Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 68 of 221
Found at i:19684174 original size:50 final size:49
Alignment explanation
Indices: 19684113--19684297 Score: 199
Period size: 51 Copynumber: 3.7 Consensus size: 49
19684103 TGAAAGTTAT
* * *
19684113 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TA
* * * *
19684163 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG--TA
* * * * *
19684214 GATCACGTGTGTAGTGCTATGTGCAAGCTACTACGTGTATCGGATAGTGA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-A
* *
19684264 TGGTTACATGTGTAGTACTATGTGTAGGCTACTA
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTA
19684298 TGTGAACCCG
Statistics
Matches: 109, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
49 1 0.01
50 41 0.38
51 67 0.61
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:19684448 original size:84 final size:84
Alignment explanation
Indices: 19684307--19684520 Score: 367
Period size: 84 Copynumber: 2.5 Consensus size: 84
19684297 ATGTGAACCC
* *
19684307 GTATCATTGATTATAAGGA-GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGG
1 GTATCATTGATTATAA-GATGGTTGCTAAGTGCTGATTCCACCGTGTCCTTGACTGTGAAAGGGG
19684371 TTACTATGTGCTGATTCCCT
65 TTACTATGTGCTGATTCCCT
19684391 GTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTCCACCGTGTCCTTGACTGTGAAAGGGGT
1 GTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTCCACCGTGTCCTTGACTGTGAAAGGGGT
* *
19684456 TGCTATGTTCTGATTCCCT
66 TACTATGTGCTGATTCCCT
*
19684475 GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTGT
1 GTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTCCACCGTGT
19684521 AACGGTTAAT
Statistics
Matches: 124, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
83 2 0.02
84 122 0.98
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (84 bp):
GTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTCCACCGTGTCCTTGACTGTGAAAGGGGT
TACTATGTGCTGATTCCCT
Found at i:19684469 original size:43 final size:41
Alignment explanation
Indices: 19684305--19684518 Score: 236
Period size: 42 Copynumber: 5.1 Consensus size: 41
19684295 CTATGTGAAC
19684305 CCGTATCATTGATTATAAGGAGGTTGCTAAGTGCTGATTCCA
1 CCGTATCATTGATTATAAGG-GGTTGCTAAGTGCTGATTCCA
* * * *
19684347 CCGTATCCTTGATTGTGAAAGGGGTTACTATGTGCTGATTCC-
1 CCGTATCATTGATTAT--AAGGGGTTGCTAAGTGCTGATTCCA
* *
19684389 CTGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTCCA
1 CCGTATCATTGATTATAAG-GGGTTGCTAAGTGCTGATTCCA
* * * *
19684431 CCGTGTCCTTGACTGTGA-AAGGGGTTGCTATGTTCTGATTCC-
1 CCGTATCATTGA-T-T-ATAAGGGGTTGCTAAGTGCTGATTCCA
*
19684473 CTGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA
1 CCGTATCATTGATTATAAGG-GGTTGCTAAGTGCTGATTCCA
19684515 CCGT
1 CCGT
19684519 GTAACGGTTA
Statistics
Matches: 140, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.01
40 8 0.06
41 37 0.26
42 48 0.34
43 37 0.26
44 8 0.06
45 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (41 bp):
CCGTATCATTGATTATAAGGGGTTGCTAAGTGCTGATTCCA
Found at i:19693670 original size:46 final size:45
Alignment explanation
Indices: 19693603--19693974 Score: 469
Period size: 46 Copynumber: 8.6 Consensus size: 45
19693593 TTTGAGTACT
*
19693603 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
19693649 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
19693695 TCTGATCAAGTGAAAAAGTGATAA---GT-G--T---TACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
19693731 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
19693777 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
19693813 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
19693859 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
19693905 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
19693950 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
19693975 ATCATATGTA
Statistics
Matches: 291, Mismatches: 15, Indels: 43
0.83 0.04 0.12
Matches are distributed among these distances:
36 58 0.20
38 1 0.00
39 4 0.01
40 4 0.01
41 1 0.00
42 5 0.02
43 17 0.06
44 6 0.02
45 19 0.07
46 176 0.60
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:19693728 original size:36 final size:36
Alignment explanation
Indices: 19693687--19693842 Score: 177
Period size: 36 Copynumber: 4.1 Consensus size: 36
19693677 TAGCATTAGC
19693687 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
* *
19693723 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAA---GT-G---T
*
19693766 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
1 ---TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
* *
19693805 TATACTTATCTGATCAAGTGACAAAGTGATAAGTGT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
19693841 TA
1 TA
19693843 GCCTTAGCTA
Statistics
Matches: 102, Mismatches: 8, Indels: 20
0.78 0.06 0.15
Matches are distributed among these distances:
36 65 0.64
39 2 0.02
40 1 0.01
42 1 0.01
43 3 0.03
46 30 0.29
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
Found at i:19693734 original size:82 final size:81
Alignment explanation
Indices: 19693641--19693974 Score: 456
Period size: 82 Copynumber: 4.0 Consensus size: 81
19693631 TAGCATTAGC
*
19693641 TACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGT
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGT
19693706 GAAAAAGTGATAAGTGT
65 GAAAAAGTGATAAGTGT
*
19693723 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGT
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGT
*
19693788 GAAAAAGTGATAAGTGC
65 GAAAAAGTGATAAGTGT
* *
19693805 TATACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGT
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGT
*
19693870 GAGAAAGTGATAAGTGGTAGCCT
65 GAAAAAGTGATAA---GT-G--T
*
19693893 TAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-
1 TA-C-A--CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCA
* *
19693957 AG-GGACAAGTGATAAGTG
62 AGTGAAAAAGTGATAAGTG
19693975 ATCATATGTA
Statistics
Matches: 226, Mismatches: 15, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
82 150 0.66
83 1 0.00
85 3 0.01
86 3 0.01
88 2 0.01
89 10 0.04
90 3 0.01
91 20 0.09
92 34 0.15
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (81 bp):
TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTG
AAAAAGTGATAAGTGT
Found at i:19693967 original size:128 final size:126
Alignment explanation
Indices: 19693603--19693974 Score: 440
Period size: 128 Copynumber: 2.9 Consensus size: 126
19693593 TTTGAGTACT
* *
19693603 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
19693668 GATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGTTACACTTA
66 GATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAG-GGAAAAGTGATAAGTGCTACACTTA
* *
19693731 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
19693796 GATAA---GT-GC-TA--T--ACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCT
66 GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGA-AAAGTGAT-A-----AG---T-GCT
19693852 ACACTTA
120 ACACTTA
* * * *
19693859 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
19693924 GATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGACAAGTGATAAGTG
66 GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTG
19693975 ATCATATGTA
Statistics
Matches: 210, Mismatches: 14, Indels: 43
0.79 0.05 0.16
Matches are distributed among these distances:
117 1 0.00
118 23 0.11
119 1 0.00
120 1 0.00
122 2 0.01
124 4 0.02
125 3 0.01
126 1 0.00
127 1 0.00
128 140 0.67
129 2 0.01
131 2 0.01
132 2 0.01
133 2 0.01
134 1 0.00
135 8 0.04
136 4 0.02
137 12 0.06
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (126 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGATAAGTGCTACACTTA
Found at i:19696914 original size:62 final size:58
Alignment explanation
Indices: 19696802--19696934 Score: 158
Period size: 62 Copynumber: 2.2 Consensus size: 58
19696792 ATCACTTTAA
* * * * *
19696802 TATTAAATTAATATAATATTTATCGAAATAAATATTAGATTAAATATAATATCAAATCT
1 TATTAAATTAATACAATATGTATCCAAATAAATAATAAATTAAATATAATATCAAAT-T
* *
19696861 TATTAAATTAATACAATATGTATCTACAATATAAATAATAAATTAAATTTAATATTAAATT
1 TATTAAATTAATACAATATGTATC--CAA-ATAAATAATAAATTAAATATAATATCAAATT
*
19696922 TATTAAAATAATA
1 TATTAAATTAATA
19696935 TTATTTTTGG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 22 0.35
61 15 0.24
62 26 0.41
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATACAATATGTATCCAAATAAATAATAAATTAAATATAATATCAAATT
Found at i:19697263 original size:9 final size:9
Alignment explanation
Indices: 19697249--19697275 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
19697239 AAAAATATCA
19697249 TATTAATTT
1 TATTAATTT
19697258 TATTAATTT
1 TATTAATTT
19697267 TATTAATTT
1 TATTAATTT
19697276 AATTTACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTAATTT
Found at i:19698076 original size:40 final size:40
Alignment explanation
Indices: 19698040--19698118 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 40
19698030 CACTAAAGAT
*
19698040 TGAGCATTAGTGGCGTTTTT-AAAAAAATGCCGCTAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
* *
19698079 TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
19698119 CCTTAGCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 19 0.53
40 17 0.47
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (40 bp):
TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
Found at i:19698094 original size:39 final size:39
Alignment explanation
Indices: 19697965--19698118 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 39
19697955 AGTGGCACTT
** * *
19697965 TTAGCGGCGTTTGGACAAAAAACGCCGGTAAAAATTAAGCA
1 TTAGCGGCGTTTTTA-AAAAAACGCCGCTAAAAA-TGAGCA
* ** * * *
19698006 TTAGCGGCGCTTTCT-GGAAATCGCCACTAAAGATTGAGCA
1 TTAGCGGCG-TTTTTAAAAAAACGCCGCTAAA-AATGAGCA
* *
19698046 TTAGTGGCGTTTTTAAAAAAATGCCGCTAAAAATGAGCA
1 TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
*
19698085 TTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TTAGCGGCGTTTTT-AAAAAAACGCCGCTAAAAA
19698119 CCTTAGCCCA
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
39 24 0.27
40 52 0.58
41 10 0.11
42 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
Found at i:19698219 original size:41 final size:41
Alignment explanation
Indices: 19698154--19698269 Score: 180
Period size: 41 Copynumber: 2.8 Consensus size: 41
19698144 AACATTTCGT
**
19698154 GGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCT-GG
1 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATG-CTAGG
* *
19698195 GTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTAGG
1 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTAGG
19698236 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
19698270 AAACATTTTA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
40 1 0.01
41 68 0.99
ACGTcount: A:0.20, C:0.21, G:0.32, T:0.28
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTAGG
