Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 367 of 444
Found at i:106660168 original size:16 final size:16
Alignment explanation
Indices: 106660149--106660200 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
106660139 ATCCTAAACC
106660149 ATTTAATATATATAAA
1 ATTTAATATATATAAA
* **
106660165 ATTT-ATCTATTATACC
1 ATTTAATATA-TATAAA
106660181 ATTTAATATATATAAA
1 ATTTAATATATATAAA
106660197 ATTT
1 ATTT
106660201 TTCTATTATC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
15 4 0.14
16 20 0.71
17 4 0.14
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTAATATATATAAA
Found at i:106660187 original size:32 final size:32
Alignment explanation
Indices: 106660146--106660209 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
106660136 TAAATCCTAA
106660146 ACCATTTAATATATATAAAATTTATCTATTAT
1 ACCATTTAATATATATAAAATTTATCTATTAT
*
106660178 ACCATTTAATATATATAAAATTTTTCTATTAT
1 ACCATTTAATATATATAAAATTTATCTATTAT
106660210 CTCTTACATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (32 bp):
ACCATTTAATATATATAAAATTTATCTATTAT
Found at i:106660458 original size:14 final size:14
Alignment explanation
Indices: 106660441--106660499 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
106660431 CTCCAACCCT
*
106660441 TAAACCATACACCA
1 TAAACCATAAACCA
*
106660455 TAAACCCTAAACCA
1 TAAACCATAAACCA
* * *
106660469 CATACCTTAAACCA
1 TAAACCATAAACCA
* *
106660483 TAAACCCTAAACTA
1 TAAACCATAAACCA
106660497 TAA
1 TAA
106660500 TGATAATTAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCATAAACCA
Found at i:106660465 original size:21 final size:21
Alignment explanation
Indices: 106660435--106660488 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
106660425 CTTAATCTCC
*
106660435 AACCCTTAAACCATACACCATA
1 AACCC-TAAACCACACACCATA
* *
106660457 AACCCTAAACCACATACCTTA
1 AACCCTAAACCACACACCATA
*
106660478 AACCATAAACC
1 AACCCTAAACC
106660489 CTAAACTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (21 bp):
AACCCTAAACCACACACCATA
Found at i:106661507 original size:41 final size:41
Alignment explanation
Indices: 106661450--106661544 Score: 154
Period size: 41 Copynumber: 2.3 Consensus size: 41
106661440 GTTATATGAC
*
106661450 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTTTGGT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGT
** *
106661491 TTTTAGCGGCGTTTTACTTAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGT
106661532 TTTTAGCGGCGTT
1 TTTTAGCGGCGTT
106661545 AAAATGCCAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGT
Found at i:106663963 original size:33 final size:33
Alignment explanation
Indices: 106663891--106663964 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
106663881 GCCATGTGAT
* * *
106663891 CCACACAGCCAAGGCCAGTATAGGCCGTTTGGG
1 CCACACGGCCAAGGCCAATATAGGCCGTGTGGG
*
106663924 CCACACGGCCAGGGCCAATATAGGCCGTGTGGG
1 CCACACGGCCAAGGCCAATATAGGCCGTGTGGG
106663957 CCACACGG
1 CCACACGG
106663965 GCATACCAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.23, C:0.32, G:0.32, T:0.12
Consensus pattern (33 bp):
CCACACGGCCAAGGCCAATATAGGCCGTGTGGG
Found at i:106667034 original size:29 final size:29
Alignment explanation
Indices: 106666952--106667050 Score: 162
Period size: 29 Copynumber: 3.4 Consensus size: 29
106666942 TGTGTGTACC
106666952 ATGTGAAAAGGGATAGCTTCGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
* *
106666981 ATGTAAAAAGGGGATAGCTTCGGCTATCAA
1 ATGTGAAAA-GGGATAGCTTCGGCTATCGA
*
106667011 ATGTGAAAAGGGATAGCTTTGGCTATCGA
1 ATGTGAAAAGGGATAGCTTCGGCTATCGA
106667040 ATGTGAAAAGG
1 ATGTGAAAAGG
106667051 TTAGGTATAC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 37 0.58
30 27 0.42
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.24
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGCTTCGGCTATCGA
Found at i:106667082 original size:33 final size:33
Alignment explanation
Indices: 106667043--106667172 Score: 197
Period size: 33 Copynumber: 3.9 Consensus size: 33
106667033 CTATCGAATG
**
106667043 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
* *
106667076 TAAAAAGAAAAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
*
106667109 TGAAAAGGAAAGGTATACTTTGTGTGTACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
* *
106667142 TGAAAAGGAAATGTATACTTTGTGTGTACCA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCA
106667173 CTCAGAAAGA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATA
Found at i:106673842 original size:24 final size:24
Alignment explanation
Indices: 106673815--106673860 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
106673805 CTAATTAAAT
* *
106673815 TTTATAAATACTTAATATTTATTG
1 TTTAAAAATACTTAAAATTTATTG
*
106673839 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATACTTAAAATTTAT
106673861 ATTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAAATACTTAAAATTTATTG
Found at i:106674238 original size:2 final size:2
Alignment explanation
Indices: 106674231--106674279 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
106674221 TGTTTTAGTG
106674231 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
106674273 TA TA TA T
1 TA TA TA T
106674280 GACTATAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:106674824 original size:38 final size:38
Alignment explanation
Indices: 106674765--106674840 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
106674755 TTCAGCAAAG
*
106674765 TTACTTTTCCCAATTACCTTTGATTATTCCAAAAAAAA
1 TTACTTTTCCCAATTAACTTTGATTATTCCAAAAAAAA
*
106674803 TTACTTTTCCCAGTTAACTTTGATTATTCCAAAAAAAA
1 TTACTTTTCCCAATTAACTTTGATTATTCCAAAAAAAA
106674841 AAATTAGTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (38 bp):
TTACTTTTCCCAATTAACTTTGATTATTCCAAAAAAAA
Found at i:106686544 original size:29 final size:30
Alignment explanation
Indices: 106686477--106686534 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
106686467 TTTATATCTT
* *
106686477 TATAATTTTTAAAAAATTAAATTAAAATTA
1 TATAATTTTGAAAAAATTAAAGTAAAATTA
* *
106686507 TATTATTTTGAAAAGATTAAAGTAAAAT
1 TATAATTTTGAAAAAATTAAAGTAAAAT
106686535 CTAAAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.41
Consensus pattern (30 bp):
TATAATTTTGAAAAAATTAAAGTAAAATTA
Found at i:106687970 original size:9 final size:9
Alignment explanation
Indices: 106687955--106687999 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
106687945 AAATTTAAAA
106687955 ATAAAAATT
1 ATAAAAATT
*
106687964 ATTAAAATT
1 ATAAAAATT
*
106687973 ATTAAAATAT
1 ATAAAAAT-T
106687983 ATAAAAATT
1 ATAAAAATT
106687992 ATAAAAAT
1 ATAAAAAT
106688000 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
ATAAAAATT
Found at i:106687989 original size:19 final size:19
Alignment explanation
Indices: 106687935--106688001 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
106687925 AATTCAAGAC
* *
106687935 AATTATAAAAAAAT-TTAA
1 AATTATAAAAATATATAAA
*
106687953 AA--ATAAAAAT-TATTAA
1 AATTATAAAAATATATAAA
*
106687969 AATTATTAAAATATATAAA
1 AATTATAAAAATATATAAA
106687988 AATTATAAAAATAT
1 AATTATAAAAATAT
106688002 TTTTAATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 1 0.02
16 13 0.32
18 9 0.22
19 18 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTATAAAAATATATAAA
Found at i:106688009 original size:28 final size:28
Alignment explanation
Indices: 106687935--106688010 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 28
106687925 AATTCAAGAC
* *
106687935 AATTATAAAAA-A-ATTTAA-AAATAAA
1 AATTATAAAAATATTTTTAATATATAAA
* **
106687960 AATTATTAAAAT-TATTAAAATATATAAA
1 AATTATAAAAATAT-TTTTAATATATAAA
106687988 AATTATAAAAATATTTTTAATAT
1 AATTATAAAAATATTTTTAATAT
106688011 TTTTTAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
25 10 0.26
27 3 0.08
28 24 0.63
29 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
AATTATAAAAATATTTTTAATATATAAA
Found at i:106694164 original size:50 final size:50
Alignment explanation
