Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 147 of 221
Found at i:45001898 original size:140 final size:140
Alignment explanation
Indices: 45001645--45002050 Score: 686
Period size: 140 Copynumber: 2.9 Consensus size: 140
45001635 ATTATACATA
*
45001645 ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGATTGAAAGTCAGATCTTATCTTCC
1 ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGATTG-AAGTCAGATCTTATCTCCC
* *
45001710 TGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGAT
65 TGAGATTACAGTGGAGTAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGAT
45001775 TAAAATAAAGG
130 TAAAATAAAGG
*
45001786 ATCTTATCTCTCTGAAGTTACAGCAGGGTAGATCGCATCAGATTGAAGTCAGATCTTATCTCCCT
1 ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGATTGAAGTCAGATCTTATCTCCCT
*
45001851 GAGATTACAGTGGAGTAGATTGAAGCTAGTAGTCCTATCTCCTTGAGATTACAGTGGAGCGGATT
66 GAGATTACAGTGGAGTAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGATT
45001916 AAAATAAAGG
131 AAAATAAAGG
* *
45001926 ATCTTATCTCTCTGAAGTTACAACAGAGTAGATCGCATCAGATTGAAGTCAGATCTTATCTCCAT
1 ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGATTGAAGTCAGATCTTATCTCCCT
* * * * * *
45001991 GAGATTACAGTAGAGTAGATTGAAGCTAATAATCCTACCTCCCTGAGATTATAGCGGAGC
66 GAGATTACAGTGGAGTAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGC
45002051 AGACTGAAGC
Statistics
Matches: 250, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
140 206 0.82
141 44 0.18
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (140 bp):
ATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGATTGAAGTCAGATCTTATCTCCCT
GAGATTACAGTGGAGTAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGATT
AAAATAAAGG
Found at i:45011671 original size:20 final size:20
Alignment explanation
Indices: 45011646--45011685 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45011636 AATATTTTCT
*
45011646 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
45011666 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
45011686 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:45011688 original size:34 final size:35
Alignment explanation
Indices: 45011634--45011700 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
45011624 CAAACACCAG
* *
45011634 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
45011669 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
45011701 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:45012649 original size:19 final size:19
Alignment explanation
Indices: 45012581--45012665 Score: 75
Period size: 20 Copynumber: 4.4 Consensus size: 19
45012571 ATCTGAATTC
* *
45012581 CGAACCTTGAACTTTAAACT
1 CGAAACTTGAAC-CTAAACT
* *
45012601 CGAATCTTGAACCTCGAACT
1 CGAAACTTGAACCT-AAACT
45012621 CG-AACTTGAACCTAAACT
1 CGAAACTTGAACCTAAACT
*
45012639 CGAAACCTGAACCATAAAACT
1 CGAAACTTGAACC-T-AAACT
45012660 C-AAACT
1 CGAAACT
45012666 CAAACCTTGA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
18 6 0.11
19 20 0.37
20 22 0.41
21 6 0.11
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (19 bp):
CGAAACTTGAACCTAAACT
Found at i:45028542 original size:17 final size:17
Alignment explanation
Indices: 45028520--45028552 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45028510 TTGTATAAAA
45028520 TTTATT-TTATTGTTAAT
1 TTTATTATTATT-TTAAT
45028537 TTTATTATTATTTTAA
1 TTTATTATTATTTTAA
45028553 AGACATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTATTATTATTTTAAT
Found at i:45028563 original size:30 final size:30
Alignment explanation
Indices: 45028529--45028591 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
45028519 ATTTATTTTA
45028529 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* * *
45028559 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
45028589 TTG
1 TTG
45028592 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:45028745 original size:12 final size:12
Alignment explanation
Indices: 45028715--45028748 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
45028705 TACATATTTT
45028715 AAAATT-ATATA
1 AAAATTAATATA
45028726 AAAA-TAATATA
1 AAAATTAATATA
45028737 AAAATTAATATA
1 AAAATTAATATA
45028749 GGCAGGTCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:45029902 original size:66 final size:67
Alignment explanation
Indices: 45029827--45029969 Score: 234
Period size: 66 Copynumber: 2.1 Consensus size: 67
45029817 CATTTCTTTG
* *
45029827 CAAAATTTTAGTATTGTATTGAAATCATCATGGTAACTATATT-GAATCACCATCCATTTGCATT
1 CAAAATTTTAGTATTGTATTGAAATCACCATGATAACTATATTAGAATCACCATCCATTTGCATT
45029891 TA
66 TA
* * *
45029893 TAAAATTTTAGTATTGTATTGGAATCACCATGATAACTATATTAGAATCACCATTCATTTGCATT
1 CAAAATTTTAGTATTGTATTGAAATCACCATGATAACTATATTAGAATCACCATCCATTTGCATT
45029958 TA
66 TA
45029960 CAAAATTTTA
1 CAAAATTTTA
45029970 ATACTGTAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
66 39 0.56
67 31 0.44
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (67 bp):
CAAAATTTTAGTATTGTATTGAAATCACCATGATAACTATATTAGAATCACCATCCATTTGCATT
TA
Found at i:45029915 original size:104 final size:105
Alignment explanation
Indices: 45029722--45029916 Score: 302
Period size: 104 Copynumber: 1.9 Consensus size: 105
45029712 ATATTGGGTA
* * * ** *
45029722 CAAAATTTTAGTATTGTATTGGAATCATCATGGTAATTGTATTAGAATCATTATTCATTTGCATT
1 CAAAATTTTAGTATTGTATTGAAATCATCATGGTAACTATATTAGAATCACCATCCATTTGCATT
45029787 TACAAAATCTTACTATTGTATTGGAAATATCATTTCTTTG
66 TACAAAATCTTACTATTGTATTGGAAATATCATTTCTTTG
45029827 CAAAATTTTAGTATTGTATTGAAATCATCATGGTAACTATATT-GAATCACCATCCATTTGCATT
1 CAAAATTTTAGTATTGTATTGAAATCATCATGGTAACTATATTAGAATCACCATCCATTTGCATT
* * *
45029891 TATAAAATTTTAGTATTGTATTGGAA
66 TACAAAATCTTACTATTGTATTGGAA
45029917 TCACCATGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
104 41 0.51
105 40 0.49
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (105 bp):
CAAAATTTTAGTATTGTATTGAAATCATCATGGTAACTATATTAGAATCACCATCCATTTGCATT
TACAAAATCTTACTATTGTATTGGAAATATCATTTCTTTG
Found at i:45032182 original size:27 final size:27
Alignment explanation
Indices: 45032127--45032239 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 27
45032117 TTGTGGCGAG
* * **
45032127 CTCTGAAAGGATGACCTTTATCGCAAA
1 CTCTGAAAGGATAACCTTTATGGTGAA
*
45032154 CTCCGAAAGGATAACCTTTATGGTGAA
1 CTCTGAAAGGATAACCTTTATGGTGAA
* ***
45032181 CTCTAAAAGGATGGTCTTTATGGTGAA
1 CTCTGAAAGGATAACCTTTATGGTGAA
* * *
45032208 CTCTGAAAGAATAGCCTTTGTGGTGAA
1 CTCTGAAAGGATAACCTTTATGGTGAA
45032235 CTCTG
1 CTCTG
45032240 TTTAACTGCC
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (27 bp):
CTCTGAAAGGATAACCTTTATGGTGAA
Found at i:45032200 original size:54 final size:54
Alignment explanation
Indices: 45032109--45032238 Score: 134
Period size: 54 Copynumber: 2.4 Consensus size: 54
45032099 ATGGCATTTT
* * * * *
45032109 AATAGCCTTTGTGGCGAGCTCTGAAAGGATGACCTTTATCGCAAACTCCGAAAG
1 AATAACCTTTATGGTGAACTCTAAAAGGATGACCTTTATCGCAAACTCCGAAAG
* ** * ** *
45032163 GATAACCTTTATGGTGAACTCTAAAAGGATGGTCTTTATGGTGAACTCTGAAAG
1 AATAACCTTTATGGTGAACTCTAAAAGGATGACCTTTATCGCAAACTCCGAAAG
* *
45032217 AATAGCCTTTGTGGTGAACTCT
1 AATAACCTTTATGGTGAACTCT
45032239 GTTTAACTGC
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (54 bp):
AATAACCTTTATGGTGAACTCTAAAAGGATGACCTTTATCGCAAACTCCGAAAG
Found at i:45036028 original size:23 final size:23
Alignment explanation
Indices: 45035997--45036062 Score: 114
Period size: 23 Copynumber: 2.9 Consensus size: 23
45035987 ATACTCGGAT
45035997 TCCAACCAAACACACCAGAATGA
1 TCCAACCAAACACACCAGAATGA
*
45036020 TCCACCCAAACACACCAGAATGA
1 TCCAACCAAACACACCAGAATGA
*
45036043 TCCAACCAAACACACTAGAA
1 TCCAACCAAACACACCAGAA
45036063 CGGCACCCAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.47, C:0.36, G:0.08, T:0.09
Consensus pattern (23 bp):
TCCAACCAAACACACCAGAATGA
Found at i:45036216 original size:17 final size:17
Alignment explanation
Indices: 45036174--45036216 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
45036164 ATTCCAATTC
*
45036174 TCAATTCAATTTCACTT
1 TCAATTCAAATTCACTT
45036191 TC-ATATCAAATTCACTT
1 TCAAT-TCAAATTCACTT
45036208 TCAATTCAA
1 TCAATTCAA
45036217 CATACAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (17 bp):
TCAATTCAAATTCACTT
Found at i:45037014 original size:16 final size:16
Alignment explanation
Indices: 45036995--45037025 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45036985 GTGTCGAAAG
45036995 TTCTCTGTTTCTTTTC
1 TTCTCTGTTTCTTTTC
*
45037011 TTCTTTGTTTCTTTT
1 TTCTCTGTTTCTTTT
45037026 ATTATTTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.19, G:0.06, T:0.74
Consensus pattern (16 bp):
TTCTCTGTTTCTTTTC
Found at i:45038031 original size:21 final size:21
Alignment explanation
Indices: 45038007--45038049 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
45037997 ATATGAGAAG
* *
45038007 GATCTGATCTGTATTTCTGAA
1 GATCTGATCTATATCTCTGAA
45038028 GATCTGATCTATATCTCTGAA
1 GATCTGATCTATATCTCTGAA
45038049 G
1 G
45038050 CAAAGAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (21 bp):
GATCTGATCTATATCTCTGAA
Found at i:45044147 original size:87 final size:90
Alignment explanation
Indices: 45044031--45044198 Score: 215
Period size: 87 Copynumber: 1.9 Consensus size: 90
45044021 ATGCTATCTC
*
45044031 ATATCGATGCCACTGTCCCAGACAGGGTCTTACACG-AATCA-A-AT-ACGATGCCAAAT-GTCC
1 ATATCGATGCCACTGTCCAAGACAGGGTCTTACACGTAATCACATATAACGATGCC--ATCGTCC
*
45044091 TAGACATGGTCTTACACGTACTCACAT
64 CAGACATGGTCTTACACGTACTCACAT
*
45044118 ATATCGATGCCA-TCGTCCAATAC-GTGGTCTTACACGTAATCACATATAACGATGCCATCGTCC
1 ATATCGATGCCACT-GTCCAAGACAG-GGTCTTACACGTAATCACATATAACGATGCCATCGTCC
*
45044181 CAGACGTGGTCTTACACG
64 CAGACATGGTCTTACACG
45044199 AGAACACATA
Statistics
Matches: 70, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
86 2 0.03
87 30 0.43
88 5 0.07
89 3 0.04
90 22 0.31
91 8 0.11
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (90 bp):
ATATCGATGCCACTGTCCAAGACAGGGTCTTACACGTAATCACATATAACGATGCCATCGTCCCA
GACATGGTCTTACACGTACTCACAT
Found at i:45044207 original size:45 final size:43
Alignment explanation
Indices: 45043994--45044209 Score: 201
Period size: 45 Copynumber: 4.9 Consensus size: 43
45043984 ATATTGAACA
* * * * *
45043994 ATGCCAACATCCCAGACGTGGTCTTACATGCTATCTCATAT-CG
1 ATGCCATCGTCCCAGACGTGGTCTTACACG-AATCACATATACG
45044037 ATGCCA-CTGTCCCAGACAG-GGTCTTACACGAATCA-A-ATACG
1 ATGCCATC-GTCCCAGAC-GTGGTCTTACACGAATCACATATACG
* * *
45044078 ATGCCAAAT-GTCCTAGACATGGTCTTACACGTACTCACATATATCG
1 ATGCC--ATCGTCCCAGACGTGGTCTTACACG-AATCACATATA-CG
* *
45044124 ATGCCATCGTCCAATACGTGGTCTTACACGTAATCACATATAACG
1 ATGCCATCGTCCCAGACGTGGTCTTACACG-AATCACATAT-ACG
*
45044169 ATGCCATCGTCCCAGACGTGGTCTTACACGAGAACACATAT
1 ATGCCATCGTCCCAGACGTGGTCTTACACGA-ATCACATAT
45044210 CGAAAATCCT
Statistics
Matches: 145, Mismatches: 14, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
40 2 0.01
41 8 0.06
42 23 0.16
43 29 0.20
44 5 0.03
45 70 0.48
46 8 0.06
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCATCGTCCCAGACGTGGTCTTACACGAATCACATATACG
Found at i:45047103 original size:44 final size:43
Alignment explanation
Indices: 45047055--45047159 Score: 156
Period size: 43 Copynumber: 2.4 Consensus size: 43
45047045 TGTCCCAGAC
**
45047055 ATGGTCTTACATGGAAATCTCGTATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACAT-GAAATCTCAAATCGATGCCAATAGCCCAGCT
** *
45047099 ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCTAGCT
1 ATGGTCTTACATGAAATCTCAAATCGATGCCAATAGCCCAGCT
45047142 ATGGTCTTACATGAAATC
1 ATGGTCTTACATGAAATC
45047160 AAACCTCGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 43 0.80
44 11 0.20
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:45047324 original size:31 final size:31
Alignment explanation
Indices: 45047289--45047483 Score: 232
Period size: 31 Copynumber: 6.3 Consensus size: 31
45047279 AATCAATTCA
* **
45047289 GCAATATATATCCATATATGAATCAAATTTG
