Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 329 of 332
Found at i:107836898 original size:17 final size:17
Alignment explanation
Indices: 107836867--107836909 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
107836857 TTATAGCATT
107836867 TTTAATTTCTATATAGTA
1 TTTAATTTCTATATA-TA
107836885 TTTAATTT-TATATATA
1 TTTAATTTCTATATATA
*
107836901 TGTAATTTC
1 TTTAATTTC
107836910 AAATAGGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 9 0.39
17 6 0.26
18 8 0.35
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTAATTTCTATATATA
Found at i:107848858 original size:34 final size:34
Alignment explanation
Indices: 107848815--107848880 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
107848805 TATGGCAGAA
107848815 TTGTAGTAAAATTCAAGCTACCATTGTTCTTTAC
1 TTGTAGTAAAATTCAAGCTACCATTGTTCTTTAC
*
107848849 TTGTAGTAAAATTCAAGTTACCATTGTTCTTT
1 TTGTAGTAAAATTCAAGCTACCATTGTTCTTT
107848881 TTCTTACAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (34 bp):
TTGTAGTAAAATTCAAGCTACCATTGTTCTTTAC
Found at i:107853993 original size:22 final size:22
Alignment explanation
Indices: 107853953--107853997 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
107853943 ATTCAATAAA
*
107853953 TAAAAAATATATTATTAAATAT
1 TAAAAAATATAATATTAAATAT
107853975 TAAAATAATATAATA-TAAATAT
1 TAAAA-AATATAATATTAAATAT
107853997 T
1 T
107853998 TTTAAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAAAATATAATATTAAATAT
Found at i:107855596 original size:20 final size:18
Alignment explanation
Indices: 107855571--107855607 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
107855561 ATTGCTAAGT
107855571 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
107855591 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
107855608 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:107856216 original size:46 final size:45
Alignment explanation
Indices: 107856164--107856339 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 45
107856154 TGGTTGAGCA
107856164 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * *
107856210 TTCGAACTCGTTGAGTTGAGTCTGAGTT--CGTA-AGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* * *
107856255 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAAGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GGAATG
* * * *
107856303 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
107856340 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 3 0.03
45 1 0.01
46 60 0.57
47 25 0.24
48 1 0.01
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:107856320 original size:93 final size:93
Alignment explanation
Indices: 107856161--107856331 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
107856151 GGATGGTTGA
** * ** *
107856161 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAAGAACGCCCGAACTCATTGAGT
107856226 TGAGTCTGAGTTCGTAAGATGTAACTAG
66 TGAGTCTGAGTTCGTAAGATGTAACTAG
* *
107856254 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAAGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAAGAACGCCCGAACTCATTGAGT
107856319 TGAGTCTGAGTTC
66 TGAGTCTGAGTTC
107856332 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATAAGAACGCCCGAACTCATTGAGT
TGAGTCTGAGTTCGTAAGATGTAACTAG
Found at i:107863246 original size:17 final size:18
Alignment explanation
Indices: 107863213--107863246 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
107863203 TTTTTAATAA
*
107863213 AAAATTATTAATTATTTC
1 AAAATTATTAATAATTTC
107863231 AAAATT-TTAATAATTT
1 AAAATTATTAATAATTT
107863247 TAATTAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
AAAATTATTAATAATTTC
Found at i:107874017 original size:22 final size:21
Alignment explanation
Indices: 107873970--107874017 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
107873960 CCTTAATTTT
*
107873970 TTAAATTTTGAAAATTAAAGA
1 TTAAATTTTGAAAATTAAAAA
*
107873991 TTAAATTTCTTAAAA-TAAAAA
1 TTAAATTT-TGAAAATTAAAAA
107874012 TATAAA
1 T-TAAA
107874018 ACTAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
TTAAATTTTGAAAATTAAAAA
Found at i:107881618 original size:23 final size:23
Alignment explanation
Indices: 107881536--107881622 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
107881526 CCTGATCAGT
*
107881536 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
107881558 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
107881578 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
107881601 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
107881623 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:107883175 original size:27 final size:30
Alignment explanation
Indices: 107883130--107883184 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
107883120 GCTCGAATGC
*
107883130 TTTCTGTTCTCTTTTCTCT-ATTCTTTTTG
1 TTTCTGTTCTCTTTACTCTGATTCTTTTTG
*
107883159 TTTCT-TT-TCTTTACTCTGTTTCTTTT
1 TTTCTGTTCTCTTTACTCTGATTCTTTT
107883185 ATTTACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 9 0.39
29 5 0.22
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTCTGTTCTCTTTACTCTGATTCTTTTTG
Found at i:107883180 original size:18 final size:18
Alignment explanation
Indices: 107883157--107883191 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
107883147 CTATTCTTTT
*
107883157 TGTTTCTTTTCTTTACTC
1 TGTTTCTTTTATTTACTC
107883175 TGTTTCTTTTATTTACT
1 TGTTTCTTTTATTTACT
107883192 TTTGTTACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.17, G:0.06, T:0.69
Consensus pattern (18 bp):
TGTTTCTTTTATTTACTC
Found at i:107885327 original size:21 final size:23
Alignment explanation
Indices: 107885295--107885343 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
107885285 CAGCTCATTA
107885295 TAACGT-ATAAA-AATAAATTTT
1 TAACGTAATAAAGAATAAATTTT
107885316 TAACAGTAA-AAATGAATAAATTTT
1 TAAC-GTAATAAA-GAATAAATTTT
107885340 TAAC
1 TAAC
107885344 CAAAGAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.17
22 5 0.21
23 1 0.04
24 14 0.58
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (23 bp):
TAACGTAATAAAGAATAAATTTT
Found at i:107900274 original size:22 final size:27
Alignment explanation
Indices: 107900246--107900298 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 27
107900236 TGATTAGTTA
107900246 ATATTTTA-A-TA-ATTTA-AT-TATC
1 ATATTTTATATTACATTTATATATATC
107900268 ATATTTTATATTACATTTATATATATC
1 ATATTTTATATTACATTTATATATATC
107900295 ATAT
1 ATAT
107900299 ACGTTAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 8 0.31
23 1 0.04
24 2 0.08
25 5 0.19
26 2 0.08
27 8 0.31
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (27 bp):
ATATTTTATATTACATTTATATATATC
Found at i:107900792 original size:36 final size:36
Alignment explanation
Indices: 107900745--107900817 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
107900735 GTTAAAAAAG
*
107900745 TTTGATAACCAATCACAAAGTACCACGTGGCTGCTT
1 TTTGATAACCAATCACAAAGCACCACGTGGCTGCTT
107900781 TTTGATAACCAATCACAAAGCACCACGTGGCTGCTT
1 TTTGATAACCAATCACAAAGCACCACGTGGCTGCTT
107900817 T
1 T
107900818 ATATAAAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (36 bp):
TTTGATAACCAATCACAAAGCACCACGTGGCTGCTT
Found at i:107900927 original size:23 final size:21
Alignment explanation
Indices: 107900868--107900936 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
107900858 TACATTAAAA
*
107900868 ATATGAAAAA-TGAAAATAAAT
1 ATAT-AAAAATTGAAAATATAT
*
107900889 ATATAAAAATTCAAAATATAT
1 ATATAAAAATTGAAAATATAT
*
107900910 ATATAAAAATCTAGAAAAAATAT
1 ATATAAAAAT-T-GAAAATATAT
107900933 ATAT
1 ATAT
107900937 TAAGTATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.12
21 23 0.56
22 1 0.02
23 12 0.29
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (21 bp):
ATATAAAAATTGAAAATATAT
Found at i:107901300 original size:7 final size:7
Alignment explanation
Indices: 107901264--107901297 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
107901254 TAAAACTTTT
107901264 TTATATA
1 TTATATA
107901271 TTATATA
1 TTATATA
107901278 TTATATA
1 TTATATA
* *
107901285 TGATATT
1 TTATATA
107901292 TTATAT
1 TTATAT
107901298 TTTTAATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (7 bp):
TTATATA
Found at i:107903827 original size:2 final size:2
Alignment explanation
Indices: 107903820--107903857 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
107903810 CTTCTACTTC
107903820 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
107903858 TTTAATTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:107917565 original size:4 final size:4
Alignment explanation
Indices: 107917556--107917588 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
107917546 TCCTTTTCTA
*
107917556 TTTC TTTC TTTC TTTC TTTC CTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
107917589 CACGTTTGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:107917687 original size:8 final size:8
Alignment explanation
Indices: 107917663--107917692 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
107917653 ATCTATATTC
107917663 AATATAAT
1 AATATAAT
107917671 AATATTAAT
1 AATA-TAAT
107917680 AATATAAT
1 AATATAAT
107917688 AATAT
1 AATAT
107917693 TCTAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
AATATAAT
Found at i:107924165 original size:110 final size:110
Alignment explanation
Indices: 107923962--107924206 Score: 336
Period size: 110 Copynumber: 2.2 Consensus size: 110
