Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 210 of 310
Found at i:68847017 original size:23 final size:23
Alignment explanation
Indices: 68846991--68847054 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
68846981 AGCTCTATTA
* *
68846991 AGCTAAAATGGTAAGCTTTGACG
1 AGCTGAAATGGTAAGCTCTGACG
** *
68847014 AGCTGAAACAGTAAGCTCTGATG
1 AGCTGAAATGGTAAGCTCTGACG
*
68847037 AGCTGAATTGGTAAGCTC
1 AGCTGAAATGGTAAGCTC
68847055 ATACAAGCTG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.25
Consensus pattern (23 bp):
AGCTGAAATGGTAAGCTCTGACG
Found at i:68849566 original size:63 final size:63
Alignment explanation
Indices: 68849484--68849653 Score: 241
Period size: 63 Copynumber: 2.7 Consensus size: 63
68849474 CATACGCCCC
* * *
68849484 TGTCTCTGGCTCGTGTGGTCCTTAAAGGCAAACAGTGAGTCACACAACCTAGACACACGCTTG
1 TGTCTCTGGCCCGTGTGGTCCTTAATGGCAAACAGTGAGTCACACAACCTAGACACACGCCTG
* * * * *
68849547 TGTCTCTGGCCCATGTGGTCCTTAATGGAAAATAGTGAGTCACACGACCTAGACACATGCCTG
1 TGTCTCTGGCCCGTGTGGTCCTTAATGGCAAACAGTGAGTCACACAACCTAGACACACGCCTG
* * *
68849610 TGTCTCTAGCCCGTATGGTTCTTAATGGCAAACAGTGAGTCACA
1 TGTCTCTGGCCCGTGTGGTCCTTAATGGCAAACAGTGAGTCACA
68849654 TGGCCTAGCA
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 93 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (63 bp):
TGTCTCTGGCCCGTGTGGTCCTTAATGGCAAACAGTGAGTCACACAACCTAGACACACGCCTG
Found at i:68853056 original size:16 final size:16
Alignment explanation
Indices: 68853037--68853072 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
68853027 AAGAAAAAGA
68853037 AAAATTAAAAACTAAC
1 AAAATTAAAAACTAAC
68853053 AAAATTAAAAACTAAC
1 AAAATTAAAAACTAAC
68853069 AAAA
1 AAAA
68853073 CAATTTGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATTAAAAACTAAC
Found at i:68855726 original size:37 final size:37
Alignment explanation
Indices: 68855640--68855739 Score: 94
Period size: 37 Copynumber: 2.7 Consensus size: 37
68855630 GATACGTTCT
* *
68855640 ACTGAGCCAAATCTTACTGTTATACTGAATGAAGCTCA
1 ACTGAG-CAAATCATACTGTTATACTAAATGAAGCTCA
* * * * *
68855678 A-TCAAGAAAATCATACTGTTATACTAAATGGAGTTTA
1 ACT-GAGCAAATCATACTGTTATACTAAATGAAGCTCA
* *
68855715 ACTGAGCAAATCCTACTGTTCTACT
1 ACTGAGCAAATCATACTGTTATACT
68855740 GACAGATGTT
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
37 45 0.92
38 4 0.08
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (37 bp):
ACTGAGCAAATCATACTGTTATACTAAATGAAGCTCA
Found at i:68866408 original size:13 final size:13
Alignment explanation
Indices: 68866390--68866414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
68866380 TTTTACTTTT
68866390 ATTTTATTTTATC
1 ATTTTATTTTATC
68866403 ATTTTATTTTAT
1 ATTTTATTTTAT
68866415 TTTAACAAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTATTTTATC
Found at i:68868087 original size:24 final size:24
Alignment explanation
Indices: 68868059--68868108 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
68868049 AAGTTGGGTC
*
68868059 TTAGGCTTTAATAAAACAGTGAGT
1 TTAGGCTTAAATAAAACAGTGAGT
* *
68868083 TTAGGCTTAAATCAAACGGTGAGT
1 TTAGGCTTAAATAAAACAGTGAGT
68868107 TT
1 TT
68868109 TGATTGTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (24 bp):
TTAGGCTTAAATAAAACAGTGAGT
Found at i:68876660 original size:16 final size:17
Alignment explanation
Indices: 68876628--68876669 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
68876618 CGGTCATGGC
*
68876628 ATAAATATATGTATATA
1 ATAAATATATCTATATA
68876645 ATAAATATA-CTATATA
1 ATAAATATATCTATATA
68876661 ATAAATATA
1 ATAAATATA
68876670 AGTATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.62
17 9 0.38
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
ATAAATATATCTATATA
Found at i:68877729 original size:36 final size:34
Alignment explanation
Indices: 68877689--68877766 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 34
68877679 CAACTAGCGA
*
68877689 TGGGCGCAAAAATCTTGTCGATTATTCGACTAGTGC
1 TGGGCACAAAAATC--GTCGATTATTCGACTAGTGC
*** *
68877725 TGGGCACACGTATCGTCGATTATTTGACTAGTGC
1 TGGGCACAAAAATCGTCGATTATTCGACTAGTGC
68877759 TGGGCACA
1 TGGGCACA
68877767 CTTATCGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 27 0.73
36 10 0.27
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (34 bp):
TGGGCACAAAAATCGTCGATTATTCGACTAGTGC
Found at i:68877748 original size:34 final size:34
Alignment explanation
Indices: 68877705--68877774 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
68877695 CAAAAATCTT
68877705 GTCGATTATTCGACTAGTGCTGGGCACACGTATC
1 GTCGATTATTCGACTAGTGCTGGGCACACGTATC
* *
68877739 GTCGATTATTTGACTAGTGCTGGGCACACTTATC
1 GTCGATTATTCGACTAGTGCTGGGCACACGTATC
68877773 GT
1 GT
68877775 TGGTTTATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (34 bp):
GTCGATTATTCGACTAGTGCTGGGCACACGTATC
Found at i:68877797 original size:35 final size:35
Alignment explanation
Indices: 68877758--68877937 Score: 84
Period size: 35 Copynumber: 5.1 Consensus size: 35
68877748 TTGACTAGTG
68877758 CTGGGCACACTTATCGTTGGTTTATCCAACTAGCA
1 CTGGGCACACTTATCGTTGGTTTATCCAACTAGCA
* * * * * *** **
68877793 CTGGGTGAAAAACAT-TC--TCGATTATTTGACTAGTG
1 CT-GG-G-CACACTTATCGTTGGTTTATCCAACTAGCA
68877828 CTGGGCACACTTATCGTTGGTTTATCCAACTAGCA
1 CTGGGCACACTTATCGTTGGTTTATCCAACTAGCA
* * * * * *** **
68877863 CTGGGTGAAAAACAT-TC--TCGATTATTTGACTAGTG
1 CT-GG-G-CACACTTATCGTTGGTTTATCCAACTAGCA
68877898 CTGGGCACACTTATCGTTGGTTTATCCAACTAGCA
1 CTGGGCACACTTATCGTTGGTTTATCCAACTAGCA
68877933 CTGGG
1 CTGGG
68877938 TGAAAAACAT
Statistics
Matches: 93, Mismatches: 40, Indels: 24
0.59 0.25 0.15
Matches are distributed among these distances:
32 8 0.09
33 6 0.06
34 4 0.04
35 57 0.61
36 4 0.04
37 6 0.06
38 8 0.09
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (35 bp):
CTGGGCACACTTATCGTTGGTTTATCCAACTAGCA
Found at i:68877814 original size:70 final size:70
Alignment explanation
Indices: 68877740--68878001 Score: 497
Period size: 70 Copynumber: 3.7 Consensus size: 70
68877730 ACACGTATCG
68877740 TCGATTATTTGACTAGTGCTGGGCACACTTATCGTTGGTTTATCCAACTAGCACTGGGTGAAAAA
1 TCGATTATTTGACTAGTGCTGGGCACACTTATCGTTGGTTTATCCAACTAGCACTGGGTGAAAAA
68877805 CATTC
66 CATTC
68877810 TCGATTATTTGACTAGTGCTGGGCACACTTATCGTTGGTTTATCCAACTAGCACTGGGTGAAAAA
1 TCGATTATTTGACTAGTGCTGGGCACACTTATCGTTGGTTTATCCAACTAGCACTGGGTGAAAAA
68877875 CATTC
66 CATTC
68877880 TCGATTATTTGACTAGTGCTGGGCACACTTATCGTTGGTTTATCCAACTAGCACTGGGTGAAAAA
1 TCGATTATTTGACTAGTGCTGGGCACACTTATCGTTGGTTTATCCAACTAGCACTGGGTGAAAAA
68877945 CATTC
66 CATTC
* * *
68877950 TCGATTATTTGACTAGTGCTGGGCACACTTATTGTTCGTATATCCAACTAGC
1 TCGATTATTTGACTAGTGCTGGGCACACTTATCGTTGGTTTATCCAACTAGC
68878002 TCTAGGCGCA
Statistics
Matches: 189, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 189 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (70 bp):
TCGATTATTTGACTAGTGCTGGGCACACTTATCGTTGGTTTATCCAACTAGCACTGGGTGAAAAA
CATTC
Found at i:68877972 original size:35 final size:35
Alignment explanation
Indices: 68877793--68877972 Score: 84
Period size: 35 Copynumber: 5.1 Consensus size: 35
68877783 CCAACTAGCA
68877793 CTGGGTGAAAAACATTCTCGATTATTTGACTAGTG
1 CTGGGTGAAAAACATTCTCGATTATTTGACTAGTG
* * * * * *** **
68877828 CT-GG-G-CACACTTATCGTTGGTTTATCCAACTAGCA
1 CTGGGTGAAAAACAT-TC--TCGATTATTTGACTAGTG
68877863 CTGGGTGAAAAACATTCTCGATTATTTGACTAGTG
1 CTGGGTGAAAAACATTCTCGATTATTTGACTAGTG
* * * * * *** **
68877898 CT-GG-G-CACACTTATCGTTGGTTTATCCAACTAGCA
1 CTGGGTGAAAAACAT-TC--TCGATTATTTGACTAGTG
68877933 CTGGGTGAAAAACATTCTCGATTATTTGACTAGTG
1 CTGGGTGAAAAACATTCTCGATTATTTGACTAGTG
68877968 CTGGG
1 CTGGG
68877973 CACACTTATT
Statistics
Matches: 93, Mismatches: 40, Indels: 24
0.59 0.25 0.15
Matches are distributed among these distances:
32 8 0.09
33 6 0.06
34 4 0.04
35 57 0.61
36 4 0.04
37 6 0.06
38 8 0.09
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (35 bp):
CTGGGTGAAAAACATTCTCGATTATTTGACTAGTG
Found at i:68883607 original size:46 final size:48
Alignment explanation
Indices: 68883535--68883637 Score: 138
Period size: 46 Copynumber: 2.2 Consensus size: 48
68883525 GACAGGACAG
* * * *
68883535 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
68883581 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
68883629 GATAGGAAT
1 GACAGGAAT
68883638 AATTCATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 27 0.55
47 1 0.02
48 21 0.43
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:68898818 original size:1 final size:1
Alignment explanation
Indices: 68898812--68898892 Score: 63
Period size: 1 Copynumber: 81.0 Consensus size: 1
68898802 TTTGTTGGTA
*** *** * * ** *
68898812 TTTTTTTTTTTTTTTTTTTCACTTTTTTTTTGAATTTTTTTTTTTTTGTATTTTTTTTTTTGGTA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
68898877 TTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTT
68898893 GGTGATGAAG
Statistics
Matches: 65, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.06, C:0.02, G:0.05, T:0.86
Consensus pattern (1 bp):
T
Found at i:68898852 original size:30 final size:31
Alignment explanation
Indices: 68898816--68898891 Score: 102
Period size: 30 Copynumber: 2.5 Consensus size: 31
68898806 TTGGTATTTT
68898816 TTTTTTTTTTTTTTTCA-CTTTTTTTTT-GAA
1 TTTTTTTTTTTTTTT-ATCTTTTTTTTTGGAA
* * *
68898846 TTTTTTTTTTTTTGTATTTTTTTTTTTGGTA
1 TTTTTTTTTTTTTTTATCTTTTTTTTTGGAA
68898877 TTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTT
68898892 TGGTGATGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 23 0.57
31 16 0.40
ACGTcount: A:0.07, C:0.03, G:0.05, T:0.86
Consensus pattern (31 bp):
TTTTTTTTTTTTTTTATCTTTTTTTTTGGAA
Found at i:68898853 original size:16 final size:16
Alignment explanation
Indices: 68898809--68898889 Score: 94
Period size: 16 Copynumber: 5.0 Consensus size: 16
68898799 TTGTTTGTTG
68898809 GTATTTTTTTTTTTTT
1 GTATTTTTTTTTTTTT
*
68898825 -TTTTTTCACTTTTTTTTT
1 GTATTTT---TTTTTTTTT
*
68898843 GAATTTTTTTTTTTTT
