Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 112 of 128
Found at i:37374584 original size:18 final size:19
Alignment explanation
Indices: 37374561--37374600 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
37374551 ATTTTAAATC
*
37374561 TATTTTAT-ACTAGTTTTT
1 TATTTTATCACAAGTTTTT
*
37374579 TATTTTATCACAATTTTTT
1 TATTTTATCACAAGTTTTT
37374598 TAT
1 TAT
37374601 ATTGGTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (19 bp):
TATTTTATCACAAGTTTTT
Found at i:37374668 original size:22 final size:23
Alignment explanation
Indices: 37374615--37374668 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
37374605 GTTTGTTTAT
*
37374615 TTTATTTTTCTTGCCAATATTAG
1 TTTATTTTTATTGCCAATATTAG
*
37374638 TGTTA-TTTTATT-CCATTATTAG
1 T-TTATTTTTATTGCCAATATTAG
37374660 TTTATTTTT
1 TTTATTTTT
37374669 TTTAAATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.11
22 14 0.52
23 7 0.26
24 3 0.11
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.63
Consensus pattern (23 bp):
TTTATTTTTATTGCCAATATTAG
Found at i:37374835 original size:12 final size:12
Alignment explanation
Indices: 37374818--37374848 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
37374808 GCAATGATTT
37374818 GCTTATTAATAC
1 GCTTATTAATAC
37374830 GCTTATTAATAC
1 GCTTATTAATAC
*
37374842 ACTTATT
1 GCTTATT
37374849 GTAATCATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (12 bp):
GCTTATTAATAC
Found at i:37375810 original size:19 final size:19
Alignment explanation
Indices: 37375788--37375829 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
37375778 TGAGTTGTTT
* *
37375788 AATGCTCGAGCATGTAGGA
1 AATGCTAGAGCATATAGGA
*
37375807 AATGGTAGAGCATATAGGA
1 AATGCTAGAGCATATAGGA
37375826 AATG
1 AATG
37375830 GTAATTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (19 bp):
AATGCTAGAGCATATAGGA
Found at i:37375830 original size:19 final size:19
Alignment explanation
Indices: 37375795--37375832 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
37375785 TTTAATGCTC
*
37375795 GAGCATGTAGGAAATGGTA
1 GAGCATATAGGAAATGGTA
37375814 GAGCATATAGGAAATGGTA
1 GAGCATATAGGAAATGGTA
37375833 ATTTGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.34, T:0.21
Consensus pattern (19 bp):
GAGCATATAGGAAATGGTA
Found at i:37375939 original size:41 final size:42
Alignment explanation
Indices: 37375861--37375941 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 42
37375851 ATTTTAGGTC
37375861 CACACGACTAGACACAGGAGCATGTGACTTGGCCGTGTGAGA
1 CACACGACTAGACACAGGAGCATGTGACTTGGCCGTGTGAGA
* *
37375903 CACACGACTAGCACACAGGCGTATG-G-CTTGGCCGTGTGA
1 CACACGACTAG-ACACAGGAGCATGTGACTTGGCCGTGTGA
37375942 CCCAAGTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 13 0.36
42 12 0.33
43 11 0.31
ACGTcount: A:0.26, C:0.26, G:0.31, T:0.17
Consensus pattern (42 bp):
CACACGACTAGACACAGGAGCATGTGACTTGGCCGTGTGAGA
Found at i:37385784 original size:62 final size:62
Alignment explanation
Indices: 37385715--37385902 Score: 376
Period size: 62 Copynumber: 3.0 Consensus size: 62
37385705 TTTAAAATGT
37385715 TTCTAAAATATAGATACATTAGTATCATTTTTTTTGTTATTGTTATTATTGTTATTGTTAGA
1 TTCTAAAATATAGATACATTAGTATCATTTTTTTTGTTATTGTTATTATTGTTATTGTTAGA
37385777 TTCTAAAATATAGATACATTAGTATCATTTTTTTTGTTATTGTTATTATTGTTATTGTTAGA
1 TTCTAAAATATAGATACATTAGTATCATTTTTTTTGTTATTGTTATTATTGTTATTGTTAGA
37385839 TTCTAAAATATAGATACATTAGTATCATTTTTTTTGTTATTGTTATTATTGTTATTGTTAGA
1 TTCTAAAATATAGATACATTAGTATCATTTTTTTTGTTATTGTTATTATTGTTATTGTTAGA
37385901 TT
1 TT
37385903 GTTATTTGCA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 126 1.00
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (62 bp):
TTCTAAAATATAGATACATTAGTATCATTTTTTTTGTTATTGTTATTATTGTTATTGTTAGA
Found at i:37385892 original size:15 final size:14
Alignment explanation
Indices: 37385872--37385908 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
37385862 ATCATTTTTT
*
37385872 TTGTTATTGTTATTA
1 TTGTTATTGTTA-GA
37385887 TTGTTATTGTTAGA
1 TTGTTATTGTTAGA
37385901 TTGTTATT
1 TTGTTATT
37385909 TGCATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (14 bp):
TTGTTATTGTTAGA
Found at i:37388780 original size:20 final size:18
Alignment explanation
Indices: 37388755--37388793 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
37388745 TCCTTTAATT
*
37388755 TGTTTTTCATTGTTTTTTTA
1 TGTTTTT-ATT-TTGTTTTA
37388775 TGTTTTTATTTTGTTTTA
1 TGTTTTTATTTTGTTTTA
37388793 T
1 T
37388794 CTTATTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 3 0.17
20 7 0.39
ACGTcount: A:0.10, C:0.03, G:0.10, T:0.77
Consensus pattern (18 bp):
TGTTTTTATTTTGTTTTA
Found at i:37390196 original size:16 final size:16
Alignment explanation
Indices: 37390171--37390204 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37390161 TATGTTTTGC
* *
37390171 TTTGATTGCATGGCAT
1 TTTGACTGCATAGCAT
37390187 TTTGACTGCATAGCAT
1 TTTGACTGCATAGCAT
37390203 TT
1 TT
37390205 CATCCTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATAGCAT
Found at i:37392366 original size:19 final size:19
Alignment explanation
Indices: 37392342--37392381 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
37392332 GTATATGTAA
37392342 TTTGTTTTAT-GTAAAGATT
1 TTTGTTTTATAGTAAAG-TT
*
37392361 TTTGTTTTCTAGTAAAGTT
1 TTTGTTTTATAGTAAAGTT
37392380 TT
1 TT
37392382 CTAAATGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.60
Consensus pattern (19 bp):
TTTGTTTTATAGTAAAGTT
Found at i:37398787 original size:13 final size:12
Alignment explanation
Indices: 37398769--37398804 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
37398759 CATGTTATGA
37398769 CTTCTCCATGGAG
1 CTTCTCCATGG-G
37398782 CTTCTCCATGGG
1 CTTCTCCATGGG
37398794 CTTTCTCCATG
1 C-TTCTCCATG
37398805 TGGTGTATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 2 0.09
13 20 0.91
ACGTcount: A:0.11, C:0.33, G:0.19, T:0.36
Consensus pattern (12 bp):
CTTCTCCATGGG
Found at i:37400730 original size:17 final size:17
Alignment explanation
Indices: 37400708--37400740 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
37400698 CATAAGAGAT
37400708 AAAAAAA-GATCATTCTA
1 AAAAAAATGA-CATTCTA
37400725 AAAAAAATGACATTCT
1 AAAAAAATGACATTCT
37400741 GCATTCATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAAAAATGACATTCTA
Found at i:37401101 original size:132 final size:132
Alignment explanation
Indices: 37400863--37401125 Score: 382
Period size: 132 Copynumber: 2.0 Consensus size: 132
37400853 GAATAAACCA
* *
37400863 TTGAAAATAGCAGATCCTGTCTCCCCAAGCAGTGGCGGAGTAGATCAAAGACGGCAAATCTTATC
1 TTGAAAATAGCAGATCCTGTCTCCCCAAGCAGTAGCGGAGCAGATCAAAGACGGCAAATCTTATC
* **
37400928 TTCCTAAGATAGTGGAGAAGTAGATTTAAGCCATTAATCCTATCTCCCTGAGCAGCAATGGAGTA
66 TTCCCAAGATAGTGGAGAAACAGATTTAAGCCATTAATCCTATCTCCCTGAGCAGCAATGGAGTA
37400993 GG
131 GG
* * * * * * * *
37400995 TTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATC
1 TTGAAAATAGCAGATCCTGTCTCCCCAAGCAGTAGCGGAGCAGATCAAAGACGGCAAATCTTATC
* * *
37401060 TTCCCAAGATAGTGGAGAAACAGATTTAGGCCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTA
66 TTCCCAAGATAGTGGAGAAACAGATTTAAGCCATTAATCCTATCTCCCTGAGCAGCAATGGAGTA
37401125 G
131 G
37401126 ATCGAAGACG
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 115 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
TTGAAAATAGCAGATCCTGTCTCCCCAAGCAGTAGCGGAGCAGATCAAAGACGGCAAATCTTATC
TTCCCAAGATAGTGGAGAAACAGATTTAAGCCATTAATCCTATCTCCCTGAGCAGCAATGGAGTA
GG
Found at i:37401907 original size:7 final size:8
Alignment explanation
Indices: 37401890--37401927 Score: 58
Period size: 8 Copynumber: 4.5 Consensus size: 8
37401880 TATTTACTTA
37401890 TTTTACTTT
1 TTTTA-TTT
37401899 TTTTATTT
1 TTTTATTT
37401907 TTTTATTTT
1 TTTTA-TTT
37401916 TTTTATTT
1 TTTTATTT
37401924 TTTT
1 TTTT
37401928 TAAAAACCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 15 0.54
9 13 0.46
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTATTT
Found at i:37401907 original size:8 final size:9
Alignment explanation
Indices: 37401882--37401929 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
37401872 TTCCAGCTTA
*
37401882 TTTACTTAT
1 TTTACTTTT
37401891 TTTACTTTT
1 TTTACTTTT
37401900 TTTA-TTTT
1 TTTACTTTT
*
37401908 TTTATTTTT
1 TTTACTTTT
*
37401917 TTTATTTTT
1 TTTACTTTT
37401926 TTTA
1 TTTA
37401930 AAAACCAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
8 8 0.22
9 29 0.78
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTACTTTT
Found at i:37401908 original size:9 final size:9
Alignment explanation
Indices: 37401890--37401929 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
37401880 TATTTACTTA
*
37401890 TTTTACTTT
1 TTTTATTTT
37401899 TTTTA-TTT
1 TTTTATTTT
37401907 TTTTATTTT
1 TTTTATTTT
37401916 TTTTATTTT
1 TTTTATTTT
37401925 TTTTA
1 TTTTA
37401930 AAAACCAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 8 0.27
9 22 0.73
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTATTTT
Found at i:37401916 original size:17 final size:17
Alignment explanation
Indices: 37401890--37401927 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
37401880 TATTTACTTA
37401890 TTTTACTTTTTTTATTT
1 TTTTACTTTTTTTATTT
*
37401907 TTTTATTTTTTTTATTT
1 TTTTACTTTTTTTATTT
37401924 TTTT
1 TTTT
37401928 TAAAAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTACTTTTTTTATTT
Found at i:37411004 original size:15 final size:16
Alignment explanation
Indices: 37410984--37411013 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37410974 CCGCAACTTC
37410984 TTTAAAT-TATAATTT
1 TTTAAATGTATAATTT
37410999 TTTAAATGTATAATT
1 TTTAAATGTATAATT
37411014 ATCATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTAAATGTATAATTT
Found at i:37421174 original size:18 final size:18
Alignment explanation
Indices: 37421151--37421186 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
37421141 ATACTTTTTC
37421151 TTGCGTATCGAAGCGGAT
1 TTGCGTATCGAAGCGGAT
37421169 TTGCGTATCGAAGCGGAT
1 TTGCGTATCGAAGCGGAT
37421187 AACTCCCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (18 bp):
TTGCGTATCGAAGCGGAT
Found at i:37428236 original size:16 final size:18
Alignment explanation
Indices: 37428197--37428230 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37428187 GAAGTTTATA
37428197 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
37428214 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
37428231 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:37428630 original size:32 final size:32
