Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 45 of 85
Found at i:15093429 original size:13 final size:13
Alignment explanation
Indices: 15093411--15093443 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
15093401 CACTTTAAAA
15093411 TAAAATACTGTGG
1 TAAAATACTGTGG
15093424 TAAAATACTGTGG
1 TAAAATACTGTGG
15093437 TAAAATA
1 TAAAATA
15093444 AAATAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (13 bp):
TAAAATACTGTGG
Found at i:15093429 original size:18 final size:18
Alignment explanation
Indices: 15093406--15093448 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 18
15093396 CTCCGCACTT
15093406 TAAAATAAAATACTGTGG
1 TAAAATAAAATACTGTGG
15093424 -----TAAAATACTGTGG
1 TAAAATAAAATACTGTGG
15093437 TAAAATAAAATA
1 TAAAATAAAATA
15093449 AAAGTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 10
0.67 0.00 0.33
Matches are distributed among these distances:
13 13 0.65
18 7 0.35
ACGTcount: A:0.53, C:0.05, G:0.14, T:0.28
Consensus pattern (18 bp):
TAAAATAAAATACTGTGG
Found at i:15100849 original size:20 final size:20
Alignment explanation
Indices: 15100826--15100874 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
15100816 AGAGGCATCG
15100826 AAGTGCAAACAGAGACACCA
1 AAGTGCAAACAGAGACACCA
* *
15100846 AAGTGCAAACAGAGGCACCG
1 AAGTGCAAACAGAGACACCA
*
15100866 GAGTGCAAA
1 AAGTGCAAA
15100875 TCCCCTATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.45, C:0.22, G:0.27, T:0.06
Consensus pattern (20 bp):
AAGTGCAAACAGAGACACCA
Found at i:15107923 original size:17 final size:17
Alignment explanation
Indices: 15107901--15107934 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15107891 TAGGTTTTTT
15107901 TTTCTTTTTTTAAAAAA
1 TTTCTTTTTTTAAAAAA
15107918 TTTCTTTTTTTAAAAAA
1 TTTCTTTTTTTAAAAAA
15107935 ATGTATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTCTTTTTTTAAAAAA
Found at i:15107928 original size:18 final size:17
Alignment explanation
Indices: 15107901--15107936 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
15107891 TAGGTTTTTT
*
15107901 TTTCTTTTTTTAAAAAA
1 TTTCTTTTTTAAAAAAA
15107918 TTTCTTTTTTTAAAAAAA
1 TTTC-TTTTTTAAAAAAA
15107936 T
1 T
15107937 GTATGTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTCTTTTTTAAAAAAA
Found at i:15108759 original size:217 final size:216
Alignment explanation
Indices: 15108368--15109050 Score: 1161
Period size: 217 Copynumber: 3.1 Consensus size: 216
15108358 GCCTAGAAAG
* * *
15108368 TAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
1 TAAGATCTGAAATTCTTCGATCTATTCCACTATAATCTCAGGGAGATAAGACCTGATGTGATCTA
* *
15108433 CTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAA
66 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAA
*
15108498 ATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTTAGGGAGATAAGATTCCATTTTCGATTA
131 ATAGGATTACTAGCTTCAATCTGCTCCGC-GTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
*
15108563 GCTTCACTACTGCTTAGGGAGA
195 GCTCCACTACTGCTTAGGGAGA
*
15108585 TAAGATCTGAAATTCTTCGATCTATTCCACTATAATCTCAGGGAGATAAGACCTGATGCGATCTA
1 TAAGATCTGAAATTCTTCGATCTATTCCACTATAATCTCAGGGAGATAAGACCTGATGTGATCTA
15108650 CTCTA-TAGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGA
66 CTCTACT-GTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGA
*
15108714 AATAGGATTACTAGCTTCAATCTGCTCTGCGATAATCTCAGGGAGATAAGATTCCATTTTCGATT
130 AATAGGATTACTAGCTTCAATCTGCTCCGCG-TAATCTCAGGGAGATAAGATTCCATTTTCGATT
*
15108779 AGCTCCACTACCGCTTAGGGAGA
194 AGCTCCACTACTGCTTAGGGAGA
* * * *
15108802 TAAGATCTAAAATTCATCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTA
1 TAAGATCTGAAATTCTTCGATCTATTCCACTATAATCTCAGGGAGATAAGACCTGATGTGATCTA
* *
15108867 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCTCTCCACTGTAATCTTAGGGAG
66 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAA
*
15108932 ATAGGATTACTAGCTTCAATCTGCTCCGTTGTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
131 ATAGGATTACTAGCTTCAATCTGCTCCG-CGTAATCTCAGGGAGATAAGATTCCATTTTCGATTA
15108997 GCTCCACTACTGCTTAGGGAGA
195 GCTCCACTACTGCTTAGGGAGA
*
15109019 TAAGATCTGAAATTCTTCAATCTATTCCACTA
1 TAAGATCTGAAATTCTTCGATCTATTCCACTA
15109051 CTGATCAGGG
Statistics
Matches: 437, Mismatches: 25, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
216 2 0.00
217 433 0.99
218 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (216 bp):
TAAGATCTGAAATTCTTCGATCTATTCCACTATAATCTCAGGGAGATAAGACCTGATGTGATCTA
CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTTAGGGAA
ATAGGATTACTAGCTTCAATCTGCTCCGCGTAATCTCAGGGAGATAAGATTCCATTTTCGATTAG
CTCCACTACTGCTTAGGGAGA
Found at i:15109140 original size:129 final size:129
Alignment explanation
Indices: 15108989--15109423 Score: 669
Period size: 129 Copynumber: 3.4 Consensus size: 129
15108979 AGATTCCATT
* * * *
15108989 TTCGAT-TAGCTCCACTACTGCTTAGGGAGATAAGATCTG-AAATTCTTCAATCTATTCCACTAC
1 TTCGATCT-GCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTC-CCAACCTATTCCACTAC
*
15109052 TGATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGT
64 TGATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGT
15109117 C
129 C
* *
15109118 TTCGATCTGCTCCACTATTGCTTAGGGAGACAAGATTTGTAATTTCCCAACCTATTCCACTACTG
1 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTACTG
* * * *
15109183 ATCAGGGATATAGAACTTGTGGTTTAAATCTGCTTCTTTACACTTGAAGATAAGATTCACCGTC
66 ATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTC
* ** *
15109247 TTCGATTTGCTCCGTTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTACTG
1 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTACTG
* *
15109312 ATCAGGGATATAGGAC-TGTGGCTTAAATTTGCTTTCTTACACTTGAAGATAAGATTCGCCGTC
66 ATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTC
*
15109375 TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCCA
1 TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCCA
15109424 GATCTGTTCT
Statistics
Matches: 280, Mismatches: 24, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
128 88 0.31
129 186 0.66
130 6 0.02
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.34
Consensus pattern (129 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCCACTACTG
ATCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTC
Found at i:15110657 original size:7 final size:7
Alignment explanation
Indices: 15110638--15110682 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
15110628 TTAGCCTCTC
15110638 CATTTTT
1 CATTTTT
15110645 -ACTTTTT
1 CA-TTTTT
15110652 CATTTTTT
1 CA-TTTTT
15110660 CATTTTT
1 CATTTTT
15110667 CA-TTTT
1 CATTTTT
15110673 CATTTTT
1 CATTTTT
15110680 CAT
1 CAT
15110683 CATTTTTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
6 7 0.21
7 19 0.56
8 8 0.24
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:15110658 original size:8 final size:8
Alignment explanation
Indices: 15110647--15110698 Score: 56
Period size: 8 Copynumber: 6.6 Consensus size: 8
15110637 CCATTTTTAC
15110647 TTTTTCAT
1 TTTTTCAT
15110655 TTTTTCA-
1 TTTTTCAT
15110662 TTTTTCA-
1 TTTTTCAT
15110669 -TTTTCAT
1 TTTTTCAT
15110676 TTTTCATCAT
1 TTTT--TCAT
*
15110686 TTTTTCCT
1 TTTTTCAT
15110694 TTTTT
1 TTTTT
15110699 TTTTGACTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
6 6 0.15
7 7 0.18
8 18 0.46
10 8 0.21
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTTCAT
Found at i:15110665 original size:15 final size:15
Alignment explanation
Indices: 15110638--15110682 Score: 60
Period size: 13 Copynumber: 3.2 Consensus size: 15
15110628 TTAGCCTCTC
*
15110638 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
15110652 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
15110667 CA--TTTTCATTTTT
1 CATTTTTTCATTTTT
15110680 CAT
1 CAT
15110683 CATTTTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 13 0.46
14 8 0.29
15 7 0.25
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:15111576 original size:13 final size:14
Alignment explanation
Indices: 15111554--15111604 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 14
15111544 TGGCCTCTCC
* *
15111554 TTTTTATTTTTCT-
1 TTTTCATTTTTTTA
15111567 TTTTC-TTTTTTTA
1 TTTTCATTTTTTTA
15111580 TTTTCATTTTTTTGA
1 TTTTCATTTTTTT-A
*
15111595 TTTTGATTTT
1 TTTTCATTTT
15111605 GATTTTGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 6 0.19
13 9 0.28
14 7 0.22
15 10 0.31
ACGTcount: A:0.10, C:0.06, G:0.04, T:0.80
Consensus pattern (14 bp):
TTTTCATTTTTTTA
Found at i:15111590 original size:15 final size:15
Alignment explanation
Indices: 15111567--15111604 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
15111557 TTATTTTTCT
15111567 TTTTC-TTTTTTT-A
1 TTTTCATTTTTTTGA
15111580 TTTTCATTTTTTTGA
1 TTTTCATTTTTTTGA
*
15111595 TTTTGATTTT
1 TTTTCATTTT
15111605 GATTTTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.23
14 7 0.32
15 10 0.45
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (15 bp):
TTTTCATTTTTTTGA
Found at i:15111598 original size:6 final size:6
Alignment explanation
Indices: 15111589--15111656 Score: 136
Period size: 6 Copynumber: 11.3 Consensus size: 6
15111579 ATTTTCATTT
15111589 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
15111637 TTTTGA TTTTGA TTTTGA TT
1 TTTTGA TTTTGA TTTTGA TT
15111657 GATTTTTTTC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:15111706 original size:35 final size:34
Alignment explanation
Indices: 15111643--15111715 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 34
15111633 TTGATTTTGA
*
15111643 TTTTGATTTTGATTGATTTTTTTCTTTTTCATTT
1 TTTTGACTTTGATTGATTTTTTTCTTTTTCATTT
*
15111677 TTTTGACTTTGATTTTGA-TTTTTTCTTTTTCTTTT
1 TTTTGACTTTGA--TTGATTTTTTTCTTTTTCATTT
15111712 TTTT
1 TTTT
15111716 TTTGAATCAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
34 11 0.31
35 20 0.57
36 4 0.11
ACGTcount: A:0.10, C:0.07, G:0.08, T:0.75
Consensus pattern (34 bp):
TTTTGACTTTGATTGATTTTTTTCTTTTTCATTT
Found at i:15111718 original size:40 final size:40
Alignment explanation
Indices: 15111572--15111712 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 40
15111562 TTTCTTTTTC
* *
15111572 TTTTTTT-ATTTTCATTTTTTTGATTTTGATTTTGATTTTGA
1 TTTTTTTCTTTTTCATTTTTTTGACTTTGATTTTGA--TTGA
* *
15111613 TTTTGATTT-TGATTTTGATTTTGATTTTGATTTTGATTTTGATTGA
1 TTTT--TTTCT--TTTTCA-TTT--TTTTGACTTTGATTTTGATTGA
**
15111659 TTTTTTTCTTTTTCATTTTTTTGACTTTGATTTTGATTTT
1 TTTTTTTCTTTTTCATTTTTTTGACTTTGATTTTGATTGA
15111699 TTCTTTTTCTTTTT
1 TT-TTTTTCTTTTT
15111713 TTTTTTGAAT
Statistics
Matches: 85, Mismatches: 6, Indels: 18
0.78 0.06 0.17
Matches are distributed among these distances:
40 21 0.25
41 15 0.18
42 3 0.04
43 8 0.09
44 3 0.04
45 6 0.07
46 11 0.13
48 18 0.21
ACGTcount: A:0.13, C:0.04, G:0.11, T:0.72
Consensus pattern (40 bp):
TTTTTTTCTTTTTCATTTTTTTGACTTTGATTTTGATTGA
Found at i:15115965 original size:12 final size:14
Alignment explanation
Indices: 15115943--15115981 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
15115933 AGGAAAATTT
*
15115943 TAATAATAATATAAA
1 TAATAAT-ATATACA
*
15115958 TGATAATATATACA
1 TAATAATATATACA
15115972 TAATAATATA
1 TAATAATATA
15115982 CAAAAGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
TAATAATATATACA
Found at i:15117986 original size:6 final size:6
Alignment explanation