Found at i:19698512 original size:22 final size:22
Alignment explanation
Indices: 19698487--19698561 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
19698477 GAGTTACTGT
19698487 TTTAAGGTTTATGGAGTATGGA
1 TTTAAGGTTTATGGAGTATGGA
* * *
19698509 TTTAAGGATTATGGATTAGGGA
1 TTTAAGGTTTATGGAGTATGGA
* *
19698531 -TTATGGTTTAAGG-GT-TGAGA
1 TTTAAGGTTTATGGAGTATG-GA
19698551 TTTAAGGTTTA
1 TTTAAGGTTTA
19698562 GGGGTTAGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 19 0.45
22 19 0.45
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (22 bp):
TTTAAGGTTTATGGAGTATGGA
Found at i:19698533 original size:14 final size:15
Alignment explanation
Indices: 19698503--19698543 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
19698493 GTTTATGGAG
19698503 TATGGATTTAAGGAT
1 TATGGATTTAAGGAT
*
19698518 TATGGA-TTAGGGAT
1 TATGGATTTAAGGAT
19698532 TATGG-TTTAAGG
1 TATGGATTTAAGG
19698544 GTTGAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAAGGAT
Found at i:19698582 original size:22 final size:22
Alignment explanation
Indices: 19698556--19698618 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
19698546 TGAGATTTAA
*
19698556 GGTTTAGGGGTT-AGTGGTTAGG
1 GGTTTAGGGGTTAAG-AGTTAGG
19698578 GGTTTAGGGGTTAAGAGTTAGG
1 GGTTTAGGGGTTAAGAGTTAGG
* * *
19698600 GATTTAGGGTTTATGAGTT
1 GGTTTAGGGGTTAAGAGTT
19698619 CATGGGTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGAGTTAGG
Found at i:19698670 original size:12 final size:12
Alignment explanation
Indices: 19698649--19698691 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
19698639 TGGGTTTAGA
19698649 TTAA-TTATTTT
1 TTAATTTATTTT
19698660 TTAATTTATTTT
1 TTAATTTATTTT
* *
19698672 TAAATAT-TTTT
1 TTAATTTATTTT
19698683 TTAATTTAT
1 TTAATTTAT
19698692 ATATTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTAATTTATTTT
Found at i:19698686 original size:23 final size:24
Alignment explanation
Indices: 19698648--19698701 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
19698638 TTGGGTTTAG
*
19698648 ATTAATTA-TTTTTTAATTTAT-T
1 ATTAAATATTTTTTTAATTTATAT
*
19698670 TTTAAATATTTTTTTAATTTATAT
1 ATTAAATATTTTTTTAATTTATAT
19698694 ATTAAATA
1 ATTAAATA
19698702 ATTTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 13 0.48
24 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTAAATATTTTTTTAATTTATAT
Found at i:19698923 original size:21 final size:21
Alignment explanation
Indices: 19698899--19698939 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19698889 GATTTAAGGT
19698899 TTAGGGATTAAGAGTTAGGGG
1 TTAGGGATTAAGAGTTAGGGG
*
19698920 TTAGGGGTTAAGAGTTAGGG
1 TTAGGGATTAAGAGTTAGGG
19698940 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.44, T:0.29
Consensus pattern (21 bp):
TTAGGGATTAAGAGTTAGGGG
Found at i:19698948 original size:21 final size:20
Alignment explanation
Indices: 19698896--19698949 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
19698886 TAGGATTTAA
19698896 GGTTTAGGGATTAAGAGTTAG
1 GGTTTAGGG-TTAAGAGTTAG
*
19698917 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTA-GGGTTAAGAGTTAG
19698938 GGATTTAGGGTT
1 GG-TTTAGGGTT
19698950 TCAAGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (20 bp):
GGTTTAGGGTTAAGAGTTAG
Found at i:19703540 original size:43 final size:43
Alignment explanation
Indices: 19703493--19703738 Score: 305
Period size: 43 Copynumber: 5.7 Consensus size: 43
19703483 ATGGCACTTT
* * * *
19703493 TAGCGGCGTTTGTGAAAAAAACGTCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
* * *
19703536 TAGCGGCGTTTATAAAAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
* *
19703579 TAGCGGCGTTTGTG-TAAAAGTGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
** * * *
19703621 TAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTTCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
** * *
19703664 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
**
19703707 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAG
19703739 TTAGCGACGC
Statistics
Matches: 183, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 39 0.21
43 144 0.79
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCCTGATCTA
Found at i:19703721 original size:86 final size:86
Alignment explanation
Indices: 19703493--19703738 Score: 325
Period size: 85 Copynumber: 2.9 Consensus size: 86
19703483 ATGGCACTTT
* * * * * * ***
19703493 TAGCGGCGTTTGTGAAAAAAACGTCGCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGC
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGC
19703558 GCCGCTAAAGGTCTTGATCTA
66 GCCGCTAAAGGTCTTGATCTA
* * *
19703579 TAGCGGCGTTTGT-GTAAAAGTGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGT
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGC
*
19703643 GTCGCTAAAGGT-TCTGATCTA
66 GCCGCTAAAGGTCT-TGATCTA
* * *
19703664 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAAAAGC
1 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGC
19703729 GCCGCTAAAG
66 GCCGCTAAAG
19703739 TTAGCGACGC
Statistics
Matches: 139, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
84 1 0.01
85 70 0.50
86 68 0.49
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGC
GCCGCTAAAGGTCTTGATCTA
Found at i:19703838 original size:22 final size:22
Alignment explanation
Indices: 19703810--19703852 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19703800 CAGCGGAACT
*
19703810 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
19703832 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
19703853 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:19709637 original size:22 final size:24
Alignment explanation
Indices: 19709596--19709650 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
19709586 ATAGTCCTAG
* *
19709596 TGACATTCTTACCTAATATATATA
1 TGACATGCTTACCTAATATATACA
*
19709620 TGACATGCTT-CC-AATATATGCA
1 TGACATGCTTACCTAATATATACA
19709642 TGACATGCT
1 TGACATGCT
19709651 ATGAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 17 0.61
23 2 0.07
24 9 0.32
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (24 bp):
TGACATGCTTACCTAATATATACA
Found at i:19710923 original size:20 final size:19
Alignment explanation
Indices: 19710876--19710925 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
19710866 CAATATAAAC
19710876 ATTAAATT--TAATTTAAT
1 ATTAAATTAATAATTTAAT
19710893 ATTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
19710913 ATTAAATTAATAA
1 ATTAAATTAATAA
19710926 AATATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.21
18 1 0.04
19 4 0.14
20 17 0.61
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:19710929 original size:25 final size:25
Alignment explanation
Indices: 19710882--19710929 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
19710872 AAACATTAAA
*
19710882 TTTAATTTAATATTAAGATAATAAC
1 TTTAATTTAATATTAAGAAAATAAC
*
19710907 TTTAATATTAA-ATTAATAAAATA
1 TTTAAT-TTAATATTAAGAAAATA
19710930 TTATTAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATAAC
Found at i:19714987 original size:25 final size:26
Alignment explanation
Indices: 19714950--19714999 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
19714940 CCTAATTCCT
19714950 AAAAACCTCTAACCCTAACAAAATTA
1 AAAAACCTCTAACCCTAACAAAATTA
*
19714976 AAAAACCT-TAACCCTATCAAAATT
1 AAAAACCTCTAACCCTAACAAAATT
19715000 TTTTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (26 bp):
AAAAACCTCTAACCCTAACAAAATTA
Found at i:19727740 original size:29 final size:30
Alignment explanation
Indices: 19727701--19727767 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
19727691 ATAATTTAAT
*
19727701 AATCAAGTGAGCCCTCAATTAAAAATA-GC
1 AATCAATTGAGCCCTCAATTAAAAATACGC
* * * *
19727730 ACTCAATTGAGTCCTTAATTAAATATACGC
1 AATCAATTGAGCCCTCAATTAAAAATACGC
19727760 AATCAATT
1 AATCAATT
19727768 AATCCTTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (30 bp):
AATCAATTGAGCCCTCAATTAAAAATACGC
Found at i:19727773 original size:29 final size:29
Alignment explanation
Indices: 19727717--19727774 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
19727707 GTGAGCCCTC
* *
19727717 AATTAAAAATAGCACTCAATTGAGTCCTT
1 AATTAAAAATAGCAATCAATTGAATCCTT
*
19727746 AATTAAATATACGCAATCAATT-AATCCTT
1 AATTAAAAATA-GCAATCAATTGAATCCTT
19727775 TGAAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (29 bp):
AATTAAAAATAGCAATCAATTGAATCCTT
Found at i:19727796 original size:15 final size:15
Alignment explanation
Indices: 19727773--19727827 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
19727763 CAATTAATCC
19727773 TTTGAAAAATTAATT
1 TTTGAAAAATTAATT
* *
19727788 TTTGTAAAATT-CTT
1 TTTGAAAAATTAATT
*
19727802 TTAGAAAAATTAATT
1 TTTGAAAAATTAATT
*
19727817 TTTGTAAAATT
1 TTTGAAAAATT
19727828 CTTTTAGAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (15 bp):
TTTGAAAAATTAATT
Found at i:19727808 original size:29 final size:29
Alignment explanation
Indices: 19727776--19727839 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
19727766 TTAATCCTTT
19727776 GAAAAATTAATTTTTGTAAAATTCTTTTA
1 GAAAAATTAATTTTTGTAAAATTCTTTTA
19727805 GAAAAATTAATTTTTGTAAAATTCTTTTA
1 GAAAAATTAATTTTTGTAAAATTCTTTTA
19727834 GAAAAA
1 GAAAAA
19727840 CAAAAAATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (29 bp):
GAAAAATTAATTTTTGTAAAATTCTTTTA
Found at i:19727810 original size:14 final size:14
Alignment explanation
Indices: 19727793--19727839 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
19727783 TAATTTTTGT
19727793 AAAATTCTTTTAGA
1 AAAATTCTTTTAGA
* * *
19727807 AAAATTAATTTTTGT
1 AAAATT-CTTTTAGA
19727822 AAAATTCTTTTAGA
1 AAAATTCTTTTAGA
19727836 AAAA
1 AAAA
19727840 CAAAAAATCA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (14 bp):
AAAATTCTTTTAGA
Found at i:19727918 original size:19 final size:18
Alignment explanation
Indices: 19727896--19727970 Score: 53
Period size: 20 Copynumber: 4.0 Consensus size: 18
19727886 TAAAATTTTT
19727896 AAAAATTATAAAAAATTA
1 AAAAATTATAAAAAATTA
* *
19727914 CAAAATTGGAAAAAAAATTA
1 AAAAATT--ATAAAAAATTA
* *
19727934 AAAAAGTATATGAAAATTA
1 AAAAATTATA-AAAAATTA
* *
19727953 TGAAAA-TATAACAAATTA
1 -AAAAATTATAAAAAATTA
19727971 TATTTTTTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
18 14 0.32
19 11 0.25
20 19 0.43
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (18 bp):
AAAAATTATAAAAAATTA
Found at i:19728279 original size:34 final size:33
Alignment explanation
Indices: 19728205--19728296 Score: 103
Period size: 34 Copynumber: 2.7 Consensus size: 33
19728195 TTTTTTTGCA
* * *
19728205 ATTTTATATTATTTTTAATAAATTATAATATTTT
1 ATTTTTTATAATTTTTAA-AAATTAAAATATTTT
** *
19728239 CCTTTTTATAATTTTTAAAAATTCAAAATTTTTT
1 ATTTTTTATAATTTTTAAAAATT-AAAATATTTT
*
19728273 ATTTTTTGTAATTTTTAAAAATTA
1 ATTTTTTATAATTTTTAAAAATTA
19728297 TGTTCTTTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