107923952 TCATCAAAGT
* *
107923962 CATGGGAACAGAATATAACCAAGTCATTCCGATCCGTCAATCTAGCCATTATCTAACCCTAAACT
1 CATGGAAACAGAACATAACCAAGTCATTCCGATCCGTCAATCTAGCCATTATCTAACCCTAAACT
* * *
107924027 TTGAAATTTCTGGCGAAATTAAATAAGGCTCAAAAGTGTTAGAAG
66 TTCAAATTTCTGGCGAAATTAAAGAAGGCTCAAAAGTGTAAGAAG
* *
107924072 CATGGAAACAGAACATAACCAAGTCCTTCCGTTCCGTCAATCTAG-CAGTTAATCTAACCCTAAA
1 CATGGAAACAGAACATAACCAAGTCATTCCGATCCGTCAATCTAGCCA-TT-ATCTAACCCTAAA
* *
107924136 C-TTCAAATTT-TCGAGTGAAA-TCAAGAAGGCTCAAAAGTGTAAGAAG
64 CTTTCAAATTTCT-G-GCGAAATTAAAGAAGGCTCAAAAGTGTAAGAAG
107924182 CATGGAAACAAGAACATAACCAAGT
1 CATGGAAAC-AGAACATAACCAAGT
107924207 AAAACCAGAT
Statistics
Matches: 121, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
109 3 0.02
110 84 0.69
111 34 0.28
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (110 bp):
CATGGAAACAGAACATAACCAAGTCATTCCGATCCGTCAATCTAGCCATTATCTAACCCTAAACT
TTCAAATTTCTGGCGAAATTAAAGAAGGCTCAAAAGTGTAAGAAG
Found at i:107928057 original size:29 final size:30
Alignment explanation
Indices: 107927994--107928126 Score: 119
Period size: 31 Copynumber: 4.4 Consensus size: 30
107927984 CATTTGAAAA
** * *
107927994 TGATCAAATAAGGGCCTAACATTTTCAAAG
1 TGATCAAATAATAGCCAAACTTTTTCAAAG
*
107928024 TTGATCAAATGAA-AGCTAAA-TTTTTCAAAG
1 -TGATCAAAT-AATAGCCAAACTTTTTCAAAG
*
107928054 TGATCAAATAATAGCCAAACCTTTTTGAAAG
1 TGATCAAATAATAGCCAAA-CTTTTTCAAAG
* * *
107928085 TGCTCAAATAATAGTCAAACCTTTTTAAAAG
1 TGATCAAATAATAGCCAAA-CTTTTTCAAAG
107928116 T-ACTCAAATAA
1 TGA-TCAAATAA
107928127 GGGCTTCTCA
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
28 2 0.02
29 15 0.17
30 9 0.10
31 59 0.68
32 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (30 bp):
TGATCAAATAATAGCCAAACTTTTTCAAAG
Found at i:107928096 original size:31 final size:31
Alignment explanation
Indices: 107928044--107928126 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 31
107928034 GAAAGCTAAA
* *
107928044 TTTTTCAAAGTGATCAAATAATAGCCAAACC
1 TTTTTAAAAGTGCTCAAATAATAGCCAAACC
* *
107928075 TTTTTGAAAGTGCTCAAATAATAGTCAAACC
1 TTTTTAAAAGTGCTCAAATAATAGCCAAACC
*
107928106 TTTTTAAAAGTACTCAAATAA
1 TTTTTAAAAGTGCTCAAATAA
107928127 GGGCTTCTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.33
Consensus pattern (31 bp):
TTTTTAAAAGTGCTCAAATAATAGCCAAACC
Found at i:107949037 original size:34 final size:34
Alignment explanation
Indices: 107948972--107949037 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
107948962 CAGTTAGGAC
* *
107948972 AATAATTTACTGAATCAATGACCCATAAAAAAAG
1 AATAATTTACTGAATCAATGACACACAAAAAAAG
*
107949006 AATAATTTACT-ACATCAATGACACACGAAAAA
1 AATAATTTACTGA-ATCAATGACACACAAAAAA
107949038 TACTAAAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 1 0.04
34 27 0.96
ACGTcount: A:0.53, C:0.17, G:0.08, T:0.23
Consensus pattern (34 bp):
AATAATTTACTGAATCAATGACACACAAAAAAAG
Found at i:107956557 original size:30 final size:30
Alignment explanation
Indices: 107956521--107956600 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 30
107956511 TAGGTCTAAG
* *
107956521 TTAAAGGTTAAGGGCTTCTTCGGGTACAAA
1 TTAAAGGTTAAGGGCTTATTCGGATACAAA
* * * *
107956551 TTAAAGGTCAAGAGCTTATTTGGATATAAA
1 TTAAAGGTTAAGGGCTTATTCGGATACAAA
* *
107956581 TTAAAGTTTAAGGCCTTATT
1 TTAAAGGTTAAGGGCTTATT
107956601 TGACTGTAGT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (30 bp):
TTAAAGGTTAAGGGCTTATTCGGATACAAA
Found at i:107959415 original size:19 final size:18
Alignment explanation
Indices: 107959381--107959416 Score: 63
Period size: 18 Copynumber: 1.9 Consensus size: 18
107959371 TTTAATATAT
107959381 TTATTTATTTTAAAAATA
1 TTATTTATTTTAAAAATA
107959399 TTATTTATTTTATAAAAT
1 TTATTTATTTTA-AAAAT
107959417 TCTAATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTTATTTTAAAAATA
Found at i:107959425 original size:19 final size:18
Alignment explanation
Indices: 107959360--107959431 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 18
107959350 ATTTAATTTT
*
107959360 TATTAATTACTTTT-AATA
1 TATTAATTA-TTTTAAAAA
*
107959378 TATTTATTTATTTTAAAAA
1 TA-TTAATTATTTTAAAAA
*
107959397 TATTATTTATTTTATAAAA
1 TATTAATTATTTTA-AAAA
*
107959416 T-TCTAATTATTATAAA
1 TAT-TAATTATTTTAAA
107959432 GTGACTGATT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 21 0.46
19 25 0.54
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTAATTATTTTAAAAA
Found at i:107959652 original size:18 final size:17
Alignment explanation
Indices: 107959631--107959683 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
107959621 AAATTTTAAT
107959631 TTATGTTTAAAAATATAG
1 TTAT-TTTAAAAATATAG
*
107959649 TTA-TTTAATAAATTATAT
1 TTATTTTAA-AAA-TATAG
107959667 TTATTTTAAACAATATA
1 TTATTTTAAA-AATATA
107959684 AAATTTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
16 5 0.17
17 3 0.10
18 15 0.50
19 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (17 bp):
TTATTTTAAAAATATAG
Found at i:107964246 original size:19 final size:19
Alignment explanation
Indices: 107964210--107964249 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
107964200 AAACAGTGAA
107964210 AAAAACAAAAAAGGTAGTAG
1 AAAAACAAAAAA-GTAGTAG
107964230 AAAAACAAGAAAA-TAGTAG
1 AAAAACAA-AAAAGTAGTAG
107964249 A
1 A
107964250 TTCTTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 8 0.42
21 4 0.21
ACGTcount: A:0.68, C:0.05, G:0.17, T:0.10
Consensus pattern (19 bp):
AAAAACAAAAAAGTAGTAG
Found at i:107970833 original size:21 final size:20
Alignment explanation
Indices: 107970798--107970838 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
107970788 GTAGTAAAAT
107970798 TTATTAAAATATTTATAATTA
1 TTATTAAAATATTTA-AATTA
107970819 TTATGTAAAAT-TTTAAATTA
1 TTAT-TAAAATATTTAAATTA
107970839 ATTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 8 0.42
22 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTATTAAAATATTTAAATTA
Found at i:107970837 original size:20 final size:21
Alignment explanation
Indices: 107970798--107970872 Score: 59
Period size: 22 Copynumber: 3.6 Consensus size: 21
107970788 GTAGTAAAAT
107970798 TTATTAAAATATTTATAATTA
1 TTATTAAAATATTTATAATTA
107970819 TTATGTAAAAT-TTTA-AATTA
1 TTAT-TAAAATATTTATAATTA
* * * *
107970839 AT-TTAATATTTTTATCA-TA
1 TTATTAAAATATTTATAATTA
107970858 TTAATATAAAATATT
1 TT-AT-TAAAATATT
107970873 GTTTATTGTC
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
18 5 0.12
19 8 0.19
20 7 0.17
21 9 0.21
22 13 0.31
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (21 bp):
TTATTAAAATATTTATAATTA
Found at i:107975782 original size:44 final size:44
Alignment explanation
Indices: 107975719--107975807 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
107975709 ATAATCGAAC
107975719 GTCCCTTTTGAATTTCACTCATATTTTCTAAATCCTAAAACAAA
1 GTCCCTTTTGAATTTCACTCATATTTTCTAAATCCTAAAACAAA
107975763 GTCCCTTTTGAATTTCACTCATATTTTCTAAATCCTAAAACAAA
1 GTCCCTTTTGAATTTCACTCATATTTTCTAAATCCTAAAACAAA
107975807 G
1 G
107975808 CAATGCTCAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (44 bp):
GTCCCTTTTGAATTTCACTCATATTTTCTAAATCCTAAAACAAA
Found at i:107977591 original size:18 final size:18
Alignment explanation
Indices: 107977544--107977593 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
107977534 AAGAGTACAG
*
107977544 AAAAT-AAAACAGTGGAAA
1 AAAATGAAAA-AGAGGAAA
*
107977562 AAACATGGAAAAGAGGAAA
1 AAA-ATGAAAAAGAGGAAA
107977581 AAAATGAAAAAGA
1 AAAATGAAAAAGA
107977594 AAAAACATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 12 0.44
19 12 0.44
20 3 0.11
ACGTcount: A:0.68, C:0.04, G:0.20, T:0.08
Consensus pattern (18 bp):
AAAATGAAAAAGAGGAAA
Found at i:107979742 original size:15 final size:15
Alignment explanation
Indices: 107979697--107979744 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 15
107979687 TATTAATAGT
107979697 TTAATAATAAATATTTA
1 TTAATAATAAATA--TA
*
107979714 TTACAATTATAAATATA
1 TT--AATAATAAATATA
107979731 TTAATAATAAATAT
1 TTAATAATAAATAT
107979745 TTTATAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 11 0.41
17 6 0.22
19 10 0.37
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAATAATAAATATA
Found at i:107980164 original size:24 final size:24
Alignment explanation
Indices: 107980131--107980177 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
107980121 AACTGGGAAA
107980131 AAAAAAAGAA-GAAGAAGAAAAATG
1 AAAAAAAGAATGAA-AAGAAAAATG
* *
107980155 AAAAAGAGAATGAAAATAAAAAT
1 AAAAAAAGAATGAAAAGAAAAAT
107980178 AATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (24 bp):
AAAAAAAGAATGAAAAGAAAAATG
Found at i:107980219 original size:6 final size:6
Alignment explanation
Indices: 107980180--107980220 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
107980170 ATAAAAATAA
*
107980180 TTTAAT TTATATT TTTAAT TTTAAT TTTAAT TTTAAT TTTA
1 TTTAAT TT-TAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTA
107980221 TGCAAATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTAAT
Found at i:107983313 original size:14 final size:14
Alignment explanation
Indices: 107983294--107983333 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 14
107983284 AATCAGACTC
107983294 ATATTAATATTTTT
1 ATATTAATATTTTT
107983308 ATATT-AT-TTTTT
1 ATATTAATATTTTT
*
107983320 ATA-TAAAATTTTT
1 ATATTAATATTTTT
107983333 A
1 A
107983334 AAAAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
11 1 0.04
12 9 0.39
13 8 0.35