Indices: 15117975--15118002 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15117965 GATCTCATCT
15117975 CTCTTC CTCTTC CTCTTC CTCTTC CTCT
1 CTCTTC CTCTTC CTCTTC CTCTTC CTCT
15118003 CGCTATCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
CTCTTC
Found at i:15120355 original size:12 final size:12
Alignment explanation
Indices: 15120338--15120363 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15120328 CAAACCAGGC
15120338 TTTTAGCGGCGT
1 TTTTAGCGGCGT
15120350 TTTTAGCGGCGT
1 TTTTAGCGGCGT
15120362 TT
1 TT
15120364 GGACAAAAAA
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:15120423 original size:40 final size:40
Alignment explanation
Indices: 15120371--15120485 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 40
15120361 TTTGGACAAA
*
15120371 AAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTATAG
1 AAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTATAG
** * * * *
15120411 AAACGCCGCTAAAGGTCGAGCATTAGTGGCGC-TTTCTGG
1 AAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTATAG
*
15120450 AAAGCGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTT
1 AAA-CGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT
15120486 TGAAAAGCGC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
39 20 0.33
40 41 0.67
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (40 bp):
AAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTATAG
Found at i:15120493 original size:39 final size:40
Alignment explanation
Indices: 15120369--15120503 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
15120359 CGTTTGGACA
* *
15120369 AAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTTAT-
1 AAAAGCGCCGCTAAAAATCAAGCATTAGCGGCG-TTTTATG
** * * * *
15120409 AGAAA-CGCCGCTAAAGGTCGAGCATTAGTGGCGCTTTCTG
1 A-AAAGCGCCGCTAAAAATCAAGCATTAGCGGCGTTTTATG
* *
15120449 GAAAGCGCCGCTAAAAAT-AAGCATTAGCGGCGTTTTTTG
1 AAAAGCGCCGCTAAAAATCAAGCATTAGCGGCGTTTTATG
15120488 AAAAGCGCCGC-AAAAA
1 AAAAGCGCCGCTAAAAA
15120504 GCCTAAGCCC
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 5 0.06
39 34 0.44
40 35 0.45
41 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (40 bp):
AAAAGCGCCGCTAAAAATCAAGCATTAGCGGCGTTTTATG
Found at i:15120593 original size:41 final size:41
Alignment explanation
Indices: 15120539--15120737 Score: 294
Period size: 41 Copynumber: 4.9 Consensus size: 41
15120529 TAAGTTTTGG
* **
15120539 GGCCTTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTGG
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCC
** *
15120580 GGCCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCC
**
15120621 GGCCTTTAGCGGCGTTTTTGATGAAGCGCCGCTAATGCT-C
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCC
15120661 GGCCTTTAGCGGCGTTTTTGAAGAAA-CGCCGCTAATGCTCC
1 GGCCTTTAGCGGCGTTTTTGAA-AAAGCGCCGCTAATGCTCC
*
15120702 GGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
15120738 AATAATAAAA
Statistics
Matches: 145, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
40 37 0.26
41 108 0.74
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.28
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCC
Found at i:15120699 original size:81 final size:82
Alignment explanation
Indices: 15120539--15120737 Score: 319
Period size: 81 Copynumber: 2.4 Consensus size: 82
15120529 TAAGTTTTGG
* * *
15120539 GGCCTTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTGGGGCCTTTAGCGGCGTTTTTGAGGA
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTGCGGCCTTTAGCGGCGTTTTTGAAGA
* *
15120604 AGCGCCGCTAATGCTCT
66 AACGCCGCTAATGCTCC
**
15120621 GGCCTTTAGCGGCGTTTTTGATGAAGCGCCGCTAATGCT-CGGCCTTTAGCGGCGTTTTTGAAGA
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTGCGGCCTTTAGCGGCGTTTTTGAAGA
15120685 AACGCCGCTAATGCTCC
66 AACGCCGCTAATGCTCC
*
15120702 GGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
15120738 AATAATAAAA
Statistics
Matches: 107, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 71 0.66
82 36 0.34
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.28
Consensus pattern (82 bp):
GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTGCGGCCTTTAGCGGCGTTTTTGAAGA
AACGCCGCTAATGCTCC
Found at i:15121405 original size:21 final size:22
Alignment explanation
Indices: 15121374--15121444 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
15121364 TATATTAAAT
15121374 AAGGTTTAGGGGTTAGGGGTTA
1 AAGGTTTAGGGGTTAGGGGTTA
* *
15121396 AAGG-TTAGGGGCTGGGGGTTA
1 AAGGTTTAGGGGTTAGGGGTTA
** * * *
15121417 TGGGTTTAGGGTTTAGGGTTTT
1 AAGGTTTAGGGGTTAGGGGTTA
15121439 AAGGTT
1 AAGGTT
15121445 CAAGGTTAAG
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
21 17 0.46
22 20 0.54
ACGTcount: A:0.18, C:0.01, G:0.45, T:0.35
Consensus pattern (22 bp):
AAGGTTTAGGGGTTAGGGGTTA
Found at i:15121435 original size:7 final size:7
Alignment explanation
Indices: 15121418--15121480 Score: 54
Period size: 7 Copynumber: 8.7 Consensus size: 7
15121408 TGGGGGTTAT
15121418 GGGTTTA
1 GGGTTTA
15121425 GGGTTTA
1 GGGTTTA
15121432 GGGTTTTA
1 GGG-TTTA
* *
15121440 AGGTTCA
1 GGGTTTA
* *
15121447 AGGTTAA
1 GGGTTTA
*
15121454 GGGTTCA
1 GGGTTTA
15121461 GGGTTTA
1 GGGTTTA
*
15121468 GGATTTAA
1 GGGTTT-A
15121476 GGGTT
1 GGGTT
15121481 AATGGTCGGG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
7 35 0.76
8 11 0.24
ACGTcount: A:0.21, C:0.03, G:0.38, T:0.38
Consensus pattern (7 bp):
GGGTTTA
Found at i:15121480 original size:29 final size:30
Alignment explanation
Indices: 15121418--15121482 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
15121408 TGGGGGTTAT
* *
15121418 GGGTTTAGGGTTTAGGGTTTTAAGGTTCAA
1 GGGTTAAGGGTTCAGGGTTTTAAGGTTCAA
*
15121448 -GGTTAAGGGTTCAGGG-TTT-AGGATTTAA
1 GGGTTAAGGGTTCAGGGTTTTAAGG-TTCAA
15121476 GGGTTAA
1 GGGTTAA
15121483 TGGTCGGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.10
28 7 0.23
29 20 0.67
ACGTcount: A:0.23, C:0.03, G:0.37, T:0.37
Consensus pattern (30 bp):
GGGTTAAGGGTTCAGGGTTTTAAGGTTCAA
Found at i:15124801 original size:57 final size:57
Alignment explanation
Indices: 15124737--15124851 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
15124727 GAAGGAAGTG
*
15124737 AAGCATGCACGCCAAGGTCAAAGAGATGCTGAGAGCAAGCTCTCTTCATTAGAGGCA
1 AAGCATGCACGCCAAGGTCAAAGAGATGCTGAGAGAAAGCTCTCTTCATTAGAGGCA
15124794 AAGCATGCACGCCAAGGTCAAAGAGATGCTGAGAGAAAGCTCTCTTCATTAGAGGCA
1 AAGCATGCACGCCAAGGTCAAAGAGATGCTGAGAGAAAGCTCTCTTCATTAGAGGCA
15124851 A
1 A
15124852 GTATTATCAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (57 bp):
AAGCATGCACGCCAAGGTCAAAGAGATGCTGAGAGAAAGCTCTCTTCATTAGAGGCA
Found at i:15128052 original size:42 final size:42
Alignment explanation
Indices: 15128006--15128117 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 42
15127996 GTTTTTAGTT
* * ***
15128006 GCGTTTTTGGAAGAAGCGTCGCTAAATGT-TTGTTCTATAGCG
1 GCGTTTGTGGAA-AAGCGTCGCTAAAGGTCTTCAACTATAGCG
*
15128048 GCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTCAACTATAGCG
1 GCGTTTGTGG-AAAAGCGTCGCTAAAGGTCTTCAACTATAGCG
15128091 GCGTTTGTGGAAAAAGCGTCGCTAAAG
1 GCGTTTGTGG-AAAAGCGTCGCTAAAG
15128118 ATCCTAATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 23 0.38
43 37 0.62
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (42 bp):
GCGTTTGTGGAAAAGCGTCGCTAAAGGTCTTCAACTATAGCG
Found at i:15129339 original size:19 final size:20
Alignment explanation
Indices: 15129314--15129352 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15129304 TTTTCAAATT
15129314 TATATATTTTATAAAAAATGA
1 TATAT-TTTTATAAAAAATGA
*
15129335 TATATTTTTATTAAAAAT
1 TATATTTTTATAAAAAAT
15129353 ATTACATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATATTTTTATAAAAAATGA
Found at i:15129633 original size:9 final size:9
Alignment explanation
Indices: 15129619--15129668 Score: 66
Period size: 9 Copynumber: 5.4 Consensus size: 9
15129609 TTCGCATTCT
15129619 TCTCTCAAC
1 TCTCTCAAC
*
15129628 TCTCTCAAT
1 TCTCTCAAC
15129637 TCTCTCAAAC
1 TCTCTC-AAC
15129647 TCTCTCAAGC
1 TCTCTCAA-C
15129657 -CTCTCAAC
1 TCTCTCAAC
15129665 TCTC
1 TCTC
15129669 GTTTTAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
8 1 0.03
9 26 0.72
10 9 0.25
ACGTcount: A:0.22, C:0.42, G:0.02, T:0.34
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:15129649 original size:19 final size:18
Alignment explanation
Indices: 15129618--15129668 Score: 75
Period size: 19 Copynumber: 2.8 Consensus size: 18
15129608 ATTCGCATTC
15129618 TTCTCTCAACTCTCTCAA
1 TTCTCTCAACTCTCTCAA
15129636 TTCTCTCAAACTCTCTCAA
1 TTCTCTC-AACTCTCTCAA
**
15129655 GCCTCTCAACTCTC
1 TTCTCTCAACTCTC
15129669 GTTTTAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 14 0.47
19 16 0.53
ACGTcount: A:0.22, C:0.41, G:0.02, T:0.35
Consensus pattern (18 bp):
TTCTCTCAACTCTCTCAA
Found at i:15133972 original size:81 final size:81
Alignment explanation
Indices: 15133868--15134030 Score: 245
Period size: 81 Copynumber: 2.0 Consensus size: 81
15133858 ATTAATAATG
* * * *
15133868 CCTTGGAAAAATGGTATCTACTTTATTGCACAGAAGATTTCTCAAATGGCCTACCTCTAATGAAA
1 CCTTGGAAAAATGGTAACTACTTTATTGCACAAAAGAGTTCTAAAATGGCCTACCTCTAATGAAA
*
15133933 GCAAAACTGCAAGTTA
66 GCAAAACCGCAAGTTA
* * * *
15133949 CCTTGGCAAAATGGTAACTACTTTATTGCACAAAAGAGTTCTAAAATGGCCTACCTTTCATGAGA
1 CCTTGGAAAAATGGTAACTACTTTATTGCACAAAAGAGTTCTAAAATGGCCTACCTCTAATGAAA
15134014 GCAAAACCGCAAGTTA
66 GCAAAACCGCAAGTTA
15134030 C
1 C
15134031 ATTGTCTGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (81 bp):
CCTTGGAAAAATGGTAACTACTTTATTGCACAAAAGAGTTCTAAAATGGCCTACCTCTAATGAAA
GCAAAACCGCAAGTTA
Found at i:15144431 original size:45 final size:44
Alignment explanation
Indices: 15144351--15144441 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
15144341 ACATCTATTC
* *
15144351 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTAATCCAATA
*** *
15144395 CATTCAACCAAACAGTTGATTTGCTATTACGCCTCTAATCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTACGCCTCTAATCCAATA
15144440 CA
1 CA
15144442 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.07, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTAATCCAATA
Found at i:15144447 original size:16 final size:16
Alignment explanation
Indices: 15144426--15144457 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15144416 TGCTATTACG
15144426 CCTCTAATCCAATACA
1 CCTCTAATCCAATACA
15144442 CCTCTAATCCAATACA
1 CCTCTAATCCAATACA
15144458 GCGAACCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
CCTCTAATCCAATACA
Found at i:15154784 original size:205 final size:205
Alignment explanation
Indices: 15154432--15154844 Score: 826
Period size: 205 Copynumber: 2.0 Consensus size: 205
15154422 ACATGCTCTC
15154432 TAATTGGCCTATCTTGATCATCCACCACATGTCCAATGGGAGGATTTTCATTGCGATCATTTGGA
1 TAATTGGCCTATCTTGATCATCCACCACATGTCCAATGGGAGGATTTTCATTGCGATCATTTGGA
15154497 TTACCATTAAGATCATTCATGTTTCCAGCCATTTTTCTTAATTATTTTCTCTTACTCTGCAAGGT
66 TTACCATTAAGATCATTCATGTTTCCAGCCATTTTTCTTAATTATTTTCTCTTACTCTGCAAGGT
15154562 TCTACAAATCTCTAGATCAAAAAGGTATTCTGTGTTAGCAGAAATACCTCTTCTCATGTACTGAT
131 TCTACAAATCTCTAGATCAAAAAGGTATTCTGTGTTAGCAGAAATACCTCTTCTCATGTACTGAT
15154627 GGCAAACTTG
196 GGCAAACTTG
15154637 TAATTGGCCTATCTTGATCATCCACCACATGTCCAATGGGAGGATTTTCATTGCGATCATTTGGA
1 TAATTGGCCTATCTTGATCATCCACCACATGTCCAATGGGAGGATTTTCATTGCGATCATTTGGA