33 6 0.12
34 42 0.88
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (33 bp):
ATTTTTTATAATTTTTAAAAATTAAAATATTTT
Found at i:19728330 original size:25 final size:27
Alignment explanation
Indices: 19728284--19728338 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
19728274 TTTTTTGTAA
**
19728284 TTTTTAAAAATTATGTTCTTTA-ATTT
1 TTTTTAAAAATTATAATCTTTATATTT
*
19728310 TTTTTGAAAATTATAAT-TTTATATTT
1 TTTTTAAAAATTATAATCTTTATATTT
19728336 TTT
1 TTT
19728339 ATTCGCCACG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTTAAAAATTATAATCTTTATATTT
Found at i:19728788 original size:13 final size:13
Alignment explanation
Indices: 19728748--19728788 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
19728738 AATTAATTTT
19728748 AATAAATTTATTA
1 AATAAATTTATTA
**
19728761 CTTAAATTT-TT-
1 AATAAATTTATTA
19728772 AATAAATTTATTA
1 AATAAATTTATTA
19728785 AATA
1 AATA
19728789 TGTGGGTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
11 7 0.32
12 4 0.18
13 11 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
AATAAATTTATTA
Found at i:19735149 original size:42 final size:42
Alignment explanation
Indices: 19735061--19735157 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
19735051 CTTGGTATCG
* * ** ** *
19735061 CACACTCAGTACCCGTTATTTGACATCGTCATTTTTGTTTCG
1 CACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATTTCA
*
19735103 CACACTTAGTGCCCGTTATTCAACATCTTCATTTTAATTTCA
1 CACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATTTCA
19735145 CACACTTAGTGCC
1 CACACTTAGTGCC
19735158 ATTCGTATAG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (42 bp):
CACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATTTCA
Found at i:19741151 original size:30 final size:31
Alignment explanation
Indices: 19741117--19741184 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
19741107 TTGCCCAAGA
** * * *
19741117 GTAAATACTCAAAATTTGAGGGGCTAA-AGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
19741147 GTAAATACAAAAAATTTGAAGGACCAATAGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
19741178 GTAAATA
1 GTAAATA
19741185 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (31 bp):
GTAAATACAAAAAATTTGAAGGACCAATAGT
Found at i:19764149 original size:47 final size:47
Alignment explanation
Indices: 19764077--19764771 Score: 1004
Period size: 47 Copynumber: 14.6 Consensus size: 47
19764067 CCCTTCGGGA
* * * * *
19764077 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
19764124 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
19764171 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATT-AGGC
* * *
19764218 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
* * *
19764265 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
* * *
19764312 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
* *
19764359 CTTACCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
19764408 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
19764455 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
19764504 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
19764551 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
19764598 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
19764645 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
19764694 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
19764743 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
19764772 TATTCAAATA
Statistics
Matches: 609, Mismatches: 29, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 402 0.66
49 205 0.34
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:19766296 original size:56 final size:56
Alignment explanation
Indices: 19766229--19766348 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
19766219 TATTAGTTTA
19766229 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
19766285 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
19766341 TTGCCCAT
1 TTGCCCAT
19766349 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:19773832 original size:22 final size:21
Alignment explanation
Indices: 19773805--19773858 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
19773795 ATTTATTTAA
*
19773805 TTATTTTTTGGTTATTAGGAAT
1 TTATTTTTTGGTAATTAGG-AT
*
19773827 TTATTTCTTTAGTAATTAGGAT
1 TTATTT-TTTGGTAATTAGGAT
*
19773849 TTAATTTTTG
1 TTATTTTTTG
19773859 CAAATTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.11
22 13 0.48
23 11 0.41
ACGTcount: A:0.24, C:0.02, G:0.15, T:0.59
Consensus pattern (21 bp):
TTATTTTTTGGTAATTAGGAT
Found at i:19776030 original size:19 final size:19
Alignment explanation
Indices: 19776008--19776045 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
19775998 TCAATCATCC
19776008 CTCATCTCATCA-TCTCTCA
1 CTCAT-TCATCATTCTCTCA
19776027 CTCATTCATCATTCTCTCA
1 CTCATTCATCATTCTCTCA
19776046 ACTCTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATTCATCATTCTCTCA
Found at i:19784615 original size:56 final size:56
Alignment explanation
Indices: 19784530--19784642 Score: 167
Period size: 56 Copynumber: 2.0 Consensus size: 56
19784520 TCCTTTATCC
*
19784530 ATTAATTTTATTTTCCCTTTCTCTGGTTTTG-TT-CCTTCATCTGAATCAATGTTGG
1 ATTAATTTTATTTTCCCTTTCTCTAGTTTTGTTTCCCTT-ATCTGAATCAATGTTGG
* *
19784585 ATTAATTTTCATTTTCCCTTTCTCTAGTTTTGTTTCCCTTATCTTAATCAATTTTGG
1 ATTAATTTT-ATTTTCCCTTTCTCTAGTTTTGTTTCCCTTATCTGAATCAATGTTGG
19784642 A
1 A
19784643 AAATGACGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
55 9 0.17
56 21 0.40
57 18 0.35
58 4 0.08
ACGTcount: A:0.18, C:0.19, G:0.10, T:0.54
Consensus pattern (56 bp):
ATTAATTTTATTTTCCCTTTCTCTAGTTTTGTTTCCCTTATCTGAATCAATGTTGG
Found at i:19788180 original size:39 final size:40
Alignment explanation
Indices: 19788085--19788307 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
19788075 TTGAATGATG
*
19788085 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
19788123 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
19788164 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
19788203 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
19788242 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* * *
19788281 AACTGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
19788308 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 92 0.57
40 57 0.35
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:19788279 original size:79 final size:81
Alignment explanation
Indices: 19788085--19788307 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
19788075 TTGAATGATG
* * * *
19788085 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCTGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATATCTGGGCTAAGACCCGAAGGCAT
*
19788147 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
*
19788164 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCTGGGCTAAGACCCGAAGGCAT
*
19788225 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * *
19788242 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACTGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCTGGGCTAAGACCCGAAGGCATT
19788306 TG
66 TG
19788308 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 53 0.42
80 24 0.19
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCTGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:19788329 original size:79 final size:79
Alignment explanation
Indices: 19788137--19788340 Score: 204
Period size: 79 Copynumber: 2.6 Consensus size: 79
19788127 GGACTAAGAT
** * *
19788137 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
*
19788200 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** *
19788215 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
* *
19788279 -ATAACTGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
19788295 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
19788341 TACGTGATTT
Statistics
Matches: 109, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 37 0.34
79 46 0.42
80 25 0.23
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:19811514 original size:17 final size:17
Alignment explanation
Indices: 19811492--19811527 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19811482 ATAATTATAC
* *
19811492 ATTGTCATTGCTTTTTT
1 ATTGTCATTACATTTTT
19811509 ATTGTCATTACATTTTT
1 ATTGTCATTACATTTTT
19811526 AT
1 AT
19811528 GTTAGTGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.61
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:19817880 original size:40 final size:40
Alignment explanation
Indices: 19817782--19818084 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
19817772 TCCTCGTTCA
* * * * *
19817782 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
19817821 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
19817861 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19817901 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19817941 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
19817981 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
19818021 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
19818061 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19818085 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19825873 original size:40 final size:40
Alignment explanation
Indices: 19825775--19826077 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
19825765 TCCTCGTTCA
* * * * *
19825775 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
19825814 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
19825854 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19825894 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19825934 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
19825974 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
19826014 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
19826054 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19826078 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19828586 original size:40 final size:40
Alignment explanation
Indices: 19828531--19828610 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
19828521 ACAAGATAAG
*
19828531 AAATAGAGAGAATTCAAGGATGACAGCTTTCTTCTATCCA
1 AAATAGAGAGAATTCAAGGATGACAACTTTCTTCTATCCA
19828571 AAATAGAGAGAATTCAAGGATGACAACTTTCTTCTATCCA
1 AAATAGAGAGAATTCAAGGATGACAACTTTCTTCTATCCA
19828611 GCTCTCAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (40 bp):
AAATAGAGAGAATTCAAGGATGACAACTTTCTTCTATCCA
Found at i:19829443 original size:110 final size:110
Alignment explanation
Indices: 19829317--19829536 Score: 406
Period size: 110 Copynumber: 2.0 Consensus size: 110
19829307 TCTTTTTTAG
* *
19829317 GATTTGACTTTTAGACGAGAAATAGAAT-ACTATTTTGGTATCGATTTTTCAATCAGTATCGATA
1 GATTTGACTTTTAGACGAGAAATAGAATGA-TATTTTGGTACCGATTTTCCAATCAGTATCGATA
