Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 56 of 222
Found at i:16940384 original size:6 final size:6
Alignment explanation
Indices: 16940354--16940420 Score: 59
Period size: 6 Copynumber: 11.7 Consensus size: 6
16940344 CTTCTCTTTT
* * * ** *
16940354 TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTTC TTTT-- TTTT-T
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
16940399 TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTT
16940421 TTTTTGTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
4 4 0.08
5 4 0.08
6 45 0.85
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.73
Consensus pattern (6 bp):
TTTTGA
Found at i:16940396 original size:27 final size:27
Alignment explanation
Indices: 16940366--16940423 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
16940356 TTCATTTTCA
**
16940366 TTTTGACTTTGATTTTGATTTTTCTTT
1 TTTTGACTTTGATTTTGATTTTGATTT
***
16940393 TTTTTTTTTTGATTTTGATTTTGATTT
1 TTTTGACTTTGATTTTGATTTTGATTT
16940420 TTTT
1 TTTT
16940424 TTGTTTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.10, C:0.03, G:0.10, T:0.76
Consensus pattern (27 bp):
TTTTGACTTTGATTTTGATTTTGATTT
Found at i:16940408 original size:39 final size:37
Alignment explanation
Indices: 16940348--16940436 Score: 115
Period size: 39 Copynumber: 2.3 Consensus size: 37
16940338 TTTTTCCTTC
*
16940348 TCTTTTTTTTCATTTTCATTTTGACTTTGATTTTGATTTT
1 TCTTTTTTTT-TTTTTCATTTTGACTTTGATTTT--TTTT
* *
16940388 TCTTTTTTTTTTTTTGATTTTGATTTTGATTTTTTTT
1 TCTTTTTTTTTTTTTCATTTTGACTTTGATTTTTTTT
*
16940425 TGTTTTTTTTTT
1 TCTTTTTTTTTT
16940437 ATTTTTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
37 15 0.33
39 20 0.44
40 10 0.22
ACGTcount: A:0.09, C:0.06, G:0.08, T:0.78
Consensus pattern (37 bp):
TCTTTTTTTTTTTTTCATTTTGACTTTGATTTTTTTT
Found at i:16940424 original size:27 final size:28
Alignment explanation
Indices: 16940373--16940430 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
16940363 TCATTTTGAC
**
16940373 TTTGATTTTGATTTTTCTTTTTTTTT-T
1 TTTGATTTTGATTTTGATTTTTTTTTGT
16940400 TTTGATTTTGATTTTGATTTTTTTTTGT
1 TTTGATTTTGATTTTGATTTTTTTTTGT
16940428 TTT
1 TTT
16940431 TTTTTTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.09, C:0.02, G:0.10, T:0.79
Consensus pattern (28 bp):
TTTGATTTTGATTTTGATTTTTTTTTGT
Found at i:16940449 original size:33 final size:33
Alignment explanation
Indices: 16940366--16940441 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
16940356 TTCATTTTCA
*
16940366 TTTTGACTTTGATTTTGATTTTTCTTTTTTTTT
1 TTTTGATTTTGATTTTGATTTTTCTTTTTTTTT
16940399 TTTTGATTTTGATTTTGATTTTT-TTTTGTTTTT
1 TTTTGATTTTGATTTTGATTTTTCTTTT-TTTTT
*
16940432 TTTTTATTTT
1 TTTTGATTTT
16940442 TTATTTGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
32 4 0.10
33 36 0.90
ACGTcount: A:0.09, C:0.03, G:0.09, T:0.79
Consensus pattern (33 bp):
TTTTGATTTTGATTTTGATTTTTCTTTTTTTTT
Found at i:16940449 original size:39 final size:40
Alignment explanation
Indices: 16940350--16940447 Score: 112
Period size: 39 Copynumber: 2.5 Consensus size: 40
16940340 TTTCCTTCTC
*
16940350 TTTTTTTTCA-TTTTCATTTTGACTTTGATTTTGATTTTT
1 TTTTTTTTTATTTTTCATTTTGACTTTGATTTTGATTTTT
* * * *
16940389 CTTTTTTTT-TTTTTGATTTTGATTTTGATTTT-TTTTTGT
1 TTTTTTTTTATTTTTCATTTTGACTTTGATTTTGATTTT-T
*
16940428 TTTTTTTTTATTTTTTATTT
1 TTTTTTTTTATTTTTCATTT
16940448 GAAAGGATCT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
38 4 0.08
39 36 0.73
40 9 0.18
ACGTcount: A:0.10, C:0.04, G:0.07, T:0.79
Consensus pattern (40 bp):
TTTTTTTTTATTTTTCATTTTGACTTTGATTTTGATTTTT
Found at i:16944740 original size:17 final size:18
Alignment explanation
Indices: 16944718--16944758 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
16944708 ATGTCTAAGT
16944718 ATGTATAT-TAATTA-AAA
1 ATGTATATGT-ATTATAAA
*
16944735 ATGTATGTGTATTATAAA
1 ATGTATATGTATTATAAA
16944753 ATGTAT
1 ATGTAT
16944759 GCATGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (18 bp):
ATGTATATGTATTATAAA
Found at i:16944740 original size:21 final size:18
Alignment explanation
Indices: 16944716--16944759 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
16944706 ACATGTCTAA
16944716 GTATGTATATTAATTAAAAAT
1 GTATGTATATT-A-T-AAAAT
*
16944737 GTATGTGTATTATAAAAT
1 GTATGTATATTATAAAAT
16944755 GTATG
1 GTATG
16944760 CATGTATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
19 1 0.05
20 1 0.05
21 10 0.45
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.43
Consensus pattern (18 bp):
GTATGTATATTATAAAAT
Found at i:16945725 original size:13 final size:13
Alignment explanation
Indices: 16945707--16945736 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16945697 TCTATTGTTT
*
16945707 TTGTTTGTTTCTG
1 TTGTTTGCTTCTG
16945720 TTGTTTGCTTCTG
1 TTGTTTGCTTCTG
16945733 TTGT
1 TTGT
16945737 CTTTTAGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.23, T:0.67
Consensus pattern (13 bp):
TTGTTTGCTTCTG
Found at i:16946814 original size:39 final size:40
Alignment explanation
Indices: 16946771--16946858 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 40
16946761 GTAAAACTAT
* * *
16946771 TACTCAAATTCC-TCTTGCAATATCAA-TTATGTATCCAAA
1 TACTCAAATTCCGTCTTGAAAAATCAACTT-TGTAACCAAA
* *
16946810 TACTC-AACTCCGTTTTGAAAAATCAACTTTGTAACCAAA
1 TACTCAAATTCCGTCTTGAAAAATCAACTTTGTAACCAAA
16946849 TACTCAAATT
1 TACTCAAATT
16946859 TCACTTGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
38 5 0.12
39 30 0.75
40 5 0.12
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (40 bp):
TACTCAAATTCCGTCTTGAAAAATCAACTTTGTAACCAAA
Found at i:16947343 original size:39 final size:39
Alignment explanation
Indices: 16947273--16947394 Score: 136
Period size: 39 Copynumber: 3.1 Consensus size: 39
16947263 CTAGAACTAT
* * * *
16947273 TACTCAAATTCATATTGGAAACCCAATTTTGTATCCAAA
1 TACTTAAATTCATATTGGAAACTCAACTTTGTAACCAAA
* *
16947312 TACTTAACTTCATATTGGAAACTCAACTTTGTAACAAAA
1 TACTTAAATTCATATTGGAAACTCAACTTTGTAACCAAA
* * ** * *
16947351 TACTCAAATTCCTCCTGAAAACTCAACTTTATAACCAAA
1 TACTTAAATTCATATTGGAAACTCAACTTTGTAACCAAA
16947390 TACTT
1 TACTT
16947395 TGTAAAAATT
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (39 bp):
TACTTAAATTCATATTGGAAACTCAACTTTGTAACCAAA
Found at i:16950857 original size:37 final size:39
Alignment explanation
Indices: 16950798--16950893 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 39
16950788 CGGATAGATT
* * * *
16950798 CGATGAGGCACCGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
*
16950835 CGATGAGGCACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
16950874 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
16950894 TACTGGAGTG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
37 20 0.40
38 2 0.04
39 25 0.50
40 3 0.06
ACGTcount: A:0.20, C:0.26, G:0.29, T:0.25
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:16950966 original size:8 final size:8
Alignment explanation
Indices: 16950953--16950978 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
16950943 TTAATAGGGT
16950953 AAATAATA
1 AAATAATA
16950961 AAATAATA
1 AAATAATA
16950969 AAATAATA
1 AAATAATA
16950977 AA
1 AA
16950979 CTAAATGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAATAATA
Found at i:16957383 original size:30 final size:29
Alignment explanation
Indices: 16957329--16957392 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
16957319 TTATTTCCTA
* *
16957329 AAATATATTATAAATATTATATATAATAAT
1 AAATATATTATAAATATCACATATAA-AAT
*
16957359 AAATATATTTATAAA-ATCACATATAAATT
1 AAATATA-TTATAAATATCACATATAAAAT
16957388 AAATA
1 AAATA
16957393 AGTACTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 16 0.53
31 7 0.23
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (29 bp):
AAATATATTATAAATATCACATATAAAAT
Found at i:16959245 original size:27 final size:26
Alignment explanation
Indices: 16959179--16959245 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 26
16959169 GAGAGTATTT
*
16959179 TAAATTTTATA-TAAGATATAAAACA
1 TAAAATTTATACTAAGATATAAAACA
* * *
16959204 TAAAATTTCAAACTAATATATAAACCA
1 TAAAATTT-ATACTAAGATATAAAACA
*
16959231 TAAACTATTATACTA
1 TAAAAT-TTATACTA
16959246 TTATTTAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 7 0.21
26 2 0.06
27 22 0.67
28 2 0.06
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.34
Consensus pattern (26 bp):
TAAAATTTATACTAAGATATAAAACA
Found at i:16965821 original size:20 final size:20
Alignment explanation
Indices: 16965796--16965836 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16965786 TAAGACTAAA
* *
16965796 TCAGAAACATATAAAAATTT
1 TCAGAAAAAGATAAAAATTT
*
16965816 TCAGAAAAAGATGAAAATTT
1 TCAGAAAAAGATAAAAATTT
16965836 T
1 T
16965837 TAAACTGCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.29
Consensus pattern (20 bp):
TCAGAAAAAGATAAAAATTT
Found at i:16970582 original size:37 final size:37
Alignment explanation
Indices: 16970532--16970606 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
16970522 CTGAGTGAGC
16970532 ACAAGTGATCAAAATGGGTATGTAATCACCACTATTA
1 ACAAGTGATCAAAATGGGTATGTAATCACCACTATTA
16970569 ACAAGTGATCAAAATGGGTATGTAATCACCACTATTA
1 ACAAGTGATCAAAATGGGTATGTAATCACCACTATTA
16970606 A
1 A
16970607 ATATTCTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (37 bp):
ACAAGTGATCAAAATGGGTATGTAATCACCACTATTA
Found at i:16971591 original size:30 final size:32
Alignment explanation
Indices: 16971543--16971628 Score: 140
Period size: 30 Copynumber: 2.8 Consensus size: 32
16971533 AAATGCATGG
*
16971543 TTGTGAAATGATAACAAATATCAACTTTAATT
1 TTGTGAAATGATAACAAATACCAACTTTAATT
16971575 TTGTGAAAT-A-AACAAATACCAACTTTAATT