1 GCAATGTATATCCATATACAAATCAAATTTG
* *
45047320 GCAATGTATATCTATATACAAATC-AATTCG
1 GCAATGTATATCCATATACAAATCAAATTTG
*
45047350 TCAATGTATATCCATATACAAATCAAATTTG
1 GCAATGTATATCCATATACAAATCAAATTTG
* *
45047381 GCAATGTATAACCATATACAAATCAAATTCG
1 GCAATGTATATCCATATACAAATCAAATTTG
* * * *
45047412 ACACTGTATATCTATA-AAAAATTCAAATTTG
1 GCAATGTATATCCATATACAAA-TCAAATTTG
* *
45047443 GCAATGTATATCTATATACAAATCAAATTCG
1 GCAATGTATATCCATATACAAATCAAATTTG
*
45047474 GAAATGTATA
1 GCAATGTATA
45047484 AAACATATAC
Statistics
Matches: 139, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
30 31 0.22
31 104 0.75
32 4 0.03
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (31 bp):
GCAATGTATATCCATATACAAATCAAATTTG
Found at i:45047441 original size:62 final size:62
Alignment explanation
Indices: 45047277--45047483 Score: 271
Period size: 61 Copynumber: 3.4 Consensus size: 62
45047267 ATCCAATGCT
* **
45047277 CAAATC-AATTC-AGCAATATATATCCATATATGAATCAAATTTGGCAATGTATATCTATATA
1 CAAATCAAATTCGA-CAATGTATATCCATATAAAAATCAAATTTGGCAATGTATATCTATATA
* * * *
45047338 CAAATC-AATTCGTCAATGTATATCCATATACAAATCAAATTTGGCAATGTATAACCATATA
1 CAAATCAAATTCGACAATGTATATCCATATAAAAATCAAATTTGGCAATGTATATCTATATA
* *
45047399 CAAATCAAATTCGACACTGTATATCTATA-AAAAATTCAAATTTGGCAATGTATATCTATATA
1 CAAATCAAATTCGACAATGTATATCCATATAAAAA-TCAAATTTGGCAATGTATATCTATATA
45047461 CAAATCAAATTCGGA-AATGTATA
1 CAAATCAAATTC-GACAATGTATA
45047484 AAACATATAC
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
61 64 0.50
62 63 0.49
63 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.32
Consensus pattern (62 bp):
CAAATCAAATTCGACAATGTATATCCATATAAAAATCAAATTTGGCAATGTATATCTATATA
Found at i:45049657 original size:85 final size:84
Alignment explanation
Indices: 45049557--45049729 Score: 211
Period size: 85 Copynumber: 2.0 Consensus size: 84
45049547 TCTCGAGTTG
* * * * * ** *
45049557 TGATTTTGTGTAAGACCATGTCTGGGACATTGGCATTGATATGAGATTATGTGTAAGACCATGTC
1 TGATTTCGTATAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAACATGTAAGACCATATC
*
45049622 TGGGACATTGGCATCGTATA
66 TAGGACA-TGGCATCGTATA
* *
45049642 TGATTTCGTATAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAACATGTAAGACCATATC
1 TGATTTCGTATAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAACATGTAAGACCATATC
* * *
45049707 TAGGATATGGCATTGTATG
66 TAGGACATGGCATCGTATA
45049726 TGAT
1 TGAT
45049730 ATATGTGTTT
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
84 14 0.19
85 60 0.81
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (84 bp):
TGATTTCGTATAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAACATGTAAGACCATATC
TAGGACATGGCATCGTATA
Found at i:45049669 original size:42 final size:40
Alignment explanation
Indices: 45049561--45049684 Score: 167
Period size: 42 Copynumber: 3.0 Consensus size: 40
45049551 GAGTTGTGAT
*
45049561 TTTGTGTAAGACCATGTCTGGGACATTGGCATTGATATGAGA
1 TTTGTGTAAGACCATGTCTGGGACATTGGCATCGATAT--GA
45049603 TTATGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGA
1 TT-TGTGTAAGACCATGTCTGGGACATTGGCATCG-ATATGA
* * *
45049645 TTTCGTATAAGACCCTGTCTGGGACAGTGGCATCGATATG
1 TTT-GTGTAAGACCATGTCTGGGACATTGGCATCGATATG
45049685 TGATAACATG
Statistics
Matches: 75, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
41 6 0.08
42 34 0.45
43 31 0.41
44 4 0.05
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (40 bp):
TTTGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
Found at i:45049718 original size:42 final size:42
Alignment explanation
Indices: 45049564--45049730 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 42
45049554 TTGTGATTTT
* * * *
45049564 GTGTAAGACCATGTCTGGGACATTGGCATTGATATGAGATTAT
1 GTGTAAGACCATGTCTGGGACATTGGCATCG-TATGTGATAAC
* **
45049607 GTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTTC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATGTGATAAC
* * *
45049649 GTATAAGACCCTGTCTGGGACAGTGGCATCGATATGTGATAAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCG-TATGTGATAAC
* * * * *
45049692 ATGTAAGACCATATCTAGGATA-TGGCATTGTATGTGATA
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATGTGATA
45049731 TATGTGTTTT
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
41 9 0.09
42 42 0.40
43 54 0.51
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGTATGTGATAAC
Found at i:45051197 original size:16 final size:16
Alignment explanation
Indices: 45051165--45051205 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
45051155 TTTACTTAAA
45051165 TATTTTA-CATACATT
1 TATTTTATCATACATT
*
45051180 TATTTTATCATCCATT
1 TATTTTATCATACATT
45051196 TATTTATATC
1 TATTT-TATC
45051206 TTTTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 12 0.52
17 4 0.17
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTTATCATACATT
Found at i:45054722 original size:18 final size:19
Alignment explanation
Indices: 45054684--45054722 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
45054674 TGGTTCAAGC
*
45054684 TTTCAATCTCATATCTCAA
1 TTTCAATCTCACATCTCAA
*
45054703 TTTCAAT-TCACATTTCAA
1 TTTCAATCTCACATCTCAA
45054721 TT
1 TT
45054723 CATAATTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCACATCTCAA
Found at i:45054868 original size:23 final size:23
Alignment explanation
Indices: 45054841--45054905 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
45054831 ACGAATTCCT
*
45054841 ACCAAACACACCAGAATGATCCA
1 ACCAAACACACTAGAATGATCCA
*
45054864 CCCAAACACACTAGAATGATCCA
1 ACCAAACACACTAGAATGATCCA
45054887 ACCAAACACACTAGAATGA
1 ACCAAACACACTAGAATGA
45054906 CTCCCAGTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.48, C:0.32, G:0.09, T:0.11
Consensus pattern (23 bp):
ACCAAACACACTAGAATGATCCA
Found at i:45055860 original size:3 final size:3
Alignment explanation
Indices: 45055852--45055907 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
45055842 ATGTATTAGT
* * * * *
45055852 TAA TAA TAA TTA TTA TTA TAA TTA TAA TAA TAA TATA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
45055898 T-A TAA TAA TA
1 TAA TAA TAA TA
45055908 TTTAATTCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 2 0.04
3 41 0.91
4 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (3 bp):
TAA
Found at i:45055867 original size:24 final size:25
Alignment explanation
Indices: 45055852--45055907 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
45055842 ATGTATTAGT
*
45055852 TAATAATAAT-TATTATTATAATTA
1 TAATAATAATATATTATTATAAGTA
*
45055876 TAATAATAATATATTATAATAA-TA
1 TAATAATAATATATTATTATAAGTA
45055900 TAATAATA
1 TAATAATA
45055908 TTTAATTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 20 0.67
25 10 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TAATAATAATATATTATTATAAGTA
Found at i:45055907 original size:21 final size:22
Alignment explanation
Indices: 45055852--45055908 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
45055842 ATGTATTAGT
*
45055852 TAATAATAATTAT-TATTATAA
1 TAATAATAATAATATATTATAA
*
45055873 TTATAATAATAATATATTATAA
1 TAATAATAATAATATATTATAA
45055895 TAAT-ATAATAATAT
1 TAATAATAATAATAT
45055909 TTAATTCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 21 0.66
22 11 0.34
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAATAATAATAATATATTATAA
Found at i:45056299 original size:15 final size:15
Alignment explanation
Indices: 45056279--45056307 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45056269 TATAAAATTA
45056279 AATCATAAAAATCTT
1 AATCATAAAAATCTT
45056294 AATCATAAAAATCT
1 AATCATAAAAATCT
45056308 AATATTTTTA
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:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (15 bp):
AATCATAAAAATCTT
Found at i:45059698 original size:17 final size:18
Alignment explanation
Indices: 45059668--45059713 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
45059658 CCTTCATTTC
*
45059668 TTTCTTTTATTCTTTTA-G
1 TTTC-TTTACTCTTTTATG
45059686 TTTCTTTACTCTTTTATG
1 TTTCTTTACTCTTTTATG
*
45059704 TTTATTTACT
1 TTTCTTTACT
45059714 TTATTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.13, C:0.13, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCTTTACTCTTTTATG
Found at i:45059761 original size:18 final size:17
Alignment explanation
Indices: 45059715--45059769 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
45059705 TTATTTACTT
45059715 TATTAATTTAATAAT-AA
1 TATT-ATTTAATAATAAA
45059732 TAATT-TTT-ATAATAAA
1 T-ATTATTTAATAATAAA
*
45059748 TATCTATTTAATAACAAA
1 TAT-TATTTAATAATAAA
45059766 TATT
1 TATT
45059770 TATATTACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
15 7 0.22
16 7 0.22
17 5 0.16
18 13 0.41
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTATTTAATAATAAA
Found at i:45062060 original size:20 final size:20
Alignment explanation
Indices: 45062035--45062074 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45062025 AATATTTTCC
*
45062035 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
45062055 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
45062075 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:45062080 original size:34 final size:35
Alignment explanation
Indices: 45062023--45062089 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
45062013 GAAACACCAA
*
45062023 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
45062058 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
45062090 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:45065831 original size:41 final size:41
Alignment explanation
Indices: 45065774--45065855 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
45065764 CAACTATAAG
*
45065774 AAAACTCGAGTAAGACCTTAAAGGTTCGAATATGCACTAAT
1 AAAACTCGAGTAAGACCTTAAAGGTTCGAATATACACTAAT
45065815 AAAACTCGAGTAAGACCTTAAAGGTTCGAATATACACTAAT
1 AAAACTCGAGTAAGACCTTAAAGGTTCGAATATACACTAAT
45065856 CAAATTCCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (41 bp):
AAAACTCGAGTAAGACCTTAAAGGTTCGAATATACACTAAT
Found at i:45069863 original size:37 final size:33
Alignment explanation
Indices: 45069787--45069865 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 33
45069777 ATTTTTTATT
* *
45069787 TAAT-ATTATTTTATTTTTAAAAAAAATTTAAT
1 TAATAATTATTTTATTTTTAAAAAAAATATAAA
*
45069819 TAATAATTATTTTATTTATATAAATAAAATGATAAA
1 TAATAATTATTTTATTT-T-TAAAAAAAAT-ATAAA
45069855 TAAGTAATTAT
1 TAA-TAATTAT
45069866 ATAATAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
32 4 0.10
33 12 0.31
34 1 0.03
35 9 0.23
36 6 0.15
37 7 0.18
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (33 bp):
TAATAATTATTTTATTTTTAAAAAAAATATAAA
Found at i:45069979 original size:22 final size:22
Alignment explanation
Indices: 45069954--45069998 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
45069944 AACATAACGA
45069954 TATATATAAAATAT-ATTTTTAT
1 TATATA-AAAATATAATTTTTAT
**
45069976 TATATAATTATATAATTTTTAT
1 TATATAAAAATATAATTTTTAT
45069998 T
1 T
45069999 TTTATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATATAAAAATATAATTTTTAT
Found at i:45069987 original size:8 final size:8
Alignment explanation
Indices: 45069974--45070028 Score: 64
Period size: 8 Copynumber: 7.4 Consensus size: 8
45069964 ATATATTTTT
45069974 ATTATATA
1 ATTATATA
45069982 ATTATATA
1 ATTATATA
*
45069990 ATT-T-TT
1 ATTATATA
*
45069996 ATT-T-TT
1 ATTATATA
45070002 ATTATATA
1 ATTATATA
45070010 ATTATATA
1 ATTATATA
45070018 ATTATATA
1 ATTATATA
45070026 ATT
1 ATT
45070029 TTTATTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 10 0.23
7 2 0.05
8 31 0.72
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
ATTATATA
Found at i:45069987 original size:28 final size:28
Alignment explanation
Indices: 45069956--45070047 Score: 107
Period size: 28 Copynumber: 3.3 Consensus size: 28
45069946 CATAACGATA
45069956 TATATAAAATATATTTTTATTATATAAT
1 TATATAAAATATATTTTTATTATATAAT
** *
45069984 TATATAATTTTTATTTTTATTATATAAT
