG--T-TTT-ATTTAGTGTTTAATGAGGACTA
* *
942141 AACCAGTTTACATGTAAAAACTGGACATGTTTAAAGCTTAGCTTGGTGTCTGTAATCTAAGCTGG
1 AACCAGTTTATATGTAAAAACTGGACATGTTTAAAGCTTAGCTTGGTGTCTGTAATCTAAGCTAG
*
942206 AGCTTGTGTTTTACTGTTTTATTTAGTGTTTTAAATGAGGACTA
66 AGCTAGTGTTTTACTGTTTTATTTAGTG-TTT-AATGAGGACTA
* *
942250 AACCAGTTTATATGTAAGAACTGGGCATGTTTAAAGCTTAGCTTGGTGT
1 AACCAGTTTATATGTAAAAACTGGACATGTTTAAAGCTTAGCTTGGTGT
942299 GTTTATAAAT
Statistics
Matches: 144, Mismatches: 9, Indels: 16
0.85 0.05 0.09
Matches are distributed among these distances:
105 7 0.05
106 3 0.02
107 3 0.02
109 57 0.40
111 1 0.01
112 10 0.07
113 44 0.31
114 5 0.03
115 14 0.10
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (107 bp):
AACCAGTTTATATGTAAAAACTGGACATGTTTAAAGCTTAGCTTGGTGTCTGTAATCTAAGCTAG
AGCTAGTGTTTTACTGTTTTATTTAGTGTTTAATGAGGACTA
Found at i:942822 original size:185 final size:195
Alignment explanation
Indices: 942481--942841 Score: 564
Period size: 197 Copynumber: 1.9 Consensus size: 195
942471 TGGACCTAGT
942481 GTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATCCAAGTTCAGCACCAGAAGCTAAAATCA
1 GTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATCCAAGTTCAGCACCAGAAGCTAAAATCA
* *
942546 TCTCCCACAACAGACCCTAGCTAGTCTTTATATATACATATATATGTGGAGTTTTGACAAAACCA
66 TCTACCAC-ACAGACCCTAGCTAGTC-TTATATATA-ATATATA-GTGGAGCTTTGACAAAACCA
* *
942611 GTTTATATGTAAGAACTGGACATGTTTAA-CTCT-T-AGCTTGGTGTGTTTCTAAATGGACCTAT
127 ATTTACATGTAAGAACTGGACATGTTTAAGCT-TATAAGCTTGGTGTGTTTCTAAATGGACCTAT
942673 ATATC
191 ATATC
942678 GTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATCCAAGTTCAGCACCAGAAGCTAAAATCA
1 GTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATCCAAGTTCAGCACCAGAAGCTAAAATCA
942743 TCTACC-C-C-GACCCTAGCTAGTC-T-T-TAT-ATATATA-TGGAGCTTTGACAAAACCAATTT
66 TCTACCACACAGACCCTAGCTAGTCTTATATATAATATATAGTGGAGCTTTGACAAAACCAATTT
942800 ACATGTAAGAACTGGACATGTTTAAGCTTATAAGCTTGGTGT
131 ACATGTAAGAACTGGACATGTTTAAGCTTATAAGCTTGGTGT
942842 CTGCAATCTA
Statistics
Matches: 157, Mismatches: 4, Indels: 16
0.89 0.02 0.09
Matches are distributed among these distances:
185 46 0.29
186 3 0.02
187 17 0.11
189 3 0.02
190 1 0.01
191 1 0.01
193 14 0.09
194 1 0.01
196 1 0.01
197 70 0.45
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (195 bp):
GTTTAACTGTTAAATGATGGAGTCACCATTGCTGAATCCAAGTTCAGCACCAGAAGCTAAAATCA
TCTACCACACAGACCCTAGCTAGTCTTATATATAATATATAGTGGAGCTTTGACAAAACCAATTT
ACATGTAAGAACTGGACATGTTTAAGCTTATAAGCTTGGTGTGTTTCTAAATGGACCTATATATC
Found at i:943124 original size:26 final size:26
Alignment explanation
Indices: 943094--943156 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
943084 TAATATTAAT
943094 TTTAA-TTTTTAATATTTATATATTGG
1 TTTAATTTTTTAATATTTAT-TATTGG
* *
943120 TTTAATTTTTTAATTTTTATTATT-T
1 TTTAATTTTTTAATATTTATTATTGG
943145 TTTAATATTTTT
1 TTTAAT-TTTTT
943157 GCCTGAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 6 0.18
26 14 0.42
27 13 0.39
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (26 bp):
TTTAATTTTTTAATATTTATTATTGG
Found at i:954180 original size:141 final size:143
Alignment explanation
Indices: 953903--954181 Score: 420
Period size: 141 Copynumber: 2.0 Consensus size: 143
953893 ACTGGTATGA
*
953903 TTTTACTTCTTATAATTCTTTTGCTTATCAACTTAATAGGATGTTTTACTAATAATTGTAGGTCA
1 TTTTACTTCTTATAATTCTTTTGCTTATCAACTTAATAGGATGTTTTAC-AATAATTGTAGGTAA
* * * * * * *
953968 ACAACAAGCATCCTTGTTTGTACTGCTGAGAAAATTCAAAATTGTATTTGAAATGCACACATGTA