15154702 TTACCATTAAGATCATTCATGTTTCCAGCCATTTTTCTTAATTATTTTCTCTTACTCTGCAAGGT
66 TTACCATTAAGATCATTCATGTTTCCAGCCATTTTTCTTAATTATTTTCTCTTACTCTGCAAGGT
15154767 TCTACAAATCTCTAGATCAAAAAGGTATTCTGTGTTAGCAGAAATACCTCTTCTCATGTACTGAT
131 TCTACAAATCTCTAGATCAAAAAGGTATTCTGTGTTAGCAGAAATACCTCTTCTCATGTACTGAT
15154832 GGCAAACTTG
196 GGCAAACTTG
15154842 TAA
1 TAA
15154845 AAACTAAATA
Statistics
Matches: 208, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 208 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (205 bp):
TAATTGGCCTATCTTGATCATCCACCACATGTCCAATGGGAGGATTTTCATTGCGATCATTTGGA
TTACCATTAAGATCATTCATGTTTCCAGCCATTTTTCTTAATTATTTTCTCTTACTCTGCAAGGT
TCTACAAATCTCTAGATCAAAAAGGTATTCTGTGTTAGCAGAAATACCTCTTCTCATGTACTGAT
GGCAAACTTG
Found at i:15162336 original size:26 final size:27
Alignment explanation
Indices: 15162286--15162336 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
15162276 TTTTCTGAAA
* *
15162286 TTTTTTAATTCTAAAAATAAGTTTTAC
1 TTTTTTAATTCTAAAAACAACTTTTAC
*
15162313 TTTTTTAATT-TAAAAACGACTTTT
1 TTTTTTAATTCTAAAAACAACTTTT
15162337 TGAAGAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (27 bp):
TTTTTTAATTCTAAAAACAACTTTTAC
Found at i:15165659 original size:4 final size:4
Alignment explanation
Indices: 15165652--15165678 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15165642 AGGAAGGCAA
15165652 GTGG GTGG GTGG GTGG GTGG GTGG GTG
1 GTGG GTGG GTGG GTGG GTGG GTGG GTG
15165679 AGTGAGCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.74, T:0.26
Consensus pattern (4 bp):
GTGG
Found at i:15172234 original size:51 final size:51
Alignment explanation
Indices: 15172179--15172372 Score: 166
Period size: 51 Copynumber: 3.8 Consensus size: 51
15172169 ATGTAAAAGT
* * * *
15172179 GAAAGTGAT-GGTCACGTGTCTAGTACTATGTGTAGGCTACTACGTGTACTA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-TG
* * *
15172230 GAAA--GATAGGTCACATGTGTAGTACTATGTGCAGACTACTATGCGTATCG
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAT-G
* * * ** * *
15172280 GATAGCT--TCGATCAGGTGTGTAGTACTATGTGCAGGTTACTACTTGTATTG
1 GAAAG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-TG
* *
15172331 GATAGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
15172373 TGTGAACCGG
Statistics
Matches: 113, Mismatches: 22, Indels: 16
0.75 0.15 0.11
Matches are distributed among these distances:
49 4 0.04
50 37 0.33
51 70 0.62
52 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.32
Consensus pattern (51 bp):
GAAAGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATG
Found at i:15172450 original size:46 final size:43
Alignment explanation
Indices: 15172378--15172462 Score: 116
Period size: 46 Copynumber: 1.9 Consensus size: 43
15172368 TACTATGTGA
*
15172378 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
* *
15172421 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGA
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGA
15172463 ATTCACAGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 5 0.14
44 11 0.31
45 2 0.06
46 18 0.50
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
Found at i:15172646 original size:37 final size:38
Alignment explanation
Indices: 15172577--15172649 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
15172567 ATGTGCGGAA
* * *
15172577 TTGAATTGAATATTGACTTGAAAATGACAAAGTGAATT
1 TTGAATTAAATAGTGACTTGAAAATGAAAAAGTGAATT
*
15172615 TTGAATTAAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTAAATAGTGACTTGAAAATGAAAAAGTGAA
15172650 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.32
Consensus pattern (38 bp):
TTGAATTAAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:15180177 original size:23 final size:24
Alignment explanation
Indices: 15180142--15180186 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
15180132 TAATTCATTT
* *
15180142 TTTTATTTCATTAA-TAAATTGGG
1 TTTTAATTAATTAAGTAAATTGGG
15180165 TTTTAATTAATTAAGTAAATTG
1 TTTTAATTAATTAAGTAAATTG
15180187 ATTAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (24 bp):
TTTTAATTAATTAAGTAAATTGGG
Found at i:15191069 original size:19 final size:19
Alignment explanation
Indices: 15191047--15191084 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15191037 TTAGTCATTC
15191047 CTCATCCTATCA-TCTCTCA
1 CTCATCC-ATCATTCTCTCA
*
15191066 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
15191085 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:15195150 original size:22 final size:23
Alignment explanation
Indices: 15195101--15195159 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 23
15195091 TCTTCTATTT
* *
15195101 CTTGATTCTCTCTTGGTGGTTTTC
1 CTTGATTCTCTCTAGGTGG-TTTA
15195125 CTTGATTCTCTCTAGGTGG-TTA
1 CTTGATTCTCTCTAGGTGGTTTA
*
15195147 CTTGATTTTCTCT
1 CTTGATTCTCTCT
15195160 TCCTCCAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 14 0.44
24 18 0.56
ACGTcount: A:0.08, C:0.20, G:0.19, T:0.53
Consensus pattern (23 bp):
CTTGATTCTCTCTAGGTGGTTTA
Found at i:15196234 original size:23 final size:23
Alignment explanation
Indices: 15196191--15196235 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
15196181 TTTGTTAACA
* * *
15196191 CACTTCGGTGTTGTCCTATTACG
1 CACTTCGGTGCTATCCCATTACG
15196214 CACTTCGGTGCTATCCCATTAC
1 CACTTCGGTGCTATCCCATTAC
15196236 ACGCTCCGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.31, G:0.18, T:0.36
Consensus pattern (23 bp):
CACTTCGGTGCTATCCCATTACG
Found at i:15202247 original size:32 final size:32
Alignment explanation
Indices: 15202211--15202274 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
15202201 ACTCTTTTTT
* * *
15202211 TCTCTCCTATTTTTTTTGTTTGAAACCAAAAA
1 TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
15202243 TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
1 TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
15202275 AAATTTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (32 bp):
TCTCTCCCATTTTATTTGTTTGAAACAAAAAA
Found at i:15202876 original size:21 final size:21
Alignment explanation
Indices: 15202837--15202876 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15202827 TAAAATTAAA
*
15202837 TTATAAAAAAAATGTAAAAAT
1 TTATAAAAAAAATGAAAAAAT
**
15202858 TTATAAAAATCATGAAAAA
1 TTATAAAAAAAATGAAAAA
15202877 TTATCAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (21 bp):
TTATAAAAAAAATGAAAAAAT
Found at i:15204096 original size:140 final size:140
Alignment explanation
Indices: 15203834--15204357 Score: 409
Period size: 126 Copynumber: 4.0 Consensus size: 140
15203824 GTCGCACCCA
* * *
15203834 CGTGTACGCGCTTTTGCTACAATAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAA
1 CGTGTACGCGCTTTTACTACAATAGGTCCTAGAAAAATAATTTCGACTTGACATTTCTGAGCAAA
* * * * *
15203899 TAGTTTAAAAAACGCTTCAAGCAGGATGCTTTGTGAGAAGAATTTGTGAAATTGTGCCCTCGTGG
66 TAGCTTAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGTGCCCACGTGG
15203964 ACGCTGCCCT
131 ACGCTGCCCT
* * * *
15203974 CGTG-ACGCGCTTTTACTACAGTTGGTCCTAGAAGAAATAATTTCGAGTTGACATTTTTGAGCAA
1 CGTGTACGCGCTTTTACTACAATAGGTCCTAGAA-AAATAATTTCGACTTGACATTTCTGAGCAA
15204038 ATAGCTTAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTGT-AAAGTCGTGCCCACGT
65 ATAGCTTAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTGTGAAA-TCGTGCCCACGT
15204102 GGA---------
129 GGACGCTGCCCT
* * * * * * **
15204105 C--G--C-C-CTTTTGCTACAGTAGGTCCT-GAAAACGTAATTTTGAGTTGACGTTTCTGAAAAA
1 CGTGTACGCGCTTTTACTACAATAGGTCCTAGAAAA-ATAATTTCGACTTGACATTTCTGAGCAA
* * * *
15204163 ATAG-TATAAAACAATGCTGCAAGCAGCATGCTATT-TGAGAAGAATTTGTGAAA---T-----C
65 ATAGCT-TAAAA-AACGCTTCAAGCAGGATGCT-TTATAAGAAGAATTTGTGAAATCGTGCCCAC
15204218 ---G-C-C--CCCT
127 GTGGACGCTGCCCT
* * * * * *
15204225 CGTGGACGCGCTTTTGCTATAGTTGGTCCTGGAAAAATAATTTCGACTTGACATTTCTGAGCAAA
1 CGTGTACGCGCTTTTACTACAATAGGTCCTAGAAAAATAATTTCGACTTGACATTTCTGAGCAAA
* * * * * * *
15204290 TAGCAT-AAAATCGCTTCTAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACATGG
66 TAGCTTAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGTGCCCACGTGG
15204354 ACGC
131 ACGC
15204358 GCTTTTGCTA
Statistics
Matches: 309, Mismatches: 40, Indels: 73
0.73 0.09 0.17
Matches are distributed among these distances:
115 1 0.00
118 1 0.00
120 1 0.00
122 1 0.00
123 3 0.01
124 36 0.12
125 38 0.12
126 93 0.30
127 11 0.04
128 1 0.00
129 1 0.00
131 1 0.00
132 1 0.00
135 1 0.00
136 1 0.00
137 1 0.00
139 28 0.09
140 89 0.29
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (140 bp):
CGTGTACGCGCTTTTACTACAATAGGTCCTAGAAAAATAATTTCGACTTGACATTTCTGAGCAAA
TAGCTTAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTGTGAAATCGTGCCCACGTGG
ACGCTGCCCT
Found at i:15204194 original size:126 final size:125
Alignment explanation
Indices: 15203969--15204372 Score: 471
Period size: 126 Copynumber: 3.2 Consensus size: 125
15203959 CGTGGACGCT
* * * *
15203969 GCCCTCGT-GACGCGCTTTTACTACAGTTGGTCCTAGAAGAAATAATTTCGAGTTGACATTTTTG
1 GCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAGAA-AAATAATTTCGAGTTGACATTTCTG
* * *
15204033 AGCAAATAGCT-TAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTGT-AAAGTCGT
65 AGCAAATAG-TATAAAAAATGCTTCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAA-TCGC
* * * *
15204094 GCCCACGTGGACGCCCTTTTGCTACAGTAGGTCCT-GAAAACGTAATTTTGAGTTGACGTTTCTG
1 GCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAGAAAA-ATAATTTCGAGTTGACATTTCTG
** * *
15204158 AAAAAATAGTATAAAACAATGCTGCAAGCAGCATGCTATT-TGAGAAGAATTTGTGAAATCGC
65 AGCAAATAGTATAAAA-AATGCTTCAAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGC
* * * * * *
15204220 CCCCTCGTGGACGCGCTTTTGCTATAGTTGGTCCTGGAAAAATAATTTCGACTTGACATTTCTGA
1 GCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAGAAAAATAATTTCGAGTTGACATTTCTGA
* * *
15204285 GCAAATAGCAT--AAAATCGCTTCTAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGC
66 GCAAATAGTATAAAAAAT-GCTTCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGC
*
15204344 GCCCACATGGACGCGCTTTTGCTACAGTA
1 GCCCACGTGGACGCGCTTTTGCTACAGTA
15204373 ACATGTTTGG
Statistics
Matches: 234, Mismatches: 36, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
123 5 0.02
124 64 0.27
125 41 0.18
126 114 0.49
127 10 0.04
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (125 bp):
GCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAGAAAAATAATTTCGAGTTGACATTTCTGA
GCAAATAGTATAAAAAATGCTTCAAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGC
Found at i:15205559 original size:22 final size:22
Alignment explanation
Indices: 15205518--15206256 Score: 887
Period size: 22 Copynumber: 34.0 Consensus size: 22
15205508 TTAAATTATA
15205518 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
15205539 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
15205561 TTAAAGTTAAAGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
15205583 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
15205605 TTCAGGTTAAAGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
15205626 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
15205648 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
15205669 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
15205691 TTTAAGTTAAGGTTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
15205713 TTAAAGTTAAGGGTTTAGGGTA
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