Indices: 106694086--106694189 Score: 163
Period size: 50 Copynumber: 2.1 Consensus size: 50
106694076 GAAGAAGAGG
* * *
106694086 GAGTCGTTCTAGAATCTGAAGGACCGGATAAAGAAGAAAATTGATAATTA
1 GAGTCGTTCCAGAATCTAAAGGACCGGATAAAGAAGAAAATTGACAATTA
* *
106694136 GAGTCGTTCCAGAATCTAAAGGATCGGATAAAGAAGAAAATTGACAATTG
1 GAGTCGTTCCAGAATCTAAAGGACCGGATAAAGAAGAAAATTGACAATTA
106694186 GAGT
1 GAGT
106694190 ACTAGGCACC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.23
Consensus pattern (50 bp):
GAGTCGTTCCAGAATCTAAAGGACCGGATAAAGAAGAAAATTGACAATTA
Found at i:106703697 original size:13 final size:13
Alignment explanation
Indices: 106703679--106703721 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
106703669 CTCAATTTTT
106703679 TTTGAATTTCGAG
1 TTTGAATTTCGAG
106703692 TTTGAA--TCGAG
1 TTTGAATTTCGAG
*
106703703 TTT-AATTTCGAA
1 TTTGAATTTCGAG
106703715 TTTGAAT
1 TTTGAAT
106703722 AATTCAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 2 0.08
11 8 0.31
12 7 0.27
13 9 0.35
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.47
Consensus pattern (13 bp):
TTTGAATTTCGAG
Found at i:106708125 original size:46 final size:47
Alignment explanation
Indices: 106708025--106708195 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 47
106708015 ATTGTGAGCT
* * * ** *
106708025 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGGGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGA-GTAAGCC
106708073 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGA-GTAAGCC
** * *
106708119 AGTGTAAGA-CATGTCTAAGACAT-GCATCGG-CTACAAGA-TAGGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGAGTAAGCC
106708163 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
106708196 ATCCTACCCC
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
44 14 0.13
45 14 0.13
46 55 0.52
47 14 0.13
48 9 0.08
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.21
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAGTAAGCC
Found at i:106716282 original size:16 final size:16
Alignment explanation
Indices: 106716261--106716316 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
106716251 TTGAATTACT
106716261 AATTATAGCTCTATTC
1 AATTATAGCTCTATTC
*
106716277 AATTATAGCTTTATTC
1 AATTATAGCTCTATTC
* *
106716293 AATTACAGCCCTATTC
1 AATTATAGCTCTATTC
*
106716309 CATTATAG
1 AATTATAG
106716317 TGACCAAACG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (16 bp):
AATTATAGCTCTATTC
Found at i:106720290 original size:4 final size:4
Alignment explanation
Indices: 106720281--106720306 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
106720271 GTCACTTTAA
106720281 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
106720307 CTATTTCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:106728655 original size:31 final size:30
Alignment explanation
Indices: 106728618--106728690 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 30
106728608 TGGGTCCAAT
106728618 TTGGTACTTAAACTTGACACTTTTTCTTAA
1 TTGGTACTTAAACTTGACACTTTTTCTTAA
* *
106728648 TTGGGTACTCAAACTTGACATTTTTTCTTAA
1 TT-GGTACTTAAACTTGACACTTTTTCTTAA
106728679 GTTGGTACTTAA
1 -TTGGTACTTAA
106728691 TCTTTTTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.05
31 34 0.89
32 2 0.05
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (30 bp):
TTGGTACTTAAACTTGACACTTTTTCTTAA
Found at i:106728934 original size:32 final size:32
Alignment explanation
Indices: 106728893--106728969 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
106728883 TTAATATAAC
* *
106728893 ATTTGGTACCTGAACTTGACACTTTTTTCTTA
1 ATTTGGTACCTAAACTTGACACTTTTTTCCTA
* *
106728925 ATTTGGTACCTAAACTTGGCATTTTTTTCCTA
1 ATTTGGTACCTAAACTTGACACTTTTTTCCTA
*
106728957 ATTTGGTAGCTAA
1 ATTTGGTACCTAA
106728970 GCTTTTTCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.45
Consensus pattern (32 bp):
ATTTGGTACCTAAACTTGACACTTTTTTCCTA
Found at i:106729415 original size:59 final size:59
Alignment explanation
Indices: 106729352--106729463 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
106729342 AACCGAATAA
106729352 AAAAAAGATTAAGTACCAAATT-AGAAAAAAGAGTCAAGTTT-AGGTACCAAATTAGACCT
1 AAAAAAGATTAAGTACCAAATTAAG-AAAAAGAGTCAAGTTTGA-GTACCAAATTAGACCT
* * **
106729411 AAAAATGATTAAGTACCAACTTAAGAAAAATTGTCAAGTTTGAGTACCAAATT
1 AAAAAAGATTAAGTACCAAATTAAGAAAAAGAGTCAAGTTTGAGTACCAAATT
106729464 GTGTCATTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
59 44 0.94
60 3 0.06
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (59 bp):
AAAAAAGATTAAGTACCAAATTAAGAAAAAGAGTCAAGTTTGAGTACCAAATTAGACCT
Found at i:106735149 original size:16 final size:16
Alignment explanation
Indices: 106735115--106735168 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
106735105 TAACATGATT
106735115 TTTTAATTAAAATAATAA
1 TTTT-ATTAAAA-AATAA
106735133 TTTTATTAAAAAATAA
1 TTTTATTAAAAAATAA
* *
106735149 TATTATAAATAAAATAA
1 TTTTATTAA-AAAATAA
106735166 TTT
1 TTT
106735169 AAGGGAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 12 0.38
17 16 0.50
18 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTTATTAAAAAATAA
Found at i:106737324 original size:37 final size:37
Alignment explanation
Indices: 106737274--106737346 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
106737264 CTTCCAAGGT
106737274 TCTTTGCACTATCTTTCATTCAATCACACATAATTGA
1 TCTTTGCACTATCTTTCATTCAATCACACATAATTGA
106737311 TCTTTGCACTATCTTTCATTCAATCACACATAATTG
1 TCTTTGCACTATCTTTCATTCAATCACACATAATTG
106737347 TCATACTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.05, T:0.41
Consensus pattern (37 bp):
TCTTTGCACTATCTTTCATTCAATCACACATAATTGA
Found at i:106737969 original size:11 final size:11
Alignment explanation
Indices: 106737929--106737970 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
106737919 ACCATTTTCT
*
106737929 ATAAAATAATA
1 ATAAAATATTA
106737940 AT-AAATATCTA
1 ATAAAATAT-TA
106737951 AGTAAAATATTA
1 A-TAAAATATTA
106737963 ATAAAATA
1 ATAAAATA
106737971 ATATTTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 5 0.19
11 12 0.44
12 4 0.15
13 6 0.22
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (11 bp):
ATAAAATATTA
Found at i:106738524 original size:23 final size:23
Alignment explanation
Indices: 106738470--106738524 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
106738460 TTAAAATAAA
*
106738470 TTTCATTGATTCAATAATCATTC
1 TTTCATTTATTCAATAATCATTC
* *
106738493 TTACTTTTATTCAAATAATCATT-
1 TTTCATTTATTC-AATAATCATTC
106738516 TTTCATTTA
1 TTTCATTTA
106738525 ATCCACAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.31, C:0.15, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTCATTTATTCAATAATCATTC
Found at i:106738651 original size:27 final size:27
Alignment explanation
Indices: 106738619--106738684 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
106738609 ACTCTGAAAG
* * *
106738619 GCCACTATCACTAATTTGCATCGAAGT
1 GCCACTATCACTAATTTGCACCAAAAT
106738646 GCCACTATCACTAATTTGCACCAAAAT
1 GCCACTATCACTAATTTGCACCAAAAT
*
106738673 ACCACTATCACT
1 GCCACTATCACT
106738685 TGACATCCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.33, C:0.30, G:0.09, T:0.27
Consensus pattern (27 bp):
GCCACTATCACTAATTTGCACCAAAAT
Found at i:106741955 original size:2 final size:2
Alignment explanation
Indices: 106741948--106741986 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
106741938 GTATGACATG
106741948 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
106741987 GACTAGTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:106745543 original size:25 final size:26
Alignment explanation
Indices: 106745506--106745558 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
106745496 TCAAACATGC
106745506 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* **
106745532 ATTTCGGT-AATTTTGCCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
106745557 AT
1 AT