1 GTATTTTTTTTTTTTT
*
68898859 GTA-TTTTTTTTTTTG
1 GTATTTTTTTTTTTTT
68898874 GTATTTTTTTTTTTTT
1 GTATTTTTTTTTTTTT
68898890 TTTGGTGATG
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
15 19 0.35
16 22 0.41
18 9 0.17
19 4 0.07
ACGTcount: A:0.07, C:0.02, G:0.06, T:0.84
Consensus pattern (16 bp):
GTATTTTTTTTTTTTT
Found at i:68898853 original size:31 final size:29
Alignment explanation
Indices: 68898814--68898892 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 29
68898804 TGTTGGTATT
*
68898814 TTTTTTTTTTTTTTTTTCACTTTTTTTTTGAA
1 TTTTTTTTTTTTTTTTT---TTTTTTTTGGAA
*
68898846 TTTTTTTTTTTTTGTATTTTTTTTTTTGGTA
1 TTTTTTTTTTTTT-T-TTTTTTTTTTTGGAA
68898877 TTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTT
68898893 GGTGATGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
29 2 0.05
30 1 0.02
31 23 0.53
32 13 0.30
33 1 0.02
34 3 0.07
ACGTcount: A:0.06, C:0.03, G:0.05, T:0.86
Consensus pattern (29 bp):
TTTTTTTTTTTTTTTTTTTTTTTTTGGAA
Found at i:68900311 original size:16 final size:16
Alignment explanation
Indices: 68900290--68900321 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
68900280 AAAATGTAAA
68900290 TTACCCAATAATTTGT
1 TTACCCAATAATTTGT
68900306 TTACCCAATAATTTGT
1 TTACCCAATAATTTGT
68900322 CAGTCGTTGA
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:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
TTACCCAATAATTTGT
Found at i:68907115 original size:6 final size:6
Alignment explanation
Indices: 68907106--68907132 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
68907096 CACCGTAAGG
68907106 GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTA
68907133 GCGGTACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:68909990 original size:15 final size:15
Alignment explanation
Indices: 68909970--68909999 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
68909960 CTCAAATTCA
*
68909970 ATTTAATAATTAAAT
1 ATTTAAAAATTAAAT
68909985 ATTTAAAAATTAAAT
1 ATTTAAAAATTAAAT
68910000 TAAATTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTTAAAAATTAAAT
Found at i:68911540 original size:25 final size:25
Alignment explanation
Indices: 68911485--68911540 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
68911475 TTAAGTGATC
68911485 AAAAATTTATGTTTGAATTTAAGTT
1 AAAAATTTATGTTTGAATTTAAGTT
*
68911510 ATAAATTT-TGTTTGATATATTAAG-T
1 AAAAATTTATGTTTGA-AT-TTAAGTT
68911535 AAAAAT
1 AAAAAT
68911541 AAATACTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 7 0.26
25 15 0.56
26 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (25 bp):
AAAAATTTATGTTTGAATTTAAGTT
Found at i:68920927 original size:37 final size:37
Alignment explanation
Indices: 68920877--68920948 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
68920867 TACAACCAAA
68920877 GGCTTGGAATCAAGCTTTCTTCTTCTACTCTTTAACT
1 GGCTTGGAATCAAGCTTTCTTCTTCTACTCTTTAACT
68920914 GGCTTGGAATCAAGCTTTCTTCTTCTACTCTTTAA
1 GGCTTGGAATCAAGCTTTCTTCTTCTACTCTTTAA
68920949 ATATTTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (37 bp):
GGCTTGGAATCAAGCTTTCTTCTTCTACTCTTTAACT
Found at i:68921251 original size:26 final size:26
Alignment explanation
Indices: 68921203--68921273 Score: 126
Period size: 26 Copynumber: 2.8 Consensus size: 26
68921193 AGTTGTAAAG
*
68921203 ATGGAGAAAAGA-GAATGAAATGAGA
1 ATGGGGAAAAGATGAATGAAATGAGA
68921228 ATGGGGAAAAGATGAATGAAATGAGA
1 ATGGGGAAAAGATGAATGAAATGAGA
68921254 ATGGGGAAAAGATGAATGAA
1 ATGGGGAAAAGATGAATGAA
68921274 TTTCATCATC
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 11 0.25
26 33 0.75
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (26 bp):
ATGGGGAAAAGATGAATGAAATGAGA
Found at i:68922364 original size:45 final size:46
Alignment explanation
Indices: 68922314--68922446 Score: 169
Period size: 45 Copynumber: 2.9 Consensus size: 46
68922304 TTATATACCT
* *
68922314 AAAATGATTAAGACCATAGCTGAAAGATGCTATGGCATCATGATA-
1 AAAATGACTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAG
* * * *
68922359 AAAATGAGTAAGAACATAACTAAAAGACGCTATGGCATCATGATAG
1 AAAATGACTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAG
* * *
68922405 AAACAAGACTAAGACCATAGCTGAAAGACACTATGACATCAT
1 AAA-ATGACTAAGACCATAGCTGAAAGACGCTATGGCATCAT
68922447 TTGATAGTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 40 0.54
46 3 0.04
47 31 0.42
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.20
Consensus pattern (46 bp):
AAAATGACTAAGACCATAGCTGAAAGACGCTATGGCATCATGATAG
Found at i:68922553 original size:27 final size:27
Alignment explanation
Indices: 68922523--68922610 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 27
68922513 GACATCGTAA
68922523 ATAGTCTGATGGGACATTAAACACGGG
1 ATAGTCTGATGGGACATTAAACACGGG
* * * * *
68922550 ATAGTCCGATAGGACATCAAACATGAG
1 ATAGTCTGATGGGACATTAAACACGGG
* * * *
68922577 ATAGTATGATGGGACAATAAATACAGG
1 ATAGTCTGATGGGACATTAAACACGGG
68922604 ATAGTCT
1 ATAGTCT
68922611 ACTGGGATAG
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (27 bp):
ATAGTCTGATGGGACATTAAACACGGG
Found at i:68930594 original size:5 final size:5
Alignment explanation
Indices: 68930584--68930608 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
68930574 AAGCTGCTTG
68930584 AGTTT AGTTT AGTTT AGTTT AGTTT
1 AGTTT AGTTT AGTTT AGTTT AGTTT
68930609 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
AGTTT
Found at i:68931553 original size:14 final size:15
Alignment explanation
Indices: 68931519--68931557 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
68931509 TTATTTTAGA
*
68931519 TTATATTTTAATTAC
1 TTATATTTTAAATAC
*
68931534 TTATATTTTAAAT-G
1 TTATATTTTAAATAC
68931548 TTATATTTTA
1 TTATATTTTA
68931558 CTCATTTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TTATATTTTAAATAC
Found at i:68931764 original size:21 final size:21
Alignment explanation
Indices: 68931740--68931779 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
68931730 TTTTATGTTA
68931740 TTTTAACTTTTTTTT-CTTCAT
1 TTTTAA-TTTTTTTTACTTCAT
*
68931761 TTTTCATTTTTTTTACTTC
1 TTTTAATTTTTTTTACTTC
68931780 TCCCTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTAATTTTTTTTACTTCAT
Found at i:68936876 original size:20 final size:20
Alignment explanation
Indices: 68936842--68936883 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
68936832 AACTATTTAA
** *
68936842 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
68936862 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
68936882 AT
1 AT
68936884 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:68939116 original size:16 final size:15
Alignment explanation
Indices: 68939091--68939134 Score: 65
Period size: 13 Copynumber: 3.0 Consensus size: 15
68939081 AATACTTAAG
68939091 TATATAATATAATAA
1 TATATAATATAATAA
68939106 TATATTAATATAAT-A
1 TATA-TAATATAATAA
68939121 -ATATAATATAATAA
1 TATATAATATAATAA
68939135 AACATAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.33
14 4 0.15
15 5 0.19
16 9 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TATATAATATAATAA
Found at i:68939134 original size:8 final size:8
Alignment explanation
Indices: 68939094--68939128 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
68939084 ACTTAAGTAT
68939094 ATAATATA
1 ATAATATA
68939102 ATAATATA
1 ATAATATA
*
68939110 TTAATATA
1 ATAATATA
68939118 ATAATATA
1 ATAATATA
68939126 ATA
1 ATA
68939129 TAATAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATATA
Found at i:68939226 original size:13 final size:14
Alignment explanation
Indices: 68939195--68939227 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
68939185 GAAATAGGAA
68939195 AGAAAAAAAAAAGG
1 AGAAAAAAAAAAGG
*
68939209 AGAAAAGAAAAAGG
1 AGAAAAAAAAAAGG
68939223 -GAAAA
1 AGAAAA
68939228 TTAGGGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAAGG
Found at i:68939430 original size:6 final size:6
Alignment explanation
Indices: 68939422--68939456 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
68939412 ATTTCAAGTT
*
68939422 AATGTT AATGTG AATGTG AATGTG AATGTG AATGT
1 AATGTG AATGTG AATGTG AATGTG AATGTG AATGT
68939457 AAAATTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (6 bp):
AATGTG
Found at i:68943331 original size:44 final size:42
Alignment explanation
Indices: 68943242--68943336 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 42
68943232 TTGATACCAC
**
68943242 TGTCCCAGACAAGGTCTTACACAAAATCAAATAAGATGCTGA
1 TGTCCCAGACAAGGTCTTACACAAAATCAAATAAGATGCAAA
* *
68943284 TGTCCCAGACATGGTCTTACACGTAAAAT-AGAAGT-CGATGCAAA
1 TGTCCCAGACAAGGTCTTACAC--AAAATCA-AA-TAAGATGCAAA
68943328 TGTCCCAGA
1 TGTCCCAGA
68943337 TGTGGTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
42 21 0.47
43 1 0.02
44 22 0.49
45 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (42 bp):
TGTCCCAGACAAGGTCTTACACAAAATCAAATAAGATGCAAA
Found at i:68947519 original size:78 final size:78
Alignment explanation
Indices: 68947422--68947579 Score: 262
Period size: 78 Copynumber: 2.0 Consensus size: 78
68947412 ATCAGGGAAC
* *
68947422 TCACAGACAACAGACACAAATTCAAATTTCTTTTCTGACATTCTCGAATGAATTACATAAGCAAA
1 TCACAGACAACAGACACAAATTCAAATTTCTTTTCTGACATTCTCGAATCAATTACAGAAGCAAA
*
68947487 ATATGCTTCACAA
66 ATAGGCTTCACAA
** *
68947500 TCACAGACAACAGGTACAAATTCAAATTTTTTTTCTGACATTCTCGAATCAATTACAGAAGCAAA
1 TCACAGACAACAGACACAAATTCAAATTTCTTTTCTGACATTCTCGAATCAATTACAGAAGCAAA
68947565 ATAGGCTTCACAA
66 ATAGGCTTCACAA
68947578 TC
1 TC
68947580 TTTTCTCACA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (78 bp):
TCACAGACAACAGACACAAATTCAAATTTCTTTTCTGACATTCTCGAATCAATTACAGAAGCAAA
ATAGGCTTCACAA
Found at i:68950291 original size:42 final size:41
Alignment explanation
Indices: 68950230--68950357 Score: 123
Period size: 44 Copynumber: 3.0 Consensus size: 41
68950220 AATTAGACAT
* *
68950230 CGATGCCACTATCCCAGACAGAGTCTTACACGAAATCAAATA
1 CGATGCCAATGTCCCAGACAG-GTCTTACACGAAATCAAATA