Alignment explanation
Indices: 37428594--37428657 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
37428584 TCTTTCACAT
37428594 ATATGGGCAAGTTTAAAAAAAATTTAGGCCTA
1 ATATGGGCAAGTTTAAAAAAAATTTAGGCCTA
37428626 ATATGGGCAAGTTTAAAAAAAATTTAGGCCTA
1 ATATGGGCAAGTTTAAAAAAAATTTAGGCCTA
37428658 GGTTTTGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (32 bp):
ATATGGGCAAGTTTAAAAAAAATTTAGGCCTA
Found at i:37429677 original size:30 final size:30
Alignment explanation
Indices: 37429643--37429701 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
37429633 TACTGAAGGT
37429643 TATTTTTCTAATTTCTCTAACCAAGTTGGA
1 TATTTTTCTAATTTCTCTAACCAAGTTGGA
* *
37429673 TATTTTTGTAATTTTTCTAACCAAGTTGG
1 TATTTTTCTAATTTCTCTAACCAAGTTGG
37429702 TGCTCGGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (30 bp):
TATTTTTCTAATTTCTCTAACCAAGTTGGA
Found at i:37430099 original size:30 final size:30
Alignment explanation
Indices: 37430065--37430122 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
37430055 AAATATTATT
37430065 TATGAA-AATATAAGTGATAATAA-ATAATTA
1 TATGAATAAT-TAAGTGAT-ATAACATAATTA
*
37430095 TATGAATAATTAATTGATATAACATAAT
1 TATGAATAATTAAGTGATATAACATAAT
37430123 AAATAATTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 4 0.16
30 18 0.72
31 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (30 bp):
TATGAATAATTAAGTGATATAACATAATTA
Found at i:37434976 original size:18 final size:19
Alignment explanation
Indices: 37434932--37434974 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
37434922 AATAAACACC
37434932 AAAAAAA-ATTTTAAAAAT
1 AAAAAAATATTTTAAAAAT
37434950 AAAAAAATATTTTAAAAAT
1 AAAAAAATATTTTAAAAAT
37434969 AAAAAA
1 AAAAAA
37434975 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAAAATATTTTAAAAAT
Found at i:37434979 original size:12 final size:12
Alignment explanation
Indices: 37434964--37434988 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37434954 AAATATTTTA
37434964 AAAATAAAAAAT
1 AAAATAAAAAAT
37434976 AAAATAAAAAAT
1 AAAATAAAAAAT
37434988 A
1 A
37434989 TTTTTTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:37434983 original size:18 final size:19
Alignment explanation
Indices: 37434943--37434985 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
37434933 AAAAAAATTT
***
37434943 TAAAAATAAAAAAATATTT
1 TAAAAATAAAAAAATAAAA
37434962 TAAAAAT-AAAAAATAAAA
1 TAAAAATAAAAAAATAAAA
37434980 TAAAAA
1 TAAAAA
37434986 ATATTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
TAAAAATAAAAAAATAAAA
Found at i:37435518 original size:25 final size:27
Alignment explanation
Indices: 37435490--37435550 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
37435480 ACGAACGCCC
*
37435490 TTCTTTG-C-TCTCTGCTCTCTGCTGG
1 TTCTTTGCCATCTCTGCCCTCTGCTGG
37435515 TTCTTTGCCCTCATCTCTGCCCTCTGCTGG
1 TTCTTTG--C-CATCTCTGCCCTCTGCTGG
37435545 TTCTTT
1 TTCTTT
37435551 ATTCCTCTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 7 0.23
29 1 0.03
30 22 0.73
ACGTcount: A:0.02, C:0.34, G:0.16, T:0.48
Consensus pattern (27 bp):
TTCTTTGCCATCTCTGCCCTCTGCTGG
Found at i:37437240 original size:69 final size:69
Alignment explanation
Indices: 37437137--37437284 Score: 278
Period size: 69 Copynumber: 2.1 Consensus size: 69
37437127 AAATATATGT
*
37437137 AATATTTTAATTCGTTAGGTTTATGTTTTCTATGTTATGTTAGTATATAATATGATTTATATATT
1 AATATTTTAATTCGTTAGGTTTATGTTTTCTATGTTATGTTAGTATATAATATGAGTTATATATT
37437202 CAAA
66 CAAA
37437206 AATATTTTAATTCGTTAGGTTTATGTTTTCTATGTTATGTTAGTATATAATATGAGTTATATATT
1 AATATTTTAATTCGTTAGGTTTATGTTTTCTATGTTATGTTAGTATATAATATGAGTTATATATT
37437271 CAAA
66 CAAA
*
37437275 TATATTTTAA
1 AATATTTTAA
37437285 AATAAAATAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 77 1.00
ACGTcount: A:0.32, C:0.04, G:0.11, T:0.52
Consensus pattern (69 bp):
AATATTTTAATTCGTTAGGTTTATGTTTTCTATGTTATGTTAGTATATAATATGAGTTATATATT
CAAA
Found at i:37448728 original size:21 final size:20
Alignment explanation
Indices: 37448702--37448755 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
37448692 AACAGCGGTG
37448702 GCGGTGAGATTAATTACTATA
1 GCGGTGAGATTAA-TACTATA
* *
37448723 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATT-AATACTATA
*
37448744 GCTGTGAGATTA
1 GCGGTGAGATTA
37448756 GAAACAATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.28, C:0.09, G:0.31, T:0.31
Consensus pattern (20 bp):
GCGGTGAGATTAATACTATA
Found at i:37449090 original size:12 final size:12
Alignment explanation
Indices: 37449075--37449101 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37449065 TTAAATTTTC
37449075 TATTAATATACA
1 TATTAATATACA
37449087 TATTAATATACA
1 TATTAATATACA
37449099 TAT
1 TAT
37449102 ATGATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTAATATACA
Found at i:37452221 original size:18 final size:18
Alignment explanation
Indices: 37452174--37452217 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
37452164 TCAATCGTTT
37452174 TTAATTAATAAAAACTTAA
1 TTAATT-ATAAAAACTTAA
*
37452193 TTAATTATAAAAATTTAA
1 TTAATTATAAAAACTTAA
37452211 TT-ATTAT
1 TTAATTAT
37452218 TAAATTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.21
18 13 0.54
19 6 0.25
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
TTAATTATAAAAACTTAA
Found at i:37452291 original size:22 final size:23
Alignment explanation
Indices: 37452239--37452294 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
37452229 ATGATTTGCT
*
37452239 TTATTTTCTAATATAATACTAGG
1 TTATTTTTTAATATAATACTAGG
* *
37452262 TTAATTTTTAAT-TAATA-TATG
1 TTATTTTTTAATATAATACTAGG
37452283 TATATTTTTTAA
1 T-TATTTTTTAA
37452295 GTTATAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 4 0.14
22 14 0.50
23 10 0.36
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (23 bp):
TTATTTTTTAATATAATACTAGG
Found at i:37452743 original size:76 final size:77
Alignment explanation
Indices: 37452652--37452806 Score: 303
Period size: 76 Copynumber: 2.0 Consensus size: 77
37452642 AATTATTTTT
37452652 AAGCAAATACATGTTAATTATTTGAATTTTAATTATATATATTAGATAATCTCACATATAAGTAA
1 AAGCAAATACATGTTAATTATTTGAATTTTAATTATATATATTAGATAATCTCACATATAAGTAA
37452717 AAGATTTTTTAA
66 AAGATTTTTTAA
37452729 AAGCAAATAC-TGTTAATTATTTGAATTTTAATTATATATATTAGATAATCTCACATATAAGTAA
1 AAGCAAATACATGTTAATTATTTGAATTTTAATTATATATATTAGATAATCTCACATATAAGTAA
37452793 AAGATTTTTTAA
66 AAGATTTTTTAA
37452805 AA
1 AA
37452807 TGTATTTATA
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 68 0.87
77 10 0.13
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (77 bp):
AAGCAAATACATGTTAATTATTTGAATTTTAATTATATATATTAGATAATCTCACATATAAGTAA
AAGATTTTTTAA
Found at i:37453917 original size:26 final size:28
Alignment explanation
Indices: 37453861--37453918 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
37453851 AGTTTTATAG
* *
37453861 TTTTAGGTTAGGTTTCTTTTCTTTTCAT
1 TTTTAGATTAGGTTTCTTCTCTTTTCAT
37453889 TTTTAGATTAGG-TT-TTCTCTTTTC-T
1 TTTTAGATTAGGTTTCTTCTCTTTTCAT
37453914 TTTTA
1 TTTTA
37453919 TAACATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 9 0.32
27 2 0.07
28 11 0.39
ACGTcount: A:0.12, C:0.10, G:0.12, T:0.66
Consensus pattern (28 bp):
TTTTAGATTAGGTTTCTTCTCTTTTCAT
Found at i:37456438 original size:9 final size:9
Alignment explanation
Indices: 37456421--37456466 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
37456411 TATAGTTTGA
*
37456421 TATTTGAAT
1 TATTCGAAT
37456430 TATTCGAAT
1 TATTCGAAT
*
37456439 TATTCGAGT
1 TATTCGAAT
37456448 TATTCGAAT
1 TATTCGAAT
37456457 TATTCGAAT
1 TATTCGAAT
37456466 T
1 T
37456467 CGAAAACTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (9 bp):
TATTCGAAT
Found at i:37458670 original size:18 final size:17
Alignment explanation
Indices: 37458647--37458685 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
37458637 TGTAAATGGG
*
37458647 GGGATTGAAAAGAGAAAA
1 GGGATTG-AAACAGAAAA
*
37458665 GGGATTGATACAGAAAA
1 GGGATTGAAACAGAAAA
37458682 GGGA
1 GGGA
37458686 AGAAAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.49, C:0.03, G:0.36, T:0.13
Consensus pattern (17 bp):
GGGATTGAAACAGAAAA
Found at i:37459335 original size:6 final size:6
Alignment explanation
Indices: 37459324--37459362 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
37459314 CCCCCTCCCT
* **
37459324 ACTTTC ACTTTC ACTTTC AGTTTC ACTTAA ACTTTC ACT
1 ACTTTC ACTTTC ACTTTC ACTTTC ACTTTC ACTTTC ACT
37459363 CACACACTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.23, C:0.28, G:0.03, T:0.46
Consensus pattern (6 bp):
ACTTTC
Found at i:37459639 original size:51 final size:47
Alignment explanation
Indices: 37459563--37459669 Score: 135
Period size: 47 Copynumber: 2.2 Consensus size: 47
37459553 TAATTTCCCT
*
37459563 TTCGTTTTTTTTCCAATTTCTTGAATGGGTCTGTAGTTGACTGATATAGTA
1 TTCGTTTTTTTTCCAATTTATTGAA----TCTGTAGTTGACTGATATAGTA
*
37459614 TTCGTTTTTTTTTCTAA-TTATTGAATCTGTAGTTGACTGATATAGTA
1 TTCG-TTTTTTTTCCAATTTATTGAATCTGTAGTTGACTGATATAGTA
*
37459661 TTCGATTTT
1 TTCGTTTTT
37459670 CTCGAGAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
46 4 0.08
47 26 0.50
51 11 0.21
52 11 0.21
ACGTcount: A:0.21, C:0.10, G:0.17, T:0.52
Consensus pattern (47 bp):
TTCGTTTTTTTTCCAATTTATTGAATCTGTAGTTGACTGATATAGTA
Found at i:37463600 original size:37 final size:38
Alignment explanation
Indices: 37463559--37463710 Score: 204
Period size: 37 Copynumber: 4.1 Consensus size: 38
37463549 TTATGTGTTA
* *
37463559 ATTTC-AAGACTTATATAATGTTTTTAATTATGTAGTG
1 ATTTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
*
37463596 ATTTC-AAGACTTATGTAATATTTTTAATCATGTAGTG
1 ATTTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
*
37463633 A-TTCAAAAACTTATGTAATATTTTTAATTATGTAGTG
1 ATTTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
* * * *
37463670 A-TCCAAAGATTTATGTAATGTTTTAAATTATGTAGTG
1 ATTTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
37463707 ATTT
1 ATTT
37463711 AATTCGGGTA
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
36 3 0.03
37 98 0.96
38 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (38 bp):
ATTTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
Found at i:37463665 original size:17 final size:17
Alignment explanation
Indices: 37463569--37463666 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
37463559 ATTTCAAGAC
* *
37463569 TTATATAATGTTTTTAA
1 TTATGTAATATTTTTAA
* **
37463586 TTATGTAGTGATTTCAAGA
1 TTATGTAAT-ATTTTTA-A