1 TTGTGAAATGATAACAAATACCAACTTTAATT
*
16971605 ATGTGAAATGATAACAAATACCAA
1 TTGTGAAATGATAACAAATACCAA
16971629 GTTGGATGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
30 27 0.54
31 2 0.04
32 21 0.42
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
TTGTGAAATGATAACAAATACCAACTTTAATT
Found at i:16974026 original size:11 final size:11
Alignment explanation
Indices: 16973974--16974041 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
16973964 TAAGAATAAT
16973974 AGAGA-ATTTG
1 AGAGATATTTG
*
16973984 AGAGAT-TTCTT
1 AGAGATATT-TG
16973995 AGAG-TGATTTG
1 AGAGAT-ATTTG
16974006 AGA-ATA-TTG
1 AGAGATATTTG
16974015 AGAGATATTTG
1 AGAGATATTTG
*
16974026 AGAGAAATTTG
1 AGAGATATTTG
*
16974037 TGAGA
1 AGAGA
16974042 ATAAAGTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
9 6 0.13
10 12 0.26
11 27 0.57
12 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.28, T:0.34
Consensus pattern (11 bp):
AGAGATATTTG
Found at i:16974036 original size:31 final size:30
Alignment explanation
Indices: 16973975--16974036 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
16973965 AAGAATAATA
* **
16973975 GAGAATTTGAGAGATTTCTTAGAGTGATTT
1 GAGAATTTGAGAGATTTCTGAGAGAAATTT
16974005 GAGAATATTGAGAGATATT-TGAGAGAAATTT
1 GAGAAT-TTGAGAGAT-TTCTGAGAGAAATTT
16974036 G
1 G
16974037 TGAGAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 6 0.22
31 19 0.70
32 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.35
Consensus pattern (30 bp):
GAGAATTTGAGAGATTTCTGAGAGAAATTT
Found at i:16974688 original size:20 final size:20
Alignment explanation
Indices: 16974642--16974713 Score: 78
Period size: 19 Copynumber: 3.6 Consensus size: 20
16974632 CAACAAAACT
16974642 AAAAGAATCATTAAAAACCC-C
1 AAAA-AATCA-TAAAAACCCTC
16974663 AAAAAAATC-TAAAAACCCTC
1 -AAAAAATCATAAAAACCCTC
* *
16974683 ATAAAATCATAAAAAACCT-
1 AAAAAATCATAAAAACCCTC
16974702 AAAAAATCATAA
1 AAAAAATCATAA
16974714 TCTATTTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
19 27 0.60
20 10 0.22
21 4 0.09
22 4 0.09
ACGTcount: A:0.62, C:0.19, G:0.01, T:0.17
Consensus pattern (20 bp):
AAAAAATCATAAAAACCCTC
Found at i:16974847 original size:19 final size:20
Alignment explanation
Indices: 16974819--16974861 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
16974809 TAGTTTCTTT
*
16974819 TTTTAAGAAA-ATCTTAGAA
1 TTTTAAGAAATATCTAAGAA
* *
16974838 TTTTATGAAATTTCTAAGAA
1 TTTTAAGAAATATCTAAGAA
16974858 TTTT
1 TTTT
16974862 TTGGTCGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.47
Consensus pattern (20 bp):
TTTTAAGAAATATCTAAGAA
Found at i:16975612 original size:31 final size:30
Alignment explanation
Indices: 16975576--16975634 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
16975566 TATATATTAT
*
16975576 TTTTTAA-ATCAATACTTTTTACTTATTATCA
1 TTTTTAATAT-AATAC-TTTTAATTATTATCA
*
16975607 TTTTTAATATATTACTTTTAATTATTAT
1 TTTTTAATATAATACTTTTAATTATTAT
16975635 TTCATGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.48
31 11 0.44
32 2 0.08
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTTAATATAATACTTTTAATTATTATCA
Found at i:16975625 original size:15 final size:15
Alignment explanation
Indices: 16975567--16975633 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 15
16975557 GCACATTATT
*
16975567 ATATATTATTTTTTA
1 ATATATTACTTTTTA
*
16975582 A-ATCAATACTTTTTA
1 ATAT-ATTACTTTTTA
*
16975597 CT-TATTATCATTTTTA
1 ATATATTA-C-TTTTTA
16975613 ATATATTAC-TTTTA
1 ATATATTACTTTTTA
16975627 AT-TATTA
1 ATATATTA
16975634 TTTCATGTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
13 5 0.12
14 12 0.29
15 12 0.29
16 8 0.19
17 5 0.12
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.58
Consensus pattern (15 bp):
ATATATTACTTTTTA
Found at i:16975675 original size:16 final size:16
Alignment explanation
Indices: 16975654--16975708 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
16975644 TTCCATTTAT
16975654 ATATTTTTTAAGAATA
1 ATATTTTTTAAGAATA
* *
16975670 ATATTTAATATAA-ATTA
1 ATATTT--TTTAAGAATA
*
16975687 ATATATTTTAAGAATA
1 ATATTTTTTAAGAATA
16975703 ATATTT
1 ATATTT
16975709 AGTATAGTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 4 0.13
16 14 0.47
17 8 0.27
18 4 0.13
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (16 bp):
ATATTTTTTAAGAATA
Found at i:16989529 original size:27 final size:27
Alignment explanation
Indices: 16989380--16989643 Score: 205
Period size: 27 Copynumber: 9.8 Consensus size: 27
16989370 CCCTTCGTAA
* * *
16989380 TTCGCCATAAAGCCTTTCCTTTCATACT
1 TTCGCCACAAAGGCTTTTCTTTCATA-T
*
16989408 TT-GCCACAAAGACTTTTCTTTCATGA-
1 TTCGCCACAAAGGCTTTTCTTTCAT-AT
* *
16989434 TTCACCATAAAAGGCTTTTCTTTCATAT
1 TTCGCCA-CAAAGGCTTTTCTTTCATAT
*** *
16989462 TTCATTACAAATGC-TTT-TTTCATAT
1 TTCGCCACAAAGGCTTTTCTTTCATAT
* *
16989487 TTCACCATAAAGGCTTTTCTTTCATGA-
1 TTCGCCACAAAGGCTTTTCTTTCAT-AT
* * *
16989514 TTCGCCACAAATGCTTTTCTCTCATAG
1 TTCGCCACAAAGGCTTTTCTTTCATAT
* * *
16989541 TTCGTCACAAATGCTTTTCTCTCATAT
1 TTCGCCACAAAGGCTTTTCTTTCATAT
* *** **
16989568 TTCACCACAAAATTTTTTCTCCCATAT
1 TTCGCCACAAAGGCTTTTCTTTCATAT
* *
16989595 TTCTCCACAAAGGCTTTCCTTTCATAT
1 TTCGCCACAAAGGCTTTTCTTTCATAT
* *
16989622 TTTGCCATAAAGGCTTTTCTTT
1 TTCGCCACAAAGGCTTTTCTTT
16989644 TTTGACGTGT
Statistics
Matches: 191, Mismatches: 37, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
25 18 0.09
26 9 0.05
27 139 0.73
28 25 0.13
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (27 bp):
TTCGCCACAAAGGCTTTTCTTTCATAT
Found at i:16989557 original size:79 final size:82
Alignment explanation
Indices: 16989415--16989574 Score: 227
Period size: 79 Copynumber: 2.0 Consensus size: 82
16989405 ACTTTGCCAC
* * *
16989415 AAAGACTTTTCTTTCATGATTCACCATAAAAGGCTTTTCTTTCATATTTCATTACAAATGCTTTT
1 AAAGACTTTTCTTTCATGATTCACCATAAAAGGCTTTTCTCTCATAGTTCATCACAAATGCTTTT
16989480 -T-TCATATTTCACCAT
66 CTCTCATATTTCACCAT
* * * * *
16989495 AAAGGCTTTTCTTTCATGATTCGCCA-CAAATGCTTTTCTCTCATAGTTCGTCACAAATGCTTTT
1 AAAGACTTTTCTTTCATGATTCACCATAAAAGGCTTTTCTCTCATAGTTCATCACAAATGCTTTT
16989559 CTCTCATATTTCACCA
66 CTCTCATATTTCACCA
16989575 CAAAATTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
79 32 0.46
80 25 0.36
81 13 0.19
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.42
Consensus pattern (82 bp):
AAAGACTTTTCTTTCATGATTCACCATAAAAGGCTTTTCTCTCATAGTTCATCACAAATGCTTTT
CTCTCATATTTCACCAT
Found at i:16999295 original size:15 final size:15
Alignment explanation
Indices: 16999271--16999304 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16999261 GGGAAGGGAA
* *
16999271 TGATCCTGGTCTGAG
1 TGATCATGGTCTCAG
16999286 TGATCATGGTCTCAG
1 TGATCATGGTCTCAG
16999301 TGAT
1 TGAT
16999305 GATCCTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (15 bp):
TGATCATGGTCTCAG
Found at i:16999980 original size:33 final size:33
Alignment explanation
Indices: 16999938--17000003 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
16999928 TTGAATGCAC
* *
16999938 ATACGAGGATAGTAGTTGATGCTTTTACCAATG
1 ATACGAGGATAATAGTTGATGCTTCTACCAATG
16999971 ATACGAGGATAATAGTTGATGCTTCTACCAATG
1 ATACGAGGATAATAGTTGATGCTTCTACCAATG
17000004 GTACCCTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (33 bp):
ATACGAGGATAATAGTTGATGCTTCTACCAATG
Found at i:17002024 original size:27 final size:27
Alignment explanation
Indices: 17001993--17002170 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
17001983 TAAATTGTAC
17001993 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
17002020 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17002046 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
17002074 GGCACTAAGTGTGTGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
17002102 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
17002129 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
17002156 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17002171 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:17002107 original size:82 final size:81
Alignment explanation
Indices: 17001994--17002149 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
17001984 AAATTGTACA
* *
17001994 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
17002058 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
17002075 GCACTAAGTGTGTGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
17002140 TGCGAGTTGA
65 TGCGAATTGA
17002150 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:17002161 original size:82 final size:81
Alignment explanation
Indices: 17001990--17002170 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
17001980 GATTAAATTG
* *
17001990 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
17002055 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
17002071 TGCGGCACTAAGTGTGTGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
17002135 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
17002153 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
17002171 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:17002181 original size:27 final size:27
Alignment explanation
Indices: 17002101--17002181 Score: 63
Period size: 27 Copynumber: 3.0 Consensus size: 27
17002091 TTTGACTATG
** * * **
17002101 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGAGCTCAATATA
* * *
17002128 TAGCACTAAGTGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
* *
17002155 TAGCACTGAGTGTGCGGGCTCAATATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
17002182 CATTCGTGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGAGCTCAATATA
Found at i:17008117 original size:16 final size:16