14 5 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATTAATATTTTT
Found at i:107984755 original size:46 final size:46
Alignment explanation
Indices: 107984705--107984880 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
107984695 TGGTTGAGCA
107984705 TTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
107984751 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
107984796 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACG
1 --TTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
107984844 CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
107984881 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:107984870 original size:93 final size:93
Alignment explanation
Indices: 107984702--107984872 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
107984692 GGATGGTTGA
* * *
107984702 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
107984767 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
107984795 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACGCTCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
107984860 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
107984873 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:107988558 original size:46 final size:46
Alignment explanation
Indices: 107988491--107988665 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
107988481 TGTAACCCGC
107988491 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
* *
107988537 CCATAAGTAAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-G-C--GTTCGCAT
* * * * *
107988587 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
*
107988630 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGA
107988666 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 63 0.58
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
Found at i:107988612 original size:93 final size:93
Alignment explanation
Indices: 107988499--107988669 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
107988489 GCCCATAAGT
* *
107988499 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
*
107988564 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGAATGCCTAGTTACATCTCAC
* *
107988592 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
*
107988657 CGAGTTCGAATGC
66 CGAGCTCGAATGC
107988670 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCAC
Found at i:107992485 original size:116 final size:116
Alignment explanation
Indices: 107992272--107992508 Score: 458
Period size: 116 Copynumber: 2.1 Consensus size: 116
107992262 TAGTGTTTCT
107992272 ATTTT-TACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
1 ATTTTATACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
*
107992336 CCTATACTTTGAAAAAGTTATGGATTTAGCCCCTATACTTTAATTTAATCA
66 CCTATACTTTGAAAAAGTTATGGATTTAACCCCTATACTTTAATTTAATCA
107992387 ATTTTATACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
1 ATTTTATACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
107992452 CCTATACTTTGAAAAAGTTATGGATTTAACCCCTATACTTTAATTTAATCA
66 CCTATACTTTGAAAAAGTTATGGATTTAACCCCTATACTTTAATTTAATCA
107992503 ATTTTA
1 ATTTTA
107992509 ATCCTTATAC
Statistics
Matches: 120, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
115 5 0.04
116 115 0.96
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.40
Consensus pattern (116 bp):
ATTTTATACGTTAGTTAGATATTGACAAAAAAGACAAAATTTAATGGTTAAAATTTTCTATCAAT
CCTATACTTTGAAAAAGTTATGGATTTAACCCCTATACTTTAATTTAATCA
Found at i:107993115 original size:23 final size:23
Alignment explanation
Indices: 107993089--107993140 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
107993079 TGAATTTTTT
* *
107993089 TTGAATTTT-GAGTTCAAATCAAG
1 TTGAATTTTCGAATTCAAAT-AAC
107993112 TTGAATTTTCGAATTCAAATAAC
1 TTGAATTTTCGAATTCAAATAAC
107993135 TTGAAT
1 TTGAAT
107993141 AATTCAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (23 bp):
TTGAATTTTCGAATTCAAATAAC
Found at i:107993412 original size:110 final size:113
Alignment explanation
Indices: 107993243--107993453 Score: 322
Period size: 111 Copynumber: 1.9 Consensus size: 113
107993233 TTCCCACTTT
* * * *
107993243 CCCTCAAAACTTTTACTCCCCTCCCCTCCCAACCTACCCTCTATCTACCCCAAATTCATTTCTTC
1 CCCTCAAAACTTTTACTCCCCTCCCATCCCAACCCACCCTCAATCTACCCCAAACTCATTTCTTC
107993308 CC-AATTTTTTAAAAATATTTT-CTCCAAAAATTTTACTCTCCAAAAA
66 CCAAATTTTTTAAAAATATTTTCCTCCAAAAATTTTACTCTCCAAAAA
*
107993354 CCCTCAAAACTTTTACTCCCCT-CCATCTCAACCCA-CCTCCAATCTACCCCAAACTCATTTCTT
1 CCCTCAAAACTTTTACTCCCCTCCCATCCCAACCCACCCT-CAATCTACCCCAAACTCATTTCTT
*
107993417 CCCAAATTTTTTTAAAATATTTTCCCTCCAAAAATTT
65 CCCAAATTTTTTAAAAATATTTT-CCTCCAAAAATTT
107993454 ACTTTCCCCA
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
109 3 0.03
110 35 0.39
111 40 0.44
113 12 0.13
ACGTcount: A:0.29, C:0.36, G:0.00, T:0.34
Consensus pattern (113 bp):
CCCTCAAAACTTTTACTCCCCTCCCATCCCAACCCACCCTCAATCTACCCCAAACTCATTTCTTC
CCAAATTTTTTAAAAATATTTTCCTCCAAAAATTTTACTCTCCAAAAA
Found at i:107993557 original size:130 final size:128
Alignment explanation
Indices: 107993326--107993588 Score: 320
Period size: 130 Copynumber: 2.0 Consensus size: 128
107993316 TTAAAAATAT
* *
107993326 TTTCTCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACTCCCCTCCATCTCAACCCACC
1 TTTCCCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACT-CCATCCATCTCAACCCACC
* * *
107993391 TCCAATCTACCCCAAACTCATTTCTTCCCAAATTTTTTTAAAATATTTTCCCTCCAAAAATTTAC
65 TCCAATCTACCCCAAACCCATCTCCTCCCAAATTTTTTT-AAATATTTTCCCTCCAAAAATTTAC
* *
107993456 TTTCCCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACT-CAT-CTTCT-ATCCCACC-
1 TTTCCCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACTCCATCCATCTCAACCCACCT
* * * *
107993517 CC-ATCTACCCCAAACCCATCCCACTCCTCCCTTAATTTTTTTTAAATATTTTCTCTTCAAAATT
66 CCAATCTACCCCAAACCCAT----CTCCTCCC--AAATTTTTTTAAATATTTTCCCTCCAAAAAT
107993581 TTAC
125 TTAC
107993585 TTTC
1 TTTC
107993589 AAAAACCCTC
Statistics
Matches: 116, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
124 16 0.14
125 2 0.02
126 7 0.06
127 4 0.03
128 8 0.07
129 26 0.22
130 53 0.46
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.36
Consensus pattern (128 bp):
TTTCCCCAAAAATTTTACTCTCCAAAAACCCTCAAAACTTTTACTCCATCCATCTCAACCCACCT
CCAATCTACCCCAAACCCATCTCCTCCCAAATTTTTTTAAATATTTTCCCTCCAAAAATTTAC
Found at i:108006688 original size:23 final size:26
Alignment explanation
Indices: 108006661--108006707 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
108006651 ACTCTCAACA
108006661 TTTAC-ACTTTG-T-TATTTTTTTCT
1 TTTACAACTTTGCTCTATTTTTTTCT
*
108006684 TTTACAATTTTGCTCTATTTTTTT
1 TTTACAACTTTGCTCTATTTTTTT
108006708 TGTGACATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 5 0.25
25 1 0.05
26 9 0.45
ACGTcount: A:0.15, C:0.13, G:0.04, T:0.68
Consensus pattern (26 bp):
TTTACAACTTTGCTCTATTTTTTTCT
Found at i:108007923 original size:22 final size:22
Alignment explanation
Indices: 108007877--108007923 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
108007867 TTTAGATTAG
*
108007877 TTTAATATTATTTAATTAAATA
1 TTTAATATTATTTAATCAAATA
108007899 TTTAA-ATTAGTTTAAATCAAA-A
1 TTTAATATTA-TTT-AATCAAATA
108007921 TTT
1 TTT
108007924 TAACCAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 4 0.18
22 12 0.55
23 6 0.27
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TTTAATATTATTTAATCAAATA
Found at i:108018416 original size:20 final size:21
Alignment explanation
Indices: 108018372--108018416 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
108018362 GGTTGAACCG
*
108018372 ATTTTCTAATTTTTTTAATAT
1 ATTTTCTAATTTTTTTAATAA
108018393 ATTTT-TAATTTTTTT-ATGAA
1 ATTTTCTAATTTTTTTAAT-AA
108018413 ATTT
1 ATTT
108018417 CCCTTTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 15 0.68
21 5 0.23
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTTTCTAATTTTTTTAATAA
Found at i:108025803 original size:3 final size:3
Alignment explanation
Indices: 108025795--108025832 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
108025785 CTTAATAAAT
* *
108025795 TTA TTA TTA TTA TTG TTA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
108025833 TCTTCCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:108038648 original size:44 final size:42
Alignment explanation
Indices: 108038577--108038898 Score: 185
Period size: 44 Copynumber: 7.5 Consensus size: 42
108038567 AGAATTGCAG
* *
108038577 ATCTTATCT-CCTG-AGATTACAGCGGAGCAGATTGAATATAGTA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAA-ACAG-A
* * *
108038620 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT--AA-AGG
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACAGA
* * * * *
108038659 ATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAG-
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACAGA
* * * **
108038700 GTCTTATTTCCCTG-AGATTACAGTGGAACAGACTAAAAATTTCAGA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGA-TTGAAA---CAGA
* * **
108038746 A-CTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAGGCCAGAA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA-AACAG-A
* **
108038789 ATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGACACT
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAA-ACAGA
* * * * * *
108038832 ATCCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAATAAAGG
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-GAA-ACAGA
* *