37463605 CTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
* * ***
37463623 TCATGTAGTGATTCAAAAA
1 TTATGTAAT-ATT-TTTAA
37463642 CTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
37463660 TTATGTA
1 TTATGTA
37463667 GTGATCCAAA
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 21 0.37
18 10 0.18
19 11 0.19
20 15 0.26
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:37463711 original size:17 final size:17
Alignment explanation
Indices: 37463584--37463712 Score: 55
Period size: 17 Copynumber: 7.1 Consensus size: 17
37463574 TAATGTTTTT
37463584 AATTATGTAGTGATTTCA
1 AATTATGTAGTGATTT-A
* *
37463602 AGACTTATGTAAT-ATTTTT
1 A-A-TTATGTAGTGA-TTTA
* *
37463621 AATCATGTAGTGATTCAAA
1 AATTATGTAGTGATT--TA
* *
37463640 AACTTATGTAAT-ATTTTT
1 AA-TTATGTAGTGA-TTTA
**
37463658 AATTATGTAGTGATCCAA
1 AATTATGTAGTGAT-TTA
* *
37463676 AGATTTATGTAATGTTTTA
1 A-A-TTATGTAGTGATTTA
37463695 AATTATGTAGTGATTTA
1 AATTATGTAGTGATTTA
37463712 A
1 A
37463713 TTCGGGTAAT
Statistics
Matches: 79, Mismatches: 20, Indels: 25
0.64 0.16 0.20
Matches are distributed among these distances:
17 32 0.41
18 8 0.10
19 9 0.11
20 30 0.38
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (17 bp):
AATTATGTAGTGATTTA
Found at i:37465096 original size:14 final size:14
Alignment explanation
Indices: 37465067--37465110 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
37465057 AATTTACATC
*
37465067 ATATACGAATAAAT
1 ATATACAAATAAAT
* *
37465081 ATTTACAAATATAT
1 ATATACAAATAAAT
37465095 ATATACAAATACAAT
1 ATATACAAATA-AAT
37465110 A
1 A
37465111 CACAAGTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 21 0.88
15 3 0.12
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (14 bp):
ATATACAAATAAAT
Found at i:37465477 original size:3 final size:3
Alignment explanation
Indices: 37465464--37465505 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
37465454 ATATGTATAG
*
37465464 ATA AT- ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
37465506 ATAGGGATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37467189 original size:132 final size:133
Alignment explanation
Indices: 37466946--37467480 Score: 719
Period size: 132 Copynumber: 4.0 Consensus size: 133
37466936 AGGATTGATT
* * * * *
37466946 TCTTCTGTCTATTCCACTACTGCCCAGGGAAGTAGAATTATTGGTTTCAATGTACTCTACTGTAA
1 TCTTCAGTCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAA
* * *
37467011 CCACAGGGAGGTAAAATCTGCCGTCTTCGATCTGCTTCGCTATCTATGTAGGAAGGCAAGATCTA
66 CCACAGGGAGGTAAAATCTGCCGTCTTCAATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTA
*
37467076 AAC
131 AAA
*
37467079 TCTTCAGTCTATTCCACTGCTGCCCAGGGGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAGTCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAA
37467143 CCACAGGGAGGTAAAATCTGCCGTCTTCAATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTA
66 CCACAGGGAGGTAAAATCTGCCGTCTTCAATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTA
37467208 AAA
131 AAA
*
37467211 TCTTC-GATCTATTCCACTGCTGCCCAGGGAAGTAGAAATT-CTGGCTTCAATGTACTCCACTGC
1 TCTTCAG-TCTATTCCACTGCTGCCCAGGGAAGTAG-AATTACTGGCTTCAATGTACTCCACTGT
* * * * ** * * *
37467274 AA-CATCAGAGAGGTAAAATTTGTCATCTTTGATCTGC-TC-C--ACTACTGCTTAGGGAGACAA
64 AACCA-CAGGGAGGTAAAATCTGCCGTCTTCAATCTGCTTCGCTGTCTA-TGC--AGGAAGGCAA
*
37467334 GATCCAAAA
125 GATCTAAAA
* * * *
37467343 TCCTCAATCTATTCCATTGATGCCCA-GGAAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
1 TCTTCAGTCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTA
37467407 ACCACAGGGAGGTAAAATCTGCCGTCTTCAATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCT
65 ACCACAGGGAGGTAAAATCTGCCGTCTTCAATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCT
37467472 AAAA
130 AAAA
37467476 TCTTC
1 TCTTC
37467481 NNNNNNNNNN
Statistics
Matches: 349, Mismatches: 38, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
129 3 0.01
130 3 0.01
131 11 0.03
132 216 0.62
133 105 0.30
134 5 0.01
135 3 0.01
136 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (133 bp):
TCTTCAGTCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAA
CCACAGGGAGGTAAAATCTGCCGTCTTCAATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTA
AAA
Found at i:37467426 original size:265 final size:265
Alignment explanation
Indices: 37466953--37467480 Score: 794
Period size: 265 Copynumber: 2.0 Consensus size: 265
37466943 ATTTCTTCTG
* * * * *
37466953 TCTATTCCACTACTGCCCAGGGAAGTAGAATTATTGGTTTCAATGTACTCTACTGTAACCACAGG
1 TCTATTCCACTACTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCACAGA
* * * * * * *
37467018 GAGGTAAAATCTGCCGTCTTCGATCTGCTTCGCTATCTATGTAGGAAGGCAAGATCTAAACTCTT
66 GAGGTAAAATCTGCCATCTTCGATCTGCTCCACTATCTATGTAGGAAGACAAGATCCAAAATCCT
* * *
37467083 CAGTCTATTCCACTGCTGCCCAGGGGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACA
131 CAATCTATTCCACTGATGCCCAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACA
37467148 GGGAGGTAAAATCTGCCGTCTTCAATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATC
196 GGGAGGTAAAATCTGCCGTCTTCAATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATC
37467213 TTCGA
261 TTCGA
*
37467218 TCTATTCCACTGCTGCCCAGGGAAGTAGAAATT-CTGGCTTCAATGTACTCCACTGCAA-CATCA
1 TCTATTCCACTACTGCCCAGGGAAGTAG-AATTACTGGCTTCAATGTACTCCACTGCAACCA-CA
* * * * *
37467281 GAGAGGTAAAATTTGTCATCTTTGATCTGCTCCACTA-CTGCT-TAGGGAGACAAGATCCAAAAT
64 GAGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTATCT-ATGTAGGAAGACAAGATCCAAAAT
*
37467344 CCTCAATCTATTCCATTGATGCCCAGGAAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
128 CCTCAATCTATTCCACTGATGCCCAGG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
37467409 CACAGGGAGGTAAAATCTGCCGTCTTCAATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAA
192 CACAGGGAGGTAAAATCTGCCGTCTTCAATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAA
37467474 AATCTTC
257 AATCTTC
37467481 NNNNNNNNNN
Statistics
Matches: 237, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
264 44 0.19
265 189 0.80
266 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (265 bp):
TCTATTCCACTACTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCACAGA
GAGGTAAAATCTGCCATCTTCGATCTGCTCCACTATCTATGTAGGAAGACAAGATCCAAAATCCT
CAATCTATTCCACTGATGCCCAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACA
GGGAGGTAAAATCTGCCGTCTTCAATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATC
TTCGA
Found at i:37473593 original size:3 final size:3
Alignment explanation
Indices: 37473580--37473615 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
37473570 ATATGTATAG
*
37473580 ATA AT- ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
37473616 ATAGGGATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37479480 original size:4 final size:4
Alignment explanation
Indices: 37479473--37479611 Score: 278
Period size: 4 Copynumber: 34.8 Consensus size: 4
37479463 ACGTATTTTA
37479473 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
37479521 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
37479569 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
37479612 ATCTATTGTT
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 135 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:37482954 original size:59 final size:59
Alignment explanation
Indices: 37482831--37482957 Score: 150
Period size: 59 Copynumber: 2.2 Consensus size: 59
37482821 ATAGGTTTGG
* * * *
37482831 GTACCAAATTGAATCTAAAAAATCTGAAGTACCAAATTAAGAAAAAGTGTCAAGTTTAA
1 GTACCAAATTGAATCAAAAAAAGCTGAAGTACCAAATTAAGAAAAAGTATCAAATTTAA
* * * *
37482890 GTACCAAATTGAATGAAAAAAAGCTTAAGTATCAAATT-AGTAAAAAGTATTAAATTT-A
1 GTACCAAATTGAATCAAAAAAAGCTGAAGTACCAAATTAAG-AAAAAGTATCAAATTTAA
37482948 GATACCAAAT
1 G-TACCAAAT
37482958 GTTATATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
58 4 0.07
59 54 0.93
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (59 bp):
GTACCAAATTGAATCAAAAAAAGCTGAAGTACCAAATTAAGAAAAAGTATCAAATTTAA
Found at i:37483381 original size:31 final size:29
Alignment explanation
Indices: 37483318--37483383 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
37483308 AAATCAAATT
** **
37483318 TTCATGTATAAAATTATGCAAAATTAAAG
1 TTCATGTATAAAATTACACAAAACCAAAG
37483347 TTCATGTATAAAATTACACATTAAACCAAAG
1 TTCATGTATAAAATTACACA--AAACCAAAG
37483378 TTCATG
1 TTCATG
37483384 CATAGTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 18 0.58
31 13 0.42
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (29 bp):
TTCATGTATAAAATTACACAAAACCAAAG
Found at i:37486700 original size:36 final size:36
Alignment explanation
Indices: 37486657--37486728 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
37486647 CCAAATACAG
*
37486657 CACCTACCTCCACTACACCTATCCCATCACATTCAA
1 CACCTACCTCCACTACACATATCCCATCACATTCAA
* *
37486693 CACCTACCTCCACTACACATTTTCCATCACATTCAA
1 CACCTACCTCCACTACACATATCCCATCACATTCAA
37486729 TGTCTCACTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.25
Consensus pattern (36 bp):
CACCTACCTCCACTACACATATCCCATCACATTCAA
Found at i:37493914 original size:14 final size:15
Alignment explanation
Indices: 37493867--37493916 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
37493857 AAACTTAATA
37493867 TAAAAC-TTAAATCT
1 TAAAACTTTAAATCT
* * *
37493881 TAAACCATCAAATCT
1 TAAAACTTTAAATCT
37493896 T-AAACTTTAAAT-T
1 TAAAACTTTAAATCT
37493909 TAAAACTT
1 TAAAACTT
37493917 GAAACTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
13 2 0.07
14 19 0.66
15 8 0.28
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAACTTTAAATCT
Found at i:37500404 original size:200 final size:201
Alignment explanation
Indices: 37500056--37500452 Score: 787
Period size: 200 Copynumber: 2.0 Consensus size: 201
37500046 GTCCTATAAT
37500056 TATAGATTAATAATTAATGAAATATTTTGAAACTCAAACAATTCTCCCAAAATTTAATATTTTCA
1 TATAGATTAATAATTAATGAAATATTTTGAAACTCAAACAATTCTCCCAAAATTTAATATTTTCA
37500121 TATATACTATTGATAGCCCCTCCCAACTCTTAAATAGGAGGATAATTCACTTTAACACACTCGAA
66 TATATACTATTGATAGCCCCTCCCAACTCTTAAATAGGAGGATAATTCACTTTAACACACTCGAA
37500186 TCCATAATCTCTTGCACTGAAAATAATATCGATACCGGTTGAATTAAGACTCAATCAACACTCCC
131 TCCATAATCTCTTGCACTGAAAATAATATCGATACCGGTTGAATTAAGACTCAATCAACACTCCC
37500251 TAGTCC
196 TAGTCC
37500257 TATA-ATTAATAATTAATGAAATATTTTGAAACTCAAACAATTCTCCCAAAATTTAATATTTTCA
1 TATAGATTAATAATTAATGAAATATTTTGAAACTCAAACAATTCTCCCAAAATTTAATATTTTCA
37500321 TATATACTATTGATAGCCCCTCCCAACTCTTAAATAGGAGGATAATTCACTTTAACACACTCGAA
