Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 314 of 345
Found at i:106062263 original size:14 final size:14
Alignment explanation
Indices: 106062244--106062276 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
106062234 ATACACATAC
106062244 ATTTTATTCCTCTT
1 ATTTTATTCCTCTT
106062258 ATTTTATTCCTCTT
1 ATTTTATTCCTCTT
106062272 ATTTT
1 ATTTT
106062277 TTTTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTATTCCTCTT
Found at i:106068535 original size:44 final size:45
Alignment explanation
Indices: 106068482--106068570 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 45
106068472 AATATGATCC
*
106068482 TATTTTATCTCATGGTAACCATTACATCTTCC-TTTATGAAAATT
1 TATTTTATCTCATGGTAACCATTACATATTCCTTTTATGAAAATT
106068526 TATTTTATCTCATGGTAACCATTACATATTCCTTTTATGAAAATT
1 TATTTTATCTCATGGTAACCATTACATATTCCTTTTATGAAAATT
106068571 CAATCACATC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 31 0.72
45 12 0.28
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (45 bp):
TATTTTATCTCATGGTAACCATTACATATTCCTTTTATGAAAATT
Found at i:106070513 original size:15 final size:17
Alignment explanation
Indices: 106070495--106070527 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
106070485 CTCCCTTTTC
106070495 TTTGTA-AAT-TGTCGG
1 TTTGTAGAATGTGTCGG
106070510 TTTGTAGAATGTGTCGG
1 TTTGTAGAATGTGTCGG
106070527 T
1 T
106070528 CAGATCACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.18, C:0.06, G:0.30, T:0.45
Consensus pattern (17 bp):
TTTGTAGAATGTGTCGG
Found at i:106071091 original size:16 final size:16
Alignment explanation
Indices: 106071070--106071101 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
106071060 TAAATTAATT
*
106071070 ATTAATCCGTTTGTGA
1 ATTAATCCATTTGTGA
106071086 ATTAATCCATTTGTGA
1 ATTAATCCATTTGTGA
106071102 CATTCATGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (16 bp):
ATTAATCCATTTGTGA
Found at i:106072353 original size:16 final size:16
Alignment explanation
Indices: 106072334--106072418 Score: 75
Period size: 16 Copynumber: 5.3 Consensus size: 16
106072324 ATCCTAATAG
*
106072334 TATTTTATTAATTTAA
1 TATTATATTAATTTAA
* *
106072350 TATTAAATTTAA-TAAA
1 TATTATA-TTAATTTAA
*
106072366 TATTCTATTAATTTAA
1 TATTATATTAATTTAA
* *
106072382 TATTAAATTTAA-TAAA
1 TATTATA-TTAATTTAA
*
106072398 TATTCTATTAATTTAA
1 TATTATATTAATTTAA
106072414 TATTA
1 TATTA
106072419 AATTTAATAT
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
15 8 0.15
16 36 0.69
17 8 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTATATTAATTTAA
Found at i:106072360 original size:12 final size:12
Alignment explanation
Indices: 106072339--106072438 Score: 87
Period size: 12 Copynumber: 9.1 Consensus size: 12
106072329 AATAGTATTT
106072339 TATT-AATTTAA
1 TATTAAATTTAA
106072350 TATTAAATTT-A
1 TATTAAATTTAA
*
106072361 -A-TAAATATT-C
1 TATTAAAT-TTAA
106072371 TATT-AATTTAA
1 TATTAAATTTAA
106072382 TATTAAATTT-A
1 TATTAAATTTAA
*
106072393 -A-TAAATATT-C
1 TATTAAAT-TTAA
106072403 TATT-AATTTAA
1 TATTAAATTTAA
106072414 TATTAAATTTAA
1 TATTAAATTTAA
106072426 TATTAAATTTAA
1 TATTAAATTTAA
106072438 T
1 T
106072439 GTTTATCTTG
Statistics
Matches: 74, Mismatches: 4, Indels: 21
0.75 0.04 0.21
Matches are distributed among these distances:
9 10 0.14
10 10 0.14
11 22 0.30
12 32 0.43
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (12 bp):
TATTAAATTTAA
Found at i:106072380 original size:32 final size:32
Alignment explanation
Indices: 106072334--106072427 Score: 179
Period size: 32 Copynumber: 2.9 Consensus size: 32
106072324 ATCCTAATAG
*
106072334 TATTTTATTAATTTAATATTAAATTTAATAAA
1 TATTCTATTAATTTAATATTAAATTTAATAAA
106072366 TATTCTATTAATTTAATATTAAATTTAATAAA
1 TATTCTATTAATTTAATATTAAATTTAATAAA
106072398 TATTCTATTAATTTAATATTAAATTTAATA
1 TATTCTATTAATTTAATATTAAATTTAATA
106072428 TTAAATTTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (32 bp):
TATTCTATTAATTTAATATTAAATTTAATAAA
Found at i:106072453 original size:64 final size:60
Alignment explanation
Indices: 106072334--106072489 Score: 155
Period size: 64 Copynumber: 2.6 Consensus size: 60
106072324 ATCCTAATAG
* *
106072334 TATTTTATTAATTTAATATTAAATTTAATA--AATATTCTATTAATTTAATATTAAATTTAATAA
1 TATTCTATTAATTTAATATTAAATTTAATATTAA-ATTCTAATAATTTAATATT--A---AATAA
106072397 A
60 A
* *
106072398 TATTCTATTAATTTAATATTAAATTTAATATTAAATT-TAAT-GTTT-ATCTTGTAAATAAA
1 TATTCTATTAATTTAATATTAAATTTAATATTAAATTCTAATAATTTAAT-AT-TAAATAAA
106072457 TATTCTATTAATTTAATA--AAATTTAATATTAAA
1 TATTCTATTAATTTAATATTAAATTTAATATTAAA
106072490 GTGATTATGT
Statistics
Matches: 84, Mismatches: 4, Indels: 15
0.82 0.04 0.15
Matches are distributed among these distances:
57 15 0.18
59 24 0.29
62 3 0.04
63 4 0.05
64 33 0.39
65 3 0.04
66 2 0.02
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.51
Consensus pattern (60 bp):
TATTCTATTAATTTAATATTAAATTTAATATTAAATTCTAATAATTTAATATTAAATAAA
Found at i:106073481 original size:19 final size:21
Alignment explanation
Indices: 106073434--106073483 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
106073424 CCGGACTAAA
106073434 GTATCGATACTTTATATAAGG
1 GTATCGATACTTTATATAAGG
* *
106073455 GTACCGATACTTTA-CT-AGG
1 GTATCGATACTTTATATAAGG
106073474 GTATCGATAC
1 GTATCGATAC
106073484 ATATGATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 12 0.46
20 1 0.04
21 13 0.50
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (21 bp):
GTATCGATACTTTATATAAGG
Found at i:106077045 original size:40 final size:40
Alignment explanation
Indices: 106076966--106077142 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
106076956 CGGATGATAA
* *
106076966 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
106077006 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
* *
106077046 CCGGGCTAAGACCCGAAGACATTTGTGCGAGTTGCTCTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
106077086 CCGGGCTAAGACCCGAGGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
106077126 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
106077143 ATACTTGGGT
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 98 0.85
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:106084458 original size:13 final size:14
Alignment explanation
Indices: 106084435--106084463 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
106084425 AGAATTTAGG
106084435 TAAAAATATAAGTT
1 TAAAAATATAAGTT
106084449 TAAAAA-ATAAGTT
1 TAAAAATATAAGTT
106084462 TA
1 TA
106084464 GATAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
TAAAAATATAAGTT
Found at i:106085468 original size:13 final size:13
Alignment explanation
Indices: 106085450--106085474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
106085440 GCATCCAAGT
106085450 TCCTTTGAATAAG
1 TCCTTTGAATAAG
106085463 TCCTTTGAATAA
1 TCCTTTGAATAA
106085475 CCTGGTGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
TCCTTTGAATAAG
Found at i:106086489 original size:17 final size:16
Alignment explanation
Indices: 106086482--106086526 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
106086472 TGTTTTTATC
106086482 TTTATTTTATTTATTTA
1 TTTATTTTATTT-TTTA
106086499 TTTATTTTATTTTACTTA
1 TTTATTTTATTTT--TTA
106086517 TTT-TTTTATT
1 TTTATTTTATT
106086527 ATTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.04
17 19 0.73
18 6 0.23
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTTATTTTTTA
Found at i:106086508 original size:22 final size:22
Alignment explanation
Indices: 106086476--106086536 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 22
106086466 AAGTTTTGTT
*
106086476 TTTATCTTTATTTTATTTATTTA
1 TTTAT-TTTATTTTACTTATTTA
*
106086499 TTTATTTTATTTTACTTATTTT
1 TTTATTTTATTTTACTTATTTA
106086521 TTTATTATTAATTTTA
1 TTTATT-TT-ATTTTA
106086537 AAAAAATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 21 0.62
23 7 0.21
24 6 0.18
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTATTTTATTTTACTTATTTA
Found at i:106086589 original size:21 final size:21
Alignment explanation
Indices: 106086554--106086611 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
106086544 GAAATGTATA
106086554 TTTGAAT-TT-TTTTTAAAAT
1 TTTGAATATTATTTTTAAAAT
106086573 TTTGAATATTATTTTT-AAAT
1 TTTGAATATTATTTTTAAAAT
* *
106086593 ATTAAATATATATTTTTAA
1 TTTGAATAT-TATTTTTAA
106086612 TAATATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 7 0.21
20 13 0.39
21 12 0.36
22 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (21 bp):
TTTGAATATTATTTTTAAAAT
Found at i:106086592 original size:20 final size:20
Alignment explanation
Indices: 106086554--106086611 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
106086544 GAAATGTATA
106086554 TTTGAAT-TT-TTTTTAAAAT
1 TTTGAATATTATTTTT-AAAT
106086573 TTTGAATATTATTTTTAAAT
1 TTTGAATATTATTTTTAAAT
* *
106086593 ATTAAATATATATTTTTAA
1 TTTGAATAT-TATTTTTAA
106086612 TAATATAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.21
20 13 0.38
21 14 0.41
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTGAATATTATTTTTAAAT
Found at i:106086622 original size:23 final size:20
Alignment explanation
Indices: 106086577--106086625 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
106086567 TAAAATTTTG
*