15205735 TTAAAGTTAAAGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
15205757 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
15205778 TTTAGGTTAAGGG-TTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
15205799 TTTAATTTAAAGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
15205821 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
15205843 TTTTAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
15205865 TTAAAGTTAAGGGTTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* *
15205886 TTTAGGTTAAGGGTTTAGTG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* *
15205907 TTTAGGTTAAGGG-CTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
* *
15205927 TTTAGGTTTAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
15205949 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
15205971 TTTAAGTTAAGGGCTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
15205993 TTTAGGTTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
15206014 TTTAGGTTAAGGGCTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
15206036 TTTAATTTAAAGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
15206057 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
15206079 TTTAAGTTAA-GGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
15206100 TTTAGGTTATGGG-TTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
15206121 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
15206143 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
15206164 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
15206185 TTTAGGTTAAGGGGTTAGGGGT
1 TTTAAGTTAAGGGTTTAGGGTT
15206207 TTTAAGTTAAGGGTTATGGTTAGGGTT
1 TTTAAGTTAAGGG---T--TTAGGGTT
* *
15206234 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
15206256 T
1 T
15206257 GTCAATTAAA
Statistics
Matches: 627, Mismatches: 75, Indels: 31
0.86 0.10 0.04
Matches are distributed among these distances:
20 17 0.03
21 238 0.38
22 352 0.56
24 1 0.00
27 19 0.03
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.44
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:15205585 original size:43 final size:43
Alignment explanation
Indices: 15205518--15206256 Score: 821
Period size: 43 Copynumber: 17.0 Consensus size: 43
15205508 TTAAATTATA
*
15205518 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
15205561 TTAAAGTTAAAGGTCTAGGGTTTTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAAGGT-TAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
15205605 TTCAGGTTAAAGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
15205648 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
15205691 TTTAAGTT-AAGGTTTTAGGGTTTTAAAGTTAAGGGTTTAGGGTA
1 TTTAAGTTAAAGG--TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
15205735 TTAAAGTTAAAGGTCTAGGGTTTTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAAGGT-TAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * * * *
15205778 TTTAGGTTAAGGGTTAGAGTTTTTAATTTAAAGGTTTAAGGTT
1 TTTAAGTTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
15205821 TTTAAGTTAAGGGTTTAGGGTTTTTTAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAAGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
15205865 TTAAAGTTAAGGGTTTAGGG-TTTTAGGTTAAGGGTTTAGTG-T
1 TTTAAGTTAAAGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * * *
15205907 TTTAGGTTAAGGGCTAGGG-TTTTAGGTTTAGGGTTTAGGGTT
1 TTTAAGTTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
15205949 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGCTTAGGGTT
1 TTTAAGTTAAAGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
15205993 TTTAGGTT-AAGGTTTAGGGTTTTTAGGTTAAGGGCTTAGGGTT
1 TTTAAGTTAAAGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
*
15206036 TTTAATTTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
15206079 TTTAAGTT-AAGGTCTAGGGTTTTTAGGTTATGGG-TTATGGTT
1 TTTAAGTTAAAGGT-TAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
15206121 TTTAGGTTAAGGGTTTATGGTTTTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAAGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
15206164 TTTAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGGTTAGGGGT
1 TTTAAGTTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
15206207 TTTAAGTTAAGGGTTATGGTTAGGGTTTTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAA-----A-GGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
15206256 T
1 T
15206257 GTCAATTAAA
Statistics
Matches: 598, Mismatches: 77, Indels: 36
0.84 0.11 0.05
Matches are distributed among these distances:
41 24 0.04
42 81 0.14
43 290 0.48
44 169 0.28
45 4 0.01
49 30 0.05
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.44
Consensus pattern (43 bp):
TTTAAGTTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:15205886 original size:7 final size:7
Alignment explanation
Indices: 15205874--15205971 Score: 62
Period size: 7 Copynumber: 14.0 Consensus size: 7
15205864 TTTAAAGTTA
15205874 AGGGTTT
1 AGGGTTT
15205881 AGGGTTTT
1 AGGG-TTT
*
15205889 A-GGTTA
1 AGGGTTT
15205895 AGGGTTT
1 AGGGTTT
*
15205902 AGTGTTTT
1 AG-GGTTT
*
15205910 A-GGTTA
1 AGGGTTT
*
15205916 AGGG-CT
1 AGGGTTT
15205922 AGGGTTTT
1 AGGG-TTT
15205930 A-GGTTT
1 AGGGTTT
15205936 AGGGTTT
1 AGGGTTT
15205943 AGGGTTTTT
1 AGGG--TTT
* *
15205952 A-AGTTA
1 AGGGTTT
15205958 AGGGTTT
1 AGGGTTT
15205965 AGGGTTT
1 AGGGTTT
15205972 TTAAGTTAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
6 18 0.26
7 35 0.51
8 12 0.17
9 4 0.06
ACGTcount: A:0.18, C:0.01, G:0.37, T:0.44
Consensus pattern (7 bp):
AGGGTTT
Found at i:15206220 original size:14 final size:14
Alignment explanation
Indices: 15206197--15206255 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
15206187 TAGGTTAAGG
*
15206197 GGTTAGGGGTTTTA
1 GGTTAAGGGTTTTA
* *
15206211 AGTTAAGGGTTAT-
1 GGTTAAGGGTTTTA
15206224 GGTT-AGGGTTTTTA
1 GGTTAAGGG-TTTTA
*
15206238 GGTTAAGGGTTTAA
1 GGTTAAGGGTTTTA
15206252 GGTT
1 GGTT
15206256 TGTCAATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
12 4 0.11
13 6 0.17
14 22 0.61
15 4 0.11
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
GGTTAAGGGTTTTA
Found at i:15206236 original size:27 final size:27
Alignment explanation
Indices: 15206197--15206248 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
15206187 TAGGTTAAGG
15206197 GGTTAGGGGTTTTAAGTTAAGGGTTAT
1 GGTTAGGGGTTTTAAGTTAAGGGTTAT
* *
15206224 GGTTAGGGTTTTTAGGTTAAGGGTT
1 GGTTAGGGGTTTTAAGTTAAGGGTT
15206249 TAAGGTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.42
Consensus pattern (27 bp):
GGTTAGGGGTTTTAAGTTAAGGGTTAT
Found at i:15206247 original size:64 final size:64
Alignment explanation
Indices: 15205524--15206227 Score: 575
Period size: 65 Copynumber: 10.9 Consensus size: 64
15205514 TATATTTAAG
* * * * *
15205524 TTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAAGGTCTAGGGTTT-TAAA
1 TTAAAGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT-TAGGGTTTAT-GA
*
15205588 G
64 T
* * * * * *
15205589 TTAAGGGTTTAGGGTTTTCAGGTTAAAGG-TTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAA
1 TTAAAGG-TTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTATGA
15205653 T
64 T
* * * * *
15205654 TTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGTTTTAGGGTTT-TAAA
1 TTAAAGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGG-GTTAGGGTTTAT-GA
*
15205718 G
64 T
* * * * * * * *
15205719 TTAAGGGTTTAGGGTATTAAAGTTAAAGGTCTAGGGTTTTAAAGTTAAGGGTTAGGGTTT-TTAG
1 TTAAAGG-TTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTATGA-
*
15205783 G
64 T
* * ** * * * * *
15205784 TTAAGGGTTAGAGTTTTTAATTTAAAGGTTTAAGGTTTTTAAGTTAAGGGTTTAGGGTTTTTTAG
1 TTAAAGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTATGAT
* * * * *
15205849 TTAAGGGTCTAGGGTTTTAAAGTTAAGGGTTTAGGG-TTTTAGGTTAAGGGTTTAGTGTTT-T-A
1 TTAAAGGT-TAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTATGA
*
15205911 GG
64 -T
* * * * * *
15205913 TTAAGGGCTAGGG-TTTTAGGTTTAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAG
1 TTAAAGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTATGAT
* * * *
15205977 TTAAGGGCTTAGGGTTTTTAGGTTAA-GGTTTAGGGTTTTTAGGTTAAGGGCTTAGGGTTTTTAA
1 TTAAAGG-TTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTATGA
15206041 T
64 T
* *
15206042 TTAAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA-GGTCTAGGGTTT-TTAG
1 TTAAAGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGT-TAGGGTTTATGA-
*
15206105 G
64 T
** * * * * * *
15206106 TTATGGGTTATGGTTTTTAGGTTAAGGGTTTATGGTTTTTAATTTAAGGGTTAGGGTTTTTAAG
1 TTAAAGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTATGAT
* * * *
15206170 TTAAGGGTTAGGGTTTTTAGGTTAAGGGGTTAGGGGTTTTAAGTTAAGGGTTATGGTT
1 TTAAAGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
15206228 AGGGTTTTTA
Statistics
Matches: 551, Mismatches: 66, Indels: 45
0.83 0.10 0.07
Matches are distributed among these distances:
62 18 0.03
63 31 0.06
64 202 0.37
65 209 0.38
66 91 0.17
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.44
Consensus pattern (64 bp):
TTAAAGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTATGAT
Found at i:15207676 original size:20 final size:20
Alignment explanation
Indices: 15207639--15207676 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15207629 TTTATTTTTA
*
15207639 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
15207659 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
15207677 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:15208414 original size:51 final size:51
Alignment explanation
Indices: 15208353--15208450 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
15208343 AATTATTTAA
15208353 AAATAGGGATTTAAGAGAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
15208404 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
15208451 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 41 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:15208426 original size:11 final size:11
Alignment explanation
Indices: 15208412--15208488 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
15208402 ATAAATATGG
15208412 ATTTGAGAGAA
1 ATTTGAGAGAA
*
15208423 ATTTTGA-AGGA
1 A-TTTGAGAGAA
15208434 ATTTGAGAGCAA
1 ATTTGAGAG-AA
15208446 A-TTGAGAGGAA
1 ATTTGAGA-GAA
15208457 ATTT-AGAAGAA
1 ATTTGAG-AGAA
15208468 A-TTGAGAGAAA
1 ATTTGAGAG-AA
15208479 ATTTGAGAGA
1 ATTTGAGAGA
15208489 GGATTAGTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
10 9 0.16
11 28 0.51
12 18 0.33
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:15208451 original size:33 final size:33
Alignment explanation
Indices: 15208412--15208488 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
15208402 ATAAATATGG
* * *
15208412 ATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAA
1 ATTTGAGAGAAATTTAGAA-GAAATTGAGAGAAA
15208446 A-TTGAGAGGAAATTTAGAAGAAATTGAGAGAAA
1 ATTTGAGA-GAAATTTAGAAGAAATTGAGAGAAA
15208479 ATTTGAGAGA
1 ATTTGAGAGA
15208489 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 21 0.55
34 17 0.45
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAGAAGAAATTGAGAGAAA
Found at i:15209239 original size:22 final size:21
Alignment explanation