66 TATATACTATTGATAGCCCCTCCCAACTCTTAAATAGGAGGATAATTCACTTTAACACACTCGAA
37500386 TCCATAATCTCTTGCACTGAAAATAATATCGATACCGGTTGAATTAAGACTCAATCAACACTCCC
131 TCCATAATCTCTTGCACTGAAAATAATATCGATACCGGTTGAATTAAGACTCAATCAACACTCCC
37500451 TA
196 TA
37500453 CTTTTTTTTA
Statistics
Matches: 196, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
200 192 0.98
201 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (201 bp):
TATAGATTAATAATTAATGAAATATTTTGAAACTCAAACAATTCTCCCAAAATTTAATATTTTCA
TATATACTATTGATAGCCCCTCCCAACTCTTAAATAGGAGGATAATTCACTTTAACACACTCGAA
TCCATAATCTCTTGCACTGAAAATAATATCGATACCGGTTGAATTAAGACTCAATCAACACTCCC
TAGTCC
Found at i:37500483 original size:17 final size:18
Alignment explanation
Indices: 37500461--37500505 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
37500451 TACTTTTTTT
37500461 TATATATTTTTAT-ATAA
1 TATATATTTTTATCATAA
*
37500478 TATATAATTTTTATCATGA
1 TATAT-ATTTTTATCATAA
37500497 TATTATATT
1 TA-TATATT
37500506 AAGGAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.21
18 8 0.33
19 8 0.33
20 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATATTTTTATCATAA
Found at i:37501424 original size:9 final size:9
Alignment explanation
Indices: 37501410--37501467 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 9
37501400 GTCCATTTTT
37501410 ATTTTAAAA
1 ATTTTAAAA
37501419 ATTTTAAAAA
1 ATTTT-AAAA
*
37501429 ATTTAAAAAA
1 ATTT-TAAAA
37501439 TATTTTAAAA
1 -ATTTTAAAA
*
37501449 ATATTTTAAA
1 AT-TTTAAAA
37501459 A-TTTAAAA
1 ATTTTAAAA
37501467 A
1 A
37501468 AATTAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
8 7 0.17
9 7 0.17
10 23 0.56
11 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:37501445 original size:30 final size:30
Alignment explanation
Indices: 37501409--37501468 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
37501399 TGTCCATTTT
37501409 TATTTTAAAAAT-TTTAAAAAATTTAAAAAA
1 TATTTTAAAAATATTT-AAAAATTTAAAAAA
*
37501439 TATTTTAAAAATATTTTAAAATTTAAAAAA
1 TATTTTAAAAATATTTAAAAATTTAAAAAA
37501469 ATTAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
TATTTTAAAAATATTTAAAAATTTAAAAAA
Found at i:37502293 original size:129 final size:130
Alignment explanation
Indices: 37502062--37502322 Score: 515
Period size: 129 Copynumber: 2.0 Consensus size: 130
37502052 AATATAATAT
37502062 TTTTTTATATATATTTAGAGACCTTGGCATAAGTATCTTAAAAATGATGAATTCAGATACATAGC
1 TTTTTTATATATATTTAGAGACCTTGGCATAAGTATCTTAAAAATGATGAATTCAGATACATAGC
37502127 ACTCCCCACAGCCACAAGGATTAACCGATTAACACACAAACTTTCTCTTGAATGATGTTATTATA
66 ACTCCCCACAGCCACAAGGATTAACCGATTAACACACAAACTTTCTCTTGAATGATGTTATTATA
37502192 TTTTTTATATA-ATTTAGAGACCTTGGCATAAGTATCTTAAAAATGATGAATTCAGATACATAGC
1 TTTTTTATATATATTTAGAGACCTTGGCATAAGTATCTTAAAAATGATGAATTCAGATACATAGC
37502256 ACTCCCCACAGCCACAAGGATTAACCGATTAACACACAAACTTTCTCTTGAATGATGTTATTATA
66 ACTCCCCACAGCCACAAGGATTAACCGATTAACACACAAACTTTCTCTTGAATGATGTTATTATA
37502321 TT
1 TT
37502323 AATTTAAAAT
Statistics
Matches: 131, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
129 120 0.92
130 11 0.08
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (130 bp):
TTTTTTATATATATTTAGAGACCTTGGCATAAGTATCTTAAAAATGATGAATTCAGATACATAGC
ACTCCCCACAGCCACAAGGATTAACCGATTAACACACAAACTTTCTCTTGAATGATGTTATTATA
Found at i:37504379 original size:22 final size:23
Alignment explanation
Indices: 37504346--37504388 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
37504336 CGGATGTTAA
37504346 TTTTTTTATAATAATTTATTTGG
1 TTTTTTTATAATAATTTATTTGG
**
37504369 TTTTTTT-TAATTTTTTATTT
1 TTTTTTTATAATAATTTATTT
37504389 AAAATTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTTTTTATAATAATTTATTTGG
Found at i:37505316 original size:42 final size:42
Alignment explanation
Indices: 37505268--37505351 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
37505258 CTCTCTGTTT
*
37505268 TAATTTGATTTAATTTGGTTCTTATATTAATCTACTTTTTAA
1 TAATTTGACTTAATTTGGTTCTTATATTAATCTACTTTTTAA
*
37505310 TAATTTGACTTAATTTGGTTCTTATATTACTCTACTTTTTAA
1 TAATTTGACTTAATTTGGTTCTTATATTAATCTACTTTTTAA
37505352 GTTATTATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (42 bp):
TAATTTGACTTAATTTGGTTCTTATATTAATCTACTTTTTAA
Found at i:37505852 original size:29 final size:29
Alignment explanation
Indices: 37505810--37505886 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
37505800 AAAGTTGTAG
** *
37505810 ATTTAGTCTTTATACTTTGATTTGATCAA
1 ATTTAGTCCCTATACTTTGAATTGATCAA
* * * *
37505839 TTTTAGTTCCTATATTTTTGAATTGGTCAA
1 ATTTAGTCCCTATA-CTTTGAATTGATCAA
37505869 ATTTAGTCCCTATACTTT
1 ATTTAGTCCCTATACTTT
37505887 CTAAAATTTA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 13 0.35
30 24 0.65
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.52
Consensus pattern (29 bp):
ATTTAGTCCCTATACTTTGAATTGATCAA
Found at i:37506433 original size:13 final size:13
Alignment explanation
Indices: 37506397--37506425 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
37506387 TTAGTATTGC
37506397 TTTTGAGAAGTGA
1 TTTTGAGAAGTGA
37506410 TTTTGAGAAGT-A
1 TTTTGAGAAGTGA
37506422 TTTT
1 TTTT
37506426 TGAAAAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (13 bp):
TTTTGAGAAGTGA
Found at i:37525428 original size:11 final size:11
Alignment explanation
Indices: 37525407--37525471 Score: 78
Period size: 11 Copynumber: 6.0 Consensus size: 11
37525397 AATAAAAAGT
*
37525407 GAGAAAATTGA
1 GAGAGAATTGA
*
37525418 GAGTGAATTGA
1 GAGAGAATTGA
*
37525429 GAAAGAATT-A
1 GAGAGAATTGA
37525439 GAGAGAATTGA
1 GAGAGAATTGA
*
37525450 AAGAGAATTGA
1 GAGAGAATTGA
*
37525461 GAGTGAATTGA
1 GAGAGAATTGA
37525472 AAAAAAAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
10 9 0.20
11 36 0.80
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.22
Consensus pattern (11 bp):
GAGAGAATTGA
Found at i:37543833 original size:14 final size:16
Alignment explanation
Indices: 37543811--37543842 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
37543801 AACCAGCACT
37543811 AAATCTTAAT-AATTA
1 AAATCTTAATAAATTA
37543826 AAAT-TTAATAAATTA
1 AAATCTTAATAAATTA
37543841 AA
1 AA
37543843 TTATTTGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATCTTAATAAATTA
Found at i:37550803 original size:3 final size:3
Alignment explanation
Indices: 37550795--37550832 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
37550785 TTCATCTAGT
37550795 TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA
37550833 CAGTTAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:37554845 original size:21 final size:22
Alignment explanation
Indices: 37554819--37554859 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
37554809 TTTTTCCCAT
* *
37554819 GTTAGGTTTTTGG-TTTTTAAG
1 GTTAGGGTTTAGGATTTTTAAG
37554840 GTTAGGGTTTAGGATTTTTA
1 GTTAGGGTTTAGGATTTTTA
37554860 GGATTTTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (22 bp):
GTTAGGGTTTAGGATTTTTAAG
Found at i:37555967 original size:51 final size:51
Alignment explanation
Indices: 37555912--37556011 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
37555902 AATTATTTAA
*
37555912 AAATAGGGATTTAAGAGAAATTTAAGAA-GAAATTGAGAGCAAATTGAGATT
1 AAATAGGAATTTAAGAGAAATTT-AGAAGGAAATTGAGAGCAAATTGAGATT
* * * *
37555963 AAATATGAATTTGAGAGAAATTTAGAAGGAATTTGAGAGCAATTTGAGA
1 AAATAGGAATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
37556012 GGAAATTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 4 0.09
51 39 0.91
ACGTcount: A:0.47, C:0.02, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGAATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:37555984 original size:11 final size:11
Alignment explanation
Indices: 37555970--37556036 Score: 59
Period size: 11 Copynumber: 6.0 Consensus size: 11
37555960 ATTAAATATG
37555970 AATTTGAGAGA
1 AATTTGAGAGA
*
37555981 AATTT-AGAAGG
1 AATTTGAG-AGA
*
37555992 AATTTGAGAGC
1 AATTTGAGAGA
37556003 AATTTGAGAGGA
1 AATTTGAGA-GA
37556015 AA-TTGAGA-A
1 AATTTGAGAGA
37556024 AATAATTGAGAGA
1 AAT--TTGAGAGA
37556037 GGATTAGTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
9 3 0.07
10 2 0.04
11 29 0.63
12 11 0.24
13 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.27, T:0.25
Consensus pattern (11 bp):
AATTTGAGAGA
Found at i:37555994 original size:22 final size:22
Alignment explanation
Indices: 37555969--37556035 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
37555959 GATTAAATAT
37555969 GAATTTGAGAGAAATTT-AGAAG
1 GAATTTGAGAGAAATTTGAG-AG
*
37555991 GAATTTGAGAGCAATTTGAGAG
1 GAATTTGAGAGAAATTTGAGAG
*
37556013 GAAATTGAGA-AAATAATTGAGAG
1 GAATTTGAGAGAAAT--TTGAGAG
37556036 AGGATTAGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
21 3 0.08
22 27 0.69
23 9 0.23
ACGTcount: A:0.45, C:0.01, G:0.28, T:0.25
Consensus pattern (22 bp):
GAATTTGAGAGAAATTTGAGAG
Found at i:37570209 original size:25 final size:24
Alignment explanation
Indices: 37570180--37570245 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
37570170 TGTAAATATT
37570180 AAAATAATATTATAAAAAATTTCAA
1 AAAATAATATTATAAAAAATTT-AA
* * *
37570205 TAAATAAAAATATATAAAAATTTAA
1 AAAATAATATTATA-AAAAATTTAA
*
37570230 AAAATATATTTTATAA
1 AAAATA-ATATTATAA
37570246 TGAGTTTGGG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
25 19 0.59
26 13 0.41
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATAATATTATAAAAAATTTAA
Found at i:37574383 original size:34 final size:34
Alignment explanation
Indices: 37574350--37574436 Score: 126
Period size: 34 Copynumber: 2.6 Consensus size: 34
37574340 GTTTAAGGTT
37574350 TTTTAAAAAA-TAATTAAATTAGG-TTTTTGAGG
1 TTTTAAAAAATTAATTAAATTAGGATTTTTGAGG
*
37574382 TTTTAAATAAATTGATTAAATTAGGATTTTTG-GG
1 TTTTAAA-AAATTAATTAAATTAGGATTTTTGAGG
37574416 TTTTAAGAAAATTAATTAAAT
1 TTTTAA-AAAATTAATTAAAT
37574437 CATGGTTTAG
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
32 7 0.14
33 3 0.06
34 32 0.65
35 7 0.14
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (34 bp):
TTTTAAAAAATTAATTAAATTAGGATTTTTGAGG
Found at i:37574875 original size:123 final size:125
Alignment explanation
Indices: 37574510--37575003 Score: 633
Period size: 123 Copynumber: 4.0 Consensus size: 125
37574500 ACTTTTATTT
* * * *
37574510 TTTCTACAGTAGTTTCTGAAAAAAATAATTTTGAGAAGACGATTCT-AAAAAGATAATGTAAAAA
1 TTTCTACAGTAGTTCCTGAAAAAAATAATTTTGAGAAGACGATTATGAATAA-ATAGTGTAAAAA
* * * * *
37574574 ACACTTTAAGCAATATGCATTGTCAGCAAAATTACTGAAAAAAGATCCCACGTGGACGCTC
65 ACACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTC
* * * * *
37574635 TTTTTCTACAGTAGTTCTTGCAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAA
1 --TTTCTACAGTAGTTCCTGAAAAAAATAATTTTGAGAAGACGATTATGAATAAATAGTGTAAAA
* * *
37574700 AACACTTCAAGCAGGATGTA-TGTCAGCAAAATTACTG-AAAAAG-TTTCCACGTGGACGCTC
64 AACACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCT-CACGTGGACGCTC
* * *
37574760 TTTCTACAATAGTTCCTG-AAAAAATAATTTTGAGAAGACGATTATGAGTAAATAGTGTCAAAAA
1 TTTCTACAGTAGTTCCTGAAAAAAATAATTTTGAGAAGACGATTATGAATAAATAGTGTAAAAAA
* * * * * *
37574824 CGCTTCAAGCAGGGTGCACTGTCAGCAAAATTACTG-AAAAAGCTTTAACGTGGACGTTC
66 CACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTC
* *
37574883 TTTCTATAGTAGTTCCTG-AAAAAATAATTTTGAGAAGACGATTATGAATAAATAGTGTCAAAAA
1 TTTCTACAGTAGTTCCTGAAAAAAATAATTTTGAGAAGACGATTATGAATAAATAGTGTAAAAAA
* *
37574947 CGCTTCAAGCAAGGTGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACG
66 CACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACG
37575004 TGGACGCTCT
Statistics
Matches: 332, Mismatches: 30, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
122 56 0.17
123 146 0.44
124 22 0.07
125 19 0.06
126 17 0.05
127 68 0.20
128 4 0.01
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (125 bp):
TTTCTACAGTAGTTCCTGAAAAAAATAATTTTGAGAAGACGATTATGAATAAATAGTGTAAAAAA
CACTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGACGCTC
Found at i:37575511 original size:50 final size:50
Alignment explanation
Indices: 37575432--37575532 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 50
37575422 CTATCTTGAG
*
37575432 TTATATATATAATTTTTATCGCCAAATAAAGCATTTGCAACTTCAACATT
1 TTATATATATAATTTTCATCGCCAAATAAAGCATTTGCAACTTCAACATT
* * * *
37575482 TTATATGTATAATTTTCATTGCCAGATAAAGCATTTGTAACTTCAACATT
1 TTATATATATAATTTTCATCGCCAAATAAAGCATTTGCAACTTCAACATT
37575532 T
1 T
37575533 ACTGTTCTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.42
Consensus pattern (50 bp):
TTATATATATAATTTTCATCGCCAAATAAAGCATTTGCAACTTCAACATT
Found at i:37578286 original size:93 final size:92
Alignment explanation
Indices: 37578173--37578365 Score: 307
Period size: 93 Copynumber: 2.1 Consensus size: 92
37578163 ACTTCTATTT
* * *
37578173 TATT-AAAATATAAAAATAAATTACTGCTAAAATATTAAAAACAACTTTTATTTTATTAAATGAA
1 TATTAAAAATATAAAAATAAATTACTACTAAAATACTAAAAACAAATTTTATTTTATTAAATGAA
37578237 ACAATATAAAAACAGTTTGTACAAATA
66 ACAATATAAAAACAGTTTGTACAAATA
* *
37578264 TGTTAAAAATATTAAAAATAAATTACTATTAAAATACTAAAAACAAATTTTATTTTATTAAATGA
1 TATTAAAAATA-TAAAAATAAATTACTACTAAAATACTAAAAACAAATTTTATTTTATTAAATGA
* *
37578329 AATAATATAAAAATAGTTTGTACAAATA
65 AACAATATAAAAACAGTTTGTACAAATA
37578357 TATTAAAAA
1 TATTAAAAA
37578366 AATCAATGTT
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
91 3 0.03
92 6 0.07
93 83 0.90
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (92 bp):
TATTAAAAATATAAAAATAAATTACTACTAAAATACTAAAAACAAATTTTATTTTATTAAATGAA
ACAATATAAAAACAGTTTGTACAAATA
Found at i:37578501 original size:81 final size:82
Alignment explanation
Indices: 37578366--37578528 Score: 265
Period size: 81 Copynumber: 2.0 Consensus size: 82
37578356 ATATTAAAAA
* * * * *
37578366 AATCAATGTTGGTGCCGGTTGGAATCAGTGCCACATAGGGGTTGTCGATGGTTACGCGTTGGCTT
1 AATCAATGTTGGTGCCGGTCGGAATCAGTGCCACATAGGAGTTGTCGACGGTTACGCGCTGGATT
*
37578431 CCTCCTT-GTTTAGCTT
66 CCTCCTTAGTTCAGCTT
37578447 AATCAATGTTGGTGCCGGTCGGAATCAGTGCCACATAGGAGTTGTCGACGGTTACGCGCTGGATT
1 AATCAATGTTGGTGCCGGTCGGAATCAGTGCCACATAGGAGTTGTCGACGGTTACGCGCTGGATT
37578512 CCTCCTTAGTTCAGCTT
66 CCTCCTTAGTTCAGCTT
37578529 CCGGCGGGGG
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
81 67 0.89
82 8 0.11
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (82 bp):
AATCAATGTTGGTGCCGGTCGGAATCAGTGCCACATAGGAGTTGTCGACGGTTACGCGCTGGATT
CCTCCTTAGTTCAGCTT
Found at i:37580320 original size:25 final size:24
Alignment explanation
Indices: 37580271--37580322 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
37580261 ACTGTTATAG
* *
37580271 AAAATTATAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAAATAATT
37580295 AAAATTACATAAATGAAAAAAT-ATT
1 AAAATTACA-AAAT-AAAAAATAATT
37580320 AAA
1 AAA
37580323 TAATATTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAATTACAAAATAAAAAATAATT
Found at i:37597752 original size:43 final size:43
Alignment explanation
Indices: 37597705--37597798 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
37597695 TCTTTAGCAG
* *
37597705 CGTTTTTCGAAAAATTG-T-CGCTAAAGGTCATGTTCTTTAGTGT
1 CGTTTTTCGAAAAA--GCTCCGCTAAAGGTCAAGTTCTATAGTGT
* * * *
37597748 CGTTTATAGGAAAAGCTCCGCTAAATGTCAAGTTCTATAGTGT
1 CGTTTTTCGAAAAAGCTCCGCTAAAGGTCAAGTTCTATAGTGT
37597791 CGTTTTTC
1 CGTTTTTC
37597799 CACATAAATG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.02
42 1 0.02
43 39 0.95
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.39
Consensus pattern (43 bp):
CGTTTTTCGAAAAAGCTCCGCTAAAGGTCAAGTTCTATAGTGT
Found at i:37599440 original size:17 final size:20
Alignment explanation
Indices: 37599408--37599446 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
37599398 CAATAGGGTT
37599408 ATATGTGCACTTGTAT-GAG
1 ATATGTGCACTTGTATGGAG
37599427 ATATGTG-A-TTGTATGGAG
1 ATATGTGCACTTGTATGGAG
37599445 AT
1 AT
37599447 TATTACAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 6 0.32
19 7 0.37
ACGTcount: A:0.28, C:0.05, G:0.28, T:0.38
Consensus pattern (20 bp):
ATATGTGCACTTGTATGGAG
Found at i:37609572 original size:36 final size:36
Alignment explanation
Indices: 37609513--37609698 Score: 210
Period size: 36 Copynumber: 4.9 Consensus size: 36
37609503 GCTAAGCTAC
* *
37609513 CACTTATCGCTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* *
37609549 CACTTATCACTTTTTCACCTGATCAGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
37609585 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG
* * *
37609627 TTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
37609667 CACTTATCACTTTTTCACTTGATTAGATAAGT
1 CACTTATCACTTTTTCACTTGATCAGATAAGT
37609699 GTACCTAAAG
Statistics
Matches: 128, Mismatches: 12, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
36 90 0.70
38 3 0.02
40 3 0.02
42 2 0.02
44 2 0.02
46 28 0.22
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:37609636 original size:46 final size:45
Alignment explanation
Indices: 37609585--37609739 Score: 166
Period size: 46 Copynumber: 3.6 Consensus size: 45
37609575 ATAAGTATAA
37609585 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGTTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG-TAC
* *
37609631 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG---
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGTAC
* *
37609667 CACTTATCACTTTTTCACTTGATTAGATAAGTGTACCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG-TAC
* * *
37609713 TACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
37609740 AGTACTCAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
36 27 0.30
38 2 0.02
40 3 0.03
42 3 0.03
43 1 0.01
44 2 0.02
46 51 0.57
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (45 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGTAC
Found at i:37609652 original size:118 final size:115
Alignment explanation
Indices: 37609470--37609698 Score: 359
Period size: 118 Copynumber: 2.0 Consensus size: 115
37609460 TACGTATGAT
*
37609470 CACTTATCATTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCGCTTTGTCACTTGA
1 CACTTATCATTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
37609535 TCAGATAAGTATAGCACTTATCACTTTTTCACCTGATCAGATAAGTATAA
66 TCAGATAAGTATAGCACTTATCACTTTTTCACCTGATCAGATAAGTATAA
* * * *
37609585 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGTTACCACTTATCACTTTGTCTCT
1 CACTTATCA-TTTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
* * *
37609650 TGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATTAGATAAGT
63 TGATCAGATAAGTATAGCACTTATCACTTTTTCACCTGATCAGATAAGT
37609699 GTACCTAAAG
Statistics
Matches: 103, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
115 9 0.09
116 5 0.05
117 20 0.19
118 69 0.67
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (115 bp):
CACTTATCATTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
TCAGATAAGTATAGCACTTATCACTTTTTCACCTGATCAGATAAGTATAA
Found at i:37609654 original size:82 final size:82
Alignment explanation
Indices: 37609549--37609739 Score: 292
Period size: 82 Copynumber: 2.3 Consensus size: 82
37609539 ATAAGTATAG
* * *
37609549 CACTTATCACTTTTTCACCTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
* *
37609614 AGTGTAGCTAAAGTTAC
66 AGTGTACCTAAAGCTAC
* * * *
37609631 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATTAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
37609696 AGTGTACCTAAAGCTAC
66 AGTGTACCTAAAGCTAC
*
37609713 TACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTATCTCTTGATCAGA
37609740 AGTACTCAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 99 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (82 bp):
CACTTATCACTTTATCTCTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATA
AGTGTACCTAAAGCTAC
Found at i:37612982 original size:18 final size:17
Alignment explanation
Indices: 37612949--37612987 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
37612939 TTTTATAAAT
37612949 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
37612967 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
37612984 TGTG
1 TGTG
37612988 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:37632818 original size:7 final size:7
Alignment explanation
Indices: 37632808--37632837 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
37632798 TCTCTTTTCC
37632808 TTTTTGT
1 TTTTTGT
37632815 TTTTTGT
1 TTTTTGT
37632822 TTTTTGT
1 TTTTTGT
37632829 TTTTTGT
1 TTTTTGT
37632836 TT
1 TT
37632838 CGAACTGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (7 bp):
TTTTTGT
Found at i:37635782 original size:15 final size:15
Alignment explanation
Indices: 37635762--37635792 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37635752 GCTACGCTTG
37635762 GTTGCTGAGACAAAA
1 GTTGCTGAGACAAAA
37635777 GTTGCTGAGACAAAA
1 GTTGCTGAGACAAAA
37635792 G
1 G
37635793 ACCAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.19
Consensus pattern (15 bp):
GTTGCTGAGACAAAA
Found at i:37641452 original size:16 final size:17
Alignment explanation
Indices: 37641426--37641461 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
