Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 171 of 214
Found at i:50322089 original size:4 final size:4
Alignment explanation
Indices: 50322080--50322108 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
50322070 TGCTCATTTT
50322080 CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA C
50322109 GTGCATGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:50322295 original size:26 final size:27
Alignment explanation
Indices: 50322266--50322321 Score: 96
Period size: 26 Copynumber: 2.1 Consensus size: 27
50322256 TATAATTTTT
50322266 TTATTTACCAAAATATAT-AAAAAAAA
1 TTATTTACCAAAATATATCAAAAAAAA
*
50322292 TTATTTATCAAAATATATCAAAAAAAA
1 TTATTTACCAAAATATATCAAAAAAAA
50322319 TTA
1 TTA
50322322 AAAAAAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (27 bp):
TTATTTACCAAAATATATCAAAAAAAA
Found at i:50322330 original size:26 final size:26
Alignment explanation
Indices: 50322275--50322330 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
50322265 TTTATTTACC
** **
50322275 AAAATATATAAAAAAAATTATTTATC
1 AAAATATATAAAAAAAATTATAAAAA
50322301 AAAATATATCAAAAAAAATTA-AAAAA
1 AAAATATAT-AAAAAAAATTATAAAAA
50322327 AAAA
1 AAAA
50322331 CCAAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (26 bp):
AAAATATATAAAAAAAATTATAAAAA
Found at i:50322409 original size:27 final size:27
Alignment explanation
Indices: 50322379--50322445 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
50322369 CGCCAATAGT
*
50322379 ATTGGCGGCACCAAAGGTGCCAAAAC-C
1 ATTGGCGGCACCAAAGGTGCC-AAACTA
* *
50322406 ATTGGCGGCACCAATGGTGCCATACTA
1 ATTGGCGGCACCAAAGGTGCCAAACTA
50322433 ATTGGCGGCACCA
1 ATTGGCGGCACCA
50322446 CTCGTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 3 0.08
27 33 0.92
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAACTA
Found at i:50322546 original size:10 final size:10
Alignment explanation
Indices: 50322526--50322565 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
50322516 GTTGGCGCGG
50322526 AAAGAAGAGAA
1 AAAG-AGAGAA
50322537 AAAGAGAGAA
1 AAAGAGAGAA
50322547 AAAGAGGAGAA
1 AAAGA-GAGAA
50322558 AAAG-GAGA
1 AAAGAGAGA
50322566 TATTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.14
10 11 0.39
11 13 0.46
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (10 bp):
AAAGAGAGAA
Found at i:50322550 original size:21 final size:20
Alignment explanation
Indices: 50322526--50322565 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
50322516 GTTGGCGCGG
50322526 AAAGAAGAGAAAAAGAGAGAA
1 AAAGAAGAGAAAAAG-GAGAA
*
50322547 AAAGAGGAGAAAAAGGAGA
1 AAAGAAGAGAAAAAGGAGA
50322566 TATTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
AAAGAAGAGAAAAAGGAGAA
Found at i:50322626 original size:19 final size:21
Alignment explanation
Indices: 50322588--50322626 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
50322578 AATAATTGAT
*
50322588 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
50322609 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
50322627 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:50322705 original size:3 final size:3
Alignment explanation
Indices: 50322699--50322727 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
50322689 ATTATTATTA
50322699 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
50322728 AGTATTAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:50322880 original size:26 final size:26
Alignment explanation
Indices: 50322851--50322903 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
50322841 TTTTAGTGTG
*
50322851 TATTATTTTGAGTATAAAATTATTAA
1 TATTATTTTGAGTATAAAATTAATAA
50322877 TATTATTTTGAGTATAAAATTAATAA
1 TATTATTTTGAGTATAAAATTAATAA
50322903 T
1 T
50322904 TTTAGTGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (26 bp):
TATTATTTTGAGTATAAAATTAATAA
Found at i:50326645 original size:18 final size:17
Alignment explanation
Indices: 50326624--50326759 Score: 59
Period size: 18 Copynumber: 8.1 Consensus size: 17
50326614 TTCCCTCTTC
50326624 TTCTTCTTTTTTTTTCT
1 TTCTTCTTTTTTTTTCT
**
50326641 CTTC-TCATTTCCTTTTCT
1 -TTCTTC-TTTTTTTTTCT
*
50326659 TTC--CTTCTTTCTTTCT
1 TTCTTCTT-TTTTTTTCT
* * * *
50326675 TTTTTCTTCTCTTTTCC
1 TTCTTCTTTTTTTTTCT
* *
50326692 TTC-TC-TTCTTGTTCT
1 TTCTTCTTTTTTTTTCT
*
50326707 TTCTT-TCTTTTTTTCT
1 TTCTTCTTTTTTTTTCT
* **
50326723 CTTCTCCTTTTCCTTTCT
1 -TTCTTCTTTTTTTTTCT
*
50326741 TTCCTTCTTTTTCTTTCT
1 TT-CTTCTTTTTTTTTCT
50326759 T
1 T
50326760 CCCTCTCCTT
Statistics
Matches: 84, Mismatches: 25, Indels: 18
0.66 0.20 0.14
Matches are distributed among these distances:
15 10 0.12
16 19 0.23
17 18 0.21
18 37 0.44
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.71
Consensus pattern (17 bp):
TTCTTCTTTTTTTTTCT
Found at i:50326655 original size:23 final size:20
Alignment explanation
Indices: 50326627--50326720 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 20
50326617 CCTCTTCTTC
50326627 TTCTTTTTTTTTCTCTTCTCAT
1 TTCTTTTTTTTTCTCTT-TC-T
* *
50326649 TTCCTTTTCTTTCCTTCTTTCT
1 TT-CTTTTTTTTTC-TCTTTCT
* *
50326671 TTCTTTTTTCTTCTCTTTTCC
1 TTCTTTTTTTTTCTC-TTTCT
* * *
50326692 TTCTCTTCTTGT-TCTTTCT
1 TTCTTTTTTTTTCTCTTTCT
50326711 TTCTTTTTTT
1 TTCTTTTTTT
50326721 CTCTTCTCCT
Statistics
Matches: 56, Mismatches: 13, Indels: 9
0.72 0.17 0.12
Matches are distributed among these distances:
19 12 0.21
20 4 0.07
21 20 0.36
22 5 0.09
23 11 0.20
24 4 0.07
ACGTcount: A:0.01, C:0.26, G:0.01, T:0.72
Consensus pattern (20 bp):
TTCTTTTTTTTTCTCTTTCT
Found at i:50326658 original size:28 final size:26
Alignment explanation
Indices: 50326599--50326660 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 26
50326589 ATTACATTTT
*
50326599 TTTTC-TTTTTTTTCCTTCCCTCTTC
1 TTTTCTTTTTTTTTCCTTCCATCTTC
50326624 TTCTTCTTTTTTTTTCTCTTCTCAT-TTCC
1 TT-TTCTTTTTTTTTC-CTTC-CATCTT-C
50326653 TTTTCTTT
1 TTTTCTTT
50326661 CCTTCTTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 2 0.06
26 3 0.10
27 9 0.29
28 12 0.39
29 5 0.16
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTCTTTTTTTTTCCTTCCATCTTC
Found at i:50326659 original size:34 final size:37
Alignment explanation
Indices: 50326619--50326755 Score: 115
Period size: 39 Copynumber: 3.7 Consensus size: 37
50326609 TTTCCTTCCC
*
50326619 TCTTCTTC-TTCTTTTTTTTTCTCTTCTCATTTCCTTT
1 TCTTCTTCTTTC-TTTCTTTTCTCTTCTCATTTCCTTT
* *
50326656 TCTTTCCTTCTTTCTTTCTTTTTTCTTCTCTTTTCCTTCTCT
1 TC-TT-CTTCTTTCTTTCTTTTCTCTTCTCATTTCC-T-T-T
*
50326698 TCTTGTTCTTTCTTTCTTTT-T-TTCTC-TTCTCCTTT
1 TCTTCTTCTTTCTTTCTTTTCTCTTCTCATT-TCCTTT
* *
50326733 TCCT-TTCTTTCCTTCTTTT-TCTT
1 TCTTCTTCTTTCTTTCTTTTCTCTT
50326756 TCTTCCCTCT
Statistics
Matches: 86, Mismatches: 6, Indels: 18
0.78 0.05 0.16
Matches are distributed among these distances:
34 15 0.17
35 6 0.07
36 1 0.01
37 5 0.06
38 10 0.12
39 24 0.28
40 19 0.22
41 3 0.03
42 3 0.03
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.70
Consensus pattern (37 bp):
TCTTCTTCTTTCTTTCTTTTCTCTTCTCATTTCCTTT
Found at i:50326670 original size:4 final size:4
Alignment explanation
Indices: 50326654--50326803 Score: 101
Period size: 4 Copynumber: 36.0 Consensus size: 4
50326644 CTCATTTCCT
* *
50326654 TTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTC TTTTC CTTC TCTTC TTGTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC T-TTC -T-TTC
* * *
50326706 TTTC TTTC TTTT TTTC TCTTC TCCTT- TTCC TTTC TTTC CTTC -TT- TTTC
1 TTTC TTTC TTTC TTTC T-TTC T--TTC TTTC TTTC TTTC TTTC TTTC TTTC
* * * *
50326754 TTTC TTCCC TCTCC TTTC TTCC TTTC TTTC TCTC TTTC TTTC TTTC TTTC
1 TTTC TT-TC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
50326804 CCTCTCCTTC
Statistics
Matches: 118, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
3 8 0.07
4 82 0.69
5 18 0.15
6 10 0.08
ACGTcount: A:0.00, C:0.31, G:0.01, T:0.68
Consensus pattern (4 bp):
TTTC
Found at i:50326676 original size:44 final size:43
Alignment explanation
Indices: 50326620--50326798 Score: 134
Period size: 40 Copynumber: 4.3 Consensus size: 43
50326610 TTCCTTCCCT
50326620 CTTC-TTC-TTCTTTTTTTTTCTCTTCTCATTTCCTTTTCTTTC
1 CTTCTTTCTTTCTTTTTTTTTCTCTTCTC-TTTCCTTTTCTTTC
* * * *
50326662 CTTCTTTCTTTCTTTTTTCTTCTCTTTTCCTT-CTCTTC-TT-
1 CTTCTTTCTTTCTTTTTTTTTCTCTTCTCTTTCCTTTTCTTTC
*
50326702 GTTCTTTCTTTC--TTTTTTTCTCTTCTCCTTTTCC-TTTCTTTC
1 CTTCTTTCTTTCTTTTTTTTTCTCTTCT-C-TTTCCTTTTCTTTC
***
50326744 CTTC-TT-TTTCTTTCTTCCCTCTCCTT-TC-TTCC-TTTCTTT-
1 CTTCTTTCTTTCTTT-TTTTTTCT-CTTCTCTTTCCTTTTCTTTC
50326783 CTCTCTTTCTTTCTTT
1 CT-TCTTTCTTTCTTT
50326799 CTTTCCCTCT
Statistics
Matches: 110, Mismatches: 13, Indels: 28
0.73 0.09 0.19
Matches are distributed among these distances:
38 12 0.11
39 3 0.03
40 33 0.30
41 9 0.08
42 21 0.19
43 11 0.10
44 21 0.19
ACGTcount: A:0.01, C:0.31, G:0.01, T:0.68
Consensus pattern (43 bp):
CTTCTTTCTTTCTTTTTTTTTCTCTTCTCTTTCCTTTTCTTTC
Found at i:50326790 original size:82 final size:83
Alignment explanation
Indices: 50326609--50326812 Score: 223
Period size: 82 Copynumber: 2.5 Consensus size: 83
50326599 TTTTCTTTTT
* *
50326609 TTTCCTTC-CCTCTTCTTC-TTC-TT-TTTTTTTCTCTTCT-CATTTCCTTTTCTTTCCTTCTTT
1 TTTCCTTCTCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTTCCTTTTCTTTCCTTCTTT
* * *
50326669 CTTTCTTTTTTCTTCTCT
66 CTTTCTTTTTCCCTCTCC
*
50326687 TTTCCTTCTCTTCTTGTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTTCC-TTTCTTTCCTTC-TT
1 TTTCCTTCTCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTTCCTTTTCTTTCCTTCTTT
50326750 -TTTCTTTCTTCCCTCTCC
66 CTTTCTTT-TTCCCTCTCC
* *
50326768 TTT-CTTC-CTTTCTTTCTCTCTTTCTTTCTTTCTTTC-CCTCTCCTT
1 TTTCCTTCTC-TTC-TTCT-TCTTTCTTTCTTTTTTTCTCTTCTCCTT
50326813 CTGCCCCCCA
Statistics
Matches: 108, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
78 8 0.07
79 9 0.08
80 17 0.16
81 25 0.23
82 43 0.40
83 6 0.06
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.66
Consensus pattern (83 bp):
TTTCCTTCTCTTCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTTCCTTTTCTTTCCTTCTTT
CTTTCTTTTTCCCTCTCC
Found at i:50326921 original size:27 final size:27
Alignment explanation
Indices: 50326846--50326912 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
50326836 TATTATTAAC
50326846 TGGTGCCGCCAATAGTATTGGCACCAT
1 TGGTGCCGCCAATAGTATTGGCACCAT
* * * *
50326873 TGATGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATAGTATTGGCACCAT
50326900 TGGTGCCGCCAAT
1 TGGTGCCGCCAAT
50326913 CCCATTGGCG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.28
Consensus pattern (27 bp):
TGGTGCCGCCAATAGTATTGGCACCAT
Found at i:50326996 original size:27 final size:27
Alignment explanation
Indices: 50326966--50327019 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
50326956 TTTTGCAGGT
50326966 TTTTTTTTATATATTTTGGTAAATAAA
1 TTTTTTTTATATATTTTGGTAAATAAA
50326993 TTTTTTTTATATATTTTGGTAAATAAA
1 TTTTTTTTATATATTTTGGTAAATAAA
50327020 AAAAAGTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (27 bp):
TTTTTTTTATATATTTTGGTAAATAAA
Found at i:50327029 original size:27 final size:27
Alignment explanation
Indices: 50326972--50327044 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
50326962 AGGTTTTTTT
******
50326972 TTATATATTTTGGTAAATAAATTTTTT
1 TTATATATTTTGGTAAATAAAAAAAAG
50326999 TTATATATTTTGGTAAATAAAAAAAAG
1 TTATATATTTTGGTAAATAAAAAAAAG
*
50327026 TTATAATATTTTGATAAAT
1 TTAT-ATATTTTGGTAAAT
50327045 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 25 0.66
28 13 0.34
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.49
Consensus pattern (27 bp):
TTATATATTTTGGTAAATAAAAAAAAG
Found at i:50329045 original size:25 final size:25
Alignment explanation
Indices: 50329017--50329064 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
50329007 TATCAAATCT
50329017 TTATTTCATAAAAACTGTTAGAAAG
1 TTATTTCATAAAAACTGTTAGAAAG
*
50329042 TTATTTCATAAACACTGTTAGAA
1 TTATTTCATAAAAACTGTTAGAA
50329065 TAGCATTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (25 bp):
TTATTTCATAAAAACTGTTAGAAAG
Found at i:50329076 original size:25 final size:25
Alignment explanation
Indices: 50329023--50329079 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
50329013 ATCTTTATTT
* *
50329023 CATAAAAACTGTTAGAAAGTTATTT
1 CATAAAAACTGTTAGAAAGTCATTC
*
50329048 CATAAACACTGTTAGAATAG-CATTC
1 CATAAAAACTGTTAGAA-AGTCATTC
50329073 CATAAAA
1 CATAAAA
50329080 TCAGAAAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (25 bp):
CATAAAAACTGTTAGAAAGTCATTC
Found at i:50329554 original size:31 final size:31
Alignment explanation
Indices: 50329519--50329581 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
50329509 AACACTAAGA
50329519 AACAAATACACCCTTTAATTTTGAACACAAC
1 AACAAATACACCCTTTAATTTTGAACACAAC
*
50329550 AACAAATACACCTTTTAATTTTGAACACAAC
1 AACAAATACACCCTTTAATTTTGAACACAAC
50329581 A
1 A
50329582 CGAAAATAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.27
Consensus pattern (31 bp):
AACAAATACACCCTTTAATTTTGAACACAAC
Found at i:50343603 original size:15 final size:15
Alignment explanation
Indices: 50343578--50343620 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 15
50343568 TATCTATCGA
50343578 GAAAAATTTAAAACAC
1 GAAAAA-TTAAAACAC
50343594 GAAAAATT--AACAC
1 GAAAAATTAAAACAC
*
50343607 GAAAAATCAAAACA
1 GAAAAATTAAAACA
50343621 TAATGCAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 12 0.50
15 6 0.25
16 6 0.25
ACGTcount: A:0.65, C:0.14, G:0.07, T:0.14
Consensus pattern (15 bp):
GAAAAATTAAAACAC
Found at i:50344189 original size:29 final size:29
Alignment explanation
Indices: 50344146--50344205 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
50344136 TACAAAACTC
* * *
50344146 AACCCATCTCGTCAAAATTATTTTTTCAG
1 AACCCATCCCCTCAAAACTATTTTTTCAG
50344175 AACCCATCCCCTCAAAACTATTTTTTCAG
1 AACCCATCCCCTCAAAACTATTTTTTCAG
50344204 AA
1 AA
50344206 TCCGTCCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.33
Consensus pattern (29 bp):
AACCCATCCCCTCAAAACTATTTTTTCAG
Found at i:50344883 original size:20 final size:20
Alignment explanation
Indices: 50344835--50344895 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
50344825 ATTTTATAGA
50344835 ATAACAATA-ATATTTTATTT
1 ATAA-AATATATATTTTATTT
* **
50344855 TTATGATATATATTTTATTT
1 ATAAAATATATATTTTATTT
*
50344875 ATAAAATATGATATGTTATTT
1 ATAAAATAT-ATATTTTATTT
50344896 TACTAATTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 3 0.09
20 19 0.59
21 10 0.31
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (20 bp):
ATAAAATATATATTTTATTT
Found at i:50351064 original size:62 final size:62
Alignment explanation
Indices: 50350998--50351227 Score: 379
Period size: 62 Copynumber: 3.7 Consensus size: 62
50350988 CAATGTACCT
* *
50350998 AATTTATATTACAAAGTTTGTTTCAATTTTTACTGTTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
*
50351060 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTATAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* * *
50351122 AATTTATATTACAAAGTTTGTTCTAATTTTTAATATTGTAATGTATTTAATTTATATTACAA
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
* * *
50351184 AATTTATATTATAAAGTTTGTTCCAAGTTTTAGTGTTGTAATGT
1 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGT
50351228 TGCAATTAAT
Statistics
Matches: 156, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 156 1.00
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.50
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATGTATTTAATTTATATAACAA
Found at i:50351847 original size:24 final size:24
Alignment explanation
Indices: 50351820--50351865 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
50351810 TATATGACCA
* *
50351820 CTCAGGATCTGGCTCTGGCTCGAG
1 CTCAAGATCGGGCTCTGGCTCGAG
*
50351844 CTCAAGCTCGGGCTCTGGCTCG
1 CTCAAGATCGGGCTCTGGCTCG
50351866 GCCTCTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.33, G:0.33, T:0.24
Consensus pattern (24 bp):
CTCAAGATCGGGCTCTGGCTCGAG
Found at i:50354504 original size:17 final size:16
Alignment explanation
Indices: 50354482--50354514 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
50354472 ACAAACTCTC
50354482 TTTTCCTTTTCTATTTT
1 TTTTCCTTTTCT-TTTT
50354499 TTTTCCTTTTCTTTTT
1 TTTTCCTTTTCTTTTT
50354515 CCTTCCCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTCCTTTTCTTTTT
Found at i:50356431 original size:40 final size:41
Alignment explanation
Indices: 50356333--50356432 Score: 157
Period size: 41 Copynumber: 2.5 Consensus size: 41
50356323 ATTGATCTCG
* * *
50356333 ATTTCGCACACTTAGTGCCCGTTATTTAACATCATTATTTA
1 ATTTCGCACACTTAGTGCTCGTTATTCAACATCATCATTTA
*
50356374 ATTTCGCACACTTAGTGCTCGTTATTCAACCTCATCATTTA
1 ATTTCGCACACTTAGTGCTCGTTATTCAACATCATCATTTA
50356415 A-TTCGCACACTTAGTGCT
1 ATTTCGCACACTTAGTGCT
50356433 AATCATATAG
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
40 17 0.31
41 38 0.69
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (41 bp):
ATTTCGCACACTTAGTGCTCGTTATTCAACATCATCATTTA
Found at i:50358695 original size:41 final size:41
Alignment explanation
Indices: 50358634--50358734 Score: 157
Period size: 41 Copynumber: 2.5 Consensus size: 41
50358624 ATTCACTAGT
* *
50358634 ACTTAGCCTGCTTGGCTTATAGCCTGATTCAGATCACCAGC
1 ACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCAGC
* *
50358675 ACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGC
1 ACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCAGC
*
50358716 ACTTAGCCTGCTAGACTTA
1 ACTTAGCCTGCTAGGCTTA
50358735 AAGTCTGAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (41 bp):
ACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCAGC
Found at i:50358753 original size:41 final size:41
Alignment explanation
Indices: 50358708--50358890 Score: 223
Period size: 41 Copynumber: 4.5 Consensus size: 41
50358698 CTGATTCAGA
* * *
50358708 TCACCGGCACTT-AGCCTGCTAGACTTAAAGTCTGAATTATT
1 TCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGAAATAAT
* * * *
50358749 TCACCGG---TAAGCCTGCTAGACTTAAAGTCCGAATTATT
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
50358787 TCACCGGTC-TTAAGCCTGCTAGACATAAAGTCTGAAATAAT
1 TCACCGG-CATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
* *
50358828 TCACCGGCATTAAGCCTGCTAGACATCAAGTTTGAAATAAT
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
*
50358869 TCACCGGCATTAAACCTGCTAG
1 TCACCGGCATTAAGCCTGCTAG
50358891 GCATCGAGCC
Statistics
Matches: 129, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
37 1 0.01
38 35 0.27
40 1 0.01
41 92 0.71
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
Found at i:50367566 original size:37 final size:37
Alignment explanation