Alignment explanation
Indices: 17008095--17008131 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
17008085 TTAAATTAAT
*
17008095 AAAAGAAAAGTAAAAG
1 AAAAGAAAAGAAAAAG
*
17008111 GAAAGAAAAGAAAAAG
1 AAAAGAAAAGAAAAAG
17008127 AAAAG
1 AAAAG
17008132 TTTCATCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAGAAAAAG
Found at i:17011588 original size:20 final size:22
Alignment explanation
Indices: 17011553--17011593 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
17011543 AATACAAGCA
17011553 TTTTCATTATGTTTTAGTTAAG
1 TTTTCATTATGTTTTAGTTAAG
*
17011575 TTTTC-TTA-GTTTTATTTAA
1 TTTTCATTATGTTTTAGTTAA
17011594 ATTCAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.22, C:0.05, G:0.10, T:0.63
Consensus pattern (22 bp):
TTTTCATTATGTTTTAGTTAAG
Found at i:17012704 original size:15 final size:14
Alignment explanation
Indices: 17012677--17012708 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
17012667 TATCTCTTGA
17012677 ATTTTATTTATTTT
1 ATTTTATTTATTTT
17012691 ATTTTATGTTATTTT
1 ATTTTAT-TTATTTT
17012706 ATT
1 ATT
17012709 ATTCAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (14 bp):
ATTTTATTTATTTT
Found at i:17015481 original size:7 final size:7
Alignment explanation
Indices: 17015469--17015495 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17015459 GGAATGGCAG
17015469 GATGGAT
1 GATGGAT
17015476 GATGGAT
1 GATGGAT
17015483 GATGGAT
1 GATGGAT
17015490 GATGGA
1 GATGGA
17015496 CTAATACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.44, T:0.26
Consensus pattern (7 bp):
GATGGAT
Found at i:17019768 original size:29 final size:28
Alignment explanation
Indices: 17019736--17020010 Score: 203
Period size: 29 Copynumber: 9.5 Consensus size: 28
17019726 AGTTTGTCGC
* *
17019736 AAGGCATACCTTTAATCGAGATAGCCAAA
1 AAGGCAT-CCTTTAATAGAGATAGCCACA
* *
17019765 AAGGTATCCTATTAACAGAGATAGCCACA
1 AAGGCATCCT-TTAATAGAGATAGCCACA
17019794 AAGGCATCCTTCTAATAGAGATAGCCACA
1 AAGGCATCCTT-TAATAGAGATAGCCACA
* * * ** *
17019823 AATGCCTCATTTTAACGGAGATAGCCATA
1 AAGGCATC-CTTTAATAGAGATAGCCACA
* *
17019852 AAAG-ATTCCGTTTAATAGAGATAGCCATA
1 AAGGCA-TCC-TTTAATAGAGATAGCCACA
* *
17019881 AATGCATCATTTTAATAGAGATAGCCACA
1 AAGGCATC-CTTTAATAGAGATAGCCACA
* **
17019910 AAGGCTTCCTTTTAATAGAGATTTCCACA
1 AAGGCATCC-TTTAATAGAGATAGCCACA
* * * *
17019939 AAGG-ATTCCTTTTGATAGAGGTAACCACG
1 AAGGCA-TCC-TTTAATAGAGATAGCCACA
* * * *
17019968 AATGCTTCTTTTTCATAGAGATAGCCACA
1 AAGGCATC-CTTTAATAGAGATAGCCACA
17019997 AAGGCATCCATTTA
1 AAGGCATCC-TTTA
17020011 GAAATAGCAG
Statistics
Matches: 192, Mismatches: 42, Indels: 24
0.74 0.16 0.09
Matches are distributed among these distances:
28 4 0.02
29 185 0.96
30 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (28 bp):
AAGGCATCCTTTAATAGAGATAGCCACA
Found at i:17019897 original size:87 final size:85
Alignment explanation
Indices: 17019753--17020001 Score: 255
Period size: 87 Copynumber: 2.9 Consensus size: 85
17019743 ACCTTTAATC
* * * * *
17019753 GAGATAGCCAAAAAGGTATCCTATTAACAGAGATAGCCACAAAGGCATCCTTCTAATAGAGATAG
1 GAGATAGCCAAAAAGAT-TCCT-TTAATAGAGATAGCCACAAATGCATCATTTTAATAGAGATAG
* *
17019818 CCACAAATGCCTCATTTTAACG
64 CCACAAAGGCCTCATTTTAACA
*
17019840 GAGATAGCCATAAAAGATTCCGTTTAATAGAGATAGCCATAAATGCATCATTTTAATAGAGATAG
1 GAGATAGCCA-AAAAGATTCC-TTTAATAGAGATAGCCACAAATGCATCATTTTAATAGAGATAG
* * *
17019905 CCACAAAGGCTTCCTTTTAATA
64 CCACAAAGGCCTCATTTTAACA
** * * * * * * * *
17019927 GAGATTTCCACAAAGGATTCCTTTTGATAGAGGTAACCACGAATGCTTCTTTTTCATAGAGATAG
1 GAGATAGCCA-AAAAGATTCC-TTTAATAGAGATAGCCACAAATGCATCATTTTAATAGAGATAG
17019992 CCACAAAGGC
64 CCACAAAGGC
17020002 ATCCATTTAG
Statistics
Matches: 136, Mismatches: 24, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
87 129 0.95
88 7 0.05
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (85 bp):
GAGATAGCCAAAAAGATTCCTTTAATAGAGATAGCCACAAATGCATCATTTTAATAGAGATAGCC
ACAAAGGCCTCATTTTAACA
Found at i:17019957 original size:58 final size:57
Alignment explanation
Indices: 17019746--17020009 Score: 231
Period size: 58 Copynumber: 4.5 Consensus size: 57
17019736 AAGGCATACC
* * * * * *
17019746 TTTAATCGAGATAGCCAAAAAGGTATCCTATTAACAGAGATAGCCACAAAGGCATCCT
1 TTTAATAGAGATAGCCACAAAGG-ATCATTTTAATAGAGATAGCCACAAAGGCTTCCT
* ** ** * * * *
17019804 TCTAATAGAGATAGCCACAAATGCCTCATTTTAACGGAGATAGCCATAAAAGATTCCG
1 TTTAATAGAGATAGCCACAAA-GGATCATTTTAATAGAGATAGCCACAAAGGCTTCCT
* *
17019862 TTTAATAGAGATAGCCATAAATGCATCATTTTAATAGAGATAGCCACAAAGGCTTCCT
1 TTTAATAGAGATAGCCACAAA-GGATCATTTTAATAGAGATAGCCACAAAGGCTTCCT
** * * * * * * *
17019920 TTTAATAGAGATTTCCACAAAGGATTCCTTTTGATAGAGGTAACCACGAATGCTTCTT
1 TTTAATAGAGATAGCCACAAAGGA-TCATTTTAATAGAGATAGCCACAAAGGCTTCCT
*
17019978 TTTCATAGAGATAGCCACAAAGGCATCCATTT
1 TTTAATAGAGATAGCCACAAAGG-AT-CATTT
17020010 AGAAATAGCA
Statistics
Matches: 165, Mismatches: 37, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
57 2 0.01
58 157 0.95
59 6 0.04
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (57 bp):
TTTAATAGAGATAGCCACAAAGGATCATTTTAATAGAGATAGCCACAAAGGCTTCCT
Found at i:17023928 original size:29 final size:29
Alignment explanation
Indices: 17023888--17023957 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
17023878 AAGGAATTCC
* *
17023888 TTTAATTA-AGATAATCACACAGGCACCCT
1 TTTAA-TAGAGATAACCACAAAGGCACCCT
** **
17023917 TTTAATAGAGATTGCCACAAAGGCTTCCT
1 TTTAATAGAGATAACCACAAAGGCACCCT
17023946 TTTAATAGAGAT
1 TTTAATAGAGAT
17023958 TGCCATAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 2 0.06
29 32 0.94
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (29 bp):
TTTAATAGAGATAACCACAAAGGCACCCT
Found at i:17023977 original size:29 final size:29
Alignment explanation
Indices: 17023914--17023984 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
17023904 ACACAGGCAC
* *
17023914 CCTTTTAATAGAGATTGCCACAAAGGCTT
1 CCTTTTAATAGAGATTGCCACAAAAGATT
* *
17023943 CCTTTTAATAGAGATTGCCATAAAATATT
1 CCTTTTAATAGAGATTGCCACAAAAGATT
* *
17023972 CTTTTTGATAGAG
1 CCTTTTAATAGAG
17023985 GCAGCCATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (29 bp):
CCTTTTAATAGAGATTGCCACAAAAGATT
Found at i:17025322 original size:16 final size:16
Alignment explanation
Indices: 17025301--17025332 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17025291 CCATTCCTAT
17025301 TACACAGGGCTGTATA
1 TACACAGGGCTGTATA
17025317 TACACAGGGCTGTATA
1 TACACAGGGCTGTATA
17025333 AACGGAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (16 bp):
TACACAGGGCTGTATA
Found at i:17034902 original size:43 final size:43
Alignment explanation
Indices: 17034794--17034905 Score: 170
Period size: 43 Copynumber: 2.6 Consensus size: 43
17034784 GGAGATCTTG
* * ** *
17034794 ATGTTAATTTGGCATGGATATAAGTTAAGCAAGTAAAAGATTA
1 ATGTTAATTAGGCATGGATATATGTTAAAAAACTAAAAGATTA
*
17034837 ATGTTAATTAGGCATGGATATATGTTAAAAAACTAAAAGGTTA
1 ATGTTAATTAGGCATGGATATATGTTAAAAAACTAAAAGATTA
17034880 ATGTTAATTAGGCATGGATATATGTT
1 ATGTTAATTAGGCATGGATATATGTT
17034906 TACGATAGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (43 bp):
ATGTTAATTAGGCATGGATATATGTTAAAAAACTAAAAGATTA
Found at i:17045175 original size:23 final size:23
Alignment explanation
Indices: 17045149--17045192 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17045139 TAATTAAACC
* *
17045149 TTAATTTACTTAATTAATCATAT
1 TTAATTAAATTAATTAATCATAT
*
17045172 TTAATTAAATTCATTAATCAT
1 TTAATTAAATTAATTAATCAT
17045193 TAATAATACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (23 bp):
TTAATTAAATTAATTAATCATAT
Found at i:17048455 original size:35 final size:35
Alignment explanation
Indices: 17048282--17048455 Score: 95
Period size: 35 Copynumber: 5.0 Consensus size: 35
17048272 TTATGACATA
* *
17048282 TTGGCATTGTGGTGGGAT-ATTGATAAAAGAAGTT
1 TTGGCATTGTGGCGGGATGATTGATAAAATAAGTT
* * * * ** *
17048316 CTGGCGTTCTGGCGGGAT-ATTGGTTGAATGAAGTA
1 TTGGCATTGTGGCGGGATGATTGATAAAAT-AAGTT
** * * * * * *
17048351 TTGGTGTTGTGGCGGAATG-TTAATTGAAAGAGGTA
1 TTGGCATTGTGGCGGGATGATTGA-TAAAATAAGTT
* * * *
17048386 TTGGCCTTATGGCGGGATGATCGAT-AGATGAAGTT
1 TTGGCATTGTGGCGGGATGATTGATAAAAT-AAGTT
*
17048421 TTGGCATTGTGGTGGGATGATTGATAAAATAAGTT
1 TTGGCATTGTGGCGGGATGATTGATAAAATAAGTT
17048456 CTGGTCAGAT
Statistics
Matches: 100, Mismatches: 34, Indels: 11
0.69 0.23 0.08
Matches are distributed among these distances:
34 23 0.23
35 69 0.69
36 8 0.08
ACGTcount: A:0.25, C:0.06, G:0.34, T:0.34
Consensus pattern (35 bp):
TTGGCATTGTGGCGGGATGATTGATAAAATAAGTT
Found at i:17055027 original size:17 final size:16
Alignment explanation
Indices: 17055006--17055067 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 16
17054996 TAAGATAATA
17055006 AAATAAAATAAAAAAT
1 AAATAAAATAAAAAAT
*
17055022 AGAATATAATAAAATAAT
1 A-AATAAAATAAAA-AAT
*
17055040 AATAATCAACATAAATAAAT
1 -A-AAT-AAAATAAA-AAAT
17055060 AAATAAAA
1 AAATAAAA
17055068 AATAGAGGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
16 1 0.03
17 14 0.39
18 6 0.17
19 5 0.14
20 9 0.25
21 1 0.03
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.23
Consensus pattern (16 bp):
AAATAAAATAAAAAAT
Found at i:17055057 original size:27 final size:27
Alignment explanation
Indices: 17054995--17055067 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
17054985 TTCAAATGTA
*
17054995 ATAAGATAATAAAATAAAATAAAAAAT
1 ATAAGATAATAAAATAAAATAAAAAAC
* * **
17055022 AGAATATAATAAAATAATAATAATCAAC
1 ATAAGATAATAAAATAA-AATAAAAAAC
17055050 ATAA-ATAA-ATAAATAAAA
1 ATAAGATAATA-AAATAAAA
17055068 AATAGAGGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 3 0.08
27 25 0.66
28 10 0.26
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (27 bp):