37641416 CAACATTTCA
*
37641426 TTAATTAATAATTATAT
1 TTAATTAATAAATATAT
37641443 TTAA-TAATAAATATAT
1 TTAATTAATAAATATAT
37641459 TTA
1 TTA
37641462 TCTTTGATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAATAAATATAT
Found at i:37645948 original size:3 final size:3
Alignment explanation
Indices: 37645940--37645976 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
37645930 AAAAAATACT
37645940 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
37645977 CAAACAGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:37647377 original size:23 final size:24
Alignment explanation
Indices: 37647346--37647390 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
37647336 CTCAATTCAA
*
37647346 TTATTAAAA-TTATAAATATTTTT
1 TTATCAAAATTTATAAATATTTTT
*
37647369 TTATCAAAATTTATCAATATTT
1 TTATCAAAATTTATAAATATTT
37647391 CATATCGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
TTATCAAAATTTATAAATATTTTT
Found at i:37654042 original size:33 final size:33
Alignment explanation
Indices: 37654003--37654066 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
37653993 TGTTTAATAG
*
37654003 AAACAAAAAAAAAAAAAAGTATCACATTAAAAC
1 AAACAAAAAAAAAAAAAAGTACCACATTAAAAC
* *
37654036 AAACAAACAAAAAAAAGAGTACCACATTAAA
1 AAACAAAAAAAAAAAAAAGTACCACATTAAA
37654067 CTTTCATACC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.70, C:0.14, G:0.05, T:0.11
Consensus pattern (33 bp):
AAACAAAAAAAAAAAAAAGTACCACATTAAAAC
Found at i:37656493 original size:28 final size:28
Alignment explanation
Indices: 37656452--37656575 Score: 149
Period size: 28 Copynumber: 4.4 Consensus size: 28
37656442 TGACTTTCGA
* *
37656452 CACTAAGTGTGCGAATTTAATTGTGAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
37656480 TACTAAGTGTGCGAGTTTAATTTGTAAAG
1 CACTAAGTGTGCGAGTTTAA-TTGTAAAG
* *
37656509 CACTAAGTGTGCGAGTATAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * * **
37656537 CACTGAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
37656565 CACTAAGTGTG
1 CACTAAGTGTG
37656576 TGAACTTATT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 56 0.69
29 25 0.31
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:37656546 original size:57 final size:56
Alignment explanation
Indices: 37656452--37656575 Score: 151
Period size: 57 Copynumber: 2.2 Consensus size: 56
37656442 TGACTTTCGA
* * * *
37656452 CACTAAGTGTGCGAATTTAATTGTGAAGTACTAAGTGTGCGAGTTTAATT-TGTAAAG
1 CACTAAGTGTGCGAATATAATGGTAAAGCACTAAGTGTGCGAGTTTAATTAT-T-AAG
* * * *
37656509 CACTAAGTGTGCGAGTATAATGGTAAAGCACTGAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAATATAATGGTAAAGCACTAAGTGTGCGAGTTTAATTATTAAG
37656565 CACTAAGTGTG
1 CACTAAGTGTG
37656576 TGAACTTATT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
56 13 0.22
57 44 0.76
58 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.32
Consensus pattern (56 bp):
CACTAAGTGTGCGAATATAATGGTAAAGCACTAAGTGTGCGAGTTTAATTATTAAG
Found at i:37657133 original size:23 final size:22
Alignment explanation
Indices: 37657082--37657417 Score: 138
Period size: 23 Copynumber: 14.4 Consensus size: 22
37657072 TTGATGTAAA
** * *
37657082 AATGCTGTCCAATTTTGTATAC
1 AATGCTGTTAAATTTTGTGTAT
37657104 ACATGCTGTTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
* *
37657127 AAGTGCTGTCCAAA-TTGGTGTAT
1 AA-TGCTGT-TAAATTTTGTGTAT
* * * *
37657150 GTATGCTGCCTAATTTTTGGTGAAT
1 -AATGCTG-TTAAATTTT-GTGTAT
** * *
37657175 CAATGCTGTCCAATTTTGTATAC
1 -AATGCTGTTAAATTTTGTGTAT
37657198 ACATGCTGTTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
* *
37657221 AAGTGCTGTCCAAA-TTGGTGTAT
1 AA-TGCTGT-TAAATTTTGTGTAT
* * * *
37657244 GTATGCTGCCTAATTTTTGGTGAAT
1 -AATGCTG-TTAAATTTT-GTGTAT
** * *
37657269 CAATGCTGTCCAATTTTGTATAC
1 -AATGCTGTTAAATTTTGTGTAT
37657292 ACATGCTGTTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
* *
37657315 AAGTGCTGTCCAAA-TTGGTGTAT
1 AA-TGCTGT-TAAATTTTGTGTAT
* * * *
37657338 GTATGCTGCCTAATTTTTGGTGAAT
1 -AATGCTG-TTAAATTTT-GTGTAT
** * *
37657363 CAATGCTGTCCAATTTTGTATAC
1 -AATGCTGTTAAATTTTGTGTAT
37657386 ACATGCTGTTAAATTTTGTGTAT
1 A-ATGCTGTTAAATTTTGTGTAT
37657409 AAGTGCTGT
1 AA-TGCTGT
37657418 CCAAATTGGT
Statistics
Matches: 224, Mismatches: 67, Indels: 45
0.67 0.20 0.13
Matches are distributed among these distances:
22 8 0.04
23 150 0.67
24 33 0.15
25 33 0.15
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.42
Consensus pattern (22 bp):
AATGCTGTTAAATTTTGTGTAT
Found at i:37657192 original size:94 final size:94
Alignment explanation
Indices: 37657056--37657442 Score: 722
Period size: 94 Copynumber: 4.1 Consensus size: 94
37657046 TTGTCATATA
* * *
37657056 TATGCTGTCCAAATTTTTGATGTAA-AAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTT
1 TATGCTG-CCTAATTTTTGGTG-AATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTT
37657120 TGTGTATAAGTGCTGTCCAAATTGGTGTATG
64 TGTGTATAAGTGCTGTCCAAATTGGTGTATG
37657151 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTTG
37657216 TGTATAAGTGCTGTCCAAATTGGTGTATG
66 TGTATAAGTGCTGTCCAAATTGGTGTATG
37657245 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTTG
37657310 TGTATAAGTGCTGTCCAAATTGGTGTATG
66 TGTATAAGTGCTGTCCAAATTGGTGTATG
37657339 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTTG
1 TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTTG
37657404 TGTATAAGTGCTGTCCAAATTGGTGTATG
66 TGTATAAGTGCTGTCCAAATTGGTGTATG
37657433 TATGCTGCCT
1 TATGCTGCCT
37657443 GGTACATATA
Statistics
Matches: 288, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
93 2 0.01
94 279 0.97
95 7 0.02
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (94 bp):
TATGCTGCCTAATTTTTGGTGAATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTTG
TGTATAAGTGCTGTCCAAATTGGTGTATG
Found at i:37657429 original size:23 final size:22
Alignment explanation
Indices: 37657011--37657431 Score: 113
Period size: 23 Copynumber: 18.0 Consensus size: 22
37657001 TTTATGCTTA
* *
37657011 AATGCTG-CCCAATTGATGTATT
1 AATGCTGTCCAAATTGGTGTA-T
* * *
37657033 TATGCTGCCCAAATT-GTCATAT
1 AATGCTGTCCAAATTGGT-GTAT
* *
37657055 ATATGCTGTCCAAATTTTTGATGTAAA
1 A-ATGCTGTCCAAA---TTGGTGT-AT
* * * *
37657082 AATGCTGTCCAATTTTGTATAC
1 AATGCTGTCCAAATTGGTGTAT
* *
37657104 ACATGCTGT-TAAATTTTGTGTAT
1 A-ATGCTGTCCAAA-TTGGTGTAT
37657127 AAGTGCTGTCCAAATTGGTGTAT
1 AA-TGCTGTCCAAATTGGTGTAT
* * *
37657150 GTATGCTG-CCTAATTTTTGGTGAAT
1 -AATGCTGTCC-AA--ATTGGTGTAT
* * * *
37657175 CAATGCTGTCCAATTTTGTATAC
1 -AATGCTGTCCAAATTGGTGTAT
* *
37657198 ACATGCTGT-TAAATTTTGTGTAT
1 A-ATGCTGTCCAAA-TTGGTGTAT
37657221 AAGTGCTGTCCAAATTGGTGTAT
1 AA-TGCTGTCCAAATTGGTGTAT
* * *
37657244 GTATGCTG-CCTAATTTTTGGTGAAT
1 -AATGCTGTCC-AA--ATTGGTGTAT
* * * *
37657269 CAATGCTGTCCAATTTTGTATAC
1 -AATGCTGTCCAAATTGGTGTAT
* *
37657292 ACATGCTGT-TAAATTTTGTGTAT
1 A-ATGCTGTCCAAA-TTGGTGTAT
37657315 AAGTGCTGTCCAAATTGGTGTAT
1 AA-TGCTGTCCAAATTGGTGTAT
* * *
37657338 GTATGCTG-CCTAATTTTTGGTGAAT
1 -AATGCTGTCC-AA--ATTGGTGTAT
* * * *
37657363 CAATGCTGTCCAATTTTGTATAC
1 -AATGCTGTCCAAATTGGTGTAT
* *
37657386 ACATGCTGT-TAAATTTTGTGTAT
1 A-ATGCTGTCCAAA-TTGGTGTAT
37657409 AAGTGCTGTCCAAATTGGTGTAT
1 AA-TGCTGTCCAAATTGGTGTAT
37657432 GTATGCTGCC
Statistics
Matches: 295, Mismatches: 65, Indels: 77
0.68 0.15 0.18
Matches are distributed among these distances:
22 31 0.11
23 178 0.60
24 15 0.05
25 48 0.16
26 20 0.07
27 3 0.01
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (22 bp):
AATGCTGTCCAAATTGGTGTAT
Found at i:37657524 original size:48 final size:47
Alignment explanation
Indices: 37657472--37657676 Score: 134
Period size: 48 Copynumber: 4.3 Consensus size: 47
37657462 AATTGTTGTG
37657472 TATATGCTGTCCAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATA
1 TATATGCTGTCCAATTTTTGAT-TAAAAATGCTGCTCAATTTGGTATA
* * * * * *
37657520 TATATGCTGCCCAAATTGTTG-TTTATAA-GCTG-TCCAATTTTTGATGTA
1 TATATGCTGTCC-AATTTTTGATTAAAAATGCTGCT-CAA--TTTGGTATA
* * * * * * * * *
37657568 AAAATGCTGTTCAATTTGTT-A-TATATATGCTGCTCAAATTGTTGTG
1 TATATGCTGTCCAATTT-TTGATTAAAAATGCTGCTCAATTTGGTATA
*
37657614 TATATGCTGTCCAATTTTAGATGTAAAAAAATGCTGCTCAATTTGGTATA
1 TATATGCTGTCCAATTTTTGAT-T--AAAAATGCTGCTCAATTTGGTATA
*
37657664 CATATGCTG-CCAA
1 TATATGCTGTCCAA
37657677 ATTATTGTAT
Statistics
Matches: 115, Mismatches: 29, Indels: 25
0.68 0.17 0.15
Matches are distributed among these distances:
45 2 0.02
46 28 0.24
47 10 0.09
48 37 0.32
49 12 0.10
50 26 0.23
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (47 bp):
TATATGCTGTCCAATTTTTGATTAAAAATGCTGCTCAATTTGGTATA
Found at i:37657529 original size:71 final size:71
Alignment explanation
Indices: 37657442--37657751 Score: 428
Period size: 71 Copynumber: 4.4 Consensus size: 71
37657432 GTATGCTGCC
*
37657442 TGGTACATATATGCTGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATGCTGC
1 TGGTATATATATGCTGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATGCTGC
37657507 TCAATT
66 TCAATT
* * *
37657513 TGGTATATATATGCTGCCCAAATTGTTGTTTATAAGCTGTCCAATTTTTGATGTAAAAATGCTGT
1 TGGTATATATATGCTGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATGCTGC
37657578 TCAATT
66 TCAATT
* * *
37657584 TGTTATATATATGCTGCTCAAATTGTTGTGTATATGCTGTCCAATTTTAGATGTAAAAAAATGCT
1 TGGTATATATATGCTGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGT--AAAAATGCT
37657649 GCTCAATT
64 GCTCAATT
* * * * *
37657657 TGGTATACATATGCTG-CCAAATTATTGTATATATGCTGTCTAATTTTT-AGTGTAAAAATGTTG
1 TGGTATATATATGCTGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGA-TGTAAAAATGCTG
*
37657720 C-CTAGTT
65 CTC-AATT
* *
37657727 TGGTATATAAATGCTGTCCAAATTG
1 TGGTATATATATGCTGCCCAAATTG
37657752 ATGTATATGG
Statistics
Matches: 212, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
69 1 0.00
70 27 0.13
71 124 0.58
72 30 0.14
73 30 0.14
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (71 bp):
TGGTATATATATGCTGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATGCTGC
TCAATT
Found at i:37657626 original size:142 final size:142
Alignment explanation
Indices: 37657448--37657751 Score: 434
Period size: 143 Copynumber: 2.1 Consensus size: 142
37657438 TGCCTGGTAC
*
37657448 ATATATGCTGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGT-AAAAATGCTGCTCAAT
1 ATATATGCTGCCCAAATTGTTGTGTATATGCTGTCCAATTTTAGATGTAAAAAATGCTGCTCAAT
* * *
37657512 TTGGTATATATATGCTGCCCAAATTGTTGTTTATAAGCTGTCCAATTTTT-GATGTAAAAATGCT
66 TTGGTATACATATGCTG-CCAAATTATTGTATATAAGCTGTCCAATTTTTAG-TGTAAAAATGCT