19829381 ACATATGAAGGAAATATCGATAATTTTGTTTCAGTATCGATACCTA
65 ACATATGAAGGAAATATCGATAATTTTGTTTCAGTATCGATACCTA
19829427 GATTTGACTTTTAGACGAGAAATAGAATGATATTTTGGTACCGATTTTCCAATCAGTATCGATAA
1 GATTTGACTTTTAGACGAGAAATAGAATGATATTTTGGTACCGATTTTCCAATCAGTATCGATAA
19829492 CATATGAAGGAAATATCGATAATTTTGTTTCAGTATCGATACCTA
66 CATATGAAGGAAATATCGATAATTTTGTTTCAGTATCGATACCTA
19829537 CGTAGTTACA
Statistics
Matches: 107, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
110 106 0.99
111 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (110 bp):
GATTTGACTTTTAGACGAGAAATAGAATGATATTTTGGTACCGATTTTCCAATCAGTATCGATAA
CATATGAAGGAAATATCGATAATTTTGTTTCAGTATCGATACCTA
Found at i:19834453 original size:22 final size:22
Alignment explanation
Indices: 19834426--19834478 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
19834416 ACTTTCACAT
19834426 TCATCACATCGGCCATTAGGCC
1 TCATCACATCGGCCATTAGGCC
*
19834448 TCATCACATCGGCTATTAGGCC
1 TCATCACATCGGCCATTAGGCC
*
19834470 TTATCACAT
1 TCATCACAT
19834479 ATATACACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (22 bp):
TCATCACATCGGCCATTAGGCC
Found at i:19834455 original size:47 final size:47
Alignment explanation
Indices: 19834355--19834456 Score: 125
Period size: 47 Copynumber: 2.2 Consensus size: 47
19834345 CTTCGGGACT
* * * *
19834355 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * *
19834402 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
19834448 TCATCACAT
1 T-ATCACAT
19834457 CGGCTATTAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 3 0.07
47 43 0.93
ACGTcount: A:0.26, C:0.33, G:0.10, T:0.30
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:19834549 original size:49 final size:47
Alignment explanation
Indices: 19834448--19834925 Score: 724
Period size: 47 Copynumber: 9.8 Consensus size: 47
19834438 CCATTAGGCC
*
19834448 TCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
19834495 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACAT
*
19834544 TCATCACATCGGCCATTAGGCCTTATCACATATATACATTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
19834591 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
19834638 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACAT
19834687 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACAT
*
19834736 TCATCACATCGGCTATTAGGCCTTATCACATATATACA-TGTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACAT
19834783 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
19834830 TCATCACATCGGCCATTAGTCGTCCATTAGGCGTTATCACATATATATACACTTTCACAT
1 TCATCACATCGGCCATTAG--G--C------C-TTATCACATATA--TACACTTTCACAT
* *
19834890 TCATCACATTGGCCATTCGGCCTTATCACATATATA
1 TCATCACATCGGCCATTAGGCCTTATCACATATATA
19834926 TATACATTCA
Statistics
Matches: 405, Mismatches: 7, Indels: 38
0.90 0.02 0.08
Matches are distributed among these distances:
46 1 0.00
47 201 0.50
48 1 0.00
49 155 0.38
50 1 0.00
51 1 0.00
56 1 0.00
57 1 0.00
58 13 0.03
60 30 0.07
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (47 bp):
TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
Found at i:19834563 original size:96 final size:96
Alignment explanation
Indices: 19834448--19834938 Score: 740
Period size: 96 Copynumber: 5.0 Consensus size: 96
19834438 CCATTAGGCC
*
19834448 TCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
19834513 GGCCTTATCACATATATATACACTTTCACAT
66 GGCCTTATCACATATATATACACTTTCACAT
*
19834544 TCATCACATCGGCCATTAGGCCTTATCACATATATACATTTTCACATTCATCACATCGGCCATTA
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
19834609 GGCCTTATCAC--ATATATACACTTTCACAT
66 GGCCTTATCACATATATATACACTTTCACAT
19834638 TCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCAT
1 TCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCAT
19834703 TAGGCCTTATCACATATATATACACTTTCACAT
64 TAGGCCTTATCACATATATATACACTTTCACAT
*
19834736 TCATCACATCGGCTATTAGGCCTTATCACATATATACA-TGTTCACATTCATCACATCGGCCATT
1 TCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACATCGGCCATT
19834800 AGGCCTTATCAC--ATATATACACTTTCACAT
65 AGGCCTTATCACATATATATACACTTTCACAT
19834830 TCATCACATCGGCCATTAGTCGTCCATTAGGCGTTATCACATATATATACACTTTCACATTCATC
1 TCATCACATCGGCCATTAG--G--C------C-TTATCAC--ATATATACACTTTCACATTCATC
* * * *
19834895 ACATTGGCCATTCGGCCTTATCACATATATATATACATTCACAT
53 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
19834939 CACAATTATC
Statistics
Matches: 365, Mismatches: 9, Indels: 29
0.91 0.02 0.07
Matches are distributed among these distances:
94 83 0.23
95 1 0.00
96 166 0.45
98 47 0.13
104 1 0.00
105 7 0.02
107 43 0.12
108 1 0.00
109 16 0.04
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (96 bp):
TCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
GGCCTTATCACATATATATACACTTTCACAT
Found at i:19834573 original size:118 final size:116
Alignment explanation
Indices: 19834353--19834574 Score: 345
Period size: 118 Copynumber: 1.9 Consensus size: 116
19834343 CCCTTCGGGA
* * * * *
19834353 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
19834418 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATCGGCTATTAGGC
* * *
19834469 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
*
19834534 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACAT
19834575 ATATACATTT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
116 47 0.49
118 48 0.51
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (116 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATCGGCTATTAGGC
Found at i:19834867 original size:58 final size:59
Alignment explanation
Indices: 19834795--19834906 Score: 190
Period size: 60 Copynumber: 1.9 Consensus size: 59
19834785 ATCACATCGG
19834795 CCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGTCGT
1 CCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGTCGT
* *
19834853 CCATTAGGCGTTATCACATATATATACACTTTCACATTCATCACATTGGCCATT
1 CCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATT
19834907 CGGCCTTATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
58 16 0.32
60 34 0.68
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.34
Consensus pattern (59 bp):
CCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGTCGT
Found at i:19838393 original size:40 final size:40
Alignment explanation
Indices: 19838347--19838667 Score: 439
Period size: 40 Copynumber: 8.1 Consensus size: 40
19838337 GGAATACACG
* * * * *
19838347 TCACCAGCATGATTGCTCTTTGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * * *
19838387 ACACCAGCACGAATGCTCTTCGAGG-TTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCG-GGACTTAGCCCGGATACA
* * *
19838427 TTACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
19838467 TCACTAGCATGAATGCTCTTCGGGACTTAGTCTGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19838507 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19838547 TCACTAGCATGAATGCTCTTCGGGACTTAGTCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19838587 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
19838627 TCACTAGCATGAATGCTCTTCGGGACTTAGCCTGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
19838666 TC
1 TC
19838668 GTCGAGACCT
Statistics
Matches: 251, Mismatches: 28, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 5 0.02
40 244 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:19840972 original size:47 final size:47
Alignment explanation
Indices: 19840894--19841190 Score: 468
Period size: 47 Copynumber: 6.3 Consensus size: 47
19840884 CCCTTCGGGA
* * * * * *
19840894 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19840941 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19840988 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19841035 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19841082 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19841131 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19841178 CTTATCACATATA
1 CTTATCACATATA
19841191 CATCGGCATT
Statistics
Matches: 231, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 185 0.80
49 46 0.20
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19841123 original size:96 final size:96
Alignment explanation
Indices: 19840894--19841190 Score: 476
Period size: 96 Copynumber: 3.1 Consensus size: 96
19840884 CCCTTCGGGA
* * * * * * * *
19840894 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
19840957 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
19840988 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
19841051 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
19841082 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
*
19841147 ATTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
19841178 CTTATCACATATA
1 CTTATCACATATA
19841191 CATCGGCATT
Statistics
Matches: 188, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
93 1 0.01
94 89 0.47
96 98 0.52
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19841204 original size:27 final size:28
Alignment explanation
Indices: 19841162--19841217 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
19841152 CACATTCATC
19841162 ACATCGGCCATTAGGCCTTATCACATAT
1 ACATCGGCCATTAGGCCTTATCACATAT
19841190 ACATCGG-CATTAGGCCTTATCACATAT
1 ACATCGGCCATTAGGCCTTATCACATAT
19841217 A
1 A
19841218 TACACTTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
ACATCGGCCATTAGGCCTTATCACATAT
Found at i:19841246 original size:73 final size:75
Alignment explanation
Indices: 19841115--19841263 Score: 275
Period size: 73 Copynumber: 2.0 Consensus size: 75
19841105 CACATTCATC
*
19841115 ACATCGGCTATTAGGCCTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCTATTAGGCCTTATCACATATATACATCTTCACATTCATCACATCGGCCATTAGGCCT
19841180 TATCACATAT
66 TATCACATAT
19841190 ACATCGGC-ATTAGGCCTTATCACATATATACA-CTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCTATTAGGCCTTATCACATATATACATCTTCACATTCATCACATCGGCCATTAGGCCT
19841253 TATCACATAT
66 TATCACATAT
19841263 A
1 A
19841264 TATACACTTT
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
73 41 0.56
74 24 0.33
75 8 0.11
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.32
Consensus pattern (75 bp):
ACATCGGCTATTAGGCCTTATCACATATATACATCTTCACATTCATCACATCGGCCATTAGGCCT
TATCACATAT
Found at i:19841249 original size:169 final size:171
Alignment explanation
Indices: 19841019--19841506 Score: 669
Period size: 169 Copynumber: 2.7 Consensus size: 171
19841009 CACATTCATC
19841019 ACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
19841084 TATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAT
66 TATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAT
19841149 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
131 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
19841190 ACATCGGC-ATTAGGCCTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