Indices: 50367516--50367591 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
50367506 TTATTTTAGA
50367516 TTAACATAGATGTCGGGAACATATTCTATAAGAACCT
1 TTAACATAGATGTCGGGAACATATTCTATAAGAACCT
50367553 TTAACATAGATGTCGGGAACATATTCTATAAGAACCT
1 TTAACATAGATGTCGGGAACATATTCTATAAGAACCT
50367590 TT
1 TT
50367592 CTGGTTTGAA
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:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (37 bp):
TTAACATAGATGTCGGGAACATATTCTATAAGAACCT
Found at i:50377182 original size:24 final size:24
Alignment explanation
Indices: 50377155--50377206 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
50377145 TTTCTAGAAG
* **
50377155 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATATATGAACATAATAT
*
50377179 ATTTAGTATATATTAACATAATAT
1 ATTTAGTATATATGAACATAATAT
50377203 ATTT
1 ATTT
50377207 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGTATATATGAACATAATAT
Found at i:50382815 original size:25 final size:25
Alignment explanation
Indices: 50382776--50382828 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
50382766 TTATTATTGC
*
50382776 TATTGTCATTTTTATCACTATTT-AT
1 TATTGTCATTATTATCA-TATTTGAT
* *
50382801 TATTGTTATTATTATTATATTTGAT
1 TATTGTCATTATTATCATATTTGAT
50382826 TAT
1 TAT
50382829 ATCCCTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (25 bp):
TATTGTCATTATTATCATATTTGAT
Found at i:50384529 original size:27 final size:27
Alignment explanation
Indices: 50384493--50384546 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50384483 TTCTAGAAAA
* **
50384493 TTTAGTATTTATGAGTATAATATATTT
1 TTTAGCATTTATGAACATAATATATTT
*
50384520 TTTAGCATTTATTAACATAATATATTT
1 TTTAGCATTTATGAACATAATATATTT
50384547 GACTTTGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (27 bp):
TTTAGCATTTATGAACATAATATATTT
Found at i:50385642 original size:58 final size:59
Alignment explanation
Indices: 50385513--50385663 Score: 169
Period size: 58 Copynumber: 2.6 Consensus size: 59
50385503 ACTTTAGGTT
* * * * * * *
50385513 TTCAAGGACTAACTTGGATAAAAAAAAGTTGAAGTCTCAATTTGGGAACATTTCCCAAG
1 TTCAAGGCCTAACTTGGATAAAAAAAAGTTCAAGCCTCAATATGAGAACAATTCCCAAA
* * *
50385572 TTCAAGGCCTAACTTGGACAAAAAAAA-TTCAGGCCTCAATATGAGAACAATTGCCAAA
1 TTCAAGGCCTAACTTGGATAAAAAAAAGTTCAAGCCTCAATATGAGAACAATTCCCAAA
* * *
50385630 TTTAGGGTCTAACTTGGATAAAAAGAAAGTTCAA
1 TTCAAGGCCTAACTTGGATAAAAA-AAAGTTCAA
50385664 ATTCTAATGT
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
58 43 0.57
59 28 0.37
60 4 0.05
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (59 bp):
TTCAAGGCCTAACTTGGATAAAAAAAAGTTCAAGCCTCAATATGAGAACAATTCCCAAA
Found at i:50391646 original size:22 final size:21
Alignment explanation
Indices: 50391610--50391658 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
50391600 ACAAAAATAA
*
50391610 AATAAAATAGTAAAATTAAAT
1 AATAAAATAGGAAAATTAAAT
50391631 AATAATAATAGGAAAATTAAA-
1 AATAA-AATAGGAAAATTAAAT
50391652 AA-AAAAT
1 AATAAAAT
50391659 TTCTTTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 2 0.08
21 7 0.27
22 14 0.54
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.24
Consensus pattern (21 bp):
AATAAAATAGGAAAATTAAAT
Found at i:50399609 original size:9 final size:9
Alignment explanation
Indices: 50399535--50399612 Score: 52
Period size: 9 Copynumber: 8.0 Consensus size: 9
50399525 AAATTTTTTA
50399535 TTTTATAAACT
1 TTTTAT-AA-T
50399546 TTTTATTAAT
1 TTTTA-TAAT
50399556 TTTTAATAA-
1 TTTT-ATAAT
50399565 TTTTAGTAAT
1 TTTTA-TAAT
50399575 TTTCTATAACT
1 TTT-TATAA-T
*
50399586 TATTTATAGT
1 T-TTTATAAT
*
50399596 TTTTTTAAT
1 TTTTATAAT
50399605 TTTT-TAAT
1 TTTTATAAT
50399613 ATTTCTAAGA
Statistics
Matches: 57, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
8 5 0.09
9 17 0.30
10 16 0.28
11 16 0.28
12 3 0.05
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:50408080 original size:40 final size:37
Alignment explanation
Indices: 50408006--50408089 Score: 91
Period size: 40 Copynumber: 2.2 Consensus size: 37
50407996 TATAAAAATT
*
50408006 ATTTTTATAAAATTATTGATTTTTTTCAATGTTTTAGA
1 ATTTTTATAAAATTATTGATTTTTTTCAAGGTTTTA-A
50408044 ATTTTTA-AATAATTATTGACATTTTTTT-ATAGGTTTTAA
1 ATTTTTATAA-AATTATTG--ATTTTTTTCA-AGGTTTTAA
50408083 ACTTTTT
1 A-TTTTT
50408090 TTTAGTTTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
37 2 0.05
38 15 0.38
39 3 0.08
40 20 0.50
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (37 bp):
ATTTTTATAAAATTATTGATTTTTTTCAAGGTTTTAA
Found at i:50408097 original size:18 final size:20
Alignment explanation
Indices: 50408065--50408103 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
50408055 ATTATTGACA
50408065 TTTTTTTATAGGTTTTAAAC
1 TTTTTTTATAGGTTTTAAAC
*
50408085 TTTTTTT-TA-GTTTTGAAC
1 TTTTTTTATAGGTTTTAAAC
50408103 T
1 T
50408104 CATCTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (20 bp):
TTTTTTTATAGGTTTTAAAC
Found at i:50408473 original size:5 final size:5
Alignment explanation
Indices: 50408463--50408489 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
50408453 TAAGCCTATT
50408463 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
50408490 AACAATTTTT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:50408540 original size:43 final size:44
Alignment explanation
Indices: 50408474--50408561 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 44
50408464 ATTAAATTAA
* * * *
50408474 ATTAAATTAAATTAAAAACAATTTTTTTAAATATCAATT-TTTT
1 ATTAAATCAAATGAAAAACAATTTTATTAAATATAAATTGTTTT
** *
50408517 ATTAAATCAAATGAAAATTAATTTTATTAAGTATAAATTGTTTT
1 ATTAAATCAAATGAAAAACAATTTTATTAAATATAAATTGTTTT
50408561 A
1 A
50408562 GGTTAAATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 32 0.86
44 5 0.14
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (44 bp):
ATTAAATCAAATGAAAAACAATTTTATTAAATATAAATTGTTTT
Found at i:50409124 original size:13 final size:14
Alignment explanation
Indices: 50409102--50409138 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
50409092 ATAATAGTAT
50409102 TTTAAA-AATTT-A
1 TTTAAATAATTTAA
50409114 TTTAAATAATTTAA
1 TTTAAATAATTTAA
*
50409128 TTGAAATAATT
1 TTTAAATAATT
50409139 AACAATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 6 0.27
13 5 0.23
14 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (14 bp):
TTTAAATAATTTAA
Found at i:50414595 original size:24 final size:24
Alignment explanation
Indices: 50414532--50414583 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
50414522 TTTCTAGAAG
* * *
50414532 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
50414556 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
50414580 ATTT
1 ATTT
50414584 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:50421754 original size:23 final size:23
Alignment explanation
Indices: 50421710--50421754 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
50421700 TTCATTGTTT
*
50421710 TTAATATTATTTTAATATTTAAC
1 TTAATATTATTTTAATACTTAAC
*
50421733 TTAATATTTTTTTCAA-ACTTAA
1 TTAATATTATTTT-AATACTTAA
50421755 TTTTAGTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAATATTATTTTAATACTTAAC
Found at i:50422134 original size:9 final size:9
Alignment explanation
Indices: 50422122--50422147 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
50422112 ACTCTATTTA
50422122 TTTTATTGG
1 TTTTATTGG
50422131 TTTTATTGG
1 TTTTATTGG
50422140 TTTTATTG
1 TTTTATTG
50422148 TTTGTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.19, T:0.69
Consensus pattern (9 bp):
TTTTATTGG
Found at i:50423848 original size:12 final size:12
Alignment explanation
Indices: 50423831--50423856 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50423821 CATGTCAATC
50423831 ATACATTTCACA
1 ATACATTTCACA
50423843 ATACATTTCACA
1 ATACATTTCACA
50423855 AT
1 AT
50423857 CATAACATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (12 bp):
ATACATTTCACA
Found at i:50425040 original size:30 final size:30
Alignment explanation
Indices: 50425005--50425073 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
50424995 GTTACAGGGG
50425005 ACACACGACCATGTCACCTGGCCATATGTC
1 ACACACGACCATGTCACCTGGCCATATGTC
*
50425035 ACACACGACCATGTCACCTGGTCATATGTC
1 ACACACGACCATGTCACCTGGCCATATGTC
50425065 ACACACGAC
1 ACACACGAC
50425074 TGAGACACAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.29, C:0.36, G:0.16, T:0.19
Consensus pattern (30 bp):
ACACACGACCATGTCACCTGGCCATATGTC
Found at i:50426139 original size:30 final size:31
Alignment explanation
Indices: 50426085--50426179 Score: 115
Period size: 30 Copynumber: 3.1 Consensus size: 31
50426075 AGCCCGGCCT
* * *
50426085 AAATATA-ATAAATATATATTTTTATTTTTA
1 AAATATATTTAAAAATATTTTTTTATTTTTA
50426115 AAA-ATATTTAAAAATATTTTTTTATTTTTA
1 AAATATATTTAAAAATATTTTTTTATTTTTA
50426145 AAATATATTT-AAAATACTTTTTTTAATTTTCTA
1 AAATATATTTAAAAATA-TTTTTTT-ATTTT-TA
50426178 AA
1 AA
50426180 TTTTTTTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
29 3 0.05
30 32 0.56
31 13 0.23
32 5 0.09
33 4 0.07
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (31 bp):
AAATATATTTAAAAATATTTTTTTATTTTTA
Found at i:50427940 original size:40 final size:43
Alignment explanation
Indices: 50427890--50427984 Score: 115
Period size: 47 Copynumber: 2.2 Consensus size: 43
50427880 GCACCCATAA
*
50427890 CAAGTGGCA-G-TAAT-TGCAAATATGTGGTTTGATCACAAAC