106745559 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:106745566 original size:25 final size:25
Alignment explanation
Indices: 106745522--106745570 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
106745512 GTCAATTTAA
** *
106745522 CCCTAGGGGTATTTCGGTAATTTTG
1 CCCTAGGGGTATAACAGTAATTTTG
106745547 CCCTAGGGGTATAACAGTAATTTT
1 CCCTAGGGGTATAACAGTAATTTT
106745571 CCATACATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.37
Consensus pattern (25 bp):
CCCTAGGGGTATAACAGTAATTTTG
Found at i:106747080 original size:26 final size:26
Alignment explanation
Indices: 106747042--106747099 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
106747032 CATGAAATTC
106747042 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
106747068 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
106747094 TTATCA
1 TTATCA
106747100 ATTTGTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:106748603 original size:19 final size:19
Alignment explanation
Indices: 106748579--106748620 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
106748569 CAATCAAAGT
*
106748579 CCAATAGCTAAACCTAGAC
1 CCAATAACTAAACCTAGAC
106748598 CCAATAACTAAACCTAGAC
1 CCAATAACTAAACCTAGAC
106748617 CCAA
1 CCAA
106748621 AGTTACGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.45, C:0.33, G:0.07, T:0.14
Consensus pattern (19 bp):
CCAATAACTAAACCTAGAC
Found at i:106751280 original size:131 final size:133
Alignment explanation
Indices: 106751046--106751290 Score: 316
Period size: 131 Copynumber: 1.9 Consensus size: 133
106751036 GTGTTCGATA
* *
106751046 TTTGGCAATTCGCGGGATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTACTCAAAATAAT
1 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTACTCAAAACAAT
* * *** *
106751111 CGAATGTCCCTTTAGAATTTCATTCATGT-TTTCTAAAAATTCTTTAAAACGAAAGTAATACATG
66 CGAATATCCCTTTAGAATTTCATCCATGTCTTAAAAAAAATTCTCTAAAACGAAAGTAATACATG
106751175 ATG
131 ATG
* ** **
106751178 TTTGGCAATTCG-GGAATCGTGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAAT
1 TTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTACTCAAAACAAT
* * *
106751242 CGAATATTCCTTTGGAATTTCA-CCCTCGTCTTAAAAAAAATTCTCTAAA
66 CGAATATCCCTTTAGAATTTCATCCAT-GTCTTAAAAAAAATTCTCTAAA
106751291 TAAGGCAATA
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
130 2 0.02
131 66 0.69
132 27 0.28
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (133 bp):
TTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTACTCAAAACAAT
CGAATATCCCTTTAGAATTTCATCCATGTCTTAAAAAAAATTCTCTAAAACGAAAGTAATACATG
ATG
Found at i:106752585 original size:18 final size:18
Alignment explanation
Indices: 106752562--106752600 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
106752552 AAGAAAAATG
* *
106752562 TAAAAAATATAATATTTA
1 TAAAAAATAAAAAATTTA
*
106752580 TAAAAATTAAAAAATTTA
1 TAAAAAATAAAAAATTTA
106752598 TAA
1 TAA
106752601 TTATTTCCGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAAAATAAAAAATTTA
Found at i:106755574 original size:2 final size:2
Alignment explanation
Indices: 106755567--106755597 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
106755557 CCTAAATTTA
106755567 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
106755598 AAACACCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:106773793 original size:15 final size:14
Alignment explanation
Indices: 106773760--106773795 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
106773750 TAATTTCTAT
106773760 ATATATATTCTAAA
1 ATATATATTCTAAA
106773774 A-ATATATTCATAAA
1 ATATATATTC-TAAA
106773788 ATATATAT
1 ATATATAT
106773796 AGTACTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.40
14 6 0.30
15 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATATTCTAAA
Found at i:106776433 original size:34 final size:33
Alignment explanation
Indices: 106776391--106776460 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 33
106776381 GAATGGCATG
106776391 AAAAACCCATATAATAACCTAATGACTAAATGTA
1 AAAAACCCATATAATAACCTAATGACTAAATG-A
*
106776425 AAAAACCCATGTAATAACCTAATGACTAAATGA
1 AAAAACCCATATAATAACCTAATGACTAAATGA
106776458 AAA
1 AAA
106776461 CTTGATTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 4 0.11
34 31 0.89
ACGTcount: A:0.54, C:0.17, G:0.07, T:0.21
Consensus pattern (33 bp):
AAAAACCCATATAATAACCTAATGACTAAATGA
Found at i:106778998 original size:19 final size:19
Alignment explanation
Indices: 106778974--106779012 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
106778964 AGCGAATCCT
106778974 AACAACAGCCTGAACATGA
1 AACAACAGCCTGAACATGA
106778993 AACAACAGCCTGAACATGA
1 AACAACAGCCTGAACATGA
106779012 A
1 A
106779013 CATATAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.26, G:0.15, T:0.10
Consensus pattern (19 bp):
AACAACAGCCTGAACATGA
Found at i:106781360 original size:28 final size:27
Alignment explanation
Indices: 106781318--106781394 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 27
106781308 AATTTATATT
*
106781318 TTATATTAAATTTTTTAAATATAATTTA
1 TTATATTTAA-TTTTTAAATATAATTTA
*
106781346 TTATATTTAAGTTTTTAAA-ATATTTTA
1 TTATATTTAA-TTTTTAAATATAATTTA
106781373 TGTAT-TATTAATTTTATAAATA
1 T-TATAT-TTAATTTT-TAAATA
106781395 ATTTATATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 13 0.31
28 28 0.67
29 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (27 bp):
TTATATTTAATTTTTAAATATAATTTA
Found at i:106781387 original size:26 final size:29
Alignment explanation
Indices: 106781358--106781410 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
106781348 ATATTTAAGT
106781358 TTTTA-AAAT-ATTT-TATGTATTATTAA
1 TTTTATAAATAATTTATATGTATTATTAA
*
106781384 TTTTATAAATAATTTATATTTATTATT
1 TTTTATAAATAATTTATATGTATTATT
106781411 CAAAGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 4 0.17
28 4 0.17
29 10 0.43
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTATAAATAATTTATATGTATTATTAA
Found at i:106781387 original size:27 final size:27
Alignment explanation
Indices: 106781313--106781410 Score: 73
Period size: 28 Copynumber: 3.6 Consensus size: 27
106781303 AGATTAATTT
*
106781313 ATATTTTA-TATTA--AATTTTTTAAA
1 ATATTTTATTATTATTAAGTTTTTAAA
*
106781337 TATAATTTATTA-TATTTAAGTTTTTAAA
1 -ATATTTTATTATTA-TTAAGTTTTTAAA
106781365 ATATTTTATGTATTATTAA--TTTTATAA
1 ATATTTTAT-TATTATTAAGTTTTTA-AA
106781392 ATAATTTATATTTATTATT
1 AT-ATTT-TA-TTATTATT
106781411 CAAAGTATAT
Statistics
Matches: 60, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
25 9 0.15
26 7 0.12
27 12 0.20
28 20 0.33
29 11 0.18
30 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (27 bp):
ATATTTTATTATTATTAAGTTTTTAAA
Found at i:106782233 original size:17 final size:17
Alignment explanation
Indices: 106782211--106782243 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
106782201 AAGTGCAAAA
106782211 CATGTT-TAGCTAAACAT
1 CATGTTATA-CTAAACAT
106782228 CATGTTATACTAAACA
1 CATGTTATACTAAACA
106782244 AACCCACATA
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:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (17 bp):
CATGTTATACTAAACAT
Found at i:106783590 original size:19 final size:19
Alignment explanation
Indices: 106783566--106783604 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
106783556 TTGAGTTTGT
106783566 ACCTAAACCTGAGTAAAGA
1 ACCTAAACCTGAGTAAAGA
106783585 ACCTAAACCTGAGTAAAGA
1 ACCTAAACCTGAGTAAAGA
106783604 A
1 A
106783605 TGCTACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.21, G:0.15, T:0.15
Consensus pattern (19 bp):
ACCTAAACCTGAGTAAAGA
Found at i:106790405 original size:3 final size:3
Alignment explanation
Indices: 106790399--106790475 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
106790389 ATTTGCAGCC
106790399 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
106790447 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
106790476 AGACATCTGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:106790997 original size:3 final size:3