106086577 AATATTATTTTTAAATATTA
1 AATATTATTTTTAAATATAA
106086597 AATATATATTTTTAATAATATAA
1 AATAT-TATTTTT-A-AATATAA
106086620 AATATT
1 AATATT
106086626 TAAATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.20
21 7 0.28
22 2 0.08
23 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATTATTTTTAAATATAA
Found at i:106086624 original size:21 final size:20
Alignment explanation
Indices: 106086577--106086624 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 20
106086567 TAAAATTTTG
106086577 AATATTATTTTTAAATATTAA
1 AATA-TATTTTTAAATATTAA
106086598 ATATATATTTTT-AATAATATAA
1 A-ATATATTTTTAAAT-AT-TAA
106086620 AATAT
1 AATAT
106086625 TTAAATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
20 3 0.12
21 14 0.58
22 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATATTTTTAAATATTAA
Found at i:106086752 original size:15 final size:15
Alignment explanation
Indices: 106086724--106086763 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
106086714 AATATATATT
106086724 TAATATTT--AAAAG
1 TAATATTTAAAAAAG
*
106086737 TAGTATTTAAAAAAG
1 TAATATTTAAAAAAG
106086752 TAATATTTAAAA
1 TAATATTTAAAA
106086764 TTTTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 7 0.30
15 16 0.70
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
TAATATTTAAAAAAG
Found at i:106086801 original size:22 final size:24
Alignment explanation
Indices: 106086775--106086832 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 24
106086765 TTTAAAAAAT
106086775 AATTTCAAATATATATATT-T-AA
1 AATTTCAAATATATATATTATAAA
106086797 AATTT-AAA-ATATATATTATAAA
1 AATTTCAAATATATATATTATAAA
106086819 ATATTTCAAATATA
1 A-ATTTCAAATATA
106086833 CATTTCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 9 0.29
21 4 0.13
22 8 0.26
23 4 0.13
24 3 0.10
25 3 0.10
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (24 bp):
AATTTCAAATATATATATTATAAA
Found at i:106086946 original size:10 final size:9
Alignment explanation
Indices: 106086922--106086960 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
106086912 GGATGAAAGT
*
106086922 AAAAAAGTA
1 AAAAAAGAA
106086931 AAAAAAGAA
1 AAAAAAGAA
106086940 AAGAAAAGAA
1 AA-AAAAGAA
106086950 AATAAAAGAA
1 AA-AAAAGAA
106086960 A
1 A
106086961 GTGACAGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 10 0.37
10 17 0.63
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:106087557 original size:3 final size:3
Alignment explanation
Indices: 106087544--106087594 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
106087534 TTTCTCCTCT
* * * * *
106087544 TTC TCC TTC TTC TTC -TC CTC CTC ATC CTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
106087591 TTC T
1 TTC T
106087595 ACTGCATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.02, C:0.41, G:0.00, T:0.57
Consensus pattern (3 bp):
TTC
Found at i:106090901 original size:12 final size:12
Alignment explanation
Indices: 106090881--106090910 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
106090871 AATATTGTTT
*
106090881 TAATGAATTTAA
1 TAATTAATTTAA
106090893 TAATTAATTTAA
1 TAATTAATTTAA
106090905 TAATTA
1 TAATTA
106090911 TCTAGATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
TAATTAATTTAA
Found at i:106092360 original size:42 final size:42
Alignment explanation
Indices: 106092297--106092460 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
106092287 CTTTGTTTTC
** *
106092297 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* *
106092340 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
106092381 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
106092430 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
106092461 GAATCACATA
Statistics
Matches: 106, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
41 2 0.02
42 63 0.59
43 1 0.01
45 2 0.02
48 1 0.01
49 37 0.35
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:106092440 original size:49 final size:49
Alignment explanation
Indices: 106092367--106092550 Score: 193
Period size: 49 Copynumber: 3.8 Consensus size: 49
106092357 TATGGTCTTA
* *
106092367 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
*
106092417 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* * * * *
106092465 CACATATCTCA-CT-GATGTCATATCCCAGATATGGTCTTATA--TAAT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* * *
106092510 -AGCATAT-ATCACACCGATGCCATATCCCAGATATGGTCTTA
1 CA-CATATCA-CATATCGATGCCATAGCCCAGATATGGTCTTA
106092551 TACGGAAATC
Statistics
Matches: 118, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
44 1 0.01
45 10 0.08
46 24 0.20
47 26 0.22
48 13 0.11
49 38 0.32
50 6 0.05
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
Found at i:106092552 original size:47 final size:47
Alignment explanation
Indices: 106092341--106092550 Score: 186
Period size: 47 Copynumber: 4.6 Consensus size: 47
106092331 TTCACATAAT
* *
106092341 GATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCATATAT-----C
1 GATGCCATAGCCCAGATATGGTCTTACACTA-ATACATATATCACACC
* * *
106092383 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCA-CATATC
1 GATGCCATAGCCCAGATATGGTCTTACAC-TAAT-ACATAT-ATCACACC
* * * * *
106092432 GATGCCATAGCCCAGCTATGGTCTTACACGAAT-CACATATCTCACT
1 GATGCCATAGCCCAGATATGGTCTTACACTAATACATATATCACACC
* * *
106092478 GATGTCATATCCCAGATATGGTCTTATA-TAATAGCATATATCACACC
1 GATGCCATAGCCCAGATATGGTCTTACACTAATA-CATATATCACACC
*
106092525 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
106092551 TACGGAAATC
Statistics
Matches: 140, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
42 29 0.21
43 2 0.01
44 6 0.04
45 5 0.04
46 30 0.21
47 35 0.25
48 3 0.02
49 30 0.21
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (47 bp):
GATGCCATAGCCCAGATATGGTCTTACACTAATACATATATCACACC
Found at i:106092614 original size:31 final size:31
Alignment explanation
Indices: 106092579--106092727 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
106092569 CTTGTCACTT
* *
106092579 GTAGCCGAAGCTACCACTATTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
106092610 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
106092641 GTAGCC-AGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
106092672 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
106092703 GTAGCGGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
106092728 TGTCATTTGT
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
31 107 0.99
32 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:106092826 original size:49 final size:51
Alignment explanation
Indices: 106092703--106092830 Score: 179
Period size: 50 Copynumber: 2.5 Consensus size: 51
106092693 CACTGATCAG
* * * *
106092703 GTAGCGGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
* *
106092754 GTAGCCGAACCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
*
106092804 G-GGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
106092831 TGCCATGGTC
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 22 0.32
50 24 0.35
51 22 0.32
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
Found at i:106095358 original size:32 final size:32
Alignment explanation
Indices: 106095322--106095388 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
106095312 AGCTAGTACC
106095322 TTAGTTTTTGATTTTATTGAGAATTTTGAAAG
1 TTAGTTTTTGATTTTATTGAGAATTTTGAAAG
106095354 TTAGTTTTTGATTTTATTGAGAATTTTGAAAG
1 TTAGTTTTTGATTTTATTGAGAATTTTGAAAG
106095386 TTA
1 TTA
106095389 CCATTGATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (32 bp):
TTAGTTTTTGATTTTATTGAGAATTTTGAAAG
Found at i:106096826 original size:3 final size:3
Alignment explanation
Indices: 106096812--106096971 Score: 130
Period size: 3 Copynumber: 52.7 Consensus size: 3
106096802 AATTAAAAAG
* *
106096812 ATA ATG ATA ATA ATA ATA ATA GTA ATA ATA ATA A-A ATAA ATAA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A
* * * *
106096859 ATA ATA GTA A-A AAA ATA GTA ATA ATA ATA ATG ATA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* * * *
106096904 ATA GTAA ATA ATA ATA ATA ATA GTA A-A A-A AGTA ATA ATA GTA GTA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* *
106096949 ATA ATA ATA ATA TTA ATA TTA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
106096972 TAATTTGATA
Statistics
Matches: 129, Mismatches: 21, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
2 8 0.06
3 103 0.80
4 18 0.14
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:106096859 original size:13 final size:14
Alignment explanation
Indices: 106096818--106096920 Score: 78
Period size: 13 Copynumber: 7.7 Consensus size: 14
106096808 AAAGATAATG
106096818 ATAATAAT-AATAA
1 ATAATAATAAATAA
106096831 TAGTAATAAT-AAT-A
1 -A-TAATAATAAATAA
106096845 A-AATAAATAAATAA
1 ATAAT-AATAAATAA
* *
106096859 ATAATAGTAAAAAA
1 ATAATAATAAATAA
*
106096873 ATAGTAAT-AAT-A
1 ATAATAATAAATAA
*
106096885 ATAATGAT-AATAA
1 ATAATAATAAATAA
*
106096898 ATAATAAT-AGTAA
1 ATAATAATAAATAA
106096911 ATAATAATAA
1 ATAATAATAA
106096921 TAATAGTAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
11 3 0.04
12 13 0.18
13 26 0.36
14 18 0.25
15 13 0.18
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (14 bp):
ATAATAATAAATAA