1 CAAGTGGCATGTTAATCTACAAATATGTGGTTTGATCACAAAC
*
50427930 CAAGTGGCAGTTTGTTTAATCTACAAATATGTGGTTTGATCACGAAC
1 CAAGTGGCA---TG-TTAATCTACAAATATGTGGTTTGATCACAAAC
50427977 CAAGTGGC
1 CAAGTGGC
50427985 GGTTTGCTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
40 9 0.20
44 1 0.02
46 4 0.09
47 32 0.70
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (43 bp):
CAAGTGGCATGTTAATCTACAAATATGTGGTTTGATCACAAAC
Found at i:50427978 original size:47 final size:47
Alignment explanation
Indices: 50427906--50428008 Score: 161
Period size: 47 Copynumber: 2.2 Consensus size: 47
50427896 GCAGTAATTG
*
50427906 CAAATATGTGGTTTGATCACAAACCAAGTGGCAGTTTGTTTAATCTA
1 CAAATATGTGGTTTGATCACAAACCAAGTGGCAGTTTGCTTAATCTA
* * * *
50427953 CAAATATGTGGTTTGATCACGAACCAAGTGGCGGTTTGCTTAATTTG
1 CAAATATGTGGTTTGATCACAAACCAAGTGGCAGTTTGCTTAATCTA
50428000 CAAATATGT
1 CAAATATGT
50428009 TGTGCACCCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (47 bp):
CAAATATGTGGTTTGATCACAAACCAAGTGGCAGTTTGCTTAATCTA
Found at i:50428429 original size:15 final size:15
Alignment explanation
Indices: 50428409--50428438 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50428399 ATTTCGTAAT
50428409 TTCTTTAAAATTTTA
1 TTCTTTAAAATTTTA
50428424 TTCTTTAAAATTTTA
1 TTCTTTAAAATTTTA
50428439 GGCCAAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TTCTTTAAAATTTTA
Found at i:50430340 original size:17 final size:16
Alignment explanation
Indices: 50430318--50430349 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
50430308 TTTTTGGGAA
50430318 AAAAATTAAAAATTAAT
1 AAAAATT-AAAATTAAT
50430335 AAAAATTAAAATTAA
1 AAAAATTAAAATTAA
50430350 AGTAACCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAATTAAAATTAAT
Found at i:50432190 original size:12 final size:11
Alignment explanation
Indices: 50432165--50432221 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
50432155 ATTAAATTAA
*
50432165 TAAAATACTAT
1 TAAAATAATAT
50432176 TAAAATAAGTAT
1 TAAAATAA-TAT
*
50432188 TAAATTTAATAT
1 TAAA-ATAATAT
*
50432200 T-AAA-ACTAT
1 TAAAATAATAT
50432209 TAAAATAATAT
1 TAAAATAATAT
50432220 TA
1 TA
50432222 TTTTTGGAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 5 0.14
10 3 0.08
11 15 0.41
12 11 0.30
13 3 0.08
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:50445013 original size:21 final size:22
Alignment explanation
Indices: 50444984--50445030 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
50444974 CAGAAGGAGT
*
50444984 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
50445006 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
50445027 GAGT
1 GAGT
50445031 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:50447801 original size:16 final size:16
Alignment explanation
Indices: 50447780--50447828 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
50447770 CGCTGTATTG
*
50447780 GAATAGAGGCGTAATA
1 GAATAGAGGTGTAATA
* *
50447796 GAATAGAGGTGTTATG
1 GAATAGAGGTGTAATA
50447812 GAATAGAGGTGTAATA
1 GAATAGAGGTGTAATA
50447828 G
1 G
50447829 CAAATCAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.39, C:0.02, G:0.35, T:0.24
Consensus pattern (16 bp):
GAATAGAGGTGTAATA
Found at i:50448038 original size:16 final size:16
Alignment explanation
Indices: 50448001--50448042 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50447991 TTAATCATAT
*
50448001 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
50448017 TT-AAATATATTATAA
1 TTAAAATATATTATAA
50448032 TTAAAATATAT
1 TTAAAATATAT
50448043 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:50448049 original size:14 final size:15
Alignment explanation
Indices: 50448010--50448051 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50448000 TTTAAACATA
*
50448010 ATTATTATTAAATAT
1 ATTATAATTAAATAT
50448025 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
50448039 A-TATAATTTAATA
1 ATTATAATTAAATA
50448052 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:50448169 original size:14 final size:15
Alignment explanation
Indices: 50448120--50448171 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50448110 ATAAAATATA
50448120 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
50448135 TATTAAATATATTAT
1 AATTAAATATATTAT
50448150 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
50448163 AATTTAATA
1 AATTAAATA
50448172 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:50448289 original size:14 final size:15
Alignment explanation
Indices: 50448250--50448291 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50448240 AATCAACATA
*
50448250 ATTATTATTAAATAT
1 ATTATAATTAAATAT
50448265 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
50448279 A-TATAATTTAATA
1 ATTATAATTAAATA
50448292 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:50448409 original size:14 final size:15
Alignment explanation
Indices: 50448360--50448411 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
50448350 ATAAAATATA
50448360 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
50448375 TATTAAATATATTAT
1 AATTAAATATATTAT
50448390 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
50448403 AATTTAATA
1 AATTAAATA
50448412 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:50448545 original size:120 final size:120
Alignment explanation
Indices: 50448004--50448536 Score: 978
Period size: 120 Copynumber: 4.4 Consensus size: 120
50447994 ATCATATTTA
50448004 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
50448069 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
50448124 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
50448189 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATC
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
50448244 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
50448309 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
50448364 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
50448429 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * * *
50448484 GGA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
50448537 TAAAATAATT
Statistics
Matches: 402, Mismatches: 10, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
120 401 1.00
121 1 0.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:50448591 original size:101 final size:93
Alignment explanation
Indices: 50448477--50448759 Score: 299
Period size: 91 Copynumber: 3.0 Consensus size: 93
50448467 ACTATAAAAG
** * * *
50448477 ATAATTTGGAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
50448541 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
50448578 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
50448641 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
50448669 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
*
50448732 AATCATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
50448760 CTAAAATCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 15
0.84 0.09 0.08
Matches are distributed among these distances:
91 87 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 47 0.29
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:50448606 original size:26 final size:28
Alignment explanation
Indices: 50448577--50448637 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
50448567 TATGAATTTG
*
50448577 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
50448603 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
50448631 TAAAATT
1 TATAATT
50448638 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:50448647 original size:91 final size:90
Alignment explanation
Indices: 50448552--50448759 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 90
50448542 TAATTATAAC
* * * *
50448552 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
50448617 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
50448643 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
50448708 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
*
50448734 TCATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
50448760 CTAAAATCAA
Statistics
Matches: 107, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
91 86 0.80
92 21 0.20
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:50448719 original size:44 final size:43
Alignment explanation
Indices: 50448577--50448719 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
50448567 TATGAATTTG
* *
50448577 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
50448621 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
50448668 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
50448712 TATAATTT
1 TATAATTT
50448720 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:50448734 original size:47 final size:47
Alignment explanation
Indices: 50448596--50448734 Score: 128
Period size: 47 Copynumber: 3.0 Consensus size: 47
50448586 AAATAATTAT
* * *
50448596 TATTACATATAATTTAATAATAATATATAATTTCATAAAATTCTTGA
1 TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
* * * * **
50448643 TAATAAAT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAA
1 TATTAAATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAA
50448687 TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
1 TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