Alignment explanation
Indices: 106790989--106791046 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
106790979 CTGCCAAATG
* *
106790989 TAT TAT TAT TAT TAT T-T T-T TGAC AAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
*
106791033 CAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
106791047 AGAAGAGGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 4 0.09
3 43 0.91
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:106794841 original size:43 final size:43
Alignment explanation
Indices: 106794794--106794881 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
106794784 TCTCAAATTT
*
106794794 TTCATCTCAAATTCTTCACTTAGTTGGGCTTTAATCTTTTTTA
1 TTCATCTCAAATTCTTCACTTAGTTGGGCTTTAACCTTTTTTA
*
106794837 TTCATCTCAAATTCTTCACTTAGTTGGGCTTTGACCTTTTTTA
1 TTCATCTCAAATTCTTCACTTAGTTGGGCTTTAACCTTTTTTA
106794880 TT
1 TT
106794882 TCTCCTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.51
Consensus pattern (43 bp):
TTCATCTCAAATTCTTCACTTAGTTGGGCTTTAACCTTTTTTA
Found at i:106796909 original size:16 final size:16
Alignment explanation
Indices: 106796888--106796924 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
106796878 CACCTGCAAT
106796888 TTTACACGAAACATTA
1 TTTACACGAAACATTA
106796904 TTTACACGAAACATTA
1 TTTACACGAAACATTA
106796920 TTTAC
1 TTTAC
106796925 CATCAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (16 bp):
TTTACACGAAACATTA
Found at i:106804394 original size:4 final size:4
Alignment explanation
Indices: 106804381--106804439 Score: 109
Period size: 4 Copynumber: 14.8 Consensus size: 4
106804371 AATCAATTAA
*
106804381 ACAT ATAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
106804429 ACAT ACAT ACA
1 ACAT ACAT ACA
106804440 CATTTTTCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:106805367 original size:2 final size:2
Alignment explanation
Indices: 106805360--106805384 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
106805350 AGAAGATGAT
106805360 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
106805385 TGCTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:106806649 original size:7 final size:7
Alignment explanation
Indices: 106806633--106806670 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
106806623 TAGAATAATA
106806633 AAATTCT
1 AAATTCT
*
106806640 AAATTTT
1 AAATTCT
106806647 AAATTCT
1 AAATTCT
106806654 AAATTCT
1 AAATTCT
106806661 AAATTCT
1 AAATTCT
106806668 AAA
1 AAA
106806671 CCCACTACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTCT
Found at i:106808023 original size:13 final size:13
Alignment explanation
Indices: 106808005--106808030 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106807995 AGAAGCGCCG
106808005 AGCATACAATATA
1 AGCATACAATATA
106808018 AGCATACAATATA
1 AGCATACAATATA
106808031 GAGACTTAAT
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:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
AGCATACAATATA
Found at i:106808818 original size:16 final size:17
Alignment explanation
Indices: 106808794--106808829 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
106808784 TACATATGAA
106808794 AAATAATAAA-AAAATT
1 AAATAATAAATAAAATT
*
106808810 AAATCATAAATAAAATT
1 AAATAATAAATAAAATT
106808827 AAA
1 AAA
106808830 AAATTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAATAAATAAAATT
Found at i:106824673 original size:2 final size:2
Alignment explanation
Indices: 106824666--106824694 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
106824656 GAAATTAGAA
106824666 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
106824695 GAGTAGCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:106833270 original size:2 final size:2
Alignment explanation
Indices: 106833263--106833292 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
106833253 ATTTCATCAG
106833263 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
106833293 TCAAATAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:106853840 original size:51 final size:51
Alignment explanation
Indices: 106853762--106853876 Score: 221
Period size: 51 Copynumber: 2.3 Consensus size: 51
106853752 CGGATCTCAT
*
106853762 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTGAGGCTACCAC
106853813 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTGAGGCTACCAC
106853864 TTATCACTTGTCA
1 TTATCACTTGTCA
106853877 TTGATCAGAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCTGAGGCTACCAC
Found at i:106856405 original size:53 final size:53
Alignment explanation
Indices: 106856324--106856434 Score: 168
Period size: 53 Copynumber: 2.1 Consensus size: 53
106856314 ACATTGTATT
**
106856324 TTTTATTTGCAAGACATAATGTTATTGGTATTGAACAAAATCGTTTAATTATG
1 TTTTATTTGCAAGACATAACATTATTGGTATTGAACAAAATCGTTTAATTATG
* * *
106856377 TTTTATTTGTAAGACATAACATTGTTGGTCTTGAACAAAATCGTTTAATTATG
1 TTTTATTTGCAAGACATAACATTATTGGTATTGAACAAAATCGTTTAATTATG
*
106856430 CTTTA
1 TTTTA
106856435 CTAGTATTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.44
Consensus pattern (53 bp):
TTTTATTTGCAAGACATAACATTATTGGTATTGAACAAAATCGTTTAATTATG
Found at i:106864910 original size:30 final size:30
Alignment explanation
Indices: 106864870--106864929 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
106864860 TTCCCGAGCC
* *
106864870 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGACAAAAATGTAATTATGCAAAAGTT
* *
106864900 TAGGGACAAAAATGTAATTTTGCCAAAGTT
1 TAGGGACAAAAATGTAATTATGCAAAAGTT
106864930 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGACAAAAATGTAATTATGCAAAAGTT
Found at i:106875343 original size:21 final size:22
Alignment explanation
Indices: 106875312--106875353 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
106875302 TGGAACACCG
*
106875312 AAATGCTAAACAAATACACCAC
1 AAATGCTAAACAAAGACACCAC
106875334 AAATGC-AAACAAAGACACCA
1 AAATGCTAAACAAAGACACCA
106875354 AAGTGCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.57, C:0.26, G:0.07, T:0.10
Consensus pattern (22 bp):
AAATGCTAAACAAAGACACCAC
Found at i:106875431 original size:19 final size:20
Alignment explanation
Indices: 106875365--106875431 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
106875355 AGTGCTTATG
*
106875365 GAGGCACCAAAGATA-AATTA
1 GAGGCACCAAAG-TACAATCA
* * *
106875385 GGGGAACAAAAGTACAATCA
1 GAGGCACCAAAGTACAATCA
*
106875405 GAGGCACCAAAGTGCAATCA
1 GAGGCACCAAAGTACAATCA
106875425 G-GGCACC
1 GAGGCACC
106875432 GTAGTGCAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 8 0.21
20 30 0.79
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.10
Consensus pattern (20 bp):
GAGGCACCAAAGTACAATCA
Found at i:106875479 original size:20 final size:20
Alignment explanation
Indices: 106875456--106875566 Score: 69
Period size: 20 Copynumber: 5.5 Consensus size: 20
106875446 AGCATGGATA
106875456 TGCTATCAAGAGCACCATAG
1 TGCTATCAAGAGCACCATAG
* * * *
106875476 TGCTAACAAGAGTACGAAAG
1 TGCTATCAAGAGCACCATAG
* ***
106875496 TGCTATCAGGAGCATTGTAG
1 TGCTATCAAGAGCACCATAG
* * ** *
106875516 TGCTATCAGGAGTATGAAAG
1 TGCTATCAAGAGCACCATAG
* * * *
106875536 TACTGTCAGGAGCACCGTAG
1 TGCTATCAAGAGCACCATAG
106875556 TGCTATCAAGA
1 TGCTATCAAGA
106875567 ATATGAAAAT
Statistics
Matches: 66, Mismatches: 25, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (20 bp):
TGCTATCAAGAGCACCATAG
Found at i:106875500 original size:40 final size:40
Alignment explanation
Indices: 106875465--106875678 Score: 257
Period size: 40 Copynumber: 5.3 Consensus size: 40
106875455 ATGCTATCAA
* * * *
106875465 GAGCACCATAGTGCTAACAAGAGTACGAAAGTGCTATCAG
1 GAGCACCGTAGTGCTATCAAGAGTACGAAAGTACTGTCAG
** * *
106875505 GAGCATTGTAGTGCTATCAGGAGTATGAAAGTACTGTCAG
1 GAGCACCGTAGTGCTATCAAGAGTACGAAAGTACTGTCAG
* * *
106875545 GAGCACCGTAGTGCTATCAAGAATATGAAAATACTGTCAG
1 GAGCACCGTAGTGCTATCAAGAGTACGAAAGTACTGTCAG
* * * *
106875585 GAGCACCGTAGTGCTATCAGGAATACGAAAGTATTGTCAA