19841253 TATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAT
66 TATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAT
19841318 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
131 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATAT
* * * *
19841361 ACATTTTC-ACATTCATCACATCGGCCATTAGGC-CTTATCACATATATATACACTTTCACATTC
1 ACA---TCGGC--T-AT----TAGGCC-TTA-TCAC--AT-AT------ATACACTTTCACATTC
* * * *
19841424 ATCACATCGGCAATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTC
45 ATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTA
19841489 GGCCTTATCACATATATA
110 GGCCTTATCACATATATA
19841507 TACATTCACA
Statistics
Matches: 284, Mismatches: 8, Indels: 29
0.88 0.02 0.09
Matches are distributed among these distances:
169 132 0.46
170 25 0.09
171 15 0.05
173 1 0.00
174 2 0.01
177 2 0.01
181 5 0.02
182 4 0.01
183 1 0.00
184 2 0.01
185 1 0.00
191 6 0.02
192 88 0.31
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.33
Consensus pattern (171 bp):
ACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
TATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAT
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:19841297 original size:49 final size:49
Alignment explanation
Indices: 19841190--19841517 Score: 532
Period size: 49 Copynumber: 6.9 Consensus size: 49
19841180 TATCACATAT
19841190 ACATCGG-CATTAGGCCTTATCAC--ATATATACAC-TTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
19841235 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
* *
19841284 ACATCGGCTATTAGGCCTTATCAC--ATATATACATTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
*
19841331 ACATCGGCCATTAGGCCTTATCAC--ATATATACATTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
19841378 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
*
19841427 ACATCGGCAATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
* *
19841476 ACATTGGCCATTCGGCCTTATCACATATATATACA--TTCACAT
1 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
19841518 CACAATTATC
Statistics
Matches: 269, Mismatches: 8, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
45 7 0.03
46 16 0.06
47 99 0.37
48 10 0.04
49 137 0.51
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
Found at i:19841304 original size:122 final size:123
Alignment explanation
Indices: 19841066--19841455 Score: 491
Period size: 143 Copynumber: 3.0 Consensus size: 123
19841056 CACATTCATC
*
19841066 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 ACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19841131 CTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
65 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
19841190 ACATCGG-CATTAGGCCTTATCAC-ATATATACAC-TTCACATTCATCACATCGGCCATTAGGCC
1 ACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
19841252 TTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
66 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--C------ACA
19841317 TTTTCACATTCAT
121 ---T---A----T
*
19841330 CACATCGGCCATTAGGCCTTATCAC-ATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 -ACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19841394 CTTATCACATATATATACACTTTCACATTCATCACATCGGCAATTAGGCCTTATCACATAT
65 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
19841455 A
1 A
19841456 TATACACTTT
Statistics
Matches: 238, Mismatches: 5, Indels: 46
0.82 0.02 0.16
Matches are distributed among these distances:
120 35 0.15
121 10 0.04
122 42 0.18
123 16 0.07
124 9 0.04
125 1 0.00
129 1 0.00
130 3 0.01
132 1 0.00
133 1 0.00
135 3 0.01
136 1 0.00
140 1 0.00
141 8 0.03
142 25 0.11
143 81 0.34
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (123 bp):
ACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:19841348 original size:216 final size:217
Alignment explanation
Indices: 19840972--19841406 Score: 777
Period size: 216 Copynumber: 2.0 Consensus size: 217
19840962 CACATTCATC
*
19840972 ACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 ACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
19841037 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
66 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACAC
*
19841102 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACATTTTCACATTCATCACATC
130 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATTTTCACATTCATCACATC
19841167 GGCCATTAGGCCTTATCACATAT
195 GGCCATTAGGCCTTATCACATAT
*
19841190 ACATCGG-CATTAGGCCTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
19841253 TATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC-ATATATACA
66 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
*
19841317 TTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATTTTCACATTCATCACAT
129 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATTTTCACATTCATCACAT
19841382 CGGCCATTAGGCCTTATCACATAT
194 CGGCCATTAGGCCTTATCACATAT
19841406 A
1 A
19841407 TATACACTTT
Statistics
Matches: 210, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
216 132 0.63
217 25 0.12
218 53 0.25
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (217 bp):
ACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATAT
Found at i:19841515 original size:96 final size:96
Alignment explanation
Indices: 19841190--19841517 Score: 529
Period size: 96 Copynumber: 3.4 Consensus size: 96
19841180 TATCACATAT
19841190 ACATCGG-CATTAGGCCTTATCACATATATACAC-TTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCCATTAGGCCTTATCACATATATACACATTCACATTCATCACATCGGCCATTAGGCCT
19841253 TATCACATATATATACACTTTCACATTCATC
66 TATCACATATATATACACTTTCACATTCATC
* **
19841284 ACATCGGCTATTAGGCCTTATCACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCT
1 ACATCGGCCATTAGGCCTTATCACATATATACACATTCACATTCATCACATCGGCCATTAGGCCT
*
19841349 TATCAC--ATATATACATTTTCACATTCATC
66 TATCACATATATATACACTTTCACATTCATC
* *
19841378 ACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCAATTAGGC
1 ACATCGGCCATTAGGCCTTATCAC--ATATATACACATTCACATTCATCACATCGGCCATTAGGC
19841443 CTTATCACATATATATACACTTTCACATTCATC
64 CTTATCACATATATATACACTTTCACATTCATC
* * *
19841476 ACATTGGCCATTCGGCCTTATCACATATATATACATTCACAT
1 ACATCGGCCATTAGGCCTTATCACATATATACACATTCACAT
19841518 CACAATTATC
Statistics
Matches: 217, Mismatches: 11, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
94 52 0.24
95 24 0.11
96 97 0.45
98 44 0.20
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (96 bp):
ACATCGGCCATTAGGCCTTATCACATATATACACATTCACATTCATCACATCGGCCATTAGGCCT
TATCACATATATATACACTTTCACATTCATC
Found at i:19848992 original size:30 final size:31
Alignment explanation
Indices: 19848958--19849025 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
19848948 TTGCCCAAGA
** * * *
19848958 GTAAATACTCAAAATTTGAGGGGCTAA-AGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
19848988 GTAAATACAAAAAATTTGAAGGACCAATAGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
19849019 GTAAATA
1 GTAAATA
19849026 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (31 bp):
GTAAATACAAAAAATTTGAAGGACCAATAGT
Found at i:19867720 original size:27 final size:27
Alignment explanation
Indices: 19867690--19867867 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
19867680 ATATTGAGCC
* *
19867690 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
19867717 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
19867744 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
19867772 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
19867799 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
19867826 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
19867853 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19867868 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:19867829 original size:82 final size:81
Alignment explanation
Indices: 19867711--19867866 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19867701 TGCTATATAA
* *
19867711 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGCA
19867776 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19867793 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
19867857 CACTTAGTGC
65 CACTTAGTGC
19867867 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCAC
ACTTAGTGCCGCATGG
Found at i:19868437 original size:13 final size:13
Alignment explanation
Indices: 19868419--19868443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19868409 TACTAAATTT
19868419 TCATGGATTCAAG
1 TCATGGATTCAAG
19868432 TCATGGATTCAA
1 TCATGGATTCAA
19868444 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:19875630 original size:27 final size:27
Alignment explanation
Indices: 19875600--19875777 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
19875590 ATATTGAGCC
* *
19875600 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
19875627 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
19875654 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
19875682 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
19875709 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
19875736 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
19875763 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19875778 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:19875739 original size:82 final size:81
Alignment explanation
Indices: 19875621--19875776 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19875611 TGCTATATAA
* *
19875621 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGCA
19875686 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19875703 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
19875767 CACTTAGTGC
65 CACTTAGTGC
19875777 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCAC
ACTTAGTGCCGCATGG
Found at i:19876343 original size:13 final size:13
Alignment explanation
Indices: 19876325--19876349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19876315 TACTAAATTT
19876325 TCATGGATTCAAG
1 TCATGGATTCAAG
19876338 TCATGGATTCAA
1 TCATGGATTCAA
19876350 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:19886783 original size:23 final size:21
Alignment explanation
Indices: 19886742--19886795 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
19886732 ATTTATTTAA
* *
19886742 TTATTTTTTGGTTATTAGGAAT
1 TTATTTTTTAGTAATTAGG-AT
19886764 TTATTTCTTTAGTAATTAGGAT
1 TTATTT-TTTAGTAATTAGGAT
19886786 TTAATTTTTT
1 TT-ATTTTTT
19886796 CAAATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 13 0.46
23 15 0.54
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.61
Consensus pattern (21 bp):
TTATTTTTTAGTAATTAGGAT
Found at i:19888454 original size:14 final size:14
Alignment explanation
Indices: 19888435--19888462 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19888425 TAAAGTTATA
19888435 TTTAATAATTCATT
1 TTTAATAATTCATT