1 TATATAAAATATATTTTTATTATATAAT
* *
45070012 TATATAATTATATAATTTTTATT-T-TATT
1 TATATAA-AATAT-ATTTTTATTATATAAT
45070040 TATATAAA
1 TATATAAA
45070048 TAAAAATGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
28 42 0.76
29 4 0.07
30 9 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (28 bp):
TATATAAAATATATTTTTATTATATAAT
Found at i:45070014 original size:36 final size:36
Alignment explanation
Indices: 45069974--45070046 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 36
45069964 ATATATTTTT
45069974 ATTATATAATTATATAATTTTTATTTT-TATTATATA
1 ATTATATAATTATATAATTTTTATTTTAT-TTATATA
45070010 ATTATATAATTATATAATTTTTATTTTATTTATATA
1 ATTATATAATTATATAATTTTTATTTTATTTATATA
45070046 A
1 A
45070047 ATAAAAATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 35 0.97
37 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (36 bp):
ATTATATAATTATATAATTTTTATTTTATTTATATA
Found at i:45073730 original size:16 final size:16
Alignment explanation
Indices: 45073721--45073755 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
45073711 AAGTTTTTGT
45073721 GAATAAAAGTTTGAGG
1 GAATAAAAGTTTGAGG
45073737 GAATAAAAGTTTGAGG
1 GAATAAAAGTTTGAGG
45073753 GAA
1 GAA
45073756 AGTAAATAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (16 bp):
GAATAAAAGTTTGAGG
Found at i:45074203 original size:9 final size:9
Alignment explanation
Indices: 45074186--45074216 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45074176 TCGAGTTGAT
45074186 TCGAATAAC
1 TCGAATAAC
*
45074195 TCGATTAAC
1 TCGAATAAC
45074204 TCGAATAAC
1 TCGAATAAC
45074213 TCGA
1 TCGA
45074217 TTTGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:45079617 original size:51 final size:51
Alignment explanation
Indices: 45079541--45079704 Score: 301
Period size: 51 Copynumber: 3.2 Consensus size: 51
45079531 CTGATCAGTA
45079541 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
45079592 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
* *
45079643 ACAAGTGATAAGTGGTAGCTTTAGCTACAGTTATTTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
*
45079694 GCAAGTGATAA
1 ACAAGTGATAA
45079705 ATGTAATCCG
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 110 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
Found at i:45082330 original size:12 final size:12
Alignment explanation
Indices: 45082315--45082341 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45082305 ATTTGTTATA
45082315 ATACTATTATTC
1 ATACTATTATTC
45082327 ATACTATTATTC
1 ATACTATTATTC
45082339 ATA
1 ATA
45082342 ATAATATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (12 bp):
ATACTATTATTC
Found at i:45086210 original size:25 final size:25
Alignment explanation
Indices: 45086182--45086235 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
45086172 ATTGTGATCA
45086182 TTTTTGAACCAA-TATTCTTTCAGTC
1 TTTTTGAA-CAATTATTCTTTCAGTC
* *
45086207 TTTTTGAATAATTATTCTTTCATTC
1 TTTTTGAACAATTATTCTTTCAGTC
45086232 TTTT
1 TTTT
45086236 GGATTTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.22, C:0.15, G:0.06, T:0.57
Consensus pattern (25 bp):
TTTTTGAACAATTATTCTTTCAGTC
Found at i:45086967 original size:7 final size:8
Alignment explanation
Indices: 45086951--45086976 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
45086941 ATAAAAAGGC
45086951 AATAAAAA
1 AATAAAAA
45086959 AATAAAAA
1 AATAAAAA
45086967 AATAAAAA
1 AATAAAAA
45086975 AA
1 AA
45086977 ACAACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Found at i:45087955 original size:6 final size:7
Alignment explanation
Indices: 45087930--45087988 Score: 59
Period size: 7 Copynumber: 8.0 Consensus size: 7
45087920 TAAGTCGGAA
45087930 AAAATATG
1 AAAA-ATG
45087938 AAAAATG
1 AAAAATG
45087945 AAAAAAT-
1 -AAAAATG
45087952 AAAAATG
1 AAAAATG
45087959 AAAAATG
1 AAAAATG
45087966 AAAAAAATG
1 --AAAAATG
45087975 AAAAA-G
1 AAAAATG
45087981 TAAAAATG
1 -AAAAATG
45087989 GAGAGGCTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.16
7 20 0.44
8 11 0.24
9 7 0.16
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:45087957 original size:14 final size:14
Alignment explanation
Indices: 45087938--45087988 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
45087928 AAAAAATATG
45087938 AAAAATGAAAAAAT
1 AAAAATGAAAAAAT
*
45087952 AAAAATGAAAAATGAA
1 AAAAATGAAAAA--AT
*
45087968 AAAAATGAAAAAGT
1 AAAAATGAAAAAAT
45087982 AAAAATG
1 AAAAATG
45087989 GAGAGGCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 19 0.59
16 13 0.41
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAAAT
Found at i:45088221 original size:14 final size:14
Alignment explanation
Indices: 45088198--45088235 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
45088188 GAAAGGTCTT
45088198 CAGA-AAGTTTCTA
1 CAGAGAAGTTTCTA
45088211 CAGAGAAGTTTCTA
1 CAGAGAAGTTTCTA
45088225 CAGAGAAGTTT
1 CAGAGAAGTTT
45088236 AATTTGCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (14 bp):
CAGAGAAGTTTCTA
Found at i:45089708 original size:43 final size:43
Alignment explanation
Indices: 45089660--45089844 Score: 133
Period size: 44 Copynumber: 4.2 Consensus size: 43
45089650 CCTAAGGTTA
*
45089660 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
1 CAGTGGAATACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
* * * **
45089703 CAGTGGAATAGATTGAAG--ACTAAGGATCTTATCTCCCTAAGCAG
1 CAGTGGAATACATTGAAGCCAGTAA--TTC-TATCTCCCTGGGCAG
* * * *** * * * *
45089747 TAGTGGAATAGATCGAAGATGGTAGATTTTACCTCCTTGAGGTTA-
1 CAGTGGAATACATTGAAGCCAGTA-ATTCTATCTCCCTG-GG-CAG
* *
45089792 CAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCTGGGCAG
1 CAGTGGAATACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
45089835 CAGTGGAATA
1 CAGTGGAATA
45089845 GATTAAAGAT
Statistics
Matches: 103, Mismatches: 30, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
41 4 0.04
42 1 0.01
43 29 0.28
44 47 0.46
45 18 0.17
46 3 0.03
47 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
CAGTGGAATACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
Found at i:45089737 original size:44 final size:44
Alignment explanation
Indices: 45089556--45089765 Score: 126
Period size: 44 Copynumber: 4.8 Consensus size: 44
45089546 CCCGTAATTC
* * *
45089556 TATCTCCCTGGACAGCAGTGGAATAGATTAAAGATTAAGGATCT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGACTAAGGATCT
** * * * * * *
45089600 TATCTCCCTAAGCAGTAGTAGAGTAAATCGAAGA-TGACA-GATTT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGACT-A-AGGATCT
* ** * * * *
45089644 TACCTCCCTAAGGTTA-CAGTGGAGTACATTGAAG-C-CAGTAAT-T
1 TATCTCCCT--GGGCAGCAGTGGAATAGATTGAAGACTAAG-GATCT
45089687 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGACTAAGGATCT
1 -TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGACTAAGGATCT
** * *
45089732 TATCTCCCTAAGCAGTAGTGGAATAGATCGAAGA
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA
45089766 TGGTAGATTT
Statistics
Matches: 122, Mismatches: 32, Indels: 24
0.69 0.18 0.13
Matches are distributed among these distances:
42 4 0.03
43 18 0.15
44 81 0.66
45 18 0.15
46 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGACTAAGGATCT
Found at i:45089898 original size:44 final size:43
Alignment explanation
Indices: 45089850--45090023 Score: 97
Period size: 44 Copynumber: 4.0 Consensus size: 43
45089840 GAATAGATTA
*
45089850 AAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
1 AAGATTGTAGATCTTATCTCCCT-AGCAGTAGTGAAGCAGATCG
* * * * ** * * * *
45089894 AAGATGGTGGATTTTACCTCCCT-GTGGTTACAGTGGAGTACATTG
1 AAGATTGTAGATCTTATCTCCCTAGCAG-T--AGTGAAGCAGATCG
*** * * **
45089939 AAGCCAGTAG-TTTTATCTCCCTAGCAGT-G-GAA-TAGATTA
1 AAGATTGTAGATCTTATCTCCCTAGCAGTAGTGAAGCAGATCG
*
45089978 AAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
1 AAGATTGTAGATCTTATCTCCCT-AGCAGTAGTGAAGCAGATCG
45090022 AA
1 AA
45090024 AATGGTGGAT
Statistics
Matches: 92, Mismatches: 29, Indels: 18
0.66 0.21 0.13
Matches are distributed among these distances:
39 11 0.12
40 13 0.14
41 7 0.08
42 3 0.03
43 4 0.04
44 36 0.39
45 18 0.20
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (43 bp):
AAGATTGTAGATCTTATCTCCCTAGCAGTAGTGAAGCAGATCG
Found at i:45090256 original size:517 final size:521
Alignment explanation
Indices: 45089369--45090416 Score: 1475
Period size: 517 Copynumber: 2.0 Consensus size: 521
45089359 AGAGCAGGTT
*
45089369 GATGGTAGATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* **
45089434 GGGCAGCAGTGGAATAGATTGAAATTAAGGATCTTATCTCCCTAAACAGTAGTGGGGAAGATCGA
66 --G-AGCAGTGGAATAGATTAAAATTAAGGATCTTATCTCCCTAAACAGTAGTGAAGAAGATCGA
* ** *
45089499 AGATGGCAGATTTTACCTCTTTGAGGTTACAGTAGAGTACATTGAAGCCCGTAATTCTATCTCCC
128 AAATGGCAGATTTTACCTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCC
*
45089564 TGGACAGCAGTGGAATAGATTAAAGATTAAGGATCTTATCTCCCTAAGCAGTAGTAGAGTAAATC
193 TGGACAGCAGTGGAATAGATTAAAGAATAA-GATC-T-TCTCCCTAAGCAGTAGTAGAGTAAATC
45089629 GAAGATGACAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTC
255 GAAGATGACAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTC
*
45089694 CCTGGGCAGCAGTGGAATAGATTGAAGACTAAGGATCTTATCTCCCTAAGCAGTAGTGGAATAGA
320 CCTGGGCAGCAGTGGAATAGATTGAAGACTAAGGATCTTATCTCCCTAAGCAGTAGTGGAACAGA
* *
45089759 TCGAAGATGGTAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATC
385 TCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATC
**
45089824 TCCCTGGGCAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCA
450 TCCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCA
45089889 GATCGAA
515 GATCGAA
* * * *
45089896 GATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAGTTTTATCTCCCT
1 GATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
45089961 -AGCAGTGGAATAGATTAAAGATTTTA-GATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAA
66 GAGCAGTGGAATAGATTAAA-A-TTAAGGATCTTATCTCCCTAAACAGTAGTGAAGAAGATCGAA
** *
45090024 AATGGTGGATTTTACCTCCCTGTA-GTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
129 AATGGCAGATTTTACCTCCCTG-AGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCC
*** * *
45090088 TGGTTGGCAGTGGAATAGATTGAAGAATAA-A-C-TCT-CCTAAGCAGTAGTGGAGTAGAA-CGA
193 TGGACAGCAGTGGAATAGATTAAAGAATAAGATCTTCTCCCTAAGCAGTAGTAGAGTA-AATCGA
*** ** **
45090148 AGATGGTGGATTTTACCTCGTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
257 AGATGACAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
*** * * * * *
45090213 TGGTTGGCAGTGGAATAGATTGAATATTATA-GATCTTATCTCCCTAAGTAGTAGTTGAGCAGAT
322 TGGGCAGCAGTGGAATAGATTGAAGACTA-AGGATCTTATCTCCCTAAGCAGTAGTGGAACAGAT
* * * *
45090277 CGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTTTATCT
386 CGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCT
* * *
45090342 CTCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
451 CCCTGGGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAG
45090407 ATCGAA
516 ATCGAA
45090413 GATG
1 GATG
45090417 ACAAAACTTA
Statistics
Matches: 465, Mismatches: 51, Indels: 20
0.87 0.10 0.04
Matches are distributed among these distances:
517 261 0.56
518 6 0.01
521 1 0.00
522 1 0.00
523 18 0.04
524 114 0.25
525 4 0.01
527 60 0.13
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (521 bp):
GATGGTAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GAGCAGTGGAATAGATTAAAATTAAGGATCTTATCTCCCTAAACAGTAGTGAAGAAGATCGAAAA
TGGCAGATTTTACCTCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCCTGG
ACAGCAGTGGAATAGATTAAAGAATAAGATCTTCTCCCTAAGCAGTAGTAGAGTAAATCGAAGAT
GACAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGG
CAGCAGTGGAATAGATTGAAGACTAAGGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAG
ATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCTG
GGCAGCAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGA
A
Found at i:45090474 original size:132 final size:131
Alignment explanation
Indices: 45089369--45090416 Score: 1427