1 GAGCACCGTAGTGCTATCAAGAGTACGAAAGTACTGTCAG
* * *
106875625 GAGCACCGTTGTGCTATCAAGAGTACGAAAGTATTGTTAG
1 GAGCACCGTAGTGCTATCAAGAGTACGAAAGTACTGTCAG
*
106875665 GAGCACCATAGTGC
1 GAGCACCGTAGTGC
106875679 CATTAGAAGC
Statistics
Matches: 149, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 149 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (40 bp):
GAGCACCGTAGTGCTATCAAGAGTACGAAAGTACTGTCAG
Found at i:106876738 original size:54 final size:54
Alignment explanation
Indices: 106876648--106876762 Score: 167
Period size: 54 Copynumber: 2.1 Consensus size: 54
106876638 TTTAATACCT
* *
106876648 ACAAATAAAGATTGAAAATAATAATAACAATGTCTTTATTAATAAACTAAATAA
1 ACAAATAAAGACTGAAAATAATAATAACAATGTCTTTAATAATAAACTAAATAA
* * * * *
106876702 AGAAATAAAGACTGAAAATAATAATAGCAATTTCTTTAATAATAAATTAGATAA
1 ACAAATAAAGACTGAAAATAATAATAACAATGTCTTTAATAATAAACTAAATAA
106876756 ACAAATA
1 ACAAATA
106876763 TGTAATTACA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (54 bp):
ACAAATAAAGACTGAAAATAATAATAACAATGTCTTTAATAATAAACTAAATAA
Found at i:106877845 original size:24 final size:25
Alignment explanation
Indices: 106877818--106877880 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
106877808 CTAAAAAAGG
*
106877818 AAATTAATTTAAAAG-AT-TAAATAA
1 AAATT-ATTTAAAAGTATAAAAATAA
106877842 AAA-TATGTATAAAAGTATAAAAATAA
1 AAATTAT-T-TAAAAGTATAAAAATAA
106877868 AAATTATTTAAAA
1 AAATTATTTAAAA
106877881 AAAAATTCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
22 2 0.06
23 2 0.06
24 9 0.27
25 7 0.21
26 10 0.30
27 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (25 bp):
AAATTATTTAAAAGTATAAAAATAA
Found at i:106911270 original size:35 final size:35
Alignment explanation
Indices: 106911224--106911293 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
106911214 CTTGGAAGGG
106911224 AGATTAAAGCCATTTGAAGCGGGTTCTGGGTTTAT
1 AGATTAAAGCCATTTGAAGCGGGTTCTGGGTTTAT
*
106911259 AGATTAAAGCCATTTGAAGGGGGTTCTGGGTTTAT
1 AGATTAAAGCCATTTGAAGCGGGTTCTGGGTTTAT
106911294 CTTGTTTCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.10, G:0.30, T:0.34
Consensus pattern (35 bp):
AGATTAAAGCCATTTGAAGCGGGTTCTGGGTTTAT
Found at i:106916319 original size:47 final size:47
Alignment explanation
Indices: 106916266--106916406 Score: 109
Period size: 47 Copynumber: 3.1 Consensus size: 47
106916256 TCCGAAAATG
106916266 CCCTTGAACATGCCTTTTTGATTGATGCTTCGGTTAGACAAAAACTA
1 CCCTTGAACATGCCTTTTTGATTGATGCTTCGGTTAGACAAAAACTA
* * *** ** * ** * *
106916313 CCCTTG-ATAT-CATTTTT-ACCCCA-AATT--ATT-TTCGAAAA-TG
1 CCCTTGAACATGCCTTTTTGA-TTGATGCTTCGGTTAGACAAAAACTA
106916353 CCCTTGAACATGCCTTTTTGATTGATGCTTCGGTTAGACAAAAACTA
1 CCCTTGAACATGCCTTTTTGATTGATGCTTCGGTTAGACAAAAACTA
106916400 CCCTTGA
1 CCCTTGA
106916407 TATCATTTTT
Statistics
Matches: 61, Mismatches: 24, Indels: 18
0.59 0.23 0.17
Matches are distributed among these distances:
40 7 0.11
41 8 0.13
42 9 0.15
43 3 0.05
44 3 0.05
45 9 0.15
46 8 0.13
47 14 0.23
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (47 bp):
CCCTTGAACATGCCTTTTTGATTGATGCTTCGGTTAGACAAAAACTA
Found at i:106916340 original size:87 final size:87
Alignment explanation
Indices: 106916237--106916421 Score: 334
Period size: 87 Copynumber: 2.1 Consensus size: 87
106916227 TTTAGTAGCA
* *
106916237 ATTTTGACCCAAAATTATTTCCGAAAATGCCCTTGAACATGCCTTTTTGATTGATGCTTCGGTTA
1 ATTTTTACCCCAAATTATTTCCGAAAATGCCCTTGAACATGCCTTTTTGATTGATGCTTCGGTTA
106916302 GACAAAAACTACCCTTGATATC
66 GACAAAAACTACCCTTGATATC
*
106916324 ATTTTTACCCCAAATTATTTTCGAAAATGCCCTTGAACATGCCTTTTTGATTGATGCTTCGGTTA
1 ATTTTTACCCCAAATTATTTCCGAAAATGCCCTTGAACATGCCTTTTTGATTGATGCTTCGGTTA
106916389 GACAAAAACTACCCTTGATATC
66 GACAAAAACTACCCTTGATATC
*
106916411 ATTTTTGCCCC
1 ATTTTTACCCC
106916422 CTCACAATAT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 94 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (87 bp):
ATTTTTACCCCAAATTATTTCCGAAAATGCCCTTGAACATGCCTTTTTGATTGATGCTTCGGTTA
GACAAAAACTACCCTTGATATC
Found at i:106918989 original size:29 final size:31
Alignment explanation
Indices: 106918942--106919005 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
106918932 TTTTTAACTA
* *
106918942 AATTTGACTCACAACTTTTT-AAAGGAGTTG
1 AATTTGACTCACAACTTTTTCAAAAGAGTTC
106918972 AATTTGA-TCACTAA-TTTTTCAAAAGAGTTC
1 AATTTGACTCAC-AACTTTTTCAAAAGAGTTC
106919002 AATT
1 AATT
106919006 GTTGTTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (31 bp):
AATTTGACTCACAACTTTTTCAAAAGAGTTC
Found at i:106919133 original size:21 final size:21
Alignment explanation
Indices: 106919108--106919152 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
106919098 AATAATTTTA
* *
106919108 ATTTTTTATAATTTTTGAA-T
1 ATTTTTTATAAATTTTAAATT
106919128 ATTTTTTATAAATTTTAAATT
1 ATTTTTTATAAATTTTAAATT
106919149 ATTT
1 ATTT
106919153 ATTGACGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTTTTTATAAATTTTAAATT
Found at i:106929821 original size:3 final size:3
Alignment explanation
Indices: 106929815--106929840 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
106929805 AAACTAAAAA
106929815 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
106929841 ACAATCATTT
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:106935515 original size:21 final size:21
Alignment explanation
Indices: 106935490--106935528 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
106935480 GGTAATTTAA
*
106935490 AAAAAAT-AAATTTAAATATT
1 AAAAAATAAAAATTAAATATT
106935510 AAAAAATAAAAATTAAATA
1 AAAAAATAAAAATTAAATA
106935529 AAGTGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAAATAAAAATTAAATATT
Found at i:106937178 original size:19 final size:19
Alignment explanation
Indices: 106937154--106937191 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
106937144 GAAATGAATA
*
106937154 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
106937173 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
106937192 GCAATCTCAA
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:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:106937985 original size:21 final size:21
Alignment explanation
Indices: 106937961--106938004 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
106937951 GAAATAAACA
106937961 AAGTATAATTTAAAATTGGGG
1 AAGTATAATTTAAAATTGGGG
106937982 AAGTATAATTTAAAATTGGGG
1 AAGTATAATTTAAAATTGGGG
106938003 AA
1 AA
106938005 TAAATGGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (21 bp):
AAGTATAATTTAAAATTGGGG
Found at i:106938097 original size:2 final size:2
Alignment explanation
Indices: 106938090--106938115 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
106938080 TTAAATTATG
106938090 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
106938116 AAATAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:106938419 original size:18 final size:18
Alignment explanation
Indices: 106938396--106938436 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
106938386 AGAGGTTAGG
106938396 TTTTTTCTTTTTCTTCAT
1 TTTTTTCTTTTTCTTCAT
* *
106938414 TTTTTTCTTTTTTTTTAT
1 TTTTTTCTTTTTCTTCAT
106938432 TTTTT
1 TTTTT
106938437 ATTTTGGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTCTTTTTCTTCAT
Found at i:106939228 original size:34 final size:34
Alignment explanation
Indices: 106939170--106939234 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
106939160 TATACAAAAT
***
106939170 ATATTCAAAGTTATCAATTTTTATTCATGTTTGA
1 ATATTCAAAGTTATCAACACTTATTCATGTTTGA
*
106939204 ATATTCAAAGTTATCTACACTTATTCATGTT
1 ATATTCAAAGTTATCAACACTTATTCATGTT
106939235 ATAATTTAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (34 bp):
ATATTCAAAGTTATCAACACTTATTCATGTTTGA
Found at i:106939841 original size:13 final size:12
Alignment explanation
Indices: 106939823--106939858 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
106939813 TTATTTATAT
106939823 ATTAAATTAAAG
1 ATTAAATTAAAG
106939835 AATTAAATTAAAG
1 -ATTAAATTAAAG