Found at i:106096863 original size:26 final size:26
Alignment explanation
Indices: 106096834--106096923 Score: 89
Period size: 26 Copynumber: 3.5 Consensus size: 26
106096824 ATAATAATAG
106096834 TAATAATAATAAAATAAATAAATAAA
1 TAATAATAATAAAATAAATAAATAAA
* *
106096860 TAATAGTAAAAAAATAGTAAT-AAT-AA
1 TAATAATAATAAAATA--AATAAATAAA
*
106096886 TAATGATAAT-AAAT-AATAATAGTAAA
1 TAATAATAATAAAATAAATAA-A-TAAA
106096912 TAATAATAATAA
1 TAATAATAATAA
106096924 TAGTAAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
22 3 0.06
23 1 0.02
24 1 0.02
25 5 0.10
26 34 0.67
27 4 0.08
28 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (26 bp):
TAATAATAATAAAATAAATAAATAAA
Found at i:106096865 original size:32 final size:31
Alignment explanation
Indices: 106096818--106096929 Score: 119
Period size: 32 Copynumber: 3.6 Consensus size: 31
106096808 AAAGATAATG
106096818 ATAATAAT-AATAATAGTAATAATAATA-AA
1 ATAATAATAAATAATAGTAATAATAATAGAA
* *
106096847 ATAAATAAATAAATAATAGTAA-AAAAATAGTA
1 AT-AAT-AATAAATAATAGTAATAATAATAGAA
106096879 ATAATAATAATGATAATA--AATAATAATAGTAA
1 ATAATAATAA--ATAATAGTAATAATAATAG-AA
106096911 ATAATAAT-AATAATAGTAA
1 ATAATAATAAATAATAGTAA
106096930 AAAAGTAATA
Statistics
Matches: 69, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
29 8 0.12
30 10 0.14
31 22 0.32
32 29 0.42
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (31 bp):
ATAATAATAAATAATAGTAATAATAATAGAA
Found at i:106096951 original size:32 final size:29
Alignment explanation
Indices: 106096805--106096957 Score: 114
Period size: 32 Copynumber: 5.0 Consensus size: 29
106096795 TAAAACAAAT
*
106096805 TAAAAAGATAATGATA-ATAATAATAATAG
1 TAAAAA-ATAATAATATATAATAATAATAG
*
106096834 TAATAATAATAA-AATAAATAAATAAATAATAG
1 TAA-AA-AATAATAATATAT-AAT-AATAATAG
* * *
106096866 TAAAAAAATAGTAATA-ATAATAATGATAA
1 T-AAAAAATAATAATATATAATAATAATAG
* *
106096895 TAAATAATAATAGTAAATAATAATAATAATAG
1 TAAAAAATAATA--ATAT-ATAATAATAATAG
106096927 TAAAAAAGTAATAATAGTAGTAATAATAATA
1 TAAAAAA-TAATAATA-TA-TAATAATAATA
106096958 ATATTAATAT
Statistics
Matches: 99, Mismatches: 11, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
28 9 0.09
29 13 0.13
30 13 0.13
31 13 0.13
32 44 0.44
33 7 0.07
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (29 bp):
TAAAAAATAATAATATATAATAATAATAG
Found at i:106097195 original size:21 final size:21
Alignment explanation
Indices: 106097170--106097216 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
106097160 AAATGGAAGA
106097170 AAAATTATAGGGTAAAAATTG
1 AAAATTATAGGGTAAAAATTG
106097191 AAAATTATAGGGTAAAAATTG
1 AAAATTATAGGGTAAAAATTG
106097212 AAAAT
1 AAAAT
106097217 AAAAATGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (21 bp):
AAAATTATAGGGTAAAAATTG
Found at i:106097692 original size:14 final size:13
Alignment explanation
Indices: 106097666--106097700 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
106097656 ATGTAGTTTC
*
106097666 AAAAAAGAAAAAT
1 AAAAAAAAAAAAT
106097679 AAAAGAAAAAAAAT
1 AAAA-AAAAAAAAT
106097693 AAAAAAAA
1 AAAAAAAA
106097701 GATGATAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.89, C:0.00, G:0.06, T:0.06
Consensus pattern (13 bp):
AAAAAAAAAAAAT
Found at i:106098457 original size:44 final size:44
Alignment explanation
Indices: 106098402--106098760 Score: 192
Period size: 44 Copynumber: 7.8 Consensus size: 44
106098392 GATTTGTTAT
*
106098402 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
* * *
106098446 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG----G-C-----TGGTGG
* * *
106098500 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAA-GAT--T--
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
* * * *
106098539 CTTCAGTCTGCT-CGCTGTAACTTTAGGGAGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
* * * * * *
106098582 CTTCAATCTACTCCACTGCAACTTTAGGAAGATAAGATTCACCATAATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG-----GC-----TGGTGG
* * * * * * * *
106098636 CTTCAATCTGTTCCATTACAACTTCAAGGAAAT-AGGATTCGCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGG-CT-GGTGG
* * *
106098681 CTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATACGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
* * *
106098725 CTTCAATCTACTCCACTACAACTTCAGGAAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
106098761 ATCCGCCATA
Statistics
Matches: 232, Mismatches: 54, Indels: 58
0.67 0.16 0.17
Matches are distributed among these distances:
38 18 0.08
39 12 0.05
41 2 0.01
43 11 0.05
44 88 0.38
45 28 0.12
46 2 0.01
48 1 0.00
49 3 0.01
53 2 0.01
54 65 0.28
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGG
Found at i:106098604 original size:136 final size:136
Alignment explanation
Indices: 106098401--106098885 Score: 684
Period size: 136 Copynumber: 3.5 Consensus size: 136
106098391 AGATTTGTTA
* *
106098401 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCA
1 TCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCA
*
106098466 ACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAA
66 ACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACT-CAACTTCAAGGAA
106098531 ATAAGAT
130 ATAAGAT
* *
106098538 TCTTCAGTCTGCT-CGCTGTAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCA
1 TCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCA
* * * *
106098602 ACTTTAGGAAGATAAGATTCACCATAATTTGTAGCTTCAATCTGTTCCATTACAACTTCAAGGAA
66 ACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACT-CAACTTCAAGGAA
*
106098667 ATAGGATTCGCT
130 ATA--A---GAT
* *
106098679 GTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATACGGCTGGTGGCTTCAATCTACTCCACTAC
1 -TCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGC
*
106098744 AACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTTAACTTCAAGGAA
65 AACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTCAACTTCAAGGAA
106098809 ATAAGAT
130 ATAAGAT
* * * *
106098816 TCACTGTCTTTAGTCTGCTCCGCTGAAACTCCAGGGAGATAAGACTGGTGGCTTCAATCTGCTCC
1 T--CT-TC---AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCC
106098881 ACTGC
60 ACTGC
106098886 TACTCCAGAG
Statistics
Matches: 308, Mismatches: 27, Indels: 21
0.87 0.08 0.06
Matches are distributed among these distances:
136 110 0.36
137 15 0.05
138 3 0.01
139 2 0.01
140 1 0.00
141 2 0.01
142 81 0.26
143 94 0.31
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (136 bp):
TCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCA
ACTTCAGGAAGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTCAACTTCAAGGAAA
TAAGAT
Found at i:106100826 original size:46 final size:46
Alignment explanation
Indices: 106100776--106100951 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
106100766 TGGTTGAGCA
*
106100776 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
106100822 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
106100869 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
106100915 CCCGAGCTCGTTGATTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
106100952 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:106100934 original size:93 final size:93
Alignment explanation
Indices: 106100773--106100944 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
106100763 GGATGGTTGA
* * * *
106100773 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
106100838 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
106100866 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGATT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
106100931 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
106100945 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:106102509 original size:6 final size:6
Alignment explanation
Indices: 106102494--106102526 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
106102484 TGGCCTCTCT
106102494 TTTTTC -TTTTC TTTTTC TTTTTC TTTTT- TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
106102527 GAAGTGAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTTC
Found at i:106102526 original size:17 final size:17
Alignment explanation
Indices: 106102494--106102525 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
106102484 TGGCCTCTCT
106102494 TTTTTCTTTTCTTTTTC
1 TTTTTCTTTTCTTTTTC
106102511 TTTTTCTTTT-TTTTT
1 TTTTTCTTTTCTTTTT
106102526 TGAAGTGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTCTTTTCTTTTTC
Found at i:106105369 original size:20 final size:19
Alignment explanation
Indices: 106105328--106105370 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
106105318 GTCTCTTTTG
* **
106105328 TGAAATTCAATGCATGTGA
1 TGAAATACAATGCATGAAA
106105347 TGAAATACAGATGCATGAAA
1 TGAAATACA-ATGCATGAAA
106105367 TGAA
1 TGAA
106105371 TGCAAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (19 bp):
TGAAATACAATGCATGAAA
Found at i:106107580 original size:29 final size:29
Alignment explanation
Indices: 106107538--106107593 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
106107528 AAAGAAATCA
*
106107538 TATTCCATAAGTTAGAATATGATTTTTTC
1 TATTCCATAAGTTAGAATACGATTTTTTC
106107567 TATTCCATAAGTTAGAATACGATTTTT
1 TATTCCATAAGTTAGAATACGATTTTT
106107594 CTTAATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (29 bp):