ATAAGATAATAAAATAAAATAAAAAAC
Found at i:17065480 original size:51 final size:50
Alignment explanation
Indices: 17065400--17065597 Score: 193
Period size: 51 Copynumber: 3.9 Consensus size: 50
17065390 TGCCTATAAA
* *
17065400 CACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCGATA-GATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGA-AGGAT-ATGGT
* * * * *
17065451 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGAAGGATATGGT
* * * * * * *
17065502 CACGTGCGTAGTACTATGTACAGGCTACTACGTGAACCGGAAAG-TTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAAGGATATGGT
* * *
17065552 CACGTGTGTAGTACTATGTGAAGCCTACTACGTGTATCGAATGATA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAGGATA
17065598 ATAATTACAC
Statistics
Matches: 119, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 4 0.03
50 38 0.32
51 72 0.61
52 5 0.04
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAGGATATGGT
Found at i:17073691 original size:40 final size:40
Alignment explanation
Indices: 17073607--17073790 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
17073597 TTGAATGCTG
* * * *
17073607 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
17073646 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
17073687 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
17073727 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
17073767 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
17073791 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:17073744 original size:80 final size:81
Alignment explanation
Indices: 17073607--17073787 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
17073597 TTGAATGCTG
* *
17073607 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
17073671 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
17073687 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
17073748 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
17073767 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
17073788 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:17078537 original size:15 final size:15
Alignment explanation
Indices: 17078517--17078545 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17078507 GCATTTATCA
17078517 ACATCTCAAGCTAAG
1 ACATCTCAAGCTAAG
17078532 ACATCTCAAGCTAA
1 ACATCTCAAGCTAA
17078546 ATCATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (15 bp):
ACATCTCAAGCTAAG
Found at i:17079339 original size:38 final size:38
Alignment explanation
Indices: 17079288--17079363 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
17079278 TATGTCATTC
17079288 TATAATTCTTATTTATAGGAAAAAGGTACAAGAGTTTT
1 TATAATTCTTATTTATAGGAAAAAGGTACAAGAGTTTT
17079326 TATAATTCTTATTTATAGGAAAAAGGTACAAGAGTTTT
1 TATAATTCTTATTTATAGGAAAAAGGTACAAGAGTTTT
17079364 ACTTGAACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.39
Consensus pattern (38 bp):
TATAATTCTTATTTATAGGAAAAAGGTACAAGAGTTTT
Found at i:17096390 original size:26 final size:26
Alignment explanation
Indices: 17096360--17096409 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
17096350 AAAAGATAGA
* *
17096360 ATTAATTA-TATAAATATTTTAAAATT
1 ATTAAATATTATAAA-ATTTAAAAATT
17096386 ATTAAATATTATAAAATTTAAAAA
1 ATTAAATATTATAAAATTTAAAAA
17096410 CACTACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATTAAATATTATAAAATTTAAAAATT
Found at i:17096393 original size:18 final size:19
Alignment explanation
Indices: 17096363--17096403 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
17096353 AGATAGAATT
*
17096363 AATTATATAAATATTTTAA
1 AATTATATAAATATTATAA
17096382 AATTAT-TAAATATTATAA
1 AATTATATAAATATTATAA
17096400 AATT
1 AATT
17096404 TAAAAACACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATTATATAAATATTATAA
Found at i:17098302 original size:33 final size:33
Alignment explanation
Indices: 17098260--17098337 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
17098250 GCTGTGTGCG
* *
17098260 AGGCCGTGTGTGACACACGGGCAATGCCATTTT
1 AGGCCGTGTGGGACACACGGGCAAGGCCATTTT
*
17098293 AGGCCGTGTGGGCCACACGGGCAAGGCCATTTT
1 AGGCCGTGTGGGACACACGGGCAAGGCCATTTT
* *
17098326 GGGCCCTGTGGG
1 AGGCCGTGTGGG
17098338 CCTAAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.17, C:0.26, G:0.37, T:0.21
Consensus pattern (33 bp):
AGGCCGTGTGGGACACACGGGCAAGGCCATTTT
Found at i:17098564 original size:28 final size:28
Alignment explanation
Indices: 17098532--17098589 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
17098522 AGCATGTCCA
* *
17098532 ATATCTGTTTTGAGTATGCATGATATAT
1 ATATCTGTTATGAGCATGCATGATATAT
*
17098560 ATATCTGTTATGAGCATGCATTATATAT
1 ATATCTGTTATGAGCATGCATGATATAT
17098588 AT
1 AT
17098590 TATGGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.45
Consensus pattern (28 bp):
ATATCTGTTATGAGCATGCATGATATAT
Found at i:17100213 original size:46 final size:46
Alignment explanation
Indices: 17100103--17100356 Score: 392
Period size: 46 Copynumber: 5.6 Consensus size: 46
17100093 TACATATGAT
* * *
17100103 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
17100146 CACTTATCACTTT-TTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTT-ACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
17100192 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGTTAAAGCTAC
1 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
17100238 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTAC
17100284 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTAC
17100330 CACTTATCACTTTGTCT-CTTGATCAGA
1 CACTTATCACTTTGT-TACTTGATCAGA
17100357 AGTACTCAAA
Statistics
Matches: 194, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.05
44 3 0.02
45 20 0.10
46 158 0.81
47 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:17100249 original size:92 final size:92
Alignment explanation
Indices: 17100101--17100356 Score: 437
Period size: 92 Copynumber: 2.8 Consensus size: 92
17100091 CTTACATATG
* * * *
17100101 ATCACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTTTCA
1 ATCACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
17100163 CTTGATCAGATAAGTGTAGCTAAAGCT
66 CTTGATCAGATAAGTGTAGCTAAAGCT
*
17100190 ATCACTTATCACTTTGTTACTTGATCAGATAAGTGTAGTTAAAGCTACCACTTATCACTTTGTCA
1 ATCACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
17100255 CTTGATCAGATAAGTGTAGCTAAAGCT
66 CTTGATCAGATAAGTGTAGCTAAAGCT
*
17100282 ATCACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCT
1 ATCACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
17100347 CTTGATCAGA
66 CTTGATCAGA
17100357 AGTACTCAAA
Statistics
Matches: 157, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
89 12 0.08
90 3 0.02
91 20 0.13
92 122 0.78
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.36
Consensus pattern (92 bp):
ATCACTTATCACTTTGTTACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCA
CTTGATCAGATAAGTGTAGCTAAAGCT
Found at i:17101079 original size:26 final size:26
Alignment explanation
Indices: 17101049--17101103 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
17101039 ATCACAAAAA
17101049 TTAGAAGAAATAATCAAGAATTAAAC
1 TTAGAAGAAATAATCAAGAATTAAAC
17101075 TTAGAAGAAATAATCAAGAATTAAAC
1 TTAGAAGAAATAATCAAGAATTAAAC
17101101 TTA
1 TTA
17101104 CATGATTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.25
Consensus pattern (26 bp):
TTAGAAGAAATAATCAAGAATTAAAC
Found at i:17112253 original size:37 final size:37
Alignment explanation
Indices: 17112205--17112278 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
17112195 TTAGACAAAG
*
17112205 AAAGATTTTGGACACATAGAGGAGAATTAGGTATTAC
1 AAAGATTTTGGACACATAGAGGAGAATTAGATATTAC
17112242 AAAGATTTTGGACACATAGAGGAGAATTAGATATTAC
1 AAAGATTTTGGACACATAGAGGAGAATTAGATATTAC
17112279 TACATTGTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (37 bp):
AAAGATTTTGGACACATAGAGGAGAATTAGATATTAC
Found at i:17112522 original size:13 final size:13
Alignment explanation
Indices: 17112499--17112531 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
17112489 ATGGATTAAA
17112499 TTTTGTTAACTTAG
1 TTTT-TTAACTTAG
17112513 TTTTTTAACTTAG
1 TTTTTTAACTTAG
17112526 TTTTTT
1 TTTTTT
17112532 TTTTGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.18, C:0.06, G:0.09, T:0.67
Consensus pattern (13 bp):
TTTTTTAACTTAG
Found at i:17121046 original size:591 final size:591
Alignment explanation
Indices: 17119925--17121104 Score: 2351
Period size: 591 Copynumber: 2.0 Consensus size: 591
17119915 ATAGAATTCT
17119925 AAATTAAGCTCCGCTTGATATCTTTGAAACTAGGCTCAAATACCTTTCTACCATAAAATTGTCTG
1 AAATTAAGCTCCGCTTGATATCTTTGAAACTAGGCTCAAATACCTTTCTACCATAAAATTGTCTG
17119990 ACAGCTTCGACCTTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAAATTTGGATGATGTTACC
66 ACAGCTTCGACCTTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAAATTTGGATGATGTTACC
17120055 ATTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAACCCCTAATTATTT
131 ATTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAACCCCTAATTATTT
17120120 TTCTCCAAATTTTGATGATTTTCCAAAGTCAGAATAGGGGAACTCGTATCGAGGTTTTAACCCAT
196 TTCTCCAAATTTTGATGATTTTCCAAAGTCAGAATAGGGGAACTCGTATCGAGGTTTTAACCCAT
17120185 AAGTTACTAAACCTTACCTTCAACCGATGAACAGTAATTCCCAAACAAACTAAGACTCCGATTGG
261 AAGTTACTAAACCTTACCTTCAACCGATGAACAGTAATTCCCAAACAAACTAAGACTCCGATTGG
17120250 TGATTACGAGCCCTTGAATCCTCCTCTAATTGGCATAAACAAAAAAATTCAGAAGAAAGTTAACA
326 TGATTACGAGCCCTTGAATCCTCCTCTAATTGGCATAAACAAAAAAATTCAGAAGAAAGTTAACA
*
17120315 ATTGGAGACAAATCACTTATCTAAAACTTACCAAACGATCATAGATAAATGTAGAGCGACATGAG
391 ATTGGAGACAAATCACTTATCTAAAACTTACCAAACGATCATAGATAAATGTAGAGCGACACGAG