65 ACAACAAGCATCCTTGTTTCTACTACTCAGAAAATTCAAAATTATATTTGAAACGCAAACATCTA
954033 TACATATAGTATAC
130 TACATATAGTATAC
*
954047 TTTTACTTCTTATAGTTCTTTTGCTTATCAACTTAATAGGATGTTTTAC-A-AATTGTAGGTAAA
1 TTTTACTTCTTATAATTCTTTTGCTTATCAACTTAATAGGATGTTTTACAATAATTGTAGGTAAA
*
954110 CAACAAGCATCCTTGTTTCTAC-ACTTCAGAAAATTCAAAATTATATTTGACACGCAAACATCTA
66 CAACAAGCATCCTTGTTTCTACTAC-TCAGAAAATTCAAAATTATATTTGAAACGCAAACATCTA
*
954174 TGCATATA
130 TACATATA
954182 TACATATAAG
Statistics
Matches: 123, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
140 1 0.01
141 73 0.59
142 1 0.01
144 48 0.39
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (143 bp):
TTTTACTTCTTATAATTCTTTTGCTTATCAACTTAATAGGATGTTTTACAATAATTGTAGGTAAA
CAACAAGCATCCTTGTTTCTACTACTCAGAAAATTCAAAATTATATTTGAAACGCAAACATCTAT
ACATATAGTATAC
Found at i:958013 original size:24 final size:24
Alignment explanation
Indices: 957981--958033 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
957971 TGTCTGCTAA
957981 CATGTCTATTCTCAGAAAATTTCT
1 CATGTCTATTCTCAGAAAATTTCT
958005 CATGTCTATTCTCAGAAAATTTCT
1 CATGTCTATTCTCAGAAAATTTCT
958029 CATGT
1 CATGT
958034 GTAATGCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (24 bp):
CATGTCTATTCTCAGAAAATTTCT
Found at i:964709 original size:18 final size:18
Alignment explanation
Indices: 964677--964747 Score: 54
Period size: 18 Copynumber: 3.9 Consensus size: 18
964667 TGTTATTCTT
* *
964677 GTTGTTGCTATTGTTGCC
1 GTTGTTGTTACTGTTGCC
* *
964695 GTTGTTGTTACTGTTACT
1 GTTGTTGTTACTGTTGCC
* * *
964713 GTTGCTGTTGCCGTTGCC
1 GTTGTTGTTACTGTTGCC
*
964731 GTTGCTT-TTGCTGTTGC
1 GTTG-TTGTTACTGTTGC
964748 TGTTTCATGC
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
18 40 0.98
19 1 0.02
ACGTcount: A:0.04, C:0.18, G:0.28, T:0.49
Consensus pattern (18 bp):
GTTGTTGTTACTGTTGCC
Found at i:964722 original size:6 final size:6
Alignment explanation
Indices: 964688--964751 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
964678 TTGTTGCTAT
* * * * * *
964688 TGTTGC CGTTGT TGTTAC TGTTAC TGTTGC TGTTGC CGTTGC CGTTGC
1 TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC TGTTGC
*
964736 TTTTGC TGTTGC TGTT
1 TGTTGC TGTTGC TGTT
964752 TCATGCGATG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.03, C:0.19, G:0.28, T:0.50
Consensus pattern (6 bp):
TGTTGC
Found at i:964722 original size:30 final size:30
Alignment explanation
Indices: 964688--964751 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
964678 TTGTTGCTAT
**
964688 TGTTGCCGTTGTTGTTACTGTTACTGTTGC
1 TGTTGCCGTTGCCGTTACTGTTACTGTTGC
* * *
964718 TGTTGCCGTTGCCGTTGCTTTTGCTGTTGC
1 TGTTGCCGTTGCCGTTACTGTTACTGTTGC
964748 TGTT
1 TGTT
964752 TCATGCGATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.03, C:0.19, G:0.28, T:0.50
Consensus pattern (30 bp):
TGTTGCCGTTGCCGTTACTGTTACTGTTGC
Found at i:967017 original size:25 final size:25
Alignment explanation
Indices: 966976--967023 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
966966 GTAAAATGGG
**
966976 TTTAAAATAAGGTATATAAAATAAT
1 TTTAAAATAAGCAATATAAAATAAT
*
967001 TTTAAAATAAGCAATATATAATA
1 TTTAAAATAAGCAATATAAAATA
967024 GTTAATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.35
Consensus pattern (25 bp):
TTTAAAATAAGCAATATAAAATAAT
Found at i:968991 original size:3 final size:3
Alignment explanation
Indices: 968983--969014 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
968973 ACATAGAATA
968983 TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