108038876 ATCTTATCTCTCTGAGGTTACAG
1 ATCTTATCTCCCTGAAGTTACAG
108038899 CAGAGTAGAT
Statistics
Matches: 216, Mismatches: 44, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
39 29 0.13
40 4 0.02
41 26 0.12
42 8 0.04
43 40 0.19
44 78 0.36
45 30 0.14
46 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (42 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAACAGA
Found at i:108039017 original size:217 final size:213
Alignment explanation
Indices: 108038582--108039020 Score: 476
Period size: 217 Copynumber: 2.0 Consensus size: 213
108038572 TGCAGATCTT
* * * *
108038582 ATCT-CCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAAGTTACAGTGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAAGTTACAGCGG
*
108038646 AGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCC
66 AGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCACCAGGTCTTATTTCC
* *** * * * *** *
108038711 CTGAGATTACAGTGGAACAGACTAAAAATTTCAGAACTTATCTCCCTGAGGTTACAGTGGAGCAG
131 CTGAGATTACAGTGGAACAGAATAAAAACCACAGAACTCATCTCCCTAAAGTTACAGAAAAGAAG
* * **
108038776 ATCGAGGCCAGAAATCTT
196 ATCGAAGCCACAAATCAG
108038794 ATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACT-ATCCTATCTCCCTGAAGTTACAGCGG
1 ATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAAGTTACAGCGG
* * *
108038858 AGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAGGTCTTA
66 AGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCACCAGGTCTTA
* * * * *
108038923 TTTCCCTGAAGA-TGCAGTGGAATAGAAT-AAAACCACA-AATCTCGTC-CCCATAAAGTTGCTG
126 TTTCCCTG-AGATTACAGTGGAACAGAATAAAAACCACAGAA-CTCATCTCCC-TAAAGTTACAG
* * *
108038984 CAAAAGAAGATTGAAGCTACAAGTCAG
188 -AAAAGAAGATCGAAGCCACAAATCAG
108039011 ATCTCCCTGA
1 ATCTCCCTGA
108039021 AGTGCAGTAG
Statistics
Matches: 186, Mismatches: 31, Indels: 15
0.80 0.13 0.06
Matches are distributed among these distances:
212 35 0.19
213 31 0.17
215 5 0.03
216 17 0.09
217 95 0.51
218 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (213 bp):
ATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAAGTTACAGCGG
AGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGCAGATCGCACCAGGTCTTATTTCC
CTGAGATTACAGTGGAACAGAATAAAAACCACAGAACTCATCTCCCTAAAGTTACAGAAAAGAAG
ATCGAAGCCACAAATCAG
Found at i:108040338 original size:3 final size:3
Alignment explanation
Indices: 108040330--108040367 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
108040320 CTTAATAAAT
* *
108040330 TTA TTA TTA TTA TTG TTA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
108040368 TCTTCCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:108044115 original size:26 final size:26
Alignment explanation
Indices: 108044086--108044136 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
108044076 ATAACAATTT
* * *
108044086 ATAATTAAAATATTAATATTATAAAA
1 ATAATCAAAATATTAAAACTATAAAA
*
108044112 ATAATCAAAATTTTAAAACTATAAA
1 ATAATCAAAATATTAAAACTATAAA
108044137 TGTAGAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAATCAAAATATTAAAACTATAAAA
Found at i:108065924 original size:249 final size:249
Alignment explanation
Indices: 108065486--108065984 Score: 953
Period size: 249 Copynumber: 2.0 Consensus size: 249
108065476 CTTGTGCATG
*
108065486 GTCATTAATGAATAAAAACTGGACTGGAGGTGAAATTGTGACAACCCTGGTTCAACCAGTTGAAC
1 GTCATTAATGAATAAAAACCGGACTGGAGGTGAAATTGTGACAACCCTGGTTCAACCAGTTGAAC
*
108065551 CGAAGTGTTCAGTTAAAAATAATTTAGAATTAAACATGTCTTATATTTAATATTCAATACAAATT
66 CGAAGTGTTCAGTTAAAAATAATTTAGAATTAAACATGTCTTATATTTAATACTCAATACAAATT
*
108065616 ATTAGTTGATAAGAATTTGTATGTCTTTACATATGATTAATTATAAGTTCAAATCTCATCACTTG
131 ATTAGTTGATAAGAATTTGTATGTCTTTACATATGATTAATTAGAAGTTCAAATCTCATCACTTG
108065681 TAAATAATAAAATTAACAAAAAAATGGTTAACTACTGTGTTAATTCATGTACCT
196 TAAATAATAAAATTAACAAAAAAATGGTTAACTACTGTGTTAATTCATGTACCT
*
108065735 GTCATTAATGAATAAAAACCGGACTGGAGGTGAAATTGTGACACCCCTGGTTCAACCAGTTGAAC
1 GTCATTAATGAATAAAAACCGGACTGGAGGTGAAATTGTGACAACCCTGGTTCAACCAGTTGAAC
108065800 CGAAGTGTTCAGTTAAAAATAATTTAGAATTAAACATGTCTTATATTTAATACTCAATACAAATT
66 CGAAGTGTTCAGTTAAAAATAATTTAGAATTAAACATGTCTTATATTTAATACTCAATACAAATT
108065865 ATTAGTTGATAAGAATTTGTATGTCTTTACATATGATTAATTAGAAGTTCAAATCTCATCACTTG
131 ATTAGTTGATAAGAATTTGTATGTCTTTACATATGATTAATTAGAAGTTCAAATCTCATCACTTG
*
108065930 TAAATAATAAAATTAACAAAAAAATGGTTAACTACTGTGTTAGTTCATGTACCT
196 TAAATAATAAAATTAACAAAAAAATGGTTAACTACTGTGTTAATTCATGTACCT
108065984 G
1 G
108065985 AATAGATATT
Statistics
Matches: 245, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
249 245 1.00
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (249 bp):
GTCATTAATGAATAAAAACCGGACTGGAGGTGAAATTGTGACAACCCTGGTTCAACCAGTTGAAC
CGAAGTGTTCAGTTAAAAATAATTTAGAATTAAACATGTCTTATATTTAATACTCAATACAAATT
ATTAGTTGATAAGAATTTGTATGTCTTTACATATGATTAATTAGAAGTTCAAATCTCATCACTTG
TAAATAATAAAATTAACAAAAAAATGGTTAACTACTGTGTTAATTCATGTACCT
Found at i:108073710 original size:9 final size:9
Alignment explanation
Indices: 108073696--108073745 Score: 73
Period size: 9 Copynumber: 5.6 Consensus size: 9
108073686 ATAAGTATAA
108073696 AATTAACCG
1 AATTAACCG
108073705 AATTAACCG
1 AATTAACCG
**
108073714 AATTAATTG
1 AATTAACCG
*
108073723 AATTAACCA
1 AATTAACCG
108073732 AATTAACCG
1 AATTAACCG
108073741 AATTA
1 AATTA
108073746 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:108073780 original size:5 final size:6
Alignment explanation
Indices: 108073765--108073805 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
108073755 AATTATATGT
*
108073765 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
108073806 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:108079024 original size:21 final size:21
Alignment explanation
Indices: 108079000--108079042 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
108078990 TATATTACAA
108079000 ATAA-ATAAATATATAAGATAT
1 ATAAGATAAA-ATATAAGATAT
* *
108079021 ATAAGTTAAAATATAATATAT
1 ATAAGATAAAATATAAGATAT
108079042 A
1 A
108079043 ATAATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
ATAAGATAAAATATAAGATAT
Found at i:108079085 original size:12 final size:13
Alignment explanation
Indices: 108079066--108079096 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
108079056 AATTTTGAAA
108079066 ATATAAATAATAT
1 ATATAAATAATAT
108079079 A-ATAAATAATAT
1 ATATAAATAATAT
108079091 ATATAA
1 ATATAA
108079097 TAAATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATAAATAATAT
Found at i:108079094 original size:16 final size:15
Alignment explanation
Indices: 108079071--108079101 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
108079061 TGAAAATATA
108079071 AATAATATAATAAAT
1 AATAATATAATAAAT
108079086 AATATATATAATAAAT
1 AATA-ATATAATAAAT
108079102 TTAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAATAAAT
Found at i:108079393 original size:17 final size:18
Alignment explanation
Indices: 108079361--108079449 Score: 112
Period size: 17 Copynumber: 4.9 Consensus size: 18
108079351 AATCATATAT
108079361 TCTAAGATTGTATATCATA
1 TCTAAGATTG-ATATCATA
108079380 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
* *
108079397 TCTAAAAATGCA-ATCATA
1 TCTAAGATTG-ATATCATA
108079415 TCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATA
108079432 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
108079450 TGAAGATTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
17 31 0.51
18 14 0.23
19 16 0.26
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGATATCATA
Found at i:108081336 original size:19 final size:18
Alignment explanation
Indices: 108081312--108081352 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
108081302 ATATTTTTTT
* *
108081312 AAAAAACACAAAATATAAA
1 AAAAAAAACAAAA-ACAAA
108081331 AAAAAAAACAAAAACAAA
1 AAAAAAAACAAAAACAAA
108081349 AAAA
1 AAAA
108081353 CATGCACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.05
Consensus pattern (18 bp):
AAAAAAAACAAAAACAAA
Found at i:108083057 original size:29 final size:29
Alignment explanation
Indices: 108083004--108083068 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
108082994 AAATTTTAAA
* *
108083004 TTAATAAATATAAAATTATACTTTAATTTT
1 TTAA-AAATATAAAATTATAATTTAATCTT
108083034 TTAAAAATATAATAATT-TAATTTAATCTT
1 TTAAAAATATAA-AATTATAATTTAATCTT
108083063 TTAAAA
1 TTAAAA
108083069 TTTATAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 24 0.75
30 8 0.25
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (29 bp):
TTAAAAATATAAAATTATAATTTAATCTT
Found at i:108099071 original size:14 final size:16
Alignment explanation
Indices: 108099052--108099085 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
108099042 TTATATAAAA
108099052 ATAATATAT-A-GTTT
1 ATAATATATAATGTTT
108099066 ATAATATATAATGTTT
1 ATAATATATAATGTTT
108099082 ATAA
1 ATAA
108099086 AAAAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 1 0.06
16 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATAATATATAATGTTT
Found at i:108099085 original size:36 final size:36
Alignment explanation
Indices: 108099027--108099105 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
108099017 TTATAATTTT
* *
108099027 TTTATAATATGTAAATTATATAAAAATAA-TATATAG
1 TTTATAATATATAAATTATATAAAAA-AATTATAAAG
*
108099063 TTTATAATATAT-AATGTTTATAAAAAAATTATAAAG
1 TTTATAATATATAAAT-TATATAAAAAAATTATAAAG
*
108099099 GTTATAA
1 TTTATAA
108099106 CAATTTTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 5 0.14