** * * *
68950272 CGATGCTGATGTCCTAGACATGGTCTTACACATAAAACAGAAGT-
1 CGATGCCAATGTCCCAGACA-GGTCTTACAC-GAAATCA-AA-TA
*
68950316 CGATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAAATA
1 CGATGCCAATGTCCCAGAC-AGGTCTTACACGAAATCAAATA
68950358 ACAGAATCCT
Statistics
Matches: 67, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
41 1 0.01
42 26 0.39
43 11 0.16
44 28 0.42
45 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (41 bp):
CGATGCCAATGTCCCAGACAGGTCTTACACGAAATCAAATA
Found at i:68954586 original size:663 final size:663
Alignment explanation
Indices: 68953318--68954643 Score: 2064
Period size: 663 Copynumber: 2.0 Consensus size: 663
68953308 CACATGACAG
* *
68953318 TCCATTCACATTACATCCTGGAGAAACAAAAATGTACCATGATTAACGGGAATTGTATTAGTGGC
1 TCCATTCACATTACATCCTGAAGAAACAAAAATGTACCATGATTAACGGGAATTATATTAGTGGC
* *
68953383 CATGTATGAAGAGGGATATAGTGGAATTCGTGGCTAAATGTGTGACATGTCAACGAGTCAAAGCT
66 CAAGTATGAAGAGGGATATAGTGGAATTCGTGGCTAAATGTGTGACATGACAACGAGTCAAAGCT
** *
68953448 GATTATCAGGTGCCAACTAGATTACTTCAGCCTATTAATATTCCTGAGTGGAAATGGGACTGTAT
131 GAGCATCAGGTGCCAACTAGATTACTTCAGCCTATTAATATTCCTGAGTAGAAATGGGACTGTAT
* * *
68953513 CACAATGGATTTTGTAACTGGATTACCGTTGTAGTAAGTAAGAAAAATACTATTTGGGTTATTGT
196 CACAATGAATTTTGTAACTGGATTACCATTGTAGTAAGTAAGAAAAATACTATTTAGGTTATTGT
* ** *
68953578 TGACAGGTTTACAAAGTCAGCCCATTTTATAGCAGTCAAAATGGATTGGTCACTTCAGAAACTTG
261 TAACAGCCTTACAAAGTCAACCCATTTTATAGCAGTCAAAATGGATTGGTCACTTCAGAAACTTG
* * * *
68953643 CAGAAACTTATATCCAAAAAATTGTGAGACTACATGGAATTCATGTATCGATAATATCTGATCAA
326 CAGAAACTTACATCCAAAAAATTGTAAGACTACATGAAATTCATGTATCGATAATATCTAATCAA
** * *
68953708 GATCCACGGTTTACATCGAGGTTTTTGAAATAGTTGCATGAGTCTCTTGGTACTCGACTGCATTT
391 GATCCACAATTTACATCGAGGTTTTGGAAACAGTTGCATGAGTCTCTTGGTACTCGACTGCATTT
** * *
68953773 TAGTATAGCTTTTCATCCACAAACCGATGGACAGTCAGAACGAGTCATTCATATTTTTGAAGACA
456 TAGTATAGCTTTTCATCCACAAACCGATAAACAGTCAGAACGAGTCATTCAGATTTTAGAAGACA
* * * *
68953838 TGCTTTGAGCTTGTATAATTGATTTTGAATCAGGTTGGGAATGTTACTTACCGTTAGCCGAATTT
521 TGCTTCGAGCTTATATAATTGATTTTGAATCAGGTTGGGAACGTTACTTACCATTAGCCGAATTT
* * *
68953903 GTGTATAATAATATTTTCCAATCAGGTATTCAAA-TGACACAATATGAAGCTCTATATGGTAGGA
586 GTATATAATAATAGTTTCCAATCAAGTATTCAAATTG-CACAATATGAAGCTCTATATGGTAGGA
68953967 GATGTCGATCACCA
650 GATGTCGATCACCA
* * * * * *
68953981 TCCATTCGCATTTCATCCTGAAGAAACAAAAATGTACCGTGATTTATGGGAATTATATTGGTGGC
1 TCCATTCACATTACATCCTGAAGAAACAAAAATGTACCATGATTAACGGGAATTATATTAGTGGC
* *
68954046 CAAGTATGAAGAGGGATATAGTGGAATTCGTGGCTAAATGTTTGACATGACAATGAGTCAAAGCT
66 CAAGTATGAAGAGGGATATAGTGGAATTCGTGGCTAAATGTGTGACATGACAACGAGTCAAAGCT
* **
68954111 GAGCATCAGGTGCCAACTGGATTACTTCAGCCTATTAATATTTTTGAGTAGAAATGGGACTGTAT
131 GAGCATCAGGTGCCAACTAGATTACTTCAGCCTATTAATATTCCTGAGTAGAAATGGGACTGTAT
*
68954176 CACAATGAATTTTGTAATTGGATTACCATTGTCAGTAAGTAAGAAAAATACTATTTAGGTTATTG
196 CACAATGAATTTTGTAACTGGATTACCATTGT-AGTAAGTAAGAAAAATACTATTTAGGTTATTG
* * * * *
68954241 TTAACCGCCTTAGAAAGTCAACCCATTTTATAGTAGTTAGAATGGATTGG-CTACTTCAGAAACT
260 TTAACAGCCTTACAAAGTCAACCCATTTTATAGCAGTCAAAATGGATTGGTC-ACTTCAGAAACT
** * *
68954305 TGCAGAAACTTACATCCAGGAAATTGTAAGACTACATGAAATTCTTGTATCGATAATCTCTAATC
324 TGCAGAAACTTACATCCAAAAAATTGTAAGACTACATGAAATTCATGTATCGATAATATCTAATC
* * *
68954370 GAGATCCACAATTTACATCGAGGTTTTGGAAACAGTTGCTTGAGTCTCTTGGTACTCGACTTCAT
389 AAGATCCACAATTTACATCGAGGTTTTGGAAACAGTTGCATGAGTCTCTTGGTACTCGACTGCAT
68954435 TTTAGTATAGCTTTTCATCCACAAACCGATAAACAGTCAGAACGAGTCATT-AGATTTTAGAAGA
454 TTTAGTATAGCTTTTCATCCACAAACCGATAAACAGTCAGAACGAGTCATTCAGATTTTAGAAGA
* *
68954499 CATGCTTCGATCTTATATCATTGATTTTGAATCAGGTTGGGAACGTTACTTACCATTAGCCGAAT
519 CATGCTTCGAGCTTATATAATTGATTTTGAATCAGGTTGGGAACGTTACTTACCATTAGCCGAAT
*
68954564 TTGTATATAATAATAGTTTCCAATCAAGTATTCAAATTGCACCATATGAAGCTCTATATGGTAGG
584 TTGTATATAATAATAGTTTCCAATCAAGTATTCAAATTGCACAATATGAAGCTCTATATGGTAGG
68954629 AGATGTCGATCACCA
649 AGATGTCGATCACCA
68954644 GTGTATTGGA
Statistics
Matches: 600, Mismatches: 60, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
663 350 0.58
664 250 0.42
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (663 bp):
TCCATTCACATTACATCCTGAAGAAACAAAAATGTACCATGATTAACGGGAATTATATTAGTGGC
CAAGTATGAAGAGGGATATAGTGGAATTCGTGGCTAAATGTGTGACATGACAACGAGTCAAAGCT
GAGCATCAGGTGCCAACTAGATTACTTCAGCCTATTAATATTCCTGAGTAGAAATGGGACTGTAT
CACAATGAATTTTGTAACTGGATTACCATTGTAGTAAGTAAGAAAAATACTATTTAGGTTATTGT
TAACAGCCTTACAAAGTCAACCCATTTTATAGCAGTCAAAATGGATTGGTCACTTCAGAAACTTG
CAGAAACTTACATCCAAAAAATTGTAAGACTACATGAAATTCATGTATCGATAATATCTAATCAA
GATCCACAATTTACATCGAGGTTTTGGAAACAGTTGCATGAGTCTCTTGGTACTCGACTGCATTT
TAGTATAGCTTTTCATCCACAAACCGATAAACAGTCAGAACGAGTCATTCAGATTTTAGAAGACA
TGCTTCGAGCTTATATAATTGATTTTGAATCAGGTTGGGAACGTTACTTACCATTAGCCGAATTT
GTATATAATAATAGTTTCCAATCAAGTATTCAAATTGCACAATATGAAGCTCTATATGGTAGGAG
ATGTCGATCACCA
Found at i:68955594 original size:16 final size:14
Alignment explanation
Indices: 68955570--68955613 Score: 63
Period size: 13 Copynumber: 3.1 Consensus size: 14
68955560 ATACTTAAGT
68955570 ATATAATATAATAA
1 ATATAATATAATAA
68955584 CATATTAATATAAT-A
1 -ATA-TAATATAATAA
68955599 ATATAATATAATAA
1 ATATAATATAATAA
68955613 A
1 A
68955614 ACATAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.33
14 5 0.19
15 4 0.15
16 9 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
ATATAATATAATAA
Found at i:68955612 original size:8 final size:8
Alignment explanation
Indices: 68955572--68955606 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
68955562 ACTTAAGTAT
68955572 ATAATATA
1 ATAATATA
*
68955580 ATAACATA
1 ATAATATA
*
68955588 TTAATATA
1 ATAATATA
68955596 ATAATATA
1 ATAATATA
68955604 ATA
1 ATA
68955607 TAATAAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:68955627 original size:29 final size:29
Alignment explanation
Indices: 68955570--68955628 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
68955560 ATACTTAAGT
* *
68955570 ATATAATATAATAACATATTAATATAATA
1 ATATAATATAATAACATATAAAGATAATA
68955599 ATATAATATAATAAAACATA-AAAGA-AATA
1 ATATAATATAAT--AACATATAAAGATAATA
68955628 A
1 A
68955629 AGAAACAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 17 0.65
30 3 0.12
31 6 0.23
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (29 bp):
ATATAATATAATAACATATAAAGATAATA
Found at i:68958217 original size:15 final size:15
Alignment explanation
Indices: 68958197--68958225 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
68958187 GAAGCGCTTG
68958197 ATAAATTTAAAGTTT
1 ATAAATTTAAAGTTT
68958212 ATAAATTTAAAGTT
1 ATAAATTTAAAGTT
68958226 GAACTTCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (15 bp):
ATAAATTTAAAGTTT
Found at i:68966191 original size:59 final size:59
Alignment explanation
Indices: 68966126--68966277 Score: 193
Period size: 59 Copynumber: 2.5 Consensus size: 59
68966116 TTCTAATAAG
**
68966126 ATTATTATTAAATATAATTTAATAATTAATAATAAATAATTTAAT-CATATTTTAATATA
1 ATTATTATTAAATATAATTTAATAAACAATAATAAATAATTTAATACAT-TTTTAATATA
*
68966185 ATTATTATTAAATATAATTTAATAAAAACAATAATATATAATTTAATAACATTTTTAATATA
1 ATTATTATTAAATATAATTTAAT--AAACAATAATAAATAATTTAAT-ACATTTTTAATATA
*
68966247 TTTATTATTAAAATATTAA-TTAATAAA-AATA
1 ATTATTATT-AAATA-TAATTTAATAAACAATA
68966278 TTAGACTAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
59 23 0.28
60 4 0.05
61 22 0.27
62 18 0.22
63 13 0.16
64 3 0.04
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAACAATAATAAATAATTTAATACATTTTTAATATA
Found at i:68966262 original size:15 final size:16
Alignment explanation
Indices: 68966239--68966280 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
68966229 AATAACATTT
* *
68966239 TTAATATATTTATT-A
1 TTAAAATATTAATTAA
68966254 TTAAAATATTAATTAA
1 TTAAAATATTAATTAA
*
68966270 TAAAAATATTA
1 TTAAAATATTA
68966281 GACTAAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAAATATTAATTAA
Found at i:68968093 original size:22 final size:20
Alignment explanation
Indices: 68968047--68968085 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
68968037 CAATATGCAT
*
68968047 AAATATACTTAAAAAATTAA
1 AAATATACTTAAAAAAATAA
68968067 AAATATA-TTAAAAAAATAA
1 AAATATACTTAAAAAAATAA
68968086 TACCAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATATACTTAAAAAAATAA
Found at i:68975339 original size:22 final size:22
Alignment explanation
Indices: 68975297--68975346 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
68975287 TTTCACAAAC
68975297 TAATAAATAACATATAAATATTT
1 TAAT-AATAACATATAAATATTT
68975320 TAATAATAA-ATATAATATATTT
1 TAATAATAACATATAA-ATATTT
*
68975342 AAATA
1 TAATA
68975347 TGTTTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 6 0.24
22 15 0.60
23 4 0.16
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATAATAACATATAAATATTT
Found at i:68977866 original size:27 final size:26
Alignment explanation
Indices: 68977836--68977895 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
68977826 TGTTATGTCG
68977836 AAAATAAT-TTAAAAATATAAAATTTCC
1 AAAA-AATATTAAAAATA-AAAATTTCC
* *
68977863 AAAAATTATTAAAAATAAAAATTT-T
1 AAAAAATATTAAAAATAAAAATTTCC
68977888 AAAAAATA
1 AAAAAATA
68977896 GAAAAACATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 7 0.24
26 9 0.31
27 13 0.45
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (26 bp):
AAAAAATATTAAAAATAAAAATTTCC
Found at i:68977892 original size:26 final size:27
Alignment explanation
Indices: 68977844--68977894 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
68977834 CGAAAATAAT
*
68977844 TTAAAAATATAAAATTTCCAAAAATTA
1 TTAAAAATATAAAATTTCAAAAAATTA
*
68977871 TTAAAAATA-AAAATTTTAAAAAAT
1 TTAAAAATATAAAATTTCAAAAAAT
68977895 AGAAAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (27 bp):
TTAAAAATATAAAATTTCAAAAAATTA
Found at i:68977895 original size:16 final size:16
Alignment explanation
Indices: 68977863--68977892 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
68977853 TAAAATTTCC
68977863 AAAAATTATTAAAAAT