969015 GGGATAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:971844 original size:18 final size:18
Alignment explanation
Indices: 971785--971846 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
971775 TATCAGTTTC
* *
971785 ATTCAGTAGCAATTAGTT
1 ATTCAGTAGCAGTCAGTT
* * *
971803 ATTCAGCAACAGTCATTT
1 ATTCAGTAGCAGTCAGTT
**
971821 GCTCAGTAGCAGTCAGTT
1 ATTCAGTAGCAGTCAGTT
971839 ATTCAGTA
1 ATTCAGTA
971847 ACAACCAATT
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (18 bp):
ATTCAGTAGCAGTCAGTT
Found at i:971879 original size:18 final size:18
Alignment explanation
Indices: 971853--971902 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
971843 AGTAACAACC
*
971853 AATTTTTCAATAATAATT
1 AATTATTCAATAATAATT
* * *
971871 GATTATTCAATAACAGTT
1 AATTATTCAATAATAATT
*
971889 AATTATTCAGTAAT
1 AATTATTCAATAAT
971903 GATCAGTCAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (18 bp):
AATTATTCAATAATAATT
Found at i:972118 original size:23 final size:23
Alignment explanation
Indices: 972029--972118 Score: 114
Period size: 23 Copynumber: 4.0 Consensus size: 23
972019 ACCTGATCAG
*
972029 TATACGACACAT-AAGTGCTTGA
1 TATACGACACATAAAGTGCCTGA
** *
972051 -A-ACGACACACGAGGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
*
972072 AATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
972095 TATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
972118 T
1 T
972119 CGACAAAACC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.14
21 9 0.16
22 1 0.02
23 40 0.69
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:975624 original size:17 final size:19
Alignment explanation
Indices: 975583--975624 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
975573 AATCTTCAAC
975583 CTTCAAGCTCCTCCTTTTT
1 CTTCAAGCTCCTCCTTTTT
975602 CTTTCAAGCTCCT-C-TTTT
1 C-TTCAAGCTCCTCCTTTTT
975620 CTTCA
1 CTTCA
975625 TTCGACTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.18
18 5 0.23
19 2 0.09
20 11 0.50
ACGTcount: A:0.12, C:0.36, G:0.05, T:0.48
Consensus pattern (19 bp):
CTTCAAGCTCCTCCTTTTT
Found at i:975690 original size:39 final size:39
Alignment explanation
Indices: 975647--975742 Score: 120
Period size: 39 Copynumber: 2.5 Consensus size: 39
975637 TTCTCTACTT
* *
975647 TCTGCATTCTTCCTTCAAGCTGCAGATTACTTCAATCTC
1 TCTGCTTTCTTCCTTCAAGCTGCAGATTACTTCAAGCTC
* * * *
975686 TCTGCTTTCTTCGTTCAAGCTTCCGATTCCTTCAAGCTC
1 TCTGCTTTCTTCCTTCAAGCTGCAGATTACTTCAAGCTC
* *
975725 ACTACTTTCTTCCTTCAA
1 TCTGCTTTCTTCCTTCAA
975743 CCCTCCTCAG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.18, C:0.32, G:0.09, T:0.41
Consensus pattern (39 bp):
TCTGCTTTCTTCCTTCAAGCTGCAGATTACTTCAAGCTC
Found at i:981910 original size:13 final size:13
Alignment explanation
Indices: 981892--981917 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
981882 AATAATAAAG
981892 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
981905 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
981918 GTGAATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAGAAA
Found at i:983696 original size:15 final size:15
Alignment explanation
Indices: 983676--983705 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
983666 CTTTTAAAAG
983676 TTAACTTTAGTTTTT
1 TTAACTTTAGTTTTT
983691 TTAACTTTAGTTTTT
1 TTAACTTTAGTTTTT
983706 ATCTAGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (15 bp):
TTAACTTTAGTTTTT
Found at i:988187 original size:2 final size:2