36 32 0.86
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (36 bp):
TTTATAATATATAAATTATATAAAAAAATTATAAAG
Found at i:108104914 original size:29 final size:28
Alignment explanation
Indices: 108104824--108104914 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 28
108104814 GGCCCCACAA
**
108104824 AATTTTTGGAAATTTTAATTTTTACCTTGA
1 AATTTTTGGAAATTTTAA-TTTT-CCTTTT
* * *
108104854 AATTTATTGAAAATTTTAATTTGCCCTCTT
1 AATTT-TTGGAAATTTTAATTT-TCCTTTT
*
108104884 AATTTTTGGAAATTTTCATTATTCCTTTT
1 AATTTTTGGAAATTTTAATT-TTCCTTTT
108104913 AA
1 AA
108104915 ACCCCAATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
29 20 0.41
30 17 0.35
31 12 0.24
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.53
Consensus pattern (28 bp):
AATTTTTGGAAATTTTAATTTTCCTTTT
Found at i:108105464 original size:30 final size:32
Alignment explanation
Indices: 108105408--108105474 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 32
108105398 AATCCACATG
* * *
108105408 TATTTTATTTTATTTTTATCTTGAAATT-TTA
1 TATTTGATTTTATTTTAATATTGAAATTCTTA
*
108105439 TATTTGATTTT-TTTTAATATTGAAATTCTTT
1 TATTTGATTTTATTTTAATATTGAAATTCTTA
108105470 TATTT
1 TATTT
108105475 TTGAATAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 14 0.45
31 17 0.55
ACGTcount: A:0.25, C:0.03, G:0.04, T:0.67
Consensus pattern (32 bp):
TATTTGATTTTATTTTAATATTGAAATTCTTA
Found at i:108111480 original size:16 final size:16
Alignment explanation
Indices: 108111447--108111480 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
108111437 TAATTCTCTG
**
108111447 TACAAGCTGCTTTTTT
1 TACAAGCTGCTTGGTT
108111463 TACAAGCTGCTTGGTT
1 TACAAGCTGCTTGGTT
108111479 TA
1 TA
108111481 ATGTTGTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (16 bp):
TACAAGCTGCTTGGTT
Found at i:108116052 original size:19 final size:20
Alignment explanation
Indices: 108116006--108116054 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
108115996 CGCATCAAAA
108116006 TTTTAAAATTATATATAAAT
1 TTTTAAAATTATATATAAAT
* * *
108116026 TTTAAAAATTAT-TATTATT
1 TTTTAAAATTATATATAAAT
108116045 TTTTAAAATT
1 TTTTAAAATT
108116055 TGGTAATGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAAAATTATATATAAAT
Found at i:108120415 original size:16 final size:17
Alignment explanation
Indices: 108120394--108120427 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
108120384 TGCCAATAAA
108120394 ATGTG-AATAAAATGTC
1 ATGTGAAATAAAATGTC
108120410 ATGTGAAAATAAAATGTC
1 ATGTG-AAATAAAATGTC
108120428 TCATTGGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
18 11 0.69
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (17 bp):
ATGTGAAATAAAATGTC
Found at i:108127246 original size:34 final size:34
Alignment explanation
Indices: 108127200--108127268 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
108127190 ACCAGTCTTA
108127200 GTTTGTAAAATTTAGTCTTTTGAGGGGCTACTTC
1 GTTTGTAAAATTTAGTCTTTTGAGGGGCTACTTC
* * *
108127234 GTTTGTACAATTTTGTCTTTTGATGGGCTACTTC
1 GTTTGTAAAATTTAGTCTTTTGAGGGGCTACTTC
108127268 G
1 G
108127269 ATGTTCATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.17, C:0.13, G:0.23, T:0.46
Consensus pattern (34 bp):
GTTTGTAAAATTTAGTCTTTTGAGGGGCTACTTC
Found at i:108133062 original size:31 final size:31
Alignment explanation
Indices: 108133003--108133062 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
108132993 TAGGAATAAA
* * **
108133003 TGTCAAGTTCATATACTAAATTTGGAAAATG
1 TGTCAAGTTCAAATACCAAATTAAGAAAATG
108133034 TGTCAAGTTCAAATACCAAATTAAGAAAA
1 TGTCAAGTTCAAATACCAAATTAAGAAAA
108133063 AAAATATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (31 bp):
TGTCAAGTTCAAATACCAAATTAAGAAAATG
Found at i:108133136 original size:20 final size:19
Alignment explanation
Indices: 108133111--108133148 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
108133101 AATTTGATCA
108133111 TTTTTAATTCTAATAATTTT
1 TTTTTAATTCTAA-AATTTT
*
108133131 TTTTTAATTTTAAAATTT
1 TTTTTAATTCTAAAATTT
108133149 ATATTTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTAATTCTAAAATTTT
Found at i:108133155 original size:20 final size:20
Alignment explanation
Indices: 108133112--108133155 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
108133102 ATTTGATCAT
*
108133112 TTTTAATTCTAATAATTTTT
1 TTTTAATTCTAATAATTTTA
*
108133132 TTTTAATTTTAA-AATTTATA
1 TTTTAATTCTAATAATTT-TA
108133152 TTTT
1 TTTT
108133156 GACACAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTAATTCTAATAATTTTA
Found at i:108138327 original size:20 final size:20
Alignment explanation
Indices: 108138302--108138339 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
108138292 AAAATAAATT
*
108138302 AATATTTACATATTTTTATA
1 AATATTTAAATATTTTTATA
108138322 AATATTTAAATATTTTTA
1 AATATTTAAATATTTTTA
108138340 ACAAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
AATATTTAAATATTTTTATA
Found at i:108140545 original size:69 final size:69
Alignment explanation
Indices: 108140434--108140576 Score: 259
Period size: 69 Copynumber: 2.1 Consensus size: 69
108140424 GCACATCAAG
108140434 AAGTTAGTTTATTTTTCAGAAAAGAAGAACAATTTAAACTGTAAATAGAGTTTAATTTCCAATTT
1 AAGTTAGTTTATTTTTCAGAAAAGAAGAACAATTTAAACTGTAAATAGAGTTTAATTTCCAATTT
108140499 ATAC
66 ATAC
* *
108140503 AAGTTAGTTTATTTTTCAGAAAAGGAGAACAATTTAATCTGTAAATAGAGTTTAATTTCCAATTT
1 AAGTTAGTTTATTTTTCAGAAAAGAAGAACAATTTAAACTGTAAATAGAGTTTAATTTCCAATTT
*
108140568 ATAT
66 ATAC
108140572 AAGTT
1 AAGTT
108140577 GGTCTTTGAA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.39
Consensus pattern (69 bp):
AAGTTAGTTTATTTTTCAGAAAAGAAGAACAATTTAAACTGTAAATAGAGTTTAATTTCCAATTT
ATAC
Found at i:108144847 original size:33 final size:32
Alignment explanation
Indices: 108144742--108144859 Score: 114
Period size: 33 Copynumber: 3.7 Consensus size: 32
108144732 CGGTTAGTAC
* *
108144742 GGATGATGCTCCTTTAAGCAGGACAAGTAGCAG
1 GGATGATGC-CCCTTAAGCAGGCCAAGTAGCAG
* * * * * *
108144775 GGATG-TG-TCCATAAGCCGGCTAATTAGTAG
1 GGATGATGCCCCTTAAGCAGGCCAAGTAGCAG
108144805 GGATGATGCCCCTTCAAGCAGGCCAAGTAGCAG
1 GGATGATGCCCCTT-AAGCAGGCCAAGTAGCAG
*
108144838 GGATGATGCCCCTATAATCAGG
1 GGATGATGCCCCT-TAAGCAGG
108144860 TTGGGTACTG
Statistics
Matches: 66, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
30 20 0.30
31 2 0.03
32 5 0.08
33 38 0.58
34 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (32 bp):
GGATGATGCCCCTTAAGCAGGCCAAGTAGCAG
Found at i:108151976 original size:28 final size:26
Alignment explanation
Indices: 108151920--108151982 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 26
108151910 TAGAAGGTGT
* *
108151920 CATACATACATAGTGTTTCATACATA
1 CATACATACATAATGTGTCATACATA
108151946 CATACATACATATATGGTGTCATACATA
1 CATACATACATA-AT-GTGTCATACATA
*
108151974 CATTCATAC
1 CATACATAC
108151983 CTGCTCTGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 12 0.38
27 1 0.03
28 19 0.59
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (26 bp):
CATACATACATAATGTGTCATACATA
Found at i:108152101 original size:193 final size:185
Alignment explanation
Indices: 108151771--108152121 Score: 515
Period size: 193 Copynumber: 1.9 Consensus size: 185
108151761 ACATATATCG
108151771 ATGGTGTCATACATACATTCATACATGCTCTGAGTACTCTGAGGGTCTACTATGGGTGCTTTTAT
1 ATGGTGTCATACATACATTCATACATGCTCTGAGTACTCTGAGGGTCTACTATGGGTGCTTTTAT
*
108151836 ACTATCTCTGGTGTACCATCCTAGTCCCTGTTTGCCATCTGAATTGTCCATTCTAGTGGAATTCA
66 ACTATCTCTGGTGTACCATCCTAGTCCCTGTTAGCCATCTGAATTGTCCATTCTAGTGGAATTCA
108151901 ATACATACATAGAAGGTGTCATACATACATAGTGTTTCATACATACATACATACATAT
131 ATACATACAT---AGGTGTCATACATACATAGTGTTTCATACATACATACATACATAT
* * *
108151959 ATGGTGTCATACATACATTCATACCTGCTCTGAGTACTCTTAGGTTCTAACTATGGGTGCTTTTA
1 ATGGTGTCATACATACATTCATACATGCTCTGAGTACTCTGAGGGTCT-ACTATGGGTGCTTTTA
* * * *
108152024 TACTATTTTTCTCTGGTGTACCATTCTGGT-CCTGGTTAGCTATCTGAATTTTCCATTCTAGTGG
65 TACTA----TCTCTGGTGTACCATCCTAGTCCCT-GTTAGCCATCTGAATTGTCCATTCTAGTGG
* * *
108152088 CATTGATTACATACATAGGTGTCATACATACATA
125 AATTCAATACATACATAGGTGTCATACATACATA
108152122 CATGGTCTGA
Statistics
Matches: 146, Mismatches: 11, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
188 45 0.31
189 21 0.14
190 18 0.12
192 3 0.02
193 59 0.40
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (185 bp):
ATGGTGTCATACATACATTCATACATGCTCTGAGTACTCTGAGGGTCTACTATGGGTGCTTTTAT
ACTATCTCTGGTGTACCATCCTAGTCCCTGTTAGCCATCTGAATTGTCCATTCTAGTGGAATTCA
ATACATACATAGGTGTCATACATACATAGTGTTTCATACATACATACATACATAT
Found at i:108155347 original size:30 final size:28
Alignment explanation
Indices: 108155303--108155362 Score: 102
Period size: 30 Copynumber: 2.1 Consensus size: 28
108155293 ATGAAACTAC
108155303 AACAAAAACAGGAAAAAACCAAAGCAAA
1 AACAAAAACAGGAAAAAACCAAAGCAAA
108155331 AACAATAAAGCAGGAAAAAACCAAAGCAAA
1 AACAA-AAA-CAGGAAAAAACCAAAGCAAA
108155361 AA
1 AA
108155363 TAGGTAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 5 0.17
29 3 0.10
30 22 0.73
ACGTcount: A:0.70, C:0.17, G:0.12, T:0.02
Consensus pattern (28 bp):
AACAAAAACAGGAAAAAACCAAAGCAAA
Found at i:108155356 original size:16 final size:16
Alignment explanation
Indices: 108155311--108155358 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
108155301 ACAACAAAAA
108155311 CAGGAAAAAACCAAAG
1 CAGGAAAAAACCAAAG
*
108155327 CA--AAAACAA-TAAAG
1 CAGGAAAA-AACCAAAG
108155341 CAGGAAAAAACCAAAG
1 CAGGAAAAAACCAAAG
108155357 CA