1 AAAAATTATTAAAAAT
68977879 AAAAATT-TTAAAAA
1 AAAAATTATTAAAAA
68977893 ATAGAAAAAC
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAATTATTAAAAAT
Found at i:68977901 original size:25 final size:27
Alignment explanation
Indices: 68977846--68977901 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
68977836 AAAATAATTT
* **
68977846 AAAAATATAAAATTTCCAAAAATTATT
1 AAAAATATAAAATTTCCAAAAAATAGA
*
68977873 AAAAATA-AAAATTT-TAAAAAATAGA
1 AAAAATATAAAATTTCCAAAAAATAGA
68977898 AAAA
1 AAAA
68977902 CATTTGAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 11 0.44
26 7 0.28
27 7 0.28
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.27
Consensus pattern (27 bp):
AAAAATATAAAATTTCCAAAAAATAGA
Found at i:68980012 original size:5 final size:6
Alignment explanation
Indices: 68979999--68980051 Score: 79
Period size: 6 Copynumber: 8.5 Consensus size: 6
68979989 ATAATTTAAT
*
68979999 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
68980049 AAA
1 AAA
68980052 ACATATAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 38 0.88
8 5 0.12
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:68980092 original size:9 final size:9
Alignment explanation
Indices: 68980071--68980120 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
68980061 TTTATACAAA
*
68980071 TAATTCGGT
1 TAATTCGGG
*
68980080 TAATTTGGG
1 TAATTCGGG
68980089 TAATTCGGG
1 TAATTCGGG
**
68980098 TAATTCGAT
1 TAATTCGGG
*
68980107 TAATTCGGT
1 TAATTCGGG
68980116 TAATT
1 TAATT
68980121 TTATACTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGG
Found at i:68980094 original size:18 final size:18
Alignment explanation
Indices: 68980071--68980121 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
68980061 TTTATACAAA
*
68980071 TAATTCGGTTAATTTGGG
1 TAATTCGGTTAATTTGAG
* * *
68980089 TAATTCGGGTAATTCGAT
1 TAATTCGGTTAATTTGAG
68980107 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
68980122 TATACTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (18 bp):
TAATTCGGTTAATTTGAG
Found at i:68990331 original size:3 final size:3
Alignment explanation
Indices: 68990323--68990354 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
68990313 AATTTAATCC
*
68990323 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
68990355 AAAACTAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:68991705 original size:24 final size:24
Alignment explanation
Indices: 68991674--68991734 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
68991664 AAGGATAACA
*
68991674 AATGAAAAGGTTGAAAAATATAGC
1 AATGAAAAGGTTGAAAAAGATAGC
*
68991698 AATGAAAAGGTTGAAAAGGATAGC
1 AATGAAAAGGTTGAAAAAGATAGC
68991722 AATGAAAAGGTTG
1 AATGAAAAGGTTG
68991735 GTATCTCATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.26, T:0.20
Consensus pattern (24 bp):
AATGAAAAGGTTGAAAAAGATAGC
Found at i:68993364 original size:42 final size:42
Alignment explanation
Indices: 68993285--68993365 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
68993275 ATCAAATGTA
* *
68993285 CACACGGGCTGACACACGATCATGTAACCCTATTTTGAACAC
1 CACACGGGCTGACACACGATCATGTAACCATACTTTGAACAC
** **
68993327 CACACGGGCTGGGACACGATCATGTGTCCATACTTTGAA
1 CACACGGGCTGACACACGATCATGTAACCATACTTTGAA
68993366 TGTCTACACG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (42 bp):
CACACGGGCTGACACACGATCATGTAACCATACTTTGAACAC
Found at i:68994496 original size:80 final size:80
Alignment explanation
Indices: 68994363--68994525 Score: 317
Period size: 80 Copynumber: 2.0 Consensus size: 80
68994353 TCATGTACGC
*
68994363 TTTTGCATTTAGTTTTGTTCTTGATGATTTTACATGGCAGATCCTGGTTTGTTAAGTTTTTTTTT
1 TTTTGCATTTAGTTTTGTTCTTGATGATTTTACATGGCAGATCCTGGTTTGTTAAGTGTTTTTTT
68994428 TATATCAGATCTTGT
66 TATATCAGATCTTGT
68994443 TTTTGCATTTAGTTTTGTTCTTGATGATTTTACATGGCAGATCCTGGTTTGTTAAGTGTTTTTTT
1 TTTTGCATTTAGTTTTGTTCTTGATGATTTTACATGGCAGATCCTGGTTTGTTAAGTGTTTTTTT
68994508 TATATCAGATCTTGT
66 TATATCAGATCTTGT
68994523 TTT
1 TTT
68994526 ATGATTTTAA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.17, C:0.10, G:0.18, T:0.55
Consensus pattern (80 bp):
TTTTGCATTTAGTTTTGTTCTTGATGATTTTACATGGCAGATCCTGGTTTGTTAAGTGTTTTTTT
TATATCAGATCTTGT
Found at i:68997372 original size:104 final size:104
Alignment explanation
Indices: 68997192--68997399 Score: 398
Period size: 104 Copynumber: 2.0 Consensus size: 104
68997182 TGGTTCGACG
68997192 GTGTTCAGTGGACCGGTGAGGAAGTGGAAGAAGAAGTAGGTTCATAGGTCGCCTTCATCCATCGC
1 GTGTTCAGTGGACCGGTGAGGAAGTGGAAGAAGAAGTAGGTTCATAGGTCGCCTTCATCCATCGC
* *
68997257 TAAACTCTCTCAGTCTAATGGGAACGATTCTGCTGCATC
66 TAAACTCTCTCAGTCCAATGGGAACGATTCCGCTGCATC
68997296 GTGTTCAGTGGACCGGTGAGGAAGTGGAAGAAGAAGTAGGTTCATAGGTCGCCTTCATCCATCGC
1 GTGTTCAGTGGACCGGTGAGGAAGTGGAAGAAGAAGTAGGTTCATAGGTCGCCTTCATCCATCGC
68997361 TAAACTCTCTCAGTCCAATGGGAACGATTCCGCTGCATC
66 TAAACTCTCTCAGTCCAATGGGAACGATTCCGCTGCATC
68997400 CAGCATCCTG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (104 bp):
GTGTTCAGTGGACCGGTGAGGAAGTGGAAGAAGAAGTAGGTTCATAGGTCGCCTTCATCCATCGC
TAAACTCTCTCAGTCCAATGGGAACGATTCCGCTGCATC
Found at i:68998315 original size:18 final size:17
Alignment explanation
Indices: 68998282--68998315 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
68998272 TAGAGGCATT
*
68998282 GAGAAAATTTGGAAAGA
1 GAGAAAATTAGGAAAGA
68998299 GAGAAAATCTAGGAAAG
1 GAGAAAAT-TAGGAAAG
68998316 CATTGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.03, G:0.29, T:0.15
Consensus pattern (17 bp):
GAGAAAATTAGGAAAGA
Found at i:68998826 original size:30 final size:30
Alignment explanation
Indices: 68998786--68998844 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
68998776 ATAGTAATAG
*
68998786 ATACAGATACAAATTCAGACACAGATGCAT
1 ATACAAATACAAATTCAGACACAGATGCAT
*
68998816 ATACAAATACAGATTCAGACACAGATGCA
1 ATACAAATACAAATTCAGACACAGATGCA
68998845 AAAATAAAAA
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:0.47, C:0.20, G:0.14, T:0.19
Consensus pattern (30 bp):
ATACAAATACAAATTCAGACACAGATGCAT
Found at i:68998864 original size:31 final size:31
Alignment explanation
Indices: 68998798--68998875 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
68998788 ACAGATACAA
* *
68998798 ATTCAGACACAGATGC-ATATACAAATACAG
1 ATTCAGACACAGATGCAAAATACAAAAACAG
*
68998828 ATTCAGACACAGATGCAAAAATA-AAAAATAG
1 ATTCAGACACAGATGC-AAAATACAAAAACAG
*
68998859 ATTCAGACACAAATGCA
1 ATTCAGACACAGATGCA
68998876 GATACAGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 17 0.40
31 21 0.50
32 4 0.10
ACGTcount: A:0.51, C:0.18, G:0.13, T:0.18
Consensus pattern (31 bp):
ATTCAGACACAGATGCAAAATACAAAAACAG
Found at i:69001537 original size:13 final size:14
Alignment explanation
Indices: 69001519--69001548 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
69001509 AAAAACTAAA
69001519 AAATAAAT-AAAAT
1 AAATAAATAAAAAT
69001532 AAATAAATAAAAAT
1 AAATAAATAAAAAT
69001546 AAA
1 AAA
69001549 GAGTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:69001785 original size:3 final size:3
Alignment explanation
Indices: 69001766--69002062 Score: 308
Period size: 3 Copynumber: 98.3 Consensus size: 3
69001756 AGAAAGAGAT
* * * * * * *
69001766 ATA ATA CTA AAA ATA ATA ATA ATA ATG CTA A-A TTA AT- TTG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69001812 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69001860 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
69001908 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA AGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * *
69001954 ATA ATA ATA CGCTA ATA ATA ATA GTA A-A AAA ATA A-A TATAA ATA AT-
1 ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA -AT-A ATA ATA
*
69002000 ATA A-A AT- TTA A-A AGTA TATGA A-A ATA TATAA ATAA ATA GATA ATA
1 ATA ATA ATA ATA ATA A-TA -AT-A ATA ATA -AT-A AT-A ATA -ATA ATA
69002045 A-A ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
69002063 AGGTAAAAGT
Statistics
Matches: 251, Mismatches: 22, Indels: 42
0.80 0.07 0.13
Matches are distributed among these distances:
2 16 0.06
3 211 0.84
4 18 0.07
5 6 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:69002227 original size:16 final size:16
Alignment explanation
Indices: 69002206--69002250 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
69002196 TAATAGTAAT
*
69002206 AATAATAATGAATA-TA
1 AATAATAAT-AAAAGTA
*
69002222 AATAATAGTAAAAGTA
1 AATAATAATAAAAGTA
69002238 AATAATAATAAAA
1 AATAATAATAAAA
69002251 TTATCTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 3 0.12
16 22 0.88
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (16 bp):
AATAATAATAAAAGTA
Found at i:69003760 original size:45 final size:44
Alignment explanation
Indices: 69003693--69003945 Score: 267
Period size: 45 Copynumber: 5.6 Consensus size: 44
69003683 ATCTGTTCCA
* * * *
69003693 CTGCTCCACTGTAACTTCAGGGAGATGAGATTTGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAAT
* * * *
69003738 CTGCTCCGCTGCAACTTTAGGGAGATAAGACTTGTAACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAAT
*
69003782 CTGCTCCATTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAACTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAA-------GATTTGTAACTTCAAT
* * *
69003833 CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGATATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAAT
* *
69003878 CTGCTTCC-CTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAC
1 CTGC-TCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAAT
*
69003922 CTGCTCCACTACAAC-TCAGGGAGA
1 CTGCTCCACTGCAACTTCAGGGAGA
69003946 CAAGGCTAGT
Statistics
Matches: 175, Mismatches: 23, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
43 12 0.07
44 54 0.31
45 65 0.37
46 3 0.02
51 41 0.23
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAAT
Found at i:69003900 original size:140 final size:139
Alignment explanation
Indices: 69003693--69003950 Score: 419