50448734 T
1 T
50448735 CATAAAATGT
Statistics
Matches: 68, Mismatches: 15, Indels: 18
0.67 0.15 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 22 0.32
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (47 bp):
TATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAA
Found at i:50453326 original size:132 final size:132
Alignment explanation
Indices: 50452611--50453282 Score: 1001
Period size: 132 Copynumber: 5.1 Consensus size: 132
50452601 ATTTCTTCTG
* * *
50452611 TCTATTCCACTGTTGCCCCA-GG-AGATAGAATTACTGGCTTTAATGTACTCCACTGTAACCTCA
1 TCTATTCCACTGCTG-CCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACA
* * *
50452674 GGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGAGAGATAAGATCT-ATAATC
64 GGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA-AATC
50452738 TTCAA
128 TTCAA
* * * *
50452743 TCTATTCCACTGTTGCCCAGGG-AGATAGAATTATTGGCTTCAATGTACTCCACTGCAACCTCAG
1 TCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG
* * *
50452807 GGAGGTAAAATCCACCATCTTTGATATGCTCCACTACTGCTTAGGGAGACAAGATCTAAAATCTT
65 GGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTT
50452872 CAA
130 CAA
* *
50452875 TCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAGCCACATG
1 TCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
* * *
50452940 GAGGTAAAATTCACCATCTTTGATCTGCTTCACTACTGTTTTGGGAGACAAGATCTGAAATCTTC
66 GAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTC
50453005 AA
131 AA
* *
50453007 TCTATTCCACTGCTGCCTAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
1 TCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
* *
50453072 GAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAATCTTT
66 GAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTC
50453137 AA
131 AA
* *
50453139 TCTATTCCACTGCTGCCTAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGG
1 TCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
* * * * *
50453204 GAGGTAAAATTCACCATCTTCGATCTGCTCAACTACTGCTTGGGGAGACAATATCTGAAATCTTT
66 GAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTC
50453269 AA
131 AA
**
50453271 TCTGCTCCACTG
1 TCTATTCCACTG
50453283 TCTCCGAGGG
Statistics
Matches: 504, Mismatches: 33, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
131 4 0.01
132 497 0.99
133 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
TCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGG
GAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTC
AA
Found at i:50453948 original size:14 final size:14
Alignment explanation
Indices: 50453929--50453957 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
50453919 GTTTTAGACA
50453929 GTAAAAAATCAAAG
1 GTAAAAAATCAAAG
50453943 GTAAAAAATCAAAG
1 GTAAAAAATCAAAG
50453957 G
1 G
50453958 GATAGTCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.62, C:0.07, G:0.17, T:0.14
Consensus pattern (14 bp):
GTAAAAAATCAAAG
Found at i:50454612 original size:7 final size:7
Alignment explanation
Indices: 50454593--50454655 Score: 67
Period size: 7 Copynumber: 9.0 Consensus size: 7
50454583 TTAGCCTCTC
50454593 CATTTTT
1 CATTTTT
50454600 -ACTTTTT
1 CA-TTTTT
50454607 CATTTTT
1 CATTTTT
50454614 CATTTTT
1 CATTTTT
*
50454621 C-GTTTT
1 CATTTTT
*
50454627 CACTTTT
1 CATTTTT
50454634 CATTTTT
1 CATTTTT
*
50454641 CATTTCAT
1 CATTT-TT
50454649 CATTTTT
1 CATTTTT
50454656 TAATGACTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
6 6 0.13
7 34 0.72
8 7 0.15
ACGTcount: A:0.14, C:0.17, G:0.02, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:50454626 original size:20 final size:20
Alignment explanation
Indices: 50454593--50454655 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
50454583 TTAGCCTCTC
*
50454593 CATTTTTACTTTTTCATTTTT
1 CATTTTT-CATTTTCATTTTT
* *
50454614 CATTTTTCGTTTTCACTTTT
1 CATTTTTCATTTTCATTTTT
50454634 CATTTTTCATTTCATCATTTTT
1 CATTTTTCATTT--TCATTTTT
50454656 TAATGACTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 22 0.61
21 7 0.19
22 7 0.19
ACGTcount: A:0.14, C:0.17, G:0.02, T:0.67
Consensus pattern (20 bp):
CATTTTTCATTTTCATTTTT
Found at i:50459596 original size:7 final size:7
Alignment explanation
Indices: 50459584--50459608 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50459574 TATATGTATA
50459584 TATAAAG
1 TATAAAG
50459591 TATAAAG
1 TATAAAG
50459598 TATAAAG
1 TATAAAG
50459605 TATA
1 TATA
50459609 TAAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (7 bp):
TATAAAG
Found at i:50460265 original size:20 final size:19
Alignment explanation
Indices: 50460218--50460274 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
50460208 TCTTTTTTTT
* * *
50460218 AAATATCAGAAAAAAATAAA
1 AAATATGAGAAGAAAAT-AG
50460238 AAATATGA-AACGAAAATAG
1 AAATATGAGAA-GAAAATAG
50460257 AAATAATGAGAAGAAAAT
1 AAAT-ATGAGAAGAAAAT
50460275 CTCCAAGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 7 0.23
20 22 0.71
21 2 0.06
ACGTcount: A:0.68, C:0.04, G:0.12, T:0.16
Consensus pattern (19 bp):
AAATATGAGAAGAAAATAG
Found at i:50464223 original size:40 final size:40
Alignment explanation
Indices: 50464174--50464265 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
50464164 AACGGCGTTT
*
50464174 TTAGGGGCGTTTGGAT-AAAAACGCCGCTAAAGATCGAACA
1 TTAGCGGCGTTT-GATGAAAAACGCCGCTAAAGATCGAACA
* * * * *
50464214 TTAGCGGCGTTTTATGGAAAATGTCGCTAAAGATCGAGCA
1 TTAGCGGCGTTTGATGAAAAACGCCGCTAAAGATCGAACA
*
50464254 TTAGTGGCGTTT
1 TTAGCGGCGTTT
50464266 TTTTGGAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 42 0.95
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (40 bp):
TTAGCGGCGTTTGATGAAAAACGCCGCTAAAGATCGAACA
Found at i:50464266 original size:40 final size:41
Alignment explanation
Indices: 50464198--50464275 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 41
50464188 ATAAAAACGC
50464198 CGCTAAAGATCGAACATTAGCGGCG-TTTTATGGAAAATGT
1 CGCTAAAGATCGAACATTAGCGGCGTTTTTATGGAAAATGT
* * *
50464238 CGCTAAAGATCGAGCATTAGTGGCGTTTTTTTGGAAAA
1 CGCTAAAGATCGAACATTAGCGGCGTTTTTATGGAAAA
50464276 CTCTGCTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 23 0.68
41 11 0.32
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (41 bp):
CGCTAAAGATCGAACATTAGCGGCGTTTTTATGGAAAATGT
Found at i:50464285 original size:41 final size:40
Alignment explanation
Indices: 50464198--50464306 Score: 116
Period size: 40 Copynumber: 2.7 Consensus size: 40
50464188 ATAAAAACGC
*
50464198 CGCTAAAGATCGAACATTAGCGGCGTTTTATGGAAAATGT
1 CGCTAAAGATCGAACATTAGCGGCGTTTTATGGAAAATCT
* * *
50464238 CGCTAAAGATCGAGCATTAGTGGCGTTTTTTTGGAAAA-CT
1 CGCTAAAGATCGAACATTAGCGGCG-TTTTATGGAAAATCT
* *
50464278 CTGCTAAAAAT--AAGCATTAGCGACGTTTT
1 C-GCTAAAGATCGAA-CATTAGCGGCGTTTT
50464307 CCAGAAAGCA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 5 0.09
40 34 0.59
41 19 0.33
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (40 bp):
CGCTAAAGATCGAACATTAGCGGCGTTTTATGGAAAATCT
Found at i:50464409 original size:41 final size:41
Alignment explanation
Indices: 50464352--50464462 Score: 163
Period size: 41 Copynumber: 2.7 Consensus size: 41
50464342 TGAACTTTCG
*
50464352 GGGCTTTAGCGGCATTTTT-AGGAAAGCG-TCGCTAATGCTCA
1 GGGCTTTAGCGGCATTTTTGA-GAAAGCGCT-ACTAATGCTCA
*
50464393 GGGCTTTAGCGGCATTTTTGAGTAAGCGCTACTAATGCTCA
1 GGGCTTTAGCGGCATTTTTGAGAAAGCGCTACTAATGCTCA
*
50464434 GGGCTTTAGCGGCGTTTTTGAGAAAGCGC
1 GGGCTTTAGCGGCATTTTTGAGAAAGCGC
50464463 CGCAAAAAGT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
41 62 0.97
42 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.30
Consensus pattern (41 bp):
GGGCTTTAGCGGCATTTTTGAGAAAGCGCTACTAATGCTCA
Found at i:50464853 original size:7 final size:7
Alignment explanation
Indices: 50464843--50464908 Score: 53
Period size: 7 Copynumber: 9.6 Consensus size: 7
50464833 AGAGTTTTGA
50464843 GTTTAGG
1 GTTTAGG
*
50464850 GTTTATG
1 GTTTAGG
* *
50464857 ATGTA-G
1 GTTTAGG
*
50464863 GTTTAGT
1 GTTTAGG
**
50464870 GTTTTTG
1 GTTTAGG
50464877 GTTTAGG
1 GTTTAGG
*
50464884 GTTTAAG
1 GTTTAGG
*
50464891 ATTTAGG
1 GTTTAGG
50464898 GTTTAGG
1 GTTTAGG
50464905 GTTT
1 GTTT
50464909 GGGCCAGTTT
Statistics
Matches: 43, Mismatches: 15, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
6 4 0.09
7 39 0.91
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (7 bp):
GTTTAGG
Found at i:50464881 original size:34 final size:36
Alignment explanation
Indices: 50464837--50464908 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 36
50464827 GGGATTAGAG
* *
50464837 TTTTGAGTTTAGGGTTTATGATGTA-GGTTTAGTGT
1 TTTTGAGTTTAGGGTTTAAGATGTAGGGTTTAGGGT
*
50464872 TTTTG-GTTTAGGGTTTAAGATTTAGGGTTTAGGGT
1 TTTTGAGTTTAGGGTTTAAGATGTAGGGTTTAGGGT
50464907 TT
1 TT
50464909 GGGCCAGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 17 0.52
35 16 0.48
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (36 bp):
TTTTGAGTTTAGGGTTTAAGATGTAGGGTTTAGGGT
Found at i:50465005 original size:21 final size:21
Alignment explanation
Indices: 50464981--50465022 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50464971 TAGGGCTTGA
** *
50464981 TGTTTATGGTTTACGGTTTAC
1 TGTTTATAATTTAAGGTTTAC
50465002 TGTTTATAATTTAAGGTTTAC
1 TGTTTATAATTTAAGGTTTAC
50465023 AATGCATGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.07, G:0.19, T:0.52
Consensus pattern (21 bp):