1 CA
108155359 AAAATAGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
14 10 0.38
15 4 0.15
16 12 0.46
ACGTcount: A:0.65, C:0.19, G:0.15, T:0.02
Consensus pattern (16 bp):
CAGGAAAAAACCAAAG
Found at i:108160659 original size:21 final size:21
Alignment explanation
Indices: 108160634--108160676 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
108160624 CTAAGCCCGG
108160634 ATTTATTGCTTTCAATGGATT
1 ATTTATTGCTTTCAATGGATT
108160655 ATTTATTGCTTTCAATGGATT
1 ATTTATTGCTTTCAATGGATT
108160676 A
1 A
108160677 ATACATCCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (21 bp):
ATTTATTGCTTTCAATGGATT
Found at i:108163005 original size:6 final size:6
Alignment explanation
Indices: 108162996--108163024 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
108162986 TTTTCATTTT
108162996 TAAAAG TAAAAG TAAAAG TAAAAG TAAAA
1 TAAAAG TAAAAG TAAAAG TAAAAG TAAAA
108163025 ATAATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (6 bp):
TAAAAG
Found at i:108170960 original size:11 final size:11
Alignment explanation
Indices: 108170944--108170974 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
108170934 TGTAGTCATC
108170944 TTCTTTTCTTT
1 TTCTTTTCTTT
*
108170955 TTCTTTTTTTT
1 TTCTTTTCTTT
108170966 TTCTTTTCT
1 TTCTTTTCT
108170975 ATTTACTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTCTTTTCTTT
Found at i:108174155 original size:338 final size:338
Alignment explanation
Indices: 108173534--108174211 Score: 1252
Period size: 338 Copynumber: 2.0 Consensus size: 338
108173524 AACTTCCTCC
108173534 TTTCTCAAATGAACCAATTTTTAACAATTTCTTTTTTAGAATAAGTGAATGCCATCTTGTTAAGG
1 TTTCTCAAATGAACCAATTTTTAACAATTTCTTTTTTAGAATAAGTGAATGCCATCTTGTTAAGG
108173599 ACTACTTTTTACAATAACTATTTGAGTGCTGATTTCCCGCTCTTCTCTCACTTTAAACAGATTTT
66 ACTACTTTTTACAATAACTATTTGAGTGCTGATTTCCCGCTCTTCTCTCACTTTAAACAGATTTT
*
108173664 GAGCCAGAGCCAGAGTCTGACATTAAGGATTTAGAGGAGGAAGACTTGTCAGGTATGAGGTCCGA
131 GAGCCAGAGCCAGAGTCTGACATTAAGGATTTAGAGGAGGAAGACTTGTCAGGTATGAGGTCCCA
*
108173729 CTTTTCTTAGAAAATTATGGATTTTTTTTTGTTCTGCCTCTCTGCTTTATGTGTTAGTGGAATTT
196 CTTTTCTTAAAAAATTATGGATTTTTTTTTGTTCTGCCTCTCTGCTTTATGTGTTAGTGGAATTT
* *
108173794 GTTAATTTTGTACCCTTGCTATTTTGGAACTTAC-ATATTTTTTGTTGTTTTGGCTTTGTTTGAT
261 GTTAATTTTGTACCCTCGCTATTTTGGAACTTACAAT-TTTTTTGTTGTTTTGGCTTTGGTTGAT
108173858 GATTCTCTCTTTTT
325 GATTCTCTCTTTTT
108173872 TTTCTCAAATGAACCAATTTTTAACAATTT-TATTTTTAGAATAAGTGAATGCCATCTTGTTAAG
1 TTTCTCAAATGAACCAATTTTTAACAATTTCT-TTTTTAGAATAAGTGAATGCCATCTTGTTAAG
*
108173936 GACTACTTTTTACAATAACTATTTGAGTGCTGATTTCCTGCTCTTCTCTCACTTTAAACAGATTT
65 GACTACTTTTTACAATAACTATTTGAGTGCTGATTTCCCGCTCTTCTCTCACTTTAAACAGATTT
*
108174001 TGAGTCAGAGCCAGAGTCTGACATTAAGGATTTAGAGGAGGAAGACTTGTCAGGTATGAGGTCCC
130 TGAGCCAGAGCCAGAGTCTGACATTAAGGATTTAGAGGAGGAAGACTTGTCAGGTATGAGGTCCC
*
108174066 ACTTTTCTTAAAAAATTATGGATTTTTTTTTGTTCTGCCTCTCTGCTTTATGTGTTAGTGGATTT
195 ACTTTTCTTAAAAAATTATGGATTTTTTTTTGTTCTGCCTCTCTGCTTTATGTGTTAGTGGAATT
*
108174131 TGTTAATTTTGTAGCCTCGCTATTTTGGAACTTACAATTTTTTTGTTGTTTTGGCTTTGGTTGAT
260 TGTTAATTTTGTACCCTCGCTATTTTGGAACTTACAATTTTTTTGTTGTTTTGGCTTTGGTTGAT
108174196 GATTCTCTCTTTTT
325 GATTCTCTCTTTTT
108174210 TT
1 TT
108174212 CTTTTTTGTA
Statistics
Matches: 330, Mismatches: 8, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
337 1 0.00
338 327 0.99
339 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.44
Consensus pattern (338 bp):
TTTCTCAAATGAACCAATTTTTAACAATTTCTTTTTTAGAATAAGTGAATGCCATCTTGTTAAGG
ACTACTTTTTACAATAACTATTTGAGTGCTGATTTCCCGCTCTTCTCTCACTTTAAACAGATTTT
GAGCCAGAGCCAGAGTCTGACATTAAGGATTTAGAGGAGGAAGACTTGTCAGGTATGAGGTCCCA
CTTTTCTTAAAAAATTATGGATTTTTTTTTGTTCTGCCTCTCTGCTTTATGTGTTAGTGGAATTT
GTTAATTTTGTACCCTCGCTATTTTGGAACTTACAATTTTTTTGTTGTTTTGGCTTTGGTTGATG
ATTCTCTCTTTTT
Found at i:108176155 original size:147 final size:146
Alignment explanation
Indices: 108175994--108176473 Score: 713
Period size: 147 Copynumber: 3.3 Consensus size: 146
108175984 GGCACCTAAG
108175994 CACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTT
1 CACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTT
108176059 TATATTATTTTA-AAAAAAATGTTTCAAATGTATTATGTAAGTGTTTTTTTTATATTAATTTAAT
66 TATATTATTTTAGAAAAAAATGTTTCAAATGTATTATGTAA--GTTTTTTTTATATTAATTTAAT
108176123 AAATAACCCTGATTTTGA
129 AAATAACCCTGATTTTGA
* * * *
108176141 CACTTTCTTCGTATTTCTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTT
1 CACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTT
* * * * * * *
108176206 CATATTATTTTAGTACATAATGTTTTC-AATGTATTATTTAAGTATTTTTTATATT-TTTTCAAT
66 TATATTATTTTAGAAAAAAATG-TTTCAAATGTATTATGTAAGTTTTTTTTATATTAATTT-AAT
108176269 AAATAACCCTGATTTTGA
129 AAATAACCCTGATTTTGA
*
108176287 CACTTTATTTGTA-TTTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTA-TTTTT
1 CACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTT
* * *
108176350 TATATTATTTTAGCAAAAAATATTTCAAATGTATTATGTAA-ATTTTTTTATATTAATTTAATAA
66 TATATTATTTTAGAAAAAAATGTTTCAAATGTATTATGTAAGTTTTTTTTATATTAATTTAATAA
*
108176414 ATAACCTTGATTTTGA
131 ATAACCCTGATTTTGA
* *
108176430 CACTTTCTTCGTATTTTTTTCGTATCTTA-TTTTTAAAATATATT
1 CACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATT
108176474 TTATAGTGCT
Statistics
Matches: 298, Mismatches: 29, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
143 61 0.20
144 51 0.17
145 46 0.15
146 45 0.15
147 72 0.24
148 19 0.06
149 4 0.01
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (146 bp):
CACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTT
TATATTATTTTAGAAAAAAATGTTTCAAATGTATTATGTAAGTTTTTTTTATATTAATTTAATAA
ATAACCCTGATTTTGA
Found at i:108176318 original size:15 final size:15
Alignment explanation
Indices: 108176298--108176350 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
108176288 ACTTTATTTG
108176298 TATTTTTTCGTATAT
1 TATTTTTTCGTATAT
***
108176313 TATTTTTTAAAATA-
1 TATTTTTTCGTATAT
*
108176327 TATTATTTTCGTATTT
1 TATT-TTTTCGTATAT
108176343 TATTTTTT
1 TATTTTTT
108176351 ATATTATTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 4 0.14
15 21 0.72
16 4 0.14
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (15 bp):
TATTTTTTCGTATAT
Found at i:108176598 original size:19 final size:20
Alignment explanation
Indices: 108176551--108176598 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
108176541 TTTATTATTA
108176551 TTTTTTTTTCGTTTTCAGCT
1 TTTTTTTTTCGTTTTCAGCT
*
108176571 TTTTTTTTT-GTTTTTAG-T
1 TTTTTTTTTCGTTTTCAGCT
108176589 GTTTTTTTTT
1 -TTTTTTTTT
108176599 ACTGTTGCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 16 0.62
20 9 0.35
ACGTcount: A:0.04, C:0.06, G:0.10, T:0.79
Consensus pattern (20 bp):
TTTTTTTTTCGTTTTCAGCT
Found at i:108185066 original size:25 final size:24
Alignment explanation
Indices: 108185017--108185072 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
108185007 CCACCAAATT
*
108185017 TTTTTTTCTTTATCTTCAAAGTAA
1 TTTTTTTCTTTATCTCCAAAGTAA
*
108185041 TTTTTTTCTTTTTCGTCCATAA-TAA
1 TTTTTTTCTTTATC-TCCA-AAGTAA
108185066 TTTTTTT
1 TTTTTTT
108185073 AAATTTGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 13 0.46
25 13 0.46
26 2 0.07
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (24 bp):
TTTTTTTCTTTATCTCCAAAGTAA
Found at i:108186761 original size:62 final size:63
Alignment explanation
Indices: 108186690--108186812 Score: 178
Period size: 68 Copynumber: 1.9 Consensus size: 63
108186680 TTTAATATGC
108186690 AAGAAAAAA-G-GTTGTAACTTGAAACCAACAAAAAAAAAAGACTGTAACTTGAAACCAGAAGA
1 AAGAAAAAAGGAGTTGTAACTTGAAACCAAC-AAAAAAAAAGACTGTAACTTGAAACCAGAAGA
108186752 AAGAAAAAAGGTTGTAAGTTGTAACTTGAAACCAACAAAAAAAAAGACTGTAACTTGAAAC
1 AAGAAAAAA-G--G--AGTTGTAACTTGAAACCAACAAAAAAAAAGACTGTAACTTGAAAC
108186813 TAGTGGAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
62 9 0.17
66 1 0.02
68 25 0.46
69 19 0.35
ACGTcount: A:0.54, C:0.12, G:0.16, T:0.17
Consensus pattern (63 bp):
AAGAAAAAAGGAGTTGTAACTTGAAACCAACAAAAAAAAAGACTGTAACTTGAAACCAGAAGA
Found at i:108186768 original size:32 final size:31
Alignment explanation
Indices: 108186690--108186768 Score: 108
Period size: 30 Copynumber: 2.5 Consensus size: 31
108186680 TTTAATATGC
108186690 AAGAAAAAAGGTTGTAACTTGAAACCAACAA
1 AAGAAAAAAGGTTGTAACTTGAAACCAACAA
**
108186721 AA-AAAAAAGACTGTAACTTGAAACCAGA-AGA
1 AAGAAAAAAGGTTGTAACTTGAAACCA-ACA-A
108186752 AAGAAAAAAGGTTGTAA
1 AAGAAAAAAGGTTGTAA
108186769 GTTGTAACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 23 0.56
31 6 0.15
32 12 0.29
ACGTcount: A:0.57, C:0.10, G:0.18, T:0.15
Consensus pattern (31 bp):
AAGAAAAAAGGTTGTAACTTGAAACCAACAA
Found at i:108186894 original size:27 final size:27
Alignment explanation
Indices: 108186843--108186895 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
108186833 AAAATGGAGC
**
108186843 AACAATGGTTGAAACCAGCGGAAGAAT
1 AACAATGGTTGAAACCAGCAAAAGAAT
*
108186870 AACATTGGTTGAAACCAGCAAAAGAA
1 AACAATGGTTGAAACCAGCAAAAGAA
108186896 GAGATGTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (27 bp):
AACAATGGTTGAAACCAGCAAAAGAAT
Found at i:108195848 original size:7 final size:7
Alignment explanation
Indices: 108195838--108195865 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
108195828 CCCCAAAAGC
108195838 AAAAAAT
1 AAAAAAT
108195845 AAAAAAT
1 AAAAAAT
108195852 AAAAAAT
1 AAAAAAT
108195859 AAAAAAT
1 AAAAAAT