TATTCCATAAGTTAGAATACGATTTTTTC
Found at i:106108002 original size:3 final size:3
Alignment explanation
Indices: 106107988--106108176 Score: 131
Period size: 3 Copynumber: 63.7 Consensus size: 3
106107978 AATTAAAAAG
* * * *
106107988 ATA ATG ATA ATA ATAA ATA ATA GTA A-A AAA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
106108033 ATG ATA ATAA ATA ATA ATA GTA A-A AAA ATA ATA GTA ATA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
106108078 ATG ATA ATGA ATA ATA ATA GTA A-A A-A ATA GTA ATA ATA ATG ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * *
106108122 AAA ATA ATA ATA GCA ATA ATA ATA TTA A-A ATTA ATTA AT- TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA ATA
106108167 ATA A-A ATA AT
1 ATA ATA ATA AT
106108177 CAAAATAACC
Statistics
Matches: 144, Mismatches: 32, Indels: 20
0.73 0.16 0.10
Matches are distributed among these distances:
2 13 0.09
3 116 0.81
4 15 0.10
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:106108034 original size:42 final size:42
Alignment explanation
Indices: 106107988--106108134 Score: 201
Period size: 42 Copynumber: 3.5 Consensus size: 42
106107978 AATTAAAAAG
106107988 ATAATGATAATAATAAATAATAGTAAAAAAATAATAGTAATA
1 ATAATGATAATAATAAATAATAGTAAAAAAATAATAGTAATA
106108030 ATAATGATAATAA-ATAATAATAGTAAAAAAATAATAGTAATA
1 ATAATGATAATAATA-AATAATAGTAAAAAAATAATAGTAATA
* * * * **
106108072 ATAATAATGATAATGAATAATAATAGTAAAA-AATAGTAATA
1 ATAATGATAATAATAAATAATAGTAAAAAAATAATAGTAATA
*
106108113 ATAATGATAAAAAT-AATAATAG
1 ATAATGATAATAATAAATAATAG
106108135 CAATAATAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
40 7 0.08
41 22 0.24
42 64 0.69
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (42 bp):
ATAATGATAATAATAAATAATAGTAAAAAAATAATAGTAATA
Found at i:106108855 original size:13 final size:13
Alignment explanation
Indices: 106108830--106108863 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
106108820 ATGTAGTTTC
106108830 AAAGAAGAAAAATA
1 AAAGAA-AAAAATA
106108844 AAAGAAAAAAATA
1 AAAGAAAAAAATA
106108857 AAA-AAAA
1 AAAGAAAA
106108864 GATGTTAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 10 0.50
14 6 0.30
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (13 bp):
AAAGAAAAAAATA
Found at i:106109194 original size:20 final size:20
Alignment explanation
Indices: 106109169--106109208 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
106109159 CTGTGAAGGC
106109169 ACGTGGGCAGCGGCGCAGGA
1 ACGTGGGCAGCGGCGCAGGA
*
106109189 ACGTGGGCAGCGGCGTAGGA
1 ACGTGGGCAGCGGCGCAGGA
106109209 GGGGCTAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.50, T:0.07
Consensus pattern (20 bp):
ACGTGGGCAGCGGCGCAGGA
Found at i:106109698 original size:42 final size:42
Alignment explanation
Indices: 106109629--106109760 Score: 147
Period size: 42 Copynumber: 3.1 Consensus size: 42
106109619 TAGCTTTCAA
* * * * *
106109629 GAGCTTCTGTTCAACTCATATGAGTTTCCGTTCAGCTCTTTT
1 GAGCTTCTATTCAACCCTTATGGGTTTCCGTTCAGCTCTTAT
**
106109671 GAGCTTCTATTTTACCCTTATGGGTTTCCGTTCAGCTCTTAT
1 GAGCTTCTATTCAACCCTTATGGGTTTCCGTTCAGCTCTTAT
* * * * *
106109713 GAGCTTCTGTTCAACCTTTATGGGTTTCTGTTTAGCACTTAT
1 GAGCTTCTATTCAACCCTTATGGGTTTCCGTTCAGCTCTTAT
*
106109755 GTGCTT
1 GAGCTT
106109761 TTGTTTAGCC
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (42 bp):
GAGCTTCTATTCAACCCTTATGGGTTTCCGTTCAGCTCTTAT
Found at i:106109713 original size:21 final size:20
Alignment explanation
Indices: 106109686--106109755 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
106109676 TCTATTTTAC
*
106109686 CCTTATGGGTTTCCGTTCAG
1 CCTTATGGGTTTCTGTTCAG
* * *
106109706 CTCTTATGAGCTTCTGTTCAA
1 C-CTTATGGGTTTCTGTTCAG
*
106109727 CCTTTATGGGTTTCTGTTTAG
1 CC-TTATGGGTTTCTGTTCAG
106109748 CACTTATG
1 C-CTTATG
106109756 TGCTTTTGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
20 2 0.05
21 36 0.92
22 1 0.03
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.44
Consensus pattern (20 bp):
CCTTATGGGTTTCTGTTCAG
Found at i:106113851 original size:26 final size:22
Alignment explanation
Indices: 106113811--106113866 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 22
106113801 ATAAAGTACA
106113811 AAATATTAAAATTATGAATAATAATT
1 AAATA-TAAAATTAT-AA-AAT-ATT
*
106113837 AAATATAAAATTTATAAAATGTT
1 AAATATAAAA-TTATAAAATATT
106113860 AAATATA
1 AAATATA
106113867 TTTGGGAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 9 0.32
24 3 0.11
25 7 0.25
26 9 0.32
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAATATAAAATTATAAAATATT
Found at i:106118246 original size:19 final size:20
Alignment explanation
Indices: 106118203--106118248 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
106118193 TAAATATCAC
*
106118203 ATTTTAT-TTTTATATAATA
1 ATTTTATATTTCATATAATA
*
106118222 AATTTATATTTCATATAA-A
1 ATTTTATATTTCATATAATA
106118241 ATTTTATA
1 ATTTTATA
106118249 AATGATACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTATATTTCATATAATA
Found at i:106118712 original size:25 final size:27
Alignment explanation
Indices: 106118664--106118716 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
106118654 TTAAATATTT
106118664 TTTTTAAAAATAAGTTCACCTAATTTTA
1 TTTTTAAAAATAAGTTCA-CTAATTTTA
*
106118692 TTTTTAAAAATATG-TCA-TAATTTTA
1 TTTTTAAAAATAAGTTCACTAATTTTA
106118717 CTTATTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 8 0.33
27 3 0.12
28 13 0.54
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.49
Consensus pattern (27 bp):
TTTTTAAAAATAAGTTCACTAATTTTA
Found at i:106126158 original size:20 final size:20
Alignment explanation
Indices: 106126135--106126174 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
106126125 TACTCAAACA
* *
106126135 ATATTACTTGAATAGTTATG
1 ATATTACATGAATAATTATG
*
106126155 ATATTAGATGAATAATTATG
1 ATATTACATGAATAATTATG
106126175 TCTATTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (20 bp):
ATATTACATGAATAATTATG
Found at i:106128397 original size:4 final size:4
Alignment explanation
Indices: 106128388--106128420 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
106128378 AGCAAACGTG
106128388 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
106128421 TAGAAAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:106130691 original size:34 final size:36
Alignment explanation
Indices: 106130615--106130693 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
106130605 GCACTAAACA
* * *
106130615 AATTAGAAAACAATGAAAACAAGGAGATATTAAATC
1 AATTTGAAAACAATGAAAACAAGAAGATATGAAATC
* *
106130651 AATTTGAAAACAATGAAAGCAAGAAGA-A-GCAATC
1 AATTTGAAAACAATGAAAACAAGAAGATATGAAATC
*
106130685 AGTTTGAAA
1 AATTTGAAA
106130694 GATCTTCTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
34 12 0.32
35 1 0.03
36 24 0.65
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.19
Consensus pattern (36 bp):
AATTTGAAAACAATGAAAACAAGAAGATATGAAATC
Found at i:106133612 original size:9 final size:9
Alignment explanation
Indices: 106133598--106133747 Score: 89
Period size: 9 Copynumber: 16.6 Consensus size: 9
106133588 ACTATATATT
106133598 TTTTTATAA
1 TTTTTATAA
*
106133607 TTTTTATGA
1 TTTTTATAA
106133616 TTTTTATAA
1 TTTTTATAA
106133625 TTTTTATATA
1 TTTTTATA-A
* *
106133635 TTTTTTTTTA
1 -TTTTTATAA
*
106133645 TTTTTATGAT
1 TTTTTAT-AA
*
106133655 TTTCTTATCA
1 TTT-TTATAA
106133665 TTTTTA-AA
1 TTTTTATAA
* *
106133673 TAATCTATAA
1 T-TTTTATAA
106133683 TTTCTTA-AA
1 TTT-TTATAA
106133692 -TTTT-TAA
1 TTTTTATAA
*
106133699 TTATTAT--
1 TTTTTATAA
106133706 TTTTT-TAA
1 TTTTTATAA
106133714 TTATTTATAA
1 TT-TTTATAA
*
106133724 TTTTCAATAA
1 TTTT-TATAA
*
106133734 CTTTTATAA
1 TTTTTATAA
106133743 TTTTT
1 TTTTT
106133748 TTTAAAAATT
Statistics
Matches: 106, Mismatches: 20, Indels: 30
0.68 0.13 0.19
Matches are distributed among these distances:
6 1 0.01
7 8 0.08
8 9 0.08
9 53 0.50
10 25 0.24
11 10 0.09
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:106133620 original size:20 final size:20
Alignment explanation
Indices: 106133595--106133670 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
106133585 ACAACTATAT
106133595 ATTTTTTTATAATTTTTATG
1 ATTTTTTTATAATTTTTATG
106133615 A--TTTTTATAATTTTTAT-
1 ATTTTTTTATAATTTTTATG
* *
106133632 ATATTTTTTTTTATTTTTATG
1 AT-TTTTTTATAATTTTTATG
* *
106133653 ATTTTCTTATCATTTTTA
1 ATTTTTTTATAATTTTTA
106133671 AATAATCTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
17 1 0.02
18 16 0.34
20 28 0.60
21 2 0.04
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
ATTTTTTTATAATTTTTATG
Found at i:106133627 original size:29 final size:29
Alignment explanation
Indices: 106133590--106133670 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
106133580 AATTCACAAC
106133590 TATATATTTTTTTATAATTTTTATGATTTT
1 TATA-ATTTTTTTATAATTTTTATGATTTT
* * * *
106133620 TATAATTTTTATATATTTTTTTTTATTTT
1 TATAATTTTTTTATAATTTTTATGATTTT
* * *
106133649 TATGATTTTCTTATCATTTTTA
1 TATAATTTTTTTATAATTTTTA
106133671 AATAATCTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 37 0.90
30 4 0.10
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (29 bp):
TATAATTTTTTTATAATTTTTATGATTTT
Found at i:106143685 original size:36 final size:36
Alignment explanation