*
106939848 AGTAAATTAAA
1 ATTAAATTAAA
106939859 TTTTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
ATTAAATTAAAG
Found at i:106939855 original size:12 final size:13
Alignment explanation
Indices: 106939825--106939858 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
106939815 ATTTATATAT
*
106939825 TAAATTAAAGAAT
1 TAAATTAAAGAAG
106939838 TAAATTAAAG-AG
1 TAAATTAAAGAAG
106939850 TAAATTAAA
1 TAAATTAAA
106939859 TTTTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (13 bp):
TAAATTAAAGAAG
Found at i:106942112 original size:23 final size:21
Alignment explanation
Indices: 106942077--106942119 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
106942067 TTCTGTCACA
*
106942077 ATTTATCATAATAATTTATTTTG
1 ATTTATCAAAAT-A-TTATTTTG
*
106942100 ATTTATTAAAATATTATTTT
1 ATTTATCAAAATATTATTTT
106942120 TTTAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTATCAAAATATTATTTTG
Found at i:106943032 original size:25 final size:27
Alignment explanation
Indices: 106942969--106943033 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 27
106942959 CAAAAAAAAA
*
106942969 GTTTATGACTTTTTTTTTTAATAAATAT
1 GTTTATG-CTTTTTTATTTAATAAATAT
* *
106942997 GTTT-TGGTTTTTTATTT-AT-AATTT
1 GTTTATGCTTTTTTATTTAATAAATAT
106943021 GTTTATGCTTTTT
1 GTTTATGCTTTTT
106943034 AGATTTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
24 8 0.25
25 9 0.28
26 9 0.28
27 2 0.06
28 4 0.12
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (27 bp):
GTTTATGCTTTTTTATTTAATAAATAT
Found at i:106949697 original size:15 final size:16
Alignment explanation
Indices: 106949677--106949709 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
106949667 ATATATATTT
106949677 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
106949692 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
106949709 T
1 T
106949710 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:106949771 original size:11 final size:12
Alignment explanation
Indices: 106949741--106949773 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
106949731 GTTAATTTGT
106949741 GTATTATTTTAA
1 GTATTATTTTAA
*
106949753 GAATTATTTT-A
1 GTATTATTTTAA
106949764 GTATTATTTT
1 GTATTATTTT
106949774 TATTTGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (12 bp):
GTATTATTTTAA
Found at i:106949795 original size:22 final size:21
Alignment explanation
Indices: 106949759--106949833 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 21
106949749 TTAAGAATTA
* *
106949759 TTTTAGTA-TTATTTTTATTT
1 TTTTAATATTTATTTTTATGT
106949779 GTTTTAATATTTATTTTTATGT
1 -TTTTAATATTTATTTTTATGT
*
106949801 TTTTAAATATATTTGATTTATTATAT
1 TTTT--A-ATATTT-ATTT-TTATGT
106949827 TTTTAAT
1 TTTTAAT
106949834 TTTTTTATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
21 11 0.24
22 11 0.24
23 3 0.07
24 7 0.16
25 4 0.09
26 9 0.20
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTAATATTTATTTTTATGT
Found at i:106949813 original size:20 final size:22
Alignment explanation
Indices: 106949759--106949814 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
106949749 TTAAGAATTA
* *
106949759 TTTTAGTAT-TATTTTTATTTG
1 TTTTAATATATATTTTTATGTG
*
106949780 TTTTAATATTTATTTTTATGT-
1 TTTTAATATATATTTTTATGTG
106949801 TTTTAA-ATATATTT
1 TTTTAATATATATTT
106949815 GATTTATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 14 0.45
22 10 0.32
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTAATATATATTTTTATGTG
Found at i:106949831 original size:26 final size:24
Alignment explanation
Indices: 106949785--106949832 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
106949775 ATTTGTTTTA
*
106949785 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
106949809 ATATTTGATTTATTATATTTTTAA
1 ATATTT-ATTT-TTATATTTTTAA
106949833 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 4 0.19
26 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:106959704 original size:43 final size:43
Alignment explanation
Indices: 106959652--106959738 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
106959642 AGAATAAAAA
106959652 ATTTAAAATGGCGTAATTAAAATTTCTTTTTCTTTAAAAACTT
1 ATTTAAAATGGCGTAATTAAAATTTCTTTTTCTTTAAAAACTT
106959695 ATTTAAAATGGCGTAATTAAAATTTCTTTTTCTTTAAAAACTT
1 ATTTAAAATGGCGTAATTAAAATTTCTTTTTCTTTAAAAACTT
106959738 A
1 A
106959739 GTTATATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (43 bp):
ATTTAAAATGGCGTAATTAAAATTTCTTTTTCTTTAAAAACTT
Found at i:106960470 original size:13 final size:13
Alignment explanation
Indices: 106960452--106960522 Score: 67
Period size: 13 Copynumber: 5.7 Consensus size: 13
106960442 AGTTTGGCAA
106960452 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
106960465 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* * * *
106960478 TGCTGTGGAAAAT
1 TGCTTTTGAGAAG
*
106960491 TACTTTT---AAG
1 TGCTTTTGAGAAG
106960501 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
106960514 TACTTTTGA
1 TGCTTTTGA
106960523 AAATTTTAAG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
10 8 0.18
13 37 0.82
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:106962659 original size:72 final size:71
Alignment explanation
Indices: 106962535--106962705 Score: 236
Period size: 72 Copynumber: 2.4 Consensus size: 71
106962525 AAAATCATAT
** *
106962535 ATAAACAACTATTGATAAAACTAATTTAGTATAAATAAGTAGAACATAAATTCAATAACCAAAGA
1 ATAAACAACTATTGATAAAACTAATTTAACATAAATAAGTAGAACATAAATTCAATAACCAAAAA
106962600 CCAAAC
66 CCAAAC
* * * *
106962606 ATAAACAACTATTAATAAAAGTAGA-TTACACATAGATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTA-ATTTA-ACATAAATAAGTAGAACATAAATTCAATAACCAAA
106962670 AACCAAAC
64 AACCAAAC
* *
106962678 ATAAATAACTATTGATAAAACTAGTTTA
1 ATAAACAACTATTGATAAAACTAATTTA
106962706 GGATTTTTGT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
71 24 0.28
72 62 0.72
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.25
Consensus pattern (71 bp):
ATAAACAACTATTGATAAAACTAATTTAACATAAATAAGTAGAACATAAATTCAATAACCAAAAA
CCAAAC
Found at i:106963151 original size:18 final size:18
Alignment explanation
Indices: 106963130--106963177 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
106963120 TCCATCAATT
*
106963130 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
106963148 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
*
106963166 CGAACATCATTT
1 TGAACATCATTT
106963178 CTCACATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:106966802 original size:21 final size:22
Alignment explanation
Indices: 106966758--106966814 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
106966748 GAACAGTACC
*
106966758 ACACGCCCGTGTGGCTTATGTG
1 ACACACCCGTGTGGCTTATGTG
* *
106966780 ACACACCCGTGTGTC-TCTGTG
1 ACACACCCGTGTGGCTTATGTG
*
106966801 ACACACTCGTGTGG
1 ACACACCCGTGTGG
106966815 GCACACCGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.16, C:0.30, G:0.28, T:0.26
Consensus pattern (22 bp):
ACACACCCGTGTGGCTTATGTG
Found at i:106967865 original size:28 final size:28
Alignment explanation
Indices: 106967829--106967885 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
106967819 AATACTTTTT
* *
106967829 AATATCAATCAATTTATCATTATCATTC
1 AATAGCAATCAATTGATCATTATCATTC
* *
106967857 AATAGCAATCAATTGATCTTTATTATTC
1 AATAGCAATCAATTGATCATTATCATTC
106967885 A
1 A
106967886 GTATTATTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.04, T:0.42
Consensus pattern (28 bp):
AATAGCAATCAATTGATCATTATCATTC
Found at i:106967937 original size:18 final size:18
Alignment explanation
Indices: 106967916--106967956 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
106967906 ACAATCAGTA
106967916 ATTCAATAACAGTCAAAT
1 ATTCAATAACAGTCAAAT
* * *
106967934 ATTCAGTAGCAGTCAATT
1 ATTCAATAACAGTCAAAT
106967952 ATTCA
1 ATTCA
106967957 GTACCTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (18 bp):
ATTCAATAACAGTCAAAT