Alignment explanation
Indices: 988175--988207 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
988165 AAGATAGTCT
*
988175 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
988208 TTGTATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1004837 original size:15 final size:16
Alignment explanation
Indices: 1004817--1004846 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1004807 ATTATCAAGC
1004817 TTTTTATT-TTAAATA
1 TTTTTATTATTAAATA
1004832 TTTTTATTATTAAAT
1 TTTTTATTATTAAAT
1004847 TATGTTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTATTATTAAATA
Found at i:1009490 original size:26 final size:26
Alignment explanation
Indices: 1009460--1009513 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
1009450 TCCAAGCCTT
1009460 AAATTATTTAAGTCTGATTTAAGAAA
1 AAATTATTTAAGTCTGATTTAAGAAA
* * *
1009486 AAATTATTTAGGTTTGGTTTAAGAAA
1 AAATTATTTAAGTCTGATTTAAGAAA
1009512 AA
1 AA
1009514 TGTGATTGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.39
Consensus pattern (26 bp):
AAATTATTTAAGTCTGATTTAAGAAA
Found at i:1016508 original size:7 final size:7
Alignment explanation
Indices: 1016496--1016521 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1016486 CAGGCCATGC
1016496 TCATCTA
1 TCATCTA
1016503 TCATCTA
1 TCATCTA
1016510 TCATCTA
1 TCATCTA
1016517 TCATC
1 TCATC
1016522 GTTACAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (7 bp):
TCATCTA
Found at i:1017357 original size:35 final size:35
Alignment explanation
Indices: 1017311--1017383 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
1017301 ATTGGTTGTA
1017311 TCAATCCCCATTTGATGAAAAAGAAAGTGTTGATT
1 TCAATCCCCATTTGATGAAAAAGAAAGTGTTGATT
1017346 TCAATCCCCATTTGATGAAAAAGAAAGTGTTGATT
1 TCAATCCCCATTTGATGAAAAAGAAAGTGTTGATT
1017381 TCA
1 TCA
1017384 CTACATGCCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (35 bp):
TCAATCCCCATTTGATGAAAAAGAAAGTGTTGATT
Found at i:1017780 original size:173 final size:173
Alignment explanation
Indices: 1017457--1017805 Score: 673
Period size: 173 Copynumber: 2.0 Consensus size: 173
1017447 TAAATCTTTT
1017457 AAAATGTTAATATAGTCTTAAATTGGTGTGCTATTACCATAAATGGGTCATGATTAAAAGCACCT
1 AAAATGTTAATATAGTCTTAAATTGGTGTGCTATTACCATAAATGGGTCATGATTAAAAGCACCT
1017522 AGTCTCCCAAAAGGATTTAACCCTAGTGGGGTTGGATCAATCAACTATCTTTCAATTTAATGTTG
66 AGTCTCCCAAAAGGATTTAACCCTAGTGGGGTTGGATCAATCAACTATCTTTCAATTTAATGTTG
1017587 GGGGATAAATTCGTGTAAGCAACAAATAAGAAAAATAACGAAAA
131 GGGGATAAATTCGTGTAAGCAACAAATAAGAAAAATAAC-AAAA
1017631 AAAATGTTAATATAGTCTTAAATTGGTGTGCTATTACCATAAATGGGTCATGATTAAAAGCACCT
1 AAAATGTTAATATAGTCTTAAATTGGTGTGCTATTACCATAAATGGGTCATGATTAAAAGCACCT
*
1017696 AGTCTCCC-AAAGGATTTAACCCTAGTGGGGTTGGGTCAATCAACTATCTTTCAATTTAATGTTG
66 AGTCTCCCAAAAGGATTTAACCCTAGTGGGGTTGGATCAATCAACTATCTTTCAATTTAATGTTG
1017760 GGGGATAAATTCGTGTAAGCAACAAATAAGAAAAATAACAAAA
131 GGGGATAAATTCGTGTAAGCAACAAATAAGAAAAATAACAAAA
1017803 AAA
1 AAA
1017806 TTGAAAAGAT
Statistics
Matches: 174, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
172 7 0.04
173 94 0.54
174 73 0.42
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (173 bp):
AAAATGTTAATATAGTCTTAAATTGGTGTGCTATTACCATAAATGGGTCATGATTAAAAGCACCT
AGTCTCCCAAAAGGATTTAACCCTAGTGGGGTTGGATCAATCAACTATCTTTCAATTTAATGTTG
GGGGATAAATTCGTGTAAGCAACAAATAAGAAAAATAACAAAA
Found at i:1019641 original size:46 final size:44
Alignment explanation
Indices: 1019537--1019644 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