Period size: 132 Copynumber: 8.0 Consensus size: 131
45089359 AGAGCAGGTT
* *
45089369 GATGGTAGATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
45089434 GGGCAGCAGTGGAATAGATTGAA-ATTAAGGATCTTATCTCCCTAAACAGTAGTGGGGAAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTAA-GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
45089498 AA
130 AA
** * *
45089500 GATGGCAGATTTTACCTCTTTGAGGTTACAGTAGAGTACATTGAAGCCCGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * * *
45089565 GGACAGCAGTGGAATAGATTAAAGATTAAGGATCTTATCTCCCTAAGCAGTAGTAGAGTAAATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTAA-GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
45089630 AA
130 AA
* *
45089632 GATGACAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* **
45089697 GGGCAGCAGTGGAATAGATTGAAGACTAAGGATCTTATCTCCCTAAGCAGTAGTGGAATAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTAA-GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
45089762 AA
130 AA
* * *
45089764 GATGGTAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
45089829 GGGCAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGA-TTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
45089894 AA
130 AA
** * * *
45089896 GATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAGTTTTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
45089961 ----AGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGA-TTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
45090022 AA
130 AA
* **
45090024 AATGGTGGATTTTACCTCCCTGTA-GTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
1 GATGGCAGATTTTACCTCCCTG-AGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
*** * * *
45090088 TGGTTGGCAGTGGAATAGATTGAAGAATAA-A-C---TCT-CCTAAGCAGTAGTGGAGTAGAACG
65 TGGGCAGCAGTGGAATAGATTGAAGATTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
45090147 AA
130 AA
** ** *
45090149 GATGGTGGATTTTACCTCGTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
*** * * *
45090214 GGTTGGCAGTGGAATAGATTGAATATTATAGATCTTATCTCCCTAAGTAGTAGTTGAGCAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTA-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
45090279 AA
130 AA
* * * *
45090281 GATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTTTATCTCTCT
1 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
45090346 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTA-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
45090411 AA
130 AA
45090413 GATG
1 GATG
45090417 ACAAAACTTA
Statistics
Matches: 829, Mismatches: 73, Indels: 29
0.89 0.08 0.03
Matches are distributed among these distances:
125 109 0.13
126 4 0.00
127 1 0.00
128 124 0.15
129 1 0.00
130 1 0.00
131 87 0.10
132 500 0.60
133 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (131 bp):
GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGGCAGCAGTGGAATAGATTGAAGATTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
A
Found at i:45091364 original size:16 final size:15
Alignment explanation
Indices: 45091343--45091377 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
45091333 TTCATTATTT
*
45091343 TTTTGTTTTCTTTTTC
1 TTTTGTTTTC-CTTTC
45091359 TTTTGTTTTCCTTTC
1 TTTTGTTTTCCTTTC
45091374 TTTT
1 TTTT
45091378 TTTCATGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (15 bp):
TTTTGTTTTCCTTTC
Found at i:45092400 original size:51 final size:51
Alignment explanation
Indices: 45092324--45092487 Score: 283
Period size: 51 Copynumber: 3.2 Consensus size: 51
45092314 CTGATCAATA
45092324 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
**
45092375 ACAAGTGATAAGTGGTATATTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
* * *
45092426 ACAAGTGATAAATGGTAGCTTTAGCTACAGTTATTTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
45092477 ACAAGTGATAA
1 ACAAGTGATAA
45092488 ATGTGATCTG
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 106 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
Found at i:45095286 original size:24 final size:24
Alignment explanation
Indices: 45095262--45095319 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
45095252 ATTTTTTTTA
45095262 TATATTAATATGTATGTATCATTAT
1 TATATTAATATGTAT-TATCATTAT
* *
45095287 TATTTTTATATGTATTATCATGT-T
1 TATATTAATATGTATTATCAT-TAT
45095311 TA-ATTAATA
1 TATATTAATA
45095320 AATATTGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 5 0.18
24 9 0.32
25 14 0.50
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (24 bp):
TATATTAATATGTATTATCATTAT
Found at i:45100585 original size:21 final size:21
Alignment explanation
Indices: 45100561--45100614 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
45100551 CATTGTTTCT
45100561 AATCTCACCGCTACAGT-ATCC
1 AATCTCACCGCTACAGTAAT-C
*
45100582 AATCTCACCGCTACAGTAATT
1 AATCTCACCGCTACAGTAATC
45100603 AATCTCACCGCT
1 AATCTCACCGCT
45100615 GTTTTTAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.30, C:0.35, G:0.09, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAATC
Found at i:45104487 original size:43 final size:42
Alignment explanation
Indices: 45104430--45104568 Score: 120
Period size: 42 Copynumber: 3.2 Consensus size: 42
45104420 TCCCAAACGT
* *
45104430 GGTCTTACATGTAATCAAATAACGATGCCACTATCCCAGACAG
1 GGTCTTACACGTAATCAAAT-ACGATGCCAATATCCCAGACAG
* * * * *
45104473 GGTCTTACCCGTAATCATATACGATGTCAATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATACGATGCCAATATCCCAGACAG
* ** *
45104515 GGTTTTACACGTAAATCTCAAAT-CGATGCCAACGTCCTAGAC-G
1 GGTCTTACACGT-AA--TCAAATACGATGCCAATATCCCAGACAG
45104558 TGGTCTTACAC
1 -GGTCTTACAC
45104569 AAAATCACAT
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 28 0.36
43 19 0.25
44 25 0.32
45 5 0.06
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCAATATCCCAGACAG
Found at i:45111131 original size:33 final size:33
Alignment explanation
Indices: 45111040--45111157 Score: 134
Period size: 33 Copynumber: 3.6 Consensus size: 33
45111030 GTGAAGTTAT
* *
45111040 TTTTTGGTCAATTATACATACACCAACAATGT-T
1 TTTTAGGTCAATTATACATACACCAACAA-GTAA
* * *
45111073 TTTTATGGT-AAATA-AAATTAAACCAACAAGTAA
1 TTTTA-GGTCAATTATACA-TACACCAACAAGTAA
*
45111106 TTTTAGGTCAATTATACATACACCAACAATTAA
1 TTTTAGGTCAATTATACATACACCAACAAGTAA
45111139 TTTTAGGTCAATTATACAT
1 TTTTAGGTCAATTATACAT
45111158 GCTTTATAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
32 7 0.10
33 59 0.83
34 5 0.07
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.36
Consensus pattern (33 bp):
TTTTAGGTCAATTATACATACACCAACAAGTAA
Found at i:45114259 original size:26 final size:27
Alignment explanation
Indices: 45114219--45114300 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
45114209 TAAGAACATT
*
45114219 TTATGAAATTATATTTAATAATAATTA
1 TTATTAAATTATATTTAATAATAATTA
* *
45114246 TT-TTAAATTGTATTTAATCATATATT-
1 TTATTAAATTATATTTAATAATA-ATTA
* *
45114272 TTAATTAAAATATATTTAATATTAATTA
1 TT-ATTAAATTATATTTAATAATAATTA
45114300 T
1 T
45114301 AGTATCATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 19 0.43
27 8 0.18
28 17 0.39
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (27 bp):
TTATTAAATTATATTTAATAATAATTA
Found at i:45114382 original size:18 final size:17
Alignment explanation
Indices: 45114354--45114388 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45114344 ATTATTAAGA
*
45114354 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
45114371 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
45114389 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:45114479 original size:120 final size:120
Alignment explanation
Indices: 45114301--45114645 Score: 674
Period size: 120 Copynumber: 2.9 Consensus size: 120
45114291 TATTAATTAT
45114301 AGTATCATATATTATGATTTGAGTAAATT-ATATAAGAATATGAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
45114365 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
45114420 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
45114485 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
*
45114540 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAA
1 AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
45114605 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
45114646 TAAATATGAT
Statistics
Matches: 224, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
119 29 0.13
120 195 0.87
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.48
Consensus pattern (120 bp):
AGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATGAATTATTAAGAATTTTATTAAA
TTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTAC
Found at i:45114502 original size:18 final size:17
Alignment explanation
Indices: 45114474--45114508 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45114464 ATTATTAAGA
*
45114474 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
45114491 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
45114509 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:45114622 original size:18 final size:17
Alignment explanation
Indices: 45114594--45114628 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45114584 ATTATTAAGA
*
45114594 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
45114611 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
45114629 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:45114885 original size:16 final size:16
Alignment explanation
Indices: 45114864--45114899 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
45114854 AATTTGCTAT
45114864 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45114880 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45114896 TACA
1 TACA
45114900 GCGAACCAAA
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:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45115385 original size:18 final size:20
Alignment explanation
Indices: 45115362--45115403 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
45115352 AAGTGCTTAA
*
45115362 ATATAATT-ATTAG-ATTTT
1 ATATAATTGATGAGTATTTT
45115380 ATATAATTGATGAGTATTTT
1 ATATAATTGATGAGTATTTT
45115400 ATAT
1 ATAT
45115404 TTGAGATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 4 0.19
20 9 0.43
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (20 bp):
ATATAATTGATGAGTATTTT
Found at i:45116328 original size:28 final size:27
Alignment explanation
Indices: 45116272--45116328 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
45116262 ATAAAATATT
* *
45116272 TTAAATATTTTAATCATTAAATTGAAA
1 TTAAATATTTTAATCATTAAAATAAAA
45116299 TTAAACTATTTTAAT-ATTAAAATAATAA
1 TTAAA-TATTTTAATCATTAAAATAA-AA
45116327 TT
1 TT
45116329 CGATCTGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (27 bp):
TTAAATATTTTAATCATTAAAATAAAA
Found at i:45119661 original size:21 final size:20
Alignment explanation
Indices: 45119636--45119683 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
45119626 TCTAGGTCAA
45119636 TTTAGGATCAAGGGTTAAAGG
1 TTTAGG-TCAAGGGTTAAAGG
**
45119657 TTTAGTGTTTAGGGTTAAAGG
1 TTTAG-GTCAAGGGTTAAAGG
45119678 TTTAGG
1 TTTAGG
45119684 GTTATATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.92
22 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.33, T:0.38
Consensus pattern (20 bp):
TTTAGGTCAAGGGTTAAAGG
Found at i:45119769 original size:21 final size:21
Alignment explanation
Indices: 45119745--45119795 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
45119735 TACGGTTTAG
45119745 GGTTTAGGGGATAAGGGTTGT
1 GGTTTAGGGGATAAGGGTTGT
45119766 GGTTTAGGGGATAAGGGTTGT
1 GGTTTAGGGGATAAGGGTTGT
45119787 GGTTTAGGG
1 GGTTTAGGG
45119796 TCTAGGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (21 bp):
GGTTTAGGGGATAAGGGTTGT
Found at i:45121659 original size:22 final size:22
Alignment explanation
Indices: 45121632--45121678 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
45121622 GTCTTTCTAC
45121632 TTAGGTTTAATCAGTATAAAAT