Indices: 15209217--15209256 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15209207 AATTGTTAAT
* *
15209217 ATAATTAT-TAATTTTTTGAA
1 ATAAATATATAATATTTTGAA
15209237 ATAAATATATAATATTTTGA
1 ATAAATATATAATATTTTGA
15209257 GTATACTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
ATAAATATATAATATTTTGAA
Found at i:15209616 original size:51 final size:51
Alignment explanation
Indices: 15209540--15209642 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
15209530 AGTCTAGTGA
15209540 ACCCAAAGAATTGAAGGCTAATTTGCCAATAGCTACCACCCAAAATGCCAG
1 ACCCAAAGAATTGAAGGCTAATTTGCCAATAGCTACCACCCAAAATGCCAG
15209591 ACCCAAAGAATTGAAGGCTAATTTGCCAATAGCTACCACCCAAAATGCCAG
1 ACCCAAAGAATTGAAGGCTAATTTGCCAATAGCTACCACCCAAAATGCCAG
15209642 A
1 A
15209643 TAAATTTAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.40, C:0.27, G:0.16, T:0.17
Consensus pattern (51 bp):
ACCCAAAGAATTGAAGGCTAATTTGCCAATAGCTACCACCCAAAATGCCAG
Found at i:15209917 original size:61 final size:61
Alignment explanation
Indices: 15209822--15209944 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
15209812 TAACGACGAG
15209822 TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
1 TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
15209883 TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
1 TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
15209944 T
1 T
15209945 GATCTATCCC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (61 bp):
TATGCTTGAAACAAATTTATACGGAACCTCTACCTCGGACATGCAACATGACGTCCAATGT
Found at i:15216855 original size:10 final size:11
Alignment explanation
Indices: 15216840--15216885 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
15216830 AACTAAATCC
15216840 TTTCTCTC-AA
1 TTTCTCTCAAA
*
15216850 TTTCTCTCTAA
1 TTTCTCTCAAA
15216861 TATTCTCTCAAA
1 T-TTCTCTCAAA
*
15216873 TTCCTCTCAAA
1 TTTCTCTCAAA
15216884 TT
1 TT
15216886 CCTATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 8 0.25
11 14 0.44
12 10 0.31
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (11 bp):
TTTCTCTCAAA
Found at i:15216866 original size:12 final size:10
Alignment explanation
Indices: 15216840--15216882 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
15216830 AACTAAATCC
15216840 TTTCTCTCAA
1 TTTCTCTCAA
15216850 TTTCTCTCTAA
1 TTTCTCTC-AA
15216861 TATTCTCTCAAA
1 T-TTCTCTC-AA
*
15216873 TTCCTCTCAA
1 TTTCTCTCAA
15216883 ATTCCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 10 0.34
11 9 0.31
12 10 0.34
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:15217986 original size:7 final size:7
Alignment explanation
Indices: 15217972--15218004 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
15217962 TAGTCGATTG
15217972 GTATTTA
1 GTATTTA
*
15217979 GCATTTA
1 GTATTTA
15217986 GTATTTA
1 GTATTTA
15217993 GTATTTA
1 GTATTTA
15218000 GTATT
1 GTATT
15218005 ATGTATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (7 bp):
GTATTTA
Found at i:15218689 original size:18 final size:18
Alignment explanation
Indices: 15218662--15218701 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
15218652 CAGGTACGTA
*
15218662 TCCTAGCCCTTACATGTT
1 TCCTAACCCTTACATGTT
*
15218680 TCCTAACCCTTATATGTT
1 TCCTAACCCTTACATGTT
15218698 TCCT
1 TCCT
15218702 TTTTCTAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.33, G:0.07, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTACATGTT
Found at i:15222585 original size:126 final size:126
Alignment explanation
Indices: 15222360--15222761 Score: 682
Period size: 126 Copynumber: 3.2 Consensus size: 126
15222350 CCAAACATGC
* *
15222360 GCTACTGTAGCAAAAGCGCGTCCACGTAGGAGCTTCTTTCAGTACT-TCTGCTGACAAAGCATCC
1 GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTAT-TGCTGACAAAGCATCC
* * *
15222424 TGCTTAAAGCATTTTTGACACCATTTGCTCAGAAACGTCTAGTCAAAATTATTTTTTCAAGA
65 TGCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGA
15222486 GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
*
15222551 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGA
66 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGA
* *
15222612 GCTACTATAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGTTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
* *
15222677 GCTTAAAGCCTTTTTGACACTATTTGCTCAGAAATGTCTACTCAAAATTATTTTTT-AGGA
66 GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGA
*
15222737 GCTACTGTAGCAAAAACGCGTCCAC
1 GCTACTGTAGCAAAAGCGCGTCCAC
15222762 GTAAGAGCTA
Statistics
Matches: 263, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
125 27 0.10
126 235 0.89
127 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCGTCCACATGGGAGCTTCTTTCAGTACTATTGCTGACAAAGCATCCT
GCTTAAAGCATTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGA
Found at i:15222946 original size:96 final size:95
Alignment explanation
Indices: 15222804--15222987 Score: 235
Period size: 96 Copynumber: 1.9 Consensus size: 95
15222794 ATTAACCCTA
** ** * *
15222804 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCCTAAACATTAAAGCCTAATCTATT
1 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACAATAAACACGAAA-CCTAATCCAAT
***
15222869 TTTTTTAAATTTATAATTAATTTACTCAAGT
65 TTTGAAAAATTTATAATTAATTTACTCAAGT
* *
15222900 AACCCCGAACCCTAATTTATTTGA-TTTTTCCTTAAAAAACAATAAACACGAAACCTAATCCAAT
1 AACCCCAAACCCTAATTTATTTGAGTTTTTACTT-AAAAACAATAAACACGAAACCTAATCCAAT
*
15222964 TTTGAAAAATTTATGATTAATTTA
65 TTTGAAAAATTTATAATTAATTTA
15222988 ATTAACAAAC
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
95 37 0.49
96 38 0.51
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.38
Consensus pattern (95 bp):
AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACAATAAACACGAAACCTAATCCAATT
TTGAAAAATTTATAATTAATTTACTCAAGT
Found at i:15222999 original size:95 final size:96
Alignment explanation
Indices: 15222787--15223010 Score: 236
Period size: 95 Copynumber: 2.3 Consensus size: 96
15222777 AATTAACAAA
**
15222787 TAATTTAATTAACCCTAAACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCCTAAACA
1 TAATTTAATTAA--C-AAACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACAATAAACA
** * * ***
15222852 TTAAAGCCTAATCTATTTTTTTTAAATTTATAAT
63 CGAAAGCCTAATCCAATTTTGAAAAATTTATAAT
* * ** * *
15222886 TAATTTACTCAAGTAACCCCGAACCCTAATTTATTTGA-TTTTTCCTTAAAAAACAATAAACACG
1 TAATTTAATTAACAAACCCCAAACCCTAATTTATTTGAGTTTTTACTT-AAAAACAATAAACACG
*
15222950 AAA-CCTAATCCAATTTTGAAAAATTTATGAT
65 AAAGCCTAATCCAATTTTGAAAAATTTATAAT
* *
15222981 TAATTTAATTAACAAACCCTAAACCATAAT
1 TAATTTAATTAACAAACCCCAAACCCTAAT
15223011 CCCTTATTTA
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
95 53 0.52
96 38 0.38
99 10 0.10
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (96 bp):
TAATTTAATTAACAAACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACAATAAACACGA
AAGCCTAATCCAATTTTGAAAAATTTATAAT
Found at i:15223078 original size:35 final size:33
Alignment explanation
Indices: 15223038--15223103 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
15223028 TTTGCTCTAA
*
15223038 AACCCTAAACCTAAAAACACCAAAACTCTAACCCT
1 AACCCTAAACC-AAAAAC-CCAAAACCCTAACCCT
*
15223073 AACCCTAAACCAATAACCCAAAACCCTAACC
1 AACCCTAAACCAAAAACCCAAAACCCTAACC
15223104 GCAGGACACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 13 0.45
34 5 0.17
35 11 0.38
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.12
Consensus pattern (33 bp):
AACCCTAAACCAAAAACCCAAAACCCTAACCCT
Found at i:15236111 original size:5 final size:5
Alignment explanation
Indices: 15236101--15236127 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15236091 TAAAACATAT
15236101 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
15236128 CGATTATTTT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:15247908 original size:18 final size:18
Alignment explanation
Indices: 15247881--15247920 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15247871 TAATGTTATC
*
15247881 ATTATTTTTACTACTATT
1 ATTATGTTTACTACTATT
* *
15247899 ATTATGTTTAGTACTGTT
1 ATTATGTTTACTACTATT
15247917 ATTA
1 ATTA
15247921 CTATTGTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.57
Consensus pattern (18 bp):
ATTATGTTTACTACTATT
Found at i:15248018 original size:26 final size:25
Alignment explanation
Indices: 15247974--15248059 Score: 65
Period size: 26 Copynumber: 3.4 Consensus size: 25
15247964 ACTACTACTA
15247974 TTATTATTATTAC-TCTTATTTATCTAT
1 TTATTATTATT-CGT-TTATTTAT-TAT
*
15248001 TTATTATTATTCGTTTATTAATGTA-
1 TTATTATTATTCGTTTATTTAT-TAT
* *
15248026 TGATTATTTATT-G--TATTTCTTAT
1 TTATTA-TTATTCGTTTATTTATTAT
15248049 TTATTATTATT
1 TTATTATTATT
15248060 ATCACCATGT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
22 7 0.14
23 10 0.20
25 6 0.12
26 15 0.30
27 12 0.24
ACGTcount: A:0.26, C:0.06, G:0.05, T:0.64
Consensus pattern (25 bp):
TTATTATTATTCGTTTATTTATTAT
Found at i:15250571 original size:21 final size:21
Alignment explanation
Indices: 15250542--15250603 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
15250532 CTGGTCCTCC
* *
15250542 AACAAAAGCTGATAAAAGCTA
1 AACAGAAGCTCATAAAAGCTA
* *
15250563 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCATAAAAGCTA
15250584 AACAGAAGCTCA-AAAGAGCT
1 AACAGAAGCTCATAAA-AGCT
15250604 GATCCACCCG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 2 0.06
21 33 0.94
ACGTcount: A:0.50, C:0.18, G:0.19, T:0.13
Consensus pattern (21 bp):
AACAGAAGCTCATAAAAGCTA
Found at i:15250604 original size:21 final size:21
Alignment explanation
Indices: 15250558--15250605 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
15250548 AGCTGATAAA
* *
15250558 AGCTAAACAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCAAAAG
15250579 AGCTGAACAGAAGCTCAAAAG
1 AGCTGAACAGAAGCTCAAAAG
15250600 AGCTGA
1 AGCTGA
15250606 TCCACCCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (21 bp):
AGCTGAACAGAAGCTCAAAAG
Found at i:15252769 original size:39 final size:41
Alignment explanation
Indices: 15252674--15252770 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 41
15252664 CATTTGGACA
*
15252674 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTATG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGATTTTATG
* *
15252715 -AAAGCGCCGCTAAAAAT-GAGCATTAGCGGC-ATTTTTTGG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGATTTTAT-G
*
15252754 AAAAACGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
15252771 CCTAAGCCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
38 5 0.10
39 14 0.29
40 30 0.61
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGATTTTATG
Found at i:15252875 original size:41 final size:41
Alignment explanation
Indices: 15252807--15253164 Score: 509
Period size: 41 Copynumber: 8.7 Consensus size: 41
15252797 CCTTTCGGGG
* * *
15252807 CTTTAGCGGCGTTTTTAAAAAAAGCGCCACTAATGCTTAGAT
1 CTTTAGCGGCGTTTTT-GAAAAAGCGCCGCTAATGCTCAGAT
* **
15252849 CTTTAGCAGATTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
* *
15252890 ATTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
15252931 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
*
15252972 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
* * * *
15253013 CATTAGCGGCGTTTTTGGAAAAGCACCGCTAATTCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
* *
15253054 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTACTGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