19888449 TTTAATAATTCATT
1 TTTAATAATTCATT
19888463 AATAAATTGA
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:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:19888952 original size:19 final size:19
Alignment explanation
Indices: 19888930--19888967 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19888920 TCAATCATCC
19888930 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
19888949 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
19888968 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:19900410 original size:38 final size:39
Alignment explanation
Indices: 19900378--19900540 Score: 185
Period size: 38 Copynumber: 4.2 Consensus size: 39
19900368 CTAAGATCCG
19900378 AGGCATTTG-GCGAGATACTAATTCCGGGCTAAGCCCGA
1 AGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGA
*
19900416 AGG-ATTTGTGCGAGATAATAATTCCGGGCTAAGCCCGA
1 AGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGA
* * *
19900454 AGGCA-TTGTGCGAGTTACTAAAT-CGGGTTAAGTCCCGA
1 AGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGA
* * *
19900492 AGGCATTTGTGCGA-ATTACT-ATAACTGGGCTATGTCCCGA
1 AGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGA
19900532 AGGCATTTG
1 AGGCATTTG
19900541 ACGAGGAGCT
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
37 13 0.12
38 60 0.56
39 13 0.12
40 21 0.20
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
AGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGA
Found at i:19931188 original size:44 final size:44
Alignment explanation
Indices: 19931131--19931459 Score: 212
Period size: 44 Copynumber: 7.6 Consensus size: 44
19931121 AGAATTACAG
* *
19931131 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCCAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGTA
* * * *** **
19931175 ATCCTATTTCCCTGAGATTACAGTGGAACAGATT-AAAATAAAA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGTA
* * ** * *
19931218 GATCTTATCTCTCTGA-AGTTACAGTAGAATAGA-TCACA-TCA-T-
1 -ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGCCAGTA
*
19931260 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGTA
* * * * *** *
19931304 ATCCTATTTCCCTGAGATTACAGTGGAACAGATTAAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAGCCAGTA
** * * * * *
19931348 ATCTTATCTCTTTGA-AGTTACAGTAGAGTAGATCGCA-TCA--A
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCCAGTA
*
19931389 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGTA
* * *
19931433 ATCCTATTTCCTTGAGATTACAGTGGA
1 ATCTTATCTCCCTGAGATTACAGTGGA
19931460 ACGGATTAAA
Statistics
Matches: 211, Mismatches: 59, Indels: 30
0.70 0.20 0.10
Matches are distributed among these distances:
41 54 0.26
42 9 0.04
43 9 0.04
44 134 0.64
45 5 0.02
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGTA
Found at i:19931364 original size:129 final size:129
Alignment explanation
Indices: 19931131--19931540 Score: 721
Period size: 129 Copynumber: 3.2 Consensus size: 129
19931121 AGAATTACAG
*
19931131 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
* * * *
19931196 AGTGGAACAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAATAGATCACATCAT
66 AGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAA
19931260 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
*
19931325 AGTGGAACAGATTAAAATAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCATCAA
66 AGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAA
*
19931389 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCTTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
* * *
19931454 AGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAG
66 AGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAA
*
19931518 GTCTTATCTCCCTGAGATTACAG
1 ATCTTATCTCCCTGAGATTACAG
19931541 TGGAATAGAC
Statistics
Matches: 269, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 269 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (129 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
AGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAA
Found at i:19935355 original size:21 final size:21
Alignment explanation
Indices: 19935331--19935380 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
19935321 TTGGGTATCA
19935331 TTTGGAAACTAAA-TAGAAAAT
1 TTTGGAAACTAAATTA-AAAAT
19935352 TTT-GAAA-TAAATTTAAAAAT
1 TTTGGAAACTAAA-TTAAAAAT
19935372 TTTGGAAAC
1 TTTGGAAAC
19935381 ATGGGTCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.34
Consensus pattern (21 bp):
TTTGGAAACTAAATTAAAAAT
Found at i:19950394 original size:17 final size:17
Alignment explanation
Indices: 19950372--19950407 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
19950362 ATAAGTACAC
*
19950372 ATTGTCATTACTTTTTT
1 ATTGTCATTACATTTTT
19950389 ATTGTCATTACATTTTT
1 ATTGTCATTACATTTTT
19950406 AT
1 AT
19950408 GTTAGTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.06, T:0.61
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:19958148 original size:40 final size:39
Alignment explanation
Indices: 19958058--19958359 Score: 348
Period size: 40 Copynumber: 7.7 Consensus size: 39
19958048 TTGAATGATG
* *
19958058 TCCGGGCTAAGTCCCGAAGGC-TTTGTG-GTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-A
*
19958098 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
19958137 TCCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
19958177 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
19958216 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
*
19958256 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* * *
19958296 ACCGGGCTAAGTCCCGAAGGCA-TT-TGCGCGTCACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* * *
19958334 ACCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19958360 AACGAGTAGC
Statistics
Matches: 232, Mismatches: 17, Indels: 26
0.84 0.06 0.09
Matches are distributed among these distances:
38 32 0.14
39 75 0.32
40 117 0.50
41 7 0.03
42 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:19958194 original size:79 final size:79
Alignment explanation
Indices: 19958111--19958359 Score: 380
Period size: 79 Copynumber: 3.2 Consensus size: 79
19958101 GGACTAAGAT
*
19958111 CCGAAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
19958176 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
*
19958190 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
19958255 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
19958269 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATT--TGCGCGTCACT
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
* * *
19958331 ATAA-CCAGGCTATGTC
64 A-AATCCGGGTTAAGTC
19958347 CCGAAGGCATTTG
1 CCGAAGGCATTTG
19958360 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
78 34 0.21
79 114 0.71
80 12 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:19958272 original size:119 final size:120
Alignment explanation
Indices: 19958058--19958321 Score: 362
Period size: 119 Copynumber: 2.2 Consensus size: 120
19958048 TTGAATGATG
* *
19958058 TCCGGGCTAAGTCCCGAAGGC-TTTGTGGTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGG-AAGTGACAATATCCGGACTAAGACCCGAAGGCATT
*
19958122 TGTGCGAGTTACTAATCCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTA-AA
65 GGTGCGAGTTACTAATCCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTATAA
* * *
19958177 TCCGGGTTAAGTCCCGAAGGCATTTGTGCG-AGTTACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-GAAGTGAC-AATATCCGGACTAAGACCCGAAGGCAT
* *
19958239 TGGTGCGAGTTACTAAAT-CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
64 TGGTGCGAGTTACT-AATCCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTATAA
19958297 -CCGGGCTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19958322 CGCGTCACTA
Statistics
Matches: 130, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
118 32 0.25
119 87 0.67
120 10 0.08
121 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGGAAGTGACAATATCCGGACTAAGACCCGAAGGCATTG
GTGCGAGTTACTAATCCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTATAA
Found at i:19966354 original size:40 final size:40
Alignment explanation
Indices: 19966266--19966507 Score: 266
Period size: 40 Copynumber: 6.1 Consensus size: 40
19966256 TTGAATGATG
* *
19966266 TCCGGGCTAAGT-CCGAAGGC--TTGTG-GTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTATA
*
19966304 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
19966343 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
19966383 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
19966423 ACCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTCACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
19966463 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
19966503 TCCGG
1 TCCGG
19966508 TTAAATTCCG
Statistics
Matches: 178, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
38 10 0.06
39 45 0.25
40 117 0.66
41 5 0.03
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:19966408 original size:79 final size:80
Alignment explanation
Indices: 19966267--19966488 Score: 251
Period size: 79 Copynumber: 2.8 Consensus size: 80
19966257 TGAATGATGT
** * * * *
19966267 CCGGGCTAAGT-CCGAAGGC-TTGTG-GTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTG-GCGCGAGTCACTATAACCGGGCTAAG-TCCCGAAGGCATT
*
19966328 TGTGCGAGTTACTA-ATT
64 TGTGCGAGTTACTATA-A
* * *
19966345 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGGCGCGAGTCACTATAA-CCGGGCTAAGTCCCGAAGGCATTT
19966408 GTGCGAGTTACTATAA
65 GTGCGAGTTACTATAA
* *
19966424 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTCACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTGGCGCGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTTG
19966489 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 21 0.17
79 53 0.43
80 47 0.38
81 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTGGCGCGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAA
Found at i:19974735 original size:96 final size:96
Alignment explanation
Indices: 19974570--19974755 Score: 209
Period size: 96 Copynumber: 1.9 Consensus size: 96
19974560 TACACTATGC
* * * * * *
19974570 TGCTCACACAAGCTGTCGAGTATCTGCAACTAATGTCAGGCTTCAGCCATCGGTGGGACATTCAA
1 TGCTCACACAAGCTGTCAAGTATCCGCAACTAATGTCAGACTTCAGCCACCAGTAGGACATTCAA
19974635 GACCAACA-CTCAAGACATGGTAACCTGGGTT
66 GACCAACACCT-AAGACATGGTAACCTGGGTT
*
19974666 TGCTCACACAAGCTGTCAAGTATCCGCAAC-ACATG-CTAGAAC-TCAGCCACCAGTATGACATT
1 TGCTCACACAAGCTGTCAAGTATCCGCAACTA-ATGTC-AG-ACTTCAGCCACCAGTAGGACATT
** * *
19974728 CGGGACCAGCACCTACGACATGGTAACC
63 CAAGACCAACACCTAAGACATGGTAACC
19974756 CTAATGACAT
Statistics
Matches: 75, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
95 2 0.03
96 70 0.93
97 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (96 bp):
TGCTCACACAAGCTGTCAAGTATCCGCAACTAATGTCAGACTTCAGCCACCAGTAGGACATTCAA