1 TTAGGTTTAATCAGTATAAAAT
*
45121654 TTAGGTTTAATCAGTATTAAAT
1 TTAGGTTTAATCAGTATAAAAT
45121676 TTA
1 TTA
45121679 AGAAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (22 bp):
TTAGGTTTAATCAGTATAAAAT
Found at i:45122810 original size:19 final size:19
Alignment explanation
Indices: 45122788--45122825 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
45122778 ATTAGTAAGA
45122788 AATTTTTAAATTACATAAC
1 AATTTTTAAATTACATAAC
*
45122807 AATTTTTAAATTATATAAC
1 AATTTTTAAATTACATAAC
45122826 TTACATAACT
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:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTTTTAAATTACATAAC
Found at i:45122920 original size:25 final size:25
Alignment explanation
Indices: 45122892--45122942 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
45122882 TTTTTTTTCA
45122892 AAATTTATCAATCATAGCATAACTT
1 AAATTTATCAATCATAGCATAACTT
*
45122917 AAATTTATCAATCATATCATAACTT
1 AAATTTATCAATCATAGCATAACTT
45122942 A
1 A
45122943 TATATAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATTTATCAATCATAGCATAACTT
Found at i:45123035 original size:19 final size:19
Alignment explanation
Indices: 45123011--45123054 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
45123001 TATAAACTTG
45123011 CATAACAATTTTTAAATTA
1 CATAACAATTTTTAAATTA
45123030 CATAACAATTTTTAAATTA
1 CATAACAATTTTTAAATTA
*
45123049 TATAAC
1 CATAAC
45123055 TTACATAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (19 bp):
CATAACAATTTTTAAATTA
Found at i:45123110 original size:17 final size:18
Alignment explanation
Indices: 45123090--45123123 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45123080 ACATTTTTAA
45123090 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
45123107 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
45123124 TTATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Found at i:45123148 original size:25 final size:25
Alignment explanation
Indices: 45123120--45123170 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
45123110 ATTTTTTTCA
45123120 AAATTTATCAATCATAGCATAACTT
1 AAATTTATCAATCATAGCATAACTT
*
45123145 AAATTTATCAATCATATCATAACTT
1 AAATTTATCAATCATAGCATAACTT
45123170 A
1 A
45123171 TATATAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATTTATCAATCATAGCATAACTT
Found at i:45123211 original size:228 final size:229
Alignment explanation
Indices: 45122788--45123293 Score: 935
Period size: 228 Copynumber: 2.2 Consensus size: 229
45122778 ATTAGTAAGA
*
45122788 AATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTTTATAC
1 AATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATATAC
45122853 ATTTTTAATATATATTTTTAAAATCTATATTTTTTTTCAAAATTTATCAATCATAGCATAACTTA
66 ATTTTTAATATATATTTTTAAAATCTATATTTTTTTTCAAAATTTATCAATCATAGCATAACTTA
*
45122918 AATTTATCAATCATATCATAACTTATATATAAACTTACCTAATACATGCATATCTTAAATAACAT
131 AATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAACAT
*
45122983 ACAATACATAAACATGCATATAAACTTGCATAAC
196 ACAATACATAAACATACATATAAACTTGCATAAC
45123017 AATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATATAC
1 AATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATATAC
45123082 ATTTTTAATATATATTTTTAAAATCTATA-TTTTTTTCAAAATTTATCAATCATAGCATAACTTA
66 ATTTTTAATATATATTTTTAAAATCTATATTTTTTTTCAAAATTTATCAATCATAGCATAACTTA
45123146 AATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAACAT
131 AATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAACAT
*
45123211 ACAATACATAAACTTACATATAAACTTGCATAAC
196 ACAATACATAAACATACATATAAACTTGCATAAC
* * *
45123245 -AGTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATACCTTA
1 AATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTA
45123294 CATAAATTAA
Statistics
Matches: 270, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
227 46 0.17
228 131 0.49
229 93 0.34
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.41
Consensus pattern (229 bp):
AATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATATAC
ATTTTTAATATATATTTTTAAAATCTATATTTTTTTTCAAAATTTATCAATCATAGCATAACTTA
AATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAACAT
ACAATACATAAACATACATATAAACTTGCATAAC
Found at i:45123295 original size:9 final size:9
Alignment explanation
Indices: 45123277--45123894 Score: 522
Period size: 9 Copynumber: 68.2 Consensus size: 9
45123267 TTTAAAGTAT
45123277 ATAACTTAC
1 ATAACTTAC
*
45123286 ATACCTTAC
1 ATAACTTAC
* *
45123295 ATAAATTAA
1 ATAACTTAC
*
45123304 ATAATTTAC
1 ATAACTTAC
45123313 ATAACTTAC
1 ATAACTTAC
*
45123322 ATAACTTAA
1 ATAACTTAC
45123331 ATAACTTAC
1 ATAACTTAC
45123340 ATAA--TAC
1 ATAACTTAC
*
45123347 ATAACCTAC
1 ATAACTTAC
*
45123356 ATAACTTAA
1 ATAACTTAC
* *
45123365 ATTATTTAC
1 ATAACTTAC
45123374 ATAA--TAC
1 ATAACTTAC
45123381 ATAACTTAGTAC
1 ATAAC-T--TAC
*
45123393 ATAATTTAC
1 ATAACTTAC
45123402 ATAA--TAC
1 ATAACTTAC
45123409 ATAACTTAGTAC
1 ATAAC-T--TAC
45123421 ATAACTTAC
1 ATAACTTAC
** *
45123430 ATTATTTTTTC
1 A-TA-ACTTAC
45123441 -TAAATTGCTTAC
1 AT-AA---CTTAC
* *
45123453 ATAAATTAA
1 ATAACTTAC
45123462 ATAACTTAC
1 ATAACTTAC
45123471 ATAACTTAC
1 ATAACTTAC
* *
45123480 ATAAATTAA
1 ATAACTTAC
45123489 ATAACTTAC
1 ATAACTTAC
45123498 ATAACTTAC
1 ATAACTTAC
45123507 ATAACTTAC
1 ATAACTTAC
45123516 ATAACTTAC
1 ATAACTTAC
45123525 ATAACTTAC
1 ATAACTTAC
* *
45123534 ATAAATTAA
1 ATAACTTAC
45123543 ATAACTTAC
1 ATAACTTAC
*
45123552 ATAAATTAC
1 ATAACTTAC
45123561 AT-A---AC
1 ATAACTTAC
45123566 ATAACTTAC
1 ATAACTTAC
45123575 ATAACTTAC
1 ATAACTTAC
45123584 ATAA--TAC
1 ATAACTTAC
*
45123591 ATAACCTAC
1 ATAACTTAC
* *
45123600 CTAACTTAA
1 ATAACTTAC
* *
45123609 ATTATTTAC
1 ATAACTTAC
45123618 ATAA--TAC
1 ATAACTTAC
45123625 ATAACTTAGTAC
1 ATAAC-T--TAC
*
45123637 ATAATTTAC
1 ATAACTTAC
45123646 ATAA--TAC
1 ATAACTTAC
45123653 ATAACTTAGTAC
1 ATAAC-T--TAC
45123665 ATAACTTAC
1 ATAACTTAC
** *
45123674 ATTATTTTTTC
1 A-TA-ACTTAC
45123685 -TAAATTGCTTAC
1 AT-AA---CTTAC
* *
45123697 ATAAATTAA
1 ATAACTTAC
45123706 ATAACTTAC
1 ATAACTTAC
45123715 ATAACTTAC
1 ATAACTTAC
45123724 ATAACTTAC
1 ATAACTTAC
45123733 ATAACTTAC
1 ATAACTTAC
45123742 ATAACTTAC
1 ATAACTTAC
45123751 ATAACTTAC
1 ATAACTTAC
45123760 ATAACTTAC
1 ATAACTTAC
*
45123769 ATATCTTAC
1 ATAACTTAC
45123778 ATAACTTAC
1 ATAACTTAC
*
45123787 ATATCTTAC
1 ATAACTTAC
45123796 ATAACTTAC
1 ATAACTTAC
* *
45123805 ATAAATTAA
1 ATAACTTAC
45123814 ATAACTTAC
1 ATAACTTAC
*
45123823 ATTACTTAC
1 ATAACTTAC
*
45123832 ATAAATTAC
1 ATAACTTAC
45123841 ATAACTTAC
1 ATAACTTAC
45123850 ATAACTTAC
1 ATAACTTAC
45123859 ATAACTTAC
1 ATAACTTAC
45123868 ATAA--TAC
1 ATAACTTAC
45123875 ATAACCTT-C
1 ATAA-CTTAC
*
45123884 CTAACTTAC
1 ATAACTTAC
45123893 AT
1 AT
45123895 TATTGTCTAA
Statistics
Matches: 495, Mismatches: 68, Indels: 92
0.76 0.10 0.14
Matches are distributed among these distances:
5 4 0.01
6 1 0.00
7 49 0.10
8 4 0.01
9 378 0.76
10 7 0.01
11 10 0.02
12 40 0.08
13 2 0.00
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:45123573 original size:23 final size:23
Alignment explanation
Indices: 45123523--45123587 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
45123513 TACATAACTT
45123523 ACATAACTTACATAAA-T---TA
1 ACATAACTTACATAAATTACATA
45123542 A-ATAACTTACATAAATTACATA
1 ACATAACTTACATAAATTACATA
*
45123564 ACATAACTTACATAACTTACATA
1 ACATAACTTACATAAATTACATA
45123587 A
1 A
45123588 TACATAACCT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
18 14 0.35
19 2 0.05
22 3 0.08
23 21 0.52
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (23 bp):
ACATAACTTACATAAATTACATA
Found at i:45129458 original size:12 final size:12
Alignment explanation
Indices: 45129438--45129477 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
45129428 AGCAGATGCC
45129438 GCAGCGAGAGAA
1 GCAGCGAGAGAA
* *
45129450 GCAGTGAGAAAA
1 GCAGCGAGAGAA
*
45129462 GCAGCGATAGAA
1 GCAGCGAGAGAA
45129474 GCAG
1 GCAG
45129478 AGGTTCAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.38, T:0.05
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:45129956 original size:42 final size:43
Alignment explanation
Indices: 45129884--45129976 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 43
45129874 TCAAACCAGT
* * * *
45129884 GGCGTTTGTGAAACAAGTGCCGTTAAAGAACACTACTTTTAGC
1 GGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
* *
45129927 GGCGTTTTTG-AACAAGCGCCGCTATAGAACATTACTTTTAGA
1 GGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
45129969 GGCGTTTT
1 GGCGTTTT
45129977 CTTCCAAAGC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 35 0.80
43 9 0.20
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
GGCGTTTTTGAAACAAGCGCCGCTAAAGAACACTACTTTTAGA
Found at i:45130044 original size:42 final size:42
Alignment explanation
Indices: 45129921--45130147 Score: 251
Period size: 42 Copynumber: 5.4 Consensus size: 42
45129911 GAACACTACT
** * *
45129921 TTTAGCGGCGTTTTTGAAC-AAGCGCCGCTATAGAACATTA-C
1 TTTAGCGGCGTTTTT-TCCTAAGCGCCGCTAAAGAACATGATC
* * *
45129962 TTTTAGAGGCGTTTTCTTCCAAAGCGCTGCTAAAGAACATGATC
1 -TTTAGCGGCGTTTT-TTCCTAAGCGCCGCTAAAGAACATGATC
* * *
45130006 TTTAGCGACGTTTTTTCCTAAGCACCGCTAAAGAACATGACC
1 TTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATC
* * *
45130048 TTTTGCGGCGTTTTTTTCTAAGTGCCGCTAAAGAACATGATC
1 TTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATC
* ** *
45130090 TTTTGAAGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATT
1 TTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATC
*
45130132 TTTAGCGGTGTTTTTT
1 TTTAGCGGCGTTTTTT
45130148 TTCTGTAAGC
Statistics
Matches: 155, Mismatches: 27, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
42 123 0.79
43 31 0.20
44 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGATC
Found at i:45131038 original size:15 final size:16
Alignment explanation
Indices: 45130998--45131039 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
45130988 GAATTTTGAC
45130998 GATTCAAATAATATTA
1 GATTCAAATAATATTA
*
45131014 GATATCCAAAT-ATATTG
1 GAT-T-CAAATAATATTA
45131031 GATTCAAAT
1 GATTCAAAT
45131040 TCACTAACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 5 0.22
16 4 0.17
17 9 0.39
18 5 0.22
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (16 bp):
GATTCAAATAATATTA
Found at i:45133154 original size:83 final size:83
Alignment explanation
Indices: 45133058--45133215 Score: 244
Period size: 83 Copynumber: 1.9 Consensus size: 83
45133048 TTTTATTTTT
* * * *
45133058 AGGGGGCTAAAGTGTAATTTTATTATATATTAATTTATAATTTTATATTTATAAGAAGACTGAAT
1 AGGGGGCTAAAGTGTAATTTCACTATATATTAATTTATAATTTTATATTTATAAGAAGACTAAAA
*
45133123 TGACAATTTTTCTTTTGG
66 TGAAAATTTTTCTTTTGG
* * *
45133141 AGGGGGTTAAAGTGTAATTTCACTATATATTAATTTATAATTTTCTATTTATAAGAGGACTAAAA
1 AGGGGGCTAAAGTGTAATTTCACTATATATTAATTTATAATTTTATATTTATAAGAAGACTAAAA
45133206 TGAAAATTTT
66 TGAAAATTTT
45133216 CATTTTTAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 67 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (83 bp):
AGGGGGCTAAAGTGTAATTTCACTATATATTAATTTATAATTTTATATTTATAAGAAGACTAAAA
TGAAAATTTTTCTTTTGG
Found at i:45140054 original size:50 final size:50
Alignment explanation
Indices: 45139991--45140273 Score: 327
Period size: 50 Copynumber: 5.7 Consensus size: 50
45139981 CATTTGGGTA
* *
45139991 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCATCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *
45140041 AAGAGGTCTCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
**
45140091 AAGAGGTCCCATGTAAGACCATGTCTGCAACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * *
45140141 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * * *
45140191 GAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTATAA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGAT
* **
45140240 AAAACATCCCATGTAAGACCATGTCTGGGACATG
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATG
45140274 ACTTTGACAT
Statistics
Matches: 200, Mismatches: 32, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
49 31 0.16
50 169 0.85
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:45142909 original size:13 final size:13
Alignment explanation
Indices: 45142883--45143006 Score: 57
Period size: 12 Copynumber: 9.7 Consensus size: 13
45142873 GATTAAAAAG
*
45142883 TTGATGGAAA-AC
1 TTGATGAAAAGAC
45142895 TTGATGAAAAGAC
1 TTGATGAAAAGAC
*
45142908 TTGATGAACAG-C
1 TTGATGAAAAGAC
45142920 TT-A--AAAAGAAC
1 TTGATGAAAAG-AC
**
45142931 TTGATGCGAA-AC
1 TTGATGAAAAGAC
* * *
45142943 TTAATAAAAAAAC
1 TTGATGAAAAGAC
*
45142956 TTGGTAATTAAAA-AC
1 TT-G--ATGAAAAGAC
45142971 TTGAT-AAAAGAAC
1 TTGATGAAAAG-AC
45142984 TTGATGAAAAGCAC
1 TTGATGAAAAG-AC
*
45142998 TTGAAGAAA
1 TTGATGAAA
45143007 GAAAACACTT
Statistics
Matches: 86, Mismatches: 13, Indels: 24
0.70 0.11 0.20
Matches are distributed among these distances:
9 4 0.05
11 8 0.09
12 23 0.27
13 23 0.27
14 18 0.21
15 4 0.05
16 6 0.07
ACGTcount: A:0.48, C:0.10, G:0.18, T:0.24
Consensus pattern (13 bp):
TTGATGAAAAGAC
Found at i:45142993 original size:25 final size:25
Alignment explanation
Indices: 45142883--45142993 Score: 93
Period size: 25 Copynumber: 4.4 Consensus size: 25
45142873 GATTAAAAAG
*
45142883 TTGATGGAAAACTTGATGAAAAG-AC
1 TTGATGAAAAACTTGAT-AAAAGAAC
* *
45142908 TTGATGAACAGCTT-A-AAAAGAAC
1 TTGATGAAAAACTTGATAAAAGAAC
** * *
45142931 TTGATGCGAAACTTAATAAAAAAAC
1 TTGATGAAAAACTTGATAAAAGAAC
*
45142956 TTGGTAATTAAAAACTTGATAAAAGAAC
1 TT-G--ATGAAAAACTTGATAAAAGAAC
45142984 TTGATGAAAA
1 TTGATGAAAA
45142994 GCACTTGAAG
Statistics
Matches: 66, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
22 5 0.08
23 12 0.18
24 2 0.03
25 26 0.39
26 1 0.02
27 1 0.02
28 19 0.29
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.25
Consensus pattern (25 bp):
TTGATGAAAAACTTGATAAAAGAAC
Found at i:45142999 original size:14 final size:14
Alignment explanation
Indices: 45142892--45143006 Score: 54
Period size: 13 Copynumber: 8.9 Consensus size: 14
45142882 GTTGATGGAA
45142892 AACTTGATGAAAAG
1 AACTTGATGAAAAG
*
45142906 -ACTTGATGAACAG
1 AACTTGATGAAAAG
45142919 --CTT-A--AAAAG
1 AACTTGATGAAAAG
**
45142928 AACTTGATG-CGA-
1 AACTTGATGAAAAG
* *
45142940 AACTTAAT-AAAAA
1 AACTTGATGAAAAG
* *
45142953 AACTTGGT-AATTAAA
1 AACTTGATGAA--AAG
45142968 AACTTGAT-AAAAG
1 AACTTGATGAAAAG
45142981 AACTTGATGAAAAG
1 AACTTGATGAAAAG
* *
45142995 CACTTGAAGAAA
1 AACTTGATGAAA
45143007 GAAAACACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
9 4 0.05
11 4 0.05
12 12 0.15
13 31 0.40
14 15 0.19
15 12 0.15
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (14 bp):
AACTTGATGAAAAG
Found at i:45143106 original size:30 final size:25
Alignment explanation
Indices: 45143043--45143093 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
45143033 GCAAACTTGA
45143043 TGATTAAATGCTAAAATTACATATT
1 TGATTAAATGCTAAAATTACATATT
45143068 TGATTAAATGCTAAAATTACATATT
1 TGATTAAATGCTAAAATTACATATT
45143093 T
1 T
45143094 TATGTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (25 bp):
TGATTAAATGCTAAAATTACATATT
Found at i:45143475 original size:14 final size:14
Alignment explanation
Indices: 45143453--45143496 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
45143443 AAGTGTTTTC
*
45143453 TTTCTTCAAGTGTT
1 TTTCATCAAGTGTT
*
45143467 TTTCATCAAGTTTTT
1 TTTCATCAAG-TGTT
*
45143482 TTTAATCAAGTGTT
1 TTTCATCAAGTGTT
45143496 T
1 T
45143497 AATTACCAAG
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:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (14 bp):
TTTCATCAAGTGTT
Found at i:45143489 original size:15 final size:15
Alignment explanation
Indices: 45143465--45143515 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
45143455 TCTTCAAGTG
*
45143465 TTTTTCATCAAGTTT
1 TTTTTAATCAAGTTT
45143480 TTTTTAATCAAGTGTT
1 TTTTTAATCAAGT-TT
** *
45143496 TAATT-ACCAAGTTT
1 TTTTTAATCAAGTTT
45143510 TTTTTA
1 TTTTTA
45143516 TTAAGTTTCG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 5 0.18
15 18 0.64
16 5 0.18
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.57
Consensus pattern (15 bp):
TTTTTAATCAAGTTT
Found at i:45143523 original size:14 final size:14
Alignment explanation
Indices: 45143458--45143523 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
45143448 TTTTCTTTCT
* *
45143458 TCAAGTGTTTTTCA
1 TCAAGTTTTTTTTA
45143472 TCAAGTTTTTTTTAA
1 TCAAGTTTTTTTT-A
**
45143487 TCAAGTGTTTAATTA
1 TCAAGT-TTTTTTTA
*
45143502 CCAAGTTTTTTTTA
1 TCAAGTTTTTTTTA
*
45143516 TTAAGTTT
1 TCAAGTTT
45143524 CGCATCAAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
14 23 0.56
15 13 0.32
16 5 0.12
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.55
Consensus pattern (14 bp):
TCAAGTTTTTTTTA
Found at i:45143562 original size:13 final size:13
Alignment explanation
Indices: 45143544--45143579 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
45143534 TCGTTTTAAG
45143544 CTTTTCATCAAGT
1 CTTTTCATCAAGT
45143557 CTTTTCATCAAGT
1 CTTTTCATCAAGT
*
45143570 -TTTCCATCAA
1 CTTTTCATCAA
45143580 CTTTTTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (13 bp):
CTTTTCATCAAGT
Found at i:45143585 original size:24 final size:24
Alignment explanation
Indices: 45143545--45143590 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
45143535 CGTTTTAAGC
* *
45143545 TTTTCATCAAGTCTTTTCATCAAG
1 TTTTCATCAACTCTTTTAATCAAG
45143569 TTTTCCATCAACT-TTTTAATCA
1 TTTT-CATCAACTCTTTTAATCA
45143591 TTAACTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.26, C:0.22, G:0.04, T:0.48
Consensus pattern (24 bp):
TTTTCATCAACTCTTTTAATCAAG
Found at i:45147525 original size:6 final size:6
Alignment explanation
Indices: 45147514--45147599 Score: 77
Period size: 6 Copynumber: 14.3 Consensus size: 6
45147504 ATCTACCTAC
* * *
45147514 AAAATA AAAATA AAAATA AAAATA TATATA TAAAAT- -AAATA TAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA -AAAATA AAAATA AAAATA
* * **
45147561 TATATA AAAATTA AAGTTA AAAATA AAAATA AAAATA AA
1 AAAATA AAAA-TA AAAATA AAAATA AAAATA AAAATA AA
45147600 TTAAAATTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
4 4 0.06
6 54 0.83
7 7 0.11
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (6 bp):
AAAATA
Found at i:45147550 original size:25 final size:24
Alignment explanation
Indices: 45147517--45147599 Score: 89
Period size: 25 Copynumber: 3.5 Consensus size: 24
45147507 TACCTACAAA
45147517 ATAAAAATAAAAATAAAAATATAT
1 ATAAAAATAAAAATAAAAATATAT
*
45147541 ATATAAAAT--AAATATAAATATAT
1 ATA-AAAATAAAAATAAAAATATAT
** * *
45147564 ATAAAAATTAAAGTTAAAAATAAAA
1 ATAAAAA-TAAAAATAAAAATATAT
45147589 ATAAAAATAAA
1 ATAAAAATAAA
45147600 TTAAAATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
22 4 0.08
23 17 0.35
24 7 0.14
25 21 0.43
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (24 bp):
ATAAAAATAAAAATAAAAATATAT
Found at i:45147559 original size:23 final size:22
Alignment explanation
Indices: 45147517--45147606 Score: 90
Period size: 23 Copynumber: 3.8 Consensus size: 22
45147507 TACCTACAAA
45147517 ATAAAAATAAAAATAAAAATATAT
1 ATAAAAAT--AAATAAAAATATAT
*
45147541 ATATAAAATAAATATAAATATAT
1 ATA-AAAATAAATAAAAATATAT
* *
45147564 ATAAAAATTAAAGTTAAAAATAAAA
1 ATAAAAA-TAAA--TAAAAATATAT
*
45147589 ATAAAAATAAATTAAAAT
1 ATAAAAATAAATAAAAAT
45147607 TAAAATGTGT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
22 10 0.18
23 20 0.35
24 7 0.12
25 20 0.35
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (22 bp):
ATAAAAATAAATAAAAATATAT
Found at i:45147581 original size:29 final size:29
Alignment explanation
Indices: 45147514--45147611 Score: 103
Period size: 29 Copynumber: 3.3 Consensus size: 29
45147504 ATCTACCTAC
45147514 AAAA-TAAAAATAAAAATAAAAATATATATAT
1 AAAATTAAAAATAAAAATAAAAATA-A-AT-T
* * *
45147545 AAAA-TAAATATAAATATATATAA-AAATT
1 AAAATTAAAAATAAAAATA-AAAATAAATT
*
45147573 AAAGTTAAAAATAAAAATAAAAATAAATT
1 AAAATTAAAAATAAAAATAAAAATAAATT
45147602 AAAATTAAAA
1 AAAATTAAAA
45147612 TGTGTATTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
28 7 0.12
29 28 0.50
30 1 0.02
31 17 0.30
32 3 0.05
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (29 bp):
AAAATTAAAAATAAAAATAAAAATAAATT
Found at i:45147612 original size:12 final size:12
Alignment explanation
Indices: 45147514--45147612 Score: 58
Period size: 12 Copynumber: 7.8 Consensus size: 12
45147504 ATCTACCTAC
*
45147514 AAAATAAAAATA
1 AAAATAAAATTA
45147526 AAAATAAAAATATA
1 AAAAT-AAAAT-TA
* *
45147540 TATATAAAA-TA
1 AAAATAAAATTA
*
45147551 AATATAAATATATATA
1 AAAAT-AA-A-AT-TA
*
45147567 AAAATTAAAGTTA
1 AAAA-TAAAATTA
*
45147580 AAAATAAAAATA
1 AAAATAAAATTA
45147592 AAAAT-AAATTA
1 AAAATAAAATTA
*
45147603 AAATTAAAAT
1 AAAATAAAAT
45147613 GTGTATTTCT
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
11 15 0.22
12 22 0.32
13 15 0.22
14 7 0.10
15 1 0.01
16 7 0.10
17 1 0.01
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (12 bp):
AAAATAAAATTA
Found at i:45154463 original size:11 final size:11
Alignment explanation
Indices: 45154447--45154485 Score: 60
Period size: 11 Copynumber: 3.4 Consensus size: 11
45154437 TTAATGATTA
45154447 AAAACTTGATG
1 AAAACTTGATG
45154458 AAAACTTGATG
1 AAAACTTGATG
45154469 AAAAGACTTGATG
1 -AAA-ACTTGATG
45154482 AAAA
1 AAAA
45154486 GCTGAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 12 0.46
12 6 0.23
13 8 0.31
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.23
Consensus pattern (11 bp):
AAAACTTGATG
Found at i:45154479 original size:13 final size:12
Alignment explanation
Indices: 45154441--45154562 Score: 79
Period size: 12 Copynumber: 9.9 Consensus size: 12
45154431 AAAAACTTAA
*
45154441 TGATTAAAAACT
1 TGATGAAAAACT
45154453 TGATG-AAAACT
1 TGATGAAAAACT
45154464 TGATGAAAAGACT
1 TGATGAAAA-ACT
*
45154477 TGATGAAAAGC-
1 TGATGAAAAACT
*
45154488 TGA-AAAAGAACT
1 TGATGAAA-AACT
**
45154500 TGATGTGAAACT
1 TGATGAAAAACT
* *
45154512 TAATAAAAAACT
1 TGATGAAAAACT
*
45154524 TGGTAATTAAAAACT
1 T-G--ATGAAAAACT
*
45154539 TGATAAAAGAACT
1 TGATGAAA-AACT
*
45154552 TTATGAAAAAC
1 TGATGAAAAAC
45154563 ACTTGAAGAA
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
10 3 0.04
11 16 0.19
12 32 0.38
13 23 0.27
14 1 0.01
15 10 0.12
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:45157779 original size:18 final size:18
Alignment explanation
Indices: 45157758--45157893 Score: 73
Period size: 17 Copynumber: 7.4 Consensus size: 18
45157748 AACACGAATT
45157758 TTTTTTAAAACACGAGAA
1 TTTTTTAAAACACGAGAA
* * *
45157776 --TTTTGAAACACAATAA
1 TTTTTTAAAACACGAGAA
*
45157792 TTTTTTTAAAAAAATACG-GAA
1 -TTTTTT---AAAACACGAGAA
* *
45157813 ATTTTTGAAACACGAGAA
1 TTTTTTAAAACACGAGAA
*
45157831 TTTTTTGAAACACGA-AA
1 TTTTTTAAAACACGAGAA
** * *
45157848 AGTTTTGAAATACGAGAA
1 TTTTTTAAAACACGAGAA
*
45157866 TTTTTTTTGAAAACACGAAAA
1 --TTTTTT-AAAACACGAGAA
45157887 TTTTTTA
1 TTTTTTA
45157894 TAAATTACAT
Statistics
Matches: 88, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
16 13 0.15
17 20 0.23
18 20 0.23
19 10 0.11
20 9 0.10
21 11 0.12
22 5 0.06
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (18 bp):
TTTTTTAAAACACGAGAA
Found at i:45157834 original size:17 final size:17
Alignment explanation
Indices: 45157812--45157870 Score: 82
Period size: 17 Copynumber: 3.4 Consensus size: 17
45157802 AAAATACGGA
45157812 AATTTTTGAAACACGAG
1 AATTTTTGAAACACGAG
*
45157829 AATTTTTTGAAACACGAA
1 AA-TTTTTGAAACACGAG
* *
45157847 AAGTTTTGAAATACGAG
1 AATTTTTGAAACACGAG
45157864 AATTTTT
1 AATTTTT
45157871 TTTGAAAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
17 20 0.56
18 16 0.44
ACGTcount: A:0.41, C:0.08, G:0.15, T:0.36
Consensus pattern (17 bp):
AATTTTTGAAACACGAG
Found at i:45157863 original size:35 final size:37
Alignment explanation
Indices: 45157744--45157891 Score: 144