** * * **
15253095 CTTTAGCGGCGTTTTACAAAAAGCGCCACTAATGCTCGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
*
15253136 CTTTAGCGGCATTTTTGAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGC
15253165 AAAAACATTT
Statistics
Matches: 284, Mismatches: 32, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
41 271 0.95
42 13 0.05
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
Found at i:15258606 original size:43 final size:43
Alignment explanation
Indices: 15258506--15258732 Score: 321
Period size: 43 Copynumber: 5.3 Consensus size: 43
15258496 AGATTATGTT
* * * * *
15258506 TTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAAGT-TTGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
* *
15258548 TTTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
*
15258591 TATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
** *
15258634 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
**
15258677 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
*
15258720 TTTCGCGGCGTTT
1 TTTAGCGGCGTTT
15258733 TTTTCTGAAA
Statistics
Matches: 168, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
42 31 0.18
43 137 0.82
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:15258826 original size:22 final size:22
Alignment explanation
Indices: 15258796--15258837 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15258786 GGCACTTCTC
* *
15258796 AAAGTGCCGCTAAAGGCCTAAA
1 AAAGCGCCGCTAAAAGCCTAAA
15258818 AAAGCGCCGCTAAAAGCCTA
1 AAAGCGCCGCTAAAAGCCTA
15258838 TTTTGGTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAGCGCCGCTAAAAGCCTAAA
Found at i:15261832 original size:18 final size:17
Alignment explanation
Indices: 15261791--15261833 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
15261781 GTTTACAAAT
15261791 ATTTTTAAATTATTGAA
1 ATTTTTAAATTATTGAA
* *
15261808 ATCTTTTCAATTATTTATA
1 AT-TTTTAAATTATTGA-A
15261827 ATTTTTA
1 ATTTTTA
15261834 CTTGATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 2 0.10
18 16 0.76
19 3 0.14
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (17 bp):
ATTTTTAAATTATTGAA
Found at i:15266030 original size:18 final size:18
Alignment explanation
Indices: 15265995--15266029 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
15265985 ACTTTCATAA
*
15265995 ACCCTAAAAACCTATTTT
1 ACCCTAAAAACCAATTTT
15266013 ACCCT-AAAACCAATTTT
1 ACCCTAAAAACCAATTTT
15266030 TTATTTGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.40, C:0.29, G:0.00, T:0.31
Consensus pattern (18 bp):
ACCCTAAAAACCAATTTT
Found at i:15278004 original size:30 final size:30
Alignment explanation
Indices: 15277968--15278028 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
15277958 AGTAAGTTAT
15277968 GATACCTTTTCAGACTAGTTTCAGATAATC
1 GATACCTTTTCAGACTAGTTTCAGATAATC
*
15277998 GATACCTTTTCAGTCTAGTTTCAGATAATC
1 GATACCTTTTCAGACTAGTTTCAGATAATC
15278028 G
1 G
15278029 CAGCACTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (30 bp):
GATACCTTTTCAGACTAGTTTCAGATAATC
Found at i:15286564 original size:1 final size:1
Alignment explanation
Indices: 15286558--15286588 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
15286548 GAAGAAAGTG
*
15286558 TTTTTTTTTTTTTTTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15286589 CCCTTTGGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:15293562 original size:34 final size:34
Alignment explanation
Indices: 15293514--15293587 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 34
15293504 GAAGAAAAAG
* *
15293514 AAAAAATCAAAATCAAAGTCGAAAAAATGAAAATGA
1 AAAAAATC-AAATCAAAATCAAAAAAATGAAAAT-A
15293550 AAAAAATC-AATCAAAATCAAAAAAATGAAAATA
1 AAAAAATCAAATCAAAATCAAAAAAATGAAAATA
15293583 AAAAA
1 AAAAA
15293588 GAAAAAGGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 6 0.17
34 22 0.61
36 8 0.22
ACGTcount: A:0.72, C:0.08, G:0.07, T:0.14
Consensus pattern (34 bp):
AAAAAATCAAATCAAAATCAAAAAAATGAAAATA
Found at i:15293600 original size:34 final size:33
Alignment explanation
Indices: 15293535--15293605 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 33
15293525 ATCAAAGTCG
** *
15293535 AAAAAATGAAAATGAAAAAAATCAATCAAAATCA
1 AAAAAATGAAAATGAAAAAAAAAAAGCAAAAT-A
*
15293569 AAAAAATGAAAAT-AAAAAAGAAAAAGGAAAATA
1 AAAAAATGAAAATGAAAAAA-AAAAAGCAAAATA
15293602 AAAA
1 AAAA
15293606 GGAGAGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 11 0.34
34 21 0.66
ACGTcount: A:0.76, C:0.04, G:0.08, T:0.11
Consensus pattern (33 bp):
AAAAAATGAAAATGAAAAAAAAAAAGCAAAATA
Found at i:15294495 original size:13 final size:13
Alignment explanation
Indices: 15294477--15294503 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15294467 GGAAAAAATG
15294477 ATGAAAAATGAAA
1 ATGAAAAATGAAA
15294490 ATGAAAAATGAAA
1 ATGAAAAATGAAA
15294503 A
1 A
15294504 AATGAAAAAG
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:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:15294506 original size:8 final size:8
Alignment explanation
Indices: 15294462--15294512 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
15294452 TGAGTAAAAG
*
15294462 AAAAAGGA
1 AAAAATGA
15294470 AAAAATGA
1 AAAAATGA
15294478 TGAAAAATG-
1 --AAAAATGA
15294487 -AAAATG-
1 AAAAATGA
15294493 AAAAATGA
1 AAAAATGA
15294501 AAAAATGA
1 AAAAATGA
15294509 AAAA
1 AAAA
15294513 GTAAAAATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
6 6 0.16
7 6 0.16
8 19 0.50
10 7 0.18
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.12
Consensus pattern (8 bp):
AAAAATGA
Found at i:15294507 original size:15 final size:14
Alignment explanation
Indices: 15294477--15294521 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
15294467 GGAAAAAATG
15294477 ATGAAAAATG-AAA
1 ATGAAAAATGAAAA
15294490 ATGAAAAATGAAAAA
1 ATGAAAAATG-AAAA
15294505 ATGAAAAA-GTAAAA
1 ATGAAAAATG-AAAA
15294519 ATG
1 ATG
15294522 GAGAGGCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 10 0.34
14 8 0.28
15 11 0.38
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (14 bp):
ATGAAAAATGAAAA
Found at i:15296024 original size:119 final size:120
Alignment explanation
Indices: 15295793--15296030 Score: 397
Period size: 119 Copynumber: 2.0 Consensus size: 120
15295783 GAAGACAGCG
* *
15295793 AATCTTATCTTCACGAGTAAAGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGTCAACAGTG
1 AATCTTATCTTCAAGAGTAAAGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAACAGTG
* *
15295858 GAATAGGTAGGGAAATTACAGATCTTGTCTCCCTAAGTAATATCGGAGCAGATCA
66 GAATAGGTAGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCA
* *
15295913 AATCTTATCTTCAAGTGT-AAGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTG
1 AATCTTATCTTCAAGAGTAAAGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAACAGTG
* *
15295977 GAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATC
66 GAATAGGTAGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATC
15296031 GAAGACGGCG
Statistics
Matches: 110, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
119 94 0.85
120 16 0.15
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (120 bp):
AATCTTATCTTCAAGAGTAAAGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAACAGTG
GAATAGGTAGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCA
Found at i:15296305 original size:44 final size:44
Alignment explanation
Indices: 15296257--15296373 Score: 155
Period size: 44 Copynumber: 2.7 Consensus size: 44
15296247 GAAAATGGTG
*
15296257 AATCTTATCTCCCTGAGGTTACAGTGGAGCAAATTGAAGCCAGA-
1 AATCTTATCTCCCTGAGGTTACAGTGGAGCAAATCGAAGCCA-AT
* *
15296301 AATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGCCAAT
1 AATCTTATCTCCCTGAGGTTACAGTGGAGCAAATCGAAGCCAAT
* * * *
15296345 AATCATATTTCCCTAAGATTACAGTGGAG
1 AATCTTATCTCCCTGAGGTTACAGTGGAG
15296374 TGGATTAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 1 0.02
44 63 0.98
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGGTTACAGTGGAGCAAATCGAAGCCAAT
Found at i:15296555 original size:44 final size:44
Alignment explanation
Indices: 15296489--15296734 Score: 160
Period size: 44 Copynumber: 5.7 Consensus size: 44
15296479 GAAAATGGTG
*
15296489 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * * *
15296533 AATCTTATCTCCCTAAGATTACAGCGGGGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * * ***
15296577 AATCCTATTTCGCTGAGATTACAGTGGAGCGGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * * * * * * * *
15296619 AGGATCTCATCTCTCTAAAATTACAGTAGAGTATATCGCA-TCAG-
1 A--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* ** ** * *
15296663 -GTCTTATCTCCCTGAGATTACAACGGAGCAGATTGATTCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
*
15296706 AATCCTATCTCCCTGAGATTACAGTGGAG
1 AATCTTATCTCCCTGAGATTACAGTGGAG
15296735 TGGATTAAAA
Statistics
Matches: 146, Mismatches: 49, Indels: 14
0.70 0.23 0.07
Matches are distributed among these distances:
41 24 0.16
42 3 0.02
43 4 0.03
44 114 0.78
45 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:15296647 original size:232 final size:232
Alignment explanation
Indices: 15296241--15296685 Score: 710
Period size: 232 Copynumber: 1.9 Consensus size: 232
15296231 AGTAGTGGAG
15296241 CTAATCGAAAATGGTGAATCTTATCTCCCTGAGGTTACAGTGGAGCAAATTGAAGCCAGAAATCT
1 CTAATCGAAAATGGTGAATCTTATCTCCCTGAGGTTACAGTGGAGCAAATTGAAGCCAGAAATCT
* *
15296306 TATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGCCAATAATCATATTTCCCTAAGATTACAGTG
66 TATCTCCCTAAGATTACAGCGGAGCAGATCGAAGCCAATAATCATATTTCCCTAAGATTACAGTG
* * ** *
15296371 GAGTGGATTAAAATAAAGGATCTTATCTATCTGCAATTACAGTAGAGTAGATCGTACCAGGTCTT
131 GAGCGGATTAAAATAAAGGATCTCATCTATCTAAAATTACAGTAGAGTAGATCGCACCAGGTCTT
* *
15296436 ATCTCCTTGAGGTTACAATGGAATAGACCAAGAATTC
196 ATCTCCCTGAGATTACAATGGAATAGACCAAGAATTC
*
15296473 CTAATCGAAAATGGTGAATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCT
1 CTAATCGAAAATGGTGAATCTTATCTCCCTGAGGTTACAGTGGAGCAAATTGAAGCCAGAAATCT
* * * * * * *
15296538 TATCTCCCTAAGATTACAGCGGGGCAGATTGAAGCTAGTAATCCTATTTCGCTGAGATTACAGTG
66 TATCTCCCTAAGATTACAGCGGAGCAGATCGAAGCCAATAATCATATTTCCCTAAGATTACAGTG
* * *
15296603 GAGCGGATTAAAATAAAGGATCTCATCTCTCTAAAATTACAGTAGAGTATATCGCATCAGGTCTT
131 GAGCGGATTAAAATAAAGGATCTCATCTATCTAAAATTACAGTAGAGTAGATCGCACCAGGTCTT
15296668 ATCTCCCTGAGATTACAA
196 ATCTCCCTGAGATTACAA
15296686 CGGAGCAGAT
Statistics
Matches: 193, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
232 193 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (232 bp):
CTAATCGAAAATGGTGAATCTTATCTCCCTGAGGTTACAGTGGAGCAAATTGAAGCCAGAAATCT
TATCTCCCTAAGATTACAGCGGAGCAGATCGAAGCCAATAATCATATTTCCCTAAGATTACAGTG
GAGCGGATTAAAATAAAGGATCTCATCTATCTAAAATTACAGTAGAGTAGATCGCACCAGGTCTT
ATCTCCCTGAGATTACAATGGAATAGACCAAGAATTC
Found at i:15296683 original size:41 final size:41
Alignment explanation
Indices: 15296638--15296815 Score: 115
Period size: 44 Copynumber: 4.2 Consensus size: 41
15296628 TCTCTCTAAA
*
15296638 ATTACAGTAGAGTATATCGCATCAGGTCTTATCTCCCTGAG
1 ATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
*** * * * *
15296679 ATTACAACGGAGCAGATTG-ATTCTAGTAATCCTATCTCCCTGAG
1 ATTACAGTAGAGTAGATCGCA-TC-AG--GTCTTATCTCCCTGAG
* * *** * * *
15296723 ATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAA
1 ATTACAGTAGAGTAGA-TCGCAT-CAGG-TCTTATCTCCCTGAG
* * *
15296767 ATTACAGTAGAGTAGATCGCATCAGGTCTTATGTCTCTGGG
1 ATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
15296808 ATTACAGT
1 ATTACAGT
15296816 GGAATAGACC
Statistics
Matches: 101, Mismatches: 28, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
40 1 0.01
41 35 0.35
42 5 0.05
43 3 0.03
44 52 0.51
45 4 0.04
46 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (41 bp):
ATTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAG
Found at i:15296713 original size:129 final size:129
Alignment explanation
Indices: 15296535--15296813 Score: 432
Period size: 129 Copynumber: 2.2 Consensus size: 129
15296525 AAGCCAGAAA
* * * * *
15296535 TCTTATCTCCCTAAGATTACAGCGGGGCAGATTGAAGCTAGTAATCCTATTTCGCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
*
15296600 GTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTAAAATTACAGTAGAGTATATCGCATCAGG
66 GTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGG
**
15296664 TCTTATCTCCCTGAGATTACAACGGAGCAGATTGATTCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* * *
15296729 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGG
66 GTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGG
* * *
15296793 TCTTATGTCTCTGGGATTACA
1 TCTTATCTCCCTGAGATTACA
15296814 GTGGAATAGA
Statistics
Matches: 136, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 136 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (129 bp):
TCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTAAAATTACAGTAGAGTAGATCGCATCAGG
Found at i:15296759 original size:44 final size:44
Alignment explanation
Indices: 15296589--15296779 Score: 122
Period size: 44 Copynumber: 4.4 Consensus size: 44
15296579 TCCTATTTCG
* * *
15296589 CTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCT
1 CTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCC
* * * *** *
15296633 CTAAAATTACAGTAGAGT--ATATCGCAT-CAGG-TCTTATCTCC
1 CTGAGATTACAGTGGAGTGGAT-TAAAATAAAGGATCTTATCTCC
** ** * * ** * *
15296674 CTGAGATTACAACGGAGCAGATT-GATTCTAGTAATCCTATCTCC
1 CTGAGATTACAGTGGAGTGGATTAAAATAAAG-GATCTTATCTCC
*
15296718 CTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCT
1 CTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCC
* *
15296762 CTGAAATTACAGTAGAGT
1 CTGAGATTACAGTGGAGT
15296780 AGATCGCATC
Statistics
Matches: 106, Mismatches: 34, Indels: 14
0.69 0.22 0.09
Matches are distributed among these distances:
41 22 0.21
42 8 0.08
43 5 0.05
44 67 0.63
45 4 0.04
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCC
Found at i:15296928 original size:219 final size:219
Alignment explanation
Indices: 15296664--15297062 Score: 690
Period size: 219 Copynumber: 1.8 Consensus size: 219
15296654 TCGCATCAGG
* **
15296664 TCTTATCTCCCTGAGATTACAACGGAGCAGATTGATTCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAACGAAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
*
15296729 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCGCATCAGGT
66 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCACATCAGGT
* * ** *
15296794 CTTATGTCTCTGGGATTACAGTGGAATAGACCGAAGAATTTTAGATCTTATCTCCCTAAGCAGTA
131 CTTATCTCCCTAAGATTACAGTGGAATAGACCGAAGAATTATAGATCTTATCTCCCTAAGCAGTA
15296859 GTGGAACTAATCGAAAATGGTGAA
196 GTGGAACTAATCGAAAATGGTGAA
* *
15296883 TCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCTAGTAATCCTATTTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAACGAAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
*
15296948 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCACATCAGTT
66 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCACATCAGGT
15297013 CTTATCTCCCTAAGATTACAGTGGAATAGACCGAAGAATTATAGATCTTA
131 CTTATCTCCCTAAGATTACAGTGGAATAGACCGAAGAATTATAGATCTTA
15297063 CTTCCTAGGC
Statistics
Matches: 168, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
219 168 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (219 bp):
TCTTATCTCCCTGAGATTACAACGAAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAATTACAGTAGAGTAGATCACATCAGGT
CTTATCTCCCTAAGATTACAGTGGAATAGACCGAAGAATTATAGATCTTATCTCCCTAAGCAGTA
GTGGAACTAATCGAAAATGGTGAA
Found at i:15297151 original size:50 final size:50
Alignment explanation
Indices: 15297083--15297344 Score: 229
Period size: 50 Copynumber: 5.2 Consensus size: 50
15297073 GGTACAGTGG
* *
15297083 AACAGGTTAAAGCCACAACAGCGAATCATGCTTCCCCGACATTGCAGTTA
1 AACAGATTAAAGCTACAACAGCGAATCATGCTTCCCCGACATTGCAGTTA
* * * ** * ** *
15297133 AAAAGATTAAAGCTACAACAGTGAAT-ATTACTTCCTGGGCGGTGCAGTGA
1 AACAGATTAAAGCTACAACAGCGAATCA-TGCTTCCCCGACATTGCAGTTA
* *
15297183 AACAGATTAAAGCCACAACAGCGAATCAAGCTTCCCCGACATTGCAGTTA
1 AACAGATTAAAGCTACAACAGCGAATCATGCTTCCCCGACATTGCAGTTA
* * * * ** * ** **
15297233 AAAAGATTAAAGCTACAACAACGAATCTTACTTCCTAGGCGGTGCAGTGG
1 AACAGATTAAAGCTACAACAGCGAATCATGCTTCCCCGACATTGCAGTTA
* ** * **
15297283 AACAGATTAAGGCTACAATGGCGAATCTTGCTTCCCCGACATCACAGTTA
1 AACAGATTAAAGCTACAACAGCGAATCATGCTTCCCCGACATTGCAGTTA
*
15297333 AGCAGATTAAAG
1 AACAGATTAAAG
15297345 TTACGAGTTA
Statistics
Matches: 158, Mismatches: 52, Indels: 4
0.74 0.24 0.02
Matches are distributed among these distances:
49 1 0.01
50 156 0.99
51 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (50 bp):
AACAGATTAAAGCTACAACAGCGAATCATGCTTCCCCGACATTGCAGTTA
Found at i:15297233 original size:100 final size:100
Alignment explanation
Indices: 15297060--15297344 Score: 417
Period size: 100 Copynumber: 2.9 Consensus size: 100
15297050 ATTATAGATC
* *
15297060 TTACTTCCTAGGCGGTACAGTGGAACAGGTTAAAGCCACAACAGCGAATCATGCTTCCCCGACAT
1 TTACTTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACAT
**
15297125 TGCAGTTAAAAAGATTAAAGCTACAACAGTGAATA
66 TGCAGTTAAAAAGATTAAAGCTACAACAACGAATA
* * *
15297160 TTACTTCCTGGGCGGTGCAGTGAAACAGATTAAAGCCACAACAGCGAATCAAGCTTCCCCGACAT
1 TTACTTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACAT
*
15297225 TGCAGTTAAAAAGATTAAAGCTACAACAACGAATC
66 TGCAGTTAAAAAGATTAAAGCTACAACAACGAATA
* * ** *
15297260 TTACTTCCTAGGCGGTGCAGTGGAACAGATTAAGGCTACAATGGCGAATCTTGCTTCCCCGACAT
1 TTACTTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACAT
** **
15297325 CACAGTTAAGCAGATTAAAG
66 TGCAGTTAAAAAGATTAAAG
15297345 TTACGAGTTA
Statistics
Matches: 165, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 165 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (100 bp):
TTACTTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCACAACAGCGAATCATGCTTCCCCGACAT
TGCAGTTAAAAAGATTAAAGCTACAACAACGAATA
Found at i:15312273 original size:18 final size:18
Alignment explanation
Indices: 15312250--15312291 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
15312240 ATTTTTCATA
*
15312250 TTCCACACGCTTAATTTT
1 TTCCACAAGCTTAATTTT
*
15312268 TTCCACAATCTTAATTTT
1 TTCCACAAGCTTAATTTT
*
15312286 CTCCAC
1 TTCCAC
15312292 TAGAGTCTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (18 bp):
TTCCACAAGCTTAATTTT
Found at i:15315982 original size:18 final size:18
Alignment explanation
Indices: 15315954--15316010 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
15315944 GTTCACCATT
15315954 TCATATTCCATTTCACATA
1 TCAT-TTCCATTTCACATA
*
15315973 TCATTTCCATTTCTCA-A
1 TCATTTCCATTTCACATA
15315990 -CATTTTTCCATTTCA-ATA
1 TCA--TTTCCATTTCACATA
15316008 TCA
1 TCA
15316011 AATATCTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 22 0.69
19 6 0.19
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (18 bp):
TCATTTCCATTTCACATA
Found at i:15316241 original size:37 final size:37
Alignment explanation
Indices: 15316162--15316243 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
15316152 TAAGTTTGAC
* * *
15316162 ACCCAATGTCTCATCAGTTAAATCGAAGCAAATTGGA
1 ACCCAGTGTCTCATCAGTTAAACCAAAGCAAATTGGA
* *
15316199 ACCCAGTGTCTCATCGGTTAAACCAAAGTAAATTGGA
1 ACCCAGTGTCTCATCAGTTAAACCAAAGCAAATTGGA
15316236 ACCCAGTG
1 ACCCAGTG
15316244 CCTTATCGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (37 bp):
ACCCAGTGTCTCATCAGTTAAACCAAAGCAAATTGGA
Found at i:15316787 original size:15 final size:17
Alignment explanation
Indices: 15316767--15316799 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15316757 TAGTATTATA
15316767 ATAAA-TAT-TTATTTG
1 ATAAATTATGTTATTTG
15316782 ATAAATTATGTTATTTG
1 ATAAATTATGTTATTTG
15316799 A
1 A
15316800 AATAGTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 3 0.19
17 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
ATAAATTATGTTATTTG
Found at i:15317179 original size:125 final size:125
Alignment explanation
Indices: 15316957--15317206 Score: 500
Period size: 125 Copynumber: 2.0 Consensus size: 125
15316947 AGAAATTTTA
15316957 AGGTTTAAATAGTTAATTAAGTAAAAAGGACTAAATTGAAAAATGTACAAAAGTTATAATCTAAT
1 AGGTTTAAATAGTTAATTAAGTAAAAAGGACTAAATTGAAAAATGTACAAAAGTTATAATCTAAT
15317022 AGTTAAAGGGGTTAAATTGTTAAATTACTAAATTTGTAAGCTTTTATGTGGCTATTATTC
66 AGTTAAAGGGGTTAAATTGTTAAATTACTAAATTTGTAAGCTTTTATGTGGCTATTATTC
15317082 AGGTTTAAATAGTTAATTAAGTAAAAAGGACTAAATTGAAAAATGTACAAAAGTTATAATCTAAT
1 AGGTTTAAATAGTTAATTAAGTAAAAAGGACTAAATTGAAAAATGTACAAAAGTTATAATCTAAT
15317147 AGTTAAAGGGGTTAAATTGTTAAATTACTAAATTTGTAAGCTTTTATGTGGCTATTATTC
66 AGTTAAAGGGGTTAAATTGTTAAATTACTAAATTTGTAAGCTTTTATGTGGCTATTATTC
15317207 CATAATTTCA
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.37
Consensus pattern (125 bp):
AGGTTTAAATAGTTAATTAAGTAAAAAGGACTAAATTGAAAAATGTACAAAAGTTATAATCTAAT
AGTTAAAGGGGTTAAATTGTTAAATTACTAAATTTGTAAGCTTTTATGTGGCTATTATTC
Found at i:15327289 original size:17 final size:15
Alignment explanation
Indices: 15327252--15327290 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
15327242 ACATAATATT
15327252 TTTTTTCATTTTTCA
1 TTTTTTCATTTTTCA
15327267 TATTTTTCTATTTTTCA
1 T-TTTTTC-ATTTTTCA
*
15327284 CTTTTTC
1 TTTTTTC
15327291 GATCACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 12 0.57
17 8 0.38
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTTCATTTTTCA
Found at i:15329689 original size:24 final size:26
Alignment explanation
Indices: 15329662--15329711 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
15329652 GATTTTAGGG
15329662 TTTA-AGGTTT-ATTTTTTATATATT
1 TTTATAGGTTTAATTTTTTATATATT
*
15329686 TTTATAGTTTTAATTTTTTATATATT
1 TTTATAGGTTTAATTTTTTATATATT
15329712 ATTTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 5 0.22
26 14 0.61
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (26 bp):
TTTATAGGTTTAATTTTTTATATATT
Found at i:15329705 original size:16 final size:15
Alignment explanation
Indices: 15329684--15329771 Score: 88
Period size: 15 Copynumber: 5.7 Consensus size: 15
15329674 TTTTTATATA
*
15329684 TTTTTATAGTTTTAAT
1 TTTTTATA-TATTAAT
15329700 TTTTTATATATT-AT
1 TTTTTATATATTAAT
* *
15329714 TTTTTATTTTTTTAAT
1 TTTTTA-TATATTAAT
15329730 TTCTTTATATATTAAT
1 TT-TTTATATATTAAT
* * *
15329746 TTTTTTTAAAATAAT
1 TTTTTATATATTAAT
15329761 TTTTTATATAT
1 TTTTTATATAT
15329772 ACTTTTTTGA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
14 8 0.14
15 25 0.43
16 21 0.36
17 4 0.07
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (15 bp):
TTTTTATATATTAAT
Found at i:15329761 original size:31 final size:31
Alignment explanation
Indices: 15329696--15329779 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