37657576 GTTCAATTTGTTAT
129 GTTCAATTTGTTAT
*
37657590 ATATATGCTGCTCAAATTGTTGTGTATATGCTGTCCAATTTTAGATGTAAAAAAATGCTGCTCAA
1 ATATATGCTGCCCAAATTGTTGTGTATATGCTGTCCAATTTTAGATGT-AAAAAATGCTGCTCAA
* * *
37657655 TTTGGTATACATATGCTGCCAAATTATTGTATATATGCTGTCTAATTTTTAGTGTAAAAATGTTG
65 TTTGGTATACATATGCTGCCAAATTATTGTATATAAGCTGTCCAATTTTTAGTGTAAAAATGCTG
* * *
37657720 -CCTAGTTTGGTAT
130 TTC-AATTTGTTAT
* *
37657733 ATAAATGCTGTCCAAATTG
1 ATATATGCTGCCCAAATTG
37657752 ATGTATATGG
Statistics
Matches: 144, Mismatches: 14, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
142 47 0.33
143 64 0.44
144 33 0.23
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (142 bp):
ATATATGCTGCCCAAATTGTTGTGTATATGCTGTCCAATTTTAGATGTAAAAAATGCTGCTCAAT
TTGGTATACATATGCTGCCAAATTATTGTATATAAGCTGTCCAATTTTTAGTGTAAAAATGCTGT
TCAATTTGTTAT
Found at i:37657638 original size:23 final size:22
Alignment explanation
Indices: 37657054--37657638 Score: 110
Period size: 23 Copynumber: 25.1 Consensus size: 22
37657044 AATTGTCATA
37657054 TATATGCTGTCCAAATTTTTGATG
1 TATATGCTGTCC-AA-TTTTGATG
* *
37657078 TAAAAATGCTGTCCAATTTTGTATA
1 T--ATATGCTGTCCAATTTTG-ATG
* * **
37657103 CACATGCTGTTAAATTTTG-TG
1 TATATGCTGTCCAATTTTGATG
* *
37657124 TATAAGTGCTGTCCAA-ATTGGTG
1 TAT-A-TGCTGTCCAATTTTGATG
*
37657147 TATGTATGCTG-CCTAATTTTTGGTG
1 TA--TATGCTGTCC-AA-TTTTGATG
* *
37657172 AATCAATGCTGTCCAATTTTGTATA
1 TAT--ATGCTGTCCAATTTTG-ATG
* * **
37657197 CACATGCTGTTAAATTTTG-TG
1 TATATGCTGTCCAATTTTGATG
* *
37657218 TATAAGTGCTGTCCAA-ATTGGTG
1 TAT-A-TGCTGTCCAATTTTGATG
*
37657241 TATGTATGCTG-CCTAATTTTTGGTG
1 TA--TATGCTGTCC-AA-TTTTGATG
* *
37657266 AATCAATGCTGTCCAATTTTGTATA
1 TAT--ATGCTGTCCAATTTTG-ATG
* * **
37657291 CACATGCTGTTAAATTTTG-TG
1 TATATGCTGTCCAATTTTGATG
* *
37657312 TATAAGTGCTGTCCAA-ATTGGTG
1 TAT-A-TGCTGTCCAATTTTGATG
*
37657335 TATGTATGCTG-CCTAATTTTTGGTG
1 TA--TATGCTGTCC-AA-TTTTGATG
* *
37657360 AATCAATGCTGTCCAATTTTGTATA
1 TAT--ATGCTGTCCAATTTTG-ATG
* * **
37657385 CACATGCTGTTAAATTTTG-TG
1 TATATGCTGTCCAATTTTGATG
* *
37657406 TATAAGTGCTGTCCAA-ATTGGTG
1 TAT-A-TGCTGTCCAATTTTGATG
** **
37657429 TATGTATGCTG-CC--TGGT-ACA
1 TA--TATGCTGTCCAATTTTGATG
*
37657449 TATATGCTGCCCAAATTGTTG-TG
1 TATATGCTGTCC-AATT-TTGATG
37657472 TATATGCTGTCCAATTTTTGATG
1 TATATGCTGTCCAA-TTTTGATG
* * *
37657495 TAAAAATGCTG-CTCAATTTGGTATA
1 T--ATATGCTGTC-CAATTTTG-ATG
* *
37657520 TATATGCTGCCCAAATTGTTG-TT
1 TATATGCTGTCC-AATT-TTGATG
*
37657543 TATAAGCTGTCCAATTTTTGATG
1 TATATGCTGTCCAA-TTTTGATG
* * * *
37657566 TAAAAATGCTGTTCAATTTGTTATA
1 T--ATATGCTGTCCAATTT-TGATG
*
37657591 TATATGCTGCTCAAATTGTTG-TG
1 TATATGCTG-TCCAATT-TTGATG
37657614 TATATGCTGTCCAATTTTAGATG
1 TATATGCTGTCCAATTTT-GATG
37657637 TA
1 TA
37657639 AAAAAATGCT
Statistics
Matches: 408, Mismatches: 84, Indels: 139
0.65 0.13 0.22
Matches are distributed among these distances:
18 7 0.02
19 2 0.00
20 2 0.00
21 11 0.03
22 42 0.10
23 195 0.48
24 44 0.11
25 89 0.22
26 16 0.04
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.42
Consensus pattern (22 bp):
TATATGCTGTCCAATTTTGATG
Found at i:37657758 original size:23 final size:23
Alignment explanation
Indices: 37657452--37657758 Score: 92
Period size: 23 Copynumber: 13.0 Consensus size: 23
37657442 TGGTACATAT
* * * * *
37657452 ATGCTGCCCAAATTGTTGTGTAT
1 ATGCTGTCCAATTTGATGTATAA
*
37657475 ATGCTGTCCAATTTTTGATGTAAAA
1 ATGCTGTCCAA--TTTGATGTATAA
* * *
37657500 ATGCTG-CTCAATTTGGTATATAT
1 ATGCTGTC-CAATTTGATGTATAA
* * * *
37657523 ATGCTGCCCAAATTGTTGTTTATA
1 ATGCTGTCCAATTTGATGTATA-A
*
37657547 A-GCTGTCCAATTTTTGATGTAAAA
1 ATGCTGTCCAA--TTTGATGTATAA
* * * *
37657571 ATGCTGTTCAATTTGTTATATAT
1 ATGCTGTCCAATTTGATGTATAA
* * * *
37657594 ATGCTG-CTCAAATTGTTGTGTAT
1 ATGCTGTC-CAATTTGATGTATAA
*
37657617 ATGCTGTCCAATTTTAGATGTAAAAAA
1 ATGCTGTCCAA-TTT-GATGT--ATAA
37657644 ATGCTG-CTCAATTTG--GTATACA
1 ATGCTGTC-CAATTTGATGTATA-A
* *
37657666 TATGCTG-CCAAATT-ATTGTATAT
1 -ATGCTGTCCAATTTGA-TGTATAA
* * *
37657689 ATGCTGTCTAATTTTTAGTGTAAAA
1 ATGCTGTCCAA-TTTGA-TGTATAA
* * * *
37657714 ATGTTG-CCTAGTTTGGTATATAA
1 ATGCTGTCC-AATTTGATGTATAA
*
37657737 ATGCTGTCCAAATTGATGTATA
1 ATGCTGTCCAATTTGATGTATA
37657759 TGGGCTGCCC
Statistics
Matches: 205, Mismatches: 54, Indels: 50
0.66 0.17 0.16
Matches are distributed among these distances:
21 2 0.01
22 12 0.06
23 108 0.53
24 21 0.10
25 48 0.23
26 4 0.02
27 10 0.05
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (23 bp):
ATGCTGTCCAATTTGATGTATAA
Found at i:37663097 original size:3 final size:3
Alignment explanation
Indices: 37663091--37663120 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
37663081 ATCGTTGTTG
37663091 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37663121 CTTGTGTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:37667588 original size:16 final size:17
Alignment explanation
Indices: 37667561--37667593 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
37667551 AAAATAATAA
37667561 ATTTTAATTAAAATATT
1 ATTTTAATTAAAATATT
37667578 ATTTTAA-TAAAATATT
1 ATTTTAATTAAAATATT
37667594 TAATTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTTAATTAAAATATT
Found at i:37668600 original size:24 final size:22
Alignment explanation
Indices: 37668567--37668615 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 22
37668557 AAATCCGTAC
37668567 TTTTTTAACATG-CAAGCTTTATT
1 TTTTTTAACATGCCAA-CTTT-TT
37668590 TTTTTTCAACATGCCAACTTTTT
1 TTTTTT-AACATGCCAACTTTTT
37668613 TTT
1 TTT
37668616 ACTTCAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 11 0.46
24 10 0.42
25 3 0.12
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.55
Consensus pattern (22 bp):
TTTTTTAACATGCCAACTTTTT
Found at i:37668621 original size:24 final size:24
Alignment explanation
Indices: 37668573--37668621 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
37668563 GTACTTTTTT
*
37668573 AACATGCAAGCTTTATTTTTTTTC
1 AACATGCAAGCTTTATTTTTCTTC
37668597 AACATGCCAA-CTTT-TTTTTACTTC
1 AACATG-CAAGCTTTATTTTT-CTTC
37668621 A
1 A
37668622 GTTTGTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 5 0.23
24 14 0.64
25 3 0.14
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.47
Consensus pattern (24 bp):
AACATGCAAGCTTTATTTTTCTTC
Found at i:37669408 original size:32 final size:32
Alignment explanation
Indices: 37669372--37669436 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
37669362 AATTTACCAT
37669372 AGTAATTAAAATAATAATTGATTTTTATATAA
1 AGTAATTAAAATAATAATTGATTTTTATATAA
37669404 AGTAATTAAAATAATAATTGATTTTTATATAA
1 AGTAATTAAAATAATAATTGATTTTTATATAA
37669436 A
1 A
37669437 TTTTTAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (32 bp):
AGTAATTAAAATAATAATTGATTTTTATATAA
Found at i:37673932 original size:27 final size:27
Alignment explanation
Indices: 37673902--37673960 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 27
37673892 AAAGCTGTTT
37673902 TTTTTTAA-ATTTACC-GAAATGGGCCA
1 TTTTTTAATATTTACCTG-AATGGGCCA
37673928 GTTTTTTAATTATTTACCTGAATGGGCCA
1 -TTTTTTAA-TATTTACCTGAATGGGCCA
37673957 TTTT
1 TTTT
37673961 CCGGGAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 8 0.28
28 4 0.14
29 16 0.55
30 1 0.03
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (27 bp):
TTTTTTAATATTTACCTGAATGGGCCA
Found at i:37679439 original size:21 final size:21
Alignment explanation
Indices: 37679415--37679462 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
37679405 TGAGATTTAG
37679415 TTTT-TATTTTATTTTGTATAA
1 TTTTATATTTTATTTT-TATAA
*
37679436 TTTTATTTTTTATTTTTATAA
1 TTTTATATTTTATTTTTATAA
37679457 TTTTAT
1 TTTTAT
37679463 TAGTCAGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTATATTTTATTTTTATAA
Found at i:37679463 original size:21 final size:22
Alignment explanation
Indices: 37679421--37679463 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
37679411 TTAGTTTTTA
37679421 TTTTATTTTGTATAATTTTATT
1 TTTTATTTTGTATAATTTTATT
37679443 TTTTATTTT-TATAATTTTATT
1 TTTTATTTTGTATAATTTTATT
37679464 AGTCAGTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTATTTTGTATAATTTTATT
Found at i:37690956 original size:14 final size:14
Alignment explanation
Indices: 37690937--37690964 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37690927 GGCACAAAGC
37690937 AAAAAAAAAAGAAA
1 AAAAAAAAAAGAAA
37690951 AAAAAAAAAAGAAA
1 AAAAAAAAAAGAAA
37690965 GATTCTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAAA
Found at i:37693734 original size:23 final size:23
Alignment explanation
Indices: 37693708--37693752 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
37693698 TAGTCATTTT
*
37693708 AAAACTATTGTTTA-TTTTAGAAG
1 AAAACT-TAGTTTATTTTTAGAAG
37693731 AAAACTTAGTTTATTTTTAGAA
1 AAAACTTAGTTTATTTTTAGAA
37693753 AAACTCATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.44
Consensus pattern (23 bp):
AAAACTTAGTTTATTTTTAGAAG
Found at i:37695320 original size:33 final size:33
Alignment explanation
Indices: 37695250--37695400 Score: 162
Period size: 33 Copynumber: 4.5 Consensus size: 33
37695240 ACATCATCAG
* * *
37695250 TCCAACCCAACACACCAGATGCTTACT-CGAGCCAA
1 TCCAA-CCATCACACCA-ATGCTTA-TAAGAGCTAA
* *
37695285 TCCATCCATCACATCAATGCTTATAAGAGCTAA
1 TCCAACCATCACACCAATGCTTATAAGAGCTAA
* *
37695318 TCCAACCATCATACCAATGCTCATAAGAGCTAAA
1 TCCAACCATCACACCAATGCTTATAAGAGCT-AA
* *
37695352 T-CGACCATCACACCAATGCTTATAAGAGCAAA
1 TCCAACCATCACACCAATGCTTATAAGAGCTAA
*
37695384 ACCAACCATCACACCAA
1 TCCAACCATCACACCAA
37695401 AAAGAAAGTA
Statistics
Matches: 98, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
32 3 0.03
33 79 0.81
34 12 0.12
35 4 0.04
ACGTcount: A:0.39, C:0.33, G:0.09, T:0.19
Consensus pattern (33 bp):
TCCAACCATCACACCAATGCTTATAAGAGCTAA
Found at i:37701514 original size:41 final size:42
Alignment explanation
Indices: 37701400--37701515 Score: 119
Period size: 41 Copynumber: 2.7 Consensus size: 42
37701390 AGGATACTAT
* *
37701400 CCTATCTCCCTGAAGTTATAGTGGAGCGGGTTAAAATAAAGGA
1 CCTATCTCCCTGAAGTTACAGTGGAGCAGG-TAAAATAAAGGA
* ** * *
37701443 TCCTATCTCTCTGAAGTTACAGCAGAGCAGGTCACATAAA-G-
1 -CCTATCTCCCTGAAGTTACAGTGGAGCAGGTAAAATAAAGGA
*
37701484 CCTTATCTCCCTGAAGTTACAGTGGGGCAGGT
1 CC-TATCTCCCTGAAGTTACAGTGGAGCAGGT
37701516 TGAATATGCA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
40 2 0.03
41 25 0.42
42 1 0.02
43 7 0.12
44 25 0.42
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (42 bp):
CCTATCTCCCTGAAGTTACAGTGGAGCAGGTAAAATAAAGGA