1019527 TGTCTTTGAC
** * * *
1019537 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
1019581 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
1019627 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
1019645 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:1022716 original size:18 final size:19
Alignment explanation
Indices: 1022683--1022718 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1022673 TTTACCTTTA
*
1022683 AATAAATAATTAAAAATCT
1 AATAAATAACTAAAAATCT
1022702 AATAAA-AACTAAAAATC
1 AATAAATAACTAAAAATC
1022719 AATTCAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (19 bp):
AATAAATAACTAAAAATCT
Found at i:1024168 original size:5 final size:5
Alignment explanation
Indices: 1024160--1024185 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1024150 ATATTATATC
1024160 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
1024186 AAGTCAGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:1036654 original size:2 final size:2
Alignment explanation
Indices: 1036647--1036681 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1036637 CCAGTCTGTA
*
1036647 TG TG TG TG TG TG TG TG TG TG TG TG TG CG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1036682 ATTATACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:1042215 original size:14 final size:14
Alignment explanation
Indices: 1042196--1042223 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1042186 AGTTGTTGGC
1042196 TGCTTAAAAAGGTT
1 TGCTTAAAAAGGTT
1042210 TGCTTAAAAAGGTT
1 TGCTTAAAAAGGTT
1042224 AAGTTCTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
TGCTTAAAAAGGTT
Found at i:1053348 original size:20 final size:21
Alignment explanation
Indices: 1053323--1053372 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
1053313 TTTTAGAGAT
*
1053323 TGTTTAAAATTT-AACATAAA
1 TGTTTAAAATTTAAAAATAAA
**
1053343 TGTTTAATTTTTAAAAATAAA
1 TGTTTAAAATTTAAAAATAAA
*
1053364 TGTTAAAAA
1 TGTTTAAAA
1053373 CATGTTATAG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (21 bp):
TGTTTAAAATTTAAAAATAAA
Found at i:1056287 original size:31 final size:31
Alignment explanation
Indices: 1056218--1056298 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
1056208 ATTTGATAAA
*
1056218 TCCTTATTTGAGCACTTTCAAAAATGTTTTG
1 TCCTTATTTGAGCACTTTCAAAAACGTTTTG
* * *
1056249 ACTCTTATTTGCGCATTTTC-AAAACGTTTTGG
1 TC-CTTATTTGAGCACTTTCAAAAACGTTTT-G
*
1056281 TCCTTATTTAAGCACTTT
1 TCCTTATTTGAGCACTTT
1056299 GAAAGGTTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
31 23 0.57
32 17 0.43
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (31 bp):
TCCTTATTTGAGCACTTTCAAAAACGTTTTG
Found at i:1064711 original size:21 final size:21
Alignment explanation
Indices: 1064687--1064726 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1064677 TTCCCTTTTA
**
1064687 CTAAAAATATTAAAATTAATT
1 CTAAAAATAAAAAAATTAATT
1064708 CTAAAAATAAAAAAATTAA
1 CTAAAAATAAAAAAATTAA
1064727 AAATGTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
CTAAAAATAAAAAAATTAATT
Found at i:1068355 original size:22 final size:22
Alignment explanation
Indices: 1068312--1068355 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1068302 CTTTTTTAAA
* *
1068312 AATATTTATATTATTTTAATTT
1 AATATTTATATAATTTAAATTT
1068334 AATATTTA-ATAATTTAATATTT
1 AATATTTATATAATTTAA-ATTT
1068356 TTCATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AATATTTATATAATTTAAATTT
Done.