15329686 TTTATAGTTT
****
15329696 TAATTTTTTATATATT-ATTTTTTATTTTTT
1 TAATTTTTTATATATTAATTTTTTATTAAAA
15329726 TAATTTCTTTATATATTAATTTTTT-TTAAAA
1 TAATTT-TTTATATATTAATTTTTTATTAAAA
*
15329757 TAATTTTTTATATA-TACTTTTTT
1 TAATTTTTTATATATTAATTTTTT
15329780 GAGATGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.17
30 14 0.30
31 18 0.38
32 7 0.15
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (31 bp):
TAATTTTTTATATATTAATTTTTTATTAAAA
Found at i:15329763 original size:47 final size:48
Alignment explanation
Indices: 15329669--15329767 Score: 116
Period size: 47 Copynumber: 2.1 Consensus size: 48
15329659 GGGTTTAAGG
* * *
15329669 TTTA-TTTTTTATATATTTTTATAGTTTTAATTTTTTATATATTATTT
1 TTTATTTTTTTATATATTTTTATAGTATTAATTTTTTATAAATAATTT
*
15329716 TTTATTTTTTTA-AT-TTCTTTATA-TATTAATTTTTTTTAAAATAATTT
1 TTTATTTTTTTATATATT-TTTATAGTATTAATTTTTTAT-AAATAATTT
15329763 TTTAT
1 TTTAT
15329768 ATATACTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
46 14 0.31
47 24 0.53
48 7 0.16
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (48 bp):
TTTATTTTTTTATATATTTTTATAGTATTAATTTTTTATAAATAATTT
Found at i:15329947 original size:16 final size:15
Alignment explanation
Indices: 15329926--15330013 Score: 88
Period size: 15 Copynumber: 5.7 Consensus size: 15
15329916 TTTTTATATA
*
15329926 TTTTTATAGTTTTAAT
1 TTTTTATA-TATTAAT
15329942 TTTTTATATATT-AT
1 TTTTTATATATTAAT
* *
15329956 TTTTTATTTTTTTAAT
1 TTTTTA-TATATTAAT
15329972 TTCTTTATATATTAAT
1 TT-TTTATATATTAAT
* * *
15329988 TTTTTTTAAAATAAT
1 TTTTTATATATTAAT
15330003 TTTTTATATAT
1 TTTTTATATAT
15330014 ACTTTTTTGA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
14 8 0.14
15 25 0.43
16 21 0.36
17 4 0.07
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (15 bp):
TTTTTATATATTAAT
Found at i:15330003 original size:31 final size:31
Alignment explanation
Indices: 15329938--15330021 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
15329928 TTTATAGTTT
****
15329938 TAATTTTTTATATATT-ATTTTTTATTTTTT
1 TAATTTTTTATATATTAATTTTTTATTAAAA
15329968 TAATTTCTTTATATATTAATTTTTT-TTAAAA
1 TAATTT-TTTATATATTAATTTTTTATTAAAA
*
15329999 TAATTTTTTATATA-TACTTTTTT
1 TAATTTTTTATATATTAATTTTTT
15330022 GAGATGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.17
30 14 0.30
31 18 0.38
32 7 0.15
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (31 bp):
TAATTTTTTATATATTAATTTTTTATTAAAA
Found at i:15330005 original size:47 final size:48
Alignment explanation
Indices: 15329915--15330009 Score: 115
Period size: 47 Copynumber: 2.0 Consensus size: 48
15329905 TTTAAGGTTA
* * *
15329915 TTTTTTATATATTTTTATAGTTTTAATTTTTTATATATTATTTTTTAT
1 TTTTTTATATATTTTTATAGTATTAATTTTTTATAAATAATTTTTTAT
*
15329963 TTTTTTA-AT-TTCTTTATA-TATTAATTTTTTTTAAAATAATTTTTTAT
1 TTTTTTATATATT-TTTATAGTATTAATTTTTTAT-AAATAATTTTTTAT
15330010 ATATACTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
46 14 0.34
47 20 0.49
48 7 0.17
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (48 bp):
TTTTTTATATATTTTTATAGTATTAATTTTTTATAAATAATTTTTTAT
Found at i:15330095 original size:242 final size:243
Alignment explanation
Indices: 15329659--15330143 Score: 963
Period size: 242 Copynumber: 2.0 Consensus size: 243
15329649 TTGGATTTTA
15329659 GGGTTTAAGGTTTATTTTTTATATATTTTTATAGTTTTAATTTTTTATATATTATTTTTTATTTT
1 GGGTTTAAGGTTTATTTTTTATATATTTTTATAGTTTTAATTTTTTATATATTATTTTTTATTTT
15329724 TTTAATTTCTTTATATATTAATTTTTTTTAAAATAATTTTTTATATATACTTTTTTGAGATGTAA
66 TTTAATTTCTTTATATATTAATTTTTTTTAAAATAATTTTTTATATATACTTTTTTGAGATGTAA
15329789 AGTTAATAATTATTTAATTCAATTTTTAAAGGCATCGTATTTATACCAATTGTATGTTCTAATTG
131 AGTTAATAATTATTTAATTCAATTTTTAAAGGCATCGTATTTATACCAATTGTATGTTCTAATTG
15329854 TTCGAATTGCAAAACTCAATTCACATCATAATCGAAACTCGAACTACT
196 TTCGAATTGCAAAACTCAATTCACATCATAATCGAAACTCGAACTACT
15329902 GGGTTTAAGG-TTATTTTTTATATATTTTTATAGTTTTAATTTTTTATATATTATTTTTTATTTT
1 GGGTTTAAGGTTTATTTTTTATATATTTTTATAGTTTTAATTTTTTATATATTATTTTTTATTTT
15329966 TTTAATTTCTTTATATATTAATTTTTTTTAAAATAATTTTTTATATATACTTTTTTGAGATGTAA
66 TTTAATTTCTTTATATATTAATTTTTTTTAAAATAATTTTTTATATATACTTTTTTGAGATGTAA
15330031 AGTTAATAATTATTTAATTCAATTTTTAAAGGCATCGTATTTATACCAATTGTATGTTCTAATTG
131 AGTTAATAATTATTTAATTCAATTTTTAAAGGCATCGTATTTATACCAATTGTATGTTCTAATTG
15330096 TTCGAATTGCAAAACTCAATTCACATCATAATCGAAACTCGAACTACT
196 TTCGAATTGCAAAACTCAATTCACATCATAATCGAAACTCGAACTACT
15330144 CGATTTAATT
Statistics
Matches: 242, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
242 232 0.96
243 10 0.04
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (243 bp):
GGGTTTAAGGTTTATTTTTTATATATTTTTATAGTTTTAATTTTTTATATATTATTTTTTATTTT
TTTAATTTCTTTATATATTAATTTTTTTTAAAATAATTTTTTATATATACTTTTTTGAGATGTAA
AGTTAATAATTATTTAATTCAATTTTTAAAGGCATCGTATTTATACCAATTGTATGTTCTAATTG
TTCGAATTGCAAAACTCAATTCACATCATAATCGAAACTCGAACTACT
Found at i:15345322 original size:51 final size:51
Alignment explanation
Indices: 15345186--15345429 Score: 230
Period size: 51 Copynumber: 4.8 Consensus size: 51
15345176 TTATCATTCA
* * *
15345186 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AACTTTCCG
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCG
* * * * * *
15345236 GTTCATGTAATAGCTTGCACATAGTACTACACACGTGACCATTAA-TATCTG
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TAACTATCCG
* *
15345287 ATACACATAGTAGCCTGCACATAGTACTACACACGTGATCA-AAGCTATCCG
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAA-CTATCCG
* ** * * * **
15345338 GTATGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TTTC-ATTCC-
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACTA-TCCG
*
15345387 AGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
1 A-TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
15345430 CGCTTTCGCT
Statistics
Matches: 154, Mismatches: 32, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
49 3 0.02
50 71 0.46
51 78 0.51
52 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (51 bp):
ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAACTATCCG
Found at i:15345324 original size:101 final size:99
Alignment explanation
Indices: 15345181--15345425 Score: 314
Period size: 101 Copynumber: 2.4 Consensus size: 99
15345171 AACTATTATC
* * *
15345181 ATTCAATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAA-CTTTCCGGTTCATG-T
1 ATTCCATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAAGCTATCCGG-T-ATGAT
* *
15345244 AATAGCTTGCACATAGTACTACACACGTGACCATTA
64 AATAGCCTGCACATAGTACTACACACGCGACCATTA
* * *
15345280 ATATCTGATACACATAGTAGCCTGCACATAGTACTACACACGTGATCAAAGCTATCCGGTATGCA
1 AT-TC-CATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAAGCTATCCGGTATG-A
* * * *
15345345 TAGTAGCCTGCACATAGTACTACACATGCGACCTTTC
63 TAATAGCCTGCACATAGTACTACACACGCGACCATTA
15345382 ATTCCAGTACACGTAGTAGCCTACACATAGTACTACACACGTGA
1 ATTCCA-TACACGTAGTAGCCTACACATAGTACTACACACGTGA
15345426 CCATCGCTTT
Statistics
Matches: 127, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
99 2 0.02
100 6 0.05
101 79 0.62
102 40 0.31
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (99 bp):
ATTCCATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAAGCTATCCGGTATGATAA
TAGCCTGCACATAGTACTACACACGCGACCATTA
Found at i:15348585 original size:18 final size:18
Alignment explanation
Indices: 15348562--15348603 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
15348552 ATGAGTTTCA
15348562 AAAAAATCAAAAAAAATC
1 AAAAAATCAAAAAAAATC
15348580 AAAAAATCAAAAAAAATC
1 AAAAAATCAAAAAAAATC
15348598 AAAAAA
1 AAAAAA
15348604 AAATGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAAATCAAAAAAAATC
Found at i:15348612 original size:10 final size:10
Alignment explanation
Indices: 15348561--15348605 Score: 76
Period size: 10 Copynumber: 4.7 Consensus size: 10
15348551 TATGAGTTTC
15348561 AAAAAAATCA
1 AAAAAAATCA
15348571 AAAAAAATC-
1 AAAAAAATCA
15348580 -AAAAAATCA
1 AAAAAAATCA
15348589 AAAAAAATCA
1 AAAAAAATCA
15348599 AAAAAAA
1 AAAAAAA
15348606 ATGAAAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.24
10 25 0.76
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:15348643 original size:17 final size:17
Alignment explanation
Indices: 15348623--15348664 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
15348613 TGAAAATGAT
15348623 GGAAAAAG-AAAAGCAAA
1 GGAAAAAGAAAAAG-AAA
15348640 GGAAAAAGAAAAAGAAA
1 GGAAAAAGAAAAAGAAA
*
15348657 AGAAAAAG
1 GGAAAAAG
15348665 GAGAGGCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.74, C:0.02, G:0.24, T:0.00
Consensus pattern (17 bp):
GGAAAAAGAAAAAGAAA
Found at i:15348652 original size:7 final size:6
Alignment explanation
Indices: 15348624--15348664 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
15348614 GAAAATGATG
* *
15348624 GAAAAA G-AAAA GCAAAG GAAAAA GAAAAA G-AAAA GAAAAA G
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA G
15348665 GAGAGGCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:15348657 original size:11 final size:11
Alignment explanation
Indices: 15348624--15348664 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
15348614 GAAAATGATG
15348624 GAAAAAGAAAA
1 GAAAAAGAAAA
* *
15348635 GCAAAGGAAAAA
1 GAAAAAG-AAAA
15348647 GAAAAAGAAAA
1 GAAAAAGAAAA
15348658 GAAAAAG
1 GAAAAAG
15348665 GAGAGGCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:15349630 original size:59 final size:59
Alignment explanation
Indices: 15349543--15349660 Score: 168
Period size: 59 Copynumber: 2.0 Consensus size: 59
15349533 AAGAAGAAGG
* *
15349543 GACCAAGGTGAAAACCTACAGAGGGCGCTTTGAGTCCTAAAAAAA-AGAAAAAAAGAAAAA
1 GACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTCC-AAAAAAATA-AAAAAAAGAAAAA
* *
15349603 GACCAAGGTG-AAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAATAAAAAAAAGTAAAA
1 GACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTCCAAAAAAATAAAAAAAAGAAAAA
15349661 CTAGAGAGGC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
58 19 0.36
59 24 0.45
60 10 0.19
ACGTcount: A:0.51, C:0.16, G:0.21, T:0.12
Consensus pattern (59 bp):
GACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTCCAAAAAAATAAAAAAAAGAAAAA
Found at i:15350607 original size:3 final size:3
Alignment explanation
Indices: 15350599--15350637 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
15350589 ATTAATTTGG
15350599 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15350638 ATTTATATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15350643 original size:12 final size:12
Alignment explanation
Indices: 15350604--15350718 Score: 58
Period size: 12 Copynumber: 9.0 Consensus size: 12
15350594 TTTGGTATTA
15350604 TTATTATTAT-T
1 TTATTATTATAT
15350615 ATTATTATTAT-T
1 -TTATTATTATAT
15350627 ATTATTATTATAT
1 -TTATTATTATAT
15350640 TTA-TATTTATAT
1 TTATTA-TTATAT
*
15350652 TTACTTATTTAAAT
1 TTA-TTA-TTATAT
* *
15350666 TT-TAAATATATT
1 TTATTATTATA-T
*
15350678 TGTCTTATTATAT
1 T-TATTATTATAT
*
15350691 ATTAATATTATTAT
1 -TTATTATTA-TAT
15350705 TTACTTATTTATAT
1 TTA-TTA-TTATAT
15350719 CTTTTTTATT
Statistics
Matches: 83, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
11 5 0.06
12 38 0.46
13 12 0.14
14 25 0.30
15 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.63
Consensus pattern (12 bp):
TTATTATTATAT
Done.