Period size: 38 Copynumber: 4.1 Consensus size: 37
45157734 CGTGATCCGA
* *
45157744 TTGAAACAC--GAATTTTTTTTAAAACACGAGAA-TT
1 TTGAAACACGAGAATTTTTTTGAAAACACGAAAAGTT
* * * * * *
45157778 TTGAAACACAATAATTTTTTTAAAAAAATACGGAAATTT
1 TTGAAACACGAGAATTTTTTT--GAAAACACGAAAAGTT
45157817 TTGAAACACGAGAA-TTTTTTG-AAACACGAAAAGTT
1 TTGAAACACGAGAATTTTTTTGAAAACACGAAAAGTT
* *
45157852 TTGAAATACGAGAATTTTTTTTGAAAACACGAAAATTT
1 TTGAAACACGAGAA-TTTTTTTGAAAACACGAAAAGTT
45157890 TT
1 TT
45157892 TATAAATTAC
Statistics
Matches: 93, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
34 9 0.10
35 24 0.26
36 9 0.10
37 7 0.08
38 30 0.32
39 14 0.15
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.35
Consensus pattern (37 bp):
TTGAAACACGAGAATTTTTTTGAAAACACGAAAAGTT
Found at i:45157888 original size:73 final size:73
Alignment explanation
Indices: 45157744--45157891 Score: 174
Period size: 73 Copynumber: 2.0 Consensus size: 73
45157734 CGTGATCCGA
* * * *
45157744 TTGAAACACGAATTTTTTTTAAAACACGAGAATTTTGAAACACAATAATTTTTTTAAAAAAATAC
1 TTGAAACACGAATATTTTTTAAAACACGAAAATTTTGAAACACAAGAATTTTTTTAAAAAAACAC
*
45157809 GGAAATTT
66 GAAAATTT
* * * **
45157817 TTGAAACACGAGA-ATTTTTTGAAACACGAAAAGTTTTGAAATACGAGAATTTTTTT-TGAAAAC
1 TTGAAACACGA-ATATTTTTTAAAACACGAAAA-TTTTGAAACACAAGAATTTTTTTAAAAAAAC
45157880 ACGAAAATTT
64 ACGAAAATTT
45157890 TT
1 TT
45157892 TATAAATTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
73 42 0.67
74 21 0.33
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.35
Consensus pattern (73 bp):
TTGAAACACGAATATTTTTTAAAACACGAAAATTTTGAAACACAAGAATTTTTTTAAAAAAACAC
GAAAATTT
Found at i:45158595 original size:7 final size:7
Alignment explanation
Indices: 45158585--45158625 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
45158575 ACTATTTTCA
45158585 ATTTTTT
1 ATTTTTT
45158592 A-TTTTT
1 ATTTTTT
45158598 A-TTTTT
1 ATTTTTT
45158604 ATTTTTTT
1 A-TTTTTT
*
45158612 CTTTTTT
1 ATTTTTT
45158619 ATTTTTT
1 ATTTTTT
45158626 TCTTTCTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 12 0.40
7 13 0.43
8 5 0.17
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:45158602 original size:20 final size:21
Alignment explanation
Indices: 45158577--45158623 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
45158567 GTAGACCCAC
45158577 TATTTTCAATTTTTT-ATTTT
1 TATTTTCAATTTTTTCATTTT
* * *
45158597 TATTTTTATTTTTTTCTTTTT
1 TATTTTCAATTTTTTCATTTT
45158618 TATTTT
1 TATTTT
45158624 TTTCTTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (21 bp):
TATTTTCAATTTTTTCATTTT
Found at i:45158611 original size:15 final size:15
Alignment explanation
Indices: 45158599--45158630 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
45158589 TTTATTTTTA
45158599 TTTTTATTTTTTTCT
1 TTTTTATTTTTTTCT
45158614 TTTTTATTTTTTTCT
1 TTTTTATTTTTTTCT
45158629 TT
1 TT
45158631 CTTCTTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTATTTTTTTCT
Found at i:45158635 original size:3 final size:3
Alignment explanation
Indices: 45158629--45158672 Score: 61
Period size: 3 Copynumber: 14.0 Consensus size: 3
45158619 ATTTTTTTCT
*
45158629 TTC TTC TTC TTC TTC TTC TTC TTT TTC TTTC TTTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC -TTC TTC TTC TTC
45158673 AAAACCCTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 31 0.82
4 7 0.18
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:45159093 original size:58 final size:56
Alignment explanation
Indices: 45159019--45159182 Score: 161
Period size: 58 Copynumber: 2.8 Consensus size: 56
45159009 CAAAAATTCT
* *
45159019 GGGGACAAAATATAATTTGAGAAAATTTAAGGGTCCAAATGTAATTTTA-AAAAGTTGA
1 GGGGTCAAAATGTAATTT-A-AAAATTTAAGGGTCCAAATGTAATTTTAGAAAA-TTGA
* * * *
45159077 TGGGTCAAAATGTAATTTAAAAAAATTAAGGGT-CAAAGTATAATTTTAGGAAAATTTA
1 GGGGTCAAAATGTAATTT-AAAAATTTAAGGGTCCAAA-TGTAATTTTA-GAAAATTGA
* * *
45159135 GGGGTCAAAATGAAATTTCAAAAAGTTTAGGGGTCAAAATGTAATTTT
1 GGGGTCAAAATGTAATTT-AAAAA-TTTAAGGGTCCAAATGTAATTTT
45159183 TTTATTTTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
56 4 0.05
57 21 0.24
58 40 0.46
59 19 0.22
60 3 0.03
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (56 bp):
GGGGTCAAAATGTAATTTAAAAATTTAAGGGTCCAAATGTAATTTTAGAAAATTGA
Found at i:45159095 original size:28 final size:29
Alignment explanation
Indices: 45159019--45159181 Score: 143
Period size: 29 Copynumber: 5.6 Consensus size: 29
45159009 CAAAAATTCT
* * *
45159019 GGGGACAAAATATAATTTGAGAAAA-TTTA
1 GGGGTCAAAATGTAATTT-AAAAAAGTTTA
* * * *
45159048 AGGGTCCAAATGTAATTTTAAAAAGTTGA
1 GGGGTCAAAATGTAATTTAAAAAAGTTTA
* *
45159077 TGGGTCAAAATGTAATTTAAAAAA-ATTA
1 GGGGTCAAAATGTAATTTAAAAAAGTTTA
* * * *
45159105 AGGGTCAAAGTATAATTTTAGGAAAA-TTTA
1 GGGGTCAAAATGTAA-TTTA-AAAAAGTTTA
* *
45159135 GGGGTCAAAATGAAATTTCAAAAAGTTTA
1 GGGGTCAAAATGTAATTTAAAAAAGTTTA
45159164 GGGGTCAAAATGTAATTT
1 GGGGTCAAAATGTAATTT
45159182 TTTTATTTTT
Statistics
Matches: 106, Mismatches: 24, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
28 22 0.21
29 66 0.62
30 18 0.17
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (29 bp):
GGGGTCAAAATGTAATTTAAAAAAGTTTA
Found at i:45160084 original size:231 final size:226
Alignment explanation
Indices: 45159343--45161879 Score: 2602
Period size: 231 Copynumber: 11.1 Consensus size: 226
45159333 TTTTCTATTA
* * * * * * * *
45159343 AAAAATAGAAA-T-AAAAAATAGCTCGGCATGCGACCCAAAGCTCAACTCACCTCTCGGATTATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTG-TACCCGAGGCTCAACTCACCTCTCGCAATATG
* * * * * * *
45159406 AATTGATCTTTGAAAAAACAAAAATTGAA-AAACACCTC-GGTGTGTGGCCCAAGGCTCAACTCA
65 AGTTGATTTTTG-AAAAACAGAAATTTAAGAAATACCTCAGCTGTGT---CCGAGGCTCAACTCA
* * * * * * *
45159469 CTTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTAAAGATACATCGGCGTGTGACCTGAG
126 CCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAATACCTCAGC-TGTGACCCGAG
** * *
45159534 GCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGG
190 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTG
** *
45159570 AAAAACAGAAATTTAAAAGAAATACCTCGGAATGTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGT-ACCCGAGGCTCAACTCACCTCTCGCAATA
*
45159635 TGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCCGAGGCTCAACTC
63 TGAGTTGATTTTTGAAAAACAGAAATTT--AAGAAATACCTCAGC-TGTGTCCGAGGCTCAACTC
* ** * * *
45159700 ACCTCTCGTAATATGAGTTGATTTAAAAAAAATAGAAATTGAAAATACCTCAGC-GTGACCGGAG
125 ACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAATACCTCAGCTGTGACCCGAG
45159764 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTTTTG
190 GCTCAACTCACCTCTCGCATTATGAGTTGA----TTTTTTG
* ** * ** *
45159805 AGAAACAGAAATTTAAAAGAAATACCTTAGCATGTGTCCGAGGCTCAACTCACTTCTCGCAATAT
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATAT
* * * *
45159870 GAGTTGA-TTTTAAAAAATAGAAATTT-A-AAATACATCAGC-GTGACCCGAGGCTCAACTCACC
64 GAGTTGATTTTTGAAAAACAGAAATTTAAGAAATACCTCAGCTGTG-TCCGAGGCTCAACTCACC
* * * *
45159931 TCTCGCATTATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAAAAATACCTCGGCGTGTGACC
128 TCTCGCAATATGAGTTGA--TTTTTAAAAAACAGAAATT----AAAAATACCTCAGC-TGTGACC
*
45159996 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG
186 CGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTG
* * **
45160036 AAAAACAGAAATTTAAAAGAAATACCTTGGCATGTTTCCGAGGCTCAACTCACCTCTCGCAATAT
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATAT
* ** * * *
45160101 GAGTTGA-TATAAAAAAACAGAAA-TTGA-AAATACCTCAGC-GTGACCCAAGGCTCAACTCACC
64 GAGTTGATTTTTGAAAAACAGAAATTTAAGAAATACCTCAGCTGTG-TCCGAGGCTCAACTCACC
* * * * *
45160162 ACTCGCATTATGATTTGAATTTTTTGAAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCG
128 TCTCGCAATATGAGTTG-A-TTTTTAAAAAACAGAAATT--AAAAATACCTCAGC-TGTGACCCG
*
45160227 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
188 AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTG
* * ** *
45160266 AAAAACAGAAATTTAAAAGAAATACCTCAGCATGTGTCCGAGGCTCAACTCACCTCTCGTAATAT
1 AAAAACAGAAA-TTAAAA-AAATACCTCGGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATAT
** * * *
45160331 GAGTTGATTTTAAAAAAAATAGAAA-TTGA-AAATACCTCAGC-GTGACCCGAGGCTCAACTCAC
64 GAGTTGATTTT-TGAAAAACAGAAATTTAAGAAATACCTCAGCTGTG-TCCGAGGCTCAACTCAC
* *
45160393 CTCTCGCATTATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAATACCTCAGCATGTGACCCG
127 CTCTCGCAATATGAGTTGA--TTTTTAAAAAACAGAAATT-AAAAATACCTCAGC-TGTGACCCG
* *
45160458 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTAG
188 AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTG
* * ** *
45160496 -AAAATAGAAATT--GAAAATACCTTAGCGTG-ACCCGAGGCTCAACTCACCTCTCGCATTATGA
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATATGA
* * ** *
45160557 GTTGATTTTTTTTTGAAAAATAGAAATTTAAAAGAAATACATTGGCATGTGTCCGAGGCTGAACT
66 GTTGA----TTTTTGAAAAACAGAAATTT--AAGAAATACCTCAGC-TGTGTCCGAGGCTCAACT
* * *
45160622 CACCTCTTGCAATATGAGTTGATTTAATAAAAAACAGAAATTTAAAATACCTCAG-TGTGACCCG
124 CACCTCTCGCAATATGAGTTGATTT-TTAAAAAACAGAAATTAAAAATACCTCAGCTGTGACCCG
*
45160686 AGGCTCAACTCACATCTCGCATTATGAGTTGATTTTTTTG
188 AGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTG
* *
45160726 -AAAATAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGAAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGT-ACCCGAGGCTCAACTCACCTCTCGCAATATG
* * *
45160790 AGTTGATTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCGGCATGTGTCTGAGGCTCAACTCA
65 AGTTGA-TTTTTGAAAAACAGAAATTT--AAGAAATACCTCAGC-TGTGTCCGAGGCTCAACTCA
* * * * * *
45160855 CCTCTCGTAATATGAGTTGATTTTAAAAAAACAGAAATTGAAAATACCTTAGC-GTGAACCAAGG
126 CCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAATACCTCAGCTGTGACCCGAGG
45160919 CTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTG
191 CTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTG
*
45160956 AAAAACAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATAT
1 AAAAACAGAAATT-AAAAAAATACCTCGGCGTGT-ACCCGAGGCTCAACTCACCTCTCGCAATAT
* * *
45161021 GAGTTGATTTTTTAAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGTCTGAGGCTCAACTCA
64 GAGTTGATTTTTGAAAAACAGAAATTT--AAGAAATACCTCAGC-TGTGTCCGAGGCTCAACTCA
* * ** *
45161086 CATCTCGCAATATGAGTTGGTTTAAAAAAAACCAGAAATTGAAAATACCTCAGC-GTGACCCGAG
126 CCTCTCGCAATATGAGTTGATTTTTAAAAAA-CAGAAATTAAAAATACCTCAGCTGTGACCCGAG
* *
45161150 GCTCAACTTACCTATCGCATTATGAGTTGATTTTTTTG
190 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTG
* * *
45161188 AAAAACAGAAA-TCAAAAAATACATCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGT-ACCCGAGGCTCAACTCACCTCTCGCAATATG
* *
45161252 AGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCT---C-G-G--C-A---T---GT---G
65 AGTTGATTTTTGAAAAACAGAAATTT--AAGAAATACCTCAGCTGTGTCCGAGGCTCAACTCACC
* * * *
45161300 TCTCGCAATATGAGTTGA-TTTAAAAAAATAGAAATTGAAAATACATCAGC-GTGACCCGAGGCT
128 TCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAATACCTCAGCTGTGACCCGAGGCT
* *
45161363 AAACTCACCTATCGCATTATGAGTTGATTTTTTTG
193 CAACTCACCTCTCGCATTATGAGTTGA-TTTTTTG
* * *
45161398 AAAAATAGAAATTAAAAAAATACCTCGGCGTGGGACTCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGT-GTACCCGAGGCTCAACTCACCTCTCGCAATATG
* * *
45161463 AGTTGATTTTTGAAAAATAGAAATTTAAAAGAAATACCTCGGTATGTGTCCGAGGCTCAACTCAC
65 AGTTGATTTTTGAAAAACAGAAATTT--AAGAAATACCTCAG-CTGTGTCCGAGGCTCAACTCAC
*
45161528 CTCTCGCAATATGAGTTGA-TTTTAAAAAACAGAAATTGAAAATACCTCAGC-GTGACCCGAGGC
127 CTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAATACCTCAGCTGTGACCCGAGGC
*
45161591 TCAACTCACCTCTCACATTATGAGTTGATTTTTTTG
192 TCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTG
45161627 AAAAACAGAAA-TAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGAAATTAAAAAAATACCTCGGCGTGT-ACCCGAGGCTCAACTCACCTCTCGCAATATG
* * *
45161691 AGTTGATTTATTTTAAAAAACAGAAATTAAAAAAATACCTCAGCCTGTGTCCGAGGCTCAACTCA
65 AGTTGA--T-TTTTGAAAAACAGAAATTTAAGAAATACCTCAG-CTGTGTCCGAGGCTCAACTCA
* ** * * * * *
45161756 CCTCTCACAATATGAGTCAATTTTTGAAAAACAGGAATTTAAAAAATACATCGGTATGTGACCCG