Indices: 106143605--106143717 Score: 93
Period size: 36 Copynumber: 3.0 Consensus size: 36
106143595 GAATGTGGCA
* * *
106143605 AAAAATTATAAAAAAAAATAAAAGTTATTAAATTTTAATA-
1 AAAAATTATAAAAAAATATAAAAATCA-TAAA----AATAT
*
106143645 AAAAATTATAAAAAAATATCAAAATCATAAAAATAT
1 AAAAATTATAAAAAAATATAAAAATCATAAAAATAT
* ****
106143681 AAAAATTGTAAATTTTTATAAAAATCATAAAAATAT
1 AAAAATTATAAAAAAATATAAAAATCATAAAAATAT
106143717 A
1 A
106143718 TATAAAATGC
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
35 4 0.06
36 31 0.50
39 4 0.06
40 23 0.37
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (36 bp):
AAAAATTATAAAAAAATATAAAAATCATAAAAATAT
Found at i:106143692 original size:17 final size:17
Alignment explanation
Indices: 106143656--106143717 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
106143646 AAAATTATAA
*
106143656 AAAAATATCAAAATCAT
1 AAAAATATAAAAATCAT
**
106143673 AAAAATATAAAAATTGT
1 AAAAATATAAAAATCAT
**
106143690 AAATTTTTATAAAAATCAT
1 AAA--AATATAAAAATCAT
106143709 AAAAATATA
1 AAAAATATA
106143718 TATAAAATGC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
17 21 0.62
19 13 0.38
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAAATATAAAAATCAT
Found at i:106143719 original size:19 final size:19
Alignment explanation
Indices: 106143645--106143735 Score: 69
Period size: 19 Copynumber: 4.8 Consensus size: 19
106143635 AATTTTAATA
* *
106143645 AAAAATTATAAAAAAATAT
1 AAAAATCATAAAAATATAT
*
106143664 CAAAATCAT-AAAA-ATAT
1 AAAAATCATAAAAATATAT
** ** *
106143681 AAAAATTGTAAATTTTTAT
1 AAAAATCATAAAAATATAT
106143700 AAAAATCATAAAAATATAT
1 AAAAATCATAAAAATATAT
*
106143719 ATAAAATGCATCAAAAT
1 A-AAAAT-CATAAAAAT
106143736 TTTCATTTAA
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
17 10 0.19
18 6 0.11
19 25 0.46
20 5 0.09
21 8 0.15
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAATCATAAAAATATAT
Found at i:106144032 original size:30 final size:30
Alignment explanation
Indices: 106143942--106144034 Score: 104
Period size: 30 Copynumber: 3.1 Consensus size: 30
106143932 TCTTTACATT
*
106143942 TTTTATAATTTTCTTAC-AATTTTATAAAA
1 TTTTATAATTTTTTTACAAATTTTATAAAA
* *
106143971 --TTATAATTTTTTTTCCTATATTTCTAT-AAA
1 TTTTATAA-TTTTTTTAC-AAATTT-TATAAAA
106144001 TTTTATAATTTTTTTACAAATTTTATAAAA
1 TTTTATAATTTTTTTACAAATTTTATAAAA
106144031 TTTT
1 TTTT
106144035 GCATTTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
27 6 0.12
28 7 0.13
29 3 0.06
30 19 0.37
31 11 0.21
32 6 0.12
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTTATAATTTTTTTACAAATTTTATAAAA
Found at i:106144043 original size:30 final size:29
Alignment explanation
Indices: 106143950--106144044 Score: 86
Period size: 30 Copynumber: 3.2 Consensus size: 29
106143940 TTTTTTATAA
* *
106143950 TTTTCTTAC-AATTTTATAAAATTATAAT
1 TTTTTTTACAAATTTTATAAAATTTTAAT
* * *
106143978 TTTTTTTCCTATATTTCTAT-AAATTTTATAA
1 TTTTTTTAC-AAATTT-TATAAAATTTTA-AT
*
106144009 TTTTTTTACAAATTTTATAAAATTTTGCAT
1 TTTTTTTACAAATTTTATAAAATTTT-AAT
106144039 TTTTTT
1 TTTTTT
106144045 ATAATTTTTA
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
28 7 0.13
29 3 0.06
30 30 0.58
31 12 0.23
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTTTTTACAAATTTTATAAAATTTTAAT
Found at i:106148147 original size:26 final size:26
Alignment explanation
Indices: 106148110--106148166 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
106148100 TTCAACCTTC
106148110 AAATTTCACCATAAACCCTAATTTTA
1 AAATTTCACCATAAACCCTAATTTTA
*
106148136 AAATTTCGCCATAAACCCTAATTTTA
1 AAATTTCACCATAAACCCTAATTTTA
106148162 AAATT
1 AAATT
106148167 CTCTCAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (26 bp):
AAATTTCACCATAAACCCTAATTTTA
Found at i:106150429 original size:15 final size:15
Alignment explanation
Indices: 106150409--106150440 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
106150399 AGTAAAAGTT
106150409 AAGTGTGGTTTTAGA
1 AAGTGTGGTTTTAGA
106150424 AAGTGTGGTTTTAGA
1 AAGTGTGGTTTTAGA
106150439 AA
1 AA
106150441 TAATTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
AAGTGTGGTTTTAGA
Found at i:106154105 original size:16 final size:17
Alignment explanation
Indices: 106154084--106154125 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
106154074 CAGCACAGAG
106154084 AAAAAAAACAAA-GCAA
1 AAAAAAAACAAATGCAA
* *
106154100 AAAAAAATCAAATTGTAA
1 AAAAAAAACAAA-TGCAA
106154118 AAAAAAAA
1 AAAAAAAA
106154126 TAGCTATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.79, C:0.07, G:0.05, T:0.10
Consensus pattern (17 bp):
AAAAAAAACAAATGCAA
Found at i:106155351 original size:15 final size:17
Alignment explanation
Indices: 106155331--106155362 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
106155321 TACATATATT
106155331 ATTA-TTAT-TATTTTA
1 ATTATTTATATATTTTA
106155346 ATTATTTATATATTTTA
1 ATTATTTATATATTTTA
106155363 TTCCAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTATTTATATATTTTA
Found at i:106159175 original size:31 final size:31
Alignment explanation
Indices: 106159136--106159201 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
106159126 TAAACCAAAA
* *
106159136 TTTT-CAAAATCACTTTTGAAAAATGTATTT
1 TTTTACAAAATCACTTTTGAAAAAAGCATTT
*
106159166 TTTTACAAAATCACTTTTTAAAAAAGCATTT
1 TTTTACAAAATCACTTTTGAAAAAAGCATTT
106159197 TTTTA
1 TTTTA
106159202 ACAATAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 4 0.12
31 28 0.88
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.47
Consensus pattern (31 bp):
TTTTACAAAATCACTTTTGAAAAAAGCATTT
Found at i:106165282 original size:37 final size:37
Alignment explanation
Indices: 106165234--106165309 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
106165224 CTTAAATAGC
106165234 AATTAATCTAAGAGTATGTTAGCAATTAAGCCATTTT
1 AATTAATCTAAGAGTATGTTAGCAATTAAGCCATTTT
106165271 AATTAATCTAAGAGTATGTTAGCAATTAAGCCATTTT
1 AATTAATCTAAGAGTATGTTAGCAATTAAGCCATTTT
106165308 AA
1 AA
106165310 GTCATAATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (37 bp):
AATTAATCTAAGAGTATGTTAGCAATTAAGCCATTTT
Found at i:106169334 original size:27 final size:28
Alignment explanation
Indices: 106169250--106169347 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
106169240 CATGAGATTG
* * * *
106169250 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
106169279 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
106169307 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
106169334 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
106169348 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:106169358 original size:27 final size:27
Alignment explanation
Indices: 106169278--106169360 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
106169268 TAAATTGTAC
* *
106169278 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
106169306 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
106169333 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
106169360 A
1 A
106169361 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:106169361 original size:29 final size:27
Alignment explanation
Indices: 106169250--106169361 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
106169240 CATGAGATTG
** * *
106169250 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
106169279 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
106169307 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
106169334 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
106169362 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:106177427 original size:27 final size:28
Alignment explanation
Indices: 106177343--106177440 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
106177333 CATGAGATTG
* * * *
106177343 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
106177372 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
106177400 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
106177427 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
106177441 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:106177451 original size:27 final size:27
Alignment explanation
Indices: 106177371--106177453 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
106177361 TAAATTGTAC
* *
106177371 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
106177399 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
106177426 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
106177453 A
1 A
106177454 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:106177454 original size:29 final size:27
Alignment explanation
Indices: 106177343--106177454 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
106177333 CATGAGATTG
** * *
106177343 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
106177372 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
106177400 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
106177427 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
106177455 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:106185142 original size:26 final size:26
Alignment explanation
Indices: 106185112--106185167 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
106185102 TGAAATTCCC
*