108195866 GAAGTCGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:108205350 original size:29 final size:29
Alignment explanation
Indices: 108205311--108205368 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
108205301 TTGGGTTTTT
108205311 TTGTTCAAATTGGTTCAAATAATTAGTAA
1 TTGTTCAAATTGGTTCAAATAATTAGTAA
108205340 TTGTTCAAATTGGTTCAAATAATTAGTAA
1 TTGTTCAAATTGGTTCAAATAATTAGTAA
108205369 AAATTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (29 bp):
TTGTTCAAATTGGTTCAAATAATTAGTAA
Found at i:108205869 original size:13 final size:12
Alignment explanation
Indices: 108205851--108205902 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 12
108205841 TCTATTCAAT
108205851 TCAATTAAATAAA
1 TCAATTAAA-AAA
108205864 TCAATTAAAAAA
1 TCAATTAAAAAA
*
108205876 TTTC-ATGAAAAAAA
1 --TCAAT-TAAAAAA
108205890 TCAATTAAAAAA
1 TCAATTAAAAAA
108205902 T
1 T
108205903 TCATGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
12 12 0.36
13 13 0.39
14 8 0.24
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (12 bp):
TCAATTAAAAAA
Found at i:108205886 original size:12 final size:12
Alignment explanation
Indices: 108205870--108205912 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
108205860 TAAATCAATT
108205870 AAAAAATTTCATG
1 AAAAAA-TTCATG
* *
108205883 AAAAAAATCAATT
1 AAAAAATTC-ATG
108205896 AAAAAATTCATG
1 AAAAAATTCATG
108205908 AAAAA
1 AAAAA
108205913 GAAAAATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 9 0.36
13 16 0.64
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (12 bp):
AAAAAATTCATG
Found at i:108205905 original size:25 final size:26
Alignment explanation
Indices: 108205861--108205912 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
108205851 TCAATTAAAT
108205861 AAATCAATTAAAAAATTTCATGAAAA
1 AAATCAATTAAAAAATTTCATGAAAA
108205887 AAATCAATTAAAAAA-TTCATGAAAA
1 AAATCAATTAAAAAATTTCATGAAAA
108205912 A
1 A
108205913 GAAAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.25
Consensus pattern (26 bp):
AAATCAATTAAAAAATTTCATGAAAA
Found at i:108205923 original size:26 final size:26
Alignment explanation
Indices: 108205861--108205920 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
108205851 TCAATTAAAT
*
108205861 AAATCAATTAAAAAATTTCATGAAAA
1 AAATAAATTAAAAAATTTCATGAAAA
*
108205887 AAATCAATTAAAAAA-TTCATGAAAA
1 AAATAAATTAAAAAATTTCATGAAAA
108205912 AGAA-AAATT
1 A-AATAAATT
108205921 TAATTCAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 15 0.47
26 17 0.53
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.25
Consensus pattern (26 bp):
AAATAAATTAAAAAATTTCATGAAAA
Found at i:108212161 original size:19 final size:19
Alignment explanation
Indices: 108212115--108212162 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
108212105 GTATATATTT
108212115 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
108212133 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
108212152 TAAGTTTTATT
1 TAAATTTTATT
108212163 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:108212224 original size:43 final size:43
Alignment explanation
Indices: 108212176--108212268 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
108212166 ATTCTAGAAA
108212176 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
* *
108212219 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
108212262 TATTTTC
1 TATTTTC
108212269 CTAATTAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
Found at i:108216844 original size:18 final size:19
Alignment explanation
Indices: 108216823--108216862 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
108216813 GTATATATTT
108216823 TAAAT-TTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
*
108216841 TAAATCTTATTTGGGTAGA
1 TAAATCTTATTTAGGTAGA
108216860 TAA
1 TAA
108216863 GTTTTATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (19 bp):
TAAATCTTATTTAGGTAGA
Found at i:108216869 original size:19 final size:19
Alignment explanation
Indices: 108216823--108216870 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
108216813 GTATATATTT
108216823 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
108216841 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
108216860 TAAGTTTTATT
1 TAAATTTTATT
108216871 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:108216932 original size:43 final size:43
Alignment explanation
Indices: 108216880--108216976 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 43
108216870 TCATATTCTA
108216880 GAAA-TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAG
1 GAAACTATTTTCT-TTTTATCTTTTAGTAGTTTACTAGAATAAG
* *
108216922 GAAACTATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAG
1 GAAACTATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAG
*
108216965 GGAACTATTTTC
1 GAAACTATTTTC
108216977 CTAATTAGGA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
42 4 0.08
43 45 0.90
44 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.49
Consensus pattern (43 bp):
GAAACTATTTTCTTTTTATCTTTTAGTAGTTTACTAGAATAAG
Found at i:108217242 original size:25 final size:24
Alignment explanation
Indices: 108217208--108217256 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
108217198 CTTGAACAAG
108217208 CTCCCGCTTTTAATGGATATCATTT
1 CTCCCGC-TTTAATGGATATCATTT
*
108217233 CTCCTGCTTTAATGGATATCATTT
1 CTCCCGCTTTAATGGATATCATTT
108217257 AACGGGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (24 bp):
CTCCCGCTTTAATGGATATCATTT
Found at i:108223199 original size:19 final size:19
Alignment explanation
Indices: 108223167--108223203 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
108223157 TAAAAATTTG
**
108223167 GAAGGTATTTTCAAATATA
1 GAAGGTATAATCAAATATA
108223186 GAAGGTATAATCAAATAT
1 GAAGGTATAATCAAATAT
108223204 GGTCATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (19 bp):
GAAGGTATAATCAAATATA
Found at i:108223254 original size:24 final size:24
Alignment explanation
Indices: 108223216--108223266 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
108223206 TCATATTTGA
* * *
108223216 ATATTTGATTGTTTAATACTTTCC
1 ATATTTGAATATTTAATACCTTCC
108223240 ATATTTGAATATTTAATACCTTCC
1 ATATTTGAATATTTAATACCTTCC
108223264 ATA
1 ATA
108223267 AAAATATACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (24 bp):
ATATTTGAATATTTAATACCTTCC
Found at i:108227806 original size:46 final size:48
Alignment explanation
Indices: 108227752--108227882 Score: 173
Period size: 46 Copynumber: 2.8 Consensus size: 48
108227742 ATAATTGGGC
*
108227752 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
* * *
108227799 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-AGG
108227844 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
108227883 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
43 6 0.08
45 4 0.06
46 29 0.41
47 29 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
Found at i:108235132 original size:18 final size:19
Alignment explanation
Indices: 108235084--108235147 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
108235074 AAGATATACA
* *
108235084 TGAATATACCTTCTATATT
1 TGAATAAACTTTCTATATT
*
108235103 TGAATAAGCTTTCTATATT
1 TGAATAAACTTTCTATATT
*
108235122 T-AATAAACTTTCCATATT
1 TGAATAAACTTTCTATATT
*
108235140 TGTATAAA
1 TGAATAAA
108235148 TTTAATACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 16 0.42
19 22 0.58
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (19 bp):
TGAATAAACTTTCTATATT
Found at i:108235226 original size:71 final size:71
Alignment explanation
Indices: 108235142--108235280 Score: 244
Period size: 71 Copynumber: 2.0 Consensus size: 71
108235132 TCCATATTTG
*
108235142 TATAAATTTAATACAAATTTGGAATGTATTTTCAAATATAGAAA-ATATAATCAAATATGGAAGG
1 TATAAATTTAATACAAATTTGGAAGGTATTTTCAAATATA-AAAGATATAATCAAATATGGAAGG
108235206 TATATAT
65 TATATAT
*
108235213 TATACATTTAATACAAATTTGGAAGGTATTTTCAAATATAAAAGATATAATCAAATATGGAAGGT
1 TATAAATTTAATACAAATTTGGAAGGTATTTTCAAATATAAAAGATATAATCAAATATGGAAGGT
108235278 ATA
66 ATA
108235281 CCTTCCATAT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
70 3 0.05
71 62 0.95
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (71 bp):
TATAAATTTAATACAAATTTGGAAGGTATTTTCAAATATAAAAGATATAATCAAATATGGAAGGT
ATATAT
Found at i:108235268 original size:38 final size:38
Alignment explanation
Indices: 108235145--108235279 Score: 131
Period size: 38 Copynumber: 3.7 Consensus size: 38
108235135 ATATTTGTAT
* * *
108235145 AAATTTAATACAAATTTGGAATGTATTTTCAAATATAGA
1 AAATATAATACAAATATGGAAGGTATTTTCAAATATA-A
* *
108235184 AAATATAAT-CAAATATGGAAGGTA---T-ATAT-TAT
1 AAATATAATACAAATATGGAAGGTATTTTCAAATATAA
* * *
108235216 ACATTTAATACAAATTTGGAAGGTATTTTCAAATATAA
1 AAATATAATACAAATATGGAAGGTATTTTCAAATATAA
108235254 AAGATATAAT-CAAATATGGAAGGTAT
1 AA-ATATAATACAAATATGGAAGGTAT
108235280 ACCTTCCATA
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
32 7 0.09
33 16 0.21
34 3 0.04
35 1 0.01
36 1 0.01
37 3 0.04
38 31 0.41
39 14 0.18
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (38 bp):
AAATATAATACAAATATGGAAGGTATTTTCAAATATAA
Found at i:108235280 original size:19 final size:19
Alignment explanation
Indices: 108235221--108235280 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
108235211 ATTATACATT
*
108235221 TAATACAAATTTGGAAGGTA
1 TAAT-CAAATATGGAAGGTA
** ** *
108235241 TTTTCAAATATAAAAGATA
1 TAATCAAATATGGAAGGTA
108235260 TAATCAAATATGGAAGGTA