126 CCTCTCGCAATATGAGTTGATTTTTAAAAAACA-GAAATT-AAAAATACCTCAG-CTGTGACCCG
* * *
45161821 AGGCTCAACTCACCTCTCGCAATATGTGTTGA-TTTTCG
188 AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTG
*
45161859 AAAAAAACAGAAATTGAAAAA
1 --AAAAACAGAAATTAAAAAA
45161880 TATTTCTTGA
Statistics
Matches: 2040, Mismatches: 187, Indels: 158
0.86 0.08 0.07
Matches are distributed among these distances:
210 76 0.04
211 93 0.05
212 18 0.01
215 1 0.00
216 1 0.00
217 1 0.00
218 1 0.00
219 1 0.00
220 1 0.00
221 1 0.00
223 1 0.00
224 34 0.02
225 14 0.01
226 2 0.00
227 26 0.01
228 135 0.07
229 229 0.11
230 350 0.17
231 476 0.23
232 337 0.17
233 28 0.01
234 129 0.06
235 47 0.02
236 38 0.02
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (226 bp):
AAAAACAGAAATTAAAAAAATACCTCGGCGTGTACCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAACAGAAATTTAAGAAATACCTCAGCTGTGTCCGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTAAAAAACAGAAATTAAAAATACCTCAGCTGTGACCCGAGGCTCAA
CTCACCTCTCGCATTATGAGTTGATTTTTTG
Found at i:45160568 original size:152 final size:149
Alignment explanation
Indices: 45159343--45161281 Score: 1913
Period size: 152 Copynumber: 12.6 Consensus size: 149
45159333 TTTTCTATTA
* * * * * * *
45159343 AAAAATAGAAA-TAAAAAATAGCTCGGCATGCGACCCAAAGCTCAACTCACCTCTCGGATTATGA
1 AAAAACAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
* * * * * * * * *
45159407 ATTGATCTTTGAAAAAACAAAAATTGAAAAACACCTCGGTGTGTGGCCCAAGGCTCAACTCACTT
66 GTTGAT-TTT-AGAAAACAGAAATT-AAAAATACCTC--AGCGTGACCCGAGGCTCAACTCACCT
*
45159472 CTCGCATTATGAGTTGA-TTTTTG
126 CTCGCAATATGAGTTGATTTTTTG
* * * * **
45159495 AAAAACAGAAATT-AAAGATACATCGGCGTGTGACCTGAGGCTCAACTCATTTCTCGCAATATGA
1 AAAAACAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
* ** *
45159559 GTTGATTTTGGAAAAACAGAAATTTAAAAGAAATACCTCGGAATGTGACCTGAGGCTCAACTCAC
66 GTTGATTTTAG-AAAACAGAAA-TT--AA-AAATACCTC--AGCGTGACCCGAGGCTCAACTCAC
45159624 CTCTCGCAATATGAGTTGA-TTTTTG
124 CTCTCGCAATATGAGTTGATTTTTTG
* *
45159649 AAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGTAATA
1 AAAAACAGAAA-TT-AAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* * * * *
45159713 TGAGTTGATTTAAAAAAAATAGAAATTGAAAATACCTCAGCGTGACCGGAGGCTCAACTCACCTC
63 TGAGTTGATTT-TAGAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTC
*
45159778 TCGCATTATGAGTTGATTTTTTTTTTG
127 TCGCAATATGAGTTGA----TTTTTTG
* ** * *
45159805 AGAAACAGAAATTTAAAAGAAATACCTTAGCATGTG-TCCGAGGCTCAACTCACTTCTCGCAATA
1 AAAAACAGAAA-TT-AAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* * * *
45159869 TGAGTTGATTTTAAAAAATAGAAATTTAAAATACATCAGCGTGACCCGAGGCTCAACTCACCTCT
63 TGAGTTGATTTTAGAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCT
*
45159934 CGCATTATGAGTTGATTTTTTTG
128 CGCAATATGAGTTGA-TTTTTTG
* *
45159957 AAAAATAGAAATTAAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
1 AAAAACAGAAATT---AAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* ** * **
45160022 TGAGTTGATTTTTGAAAAACAGAAATTTAAAAGAAATACCTTGGCATGTTTCCGAGGCTCAACTC
63 TGAGTTGATTTTAG-AAAACAGAAA-TT--AA-AAATACCTCAGCGTG-ACCCGAGGCTCAACTC
* **
45160087 ACCTCTCGCAATATGAGTTGA--TATAA
122 ACCTCTCGCAATATGAGTTGATTTTTTG
* * * * *
45160113 AAAAACAGAAATT-GAAAATACCTCAGC--GTGACCCAAGGCTCAACTCACCACTCGCATTATGA
1 AAAAACAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
* * *
45160175 TTTGAATTTTTTGAAAAACAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCAC
66 GTTG-A-TTTTAG-AAAACAGAAATT--AAAAATACCTCAGC--GTGACCCGAGGCTCAACTCAC
45160240 CTCTCGCAATATGAGTTGATTTTTTG
124 CTCTCGCAATATGAGTTGATTTTTTG
* * *
45160266 AAAAACAGAAATTTAAAAGAAATACCTCAGCATGTG-TCCGAGGCTCAACTCACCTCTCGTAATA
1 AAAAACAGAAA-TT-AAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* * *
45160330 TGAGTTGATTTTAAAAAAAATAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCT
63 TGAGTTGATTTT--AGAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCT
*
45160395 CTCGCATTATGAGTTGATTTTTTTG
126 CTCGCAATATGAGTTGA-TTTTTTG
*
45160420 AAAAACAGAAATTAAAAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
* * *
45160485 GTTGATTTTAGAAAATAGAAATTGAAAATACCTTAGCGTGACCCGAGGCTCAACTCACCTCTCGC
66 GTTGATTTTAGAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGC
*
45160550 ATTATGAGTTGATTTTTTTTTG
131 AATATGAGTTGA---TTTTTTG
* * * * * *
45160572 AAAAATAGAAATTTAAAAGAAATACATTGGCATGTG-TCCGAGGCTGAACTCACCTCTTGCAATA
1 AAAAACAGAAA-TT-AAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* * * *
45160636 TGAGTTGATTTAATAAAAAACAGAAATTTAAAATACCTCAGTGTGACCCGAGGCTCAACTCACAT
63 TGAGTTGATTT--TAGAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCT
*
45160701 CTCGCATTATGAGTTGATTTTTTTG
126 CTCGCAATATGAGTTGA-TTTTTTG
* * *
45160726 -AAAATAGAAATTAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGAAATATG
1 AAAAACAGAAATT-AAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
* * * * *
45160790 AGTTGATTTTTTGAAAAATAGAAATTTAAAAGAAATACCTCGGCATGTG-TCTGAGGCTCAACTC
65 AGTTGA-TTTTAG-AAAACAGAAA-TT--AA-AAATACCTCAGC--GTGACCCGAGGCTCAACTC
* **
45160854 ACCTCTCGTAATATGAGTTGA-TTTTAA
122 ACCTCTCGCAATATGAGTTGATTTTTTG
* ** * * *
45160881 AAAAACAGAAATT-GAAAATACCTTAGC--GTGAACCAAGGCTCAACTCACCTCTCGCATTATGA
1 AAAAACAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
* *
45160943 GTTGATTTTTTTGAAAAACAGAAATTAAAAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCA
66 GTTGA--TTTTAG-AAAACAGAAATT---AAAAATACCTCAGC--GTGACCCGAGGCTCAACTCA
*
45161008 CCTCTCGTAATATGAGTTGATTTTTT-
123 CCTCTCGCAATATGAGTTGATTTTTTG
* * *
45161034 AAAAACAGAAATTTAAAAGAAATACCTCGGCATGTG-TCTGAGGCTCAACTCACATCTCGCAATA
1 AAAAACAGAAA-TT-AAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* * * * *
45161098 TGAGTTGGTTTAAAAAAAACCAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTTACCT
63 TGAGTTGATTT-TAGAAAA-CAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCT
* *
45161163 ATCGCATTATGAGTTGATTTTTTTG
126 CTCGCAATATGAGTTGA-TTTTTTG
* * * *
45161188 AAAAACAGAAATCAAAAAATACATCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
* *
45161253 GTTGATTTTTGAAAAACAGAAATTTAAAA
66 GTTGATTTTAG-AAAACAGAAATTAAAAA
45161282 GAAATACCTC
Statistics
Matches: 1534, Mismatches: 180, Indels: 147
0.82 0.10 0.08
Matches are distributed among these distances:
150 112 0.07
151 153 0.10
152 356 0.23
153 198 0.13
154 180 0.12
155 100 0.07
156 189 0.12
157 119 0.08
158 87 0.06
159 40 0.03
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (149 bp):
AAAAACAGAAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTAGAAAACAGAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTTG
Found at i:45161529 original size:78 final size:77
Alignment explanation
Indices: 45161300--45161879 Score: 646
Period size: 79 Copynumber: 7.6 Consensus size: 77
45161290 TCGGCATGTG
** * * * *
45161300 TCTCGCAATATGAGTTGA-TTTAAAAAAATAGAAATT--GAAAATACATCAGC--GTGACCCGAG
1 TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAG
*
45161360 GCTAAACTCACC
66 GCTCAACTCACC
* * * * * *
45161372 TATCGCATTATGAGTTGATTTTTTTGAAAAATAGAAATTAAAAAAATACCTCGGCGTGGGACTCG
1 TCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCG
45161437 AGGCTCAACTCACC
64 AGGCTCAACTCACC
* * *
45161451 TCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTTAAAAGAAATACCTCGGTATGTG-TCCG
1 TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTAAAA-AAATACCTCGGCATGTGACCCG
45161515 AGGCTCAACTCACC
64 AGGCTCAACTCACC
* * *
45161529 TCTCGCAATATGAGTTGA-TTTTAAAAAACAGAAATT--GAAAATACCTCAGC--GTGACCCGAG
1 TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAG
45161589 GCTCAACTCACC
66 GCTCAACTCACC
* * *
45161601 TCTCACATTATGAGTTGATTTTTTTGAAAAACAGAAA-TAAAAAAATACCTCGGCGTGTGACCCG
1 TCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCG
45161665 AGGCTCAACTCACC
64 AGGCTCAACTCACC
* * * *
45161679 TCTCGCAATATGAGTTGATTTATTTTAAAAAACAGAAATTAAAAAAATACCTCAGCCTGTG-TCC
1 TCTCGCAATATGAGTTGA--T-TTTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCC
45161743 GAGGCTCAACTCACC
63 GAGGCTCAACTCACC
* ** * * * *
45161758 TCTCACAATATGAGTCAATTTTTGAAAAACAGGAATTTAAAAAATACATCGGTATGTGACCCGAG
1 TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAG
45161823 GCTCAACTCACC
66 GCTCAACTCACC
* * *
45161835 TCTCGCAATATGTGTTGATTTTCGAAAAAAACAGAAATTGAAAAA
1 TCTCGCAATATGAGTTGATTTTTG--AAAAACAGAAATTAAAAAA
45161880 TATTTCTTGA
Statistics
Matches: 434, Mismatches: 52, Indels: 37
0.83 0.10 0.07
Matches are distributed among these distances:
71 3 0.01
72 49 0.11
73 10 0.02
74 2 0.00
75 31 0.07
76 46 0.11
77 79 0.18
78 81 0.19
79 113 0.26
80 20 0.05
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (77 bp):
TCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAATACCTCGGCATGTGACCCGAG
GCTCAACTCACC
Found at i:45162755 original size:17 final size:16
Alignment explanation
Indices: 45162735--45162784 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 16
45162725 GTTTTCATCT
45162735 TTTTTTTCTTTTTTTTG
1 TTTTTTT-TTTTTTTTG
45162752 TTTTTTGTTTTTTTTTG
1 TTTTTT-TTTTTTTTTG
45162769 TTTTTTTGTTTTTTTT
1 TTTTTTT-TTTTTTTT
45162785 TTAATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.03
17 29 0.94
18 1 0.03
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (16 bp):
TTTTTTTTTTTTTTTG
Found at i:45162762 original size:25 final size:24
Alignment explanation
Indices: 45162736--45162786 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
45162726 TTTTCATCTT
*
45162736 TTTTTTCT-TTTTTTTGTTTTTTGT
1 TTTTTTTTGTTTTTTTGTTTTTT-T
45162760 TTTTTTTTGTTTTTTTGTTTTTTT
1 TTTTTTTTGTTTTTTTGTTTTTTT
45162784 TTT
1 TTT
45162787 AATTTTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (24 bp):
TTTTTTTTGTTTTTTTGTTTTTTT
Found at i:45162792 original size:25 final size:25
Alignment explanation
Indices: 45162744--45162792 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
45162734 TTTTTTTTCT
*
45162744 TTTTTTTGTTTTTTGTTTTTTTTTG
1 TTTTTTTGTTTTTTGTTTTATTTTG
45162769 TTTTTTTGTTTTTT-TTTTAATTTT
1 TTTTTTTGTTTTTTGTTTT-ATTTT
45162793 TAGGCATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (25 bp):
TTTTTTTGTTTTTTGTTTTATTTTG
Found at i:45162793 original size:1 final size:1
Alignment explanation
Indices: 45162734--45162786 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
45162724 AGTTTTCATC
* * * * *
45162734 TTTTTTTTCTTTTTTTTGTTTTTTGTTTTTTTTTGTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
45162787 AATTTTTAGG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.91
Consensus pattern (1 bp):
T
Found at i:45162793 original size:18 final size:17
Alignment explanation
Indices: 45162734--45162785 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 17
45162724 AGTTTTCATC
45162734 TTTTTTTTCTTTTTTTTG
1 TTTTTTTT-TTTTTTTTG
*
45162752 TTTTTTGTTTTTTTTTG
1 TTTTTTTTTTTTTTTTG
45162769 TTTTTTTGTTTTTTTTT
1 TTTTTTT-TTTTTTTTT
45162786 TAATTTTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 15 0.48
18 16 0.52
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTTG
Found at i:45168992 original size:18 final size:18
Alignment explanation
Indices: 45168864--45168992 Score: 122
Period size: 17 Copynumber: 7.1 Consensus size: 18
45168854 CGTGATCCGA
45168864 TTGAAACACGAGAAATTTTT
1 TTGAAACACGAG-AA-TTTT
*
45168884 TTAAAACACGAGAA--TT
1 TTGAAACACGAGAATTTT
* *
45168900 TTGAAACACAATAAATTTTTT
1 TTGAAACACGA-GAA--TTTT
* *
45168921 TTAAAACACG-GAAATTT
1 TTGAAACACGAGAATTTT
45168938 TTGAAACACGAGAATTTT
1 TTGAAACACGAGAATTTT
* *
45168956 TTGAAACAC-AAAAATTT
1 TTGAAACACGAGAATTTT
45168973 TTGAAACACGAGAATTTT
1 TTGAAACACGAGAATTTT
45168991 TT
1 TT
45168993 TTGAAAACAC
Statistics
Matches: 88, Mismatches: 14, Indels: 16
0.75 0.12 0.14
Matches are distributed among these distances:
16 11 0.12
17 29 0.33
18 23 0.26
19 4 0.05
20 11 0.12
21 10 0.11
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (18 bp):
TTGAAACACGAGAATTTT
Done.