17120380 GCAGAGTGGGAAAAGAAAAATAAAAAAGGTGAAGGGTGAAAGAGAGCAGAAATTCGGCAGCAATG
456 GCAGAGTGGGAAAAGAAAAATAAAAAAGGTGAAGGGTGAAAGAGAGCAGAAATTCGGCAGCAATG
17120445 AAGAGAAAAACTACAAGAGAGTGGAGGGATTTTGGGGAAAGTAAAAAAAAAGGGAAAAAAAGATT
521 AAGAGAAAAACTACAAGAGAGTGGAGGGATTTTGGGGAAAGTAAAAAAAAAGGGAAAAAAAGATT
17120510 AACAGA
586 AACAGA
17120516 AAATTAAGCTCCGCTTGATATCTTTGAAACTAGGCTCAAATACCTTTCTACCATAAAATTGTCTG
1 AAATTAAGCTCCGCTTGATATCTTTGAAACTAGGCTCAAATACCTTTCTACCATAAAATTGTCTG
17120581 ACAGCTTCGACCTTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAAATTTGGATGATGTTACC
66 ACAGCTTCGACCTTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAAATTTGGATGATGTTACC
17120646 ATTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAACCCCTAATTATTT
131 ATTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAACCCCTAATTATTT
17120711 TTCTCCAAATTTTGATGATTTTCCAAAGTCAGAATAGGGGAACTCGTATCGAGGTTTTAACCCAT
196 TTCTCCAAATTTTGATGATTTTCCAAAGTCAGAATAGGGGAACTCGTATCGAGGTTTTAACCCAT
17120776 AAGTTACTAAACCTTACCTTCAACCGATGAACAGTAATTCCCAAACAAACTAAGACTCCGATTGG
261 AAGTTACTAAACCTTACCTTCAACCGATGAACAGTAATTCCCAAACAAACTAAGACTCCGATTGG
17120841 TGATTACGAGCCCTTGAATCCTCCTCTAATTGGCATAAACAAAAAAATTCAGAAGAAAGTTAACA
326 TGATTACGAGCCCTTGAATCCTCCTCTAATTGGCATAAACAAAAAAATTCAGAAGAAAGTTAACA
17120906 ATTGGAGACAAATCACTTATCTAAAACTTACCAAACGATCATAGATAAATGTAGAGCGACACGAG
391 ATTGGAGACAAATCACTTATCTAAAACTTACCAAACGATCATAGATAAATGTAGAGCGACACGAG
17120971 GCAGAGTGGGAAAAGAAAAATAAAAAAGGTGAAGGGTGAAAGAGAGCAGAAATTCGGCAGCAATG
456 GCAGAGTGGGAAAAGAAAAATAAAAAAGGTGAAGGGTGAAAGAGAGCAGAAATTCGGCAGCAATG
17121036 AAGAGAAAAACTACAAGAGAGTGGAGGGATTTTGGGGAAAGTAAAAAAAAAGGGAAAAAAAGATT
521 AAGAGAAAAACTACAAGAGAGTGGAGGGATTTTGGGGAAAGTAAAAAAAAAGGGAAAAAAAGATT
17121101 AACA
586 AACA
17121105 TAATATTTGA
Statistics
Matches: 588, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
591 588 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (591 bp):
AAATTAAGCTCCGCTTGATATCTTTGAAACTAGGCTCAAATACCTTTCTACCATAAAATTGTCTG
ACAGCTTCGACCTTTCTTTGCTAAAAATTAATTATCTCTTAGTAAAAAATTTGGATGATGTTACC
ATTTTTTTTATTGAAAATAGACTCATTAATAATTTAAACATGTAAATTTTAACCCCTAATTATTT
TTCTCCAAATTTTGATGATTTTCCAAAGTCAGAATAGGGGAACTCGTATCGAGGTTTTAACCCAT
AAGTTACTAAACCTTACCTTCAACCGATGAACAGTAATTCCCAAACAAACTAAGACTCCGATTGG
TGATTACGAGCCCTTGAATCCTCCTCTAATTGGCATAAACAAAAAAATTCAGAAGAAAGTTAACA
ATTGGAGACAAATCACTTATCTAAAACTTACCAAACGATCATAGATAAATGTAGAGCGACACGAG
GCAGAGTGGGAAAAGAAAAATAAAAAAGGTGAAGGGTGAAAGAGAGCAGAAATTCGGCAGCAATG
AAGAGAAAAACTACAAGAGAGTGGAGGGATTTTGGGGAAAGTAAAAAAAAAGGGAAAAAAAGATT
AACAGA
Found at i:17123958 original size:18 final size:18
Alignment explanation
Indices: 17123935--17123985 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
17123925 TGCTTGTTTC
17123935 TATTTTATT-TTCTTTATT
1 TATTTTATTATT-TTTATT
17123953 TATTTTATTATTTTTATTAT
1 TATTTTATTATTTTTA-T-T
17123973 TATCTTTATTATT
1 TAT-TTTATTATT
17123986 ATGTAATCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 13 0.45
19 3 0.10
20 4 0.14
21 9 0.31
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (18 bp):
TATTTTATTATTTTTATT
Found at i:17123963 original size:21 final size:21
Alignment explanation
Indices: 17123939--17123985 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
17123929 TGTTTCTATT
17123939 TTATTTTCT-TTATTTAT-TTTA
1 TTATTTT-TATTA-TTATCTTTA
17123960 TTATTTTTATTATTATCTTTA
1 TTATTTTTATTATTATCTTTA
17123981 TTATT
1 TTATT
17123986 ATGTAATCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (21 bp):
TTATTTTTATTATTATCTTTA
Found at i:17123980 original size:12 final size:12
Alignment explanation
Indices: 17123957--17123987 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
17123947 TTTATTTATT
*
17123957 TTATTATTTTTA
1 TTATTATCTTTA
17123969 TTATTATCTTTA
1 TTATTATCTTTA
17123981 TTATTAT
1 TTATTAT
17123988 GTAATCTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTATCTTTA
Found at i:17128272 original size:22 final size:21
Alignment explanation
Indices: 17128259--17128346 Score: 87
Period size: 22 Copynumber: 4.3 Consensus size: 21
17128249 ATTTTCTTTC
17128259 TATATTATTAATA-TTATTTA
1 TATATTATTAATATTTATTTA
*
17128279 TATATTATTAAAATATTATTTA
1 TATATTATTAATAT-TTATTTA
*
17128301 TATATTATTAATATAT-TTTA
1 TATATTATTAATATTTATTTA
*
17128321 -AT-TTA-TATATATTTCAATTA
1 TATATTATTA-ATATTT-ATTTA
17128341 TATATT
1 TATATT
17128347 TAAATGATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
17 2 0.04
18 8 0.14
19 2 0.04
20 19 0.34
21 3 0.05
22 22 0.39
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATTATTAATATTTATTTA
Found at i:17128285 original size:11 final size:11
Alignment explanation
Indices: 17128259--17128317 Score: 77
Period size: 11 Copynumber: 5.5 Consensus size: 11
17128249 ATTTTCTTTC
17128259 TATATTA-TTA
1 TATATTATTTA
17128269 -ATATTATTTA
1 TATATTATTTA
*
17128279 TATATTATTAA
1 TATATTATTTA
*
17128290 AATATTATTTA
1 TATATTATTTA
*
17128301 TATATTATTAA
1 TATATTATTTA
17128312 TATATT
1 TATATT
17128318 TTAATTTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
9 6 0.14
10 3 0.07
11 33 0.79
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATATTATTTA
Found at i:17128298 original size:25 final size:22
Alignment explanation
Indices: 17128259--17128317 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
17128249 ATTTTCTTTC
17128259 TATATTATT--AATATTATTTA
1 TATATTATTAAAATATTATTTA
17128279 TATATTATTAAAATATTATTTA
1 TATATTATTAAAATATTATTTA
*
17128301 TATATTATTAATATATT
1 TATATTATTAAAATATT
17128318 TTAATTTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 9 0.25
22 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATATTATTAAAATATTATTTA
Found at i:17128343 original size:15 final size:15
Alignment explanation
Indices: 17128307--17128345 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
17128297 TTTATATATT
*
17128307 ATTA-ATATATTTTA
1 ATTATATATATTTCA
17128321 ATTTATATATATTTCA
1 A-TTATATATATTTCA
17128337 ATTATATAT
1 ATTATATAT
17128346 TTAAATGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 11 0.50
16 10 0.45
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTATATATATTTCA
Found at i:17128377 original size:15 final size:15
Alignment explanation
Indices: 17128353--17128390 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
17128343 TATTTAAATG
*
17128353 ATAAATAATAATAAA
1 ATAAACAATAATAAA
17128368 ATAAACAATAATAAA
1 ATAAACAATAATAAA
17128383 ATAAACAA
1 ATAAACAA
17128391 ACCAAATCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAACAATAATAAA
Found at i:17128854 original size:14 final size:14
Alignment explanation
Indices: 17128835--17128863 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17128825 TTTTTTACTT
17128835 TGTTATATAGATTA
1 TGTTATATAGATTA
17128849 TGTTATATAGATTA
1 TGTTATATAGATTA
17128863 T
1 T
17128864 TATTTATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (14 bp):
TGTTATATAGATTA
Found at i:17128896 original size:19 final size:19
Alignment explanation
Indices: 17128851--17128909 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
17128841 ATAGATTATG
* *
17128851 TTATATAGATTATTATTTA
1 TTATATAGAGTATTATTAA
17128870 TCTATATAGAGTATTATTAA
1 T-TATATAGAGTATTATTAA
17128890 TTATATAGAGTATTATTAA
1 TTATATAGAGTATTATTAA
17128909 T
1 T
17128910 CCATAGATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 20 0.54
20 17 0.46
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (19 bp):
TTATATAGAGTATTATTAA
Found at i:17128983 original size:21 final size:21
Alignment explanation
Indices: 17128959--17128999 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17128949 AGATTGATTA
* *
17128959 TATAGATATATCCAACTTTTC
1 TATAGAGATATACAACTTTTC
*
17128980 TATAGAGATATAGAACTTTT
1 TATAGAGATATACAACTTTT
17129000 ATCAGTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (21 bp):
TATAGAGATATACAACTTTTC
Found at i:17130264 original size:9 final size:9
Alignment explanation
Indices: 17130250--17130280 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17130240 ATGCTAACCA
17130250 TATGCAAAT
1 TATGCAAAT
17130259 TATGCAAAT
1 TATGCAAAT
*
17130268 TATGCAAGT
1 TATGCAAAT
17130277 TATG
1 TATG
17130281 TGACCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (9 bp):
TATGCAAAT
Found at i:17141540 original size:391 final size:389
Alignment explanation
Indices: 17140819--17141986 Score: 2229
Period size: 387 Copynumber: 3.0 Consensus size: 389
17140809 ATCATCGTGC
17140819 TATTAAACTAGGAATCAATTGCGAAGCTAATAGCATAACCTTCCACCTATTGGTCTCCAAGCTCT
1 TATTAAACTAGGAATCAATTGCGAAGCTAATAGCATAACCTTCCACCTATTGGTCTCCAAGCTCT
*
17140884 CATCCTCACCTATGTATCCCCAATTATGCCCCGCCCTCAAGCATAACCTCAAACGCAATAAACTC
66 CATCCTCACCTATGTATCCCCAATTATGCCCCGCCCTCAAGCGTAACCTCAAACGCAATAAACTC
17140949 ATTCTGAGCAACAACCTAAAGACATCGATTCTTACCTTTTTCGGCCTCATGCTGTGGTGTTTGAC
131 ATTCTGAGCAACAACCTAAAGACATCGATTCTTACCTTTTTCGGCCTCATGCTGTGGTGTTTGAC
*
17141014 CCGACCTGAATGTGGCAGTTATTAATGTTGAAAAAAATGGTAAAAGCTAAATATGCTTAAGTTTT
196 CCGACCTGAAGGTGGCAGTTATTAATGTTGAAAAAAATGGTAAAAGCTAAATATGCTTAAGTTTT
17141079 CTTCGTGATTTTTTCTCCTTAAATTGTTTTATTTATAAAATTATTATTTTAATAAATAAATGTCA
261 CTTCGTGATTTTTTCTCCTTAAATTGTTTTATTTATAAAATTATTATTTTAATAAATAAATGTCA
17141144 TATTAGAAAATGAGAAAATATATATATATATGCATTTATTTATAAATATTTTATAATTTTTATAT
326 TATTAGAAAATGAG-AAA-ATATATATATATGCATTTATTTATAAATATTTTATAATTTTTATAT
17141209 G
389 G
17141210 TATTAAACTAGGAATCAATTGCGAAGCTAATAGCATAACCTTCCACCTATTGGTCTCCAAGCTCT
1 TATTAAACTAGGAATCAATTGCGAAGCTAATAGCATAACCTTCCACCTATTGGTCTCCAAGCTCT
17141275 CATCCTCACCTATGTATCCCCAATTATGCCCCGCCCTCAAGCGTAACCTCAAACGCAATAAACTC
66 CATCCTCACCTATGTATCCCCAATTATGCCCCGCCCTCAAGCGTAACCTCAAACGCAATAAACTC