TGTTTATAATTTAAGGTTTAC
Found at i:50466559 original size:122 final size:122
Alignment explanation
Indices: 50466392--50466636 Score: 404
Period size: 122 Copynumber: 2.0 Consensus size: 122
50466382 CAACTGCTTT
*
50466392 CCCTGACATACAACATTAGGATTCTATGTTATATACACTTTGAACCTTTCTGCA-TTCAGCATTG
1 CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTT-AGCATTG
* *
50466456 ACTTGAAAACTGGGAATCTAAGCTCAGAAATTGTGA-ATGGATCAAGTGGCACCTCATA
65 ACTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGACA-GGATCAAGTGGCACCTCATA
* *
50466514 CCCTTACATGCAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTTAGCATTGA
1 CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTTAGCATTGA
*
50466579 CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGACAGTATCAAGTGGCACCTCATA
66 CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGACAGGATCAAGTGGCACCTCATA
50466636 C
1 C
50466637 AGCATGCATC
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
122 112 0.97
123 3 0.03
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (122 bp):
CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTTAGCATTGA
CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGACAGGATCAAGTGGCACCTCATA
Found at i:50468585 original size:43 final size:43
Alignment explanation
Indices: 50468487--50468710 Score: 263
Period size: 43 Copynumber: 5.3 Consensus size: 43
50468477 GATATGTTTT
* * *
50468487 TAGCGGCGTTTATGTGAAAAGTGCCGCTAAAGGTC-TGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTA
* * *
50468529 TAGCTGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTA
* * * * * *
50468572 TAGCGGAGTTTGTGGGATAAGCGCCGCTAAAGATCTTGATCTG
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTA
* * * *
50468615 TAGCGGCGTTTG-CGTAAAAGTGCCGCTAAAGGTCCTGATTTA
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTA
* **
50468657 TAGCGGTGTTTGTCAGAAAAGTGCCGCTAAAGGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTA
50468700 TAGCGGCGTTT
1 TAGCGGCGTTT
50468711 ATTTCTAAAA
Statistics
Matches: 152, Mismatches: 28, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 63 0.41
43 89 0.59
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTA
Found at i:50468634 original size:85 final size:85
Alignment explanation
Indices: 50468502--50468710 Score: 249
Period size: 85 Copynumber: 2.4 Consensus size: 85
50468492 GCGTTTATGT
* * * *
50468502 GAAAAGTGCCGCTAAAGGTCTGTTCTATAGCTGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATG
1 GAAAAGCGCCGCTAAAGGTCTGATCTATAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAAGTCATG
**
50468567 ATCTATAGCGGAGTTTGTGG
66 ATCTATAGCGGAGTTTGTCA
* * * * * * *
50468587 GATAAGCGCCGCTAAAGATCTTGATCTGTAGCGGCGTTTG-CGTAAAAGTGCCGCTAAAGGTCCT
1 GAAAAGCGCCGCTAAAGGTC-TGATCTATAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAAGTCAT
* *
50468651 GATTTATAGCGGTGTTTGTCA
65 GATCTATAGCGGAGTTTGTCA
*
50468672 GAAAAGTGCCGCTAAAGGTCATGATCTATAGCGGCGTTT
1 GAAAAGCGCCGCTAAAGGTC-TGATCTATAGCGGCGTTT
50468711 ATTTCTAAAA
Statistics
Matches: 103, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 87 0.84
86 16 0.16
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (85 bp):
GAAAAGCGCCGCTAAAGGTCTGATCTATAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAAGTCATG
ATCTATAGCGGAGTTTGTCA
Found at i:50469033 original size:15 final size:16
Alignment explanation
Indices: 50469013--50469042 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50469003 TATAAGGGAA
50469013 TAAATATATT-TTTAT
1 TAAATATATTATTTAT
50469028 TAAATATATTATTTA
1 TAAATATATTATTTA
50469043 AATTTAAAAT
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TAAATATATTATTTAT
Found at i:50473586 original size:22 final size:22
Alignment explanation
Indices: 50473551--50473602 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
50473541 TCCTACTCGT
50473551 GAAATAGCAACAAAACAACAAC
1 GAAATAGCAACAAAACAACAAC
* *
50473573 GAAATGGCAGCAAAACAACATA-
1 GAAATAGCAACAAAACAACA-AC
50473595 GAAATAGC
1 GAAATAGC
50473603 TAATTCAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.58, C:0.19, G:0.15, T:0.08
Consensus pattern (22 bp):
GAAATAGCAACAAAACAACAAC
Found at i:50475271 original size:28 final size:28
Alignment explanation
Indices: 50475209--50475272 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
50475199 TTAATATCAA
50475209 TATAA-ATATAAATATATAATTATTATT
1 TATAATATATAAATATATAATTATTATT
* *
50475236 TA-ACATATATAATTAATATAA-TATTTTT
1 TATA-ATATATAAAT-ATATAATTATTATT
50475264 TATAATATA
1 TATAATATA
50475273 ATATATTCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
26 1 0.03
27 3 0.10
28 20 0.65
29 7 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
TATAATATATAAATATATAATTATTATT
Found at i:50479880 original size:22 final size:22
Alignment explanation
Indices: 50479852--50479894 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
50479842 ATAAGTTGTT
*
50479852 TTGCTACCATTTTGTTATTATA
1 TTGCTACCATTGTGTTATTATA
* *
50479874 TTGCTACTATTGTGTTGTTAT
1 TTGCTACCATTGTGTTATTAT
50479895 TGTTTGGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (22 bp):
TTGCTACCATTGTGTTATTATA
Found at i:50480248 original size:19 final size:19
Alignment explanation
Indices: 50480224--50480315 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
50480214 AATTTTTGAG
50480224 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
50480243 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
50480262 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
50480281 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
50480300 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
50480316 ATATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:50481502 original size:98 final size:98
Alignment explanation
Indices: 50481379--50481573 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
50481369 AAAAATCATG
*
50481379 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
50481444 AAATCTTGGATAAATGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAATGGATGTTCTTTTAAAGTA
* *
50481477 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
* *
50481542 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAATGGATGTTCTTTTAAAGT
50481574 TTTATTGTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAATGGATGTTCTTTTAAAGTA
Found at i:50485126 original size:13 final size:12
Alignment explanation
Indices: 50485105--50485140 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
50485095 GTTCAGATTC
50485105 AAAAAAAAAACA
1 AAAAAAAAAACA
50485117 AAAAACAAAAACA
1 AAAAA-AAAAACA
50485130 AAAATAAAAAA
1 AAAA-AAAAAA
50485141 TGAAAGTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 16 0.73
14 1 0.05
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:50486945 original size:131 final size:132
Alignment explanation
Indices: 50486388--50487305 Score: 1272
Period size: 132 Copynumber: 7.0 Consensus size: 132
50486378 TTCCTCGTTT
* *
50486388 GTAGTCGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * *
50486453 TAGTAATTCTACTTCCCTGGGTAGCAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
50486518 CA
131 CA
* * * * *
50486520 GTAGTGGAGTAAATCGAAGATGGCGGATTTTACCTCACTGTGGTTATAGTGGAGTATATAGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * ** ** *
50486585 CAGTAATTCTACTTCCCTGGGCAGCAGTAGAATAGATTAAAGATAGCAGATCTTGCCTTCCT--G
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
*
50486648 TA
131 CA
* * * * *
50486650 TTGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTGTAGTGGAGTACATTAA
1 --G-TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
* * *
50486715 AGTCAATAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
63 AGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
*
50486780 AAGAA
128 AAGCA
* *
50486785 GTAGTGGAGTAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * **
50486850 CAGTAATTCTACTTCCTTAGGCAATAGT-GAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
50486914 CA
131 CA
* * *
50486916 GTAGTGGAGCAGATTGAAGATGGCAGATTTTACCTCCATGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
*
50486981 TAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
50487046 CA
131 CA
* * * *
50487048 GTAGTGGAGCAGATTGAAGATTGCGGATTTTACCTCCCTGTAGTTACAGT-GAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * **
50487112 TAGTAATTCTACTTCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
*
50487177 TA
131 CA
* * * *
50487179 GTAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGT
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * *
50487244 CAGTAATTCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCT
66 CAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
50487306 GCAGTTGCAG
Statistics
Matches: 695, Mismatches: 82, Indels: 18
0.87 0.10 0.02
Matches are distributed among these distances:
130 2 0.00
131 243 0.35
132 338 0.49
133 110 0.16
135 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (132 bp):
GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
CA
Found at i:50487053 original size:263 final size:264
Alignment explanation
Indices: 50486388--50487305 Score: 1321
Period size: 263 Copynumber: 3.5 Consensus size: 264
50486378 TTCCTCGTTT
* *
50486388 GTAGTCGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTATAGTGGAGTACATTGAAG-
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGT
* *
50486452 CTAGTAATTCTACTTCCCTGGGTAGCAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
66 C-AGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
* * * * *
50486517 GCAGTAGTGGAGTAAATCGAAGATGGCGGATTTTACCTCACTGTGGTTATAGTGGAGTATATAGA
130 GCAGTAGTGGAGTAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
* ** * ** ** *
50486582 AGCCAGTAATTCTACTTCCCTGGGCAGCAGTAGAATAGATTAAAGATAGCAGATCTTGCCTTCCT
195 AGCCAGTAATTCTACTTCCCTAGGCAATAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCT
50486647 --GTA
260 AAGTA
* * * * *
50486650 TTGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTGTAGTGGAGTACATTAA
1 --G-TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
* *
50486715 AGTCAATAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
63 AGTCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
*
50486780 AAGAAGTAGTGGAGTAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATT
128 AAGCAGTAGTGGAGTAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATT
*
50486845 GAAGCCAGTAATTCTACTTCCTTAGGCAATAGT-GAATAGATTGAAGATTTCAGATCTTATCTCC
193 GAAGCCAGTAATTCTACTTCCCTAGGCAATAGTAGAATAGATTGAAGATTTCAGATCTTATCTCC
*
50486909 CTAAGCA
258 CTAAGTA
* * *
50486916 GTAGTGGAGCAGATTGAAGATGGCAGATTTTACCTCCATGTGGTTATAGTGGAGTACATTGAAG-
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGT
50486980 CTAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
66 C-AGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
* * * * *
50487045 GCAGTAGTGGAGCAGATTGAAGATTGCGGATTTTACCTCCCTGTAGTTACAGT-GAGTACATTGA
130 GCAGTAGTGGAGTAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
* *
50487109 AGCTAGTAATTCTACTTCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
195 AGCCAGTAATTCTACTTCCCTAGGCAATAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCT
50487174 AAGTA
260 AAGTA
* * *
50487179 GTAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGT
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGT
* * *
50487244 CAGTAATTCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCT
66 CAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
50487306 GCAGTTGCAG
Statistics
Matches: 589, Mismatches: 56, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
262 42 0.07
263 310 0.53
264 33 0.06
265 201 0.34
266 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (264 bp):
GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGT
CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
CAGTAGTGGAGTAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAA
GCCAGTAATTCTACTTCCCTAGGCAATAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCTA
AGTA
Found at i:50487558 original size:19 final size:19
Alignment explanation
Indices: 50487534--50487625 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
50487524 AATTTTTGAG
50487534 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
50487553 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
50487572 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
50487591 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
50487610 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
50487626 ATATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:50488808 original size:98 final size:98
Alignment explanation
Indices: 50488685--50488879 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
50488675 AAAAATCATG
*
50488685 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
50488750 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
50488783 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
50488848 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
50488880 TTTATTGTAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:50500469 original size:24 final size:24
Alignment explanation
Indices: 50500425--50500472 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
50500415 AATAGCTCCA
* *
50500425 AAGAGCAATTAATGAGTAGCATCG
1 AAGAGCAATTAACGAGAAGCATCG
*
50500449 AAGAGCAATTAACGGGAAGCATCG
1 AAGAGCAATTAACGAGAAGCATCG
50500473 GATAGCCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.17
Consensus pattern (24 bp):
AAGAGCAATTAACGAGAAGCATCG
Found at i:50500571 original size:26 final size:25
Alignment explanation
Indices: 50500506--50500565 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 25
50500496 AAGCAAGCAC
*
50500506 TAACGGGAAGCTCACAAAGAGCCTT
1 TAACGGGAAGCTCACAAAGAGCCTA
*
50500531 TAATCGGGAAGCTCACGAAGAGCCATA
1 TAA-CGGGAAGCTCACAAAGAGCC-TA
50500558 TAACGGGA
1 TAACGGGA
50500566 CACTCATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 3 0.10
26 24 0.77
27 4 0.13
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.15
Consensus pattern (25 bp):
TAACGGGAAGCTCACAAAGAGCCTA
Found at i:50505445 original size:18 final size:19
Alignment explanation
Indices: 50505408--50505452 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
50505398 TAGGAAGTAG
50505408 ACAAAAAAAAAACATCATCA
1 ACAAAAAAAAAACA-CATCA
* *
50505428 CCAAAAAAAAAAGA-ATCA
1 ACAAAAAAAAAACACATCA
50505446 ACAAAAA
1 ACAAAAA
50505453 GTTTTGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.73, C:0.18, G:0.02, T:0.07
Consensus pattern (19 bp):
ACAAAAAAAAAACACATCA
Found at i:50506169 original size:21 final size:21
Alignment explanation
Indices: 50506136--50506176 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50506126 TTCTCCTTCA
* *
50506136 ACTTCCTATAATATATTATCT
1 ACTTCCTAAAATAGATTATCT
*
50506157 ACTTTCTAAAATAGATTATC
1 ACTTCCTAAAATAGATTATC
50506177 ACATAATCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.02, T:0.44
Consensus pattern (21 bp):
ACTTCCTAAAATAGATTATCT
Found at i:50512378 original size:20 final size:20
Alignment explanation
Indices: 50512353--50512420 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
50512343 AAGACACCAG
*
50512353 AATATCGTAGTTCATAATGA
1 AATATCATAGTTCATAATGA
*
50512373 AATATCAATA-TCTTATAATGA
1 AATATC-ATAGT-TCATAATGA
50512394 AATATCATAGTTCATAATGA
1 AATATCATAGTTCATAATGA
50512414 AATATCA
1 AATATCA
50512421 ATATCTCATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 25 0.60
21 17 0.40
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (20 bp):
AATATCATAGTTCATAATGA
Found at i:50512392 original size:21 final size:21
Alignment explanation
Indices: 50512364--50512431 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
50512354 ATATCGTAGT
50512364 TCATAATGAAATATCAATATC
1 TCATAATGAAATATCAATATC
*
50512385 TTATAATGAAATATC-ATAGT-
1 TCATAATGAAATATCAATA-TC
50512405 TCATAATGAAATATCAATATC
1 TCATAATGAAATATCAATATC
50512426 TCATAA
1 TCATAA
50512432 AATCATTTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 18 0.43
21 24 0.57
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (21 bp):
TCATAATGAAATATCAATATC
Found at i:50512398 original size:41 final size:41
Alignment explanation
Indices: 50512353--50512431 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
50512343 AAGACACCAG
* *
50512353 AATATCGTAGTTCATAATGAAATATCAATATCTTATAATGA
1 AATATCATAGTTCATAATGAAATATCAATATCTCATAATGA
50512394 AATATCATAGTTCATAATGAAATATCAATATCTCATAA
1 AATATCATAGTTCATAATGAAATATCAATATCTCATAA
50512432 AATCATTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (41 bp):
AATATCATAGTTCATAATGAAATATCAATATCTCATAATGA
Found at i:50515313 original size:40 final size:40
Alignment explanation
Indices: 50515262--50515349 Score: 167
Period size: 40 Copynumber: 2.2 Consensus size: 40
50515252 CATTAAGCCT
50515262 CCTGCTAGACATTAAGTCTGTAAAGTTCACCGGCATTAAG
1 CCTGCTAGACATTAAGTCTGTAAAGTTCACCGGCATTAAG
*
50515302 CCTGCTAGACATTAAGTCTGTAAAGTTCATCGGCATTAAG
1 CCTGCTAGACATTAAGTCTGTAAAGTTCACCGGCATTAAG
50515342 CCTGCTAG
1 CCTGCTAG
50515350 GCACAGGACC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (40 bp):
CCTGCTAGACATTAAGTCTGTAAAGTTCACCGGCATTAAG
Found at i:50519401 original size:16 final size:16
Alignment explanation
Indices: 50519369--50519411 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
50519359 TCATCATGTA
50519369 ATACTTCCATATACAT
1 ATACTTCCATATACAT
50519385 ATACATTCCATAT-CAT
1 ATAC-TTCCATATACAT
50519401 AT--TTCCATATA
1 ATACTTCCATATA
50519412 ACTTATACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 8 0.32
16 9 0.36
17 8 0.32
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (16 bp):
ATACTTCCATATACAT
Found at i:50521261 original size:46 final size:46
Alignment explanation
Indices: 50521194--50521408 Score: 265
Period size: 46 Copynumber: 4.6 Consensus size: 46
50521184 TAAGTGTAGC
** **
50521194 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
50521240 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
50521286 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
50521338 CACTT-TCCAC-TTGTCACTTGATCAGATAAGTGTAG-CTAAGCTAC
1 CACTTAT-CACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
50521382 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
50521409 AGTACTCAAT
Statistics
Matches: 151, Mismatches: 9, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
44 15 0.10
45 41 0.27
46 52 0.34
49 1 0.01
51 1 0.01
52 41 0.27
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:50521313 original size:52 final size:52
Alignment explanation