Period size: 140 Copynumber: 1.8 Consensus size: 139
69003683 ATCTGTTCCA
* * * * *
69003693 CTGCTCCACTGTAACTTCAGGGAGATGAGATTTGCTATCTTCAGTCTGCTCCGCTGCAACTTTAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGATATCTTCAGTCTGCTCCGCTGCAACTTCAG
* * *
69003758 GGAGATAAGACTTGTAACTTCAACCTGCTCCATTGCAACTTCAGGGAGATAAGGTTTGTGATTTG
66 GGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAAC-TCAGGGAGACAAGGTTTGTGATTTG
69003823 TAACTTCAAT
130 TAACTTCAAT
69003833 CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGATATCTTCAGTCTGCTTCC-CTGCAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGATATCTTCAGTCTGC-TCCGCTGCAACTTCA
69003897 GGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTCAGGGAGACAAGG
65 GGGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTCAGGGAGACAAGG
69003951 CTAGTGGCTT
Statistics
Matches: 109, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
139 13 0.12
140 93 0.85
141 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (139 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTCGATATCTTCAGTCTGCTCCGCTGCAACTTCAG
GGAGATAAGACTTGTAACTTCAACCTGCTCCACTACAACTCAGGGAGACAAGGTTTGTGATTTGT
AACTTCAAT
Found at i:69004142 original size:45 final size:45
Alignment explanation
Indices: 69004090--69004567 Score: 262
Period size: 45 Copynumber: 10.8 Consensus size: 45
69004080 TAGTGGCTTA
*
69004090 AATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCTCCGTCTTC
1 AATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCTCAGTCTTC
* * *
69004135 AATCTGCTCCATTGCTACCTCATGGAGATAAGA-TCTACAATCTTC
1 AATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCT-CAGTCTTC
* * * * **
69004180 -ATCTTGCTCCAC-TGCT-GCTCAGGGAGACAAG--GCT-AGTGGCTGA
1 AATC-TGCTCC-CTTGCTACCTCAAGGAGATAAGATTCTCAGT--CTTC
*
69004223 AATCTGCTCCCTTGCTACCTCAAGGAAATAAGATTCGTC-GTCTTC
1 AATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTC-TCAGTCTTC
* * *
69004268 GATCTGCTCCATTGCTACCTCATA-GAGATAAGA-TCTACAATCTTC
1 AATCTGCTCCCTTGCTACCTCA-AGGAGATAAGATTCT-CAGTCTTC
** * * * * *
69004313 AGCCTGCTCCAC-TACT-GCTC-AGAGAGACACGA--CT-AGTGGCTTA
1 AATCTGCTCC-CTTGCTACCTCAAG-GAGATAAGATTCTCAGT--CTTC
* * *
69004356 AATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCGCCGTCTTT
1 AATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCTCAGTCTTC
** * *
69004401 AATCTGCTCTATTGCTACCTCATGGAGATAAGATT-TACAATCTTC
1 AATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCT-CAGTCTTC
** * * * * * *
69004446 AGCCTGCTCCAC-TACT-GCTCAGGGAGACAAG--GCT-AGTGGCTTG
1 AATCTGCTCC-CTTGCTACCTCAAGGAGATAAGATTCTCAGT--CTTC
* * * *
69004489 AATCTGCTCCCTTACTACCTGAAGGAGATAAGATTCACTGTCTTC
1 AATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCTCAGTCTTC
* * * *
69004534 GATCTGCTCCATTACTACCTCATGGAGATAAGAT
1 AATCTGCTCCCTTGCTACCTCAAGGAGATAAGAT
69004568 CTGTGAATTC
Statistics
Matches: 323, Mismatches: 74, Indels: 72
0.69 0.16 0.15
Matches are distributed among these distances:
41 6 0.02
42 4 0.01
43 47 0.15
44 78 0.24
45 177 0.55
46 4 0.01
47 7 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
AATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCTCAGTCTTC
Found at i:69004178 original size:133 final size:133
Alignment explanation
Indices: 69003915--69004569 Score: 960
Period size: 133 Copynumber: 5.0 Consensus size: 133
69003905 AGACTTGTAA
* ** *
69003915 CTTCAACCTGCTCCACTACAACTCAGGGAGACAAGGCTAGTGGCTTGAATCTGCTCCCTTGCTA-
1 CTTCAGCCTGCTCCACTACTGCTCAGGGAGACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTAC
* * * * *
69003979 C-C-A--AGATAAGATTCGCCGTCTTCGATCTGTTCCATTACTACCTTATGCAGATGAGATCTAC
66 CTCAAGGAGATAAGATTCGCCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTAC
69004040 AAT
131 AAT
* * * *
69004043 CTTCAGCCTGCTCCATTACTGCTCTGGGAGATAAAGCTAGTGGCTTAAATCTGCTCCCTTGCTAC
1 CTTCAGCCTGCTCCACTACTGCTCAGGGAGACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTAC
* *
69004108 CTCAAGGAGATAAGATTCTCCGTCTTCAATCTGCTCCATTGCTACCTCATGGAGATAAGATCTAC
66 CTCAAGGAGATAAGATTCGCCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTAC
69004173 AAT
131 AAT
* * * *
69004176 CTTCATCTTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTGAAATCTGCTCCCTTGCTAC
1 CTTCAGCCTGCTCCACTACTGCTCAGGGAGACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTAC
* * *
69004241 CTCAAGGAAATAAGATTCGTCGTCTTCGATCTGCTCCATTGCTACCTCATAGAGATAAGATCTAC
66 CTCAAGGAGATAAGATTCGCCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTAC
69004306 AAT
131 AAT
* * *
69004309 CTTCAGCCTGCTCCACTACTGCTCAGAGAGACACGACTAGTGGCTTAAATCTGCTCCCTTGCTAC
1 CTTCAGCCTGCTCCACTACTGCTCAGGGAGACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTAC
** * *
69004374 CTCAAGGAGATAAGATTCGCCGTCTTTAATCTGCTCTATTGCTACCTCATGGAGATAAGATTTAC
66 CTCAAGGAGATAAGATTCGCCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTAC
69004439 AAT
131 AAT
* *
69004442 CTTCAGCCTGCTCCACTACTGCTCAGGGAGACAAGGCTAGTGGCTTGAATCTGCTCCCTTACTAC
1 CTTCAGCCTGCTCCACTACTGCTCAGGGAGACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTAC
* * * *
69004507 CTGAAGGAGATAAGATTCACTGTCTTCGATCTGCTCCATTACTACCTCATGGAGATAAGATCT
66 CTCAAGGAGATAAGATTCGCCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCT
69004570 GTGAATTCAC
Statistics
Matches: 467, Mismatches: 55, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
128 56 0.12
129 1 0.00
130 1 0.00
131 1 0.00
133 408 0.87
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (133 bp):
CTTCAGCCTGCTCCACTACTGCTCAGGGAGACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTAC
CTCAAGGAGATAAGATTCGCCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTAC
AAT
Found at i:69011305 original size:17 final size:17
Alignment explanation
Indices: 69011283--69011327 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
69011273 AACAATAGAT
*
69011283 AAAAAAACTAAAGAATA
1 AAAAAAAATAAAGAATA
*
69011300 AAAAAAAATAAAGAGTA
1 AAAAAAAATAAAGAATA
*
69011317 AAATAAAATAA
1 AAAAAAAATAA
69011328 TAGGACCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (17 bp):
AAAAAAAATAAAGAATA
Found at i:69011406 original size:24 final size:25
Alignment explanation
Indices: 69011379--69011433 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
69011369 TAGACTTAAG
69011379 AATAATAATT-ATA-ACAATAATG-A
1 AATAATAATTAATATA-AATAATGTA
69011402 TAATAAT-ATTAATATAAATAATGTA
1 -AATAATAATTAATATAAATAATGTA
69011427 AATAATA
1 AATAATA
69011434 GAATACCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
23 3 0.11
24 22 0.81
25 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
AATAATAATTAATATAAATAATGTA
Found at i:69011559 original size:3 final size:3
Alignment explanation
Indices: 69011538--69011869 Score: 349
Period size: 3 Copynumber: 110.3 Consensus size: 3
69011528 AGAAAGAGAT
* * * *
69011538 ATA ATA CTA ATA CTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
69011586 A-A TTA AT- TTG ATG ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69011632 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69011680 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
69011728 ATA ATA ATA ATA ATA AT- ACA ATA ATA A-A ATAA AGA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* * * *
69011772 CGCTA ATA ATA ATA GTA AAA ATA ATA AAA ATAA ATA AT- ATA A-A AT-
1 --ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * *
69011817 TTA A-A AGTA TATA AAA AGA TATAA ATAA ATA GATA ATA A-A ATA ATA
1 ATA ATA A-TA -ATA ATA ATA -AT-A AT-A ATA -ATA ATA ATA ATA ATA
69011863 ATA ATA A
1 ATA ATA A
69011870 AGGTAAAAGT
Statistics
Matches: 281, Mismatches: 30, Indels: 36
0.81 0.09 0.10
Matches are distributed among these distances:
2 14 0.05
3 245 0.87
4 18 0.06
5 4 0.01
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:69012068 original size:3 final size:3
Alignment explanation
Indices: 69011976--69012049 Score: 57
Period size: 3 Copynumber: 25.3 Consensus size: 3
69011966 GTTTAATAGT
* * * * *
69011976 ATA ATA ATA ATA ATA ATA GTA A-A A-A AT- ACA ATA GTA GTA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69012021 ATA ATA ATA ATGA AT- ATAA ATA ATA ATA A
1 ATA ATA ATA AT-A ATA AT-A ATA ATA ATA A
69012050 AATTAACTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
2 7 0.12
3 46 0.79
4 5 0.09
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:69017529 original size:12 final size:12
Alignment explanation
Indices: 69017506--69017536 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
69017496 TATGAGAAAG
69017506 TGAAATTATGAAT
1 TGAAA-TATGAAT
69017519 TGAAATATGAAT
1 TGAAATATGAAT
69017531 TGAAAT
1 TGAAAT
69017537 TGAGATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.35
Consensus pattern (12 bp):
TGAAATATGAAT
Found at i:69019715 original size:14 final size:14
Alignment explanation
Indices: 69019693--69019726 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
69019683 CTTTTATACT
69019693 AAATAAATAATAATA
1 AAAT-AATAATAATA
69019708 AAATAATAATAATA
1 AAATAATAATAATA
69019722 AAATA
1 AAATA
69019727 TCTCATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:69020334 original size:24 final size:25
Alignment explanation
Indices: 69020289--69020346 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
69020279 TTAAGAAAAA
**
69020289 GTTATTGAAATGAAATTTATGAAATG
1 GTTATTG-AATGAAATGCATGAAATG
69020315 GTTATTGAA-GAAATGCATGAAATG
1 GTTATTGAATGAAATGCATGAAATG
*
69020339 GATATTGA
1 GTTATTGA
69020347 TGTAGTAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 20 0.69
25 2 0.07
26 7 0.24
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.34
Consensus pattern (25 bp):
GTTATTGAATGAAATGCATGAAATG
Found at i:69022239 original size:20 final size:20
Alignment explanation
Indices: 69022214--69022259 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
69022204 AATTAAAAGC
*
69022214 TGAGAACCAAAATGAGATGT
1 TGAGAACCAAAAAGAGATGT
*
69022234 TGAGAACCAAAAAGAGATTT
1 TGAGAACCAAAAAGAGATGT