GACCAACACCTAAGACATGGTAACCTGGGTT
Found at i:19996217 original size:14 final size:14
Alignment explanation
Indices: 19996198--19996227 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19996188 GGTGGAAGAG
*
19996198 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
19996212 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
19996226 GA
1 GA
19996228 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:19999679 original size:17 final size:18
Alignment explanation
Indices: 19999659--19999698 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
19999649 TTATTAATAT
19999659 TTAAATAATTTG-A-AAAA
1 TTAAATAA-TTGAATAAAA
19999676 TTAAATAATTGAATAAAA
1 TTAAATAATTGAATAAAA
19999694 TTAAA
1 TTAAA
19999699 ATTCAAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 9 0.43
18 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (18 bp):
TTAAATAATTGAATAAAA
Found at i:20007347 original size:14 final size:14
Alignment explanation
Indices: 20007328--20007357 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20007318 AGTGAGAGAG
*
20007328 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
20007342 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
20007356 GA
1 GA
20007358 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:20013782 original size:14 final size:14
Alignment explanation
Indices: 20013758--20013800 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
20013748 TATTGATTTA
20013758 TTTCGTTTGTTTATT
1 TTTC-TTTGTTTATT
20013773 TTTCTTTGTTTATT
1 TTTCTTTGTTTATT
20013787 TATT-TTTG-TTATT
1 T-TTCTTTGTTTATT
20013800 T
1 T
20013801 ATTTATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.22
14 15 0.56
15 6 0.22
ACGTcount: A:0.09, C:0.05, G:0.09, T:0.77
Consensus pattern (14 bp):
TTTCTTTGTTTATT
Found at i:20013792 original size:17 final size:17
Alignment explanation
Indices: 20013762--20013810 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
20013752 GATTTATTTC
* *
20013762 GTTTGTTTATTTTTCTTT
1 GTTTATTTATTTTT-GTT
20013780 GTTTATTTATTTTTGTT
1 GTTTATTTATTTTTGTT
*
20013797 ATTTATTTATTTTT
1 GTTTATTTATTTTT
20013811 CTCTCTTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (17 bp):
GTTTATTTATTTTTGTT
Found at i:20013800 original size:13 final size:14
Alignment explanation
Indices: 20013763--20013804 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
20013753 ATTTATTTCG
20013763 TTTGTTTATTT-TT
1 TTTGTTTATTTATT
20013776 CTTTGTTTATTTATT
1 -TTTGTTTATTTATT
20013791 TTTG-TTATTTATT
1 TTTGTTTATTTATT
20013804 T
1 T
20013805 ATTTTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.37
14 15 0.56
15 2 0.07
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTGTTTATTTATT
Found at i:20017906 original size:4 final size:4
Alignment explanation
Indices: 20017897--20017937 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
20017887 TTCCATAAAT
*
20017897 ATTA ATTA ATTA ACTA ATTA ATTAA ATTA ATTAA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATT-A ATTA ATT-A ATTA ATT
20017938 TCTCAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 25 0.76
5 8 0.24
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (4 bp):
ATTA
Found at i:20017926 original size:9 final size:8
Alignment explanation
Indices: 20017897--20017937 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 8
20017887 TTCCATAAAT
20017897 ATTAATTA
1 ATTAATTA
*
20017905 ATTAACTA
1 ATTAATTA
20017913 ATTAATTAA
1 ATTAATT-A
20017922 ATTAATTAA
1 ATTAATT-A
20017931 ATTAATT
1 ATTAATT
20017938 TCTCAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 13 0.43
9 17 0.57
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (8 bp):
ATTAATTA
Found at i:20019316 original size:22 final size:22
Alignment explanation
Indices: 20019288--20019331 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
20019278 TCTCAATCCT
20019288 ACCCTATGAATTCTACTGACTA
1 ACCCTATGAATTCTACTGACTA
20019310 ACCCTATGAATTCTACTGACTA
1 ACCCTATGAATTCTACTGACTA
20019332 TGTAGCGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (22 bp):
ACCCTATGAATTCTACTGACTA
Found at i:20020711 original size:16 final size:17
Alignment explanation
Indices: 20020674--20020714 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
20020664 TTATATTTTC
20020674 AGAAATTTAAAATAATT
1 AGAAATTTAAAATAATT
20020691 A-AAATTTAAAA-AA-T
1 AGAAATTTAAAATAATT
20020705 AGGAAATTTA
1 A-GAAATTTA
20020715 GTTTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.09
15 2 0.09
16 17 0.77
17 1 0.05
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (17 bp):
AGAAATTTAAAATAATT
Found at i:20035150 original size:21 final size:21
Alignment explanation
Indices: 20035126--20035165 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20035116 CTTCTCGTTC
20035126 TTACGTTTTAATTTTTCTTAA
1 TTACGTTTTAATTTTTCTTAA
* **
20035147 TTACTTTTTTCTTTTTCTT
1 TTACGTTTTAATTTTTCTT
20035166 TTTCTTTTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.03, T:0.70
Consensus pattern (21 bp):
TTACGTTTTAATTTTTCTTAA
Found at i:20038251 original size:40 final size:40
Alignment explanation
Indices: 20038151--20038322 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
20038141 GCTCCTCGTT
* * *
20038151 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
20038191 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
20038230 CGAATGCCTTTGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
20038270 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
20038310 CAAATGCCTTCGG
1 CAAATGCCTTCGG
20038323 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.30
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:20038335 original size:80 final size:78
Alignment explanation
Indices: 20038151--20038375 Score: 220
Period size: 80 Copynumber: 2.8 Consensus size: 78
20038141 GCTCCTCGTT
* * * * *
20038151 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
20038215 ATTTAATAACTCGCA
64 ATTTAATAACTCGCA
* * * *
20038230 CGAATGCCTTTGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCC-TTCGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
20038295 AATTT-GTATCTCGCA
63 AATTTAATAACTCGCA
* * * * *
20038310 CAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCGG
20038375 A
63 A
20038376 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 68 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAAT
TTAATAACTCGCA
Found at i:20038384 original size:41 final size:41
Alignment explanation
Indices: 20038307--20038384 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
20038297 TTTGTATCTC
* * *
20038307 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
20038348 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
20038385 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:20052045 original size:40 final size:40
Alignment explanation
Indices: 20052014--20052223 Score: 246
Period size: 40 Copynumber: 5.3 Consensus size: 40
20052004 GGACTAAGAT
* * *
20052014 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATAGTAAA-TCCGGGTTAAGTC
* *
20052054 CCGAAGGCCTTTGTGCGAGATAGTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAGTAAATCCGGGTTAAGTC
* *
20052094 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAGTAAATCCGGGTTAAGTC
* *
20052134 CCGAAGGCATTCGTGCGAG-TTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATAG-TAAATCCGGGTTAAGTC
* * * * * *
20052174 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAGTAAATCCGGGTTAAGTC
20052213 CCGAAGGCATT
1 CCGAAGGCATT
20052224 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 33 0.22
40 116 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATAGTAAATCCGGGTTAAGTC
Found at i:20052098 original size:80 final size:80
Alignment explanation
Indices: 20052014--20052258 Score: 239
Period size: 80 Copynumber: 3.1 Consensus size: 80
20052004 GGACTAAGAT
* *
20052014 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAG-
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGGCATTCGTGCGAG-TAGT
20052077 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * * *
20052094 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGTAGTTA
*
20052159 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * * * * * * ** * *
20052174 CCGAAGGCA-TTGTGTGAGTTA-CTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCT
1 CCGAAGGCATTTGTGCGAGATATC-AAATCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGTAGTT
* *
20052237 ATATCC-GGTTAAATC
65 AAATCCGGGTTAAGTC
20052252 CCGAAGG
1 CCGAAGG
20052259 TACGTGATTT
Statistics
Matches: 139, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
78 14 0.10
79 48 0.35
80 74 0.53
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGTAGTTA
AATCCGGGTTAAGTC
Found at i:20052177 original size:120 final size:120
Alignment explanation
Indices: 20051961--20052223 Score: 291
Period size: 120 Copynumber: 2.2 Consensus size: 120
20051951 TTGAATGCTG
* *
20051961 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* * *
20052025 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAGTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
20052081 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
20052144 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
20052200 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
20052224 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
119 37 0.31
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:20059636 original size:39 final size:39
Alignment explanation
Indices: 20059513--20059847 Score: 288
Period size: 39 Copynumber: 8.5 Consensus size: 39
20059503 TTGAATGCTG
* * * *
20059513 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGT-AGTAAA
** *
20059553 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATA-CAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAG-TAGTAAA
* *
20059592 TTCCGGGTTAAGCCCCGAAGGCCTTTGTG-GAGATAGTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TAGTAAA
* *
20059632 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TAGTAAA
* **
20059672 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTAGTAAA
* *
20059711 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTAG-TAAA
* * *
20059751 TCC-GGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TAGTAAA
* * * ** * *
20059789 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTAG-TAAA
*
20059829 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
20059848 TACGTGATTT
Statistics
Matches: 250, Mismatches: 33, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
38 13 0.05
39 122 0.49
40 106 0.42
41 9 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTAGTAAA
Found at i:20059653 original size:79 final size:78
Alignment explanation
Indices: 20059513--20059812 Score: 295
Period size: 79 Copynumber: 3.8 Consensus size: 78
20059503 TTGAATGCTG
* * * * **