Indices: 50521237--50521402 Score: 213
Period size: 52 Copynumber: 3.3 Consensus size: 52
50521227 TAGCTAAAGC
* * *
50521237 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
50521290 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
50521342 T-T--C----CACTTGTCACTTGATCAGATAAGTGTAG-CTAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
50521386 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
50521403 ATCAGAAGTA
Statistics
Matches: 100, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
44 12 0.12
45 29 0.29
47 1 0.01
49 1 0.01
51 1 0.01
52 44 0.44
53 12 0.12
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:50521354 original size:45 final size:43
Alignment explanation
Indices: 50521290--50521408 Score: 166
Period size: 45 Copynumber: 2.7 Consensus size: 43
50521280 AGCTATCACT
50521290 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCAC-TTTCACTTGTCACTTGATCAGATAAGTGTAG-CGAAGC
*
50521335 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAGC
1 TATCACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCGAAGC
* *
50521379 TACCACTTATCACTTTATCACTTGATCAGA
1 TATCACTT-TCAC-TTGTCACTTGATCAGA
50521409 AGTACTCAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
44 18 0.26
45 50 0.74
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (43 bp):
TATCACTTTCACTTGTCACTTGATCAGATAAGTGTAGCGAAGC
Found at i:50533107 original size:22 final size:24
Alignment explanation
Indices: 50533074--50533135 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
50533064 CCGTTGGGAT
50533074 TTTTATTAGCGGCGCTAAT-GCATA
1 TTTT-TTAGCGGCGCTAATAGCATA
** *
50533098 -TTTTTAGCGGCGCTTCTAGCTTA
1 TTTTTTAGCGGCGCTAATAGCATA
50533121 TTTTTTAGCGGCGCT
1 TTTTTTAGCGGCGCT
50533136 TTCTCACAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.36
23 7 0.21
24 14 0.42
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (24 bp):
TTTTTTAGCGGCGCTAATAGCATA
Found at i:50537421 original size:22 final size:23
Alignment explanation
Indices: 50537371--50537428 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
50537361 GCTTGTGAGA
50537371 AAGCGCCGCTAAAAAATAAGCTAG
1 AAGCGCCGCT-AAAAATAAGCTAG
* *
50537395 AAGCGCCGCTAAAAATATGC-AT
1 AAGCGCCGCTAAAAATAAGCTAG
*
50537417 TAGCGCCGCTAA
1 AAGCGCCGCTAA
50537429 TAAAAATCCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 12 0.39
23 9 0.29
24 10 0.32
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (23 bp):
AAGCGCCGCTAAAAATAAGCTAG
Found at i:50537566 original size:42 final size:44
Alignment explanation
Indices: 50537463--50537568 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 44
50537453 GTAGCCTTCG
* *
50537463 GAGGGCTTTAGTGGCGTTTTT--GTATTAGCGCCGCTAATGCTTT
1 GAGGGTTTTAGTGGCGTTTTTAAGTATTA-CGCCGCTAATGCGTT
* * *
50537506 GA--CTTTTAGCGGCATTTTTAAGTATT-CGCCGCTAATG-GTT
1 GAGGGTTTTAGTGGCGTTTTTAAGTATTACGCCGCTAATGCGTT
50537546 GAGGGTTTTAGTGGCGTTTTTAA
1 GAGGGTTTTAGTGGCGTTTTTAA
50537569 TCAACCGCCG
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
40 4 0.08
41 24 0.47
42 16 0.31
43 7 0.14
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (44 bp):
GAGGGTTTTAGTGGCGTTTTTAAGTATTACGCCGCTAATGCGTT
Found at i:50538635 original size:13 final size:13
Alignment explanation
Indices: 50538614--50538676 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 13
50538604 GATATAAGGT
50538614 TTAGGGGTTAGGG
1 TTAGGGGTTAGGG
* *
50538627 TTAGTGGTTAGGAAT
1 TTAGGGGTTAGG--G
50538642 TTAGGGGTTAGGGG
1 TTAGGGGTTA-GGG
*
50538656 TTAGGGATTTAGGG
1 TTAGGG-GTTAGGG
50538670 TTTAGGG
1 -TTAGGG
50538677 TGTCAAGGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
13 11 0.28
14 9 0.22
15 18 0.45
16 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (13 bp):
TTAGGGGTTAGGG
Found at i:50538652 original size:22 final size:22
Alignment explanation
Indices: 50538624--50538676 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
50538614 TTAGGGGTTA
*
50538624 GGGTTAGTGGTTAGGAATTTAG
1 GGGTTAGGGGTTAGGAATTTAG
*
50538646 GGGTTAGGGGTTAGGGATTTAG
1 GGGTTAGGGGTTAGGAATTTAG
*
50538668 GGTTTAGGG
1 GGGTTAGGG
50538677 TGTCAAGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.34
Consensus pattern (22 bp):
GGGTTAGGGGTTAGGAATTTAG
Found at i:50538677 original size:7 final size:7
Alignment explanation
Indices: 50538611--50538677 Score: 57
Period size: 7 Copynumber: 9.4 Consensus size: 7
50538601 TGAGATATAA
50538611 GGTTTAG
1 GGTTTAG
*
50538618 GGGTTAG
1 GGTTTAG
50538625 GG-TTAG
1 GGTTTAG
50538631 TGG-TTAG
1 -GGTTTAG
*
50538638 GAATTTAG
1 G-GTTTAG
*
50538646 GGGTTAG
1 GGTTTAG
*
50538653 GGGTTAG
1 GGTTTAG
50538660 GGATTTAG
1 GG-TTTAG
50538668 GGTTTAG
1 GGTTTAG
50538675 GGT
1 GGT
50538678 GTCAAGGGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
6 5 0.10
7 35 0.69
8 11 0.22
ACGTcount: A:0.18, C:0.00, G:0.46, T:0.36
Consensus pattern (7 bp):
GGTTTAG
Found at i:50540005 original size:22 final size:22
Alignment explanation
Indices: 50539964--50540007 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
50539954 AATTCATGAA
*
50539964 TTTTTTTTCCCTTTTCTCTCTT
1 TTTTTTTTCCCTTCTCTCTCTT
50539986 TTTTTTCTTCCCTTCT-TCTCTT
1 TTTTTT-TTCCCTTCTCTCTCTT
50540008 CTCCTTGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTTTTCCCTTCTCTCTCTT
Found at i:50551892 original size:23 final size:22
Alignment explanation
Indices: 50551860--50551958 Score: 60
Period size: 23 Copynumber: 4.3 Consensus size: 22
50551850 TTACTTGAAA
*
50551860 TTAATAATATTATTATAAAAAT
1 TTAAAAATATTATTATAAAAAT
*
50551882 TGTAAAAATATTTTTA-AAAAACGT
1 T-TAAAAATATTATTATAAAAA--T
* *
50551906 TT-AAAATATTTTTTTATAAAAT
1 TTAAAAATATTATTATA-AAAAT
* *
50551928 TATAAAATATATAATTCT-AAAAT
1 T-TAAAA-ATATTATTATAAAAAT
50551951 TCTAAAAA
1 T-TAAAAA
50551959 GGTATTTAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
22 20 0.32
23 26 0.42
24 9 0.15
25 7 0.11
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAAAATATTATTATAAAAAT
Found at i:50552083 original size:24 final size:25
Alignment explanation
Indices: 50552054--50552100 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50552044 TTAAATTATA
50552054 TATTTT-AAAATTTTTATAAAAATT
1 TATTTTCAAAATTTTTATAAAAATT
* *
50552078 TATTTTCAAACTTTTTTTAAAAA
1 TATTTTCAAAATTTTTATAAAAA
50552101 AATTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTTCAAAATTTTTATAAAAATT
Found at i:50552256 original size:14 final size:14
Alignment explanation
Indices: 50552237--50552304 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 14
50552227 TAAAAGTATT
50552237 TTTTAATATTTAAA
1 TTTTAATATTTAAA
50552251 TTTTAATATTATAAA
1 TTTTAATATT-TAAA
50552266 TTTCT-AT-TTT-AA
1 TTT-TAATATTTAAA
50552278 -TTTAA-ATTTAATA
1 TTTTAATATTTAA-A
*
50552291 TTTTTAT-TTTAAA
1 TTTTAATATTTAAA
50552304 T
1 T
50552305 AAACCTAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 17
0.71 0.02 0.27
Matches are distributed among these distances:
10 1 0.02
11 6 0.13
12 3 0.07
13 4 0.09
14 21 0.47
15 9 0.20
16 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAATATTTAAA
Found at i:50552273 original size:27 final size:26
Alignment explanation
Indices: 50552243--50552304 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
50552233 TATTTTTTAA
50552243 TATTTAAATTTTAATATTATAA-ATTTC
1 TATTTAAATTTTAA-ATT-TAATATTTC
* *
50552270 TATTTTAA-TTTAAATTTAATATTTT
1 TATTTAAATTTTAAATTTAATATTTC
50552295 TATTTTAAAT
1 TA-TTTAAAT
50552305 AAACCTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 3 0.10
25 9 0.31
26 10 0.34
27 7 0.24
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTTAAATTTTAAATTTAATATTTC
Found at i:50553643 original size:7 final size:7
Alignment explanation
Indices: 50553610--50553642 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
50553600 CCGGTCCATC
50553610 GGCCTTA
1 GGCCTTA
50553617 GGCCTTA
1 GGCCTTA
50553624 GGCCTTA
1 GGCCTTA
*
50553631 GGCCTCA
1 GGCCTTA
50553638 GGCCT
1 GGCCT
50553643 CTTAGCTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.33, G:0.30, T:0.24
Consensus pattern (7 bp):
GGCCTTA
Found at i:50574021 original size:49 final size:49
Alignment explanation
Indices: 50573966--50574160 Score: 309
Period size: 49 Copynumber: 4.0 Consensus size: 49
50573956 TTCGTTTTCT
* * *
50573966 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* * *
50574015 CGATGCCATAGCCCAGCTATGGTCTTACACGGAGTCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* *
50574064 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
50574113 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACA-AATCACAT
50574161 GTTCACATGT
Statistics
Matches: 136, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
49 130 0.96
50 6 0.04
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
Found at i:50575460 original size:36 final size:37
Alignment explanation
Indices: 50575413--50575485 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
50575403 TACGTATGAT
50575413 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCCCTTGATCAGATAAGTGTAGC
*
50575449 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCCCTTGATCAGATAAGTGTAGC
50575486 TAAAGCTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 10 0.29
37 25 0.71
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTCCCTTGATCAGATAAGTGTAGC
Done.