69022254 TGAGAA
1 TGAGAA
69022260 ATTGAGGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.24, T:0.20
Consensus pattern (20 bp):
TGAGAACCAAAAAGAGATGT
Found at i:69028653 original size:24 final size:23
Alignment explanation
Indices: 69028626--69028671 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
69028616 TTAGATTTTA
69028626 TTAGAAATAAACTATATATTAACT
1 TTAGAAATAAACTATAT-TTAACT
*
69028650 TTAGAAATAAATTATATTTAAC
1 TTAGAAATAAACTATATTTAAC
69028672 ATATACTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (23 bp):
TTAGAAATAAACTATATTTAACT
Found at i:69028676 original size:33 final size:33
Alignment explanation
Indices: 69028639--69028701 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
69028629 GAAATAAACT
* *
69028639 ATATATTAACTTTAGAA-ATAAATTATATTTAAC
1 ATATACTAACATTAGAATATAAATTA-ATTTAAC
*
69028672 ATATACTAACATTAGAATATAATTTAATTT
1 ATATACTAACATTAGAATATAAATTAATTT
69028702 GATAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 19 0.73
34 7 0.27
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (33 bp):
ATATACTAACATTAGAATATAAATTAATTTAAC
Found at i:69029321 original size:16 final size:16
Alignment explanation
Indices: 69029285--69029345 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
69029275 AATATATAAC
* *
69029285 ATATTTAATATAAGTA
1 ATATTTAAAATAAATA
69029301 ATATTTAAAATAAATA
1 ATATTTAAAATAAATA
*
69029317 TTATTTTATAAATAAATA
1 ATA-TTTA-AAATAAATA
*
69029335 A-ATTGAAAATA
1 ATATTTAAAATA
69029346 TATTAGAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.13
16 19 0.50
17 5 0.13
18 9 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
ATATTTAAAATAAATA
Found at i:69037296 original size:26 final size:26
Alignment explanation
Indices: 69037245--69037298 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
69037235 ACCTAAAGTT
* **
69037245 ATATAATAAATGTTTTTTTTTTCAAA
1 ATATAATAAATGTTGTTTTTCCCAAA
69037271 ATATAATAAATGTTGTTTTTCCCAAA
1 ATATAATAAATGTTGTTTTTCCCAAA
69037297 AT
1 AT
69037299 GTAAGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (26 bp):
ATATAATAAATGTTGTTTTTCCCAAA
Found at i:69048557 original size:13 final size:13
Alignment explanation
Indices: 69048539--69048564 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
69048529 TTGTGTGTTC
69048539 TTTATTTTATTTT
1 TTTATTTTATTTT
69048552 TTTATTTTATTTT
1 TTTATTTTATTTT
69048565 ATTTTTCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTATTTTATTTT
Found at i:69055310 original size:12 final size:12
Alignment explanation
Indices: 69055293--69055317 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69055283 TTGTGTGTTC
69055293 TTTATTTTATTT
1 TTTATTTTATTT
69055305 TTTATTTTATTT
1 TTTATTTTATTT
69055317 T
1 T
69055318 ATTTTTCACA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:69056100 original size:22 final size:23
Alignment explanation
Indices: 69056053--69056107 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
69056043 TGAGGTTATG
* *
69056053 CTTAATTAAGTGGTTTAATTAGA
1 CTTAATTAAGTGATTTAATTAAA
69056076 CTTAATTAA-TGATTT-ATTAAAA
1 CTTAATTAAGTGATTTAATT-AAA
69056098 CTTAATTAAG
1 CTTAATTAAG
69056108 AAAGTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 16 0.57
23 9 0.32
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (23 bp):
CTTAATTAAGTGATTTAATTAAA
Found at i:69059210 original size:153 final size:157
Alignment explanation
Indices: 69058914--69059229 Score: 410
Period size: 153 Copynumber: 2.0 Consensus size: 157
69058904 CTAAAAATTG
* *
69058914 TATATAATGAAAATTTTGGATTATTTTATATTTATGAAATTATTAAAAACATGTTAAAGTATAAT
1 TATATAATGAAAATTTTGGATTATTTGATATTTATGAAATTACTAAAAACATGTTAAAGTATAAT
*
69058979 TTCAATAATAAAACAACAAAATGTATAATATTTTTAAATTTATTTTTATTGCATATGCAATCACT
66 TTCAATAATAAAACAACAAAATGTATAATA---TTAAATTTATTTTTATCGCATATGCAATCACT
69059044 TATTGTTTATATAAATAATGATGTAATTAT
128 TATTGTTTATATAAATAATGATGTAATTAT
* *
69059074 TATATAAAT-AAAATTTTGGATTATTTGATATTTAT-AACGTTACTAAAAATATGTT-AAGTATA
1 TATAT-AATGAAAATTTTGGATTATTTGATATTTATGAA-ATTACTAAAAACATGTTAAAGTATA
* * * * * * * *
69059136 ATTTCAGTAATAAAATAATAATATGTAT-A-A-TAATTTTATTTTTATCGTATATGTAATCATTT
64 ATTTCAATAATAAAACAACAAAATGTATAATATTAAATTTATTTTTATCGCATATGCAATCACTT
* *
69059198 ATTGTTTATATAAGTAATGCTGTAATTAT
129 ATTGTTTATATAAATAATGATGTAATTAT
69059227 TAT
1 TAT
69059230 TTATTTTTTT
Statistics
Matches: 139, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
153 57 0.41
157 1 0.01
158 1 0.01
159 33 0.24
160 44 0.32
161 3 0.02
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (157 bp):
TATATAATGAAAATTTTGGATTATTTGATATTTATGAAATTACTAAAAACATGTTAAAGTATAAT
TTCAATAATAAAACAACAAAATGTATAATATTAAATTTATTTTTATCGCATATGCAATCACTTAT
TGTTTATATAAATAATGATGTAATTAT
Found at i:69059759 original size:20 final size:20
Alignment explanation
Indices: 69059736--69059785 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
69059726 TAATCCAAAT
69059736 TAAAATACTAAAATTCAGAA
1 TAAAATACTAAAATTCAGAA
* *
69059756 TAAAAT-CTTGAAATTCAGGA
1 TAAAATAC-TAAAATTCAGAA
69059776 TAAGAATACT
1 TAA-AATACT
69059786 GATGTGGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 19 0.76
21 4 0.16
22 1 0.04
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGAA
Found at i:69066059 original size:33 final size:33
Alignment explanation
Indices: 69066017--69066084 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
69066007 GTGTGCTCAA
69066017 AGATAGTTTTCATTTACCCTTAATTGATAGATT
1 AGATAGTTTTCATTTACCCTTAATTGATAGATT
*
69066050 AGATAGTTTTCATTTATCCTTAATTGATAGATT
1 AGATAGTTTTCATTTACCCTTAATTGATAGATT
69066083 AG
1 AG
69066085 TGGATGCTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (33 bp):
AGATAGTTTTCATTTACCCTTAATTGATAGATT
Found at i:69066560 original size:27 final size:27
Alignment explanation
Indices: 69066476--69066561 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
69066466 TAGTGAATTG
* * * *
69066476 GGGGTTCGTTAGTTGGTTTAGCGAATT
1 GGGGTTCGCTAGTTGGTTTGGTGAACT
* * * *
69066503 GGGATTTGCCAGTTGG-TTGGTGAGCT
1 GGGGTTCGCTAGTTGGTTTGGTGAACT
*
69066529 AGGGTTCGCTAGTTGGTTTGGTGAACT
1 GGGGTTCGCTAGTTGGTTTGGTGAACT
69066556 GGGGTT
1 GGGGTT
69066562 TGAAAGTATA
Statistics
Matches: 44, Mismatches: 14, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
26 18 0.41
27 26 0.59
ACGTcount: A:0.13, C:0.09, G:0.41, T:0.37
Consensus pattern (27 bp):
GGGGTTCGCTAGTTGGTTTGGTGAACT
Found at i:69068710 original size:18 final size:17
Alignment explanation
Indices: 69068689--69068723 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
69068679 TTATTATTAA
*
69068689 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
69068707 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
69068724 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:69072274 original size:11 final size:11
Alignment explanation
Indices: 69072258--69072285 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
69072248 AATCGGGAGG
69072258 CGAAGGTAGAA
1 CGAAGGTAGAA
69072269 CGAAGGTAGAA
1 CGAAGGTAGAA
69072280 CGAAGG
1 CGAAGG
69072286 AAGAGGCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.39, T:0.07
Consensus pattern (11 bp):
CGAAGGTAGAA
Found at i:69072578 original size:17 final size:17
Alignment explanation
Indices: 69072556--69072593 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
69072546 TGGTTGCACT
69072556 GAATAGGTTCGTGTCCA
1 GAATAGGTTCGTGTCCA
69072573 GAATAGGTTCGTGTCCA
1 GAATAGGTTCGTGTCCA
69072590 GAAT
1 GAAT
69072594 GGAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (17 bp):
GAATAGGTTCGTGTCCA
Found at i:69075376 original size:134 final size:134
Alignment explanation
Indices: 69075203--69075786 Score: 679
Period size: 134 Copynumber: 4.4 Consensus size: 134
69075193 CAATTTGTTG
* * * * * *
69075203 ATTTGCGATCATGACTGATATTATTAAGGCTCGCTGATTTATGATTACAACCTAAGTTTATTGAT
1 ATTTACGATCACGACTAATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTGAT
*
69075268 TTACGATCATAAACAA-TTCCATT-TGAGTTAGTTGATTTACAATCACAACTCCATTCAAACAGT
66 TTACGATCATGAACAAGTT-C-TTCTGAGTTAGTTGATTTACAATCACAACTCCATTCAAACAGT
* *
69075331 TTGCTG
129 TCGCTA
* * *
69075337 ATTTATGATCACAACTAATATTGTTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTGAT
1 ATTTACGATCACGACTAATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTGAT
** * * * * * *
69075402 TTATAATCATGAACAAGTTCTTTTGAATTAGTTGATTTACGATCGCAACTCCATTCAAATAGTTT
66 TTACGATCATGAACAAGTTCTTCTGAGTTAGTTGATTTACAATCACAACTCCATTCAAACAGTTC
* *
69075467 GTTG
131 GCTA
* * * * *
69075471 ATTTACGATCACGACTGATATTGTTAAGGCTCGCTAATTAATGATCACAACCTAAGTTCATTGAT
1 ATTTACGATCACGACTAATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTGAT
* * ** * *
69075536 TTTCGATCATGAACAAGTTCTTCTAAGTTAGTTGATTTATGATCACAACTTCATTTAAACAGTTC
66 TTACGATCATGAACAAGTTCTTCTGAGTTAGTTGATTTACAATCACAACTCCATTCAAACAGTTC
69075601 GCTA
131 GCTA
* * * *
69075605 ATTTACGATCACGACTACTATTATTAAGGCTTGTTGATTTATGATCAAAACCTAAGTTCATTAAT
1 ATTTACGATCACGACTAATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTGAT
* * ** *
69075670 TTATGATCATGAACAAGTTCTTCTGAGTAAGCTT-ATTTACAATTGCAACTCCATTCAAATAGTT
66 TTACGATCATGAACAAGTTCTTCTGAGTTAG-TTGATTTACAATCACAACTCCATTCAAACAGTT
*
69075734 CACTA
130 CGCTA
* * ** * *
69075739 ATTTATGATCACGACTGATGCTATTAAGGCTCATTGATTTACGATCAC
1 ATTTACGATCACGACTAATATTATTAAGGCTCGTTGATTTATGATCAC
69075787 GACTAATATT
Statistics
Matches: 380, Mismatches: 67, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
133 2 0.01
134 374 0.98
135 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (134 bp):
ATTTACGATCACGACTAATATTATTAAGGCTCGTTGATTTATGATCACAACCTAAGTTCATTGAT
TTACGATCATGAACAAGTTCTTCTGAGTTAGTTGATTTACAATCACAACTCCATTCAAACAGTTC
GCTA
Found at i:69075681 original size:268 final size:268
Alignment explanation
Indices: 69075196--69075770 Score: 778
Period size: 268 Copynumber: 2.1 Consensus size: 268
69075186 TATTAAACAA
* * * * *