Found at i:37702362 original size:44 final size:44
Alignment explanation
Indices: 37702312--37702768 Score: 336
Period size: 44 Copynumber: 10.6 Consensus size: 44
37702302 AAGATGGTAG
* * * *
37702312 ATCTTATCTCCCTAAACAGTAGTAGAGCAGATCGAAGATGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACCA
* * * ** **
37702356 ATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAG-CCACCA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACCA
* * * **
37702399 GTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATG-GTA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACCA
* * * *
37702442 GATCTTATCTCCCTAAACAGTAGTAGAGCAGATCGAAGATGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACCA
* * ** **
37702487 ATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACCA
* * * * * *
37702530 GTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACCA
* * *
37702574 ATCTTATCTCCCTAAGCAGTAGTGGAGTATATC--ACAT---CA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACCA
* * *
37702613 AGTCTTAGCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAGA-AACCA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATGACCA
*
37702657 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---G--CACCA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACCA
* * *
37702696 AGTATTATCTCCCTAAGCAGTAGTGAAGCAGA-CAGAAGA-AACCA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATGACCA
* **
37702740 ATCCTATCTCCCTAAAGTTGTAGTGGAGC
1 ATCTTATCTCCCT-AAGCAGTAGTGGAGC
37702769 GGATTAAAAC
Statistics
Matches: 323, Mismatches: 71, Indels: 38
0.75 0.16 0.09
Matches are distributed among these distances:
39 9 0.03
40 56 0.17
42 5 0.02
43 103 0.32
44 149 0.46
45 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACCA
Found at i:37702530 original size:131 final size:131
Alignment explanation
Indices: 37702296--37702686 Score: 549
Period size: 131 Copynumber: 3.0 Consensus size: 131
37702286 NNNNNNNNNN
37702296 AGGTCGAAGATGGTAGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCGAAGATGGCGAATCTT
1 AGGTCGAAGATGGTAGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCGAAGATGGCGAATCTT
*
37702361 ATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAG
66 ATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAG
37702426 C
131 C
37702427 AGGTCGAAGATGGTAGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCGAAGATGGCGAATCTT
1 AGGTCGAAGATGGTAGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCGAAGATGGCGAATCTT
37702492 ATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAG
66 ATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAG
*
37702557 T
131 C
* ** * * * * * *
37702558 AGGTCAAAGATGACAAATCTTATCTCCCTAAGCAGTAGTGGAGTATATC--ACAT--C-AAGTCT
1 AGGTCGAAGATGGTAGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCGAAGATGGCGAA-TCT
* * * *** ** * *
37702618 TAGCTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAACCAATCTTATCTCCCTAAGCAGTAGTGGA
65 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGA
37702683 GC
130 GC
37702685 AG
1 AG
37702687 ATCGCACCAA
Statistics
Matches: 237, Mismatches: 22, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
126 2 0.01
127 62 0.26
129 3 0.01
131 170 0.72
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (131 bp):
AGGTCGAAGATGGTAGATCTTATCTCCCTAAACAGTAGTAGAGCAGATCGAAGATGGCGAATCTT
ATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAG
C
Found at i:37702630 original size:40 final size:41
Alignment explanation
Indices: 37702313--37702837 Score: 244
Period size: 44 Copynumber: 12.3 Consensus size: 41
37702303 AGATGGTAGA
* * * *
37702313 TCTTATCTCCCTAAACAGTAGTAGAGCAGATCGAAGATGGCGAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AACA---CCAAG
* * * *
37702357 TCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACC-AG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TCAA--CACCAAG
* * * ***
37702400 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AACA-CCAAG
* * * *
37702443 ATCTTATCTCCCTAAACAGTAGTAGAGCAGATCGAAGATGGCGAA-
1 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AACA---CCAAG
* * *
37702488 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACC-AG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TCAA--CACCAAG
* * * * * *
37702531 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATGACAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AACA--CCAAG
* * *
37702575 TCTTATCTCCCTAAGCAGTAGTGGAGTATATC-ACATCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAACACCAAG
* *
37702615 TCTTAGCTCCCTAAGCAGTAGTGGAGCAGA-CAAAAGAAACCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-ACACCAAG
*
37702658 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCACCAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAACACCAAG
* * *
37702698 TATTATCTCCCTAAGCAGTAGTGAAGCAGA-CAGAAGAAACCAA-
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC---A-ACACCAAG
* ** * * *
37702741 TCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAACCACAG
1 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCAACACCA-AG
* ** * * * *
37702784 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC-GCATCAAG
1 -TCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCAACACCAAG
37702826 TCTTATCTCCCT
1 TCTTATCTCCCT
37702838 GACGTTGCAG
Statistics
Matches: 370, Mismatches: 76, Indels: 73
0.71 0.15 0.14
Matches are distributed among these distances:
39 7 0.02
40 58 0.16
41 19 0.05
42 10 0.03
43 101 0.27
44 169 0.46
45 2 0.01
46 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (41 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAACACCAAG
Found at i:37702680 original size:83 final size:83
Alignment explanation
Indices: 37702486--37702768 Score: 300
Period size: 83 Copynumber: 3.3 Consensus size: 83
37702476 GAAGATGGCG
* * * ** *
37702486 AATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTA-AGCCACCAGTCCTATCTCCCTAAGCAGT
1 AATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TCACA-CCA--AGTATTAGCTCCCTAAGCAGT
* * * *
37702550 AGTGGAGTAGGTC-AAAGATGACA
62 AGTGGAGCA-GACAAAAGA-AACC
* * * *
37702573 AATCTTATCTCCCTAAGCAGTAGTGGAGTATATCACATCAAGTCTTAGCTCCCTAAGCAGTAGTG
1 AATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACACCAAGTATTAGCTCCCTAAGCAGTAGTG
37702638 GAGCAGACAAAAGAAACC
66 GAGCAGACAAAAGAAACC
* *
37702656 AATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCACCAAGTATTATCTCCCTAAGCAGTAGTG
1 AATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACACCAAGTATTAGCTCCCTAAGCAGTAGTG
* *
37702721 AAGCAGACAGAAGAAACC
66 GAGCAGACAAAAGAAACC
* **
37702739 AATCCTATCTCCCTAAAGTTGTAGTGGAGC
1 AATCTTATCTCCCT-AAGCAGTAGTGGAGC
37702769 GGATTAAAAC
Statistics
Matches: 170, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
83 92 0.54
84 45 0.26
86 4 0.02
87 29 0.17
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (83 bp):
AATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACACCAAGTATTAGCTCCCTAAGCAGTAGTG
GAGCAGACAAAAGAAACC
Found at i:37704329 original size:3 final size:3
Alignment explanation
Indices: 37704311--37704360 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
37704301 CATTAAATTA
* *
37704311 ATT ATT -TT AAT ATT ATT ATT ACT ATT A-T ATT A-T ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
37704356 GTT AT
1 ATT AT
37704361 GATTTACTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 6 0.16
3 32 0.84
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:37704510 original size:20 final size:19
Alignment explanation
Indices: 37704470--37704514 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
37704460 AATTTATTTG
37704470 TATATA-TATGTACATACT
1 TATATATTATGTACATACT
* *
37704488 TATATATTATTTATATACTT
1 TATATATTATGTACATAC-T
37704508 TATATAT
1 TATATAT
37704515 AAACATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 6 0.26
19 9 0.39
20 8 0.35
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (19 bp):
TATATATTATGTACATACT
Found at i:37705809 original size:29 final size:29
Alignment explanation
Indices: 37705776--37705831 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
37705766 AAAAGCCATT
37705776 TTTTTTAAAAAATTACCGAAATGGGCCGG
1 TTTTTTAAAAAATTACCGAAATGGGCCGG
** * *
37705805 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAAAAAATTACCGAAATGGGCC
37705832 ATTTTCCCCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (29 bp):
TTTTTTAAAAAATTACCGAAATGGGCCGG
Found at i:37706163 original size:22 final size:22
Alignment explanation
Indices: 37706131--37706200 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
37706121 AAATTCAATA
37706131 TCAATTTCCTTAAAAAATTCTC
1 TCAATTTCCTTAAAAAATTCTC
* *
37706153 TCAATTCCCTTCAAAAATTCTC
1 TCAATTTCCTTAAAAAATTCTC
* **
37706175 TCAATTTTCTTTCAAAATTCTC
1 TCAATTTCCTTAAAAAATTCTC
37706197 TCAA
1 TCAA
37706201 ACTCTCAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (22 bp):
TCAATTTCCTTAAAAAATTCTC
Found at i:37709753 original size:3 final size:3
Alignment explanation
Indices: 37709745--37709770 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37709735 CAATGTCAAC
37709745 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
37709771 TTGCTTGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:37719628 original size:43 final size:43
Alignment explanation
Indices: 37719525--37719783 Score: 270
Period size: 43 Copynumber: 6.0 Consensus size: 43
37719515 TGCTTTTTTT
* * * * *
37719525 AGAACATGACTTTTAACAGCGCTTTTCTCAAAAACGCCGCT-A
1 AGAACATGACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAA
* *
37719567 AGAACATGACCTTTAGCGGCGCTTTCCCCAAAAACACCGCTAT
1 AGAACATGACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAA
* * * *
37719610 AGAACATGACCTTTAGCGGCGTTTTCCCCATAAATGCTGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAA
* * ** * * *
37719653 AGAACATGGCCTTTAGTGATGCTTTCCCCACAAATGCCACTAA
1 AGAACATGACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAA
* * *
37719696 ACAATATGACCTTTAGCGGCGCTTT-CCCAACAAACGCCACTAA
1 AGAACATGACCTTTAGCGGCGCTTTCCCCAA-AAACGCCGCTAA
** *
37719739 AGAACATGACCTTTAGCGATGCTTTTCCCAAAAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGCGC-TTTCCCCAAAAACGCCGCTAA
37719783 A
1 A
37719784 AGTCATGTTA
Statistics
Matches: 178, Mismatches: 35, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
42 39 0.22
43 120 0.67
44 15 0.08
45 4 0.02
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAA
Done.