20059513 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGC-GAGT-ACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
20059576 TTGTGCGAGATACAAA
63 TCGTGCGAGTTATAAA
* *
20059592 TTCCGGGTTAAGCCCCGAAGGCCTTTGTG-GAGATAGTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCATT
20059656 CGTGCGAGTTATTAAA
64 CGTGCGAGTTA-TAAA
* * **
20059672 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
20059737 TGCGAGTTGTTAAA
66 TGCGAGTT-ATAAA
* * * * * *
20059751 TCC-GGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCATT
20059813 TGAACGAGGA
Statistics
Matches: 187, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
77 7 0.04
78 42 0.22
79 106 0.57
80 25 0.13
81 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTATAAA
Found at i:20064919 original size:79 final size:79
Alignment explanation
Indices: 20064788--20064945 Score: 271
Period size: 79 Copynumber: 2.0 Consensus size: 79
20064778 AAGAACAAGC
* *
20064788 CACAGAAAATAAGAACGCAAGAGAGGGAGAAATTTGAGTGAATGTTCTTAAGAATTATTATTGCT
1 CACAGAAAATAAGAACGCAAGAGAAGGAGAAATTTGAGTGAATGCTCTTAAGAATTATTATTGCT
20064853 CCAAACTCAAGTGT
66 CCAAACTCAAGTGT
* *
20064867 CACAGAAAATAAGAACGCAAGAGAATGAGAAATTTGAGTGAATGCTCTTAAGATTTATTATTGCT
1 CACAGAAAATAAGAACGCAAGAGAAGGAGAAATTTGAGTGAATGCTCTTAAGAATTATTATTGCT
*
20064932 CCAAACTGAAGTGT
66 CCAAACTCAAGTGT
20064946 TTTACAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.26
Consensus pattern (79 bp):
CACAGAAAATAAGAACGCAAGAGAAGGAGAAATTTGAGTGAATGCTCTTAAGAATTATTATTGCT
CCAAACTCAAGTGT
Found at i:20065894 original size:42 final size:41
Alignment explanation
Indices: 20065848--20065976 Score: 188
Period size: 42 Copynumber: 3.1 Consensus size: 41
20065838 CGAATATAAT
** *
20065848 AAATATTTTTATTTTTATTTTTTTAATTTTAAAATACTTTTA
1 AAATATTTTT-TTAATATTTTTTTAATTTTAAAATATTTTTA
*
20065890 AAATACTTTTTTTAAAATTTTTTTAATTTTAAAATATTTTTA
1 AAATA-TTTTTTTAATATTTTTTTAATTTTAAAATATTTTTA
*
20065932 AAATACTTTTTTAAT-TTTTTTTAATTTTAAAATATTTTTA
1 AAATATTTTTTTAATATTTTTTTAATTTTAAAATATTTTTA
20065972 AAATA
1 AAATA
20065977 AAATTTTTTA
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 30 0.38
41 8 0.10
42 37 0.46
43 5 0.06
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (41 bp):
AAATATTTTTTTAATATTTTTTTAATTTTAAAATATTTTTA
Found at i:20065912 original size:13 final size:14
Alignment explanation
Indices: 20065874--20065943 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 14
20065864 ATTTTTTTAA
20065874 TTTTAAAATAC---
1 TTTTAAAATACTTT
20065885 TTTTAAAATACTTT
1 TTTTAAAATACTTT
**
20065899 TTTTAAAATTTTTTT
1 TTTTAAAA-TACTTT
20065914 AATTTTAAAATA---T
1 --TTTTAAAATACTTT
20065927 TTTTAAAATACTTT
1 TTTTAAAATACTTT
20065941 TTT
1 TTT
20065944 AATTTTTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.45
13 1 0.02
14 12 0.26
15 4 0.09
16 1 0.02
17 8 0.17
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAAAATACTTT
Found at i:20065930 original size:30 final size:30
Alignment explanation
Indices: 20065885--20065949 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 30
20065875 TTTAAAATAC
20065885 TTTTAAAATACTTTTTTTAAAAT-TTTTTTAA
1 TTTTAAAATAC--TTTTTAAAATATTTTTTAA
20065916 TTTTAAAATA-TTTTTAAAATACTTTTTTAA
1 TTTTAAAATACTTTTTAAAATA-TTTTTTAA
20065946 TTTT
1 TTTT
20065950 TTTTAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
28 10 0.31
30 12 0.38
31 10 0.31
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTAAAATACTTTTTAAAATATTTTTTAA
Found at i:20065942 original size:40 final size:41
Alignment explanation
Indices: 20065864--20065976 Score: 192
Period size: 40 Copynumber: 2.8 Consensus size: 41
20065854 TTTTATTTTT
*
20065864 ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTAAA
20065906 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTT-AA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
*
20065946 TTTTTTTTAATTTTAAAATATTTTTAAAATA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATA
20065977 AAATTTTTTA
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
40 32 0.46
41 6 0.09
42 31 0.45
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (41 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
Found at i:20065984 original size:42 final size:41
Alignment explanation
Indices: 20065865--20065992 Score: 186
Period size: 42 Copynumber: 3.1 Consensus size: 41
20065855 TTTATTTTTA
* ** *
20065865 TTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAAA
1 TTTTTTTAATTTTAAAATATTTTTAAAATAAATTTTTT-AAT
*
20065907 TTTTTTTAATTTTAAAATATTTTTAAAAT-ACTTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATAAATTTTTTAAT
20065947 TTTTTTTAATTTTAAAATATTTTTAAAATAAAATTTTTTAAT
1 TTTTTTTAATTTTAAAATATTTTTAAAAT-AAATTTTTTAAT
20065989 TTTT
1 TTTT
20065993 AAAATAAATT
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
40 31 0.39
41 6 0.08
42 42 0.53
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (41 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATAAATTTTTTAAT
Found at i:20066001 original size:21 final size:22
Alignment explanation
Indices: 20065965--20066005 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
20065955 ATTTTAAAAT
20065965 ATTTTTAAAATAAAATTTTTTA
1 ATTTTTAAAATAAAATTTTTTA
20065987 ATTTTTAAAAT-AAATTTTT
1 ATTTTTAAAATAAAATTTTT
20066006 GGTATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTTTAAAATAAAATTTTTTA
Found at i:20067303 original size:87 final size:86
Alignment explanation
Indices: 20067195--20067381 Score: 268
Period size: 87 Copynumber: 2.2 Consensus size: 86
20067185 GCGTCGCTAA
* * * * *
20067195 CTTTAGCGGCACTTTTCCCACAAACGCCACTAAAGACCACGACCTTTAGCGGCGTTTTTTTCCAC
1 CTTTAACGGCGCTTTTCCCACAAACGCCACTAAAGACCACGACCTTTAGCGACG-CTTTTCCCAC
20067260 AAACGCCGCTA-AAGACCACGAC
65 AAACGCCGCTACAA-ACCACGAC
* * *
20067282 CTTTAACGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCCACA
1 CTTTAACGGCGCTTTTCCCACAAACGCCACTAAAGACCACGACCTTTAGCGACGCTTTTCCCACA
20067347 AACGCCGCTACAAACCACGAC
66 AACGCCGCTACAAACCACGAC
*
20067368 CTTTAACGACGCTT
1 CTTTAACGGCGCTT
20067382 CTAGCAAAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
86 40 0.44
87 50 0.56
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (86 bp):
CTTTAACGGCGCTTTTCCCACAAACGCCACTAAAGACCACGACCTTTAGCGACGCTTTTCCCACA
AACGCCGCTACAAACCACGAC
Found at i:20067312 original size:43 final size:43
Alignment explanation
Indices: 20067195--20067381 Score: 259
Period size: 43 Copynumber: 4.3 Consensus size: 43
20067185 GCGTCGCTAA
* *
20067195 CTTTAGCGGCACTTTTCCCACAAACGCCACTAAAGACCACGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
* *
20067238 CTTTAGCGGCGTTTTTTTCCACAAACGCCGCTAAAGACCACGAC
1 CTTTAGCGGCG-CTTTTCCCACAAACGCCGCTAAAGACCACGAC
* * *
20067282 CTTTAACGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
*
20067325 CTTTAGCGACGCTTTTCCCACAAACGCCGCTACAA-ACCACGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTA-AAGACCACGAC
* *
20067368 CTTTAACGACGCTT
1 CTTTAGCGGCGCTT
20067382 CTAGCAAAAA
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
43 89 0.68
44 41 0.32
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGAC
Found at i:20067393 original size:43 final size:43
Alignment explanation
Indices: 20067206--20067401 Score: 232
Period size: 43 Copynumber: 4.5 Consensus size: 43
20067196 TTTAGCGGCA
* * * *
20067206 CTTTTCCCACAAACGCCACTAAAGACCACGACCTTTAGCGGCG
1 CTTTTACCACAAACGCCGCTAAAGACCACGACCTTTAACGACG
* * *
20067249 TTTTTTTCCACAAACGCCGCTAAAGACCACGACCTTTAACGGCG
1 -CTTTTACCACAAACGCCGCTAAAGACCACGACCTTTAACGACG
* * *
20067293 CTTTTTCCACAAACGCCGCTAAAGACCATGACCTTTAGCGACG
1 CTTTTACCACAAACGCCGCTAAAGACCACGACCTTTAACGACG
*
20067336 CTTTTCCCACAAACGCCGCTACAA-ACCACGACCTTTAACGACG
1 CTTTTACCACAAACGCCGCTA-AAGACCACGACCTTTAACGACG
* * * *
20067379 CTTCTAGCAAAAACGCTGCTAAA
1 CTTTTACCACAAACGCCGCTAAA
20067402 AACATAATCT
Statistics
Matches: 135, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 2 0.01
43 92 0.68
44 41 0.30
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.21
Consensus pattern (43 bp):
CTTTTACCACAAACGCCGCTAAAGACCACGACCTTTAACGACG
Found at i:20071842 original size:14 final size:14
Alignment explanation
Indices: 20071825--20071867 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
20071815 ATAAACCGTA
* *
20071825 AACCCTTAACCCCT
1 AACCCCTAACCCTT
20071839 AACCCCTAACCCTT
1 AACCCCTAACCCTT
20071853 AAACCCC-AACCCTT
1 -AACCCCTAACCCTT
20071867 A
1 A
20071868 TAATTGTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 1 0.04
14 19 0.73
15 6 0.23
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.19
Consensus pattern (14 bp):
AACCCCTAACCCTT
Found at i:20071842 original size:21 final size:20
Alignment explanation
Indices: 20071825--20071865 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
20071815 ATAAACCGTA
20071825 AACCCTT-AACCCCTAACCCCT
1 AACCCTTAAACCCC-AA-CCCT
20071846 AACCCTTAAACCCCAACCCT
1 AACCCTTAAACCCCAACCCT
20071866 TATAATTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.32, C:0.51, G:0.00, T:0.17
Consensus pattern (20 bp):
AACCCTTAAACCCCAACCCT
Found at i:20072882 original size:41 final size:41
Alignment explanation
Indices: 20072822--20073062 Score: 358
Period size: 41 Copynumber: 5.9 Consensus size: 41
20072812 TATGATAAAT
*
20072822 CTGAGCATTAGCGGCGCTTCTTCAAAAACGGCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
* * *
20072863 CTGAGCATTAGCAGAGCTTCTTCAAAAATGCC-CTAAAGCC
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
* *
20072903 TTGAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
* * *
20072944 CTTAGCATTAGCGGCGCTTCTTAAAAAACACCGCTAAAGCC
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
* *
20072985 CTGGGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCA
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
* *
20073026 CTGATCATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
1 CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAA
20073063 TGCCTAAAAA
Statistics
Matches: 177, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 35 0.20
41 142 0.80
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCC
Found at i:20073198 original size:40 final size:39
Alignment explanation
Indices: 20073122--20073239 Score: 150
Period size: 40 Copynumber: 3.0 Consensus size: 39
20073112 CACTTTTTGG
20073122 AAAA-CGCCGCTAATGCTC-ATTTTTAGCGGCGTTTTTT
1 AAAAGCGCCGCTAATGCTCGATTTTTAGCGGCGTTTTTT
* * * *
20073159 AAGAAGCGCCGCTAATACTCGATCTTTAGTGGCATTTTTTT
1 AA-AAGCGCCGCTAATGCTCGATTTTTAGCGGC-GTTTTTT
* *
20073200 AAAAGCGTCGCTAATGCTTGATTTTTAGCGGCGTTTTTT
1 AAAAGCGCCGCTAATGCTCGATTTTTAGCGGCGTTTTTT
20073239 A
1 A
20073240 TCCAAACGCC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
37 2 0.03
38 2 0.03
39 20 0.30
40 35 0.52
41 8 0.12
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (39 bp):
AAAAGCGCCGCTAATGCTCGATTTTTAGCGGCGTTTTTT
Done.