69075196 TTTGTTGATTTGCGATCATGACTGATATTATTAAGGCTCGCTGATTTATGATTACAACCTAAGTT
1 TTTGTTGATTTACGATCACGACTGATATTATTAAGGCTCGCTAATTAATGATCACAACCTAAGTT
* *
69075261 TATTGATTTACGATCATAAACAATTCCATTTGAGTTAGTTGATTTACAATCACAACTCCATTCAA
66 CATTGATTTACGATCATAAACAATTCCATTTAAGTTAGTTGATTTACAATCACAACTCCATTCAA
* * * * *
69075326 ACAGTTTGCTGATTTATGATCACAACTAATATTGTTAAGGCTCGTTGATTTATGATCACAACCTA
131 ACAGTTCGCTAATTTACGATCACAACTAATATTATTAAGGCTCGTTGATTTATGATCAAAACCTA
* * * *
69075391 AGTTCATTGATTTATAATCATGAACAAGTTCTTTTGAATTAG-TTGATTTACGATCGCAACTCCA
196 AGTTCATTAATTTATAATCATGAACAAGTTCTTCTGAATAAGCTT-ATTTACAATCGCAACTCCA
69075455 TTCAAATAG
260 TTCAAATAG
*
69075464 TTTGTTGATTTACGATCACGACTGATATTGTTAAGGCTCGCTAATTAATGATCACAACCTAAGTT
1 TTTGTTGATTTACGATCACGACTGATATTATTAAGGCTCGCTAATTAATGATCACAACCTAAGTT
* * ** * *
69075529 CATTGATTTTCGATCATGAACAAGTT-C-TTCTAAGTTAGTTGATTTATGATCACAACTTCATTT
66 CATTGATTTACGATCATAAACAA-TTCCATT-TAAGTTAGTTGATTTACAATCACAACTCCATTC
* * *
69075592 AAACAGTTCGCTAATTTACGATCACGACTACTATTATTAAGGCTTGTTGATTTATGATCAAAACC
129 AAACAGTTCGCTAATTTACGATCACAACTAATATTATTAAGGCTCGTTGATTTATGATCAAAACC
* * *
69075657 TAAGTTCATTAATTTATGATCATGAACAAGTTCTTCTGAGTAAGCTTATTTACAATTGCAACTCC
194 TAAGTTCATTAATTTATAATCATGAACAAGTTCTTCTGAATAAGCTTATTTACAATCGCAACTCC
69075722 ATTCAAATAG
259 ATTCAAATAG
*** * * **
69075732 TTCACTAATTTATGATCACGACTGATGCTATTAAGGCTC
1 TTTGTTGATTTACGATCACGACTGATATTATTAAGGCTC
69075771 ATTGATTTAC
Statistics
Matches: 267, Mismatches: 37, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
267 2 0.01
268 261 0.98
269 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (268 bp):
TTTGTTGATTTACGATCACGACTGATATTATTAAGGCTCGCTAATTAATGATCACAACCTAAGTT
CATTGATTTACGATCATAAACAATTCCATTTAAGTTAGTTGATTTACAATCACAACTCCATTCAA
ACAGTTCGCTAATTTACGATCACAACTAATATTATTAAGGCTCGTTGATTTATGATCAAAACCTA
AGTTCATTAATTTATAATCATGAACAAGTTCTTCTGAATAAGCTTATTTACAATCGCAACTCCAT
TCAAATAG
Found at i:69075786 original size:36 final size:36
Alignment explanation
Indices: 69075739--69075822 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 36
69075729 TAGTTCACTA
* * * *
69075739 ATTTATGATCACGACTGATGCTATTAAGGCTCA-TTG
1 ATTTACGATCACGACTAATACTATTAAGGCT-AGTGG
*
69075775 ATTTACGATCACGACTAATATTATTAAGGCTAGTGG
1 ATTTACGATCACGACTAATACTATTAAGGCTAGTGG
69075811 ATTTACGATCAC
1 ATTTACGATCAC
69075823 AACCTAAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 1 0.02
36 41 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (36 bp):
ATTTACGATCACGACTAATACTATTAAGGCTAGTGG
Found at i:69082626 original size:22 final size:22
Alignment explanation
Indices: 69082601--69082643 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
69082591 TATCAAAACA
69082601 ATAACAATAAAAT-AGTAGCAAC
1 ATAACAATAAAATGA-TAGCAAC
* *
69082623 ATAATAGTAAAATGATAGCAA
1 ATAACAATAAAATGATAGCAA
69082644 AATAGAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATGATAGCAAC
Found at i:69083492 original size:43 final size:44
Alignment explanation
Indices: 69083395--69083492 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 44
69083385 CAAGCATGTT
* * *
69083395 GTGGCGTTTGTAGCTAGAATCGCCGCAAAAGACCATGTTCTTTA
1 GTGGCGTTTGTAGCTAAAATCGCCACAAAAGACCATGTTCTATA
* * * *
69083439 GCGGTGTTTGTAG-TAAAATCGCCACTAAAGATCATGTTCTATA
1 GTGGCGTTTGTAGCTAAAATCGCCACAAAAGACCATGTTCTATA
*
69083482 GTGGCATTTGT
1 GTGGCGTTTGT
69083493 GGGAATATGC
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
43 33 0.75
44 11 0.25
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (44 bp):
GTGGCGTTTGTAGCTAAAATCGCCACAAAAGACCATGTTCTATA
Found at i:69083791 original size:21 final size:21
Alignment explanation
Indices: 69083765--69083806 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
69083755 TCATATTTTT
69083765 TTGTTGCCTCTGCTGTCCTTG
1 TTGTTGCCTCTGCTGTCCTTG
*
69083786 TTGTTGCCTCTGCTTTCCTTG
1 TTGTTGCCTCTGCTGTCCTTG
69083807 CTGCTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.00, C:0.29, G:0.21, T:0.50
Consensus pattern (21 bp):
TTGTTGCCTCTGCTGTCCTTG
Found at i:69084945 original size:11 final size:11
Alignment explanation
Indices: 69084931--69084957 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
69084921 ACATTCACAT
69084931 TATTACCTTAA
1 TATTACCTTAA
69084942 TATTACCTTAA
1 TATTACCTTAA
69084953 TATTA
1 TATTA
69084958 TCCAGAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (11 bp):
TATTACCTTAA
Found at i:69086606 original size:32 final size:32
Alignment explanation
Indices: 69086540--69086606 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
69086530 CGTTTTTAAG
* * * *
69086540 ATCAAGTTTCAACAATCCTTTAAGCAAATTGC
1 ATCAAGTCTCAACAACCCTTAAAGCAAATCGC
69086572 ATCAAGTCTCAACAACCCTTAAAG-AAGATCGC
1 ATCAAGTCTCAACAACCCTTAAAGCAA-ATCGC
69086604 ATC
1 ATC
69086607 TATTAAAGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 2 0.07
32 28 0.93
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.25
Consensus pattern (32 bp):
ATCAAGTCTCAACAACCCTTAAAGCAAATCGC
Found at i:69087491 original size:170 final size:171
Alignment explanation
Indices: 69087198--69087544 Score: 633
Period size: 170 Copynumber: 2.0 Consensus size: 171
69087188 GCTTCAACGA
*
69087198 TCTTCCATGGAGGGGGATGAGATCATTACACAATTGCAAAAGGATGTAAGTGTTTTGCAACAAGA
1 TCTTCCATGGAGGGGGATGAGATCATTACACAATTGCAAAAGAATGTAAGTGTTTTGCAACAAGA
* *
69087263 GATGATTAAGATTAAGGGGAACTATCTCATTGGGATACTAGGCATACAATGGCTTCTCTCCCTAT
66 GATAATTAAGATTAAGGGGAACTATCTCATTGCGATACTAGGCATACAATGGCTTCTCTCCCTAT
*
69087328 GTTCTATCATCTTGAATTTTGATTCCATGACCATGCATTTC
131 GTTCTATCATCTAGAATTTTGATTCCATGACCATGCATTTC
69087369 TCTTCCATGG-GGGGGATGAGATCATTACACAATTGCAAAAGAATGTAAGTGTTTTGCAACAAGA
1 TCTTCCATGGAGGGGGATGAGATCATTACACAATTGCAAAAGAATGTAAGTGTTTTGCAACAAGA
*
69087433 GATAATTAAGATTAAGGGGAACTATCTCATTGCGATACTGGGCATACAATGGCTTCTCTCCCTAT
66 GATAATTAAGATTAAGGGGAACTATCTCATTGCGATACTAGGCATACAATGGCTTCTCTCCCTAT
*
69087498 GTTCTATCATCTAGAATTTTGGTTCCATGACCATGCATTTC
131 GTTCTATCATCTAGAATTTTGATTCCATGACCATGCATTTC
69087539 TCTTCC
1 TCTTCC
69087545 CAAAGAAGTC
Statistics
Matches: 170, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
170 160 0.94
171 10 0.06
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (171 bp):
TCTTCCATGGAGGGGGATGAGATCATTACACAATTGCAAAAGAATGTAAGTGTTTTGCAACAAGA
GATAATTAAGATTAAGGGGAACTATCTCATTGCGATACTAGGCATACAATGGCTTCTCTCCCTAT
GTTCTATCATCTAGAATTTTGATTCCATGACCATGCATTTC
Found at i:69097848 original size:40 final size:37
Alignment explanation
Indices: 69097739--69097869 Score: 128
Period size: 35 Copynumber: 3.6 Consensus size: 37
69097729 TTTTCCTCAT
*
69097739 TGAAATACCATACCTACATTTTACAACTCGGTATGG-
1 TGAAATACCATACCTACATTTTACAACTCAGTATGGA
** * * * *
69097775 -GAAATGTCATACCTACGTTTCT-TAACCCTGTATGGA
1 TGAAATACCATACCTACATTT-TACAACTCAGTATGGA
69097811 TTTGATAATACCATACCTACATTTTACAACTCAGTATGGA
1 --TGA-AATACCATACCTACATTTTACAACTCAGTATGGA
69097851 TG--ATACCATACCTACATTT
1 TGAAATACCATACCTACATTT
69097870 CACACTTTGC
Statistics
Matches: 76, Mismatches: 12, Indels: 15
0.74 0.12 0.15
Matches are distributed among these distances:
35 44 0.58
36 1 0.01
38 2 0.03
39 3 0.04
40 26 0.34
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (37 bp):
TGAAATACCATACCTACATTTTACAACTCAGTATGGA
Found at i:69100174 original size:5 final size:5
Alignment explanation
Indices: 69100164--69100189 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
69100154 TGAGCATTCG
69100164 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
69100190 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:69100287 original size:5 final size:5
Alignment explanation
Indices: 69100279--69100304 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
69100269 GAGATGGAAT
69100279 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
69100305 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:69100304 original size:26 final size:26
Alignment explanation
Indices: 69100253--69100304 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
69100243 TGAAATTTTC
* * *
69100253 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
69100279 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
69100305 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:69100848 original size:17 final size:16
Alignment explanation
Indices: 69100823--69100856 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
69100813 AAATTTAGGG
69100823 GGAAAATAAAAAGTTTT
1 GGAAAAT-AAAAGTTTT
*
69100840 GGAAGATAAAAGTTTT
1 GGAAAATAAAAGTTTT
69100856 G
1 G
69100857 AGGGAAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (16 bp):
GGAAAATAAAAGTTTT
Found at i:69101225 original size:9 final size:9
Alignment explanation
Indices: 69101208--69101244 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
69101198 TATAGTTTGA
*
69101208 TATTTGAAT
1 TATTCGAAT
69101217 TATTCGAAT
1 TATTCGAAT
*
69101226 TATTCGAGT
1 TATTCGAAT
69101235 TATTCGAAT
1 TATTCGAAT
69101244 T
1 T
69101245 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:69106553 original size:40 final size:39
Alignment explanation
Indices: 69106428--69106564 Score: 130
Period size: 35 Copynumber: 3.7 Consensus size: 39
69106418 GTTTTTCCTC
* * *
69106428 ATTGA-AATACCGTACCTACATTTTACAACTCGGTATGG
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
** * **
69106466 ---GA-AATGTCATACCTACGTTTCTTAACTCAGTATGG
1 ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
69106501 ATTTGATAATACCATACCTACATTTCACAACTCAGTATGG
1 A-TTGATAATACCATACCTACATTTCACAACTCAGTATGG
69106541 A-TG---ATACCATACCTACATTTCACA
1 ATTGATAATACCATACCTACATTTCACA
69106565 CTTTGCCATG
Statistics
Matches: 81, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
35 48 0.59
38 2 0.02
39 2 0.02
40 29 0.36
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.32
Consensus pattern (39 bp):
ATTGATAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:69111828 original size:30 final size:30