17141340 ATTCTGAGCAACAACCTAAAGACATCGATTCTTACCTTTTTCGGCCTCATGCTGTGGTGTTTGAC
131 ATTCTGAGCAACAACCTAAAGACATCGATTCTTACCTTTTTCGGCCTCATGCTGTGGTGTTTGAC
17141405 CCGACCTGAAGGTGGCAGTTATTAATGTTGAAAAAAATGGTAAAAGCTAAATATGCTTAAGTTTT
196 CCGACCTGAAGGTGGCAGTTATTAATGTTGAAAAAAATGGTAAAAGCTAAATATGCTTAAGTTTT
*
17141470 CTTTGTGATTTTTTCTCCTTAAATTGTTTTATTTATAAAATTATTATTTTAATAAATAAATGTCA
261 CTTCGTGATTTTTTCTCCTTAAATTGTTTTATTTATAAAATTATTATTTTAATAAATAAATGTCA
17141535 TATTAGAAAATGAGAAAA-A-ATATATATGCATTTATTTATAAATATTTTATAATTTTTATATG
326 TATTAGAAAATGAGAAAATATATATATATGCATTTATTTATAAATATTTTATAATTTTTATATG
17141597 TATTAAACTAGGAATCAATTGCGAAGCTAATAGCATAACCTTCCACCTATTGGTCTCCAAGCTCT
1 TATTAAACTAGGAATCAATTGCGAAGCTAATAGCATAACCTTCCACCTATTGGTCTCCAAGCTCT
17141662 CATCCTCACCTATGTATCCCCAATTATGCCCCGCCCTCAAGCGTAACCTCAAACGCAATAAACTC
66 CATCCTCACCTATGTATCCCCAATTATGCCCCGCCCTCAAGCGTAACCTCAAACGCAATAAACTC
* *
17141727 ATTCTGAGCAACAACCTAAAGACATCGATTCTTACCTTTTTCAGCCTCATGTTGTGGTGTTTGAC
131 ATTCTGAGCAACAACCTAAAGACATCGATTCTTACCTTTTTCGGCCTCATGCTGTGGTGTTTGAC
17141792 CCGACCTGAAGGTGGCAGTTATTAATGTTGAAAAAAATGGTAAAAGCTAAATATGCTTAAGTTTT
196 CCGACCTGAAGGTGGCAGTTATTAATGTTGAAAAAAATGGTAAAAGCTAAATATGCTTAAGTTTT
*
17141857 CTTCGTGATTTTTTCTCCTTAAATTGTTTTATTTATAAAGTTATTATTTTAATAAATAAATGTCA
261 CTTCGTGATTTTTTCTCCTTAAATTGTTTTATTTATAAAATTATTATTTTAATAAATAAATGTCA
17141922 TATTAGAAAATGAGAAAATATATATAT-T-CATTT-TTTATAAATATTTTATAATTTTTATATG
326 TATTAGAAAATGAGAAAATATATATATATGCATTTATTTATAAATATTTTATAATTTTTATATG
17141983 TATT
1 TATT
17141987 TTCATCAAAA
Statistics
Matches: 768, Mismatches: 7, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
386 32 0.04
387 387 0.50
388 3 0.00
389 7 0.01
390 3 0.00
391 336 0.44
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (389 bp):
TATTAAACTAGGAATCAATTGCGAAGCTAATAGCATAACCTTCCACCTATTGGTCTCCAAGCTCT
CATCCTCACCTATGTATCCCCAATTATGCCCCGCCCTCAAGCGTAACCTCAAACGCAATAAACTC
ATTCTGAGCAACAACCTAAAGACATCGATTCTTACCTTTTTCGGCCTCATGCTGTGGTGTTTGAC
CCGACCTGAAGGTGGCAGTTATTAATGTTGAAAAAAATGGTAAAAGCTAAATATGCTTAAGTTTT
CTTCGTGATTTTTTCTCCTTAAATTGTTTTATTTATAAAATTATTATTTTAATAAATAAATGTCA
TATTAGAAAATGAGAAAATATATATATATGCATTTATTTATAAATATTTTATAATTTTTATATG
Found at i:17142054 original size:24 final size:24
Alignment explanation
Indices: 17142003--17142061 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
17141993 AAAAATGAAC
**
17142003 TTTTAAATAATTTTTAATTTTATTT
1 TTTTAAA-AATTTTTAATTTTAAAT
*
17142028 TTTTTAAAATTTTTAATTTTAAAT
1 TTTTAAAAATTTTTAATTTTAAAT
17142052 TTTTAAAAAT
1 TTTTAAAAAT
17142062 CAAGATTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 24 0.80
25 6 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTAAAAATTTTTAATTTTAAAT
Found at i:17144881 original size:12 final size:12
Alignment explanation
Indices: 17144864--17144889 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17144854 TGTTGGAGTA
17144864 GAGCTTTCGAAT
1 GAGCTTTCGAAT
17144876 GAGCTTTCGAAT
1 GAGCTTTCGAAT
17144888 GA
1 GA
17144890 CATGCAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (12 bp):
GAGCTTTCGAAT
Found at i:17159188 original size:34 final size:34
Alignment explanation
Indices: 17159145--17159209 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
17159135 TTAAAGCTAG
*
17159145 TTAAAGGTTAAAAAAGAAGTTTAGGGAACAATTA
1 TTAAAGGTTAAAAAAGAAGTTTACGGAACAATTA
17159179 TTAAAGGTTAAAAAAGAAGTTTACGGAACAA
1 TTAAAGGTTAAAAAAGAAGTTTACGGAACAA
17159210 AATTGTTGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.51, C:0.05, G:0.20, T:0.25
Consensus pattern (34 bp):
TTAAAGGTTAAAAAAGAAGTTTACGGAACAATTA
Found at i:17168250 original size:13 final size:13
Alignment explanation
Indices: 17168232--17168260 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
17168222 TTGCTAAGAG
17168232 ATAATATCTTATA
1 ATAATATCTTATA
17168245 ATAATATCTTATA
1 ATAATATCTTATA
17168258 ATA
1 ATA
17168261 TCTCACTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (13 bp):
ATAATATCTTATA
Found at i:17168312 original size:56 final size:56
Alignment explanation
Indices: 17168158--17168300 Score: 205
Period size: 56 Copynumber: 2.6 Consensus size: 56
17168148 AGTTATTTAA
* * *
17168158 GAATCAAATTGCTAAAAGATAATATCCCATAATAATATCCTATAATATCCCATTCG
1 GAATCAAATTGCTAAAAGATAATATCCCATAATAATATCTTATAATATCCCACTAG
* ** *
17168214 GAATCAAATTGCTAAGAGATAATATCTTATAATAATATCTTATAATATCTCACTAG
1 GAATCAAATTGCTAAAAGATAATATCCCATAATAATATCTTATAATATCCCACTAG
* *
17168270 GAATCAAATTGTTAAAAAATAATATCCCATA
1 GAATCAAATTGCTAAAAGATAATATCCCATA
17168301 GTTACATCTT
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (56 bp):
GAATCAAATTGCTAAAAGATAATATCCCATAATAATATCTTATAATATCCCACTAG
Found at i:17171900 original size:57 final size:56
Alignment explanation
Indices: 17171805--17171962 Score: 262
Period size: 57 Copynumber: 2.8 Consensus size: 56
17171795 AGTAGTTACG
*
17171805 TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATCCTATAGTATCCCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATCCTATAATATCCCAT
* *
17171861 TAGGAATCAAATTGTCTAAGAGATAATATCCCATAATAATATCCTATAATATCTCAT
1 TAGGAATCAAATTG-CTAAAAGATAATATCCCATAATAATATCCTATAATATCCCAT
* *
17171918 TAGGAATCAAATTACTAAAAGGTAATATCCCATAATAATATCCTA
1 TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATCCTA
17171963 ACATTTACTT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
56 43 0.45
57 52 0.55
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (56 bp):
TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATCCTATAATATCCCAT
Found at i:17179167 original size:29 final size:29
Alignment explanation
Indices: 17179104--17179187 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
17179094 ATACAACATG
* * *
17179104 AACATCAATACAAAGTACCTGATAATGTA
1 AACATCGATACATAGTACCTGATAATATA
**
17179133 GTCATCGATACATAGTACCTGATAATATA
1 AACATCGATACATAGTACCTGATAATATA
* * *
17179162 AACATCGACACATAGTGCCTGTTAAT
1 AACATCGATACATAGTACCTGATAAT
17179188 CCCAAATGAC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.27
Consensus pattern (29 bp):
AACATCGATACATAGTACCTGATAATATA
Found at i:17184655 original size:32 final size:32
Alignment explanation
Indices: 17184614--17184681 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
17184604 GTTCAACTAA
* * *
17184614 TTATTATGAGTTATCAAATTAAATTAATTAAT
1 TTATCATGAGTTATCAAATTAAAGTAATCAAT
* *
17184646 TTATCATGAGTTATTAAATTCAAGTAATCAAT
1 TTATCATGAGTTATCAAATTAAAGTAATCAAT
17184678 TTAT
1 TTAT
17184682 AAGTTTATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (32 bp):
TTATCATGAGTTATCAAATTAAAGTAATCAAT
Found at i:17186978 original size:87 final size:86
Alignment explanation
Indices: 17186753--17187087 Score: 373
Period size: 87 Copynumber: 3.8 Consensus size: 86
17186743 GATTGTCAAA
* * **
17186753 ACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTCGATGGTTGAAACCATCC
1 ACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCAAAACCATCC
*
17186818 CTTTTCATTAATGGATGGTCGTC
66 CTTTTCA-T-ATTGATGGTCGTC
* * * *
17186841 ACCATCCTTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCAAAACTATCT
1 ACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCAAAACCATCC
* *
17186906 CTTTTCATATTCGATGGTTGCC
66 CTTTTCATATT-GATGGTCGTC
** * ** * * * **
17186928 ACCATCCCTTTTCATAGTCGATAATTGAAACTATCCCTTTTCATATTCGATGGTCATCACCATCC
1 ACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCAAAACCATCC
* *
17186993 TTTTTCATAGTTGATGGTCATC
66 CTTTTCATA-TTGATGGTCGTC
* * * ** *
17187015 ACCATCCTTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAGTTGATAGTTGAAACTATCC
1 ACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCAAAACCATCC
17187080 CTTTTCAT
66 CTTTTCAT
17187088 TTTTTTAATA
Statistics
Matches: 199, Mismatches: 46, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
86 2 0.01
87 131 0.66
88 66 0.33
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (86 bp):
ACCATCCCTTTTCATAGTCGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCAAAACCATCC
CTTTTCATATTGATGGTCGTC
Found at i:17187060 original size:29 final size:29
Alignment explanation
Indices: 17186753--17187065 Score: 326
Period size: 29 Copynumber: 10.8 Consensus size: 29
17186743 GATTGTCAAA
17186753 ACCATCCCTTTTCATA-TTCGATGGTCGTC
1 ACCATCCCTTTTCATAGTT-GATGGTCGTC
* * **
17186782 ACCATCCCTTTTCATAGTCGATGGTTGAA
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
* *
17186811 ACCATCCCTTTTCATTAATGGATGGTCGTC
1 ACCATCCCTTTTCA-TAGTTGATGGTCGTC
*
17186841 ACCATCCTTTTTCATAGTTGATGGTCGTC
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
* * ***
17186870 ACCATCCCTTTTCATAGTCGATAGTCAAA
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
* * * *
17186899 ACTATCTCTTTTCATA-TTCGATGGTTGCC
1 ACCATCCCTTTTCATAGTT-GATGGTCGTC
* ** * **
17186928 ACCATCCCTTTTCATAGTCGATAATTGAA
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
* *
17186957 ACTATCCCTTTTCATA-TTCGATGGTCATC
1 ACCATCCCTTTTCATAGTT-GATGGTCGTC
* *
17186986 ACCATCCTTTTTCATAGTTGATGGTCATC
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
*
17187015 ACCATCCTTTTTCATAGTTGATGGTCGTC
1 ACCATCCCTTTTCATAGTTGATGGTCGTC
17187044 ACCATCCCTTTTCATAGTTGAT
1 ACCATCCCTTTTCATAGTTGAT
17187066 AGTTGAAACT
Statistics
Matches: 233, Mismatches: 45, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
28 2 0.01
29 204 0.88
30 27 0.12
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.39
Consensus pattern (29 bp):
ACCATCCCTTTTCATAGTTGATGGTCGTC
Found at i:17188582 original size:73 final size:74
Alignment explanation
Indices: 17188463--17188618 Score: 242
Period size: 73 Copynumber: 2.1 Consensus size: 74
17188453 ATTGTCCAAA