106185112 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
106185138 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
106185164 ATCA
1 ATCA
106185168 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:106189223 original size:21 final size:21
Alignment explanation
Indices: 106189198--106189262 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
106189188 TAGCCTTCAG
106189198 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
106189219 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
106189237 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
106189258 GCTTC
1 GCTTC
106189263 AGCTAGACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 8 0.23
21 12 0.34
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:106189228 original size:39 final size:39
Alignment explanation
Indices: 106189180--106189280 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
106189170 GCTCTGATGA
* *
106189180 GCTTTAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
106189219 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
106189258 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
106189281 AGATCATGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:106189995 original size:25 final size:25
Alignment explanation
Indices: 106189949--106189996 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
106189939 GAAAAATTAT
*
106189949 AAAATAATAATAAATAATATTAAGA
1 AAAATAATAATAAATAAAATTAAGA
*
106189974 AAAATAA-CATAAACTAAAATTAA
1 AAAATAATAATAAA-TAAAATTAA
106189997 AATGACTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (25 bp):
AAAATAATAATAAATAAAATTAAGA
Found at i:106200976 original size:15 final size:13
Alignment explanation
Indices: 106200947--106200973 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
106200937 AATTATATTC
106200947 TACAATATGTTTT
1 TACAATATGTTTT
106200960 TACAATATGTTTT
1 TACAATATGTTTT
106200973 T
1 T
106200974 TTATATCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TACAATATGTTTT
Found at i:106201203 original size:12 final size:12
Alignment explanation
Indices: 106201179--106201210 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
106201169 GCTTATTTGA
106201179 ATAAAATAAATTC
1 ATAAAA-AAATTC
106201192 ATAAAAAAATTC
1 ATAAAAAAATTC
106201204 ATAAAAA
1 ATAAAAA
106201211 TGATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (12 bp):
ATAAAAAAATTC
Found at i:106204305 original size:38 final size:38
Alignment explanation
Indices: 106204263--106204406 Score: 108
Period size: 38 Copynumber: 3.8 Consensus size: 38
106204253 ACATCGGCAC
*
106204263 AAGCCTGCAATGTACAAAGCCTAAATAACACCGACACA
1 AAGCCTGCAAGGTACAAAGCCTAAATAACACCGACACA
* ** * * * *
106204301 AAGCCTGCTAGGTGTAAAGCCTGAATAATACTGTCACA
1 AAGCCTGCAAGGTACAAAGCCTAAATAACACCGACACA
* * * ** * *
106204339 AAGCCTGCTAGGCACAGAGCCCGAATAACACCTACACG
1 AAGCCTGCAAGGTACAAAGCCTAAATAACACCGACACA
* * * **
106204377 AAGCTTGCTAGGCACAAAGCCCGAATAACA
1 AAGCCTGCAAGGTACAAAGCCTAAATAACA
106204407 TTATGTTTCT
Statistics
Matches: 86, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 86 1.00
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.15
Consensus pattern (38 bp):
AAGCCTGCAAGGTACAAAGCCTAAATAACACCGACACA
Found at i:106210802 original size:22 final size:23
Alignment explanation
Indices: 106210746--106210788 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
106210736 GCAATCTTAG
*
106210746 ATATGA-TATGTAATCATAGAAT
1 ATATGATTCTGTAATCATAGAAT
*
106210768 ATATGATTCTGTAATCTTAGA
1 ATATGATTCTGTAATCATAGA
106210789 GATTTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (23 bp):
ATATGATTCTGTAATCATAGAAT
Found at i:106211572 original size:29 final size:31
Alignment explanation
Indices: 106211510--106211580 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 31
106211500 AAATTTATAT
*
106211510 ATGAACTTTGATCTGATGTGCAATTTGACGC
1 ATGAACTTTGATCTGATGTGCAATTTGACAC
*
106211541 ATGAACTTTGAT-TTA-GTGCAATTAT-ACAC
1 ATGAACTTTGATCTGATGTGCAATT-TGACAC
106211570 ATGGAACTTTG
1 AT-GAACTTTG
106211581 GTTGTGGTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 13 0.36
30 11 0.31
31 12 0.33
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37
Consensus pattern (31 bp):
ATGAACTTTGATCTGATGTGCAATTTGACAC
Found at i:106218268 original size:18 final size:18
Alignment explanation
Indices: 106218245--106218327 Score: 70
Period size: 18 Copynumber: 4.8 Consensus size: 18
106218235 CCCTGGCCTG
106218245 TTGATTATATAATTTAAA
1 TTGATTATATAATTTAAA
*
106218263 TTGATTATATAATTAAAAA
1 TTGATTATATAATT-TAAA
106218282 TT-ATTATCAT--TTT--A
1 TTGATTAT-ATAATTTAAA
* *
106218296 TCT-AATAAATAATTTAAA
1 T-TGATTATATAATTTAAA
106218314 TTGATTATATAATT
1 TTGATTATATAATT
106218328 CATTAAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
14 4 0.08
15 4 0.08
16 3 0.06
17 3 0.06
18 30 0.59
19 7 0.14
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (18 bp):
TTGATTATATAATTTAAA
Found at i:106220166 original size:3 final size:3
Alignment explanation
Indices: 106220158--106220210 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
106220148 ATGTAAAAGA
106220158 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
106220206 AAT AA
1 AAT AA
106220211 CAACAATTGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:106228824 original size:77 final size:74
Alignment explanation
Indices: 106228684--106228826 Score: 173
Period size: 77 Copynumber: 1.9 Consensus size: 74
106228674 TTTCAGTGAA
* * * *
106228684 AAGACCATAATTGGGTTATGGCATCGTGAATGCAAGACCATGATTGGACCATGGCAGTATATGTG
1 AAGACCATAATTGGGCTATGGCATCGTGAATGCAAGACCATGATAGGACCATGACAATATATGTG
106228749 TGTGCGTGT
66 TGTGCGTGT
* *
106228758 AAGACCATAGA-TGGGCTATGGCATCGTAATAAGTGCAAGACCATGACTAGG-CTATGACAATAT
1 AAGACCATA-ATTGGGCTATGGCATCGT--GAA-TGCAAGACCATGA-TAGGACCATGACAATAT
106228821 ATGTGT
61 ATGTGT
106228827 AAAACCATAG
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
74 24 0.41
75 1 0.02
76 2 0.03
77 28 0.48
78 3 0.05
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (74 bp):
AAGACCATAATTGGGCTATGGCATCGTGAATGCAAGACCATGATAGGACCATGACAATATATGTG
TGTGCGTGT
Found at i:106231457 original size:5 final size:5
Alignment explanation
Indices: 106231447--106231485 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
106231437 TGGTGTGTAA
*
106231447 AAAAT AAAAT AAAAGA AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAA
106231486 GAACACACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:106231467 original size:16 final size:15
Alignment explanation
Indices: 106231445--106231485 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
106231435 GATGGTGTGT
106231445 AAAAAATAAAATAAA
1 AAAAAATAAAATAAA
106231460 AGAAAAATAAAATAAA
1 A-AAAAATAAAATAAA
*
106231476 ATAAAATAAA
1 AAAAAATAAA
106231486 GAACACACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (15 bp):
AAAAAATAAAATAAA
Found at i:106237491 original size:14 final size:14
Alignment explanation
Indices: 106237462--106237503 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
106237452 TTTTATGAGC
*
106237462 ACAAAAAAGAATAGA
1 ACAAAAAACAA-AGA
*
106237477 ACAAAAAATAAAGA
1 ACAAAAAACAAAGA
106237491 ACAAAAAACAAAG
1 ACAAAAAACAAAG
106237504 GGTAAATGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.76, C:0.10, G:0.10, T:0.05
Consensus pattern (14 bp):
ACAAAAAACAAAGA
Found at i:106239197 original size:26 final size:28
Alignment explanation
Indices: 106239142--106239201 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
106239132 TCATTATTTT
*
106239142 ATATTAATTTTTTTGTTTTTTTAAATAAA
1 ATATTAATTTTTTTATTTTTTT-AATAAA
106239171 ATATT-ATTTTTTTATTTTTATT-A-AAA
1 ATATTAATTTTTTTATTTTT-TTAATAAA
106239197 ATATT
1 ATATT
106239202 TAAATATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 8 0.28
27 1 0.03
28 13 0.45
29 7 0.24
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (28 bp):
ATATTAATTTTTTTATTTTTTTAATAAA
Found at i:106239732 original size:33 final size:32
Alignment explanation
Indices: 106239689--106239796 Score: 82
Period size: 33 Copynumber: 3.4 Consensus size: 32
106239679 GTTTTTTATA
*
106239689 ATTATTTTAAAAATAATTTGTTAGTAATTTAGG
1 ATTATGTTAAAAATAATTT-TTAGTAATTTAGG
* * *
106239722 ATTATGTT-AAAAT--TTTTTTGT-GTTT-GTA
1 ATTATGTTAAAAATAATTTTTAGTAATTTAG-G
* *
106239750 ATTATTTTAAAATTAATTTATTAGTAATTTAGG
1 ATTATGTTAAAAATAATTT-TTAGTAATTTAGG
* *
106239783 ATTAAGTTATAAAT
1 ATTATGTTAAAAAT
106239797 TGTTGTGTTT
Statistics
Matches: 55, Mismatches: 13, Indels: 14
0.67 0.16 0.17
Matches are distributed among these distances:
27 1 0.02
28 10 0.18
29 8 0.15
30 3 0.05
31 3 0.05
32 9 0.16
33 20 0.36
34 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (32 bp):
ATTATGTTAAAAATAATTTTTAGTAATTTAGG
Found at i:106239767 original size:61 final size:62
Alignment explanation
Indices: 106239667--106239797 Score: 192
Period size: 61 Copynumber: 2.1 Consensus size: 62
106239657 TGTATGAATG
* * * *
106239667 TAAATTTTTTTTGTTTTTTATAATTATTTTAAAAATAATTTGTTAGTAATTTAGGATTATGT
1 TAAAATTTTTTTGTTGTTTATAATTATTTTAAAAATAATTTATTAGTAATTTAGGATTAAGT
* *
106239729 TAAAATTTTTTTG-TGTTTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGT
1 TAAAATTTTTTTGTTGTTTATAATTATTTTAAAAATAATTTATTAGTAATTTAGGATTAAGT
106239790 TATAAATT
1 TA-AAATT
106239798 GTTGTGTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
61 45 0.73
62 17 0.27
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (62 bp):
TAAAATTTTTTTGTTGTTTATAATTATTTTAAAAATAATTTATTAGTAATTTAGGATTAAGT
Found at i:106241003 original size:213 final size:209
Alignment explanation
Indices: 106240597--106241066 Score: 760
Period size: 213 Copynumber: 2.2 Consensus size: 209
106240587 GTTTTTAAAA
* *** * *
106240597 AATATTTTAATTTAATTTTAATAATGCATATTTTATCCGGATGAAGTATGTATTAGCAGATTCAG
1 AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACACATTAGCAAATTCAC
*
106240662 TAATATGATTATATATATATATTTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTA
66 TAATATGATTATATATATATATTTAAGCATGTATCACATTACAAAAACAAAATTTTAAATACTTA
*
106240727 TACTAATAAAACATGTATCTCATTACAATAATTGTTATTTCCCAAATAACATATTACTTTATAAT
131 TACTAATAAAACATGTATCTCATTACAATAATAGTTATTTCCCAAATAACATATTACTTTATAAT
106240792 TTTATTTCTTATTT
196 TTTATTTCTTATTT
* *
106240806 AATATTTTAATTTAATTTTAATAATGTAAACTTTATCCGGATGAAGTACACATTAGCAAATTCAC
1 AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACACATTAGCAAATTCAC
* *
106240871 TAATATGATTATATATATATATATATTAAGCATGTATCACATTACAAAAACAAATTTTTAGATAC
66 TAATATGA-T-TATATATATATAT-TTAAGCATGTATCACATTACAAAAACAAAATTTTAAATAC
* **
106240936 TTATACCTAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTA
128 TTATA-CTAATAAAACATGTATCTCATTACAATAATAGTTATTTCCCAAATAACATATTACTTTA
106241001 TAATTTTATTTCTTATTT
192 TAATTTTATTTCTTATTT
*
106241019 AATATTTTAATTTAATTTTAATAATGCATACTTTATCTGGATGAAGTA
1 AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTA
106241067 TGTATTATTA
Statistics
Matches: 239, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
209 65 0.27
210 1 0.00
211 13 0.05
212 42 0.18
213 118 0.49
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.43
Consensus pattern (209 bp):
AATATTTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACACATTAGCAAATTCAC
TAATATGATTATATATATATATTTAAGCATGTATCACATTACAAAAACAAAATTTTAAATACTTA
TACTAATAAAACATGTATCTCATTACAATAATAGTTATTTCCCAAATAACATATTACTTTATAAT
TTTATTTCTTATTT
Found at i:106243350 original size:33 final size:33
Alignment explanation
Indices: 106243321--106243397 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
106243311 TAGTACTCTG
* *
106243321 CTCCTTCCGGCCCGTATCCACCGCCGTACTCCA
1 CTCCTCCCGGCCCGTATCAACCGCCGTACTCCA
* *
106243354 CTCCTCCCGGTCCGTATCAATCGCCGTACTCCA
1 CTCCTCCCGGCCCGTATCAACCGCCGTACTCCA
*
106243387 TTCCTCCCGGC
1 CTCCTCCCGGC
106243398 TCAAGTTCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.12, C:0.49, G:0.16, T:0.23
Consensus pattern (33 bp):
CTCCTCCCGGCCCGTATCAACCGCCGTACTCCA
Found at i:106258065 original size:11 final size:11
Alignment explanation
Indices: 106258048--106258168 Score: 65
Period size: 11 Copynumber: 10.9 Consensus size: 11
106258038 TTTTTGCTAC
106258048 TATT-TTTT-T
1 TATTATTTTAT
*
106258057 TATTATTTTCT
1 TATTATTTTAT
*
106258068 CATTATTTTAT
1 TATTATTTTAT
*
106258079 TATCATTTTAT
1 TATTATTTTAT
106258090 TATTATATTGCTAT
1 TATTAT-TT--TAT
*
106258104 TATT-TTGTTGT
1 TATTATT-TTAT
*
106258115 TATTATTTGGAT
1 TATTATTT-TAT
* *
106258127 AATGTA--TAAT
1 TAT-TATTTTAT
*
106258137 TGTTATTTTA-
1 TATTATTTTAT
106258147 TATTAATTTTAT
1 TATT-ATTTTAT
106258159 TATTATTTTA
1 TATTATTTTA
106258169 GAGTCATTTG
Statistics
Matches: 85, Mismatches: 14, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
9 6 0.07
10 10 0.12
11 46 0.54
12 12 0.14
13 4 0.05
14 7 0.08
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:106261671 original size:25 final size:25
Alignment explanation
Indices: 106261565--106261669 Score: 140
Period size: 25 Copynumber: 4.2 Consensus size: 25
106261555 AGGCTATCCC
106261565 GAAAATTAGCCACTAAGGCTTTTTA
1 GAAAATTAGCCACTAAGGCTTTTTA
* * *
106261590 GAAAATTTGCCATTAAGACTTTTTA
1 GAAAATTAGCCACTAAGGCTTTTTA
*
106261615 GAAGATTAGCCACTAAGG-TTTTCTA
1 GAAAATTAGCCACTAAGGCTTTT-TA
* *
106261640 GAAAACTAGCGACTAAGGCTTTTTA
1 GAAAATTAGCCACTAAGGCTTTTTA
106261665 GAAAA
1 GAAAA
106261670 CTTACAGATT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
24 4 0.06
25 60 0.88
26 4 0.06
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (25 bp):
GAAAATTAGCCACTAAGGCTTTTTA
Found at i:106263653 original size:24 final size:24
Alignment explanation
Indices: 106263603--106263656 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
106263593 AATCAAATTT
*
106263603 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
106263627 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
106263651 GCACAC
1 GCACAC
106263657 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:106270570 original size:22 final size:19
Alignment explanation
Indices: 106270524--106270567 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
106270514 TAAAATTAAT
*
106270524 AATTAATAATAAAGCTCAA
1 AATTAATAATAAAACTCAA
106270543 AATTAATAATAAAACACTCAA
1 AATTAATAAT-AAA-ACTCAA
106270564 AATT
1 AATT
106270568 TAAAAAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
20 3 0.14
21 9 0.41
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.27
Consensus pattern (19 bp):
AATTAATAATAAAACTCAA
Found at i:106273600 original size:23 final size:24
Alignment explanation
Indices: 106273553--106273604 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
106273543 TTGTGACAAT
106273553 TACATAATAATCCAAGAAACATAC
1 TACATAATAATCCAAGAAACATAC
106273577 TACATAATAATCCAAG-AACATAC
1 TACATAATAATCCAAGAAACATAC
106273600 T-CATA
1 TACATA
106273605 GCGGGTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 4 0.14
23 8 0.29
24 16 0.57
ACGTcount: A:0.52, C:0.21, G:0.04, T:0.23
Consensus pattern (24 bp):
TACATAATAATCCAAGAAACATAC
Found at i:106280634 original size:15 final size:16
Alignment explanation
Indices: 106280614--106280643 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
106280604 ACGTAACATT
106280614 TAAAATATAA-ATAAC
1 TAAAATATAATATAAC
106280629 TAAAATATAATATAA
1 TAAAATATAATATAA
106280644 GACAAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAAATATAATATAAC
Found at i:106288578 original size:30 final size:30
Alignment explanation
Indices: 106288505--106288591 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
106288495 CTAGGTGAAT
* *
106288505 AAGTTGCTTACACAAGCTAGCATTATATTA
1 AAGTTGCTTACACAAGCTAACATTATATCA
** * *
106288535 GGGTTGCTCACACAAGCTAACATTTTATCA
1 AAGTTGCTTACACAAGCTAACATTATATCA
* *
106288565 AAGTTTCTTACACAAGCTGAC-TTATAT
1 AAGTTGCTTACACAAGCTAACATTATAT
106288592 TAGGTTACTT
Statistics
Matches: 45, Mismatches: 12, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
29 5 0.11
30 40 0.89
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (30 bp):
AAGTTGCTTACACAAGCTAACATTATATCA
Found at i:106295830 original size:17 final size:17
Alignment explanation
Indices: 106295803--106295850 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
106295793 AATAATGTAA
*
106295803 AAATATGAAATTGAA-G
1 AAATATCAAATTGAATG
106295819 AAATGATCAAATTGAATG
1 AAAT-ATCAAATTGAATG
*
106295837 AAATATCAGATTGA
1 AAATATCAAATTGA
106295851 GTACTTCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 4 0.14
17 19 0.68
18 5 0.18
ACGTcount: A:0.52, C:0.04, G:0.17, T:0.27
Consensus pattern (17 bp):
AAATATCAAATTGAATG
Found at i:106295993 original size:54 final size:53
Alignment explanation
Indices: 106295914--106296121 Score: 226
Period size: 54 Copynumber: 3.9 Consensus size: 53
106295904 CTATGGCAAC
106295914 AAGTGATAAGCGATAT-TCGTATAAGACCATAGCTAGGCTATGGCATCGGAAAA
1 AAGTGATAAGCGAT-TCTCGTATAAGACCATAGCTAGGCTATGGCATCGGAAAA
* * * * **
106295967 CAAGTGATAAGTGATTCTCGTATAAGACCATAACTAGGTTATGGCTTCGGATTA
1 -AAGTGATAAGCGATTCTCGTATAAGACCATAGCTAGGCTATGGCATCGGAAAA
*
106296021 AAGTGATACAAGCGA-TC-CGTATAAGACCATAGCTAGGCTATGGCATCGGAGAA
1 AAGTGAT--AAGCGATTCTCGTATAAGACCATAGCTAGGCTATGGCATCGGAAAA
* * * * * * *
106296074 AAGTGATAAGTGTTTCT-GTGTAAGATCATATCCAGGATATGGCATCGG
1 AAGTGATAAGCGATTCTCGTATAAGACCATAGCTAGGCTATGGCATCGG
106296122 TATGATATAT
Statistics
Matches: 130, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
51 4 0.03
52 28 0.22
53 46 0.35
54 47 0.36
55 5 0.04
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (53 bp):
AAGTGATAAGCGATTCTCGTATAAGACCATAGCTAGGCTATGGCATCGGAAAA
Found at i:106296119 original size:52 final size:51
Alignment explanation
Indices: 106295932--106296121 Score: 182
Period size: 53 Copynumber: 3.6 Consensus size: 51
106295922 AGCGATATTC
* *
106295932 GTATAAGACCATAGCTAGGCTATGGCATCGGAAAACAAGTGATAAGTGATTCT
1 GTATAAGACCATAACTAGGATATGGCATCGGAAAA-AAGTGATAAGTG-TTCT
* * ** * * *
106295985 CGTATAAGACCATAACTAGGTTATGGCTTCGGATTAAAGTGATACAAGCGATCC
1 -GTATAAGACCATAACTAGGATATGGCATCGGAAAAAAGTGAT--AAGTGTTCT
* * *
106296039 GTATAAGACCATAGCTAGGCTATGGCATCGGAGAAAAGTGATAAGTGTTTCT
1 GTATAAGACCATAACTAGGATATGGCATCGGAAAAAAGTGATAAGTG-TTCT
* * * *
106296091 GTGTAAGATCATATCCAGGATATGGCATCGG
1 GTATAAGACCATAACTAGGATATGGCATCGG
106296122 TATGATATAT
Statistics
Matches: 112, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
51 4 0.04
52 28 0.25
53 44 0.39
54 32 0.29
55 4 0.04
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (51 bp):