Alignment explanation
Indices: 69111794--69111881 Score: 108
Period size: 30 Copynumber: 2.9 Consensus size: 30
69111784 CATGGTCATG
* * *
69111794 ACACACGGGGGTGTAGTCTACTCGTGTGTC
1 ACACACAGGCGTGTAGTCTACCCGTGTGTC
69111824 ACACACAGGCGTGTAGTCTACCCGTGTGTC
1 ACACACAGGCGTGTAGTCTACCCGTGTGTC
*
69111854 ACACA-ATGGCGTGTGGAT-TACCCGTGTG
1 ACACACA-GGCGTGTAG-TCTACCCGTGTG
69111882 GAAGTGCCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
29 1 0.02
30 50 0.96
31 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (30 bp):
ACACACAGGCGTGTAGTCTACCCGTGTGTC
Found at i:69122122 original size:23 final size:23
Alignment explanation
Indices: 69122067--69122125 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
69122057 ATGTTGCTTG
* *
69122067 TGTGGCGTAATATGCTAAGCCTT
1 TGTGGCGTATTCTGCTAAGCCTT
*
69122090 TGTGGTGTATTCTG-TATAGCCTT
1 TGTGGCGTATTCTGCTA-AGCCTT
69122113 TGTGGCGTATTCT
1 TGTGGCGTATTCT
69122126 ATATGGTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 2 0.06
23 29 0.94
ACGTcount: A:0.15, C:0.15, G:0.27, T:0.42
Consensus pattern (23 bp):
TGTGGCGTATTCTGCTAAGCCTT
Found at i:69125542 original size:14 final size:14
Alignment explanation
Indices: 69125523--69125554 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
69125513 AAAGCGTATG
*
69125523 AGTCACACATATAT
1 AGTCACACATACAT
69125537 AGTCACACATACAT
1 AGTCACACATACAT
69125551 AGTC
1 AGTC
69125555 TGTCATCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.25, G:0.09, T:0.25
Consensus pattern (14 bp):
AGTCACACATACAT
Found at i:69139347 original size:17 final size:16
Alignment explanation
Indices: 69139307--69139349 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
69139297 AACATACTTT
*
69139307 AAAAATGTTAAATTAA
1 AAAAATATTAAATTAA
**
69139323 TTAAATATTAAATTACA
1 AAAAATATTAAATTA-A
69139340 AAAAATATTA
1 AAAAATATTA
69139350 GTATTTTTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
AAAAATATTAAATTAA
Found at i:69144618 original size:38 final size:38
Alignment explanation
Indices: 69144575--69144821 Score: 242
Period size: 38 Copynumber: 6.0 Consensus size: 38
69144565 TTTCAAATTA
69144575 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
69144613 ACATGTTTAACCGTGGTATATCCACTTAGCACCACATTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCAC-GT--T
* *
69144654 GAATCAATATATGTAACCGTGGCATATCCACTTAGCATCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
69144698 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
69144739 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
69144783 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
69144821 A
1 A
69144822 ATGAATCAAT
Statistics
Matches: 173, Mismatches: 18, Indels: 36
0.76 0.08 0.16
Matches are distributed among these distances:
38 91 0.53
39 2 0.01
40 6 0.03
41 4 0.02
42 2 0.01
43 2 0.01
44 4 0.02
45 6 0.03
46 2 0.01
47 54 0.31
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:69144674 original size:47 final size:47
Alignment explanation
Indices: 69144620--69144911 Score: 314
Period size: 47 Copynumber: 6.6 Consensus size: 47
69144610 GTTACATGTT
*
69144620 TAACCGTGGTATATCCACTTAGCACCACATTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
69144667 TAACCGTGGCATATCCACTTAGCATCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
69144705 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
69144752 TAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
69144790 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
** * * * * *
69144837 TAACTATGGCATATCCGCTTAACACCACGTTACATGTATCAATATTTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
* *
69144885 TAATCGTCGTATATCCACTTAGCACCA
1 TAACCGTGGTATATCCACTTAGCACCA
69144912 AGTTTTTTTC
Statistics
Matches: 201, Mismatches: 25, Indels: 37
0.76 0.10 0.14
Matches are distributed among these distances:
38 55 0.27
39 4 0.02
40 6 0.03
41 4 0.02
42 2 0.01
43 2 0.01
44 4 0.02
45 6 0.03
46 4 0.02
47 81 0.40
48 33 0.16
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:69144674 original size:85 final size:85
Alignment explanation
Indices: 69144582--69144873 Score: 530
Period size: 85 Copynumber: 3.4 Consensus size: 85
69144572 TTAACATGTA
69144582 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
69144647 CATTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
*
69144667 TAACCGTGGCATATCCACTTAGCATCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
69144732 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
69144752 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
69144817 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
** * *
69144837 TAACTATGGCATATCCGCTTAACACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
69144874 ATCAATATTT
Statistics
Matches: 200, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 200 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:69144899 original size:48 final size:47
Alignment explanation
Indices: 69144798--69144911 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 47
69144788 TTTAACCGTG
*
69144798 GTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACTATG
1 GTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACTATC
* * * * * *
69144845 GCATATCCGCTTAACACCACGTTACATGTATCAATATTTGTAA-TCGTC
1 GTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACT-ATC
69144893 GTATATCCACTTAGCACCA
1 GTATATCCACTTAGCACCA
69144912 AGTTTTTTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
47 22 0.40
48 33 0.60
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (47 bp):
GTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACTATC
Found at i:69147653 original size:15 final size:15
Alignment explanation
Indices: 69147630--69147671 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
69147620 AAAGCCCAGA
69147630 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
69147645 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
69147660 ATAAGGAAATCC
1 ATAAGGAAATCC
69147672 CATTTACAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:69148659 original size:21 final size:21
Alignment explanation
Indices: 69148633--69148672 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
69148623 AGTGTACTTA
69148633 TACATGTATTTCCATGTTTCC
1 TACATGTATTTCCATGTTTCC
69148654 TACATGTATTTCCATGTTT
1 TACATGTATTTCCATGTTT
69148673 TCTAGATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.50
Consensus pattern (21 bp):
TACATGTATTTCCATGTTTCC
Found at i:69152384 original size:24 final size:24
Alignment explanation
Indices: 69152329--69152392 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
69152319 ATACTATGTA
69152329 TATATTATATTTTATTATATATTAG
1 TATA-TATATTTTATTATATATTAG
*
69152354 TACATATATTTTATTATACGTA-T-G
1 TATATATATTTTATTATA--TATTAG
69152378 TATATATACTTTTAT
1 TATATATA-TTTTAT
69152393 ATTAATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 22 0.65
25 10 0.29
26 2 0.06
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (24 bp):
TATATATATTTTATTATATATTAG
Found at i:69152825 original size:36 final size:36
Alignment explanation
Indices: 69152792--69152907 Score: 121
Period size: 36 Copynumber: 3.1 Consensus size: 36
69152782 TTGTTATTTG
69152792 AATGTTCTAGTATCCCATGTTAATATTTTTTATTCAT
1 AATGTTCTAGTATCCCATGTTAATATTTTTTATTC-T
* * **
69152829 AATG-TC-ATTATTCACATCAT-TTATTATTTTAAATTCT
1 AATGTTCTAGTA-TC-C--CATGTTAATATTTTTTATTCT
69152866 AATGTTCTAGTATCCCATGTTAATATTTTTTATTCAT
1 AATGTTCTAGTATCCCATGTTAATATTTTTTATTC-T
69152903 AATGT
1 AATGT
69152908 CATTATTCAC
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
35 6 0.10
36 17 0.27
37 17 0.27
38 17 0.27
39 6 0.10
ACGTcount: A:0.29, C:0.13, G:0.07, T:0.51
Consensus pattern (36 bp):
AATGTTCTAGTATCCCATGTTAATATTTTTTATTCT
Found at i:69152857 original size:38 final size:38
Alignment explanation
Indices: 69152815--69152932 Score: 138
Period size: 38 Copynumber: 3.2 Consensus size: 38
69152805 CCCATGTTAA
69152815 TATTTTTTATTCATAATGTCATTATTCACATCATTTAT
1 TATTTTTTATTCATAATGTCATTATTCACATCATTTAT
** * *
69152853 TATTTTAAATTC-TAATGTTCTAGTA-TC-C--CATGTTAA
1 TATTTTTTATTCATAATG-TC-ATTATTCACATCAT-TTAT
69152889 TATTTTTTATTCATAATGTCATTATTCACATCATTTAT
1 TATTTTTTATTCATAATGTCATTATTCACATCATTTAT
69152927 TATTTT
1 TATTTT
69152933 AAATTCTTAC
Statistics
Matches: 64, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
35 6 0.09
36 17 0.27
37 12 0.19
38 23 0.36
39 6 0.09
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.54
Consensus pattern (38 bp):
TATTTTTTATTCATAATGTCATTATTCACATCATTTAT
Found at i:69152871 original size:74 final size:74
Alignment explanation
Indices: 69152792--69152939 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
69152782 TTGTTATTTG
69152792 AATGTTCTAGTATCCCATGTTAATATTTTTTATTCATAATGTCATTATTCACATCATTTATTATT
1 AATGTTCTAGTATCCCATGTTAATATTTTTTATTCATAATGTCATTATTCACATCATTTATTATT
69152857 TTAAATTCT
66 TTAAATTCT
69152866 AATGTTCTAGTATCCCATGTTAATATTTTTTATTCATAATGTCATTATTCACATCATTTATTATT
1 AATGTTCTAGTATCCCATGTTAATATTTTTTATTCATAATGTCATTATTCACATCATTTATTATT
69152931 TTAAATTCT
66 TTAAATTCT
69152940 TACTTTTGGA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (74 bp):
AATGTTCTAGTATCCCATGTTAATATTTTTTATTCATAATGTCATTATTCACATCATTTATTATT
TTAAATTCT
Found at i:69153690 original size:38 final size:38
Alignment explanation
Indices: 69153647--69153770 Score: 104
Period size: 38 Copynumber: 3.0 Consensus size: 38
69153637 TTTCAAATTA
*
69153647 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
** *
69153685 ACATGTATCAATATTTGTAATAGTGGTATACCCACTTAGCACCACGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
* *
69153733 ACACGTATAACCATGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
69153771 TTTTTCATTC
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
38 32 0.48
42 2 0.03
44 2 0.03
48 31 0.46
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Done.