* *
17188463 TAGAGCAAAAGATTTCAAGGATATCAAAGATTCCATAAGGGAAAAGGGAAAGGTGTGGCTATTGA
1 TAGAGCAAAAGATTTCAAGGATATCAAAGATTCAATAAGGGAAAAGGGAAAGGTGTGGCCATTGA
17188528 TGAGAA-CC
66 TGAGAACCC
* * * *
17188536 TAGAGCAAAATATTTCAAGGATATCAAAGATTTAATAAGGGAAAAGGTAAATGTGTGGCCATTGA
1 TAGAGCAAAAGATTTCAAGGATATCAAAGATTCAATAAGGGAAAAGGGAAAGGTGTGGCCATTGA
17188601 TGAGAACCC
66 TGAGAACCC
*
17188610 TGGAGCAAA
1 TAGAGCAAA
17188619 GAAGAGATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
73 65 0.87
74 10 0.13
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.22
Consensus pattern (74 bp):
TAGAGCAAAAGATTTCAAGGATATCAAAGATTCAATAAGGGAAAAGGGAAAGGTGTGGCCATTGA
TGAGAACCC
Found at i:17191321 original size:97 final size:97
Alignment explanation
Indices: 17191155--17191336 Score: 303
Period size: 97 Copynumber: 1.9 Consensus size: 97
17191145 TTTCATATGT
*
17191155 CTTTCCATTAACCTTTACTTACCCGTTGAACCATATAGAATTACATCAGATACTCAGGAATACTC
1 CTTTCCATTAAACTTTACTTACCCGTTGAACCATATAGAATTACATCAGATACTCAGGAATACTC
*
17191220 ACACAAAGTGTACCTTTTCATATAATCGTAAC
66 ACACAAAGTGTAACTTTTCATATAATCGTAAC
* * *
17191252 CTTTCCATTAAACTTTACTTACCCGTTGAACTATATAGAATTACAT-TGAATACTGAGGAATACT
1 CTTTCCATTAAACTTTACTTACCCGTTGAACCATATAGAATTACATCAG-ATACTCAGGAATACT
17191316 CACACAAAGTGTAACTTTTCA
65 CACACAAAGTGTAACTTTTCA
17191337 AATGGGCCTG
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
96 1 0.01
97 78 0.99
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (97 bp):
CTTTCCATTAAACTTTACTTACCCGTTGAACCATATAGAATTACATCAGATACTCAGGAATACTC
ACACAAAGTGTAACTTTTCATATAATCGTAAC
Found at i:17196091 original size:15 final size:17
Alignment explanation
Indices: 17196060--17196092 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17196050 AATTACTCAT
17196060 TCAAATAACATAATTTA
1 TCAAATAACATAATTTA
17196077 TCAAATAA-A-AATTTA
1 TCAAATAACATAATTTA
17196092 T
1 T
17196093 TATTATACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
TCAAATAACATAATTTA
Found at i:17197133 original size:20 final size:20
Alignment explanation
Indices: 17197104--17197151 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
17197094 TGCTAGTTTA
* *
17197104 TTTGACTTTTGTTTTGTTGT
1 TTTGATTTTTGTTTCGTTGT
17197124 TTTGATTTTTTGTTTCGTTGT
1 TTTGA-TTTTTGTTTCGTTGT
*
17197145 TTGGATT
1 TTTGATT
17197152 GATGTAGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.06, C:0.04, G:0.21, T:0.69
Consensus pattern (20 bp):
TTTGATTTTTGTTTCGTTGT
Found at i:17197136 original size:21 final size:21
Alignment explanation
Indices: 17197110--17197151 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17197100 TTTATTTGAC
* *
17197110 TTTTGTTTTGTTGTTTTGATT
1 TTTTGTTTCGTTGTTTGGATT
17197131 TTTTGTTTCGTTGTTTGGATT
1 TTTTGTTTCGTTGTTTGGATT
17197152 GATGTAGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.02, G:0.21, T:0.71
Consensus pattern (21 bp):
TTTTGTTTCGTTGTTTGGATT
Found at i:17197357 original size:21 final size:21
Alignment explanation
Indices: 17197333--17197374 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17197323 AAAATAAACA
17197333 ACACCAAATTCATTTTTTAAT
1 ACACCAAATTCATTTTTTAAT
17197354 ACACCAAATTCATTTTTTAAT
1 ACACCAAATTCATTTTTTAAT
17197375 TCATTCATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (21 bp):
ACACCAAATTCATTTTTTAAT
Found at i:17198257 original size:20 final size:20
Alignment explanation
Indices: 17198183--17198263 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 20
17198173 CGCGATGCTA
*
17198183 AACAGGGGCACAATAGTGCAT
1 AACAGGGGCACGA-AGTGCAT
*
17198204 -ACAGGGGTACTGAAGTGCA-
1 AACAGGGGCAC-GAAGTGCAT
* *
17198223 AGCAGGGGCTCCGAAGTGCAT
1 AACAGGGGC-ACGAAGTGCAT
*
17198244 AATAGGGGCACGAATGTGCA
1 AACAGGGGCACGAA-GTGCA
17198264 ATTAAGGGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
20 33 0.70
21 14 0.30
ACGTcount: A:0.32, C:0.19, G:0.35, T:0.15
Consensus pattern (20 bp):
AACAGGGGCACGAAGTGCAT
Found at i:17203371 original size:126 final size:126
Alignment explanation
Indices: 17203146--17203649 Score: 891
Period size: 126 Copynumber: 4.0 Consensus size: 126
17203136 TGTAAAGAAG
*
17203146 CTATTTGGTTGAAGGGACTCTTTAGTAAACTCAATGAAGACCTTCAAATCAATACAGTATTTTGT
1 CTATTTGGTTGAAGGGACTCTTTAGTGAACTCAATGAAGACCTTCAAATCAATACAGTATTTTGT
*
17203211 GACAGACAGAGTGCCATCTTCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAACACA
66 GACAGTCAGAGTGCCATCTTCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAACACA
17203272 CTATTTGGTTGAAGGGACTCTTTAGTGAACTCAATGAAGACCTTCAAATCAATACAGTATTTTGT
1 CTATTTGGTTGAAGGGACTCTTTAGTGAACTCAATGAAGACCTTCAAATCAATACAGTATTTTGT
* *
17203337 GATAGTCAGAGTGTCATCTTCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAACACA
66 GACAGTCAGAGTGCCATCTTCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAACACA
*
17203398 CTATTTGGTTGAAGGGACTCTTTAGTGGACTCAATGAAGACCTTCAAATCAATACAGTATTTTGT
1 CTATTTGGTTGAAGGGACTCTTTAGTGAACTCAATGAAGACCTTCAAATCAATACAGTATTTTGT
** * * *
17203463 GATTGTTAGAGTGCCATCTTCATTACAAAAGATCAAATGTTTCATGAGAGAAAAAAACACA
66 GACAGTCAGAGTGCCATCTTCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAACACA
*
17203524 CTATTTGGTTGAAGGGACTCTTGAGTGAACTCAATGAAGACCTTCAAATCAATACAGTATTTTGT
1 CTATTTGGTTGAAGGGACTCTTTAGTGAACTCAATGAAGACCTTCAAATCAATACAGTATTTTGT
* *
17203589 GACAGTCAGAGTGTCATCTTTCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAACACA
66 GACAGTCAGAGTGCCATCTTCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAACACA
17203650 TTGATGTTTG
Statistics
Matches: 359, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 359 1.00
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (126 bp):
CTATTTGGTTGAAGGGACTCTTTAGTGAACTCAATGAAGACCTTCAAATCAATACAGTATTTTGT
GACAGTCAGAGTGCCATCTTCCTTACAAAAGATCAAATGTTTCATGAGAGAACAAAACACA
Found at i:17213848 original size:35 final size:35
Alignment explanation
Indices: 17213798--17213868 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
17213788 TTAAACTTTA
*
17213798 ACTTTCCAACTACATGCAAAAGTTACTTTCTCACC
1 ACTTTCCAACGACATGCAAAAGTTACTTTCTCACC
*
17213833 ACTTTCCAACGACATGCAAAAGTTATTTTCTCACC
1 ACTTTCCAACGACATGCAAAAGTTACTTTCTCACC
17213868 A
1 A
17213869 TTATACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.30, G:0.07, T:0.31
Consensus pattern (35 bp):
ACTTTCCAACGACATGCAAAAGTTACTTTCTCACC
Found at i:17218871 original size:26 final size:26
Alignment explanation
Indices: 17218837--17218887 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
17218827 CAATTTCTAA
* *
17218837 AAAAAGATGCCTTTGTGGTTATCTCT
1 AAAAAGATGCCTTTATGGCTATCTCT
*
17218863 AAAAGGATGCCTTTATGGCTATCTC
1 AAAAAGATGCCTTTATGGCTATCTC
17218888 AGTCAAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (26 bp):
AAAAAGATGCCTTTATGGCTATCTCT
Found at i:17218980 original size:29 final size:29
Alignment explanation
Indices: 17218948--17219011 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
17218938 GCAGTTTCAG
17218948 TAAGGAAGCCTTTATGGTGATCTCTGTTA
1 TAAGGAAGCCTTTATGGTGATCTCTGTTA
* * *
17218977 TAAGAAAGCCTTTGTGGTTATCTCTGTTA
1 TAAGGAAGCCTTTATGGTGATCTCTGTTA
17219006 -AAGGAA
1 TAAGGAA
17219012 TGCTTGGTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.36
Consensus pattern (29 bp):
TAAGGAAGCCTTTATGGTGATCTCTGTTA
Found at i:17220912 original size:6 final size:6
Alignment explanation
Indices: 17220901--17220940 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
17220891 AGGTTTCTAA
* *
17220901 AAATGG AAATGG AAATGG AAATGT AAATGA AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
17220941 TTGAAATCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (6 bp):
AAATGG
Found at i:17228639 original size:26 final size:26
Alignment explanation
Indices: 17228610--17228670 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
17228600 ATATTTTCTT
*
17228610 AAAATTTTACCTAGGCCAAAATCGTC
1 AAAATTTTACCAAGGCCAAAATCGTC
* ** *
17228636 AAAATTTAACCAAGGGTAAAATTGTC
1 AAAATTTTACCAAGGCCAAAATCGTC
17228662 AAAATTTTA
1 AAAATTTTA
17228671 TTTGAGGTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (26 bp):
AAAATTTTACCAAGGCCAAAATCGTC
Found at i:17239043 original size:11 final size:10
Alignment explanation
Indices: 17239022--17239089 Score: 50
Period size: 11 Copynumber: 6.6 Consensus size: 10
17239012 GTACATATAT
17239022 TAATATTTTA
1 TAATATTTTA
17239032 TAATATTTTTA
1 TAATA-TTTTA
*
17239043 TAGT-TTTTA
1 TAATATTTTA
*
17239052 T-ATGTTTTA
1 TAATATTTTA
*
17239061 TAATCCAATTTA
1 TAAT--ATTTTA
*
17239073 TATACATTTTA
1 TA-ATATTTTA
17239084 TAATAT
1 TAATAT
17239090 ATATACATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
8 1 0.02
9 12 0.27
10 10 0.22
11 15 0.33
12 6 0.13
13 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (10 bp):
TAATATTTTA
Found at i:17239216 original size:15 final size:15
Alignment explanation
Indices: 17239180--17239221 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
17239170 AATTTATTAA
*
17239180 TGTATTTTGTTATATT
1 TGTATTTTATT-TATT
*
17239196 TTTATTTTATTTATT
1 TGTATTTTATTTATT
17239211 TGTA-TTTATTT
1 TGTATTTTATTT
17239222 TTATAACTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 7 0.30
15 7 0.30
16 9 0.39
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (15 bp):
TGTATTTTATTTATT
Found at i:17240563 original size:16 final size:16
Alignment explanation
Indices: 17240542--17240576 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
17240532 TTGTGTTTTG
17240542 TTTTGAATGCATGACA
1 TTTTGAATGCATGACA
* *
17240558 TTTTGACTGCATGGCA
1 TTTTGAATGCATGACA
17240574 TTT
1 TTT
17240577 CATTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (16 bp):
TTTTGAATGCATGACA
Found at i:17243112 original size:10 final size:12