1 TAATCAAATATGGAAGGTA
108235279 TA
1 TA
108235281 CCTTCCATAT
Statistics
Matches: 29, Mismatches: 11, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
19 27 0.93
20 2 0.07
ACGTcount: A:0.48, C:0.05, G:0.15, T:0.32
Consensus pattern (19 bp):
TAATCAAATATGGAAGGTA
Found at i:108235346 original size:19 final size:19
Alignment explanation
Indices: 108235278--108235347 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
108235268 TATGGAAGGT
*
108235278 ATACCTTCCATATTAG-AA
1 ATACCTTCCATATTTGAAA
*
108235296 AT--CTTCCATATTTGATA
1 ATACCTTCCATATTTGAAA
108235313 ATACC-TCCTATATTTGAAA
1 ATACCTTCC-ATATTTGAAA
*
108235332 ATACCTTCCAAATTTG
1 ATACCTTCCATATTTG
108235348 TATTAAAGAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 11 0.26
17 3 0.07
18 5 0.12
19 21 0.49
20 3 0.07
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (19 bp):
ATACCTTCCATATTTGAAA
Found at i:108236218 original size:98 final size:97
Alignment explanation
Indices: 108236049--108236229 Score: 292
Period size: 98 Copynumber: 1.8 Consensus size: 97
108236039 TATCTTCATA
* *
108236049 CATTTATCTATATATCTAAGCCATTCCCTAGTAGTCTCGTAAGTCATTGATGAACTAAGATAAGA
1 CATTTATCTATATATCTAAGCCATTCCCTAGTAGTCACG-AAGTCACTGATGAACTAAGATAAGA
108236114 TACCATGTATTCCATCAGCCTACTATTAACAAT
65 TACCATGTATTCCATCAGCCTACTATTAACAAT
* *
108236147 CATTTATCTCTATATCCTAAGCCATTCCCTAGTAGTCAC-ATGTCACTGATGAACTAAGAATAAG
1 CATTTATCTATATAT-CTAAGCCATTCCCTAGTAGTCACGAAGTCACTGATGAACTAAG-ATAAG
108236211 ATACCATGTATTCCATCAG
64 ATACCATGTATTCCATCAG
108236230 TGTGCTTGAA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
97 17 0.22
98 38 0.49
99 22 0.29
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (97 bp):
CATTTATCTATATATCTAAGCCATTCCCTAGTAGTCACGAAGTCACTGATGAACTAAGATAAGAT
ACCATGTATTCCATCAGCCTACTATTAACAAT
Found at i:108241202 original size:11 final size:11
Alignment explanation
Indices: 108241186--108241212 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
108241176 TATCAGCCCA
108241186 ATACTTCATTC
1 ATACTTCATTC
108241197 ATACTTCATTC
1 ATACTTCATTC
108241208 ATACT
1 ATACT
108241213 GTTACAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.44
Consensus pattern (11 bp):
ATACTTCATTC
Found at i:108244566 original size:22 final size:22
Alignment explanation
Indices: 108244516--108244568 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
108244506 AATTAAGTGG
108244516 TATATTTTACTATATTAAAAAT
1 TATATTTTACTATATTAAAAAT
* * * * *
108244538 AAAATTTTATTATTTTAATAAT
1 TATATTTTACTATATTAAAAAT
108244560 TATATTTTA
1 TATATTTTA
108244569 ATGATTAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TATATTTTACTATATTAAAAAT
Found at i:108249637 original size:388 final size:390
Alignment explanation
Indices: 108248735--108249924 Score: 1473
Period size: 388 Copynumber: 3.0 Consensus size: 390
108248725 TGAAAAAAGT
* * * * * * ** * *
108248735 TTTTGAAAAGTTTGATAGTGTTCACTATTACTGTCAGAAAGTACTTTTGAAAATGATAAAGTGTT
1 TTTTGAAAAGTTTGATAATGTTTACCATTGCTATCAAAAAGTACTTTT-AAAAAAATAAAATGTC
* * * * ** * *
108248800 AATTTTAAACATGGTGTTGTAAAGTGAAAGATTTAATGGGAGAT---AACAAGGTAACTTCGTTG
65 AATTTTAAACATGATATTATAAAGTGAAAGATTTAATGGGAGATAAAAAAAAAATAATTTCATTG
* * *
108248862 AAAAATACTTTTTCAAAATTTTTTGACTTGGTTAAAATCTTAATTAAAATCATGTTCGGTTTAAA
130 AAAAATACTTTTCCAAAA-TTTTTGGCTTGG-----A--GT--TTAAAATCATGTTCGGTTTAAA
** *
108248927 AAGCTACTTGCTTACCAAATTTTTTGTTGTTCACTGCTTTCCAGCCTCAATAGTAAACAAAAAAT
185 AAGCTGTTTGCTTACCAAA-TTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAAT
* *
108248992 TTGGTAAACAAAGAGCTCTTCAACCCAAACTATAATTTCAAATTGTGATTCTAACCCAAGCCAAA
249 TTGGTAAACAAAGAGCTCTTAAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAA
*
108249057 TTTTTTAACCTTCGGCTTTTGGAAAAATATTTTTCAAGGAAGTTACCTTTTTATCTCCCATTAAA
314 CTTTTTAACCTTCGGCTTTTGGAAAAATATTTTTCAAGGAAGTTACCTTTTTATCTCCCATTAAA
108249122 TCTTTCATGTGC
379 TCTTTCATGTGC
* * * * *
108249134 TTTTGAAAAGTTTGATAATGTTTACCATTGCTGTCAAAAAGTACTTTTTAGAAGATAAAATGTTA
1 TTTTGAAAAGTTTGATAATGTTTACCATTGCTATCAAAAAGTACTTTTAAAAAAATAAAATGTCA
* * * **
108249199 ATTTTAGACATGATGTTATAAAGTGAAAGATTTAATGGGAGATAAAAAAAAAGTAATTTTGTTGA
66 ATTTTAAACATGATATTATAAAGTGAAAGATTTAATGGGAGATAAAAAAAAAATAATTTCATTGA
* *
108249264 AAAATACTTTTCCAAAATTTTTGGCTT-G-G-TTAAAATCATGTTTGGTTTAAAAAGTTGTTTGC
131 AAAATACTTTTCCAAAATTTTTGGCTTGGAGTTTAAAATCATGTTCGGTTTAAAAAGCTGTTTGC
108249326 TTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTTGGTAAACAAA
196 TTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTTGGTAAACAAA
**
108249391 GAGCTCTTAAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAATTCAAACTTTTTAACCTT
261 GAGCTCTTAAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAACTTTTTAACCTT
*
108249456 CGGCCTTTTGGAAAAATATTTTTCAAGGAAGTTACCTTTTTATCTCTCATTAAATCTTTCATGTG
326 CGG-CTTTTGGAAAAATATTTTTCAAGGAAGTTACCTTTTTATCTCCCATTAAATCTTTCATGTG
108249521 C
390 C
* *
108249522 TTTTGAAAAGTTTGATAATGTTTATCATTGTTAT-AAAGAAGTACTTTTAAAAAAATAAAATGTC
1 TTTTGAAAAGTTTGATAATGTTTACCATTGCTATCAAA-AAGTACTTTTAAAAAAATAAAATGTC
* *
108249586 AATTTTTAAATATGATATTATAAAGTGAAAGATTTATTGGGAGAT-AAAAAAAAATAATTTCATT
65 AA-TTTTAAACATGATATTATAAAGTGAAAGATTTAATGGGAGATAAAAAAAAAATAATTTCATT
108249650 GAAAAATACTTTTCCAAAATTTTTGGCTTGGTTAAAATCTTAGTTTAAAATCATGTTCGGTTTAA
129 GAAAAATACTTTTCCAAAATTTTTGGCTTGG----------AGTTTAAAATCATGTTCGGTTTAA
*
108249715 AAAGCTGTTTGCTTACCAAATTTTTGTTGTTTACTGCTCTCCAGCCTCAATAGTAAACAAAAAAT
184 AAAGCTGTTTGCTTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAAT
* * *
108249780 TTGGTAAACAAAGAGCTCTTCAAA-CCAAACCATGATTTTAAACTGTGATTCTAATCCAAGCCAA
249 TTGGTAAACAAAGAGCTCTT-AAACCCAAACTATGATTTCAAATTGTGATTCTAA--C---CC--
* * * * * * * *
108249844 AAAGCCAAAATTTTTAACATTTGACTTTTGGAAAAATGTTTTTCAATGAAATTA-ATTTTCTATC
306 -AAGCCAAACTTTTTAACCTTCGGCTTTTGGAAAAATATTTTTCAAGGAAGTTACCTTTT-TATC
108249908 TCCCATTAAATCTTTCA
369 TCCCATTAAATCTTTCA
108249925 CTTTATAACA
Statistics
Matches: 701, Mismatches: 61, Indels: 49
0.86 0.08 0.06
Matches are distributed among these distances:
387 122 0.17
388 198 0.28
389 39 0.06
398 53 0.08
399 44 0.06
400 10 0.01
401 161 0.23
402 3 0.00
403 1 0.00
406 2 0.00
407 4 0.01
408 47 0.07
409 17 0.02
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (390 bp):
TTTTGAAAAGTTTGATAATGTTTACCATTGCTATCAAAAAGTACTTTTAAAAAAATAAAATGTCA
ATTTTAAACATGATATTATAAAGTGAAAGATTTAATGGGAGATAAAAAAAAAATAATTTCATTGA
AAAATACTTTTCCAAAATTTTTGGCTTGGAGTTTAAAATCATGTTCGGTTTAAAAAGCTGTTTGC
TTACCAAATTTTTGTTGTTTACTGCTTTCCAGCCTCAATAGTAAACAAAAAATTTGGTAAACAAA
GAGCTCTTAAACCCAAACTATGATTTCAAATTGTGATTCTAACCCAAGCCAAACTTTTTAACCTT
CGGCTTTTGGAAAAATATTTTTCAAGGAAGTTACCTTTTTATCTCCCATTAAATCTTTCATGTGC
Found at i:108250698 original size:13 final size:13
Alignment explanation
Indices: 108250680--108250709 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
108250670 TTTAAAGTAT
*
108250680 AATATTATCGAAA
1 AATATTATAGAAA
108250693 AATATTATAGAAA
1 AATATTATAGAAA
108250706 AATA
1 AATA
108250710 AAACCCGAAC
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:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (13 bp):
AATATTATAGAAA
Found at i:108251089 original size:21 final size:21
Alignment explanation
Indices: 108251040--108251095 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
108251030 TATTTTATAT
*
108251040 ATAAAA-AAATAATATTAGAA
1 ATAAAATAAATAATATTAAAA
**
108251060 ATATGATAAATCAA-ATTAAAA
1 ATAAAATAAAT-AATATTAAAA
*
108251081 ATAAAATAAAAAATA
1 ATAAAATAAATAATA
108251096 AATCAAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
20 6 0.22
21 19 0.70
22 2 0.07
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (21 bp):
ATAAAATAAATAATATTAAAA
Found at i:108255884 original size:11 final size:11
Alignment explanation
Indices: 108255868--108255892 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
108255858 TTGATGTGCC
108255868 TTTACATCACA
1 TTTACATCACA
108255879 TTTACATCACA
1 TTTACATCACA
108255890 TTT
1 TTT
108255893 GATCCGTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (11 bp):
TTTACATCACA
Found at i:108265159 original size:17 final size:18
Alignment explanation
Indices: 108265129--108265163 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
108265119 AATGTGAATT
108265129 TTAATTATTCAATTGTGC
1 TTAATTATTCAATTGTGC
*
108265147 TTAA-TATTTAATTGTGC
1 TTAATTATTCAATTGTGC
108265164 CTATTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (18 bp):
TTAATTATTCAATTGTGC
Found at i:108272337 original size:21 final size:20
Alignment explanation
Indices: 108272313--108272369 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
108272303 TTCAATATCG
*
108272313 TATTTTTACATATCATGTATA
1 TATTTTTACATATCATAT-TA
* *
108272334 TATTTCTA-ATATTATATTA
1 TATTTTTACATATCATATTA
*
108272353 TATTTTT-CATATTATAT
1 TATTTTTACATATCATAT
108272370 CATGTACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 17 0.55
20 7 0.23
21 7 0.23
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTTTTACATATCATATTA
Found at i:108272356 original size:19 final size:19
Alignment explanation
Indices: 108272332--108272369 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
108272322 ATATCATGTA
108272332 TATATTTCTAATATTATAT
1 TATATTTCTAATATTATAT
* *
108272351 TATATTTTTCATATTATAT
1 TATATTTCTAATATTATAT
108272370 CATGTACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATTTCTAATATTATAT
Done.