Found at i:106967957 original size:18 final size:18
Alignment explanation
Indices: 106967925--106967959 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
106967915 AATTCAATAA
106967925 CAGTCAAATATTCAGTAG
1 CAGTCAAATATTCAGTAG
*
106967943 CAGTCAATTATTCAGTA
1 CAGTCAAATATTCAGTA
106967960 CCTTTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (18 bp):
CAGTCAAATATTCAGTAG
Found at i:106969415 original size:17 final size:16
Alignment explanation
Indices: 106969389--106969421 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
106969379 TTGTCTTTCT
106969389 TTTATTTATTTAATTA
1 TTTATTTATTTAATTA
106969405 TTTACTTTATTTAATTA
1 TTTA-TTTATTTAATTA
106969422 ATATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATTTATTTAATTA
Found at i:106976551 original size:48 final size:48
Alignment explanation
Indices: 106976499--106976608 Score: 193
Period size: 48 Copynumber: 2.3 Consensus size: 48
106976489 AGTTGCTCCT
*
106976499 ATTTTATTGTTATTATTTGGATATTGTATAAAACTTATTTTATTATTA
1 ATTTTATTATTATTATTTGGATATTGTATAAAACTTATTTTATTATTA
* *
106976547 ATTTTGTTATTATTATTTGTATATTGTATAAAACTTATTTTATTATTA
1 ATTTTATTATTATTATTTGGATATTGTATAAAACTTATTTTATTATTA
106976595 ATTTTATTATTATT
1 ATTTTATTATTATT
106976609 TTAAAGGCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (48 bp):
ATTTTATTATTATTATTTGGATATTGTATAAAACTTATTTTATTATTA
Found at i:106976600 original size:12 final size:11
Alignment explanation
Indices: 106976581--106976611 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
106976571 TGTATAAAAC
106976581 TTATTTTATTA
1 TTATTTTATTA
106976592 TTAATTTTATTA
1 TT-ATTTTATTA
106976604 TTATTTTA
1 TTATTTTA
106976612 AAGGCATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:106976628 original size:30 final size:30
Alignment explanation
Indices: 106976592--106976651 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
106976582 TATTTTATTA
106976592 TTAATTTTATTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
106976622 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
106976652 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:106978138 original size:18 final size:18
Alignment explanation
Indices: 106978115--106978151 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
106978105 TTTATTGTTT
106978115 TCCATTGTTTAATAGGTC
1 TCCATTGTTTAATAGGTC
106978133 TCCATTGTTTAATAGGTC
1 TCCATTGTTTAATAGGTC
106978151 T
1 T
106978152 TTAGTTGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (18 bp):
TCCATTGTTTAATAGGTC
Found at i:106979912 original size:8 final size:8
Alignment explanation
Indices: 106979859--106979918 Score: 54
Period size: 8 Copynumber: 7.6 Consensus size: 8
106979849 GAACTAATTA
*
106979859 ATAAAATT
1 ATAAAAAT
106979867 ATAAAAAT
1 ATAAAAAT
106979875 ATAAAAAT
1 ATAAAAAT
**
106979883 -TATATTAT
1 ATA-AAAAT
106979891 ATTAAAAAT
1 A-TAAAAAT
106979900 A-AAAAAT
1 ATAAAAAT
106979907 ATAAAAAT
1 ATAAAAAT
106979915 -TAAA
1 ATAAA
106979919 TCTCAATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
7 13 0.30
8 24 0.56
9 4 0.09
10 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
ATAAAAAT
Found at i:106979913 original size:16 final size:16
Alignment explanation
Indices: 106979861--106979918 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
106979851 ACTAATTAAT
106979861 AAAATTATAAAAATATA
1 AAAATTA-AAAAATATA
* **
106979878 AAAATTATATTATATTA
1 AAAATTAAAAAATA-TA
106979895 AAAA-TAAAAAATATA
1 AAAATTAAAAAATATA
106979910 AAAATTAAA
1 AAAATTAAA
106979919 TCTCAATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
15 6 0.18
16 14 0.42
17 13 0.39
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAATTAAAAAATATA
Found at i:106986221 original size:25 final size:28
Alignment explanation
Indices: 106986175--106986232 Score: 86
Period size: 25 Copynumber: 2.2 Consensus size: 28
106986165 AAATATTTTC
*
106986175 TATTATTTATAATTTTTAAAAAAATATA
1 TATTATTTATAATATTTAAAAAAATATA
106986203 TATT-TTTATAA-ATTT-AAAAAATATA
1 TATTATTTATAATATTTAAAAAAATATA
106986228 TATTA
1 TATTA
106986233 AAATTTTCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 14 0.50
26 3 0.11
27 7 0.25
28 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
TATTATTTATAATATTTAAAAAAATATA
Found at i:106986222 original size:27 final size:28
Alignment explanation
Indices: 106986175--106986230 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
106986165 AAATATTTTC
* *
106986175 TATTATTTATAATTTTTAAAAAAATATA
1 TATTATTTATAAATTTAAAAAAAATATA
*
106986203 TATT-TTTATAAATTTAAAAAATATATA
1 TATTATTTATAAATTTAAAAAAAATATA
106986230 T
1 T
106986231 TAAAATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
TATTATTTATAAATTTAAAAAAAATATA
Found at i:106986583 original size:29 final size:29
Alignment explanation
Indices: 106986525--106986583 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
106986515 TATATTAGAA
* *
106986525 TTTTGTAAAAATAAAATTTATTTTTTTAT
1 TTTTGTAAAAATAAAATTTATTTATATAT
* *
106986554 TTTTGTGAAAATTTAAA-TTATTTATATAT
1 TTTTGT-AAAAATAAAATTTATTTATATAT
106986583 T
1 T
106986584 ATATATGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (29 bp):
TTTTGTAAAAATAAAATTTATTTATATAT
Found at i:106988961 original size:66 final size:66
Alignment explanation
Indices: 106988886--106989017 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
106988876 GTCCAGTTAA
*
106988886 AATAATTATAATTAAAGTAAAAGTTGATATAATCTTTTTTTTACAATTACAATCATTTTAAAATA
1 AATAATTATAATTAAAGTAAAAGTTGATATAATCTTTTTTTTACAATTACAATCATTTAAAAATA
106988951 T
66 T
*
106988952 AATAATTATAATTAAAGTAAAAGTTGATATAATTTTTTTTTTACAATTACAATCATTTAAAAATA
1 AATAATTATAATTAAAGTAAAAGTTGATATAATCTTTTTTTTACAATTACAATCATTTAAAAATA
106989017 T
66 T
106989018 TTTTCTATAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (66 bp):
AATAATTATAATTAAAGTAAAAGTTGATATAATCTTTTTTTTACAATTACAATCATTTAAAAATA
T
Found at i:106989052 original size:21 final size:20
Alignment explanation
Indices: 106989015--106989056 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
106989005 CATTTAAAAA
106989015 TATTTTTCTATATATATATAT
1 TATTTTTCTATATATAT-TAT
*
106989036 TATTTTT-TATTTGATATTAT
1 TATTTTTCTATAT-ATATTAT
106989056 T
1 T
106989057 TTTGCTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TATTTTTCTATATATATTAT
Found at i:106990019 original size:29 final size:29
Alignment explanation
Indices: 106989977--106990037 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
106989967 AAATACTCAA
106989977 TTTACTACGTAAGTC-AGTTTATTGACATG
1 TTTACTACGTAAGTCTA-TTTATTGACATG
106990006 TTTACTACGTAAGTCTATTTATTGACATG
1 TTTACTACGTAAGTCTATTTATTGACATG
106990035 TTT
1 TTT
106990038 TCTTTTGTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (29 bp):
TTTACTACGTAAGTCTATTTATTGACATG
Found at i:106996209 original size:46 final size:46
Alignment explanation
Indices: 106996156--106996328 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
106996146 TGGTTGAGCA
106996156 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * *
106996202 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
106996247 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
106996295 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
106996329 GGGGCGGGTG
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 60 0.57
47 28 0.27
48 4 0.04
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:106996312 original size:93 final size:93
Alignment explanation
Indices: 106996153--106996323 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
106996143 GGATGGTTGA
* *
106996153 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
106996218 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
106996246 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
106996311 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
106996324 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:106996589 original size:19 final size:20
Alignment explanation