Alignment explanation
Indices: 17243081--17243107 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17243071 TATTCATAAA
17243081 TTTGTATATTCT
1 TTTGTATATTCT
17243093 TTTGTATATTCT
1 TTTGTATATTCT
17243105 TTT
1 TTT
17243108 ATATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTGTATATTCT
Found at i:17243809 original size:8 final size:8
Alignment explanation
Indices: 17243798--17243844 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
17243788 TCTAAAAAAC
17243798 AAAATCAA
1 AAAATCAA
17243806 AAAATCAA
1 AAAATCAA
17243814 AATAA--AA
1 AA-AATCAA
17243821 AAAATC--
1 AAAATCAA
17243827 AAAATCAA
1 AAAATCAA
17243835 AAAATCAA
1 AAAATCAA
17243843 AA
1 AA
17243845 TTGTAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
6 8 0.24
7 4 0.12
8 20 0.59
9 2 0.06
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAATCAA
Found at i:17243833 original size:29 final size:28
Alignment explanation
Indices: 17243791--17243845 Score: 101
Period size: 29 Copynumber: 1.9 Consensus size: 28
17243781 AAGAAAATCT
17243791 AAAAAACAAAATCAAAAAATCAAAATAA
1 AAAAAACAAAATCAAAAAATCAAAATAA
17243819 AAAAAATCAAAATCAAAAAATCAAAAT
1 AAAAAA-CAAAATCAAAAAATCAAAAT
17243846 TGTAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.13
Consensus pattern (28 bp):
AAAAAACAAAATCAAAAAATCAAAATAA
Found at i:17243853 original size:14 final size:14
Alignment explanation
Indices: 17243784--17243845 Score: 90
Period size: 14 Copynumber: 4.4 Consensus size: 14
17243774 TCAATCAAAG
17243784 AAAATCTAAAAAA-C
1 AAAATC-AAAAAATC
17243798 AAAATCAAAAAATC
1 AAAATCAAAAAATC
*
17243812 AAAATAAAAAAAATC
1 AAAAT-CAAAAAATC
17243827 AAAATCAAAAAATC
1 AAAATCAAAAAATC
17243841 AAAAT
1 AAAAT
17243846 TGTAAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.14
14 25 0.57
15 13 0.30
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAATCAAAAAATC
Found at i:17245634 original size:88 final size:88
Alignment explanation
Indices: 17245148--17245638 Score: 709
Period size: 88 Copynumber: 5.6 Consensus size: 88
17245138 TGGAGCAGAC
* * * *
17245148 TGAAGATAGTAGATCTTGCCTTTCTGTACTGACAGAGAAGCAGATC-AAAAGTACCAGCCTTGTC
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGA-TACCAGCCTTGTC
*
17245212 CCCCTGGGCAGTAGTGGAGTAGGT
65 TCCCTGGGCAGTAGTGGAGTAGGT
* *
17245236 TGAAAATAACAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATC-AAAAGTACCAGCCTTGTC
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGA-TACCAGCCTTGTC
*
17245300 GCCCTGGGCAGTAGTGGAGTAGGT
65 TCCCTGGGCAGTAGTGGAGTAGGT
17245324 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGATACCAGCCTTGTCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGATACCAGCCTTGTCT
17245389 CCCTGGGCAGTAGTGGAGTAGGT
66 CCCTGGGCAGTAGTGGAGTAGGT
* * *
17245412 TG-AAATAGCAGATCTTGCCTTCCTGTACTAACAGAGAAGCAGATCGAATATACTAGCCTTGTCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGATACCAGCCTTGTCT
* * *
17245476 CACTGGGGCAGTAATAGAGTAGGT
66 CCCT-GGGCAGTAGTGGAGTAGGT
* * *
17245500 TGAAAATAGCAGATCTTGCCTTCTTGTACTGACAGAAAAGCAGATCGAAGATACTAGCCTTGTCT
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGATACCAGCCTTGTCT
* * *
17245565 CCTTGGGCAGCAGTTGAGTAGGT
66 CCCTGGGCAGTAGTGGAGTAGGT
* * * * *
17245588 CGAAAATGGCAGATCTTGCTTTCCTGTACTGGCAGCGAAGCAGATCGAAGA
1 TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGA
17245639 CATCAATCTT
Statistics
Matches: 370, Mismatches: 30, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
87 62 0.17
88 245 0.66
89 63 0.17
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (88 bp):
TGAAAATAGCAGATCTTGCCTTCCTGTACTGACAGAGAAGCAGATCGAAGATACCAGCCTTGTCT
CCCTGGGCAGTAGTGGAGTAGGT
Found at i:17245963 original size:100 final size:100
Alignment explanation
Indices: 17245835--17246019 Score: 289
Period size: 100 Copynumber: 1.9 Consensus size: 100
17245825 CATTACAGTG
*
17245835 GAAAAGATTGAAGCCACAATGGCAGATCTTACTCCCCTAGCGGTGTAGTGGAACAGATTGAAGTC
1 GAAAAGATTGAAGCCACAACGGCAGATCTTACTCCCCTAGCGGTGTAGTGGAACAGATTGAAGTC
*
17245900 ACGACAACGGATCTGGTTTCTTAACATTGCAATTT
66 ACGACAACGAATCTGGTTTCTTAACATTGCAATTT
* * * * *
17245935 GAAAAGATTGAAGCCAGAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGTC
1 GAAAAGATTGAAGCCACAACGGCAGATCTTACTCCCCTAGCGGTGTAGTGGAACAGATTGAAGTC
* *
17246000 ACGACGACGAATCTTGTTTC
66 ACGACAACGAATCTGGTTTC
17246020 CTCGACATTG
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 76 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (100 bp):
GAAAAGATTGAAGCCACAACGGCAGATCTTACTCCCCTAGCGGTGTAGTGGAACAGATTGAAGTC
ACGACAACGAATCTGGTTTCTTAACATTGCAATTT
Found at i:17246864 original size:22 final size:22
Alignment explanation
Indices: 17246823--17246869 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
17246813 ACGATTTTGG
17246823 TTCTTCTTTTTTCCAGTTTT-TT
1 TTCTTCTTTTTTCCA-TTTTATT
17246845 TTCTTCTTTCTTTCTC-TTTTATT
1 TTCTTCTTT-TTTC-CATTTTATT
17246868 TT
1 TT
17246870 TCCTTGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
22 13 0.59
23 8 0.36
24 1 0.05
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.74
Consensus pattern (22 bp):
TTCTTCTTTTTTCCATTTTATT
Found at i:17247239 original size:27 final size:27
Alignment explanation
Indices: 17247208--17247270 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
17247198 ATTTCTTTGG
* *
17247208 TTTTTCTTTGCTGTTTTT-ATTTGTCCT
1 TTTTTCTTTGCTATTTTTAAATTG-CCT
* *
17247235 TTTTTGTTTTCTATTTTTAAATTGCCT
1 TTTTTCTTTGCTATTTTTAAATTGCCT
*
17247262 TTGTTCTTT
1 TTTTTCTTT
17247271 TTTACGTTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.08, C:0.13, G:0.10, T:0.70
Consensus pattern (27 bp):
TTTTTCTTTGCTATTTTTAAATTGCCT
Found at i:17247314 original size:17 final size:17
Alignment explanation
Indices: 17247294--17247328 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
17247284 CAATTGGTAG
*
17247294 TTTTTTTTTT-TTAGTT
1 TTTTTTTTTTATTTGTT
17247310 TTTTTTTTTTATTTGTT
1 TTTTTTTTTTATTTGTT
17247327 TT
1 TT
17247329 GCGTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.89
Consensus pattern (17 bp):
TTTTTTTTTTATTTGTT
Found at i:17247328 original size:13 final size:14
Alignment explanation
Indices: 17247291--17247328 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
17247281 TCCCAATTGG
*
17247291 TAGTTTTTTTTTTT
1 TAGTTTGTTTTTTT
*
17247305 TAGTTTTTTTTTTT
1 TAGTTTGTTTTTTT
17247319 TA-TTTGTTTT
1 TAGTTTGTTTT
17247329 GCGTTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (14 bp):
TAGTTTGTTTTTTT
Found at i:17247328 original size:14 final size:14
Alignment explanation
Indices: 17247291--17247320 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
17247281 TCCCAATTGG
17247291 TAGTTTTTTTTTTT
1 TAGTTTTTTTTTTT
17247305 TAGTTTTTTTTTTT
1 TAGTTTTTTTTTTT
17247319 TA
1 TA
17247321 TTTGTTTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (14 bp):
TAGTTTTTTTTTTT
Found at i:17247494 original size:18 final size:19
Alignment explanation
Indices: 17247461--17247496 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
17247451 TATATTAATA
17247461 TTTTATAATATTTTTATAG
1 TTTTATAATATTTTTATAG
*
17247480 TTTTAT-ATGTTTTTATA
1 TTTTATAATATTTTTATA
17247497 TCCAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTATAATATTTTTATAG
Found at i:17257605 original size:10 final size:10
Alignment explanation
Indices: 17257578--17257615 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
17257568 NNNNNNNNNN
*
17257578 TTTTTATTTG
1 TTTTTATTTT
*
17257588 TTTATATTTT
1 TTTTTATTTT
17257598 TTTTTA-TTT
1 TTTTTATTTT
17257607 TTTTTATTT
1 TTTTTATTT
17257616 CTATATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:17257624 original size:25 final size:26
Alignment explanation
Indices: 17257578--17257628 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
17257568 NNNNNNNNNN
* *
17257578 TTTTTATTTGTTTATATTTTTTTTTA
1 TTTTTATTTATTTATATATTTTTTTA
*
17257604 TTTTT-TTTATTTCTATATTTTTTTA
1 TTTTTATTTATTTATATATTTTTTTA
17257629 GATACCTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (26 bp):
TTTTTATTTATTTATATATTTTTTTA
Found at i:17261585 original size:9 final size:9
Alignment explanation
Indices: 17261568--17261604 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
17261558 TGAGTTTTCG
17261568 AATTCGAAT
1 AATTCGAAT
*
17261577 AACTCGAAT
1 AATTCGAAT
17261586 AATTCGAAT
1 AATTCGAAT
17261595 AATTCGAAT
1 AATTCGAAT
17261604 A
1 A
17261605 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:17261853 original size:30 final size:31
Alignment explanation
Indices: 17261819--17261878 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
17261809 AAACCTTTTA
*
17261819 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
17261849 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
17261879 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:17261995 original size:17 final size:16
Alignment explanation
Indices: 17261957--17261991 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17261947 ACTCCCCTTA
17261957 TTTATTCCCTCAAACT
1 TTTATTCCCTCAAACT
17261973 TTTATTCCC-CAAAACT
1 TTTATTCCCTC-AAACT
17261989 TTT
1 TTT
17261992 TATTTTTCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 1 0.06
16 17 0.94
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.46
Consensus pattern (16 bp):
TTTATTCCCTCAAACT
Found at i:17262636 original size:5 final size:5
Alignment explanation
Indices: 17262626--17262650 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
17262616 CTCGAAAATT
17262626 TTCGA TTCGA TTCGA TTCGA TTCGA
1 TTCGA TTCGA TTCGA TTCGA TTCGA
17262651 CCGAATGCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
TTCGA
Done.