GTATAAGACCATAACTAGGATATGGCATCGGAAAAAAGTGATAAGTGTTCT
Found at i:106296963 original size:20 final size:20
Alignment explanation
Indices: 106296938--106296995 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
106296928 AGATAGGGGC
*
106296938 ACATGCCCGTGTGGCCTGGG
1 ACATGCCCGTGTGGCCTGGA
*
106296958 ACATGCCCGTGTCGCCTGGA
1 ACATGCCCGTGTGGCCTGGA
106296978 ACATGCCCGTGTGGCCTG
1 ACATGCCCGTGTGGCCTG
106296996 CCCATGGGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.12, C:0.33, G:0.34, T:0.21
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGA
Found at i:106297495 original size:13 final size:13
Alignment explanation
Indices: 106297477--106297513 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
106297467 AGATAATTAG
106297477 CAAATCATACATA
1 CAAATCATACATA
106297490 CAAATCATACATA
1 CAAATCATACATA
*
106297503 TAAATTCATAC
1 CAAA-TCATAC
106297514 CAAACTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:106298966 original size:21 final size:21
Alignment explanation
Indices: 106298941--106298982 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
106298931 TTTCTTGTTT
* *
106298941 TTCTTTCTTTTATTTTATTTA
1 TTCTTTATTTCATTTTATTTA
106298962 TTCTTTATTTCATTTTATTTA
1 TTCTTTATTTCATTTTATTTA
106298983 CTTAACTAAT
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:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCTTTATTTCATTTTATTTA
Found at i:106302505 original size:5 final size:5
Alignment explanation
Indices: 106302492--106302539 Score: 62
Period size: 5 Copynumber: 9.2 Consensus size: 5
106302482 CTAATTTAAT
106302492 AAATGA AAATA AAATA AAATA AAATA AAAGT- AAATAA AAATA AAATA
1 AAAT-A AAATA AAATA AAATA AAATA AAA-TA AAAT-A AAATA AAATA
106302539 A
1 A
106302540 TATCTTCCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
4 1 0.03
5 29 0.74
6 9 0.23
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:106302525 original size:21 final size:20
Alignment explanation
Indices: 106302492--106302539 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
106302482 CTAATTTAAT
106302492 AAATGAAAATAAA-ATAAAATA
1 AAAT-AAAATAAATA-AAAATA
106302513 AAATAAAAGTAAATAAAAATA
1 AAATAAAA-TAAATAAAAATA
106302534 AAATAA
1 AAATAA
106302540 TATCTTCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.16
21 20 0.80
22 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (20 bp):
AAATAAAATAAATAAAAATA
Found at i:106302998 original size:18 final size:18
Alignment explanation
Indices: 106302975--106303026 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
106302965 AAAATGTGAG
* *
106302975 AAATGATATTCACATTTT
1 AAATGATGTTCACATTTC
*
106302993 AAATGATGTTCAGATTTC
1 AAATGATGTTCACATTTC
106303011 AAATGATGTTCACATT
1 AAATGATGTTCACATT
106303027 GATAGAAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:106303632 original size:73 final size:72
Alignment explanation
Indices: 106303443--106303699 Score: 331
Period size: 72 Copynumber: 3.6 Consensus size: 72
106303433 CTAAACAACA
* * *
106303443 ATGC-TAAACTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATATTCTA
1 ATGCTTAAACTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTGAATTTATGTTCTA
106303507 CTTATTT
66 CTTATTT
* * * *
106303514 ATG-TGTAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGGTCT
1 ATGCT-TAAACTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTGAATTTATGTTCT
*
106303578 AATTATTT
65 ACTTATTT
** * *
106303586 ATGCTTAGGGCTAGTTTTATCAATAATTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCT
1 ATGCTTA-AACTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTGAATTTATGTTCT
106303651 ACTTATTT
65 ACTTATTT
* * * *
106303659 ATAC-TAAATTAGTTTTATCAATAGTTGTTTATATATGATTT
1 ATGCTTAAACTAGTTTTATCAATAGTTGTTTATGTTTGATTT
106303700 CGGATTTAAA
Statistics
Matches: 161, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
71 32 0.20
72 68 0.42
73 61 0.38
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.53
Consensus pattern (72 bp):
ATGCTTAAACTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTGAATTTATGTTCTA
CTTATTT
Found at i:106307499 original size:18 final size:18
Alignment explanation
Indices: 106307235--106307500 Score: 250
Period size: 18 Copynumber: 14.8 Consensus size: 18
106307225 TGGTGGTGGT
* *
106307235 GGTTCTTTTGG-TTTCTCA
1 GGTTCTTTAGGCTTT-TCG
*
106307253 GGTTCCTTAGGCTTTTCG
1 GGTTCTTTAGGCTTTTCG
*
106307271 GGTTCTTTCGGCTTTTCG
1 GGTTCTTTAGGCTTTTCG
* *
106307289 GGTTGTTTCGG-TTTCTCG
1 GGTTCTTTAGGCTTT-TCG
* *
106307307 GGTTCTTTGGGTTTTTCG
1 GGTTCTTTAGGCTTTTCG
*
106307325 GGTTCTTTCGGCTTTTCG
1 GGTTCTTTAGGCTTTTCG
*
106307343 GGTTGTTTAGG-TTTCTCG
1 GGTTCTTTAGGCTTT-TCG
* *
106307361 GGTTCTTTGGGTTTTTCG
1 GGTTCTTTAGGCTTTTCG
* * *
106307379 GGTTCTTTTGGTTTTTCT
1 GGTTCTTTAGGCTTTTCG
*
106307397 GGTGCTTTAGGCTTTTCG
1 GGTTCTTTAGGCTTTTCG
* * *
106307415 GGTTCTTTTGGTTTTTCT
1 GGTTCTTTAGGCTTTTCG
* * *
106307433 GGTACTTTAGGCTTCTCA
1 GGTTCTTTAGGCTTTTCG
* * *
106307451 GGTTCTTTGGGTTTTTCA
1 GGTTCTTTAGGCTTTTCG
*
106307469 GGTTCTTTGGGCTTTTCG
1 GGTTCTTTAGGCTTTTCG
106307487 GGTTCTTTAGGCTT
1 GGTTCTTTAGGCTT
106307501 CTCAGGCTCC
Statistics
Matches: 207, Mismatches: 36, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
17 6 0.03
18 192 0.93
19 9 0.04
ACGTcount: A:0.03, C:0.16, G:0.29, T:0.52
Consensus pattern (18 bp):
GGTTCTTTAGGCTTTTCG
Found at i:106307515 original size:36 final size:36
Alignment explanation
Indices: 106307235--106307494 Score: 288
Period size: 36 Copynumber: 7.2 Consensus size: 36
106307225 TGGTGGTGGT
* *
106307235 GGTTCTTTTGGTTTCTCAGGTTCCTTAGGCTTTTCG
1 GGTTCTTTTGGTTTTTCAGGTTCTTTAGGCTTTTCG
* * * * *
106307271 GGTTCTTTCGGCTTTTCGGGTTGTTTCGG-TTTCTCG
1 GGTTCTTTTGGTTTTTCAGGTTCTTTAGGCTTT-TCG
* * *
106307307 GGTTCTTTGGGTTTTTCGGGTTCTTTCGGCTTTTCG
1 GGTTCTTTTGGTTTTTCAGGTTCTTTAGGCTTTTCG
* * * * * *
106307343 GGTTGTTTAGGTTTCTCGGGTTCTTTGGGTTTTTCG
1 GGTTCTTTTGGTTTTTCAGGTTCTTTAGGCTTTTCG
* *
106307379 GGTTCTTTTGGTTTTTCTGGTGCTTTAGGCTTTTCG
1 GGTTCTTTTGGTTTTTCAGGTTCTTTAGGCTTTTCG
* * * *
106307415 GGTTCTTTTGGTTTTTCTGGTACTTTAGGCTTCTCA
1 GGTTCTTTTGGTTTTTCAGGTTCTTTAGGCTTTTCG
* *
106307451 GGTTCTTTGGGTTTTTCAGGTTCTTTGGGCTTTTCG
1 GGTTCTTTTGGTTTTTCAGGTTCTTTAGGCTTTTCG
106307487 GGTTCTTT
1 GGTTCTTT
106307495 AGGCTTCTCA
Statistics
Matches: 191, Mismatches: 31, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
35 3 0.02
36 185 0.97
37 3 0.02
ACGTcount: A:0.03, C:0.16, G:0.28, T:0.53
Consensus pattern (36 bp):
GGTTCTTTTGGTTTTTCAGGTTCTTTAGGCTTTTCG
Found at i:106307518 original size:54 final size:54
Alignment explanation
Indices: 106307235--106307506 Score: 303
Period size: 54 Copynumber: 5.0 Consensus size: 54
106307225 TGGTGGTGGT
* * * * * * *
106307235 GGTTCTTTTGGTTTCTCAGGTTCCTTAGGCTTTTCGGGTTCTTTCGGCTTTTCG
1 GGTTCTTTAGGTTTCTCGGGTTCTTTGGGTTTTTCGGGTTCTTTAGGCTTTTCA
* * * *
106307289 GGTTGTTTCGGTTTCTCGGGTTCTTTGGGTTTTTCGGGTTCTTTCGGCTTTTCG
1 GGTTCTTTAGGTTTCTCGGGTTCTTTGGGTTTTTCGGGTTCTTTAGGCTTTTCA
* * * *
106307343 GGTTGTTTAGGTTTCTCGGGTTCTTTGGGTTTTTCGGGTTCTTTTGGTTTTTCT
1 GGTTCTTTAGGTTTCTCGGGTTCTTTGGGTTTTTCGGGTTCTTTAGGCTTTTCA
* * * * *
106307397 GGTGCTTTAGGCTTT-TCGGGTTCTTTTGGTTTTTCTGGTACTTTAGGCTTCTCA
1 GGTTCTTTAGG-TTTCTCGGGTTCTTTGGGTTTTTCGGGTTCTTTAGGCTTTTCA
* * * * *
106307451 GGTTCTTTGGGTTTTTCAGGTTCTTTGGGCTTTTCGGGTTCTTTAGGCTTCTCA
1 GGTTCTTTAGGTTTCTCGGGTTCTTTGGGTTTTTCGGGTTCTTTAGGCTTTTCA
106307505 GG
1 GG
106307507 CTCCTTGGGT
Statistics
Matches: 190, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 3 0.02
54 184 0.97
55 3 0.02
ACGTcount: A:0.04, C:0.16, G:0.29, T:0.51
Consensus pattern (54 bp):
GGTTCTTTAGGTTTCTCGGGTTCTTTGGGTTTTTCGGGTTCTTTAGGCTTTTCA
Found at i:106311977 original size:19 final size:18
Alignment explanation
Indices: 106311937--106311976 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
106311927 TTTTTAGGAG
*
106311937 TTTTATAAATATTTTGAA
1 TTTTAAAAATATTTTGAA
106311955 TTTTAAAAATTATTTTG-A
1 TTTTAAAAA-TATTTTGAA
106311973 TTTT
1 TTTT
106311977 TTGTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTTAAAAATATTTTGAA
Found at i:106312161 original size:22 final size:23
Alignment explanation
Indices: 106312116--106312161 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
106312106 TTAAGTTGAC
106312116 TCGAATAATTTGAATAATTAAAT
1 TCGAATAATTTGAATAATTAAAT
* *
106312139 TCGATTAATTTGAA-ATTTAAAT
1 TCGAATAATTTGAATAATTAAAT
106312161 T
1 T
106312162 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (23 bp):
TCGAATAATTTGAATAATTAAAT
Found at i:106312654 original size:5 final size:5
Alignment explanation
Indices: 106312644--106312670 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
106312634 TTTAGATTTA
106312644 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
106312671 GAATGATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:106319676 original size:6 final size:6
Alignment explanation
Indices: 106319665--106319694 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
106319655 ATATTTGTTG
106319665 AAATAT AAATAT AAATAT AAATAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT
106319695 TTAATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATAT
Done.