Indices: 106996552--106996589 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
106996542 ATAAGGTAGT
106996552 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
106996572 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
106996590 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:107021756 original size:15 final size:14
Alignment explanation
Indices: 107021735--107021778 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
107021725 GGTGCCTCAA
107021735 ATTATATTTTAATT
1 ATTATATTTTAATT
* *
107021749 ATTTATATTTAAAAT
1 A-TTATATTTTAATT
107021764 ATTATATTTTAATT
1 ATTATATTTTAATT
107021778 A
1 A
107021779 ATTACGTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATATTTTAATT
Found at i:107021782 original size:15 final size:15
Alignment explanation
Indices: 107021734--107021782 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
107021724 AGGTGCCTCA
107021734 AATTATATTTTAATT
1 AATTATATTTTAATT
* * *
107021749 ATTTATATTTAAAAT
1 AATTATATTTTAATT
107021764 -ATTATATTTTAATT
1 AATTATATTTTAATT
107021778 AATTA
1 AATTA
107021783 CGTTATTGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AATTATATTTTAATT
Found at i:107023157 original size:12 final size:10
Alignment explanation
Indices: 107023127--107023152 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
107023117 CAAATATACT
107023127 AAAAATATTA
1 AAAAATATTA
107023137 AAAAATATTA
1 AAAAATATTA
107023147 AAAAAT
1 AAAAAT
107023153 TTATTTATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATATTA
Found at i:107029580 original size:123 final size:124
Alignment explanation
Indices: 107029395--107029638 Score: 298
Period size: 123 Copynumber: 2.0 Consensus size: 124
107029385 CCATTTGTGT
* * ** * * *
107029395 CGTTTTTTACCAAGCATCGCTAATGCTTGATCTATTGCGGCGTTTGCAAGCTAGCGCCGCTAATG
1 CGTTTTTCACAAAGCATCGCTAATGCTCAATCTATTGCGACGTTTGCAACCTAACGCCGCTAATG
*
107029460 CCACTAAAGGCGCCACTTAAAACGACGA-TGTTTTGCTTAAAGT-AAAT-TTTTTTTGCTG
66 CCACTAAAGACGCCACTTAAAACGAC-ACTGTTTTG-TTAAAGTAAAATGTTTTTTTGCTG
* * *
107029518 CGTTTTTCACAAAGCGTCGCTAATGCTCAATCTATTGCGACGTTTTTC-ACCTAACGCTGCTAAT
1 CGTTTTTCACAAAGCATCGCTAATGCTCAATCTATTGCGACG-TTTGCAACCTAACGCCGCTAAT
* * * *
107029582 GCCACTGAAGACGCCACTTCAAACGGCACTGTTTTGTTTAAGTAAAATGTTTTTTTG
65 GCCACTAAAGACGCCACTTAAAACGACACTGTTTTGTTAAAGTAAAATGTTTTTTTG
107029639 TAGCATTTAT
Statistics
Matches: 102, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
122 7 0.07
123 83 0.81
124 12 0.12
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (124 bp):
CGTTTTTCACAAAGCATCGCTAATGCTCAATCTATTGCGACGTTTGCAACCTAACGCCGCTAATG
CCACTAAAGACGCCACTTAAAACGACACTGTTTTGTTAAAGTAAAATGTTTTTTTGCTG
Found at i:107029866 original size:125 final size:125
Alignment explanation
Indices: 107029685--107029960 Score: 306
Period size: 125 Copynumber: 2.2 Consensus size: 125
107029675 GACGCCACTT
* * * * *
107029685 GTTTTATTTAAAGTAAAAT-ATTTTTTGCTGCGTTTTTTACATAGCGCTGCTAATGCTCGATCTA
1 GTTTGATTTAAAGTAAAATGTTTTTTTACTGCGTTTTTTACATAGCGCCGCTAATGCTCAATCTA
** * * * * **
107029749 TTGCAGAGTTTTTTGCCTAGCGCCGCTAATGCCATTAAAGGCGCAACTTAAAGCGGTTCC
66 TTGCAGAGTTTTTCACCTAGCGCCGCTAATGCCACTAAAGACGCAACTAAAAACGGCACC
* * * *
107029809 GTTTGATTTAAAGTAAAATGTTTTTTTAC-GACTTTTTTTCCATAGCGCCGTTGATGCTCAATCT
1 GTTTGATTTAAAGTAAAATGTTTTTTTACTG-CGTTTTTTACATAGCGCCGCTAATGCTCAATCT
** * * *
107029873 ATTGTGGCGTTTTTCACCTAGCGTCGCTAATGCCACTAAAGACGCCACTAAAAACGGCACC
65 ATTGCAGAGTTTTTCACCTAGCGCCGCTAATGCCACTAAAGACGCAACTAAAAACGGCACC
*
107029934 GTTTTG-TTTAAAGCAAAATGTTTTTTT
1 G-TTTGATTTAAAGTAAAATGTTTTTTT
107029961 TGCGGCGTTT
Statistics
Matches: 126, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
124 19 0.15
125 103 0.82
126 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (125 bp):
GTTTGATTTAAAGTAAAATGTTTTTTTACTGCGTTTTTTACATAGCGCCGCTAATGCTCAATCTA
TTGCAGAGTTTTTCACCTAGCGCCGCTAATGCCACTAAAGACGCAACTAAAAACGGCACC
Found at i:107030387 original size:7 final size:7
Alignment explanation
Indices: 107030353--107030532 Score: 60
Period size: 7 Copynumber: 25.0 Consensus size: 7
107030343 CCTTAACCTT
107030353 TAAACCC
1 TAAACCC
107030360 TTAAACCC
1 -TAAACCC
107030368 T-AACACC
1 TAAAC-CC
107030375 TAAAACCC
1 T-AAACCC
*
107030383 TAAACAC
1 TAAACCC
*
107030390 TAATACCA
1 TAA-ACCC
**
107030398 T-AACTA
1 TAAACCC
*
107030404 TAAAACAC
1 T-AAACCC
*
107030412 TAAACAC
1 TAAACCC
*
107030419 AAAACACC
1 TAAAC-CC
107030427 -AAACCC
1 TAAACCC
*
107030433 TAAACCT
1 TAAACCC
*
107030440 TAAAACAC
1 T-AAACCC
*
107030448 TAAACCA
1 TAAACCC
107030455 TAAACCC
1 TAAACCC
* *
107030462 AAAACAC
1 TAAACCC
* ***
107030469 AAAATAT
1 TAAACCC
*
107030476 TAAACCA
1 TAAACCC
**
107030483 TAAACAA
1 TAAACCC
107030490 TAAACCC
1 TAAACCC
*
107030497 TAAACCT
1 TAAACCC
*
107030504 TAAACCT
1 TAAACCC
*
107030511 TAAACCTT
1 TAAACC-C
*
107030519 TAAATCC
1 TAAACCC
107030526 TAAACCC
1 TAAACCC
107030533 AAAAATAAAA
Statistics
Matches: 133, Mismatches: 29, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
6 9 0.07
7 92 0.69
8 29 0.22
9 3 0.02
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:107030424 original size:36 final size:36
Alignment explanation
Indices: 107030404--107030514 Score: 90
Period size: 36 Copynumber: 3.1 Consensus size: 36
107030394 ACCATAACTA
*
107030404 TAAAACACTAAACACAAAACACCAAACCCTAAACCT
1 TAAAACACTAAACACAAAACACCAAACCATAAACCT
**
107030440 TAAAACACTAAAC-CATAAAC-CCAAAACACA-AAATAT
1 TAAAACACTAAACACA-AAACACC-AAAC-CATAAACCT
* *
107030476 TAAACCA-TAAACA-ATAAAC-CCTAAACCTTAAACCT
1 TAAAACACTAAACACA-AAACACC-AAACCATAAACCT
107030511 TAAA
1 TAAA
107030515 CCTTTAAATC
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
34 1 0.02
35 29 0.47
36 31 0.50
37 1 0.02
ACGTcount: A:0.57, C:0.28, G:0.00, T:0.15
Consensus pattern (36 bp):
TAAAACACTAAACACAAAACACCAAACCATAAACCT
Found at i:107030435 original size:21 final size:20
Alignment explanation
Indices: 107030406--107030502 Score: 68
Period size: 21 Copynumber: 4.6 Consensus size: 20
107030396 CATAACTATA
*
107030406 AAACACTAAACACAAAACACC
1 AAACCCTAAAC-CAAAACACC
*
107030427 AAACCCTAAACCTTAAAACACT
1 AAACCCTAAACC--AAAACACC
* *
107030449 AAACCATAAACCCAAAACACA
1 AAACCCTAAA-CCAAAACACC
*** **
107030470 AAATATTAAACCATAAACAAT
1 AAACCCTAAACCA-AAACACC
107030491 AAACCCTAAACC
1 AAACCCTAAACC
107030503 TTAAACCTTA
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
20 4 0.07
21 38 0.63
22 16 0.27
23 2 0.03
ACGTcount: A:0.58, C:0.30, G:0.00, T:0.12
Consensus pattern (20 bp):
AAACCCTAAACCAAAACACC
Found at i:107030436 original size:29 final size:29
Alignment explanation
Indices: 107030368--107030468 Score: 68
Period size: 29 Copynumber: 3.5 Consensus size: 29
107030358 CCTTAAACCC
* * *
107030368 TAACACCTAAAACCCTAAACACTAATACCA
1 TAAC-CCTAAAACACTAAACACAAACACCA
**
107030398 TAACTATAAAACACTAAACACAAAACACCA
1 TAACCCTAAAACACTAAACAC-AAACACCA
*
107030428 -AACCCT-AAAC-CTTAAAACACTAA-ACCA
1 TAACCCTAAAACAC-T-AAACACAAACACCA
107030455 TAAACCC-AAAACAC
1 T-AACCCTAAAACAC
107030469 AAAATATTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
27 5 0.09
28 7 0.12
29 33 0.59
30 11 0.20
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (29 bp):
TAACCCTAAAACACTAAACACAAACACCA
Found at i:107041583 original size:2 final size:2
Alignment explanation
Indices: 107041576--107041605 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
107041566 TTTAATGCCA
107041576 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
107041606 TTATCTGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107045313 original size:2 final size:2
Alignment explanation
Indices: 107045306--107045339 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
107045296 TTGAATTGGT
*
107045306 TA TA TA TA TA TA TA TA TA TA TA TA T- TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
107045340 TGATTATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.