Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 233 of 322
Found at i:77437037 original size:20 final size:21
Alignment explanation
Indices: 77437001--77437044 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
77436991 AATTACAAAT
77437001 AATTTAATAAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
*
77437022 AATTTAA-AACTAAAAATAAA
1 AATTTAATAAATAAAAATAAA
77437042 AAT
1 AAT
77437045 AAAAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:77437050 original size:20 final size:20
Alignment explanation
Indices: 77437012--77437051 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
77437002 ATTTAATAAA
**
77437012 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
77437032 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
77437052 ATATAATTTT
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:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:77437089 original size:9 final size:9
Alignment explanation
Indices: 77437077--77437154 Score: 86
Period size: 9 Copynumber: 8.7 Consensus size: 9
77437067 AATAATTTGT
77437077 TTAATTCGG
1 TTAATTCGG
*
77437086 TTAATTTGG
1 TTAATTCGG
*
77437095 CTAATTCGG
1 TTAATTCGG
*
77437104 GTAATTCGG
1 TTAATTCGG
*
77437113 ATAATTCGAG
1 TTAATTCG-G
*
77437123 -TAATTCGA
1 TTAATTCGG
*
77437131 CTAATTCGG
1 TTAATTCGG
77437140 TTAATTCGG
1 TTAATTCGG
77437149 TTAATT
1 TTAATT
77437155 TTATACTTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
9 58 0.98
10 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.41
Consensus pattern (9 bp):
TTAATTCGG
Found at i:77437636 original size:18 final size:18
Alignment explanation
Indices: 77437613--77437648 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
77437603 AAATTGTTTG
77437613 TGCAGTTCAATTTCCTAA
1 TGCAGTTCAATTTCCTAA
77437631 TGCAGTTCAATTTCCTAA
1 TGCAGTTCAATTTCCTAA
77437649 CGTCTGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (18 bp):
TGCAGTTCAATTTCCTAA
Found at i:77440573 original size:28 final size:28
Alignment explanation
Indices: 77440541--77440632 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 28
77440531 ACAGTGCATG
* *
77440541 CAGTAACAGTCTGGGCCTGAGCCCTATT
1 CAGTAACAGTCTGGGCCTAAGCCCTATA
*
77440569 CAGTACAGTACAGTCTGGGCCTTAGCCCTATA
1 CAGT--A--ACAGTCTGGGCCTAAGCCCTATA
* * *
77440601 CAGTAATAGTGTGGGCCTAAGCCCAATA
1 CAGTAACAGTCTGGGCCTAAGCCCTATA
77440629 CAGT
1 CAGT
77440633 GTAATGCAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
28 27 0.50
30 2 0.04
32 25 0.46
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTAAGCCCTATA
Found at i:77440582 original size:32 final size:33
Alignment explanation
Indices: 77440541--77440605 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
77440531 ACAGTGCATG
*
77440541 CAGTAACAGTCTGGGCCTGAGCCCTATTCAGTA
1 CAGTAACAGTCTGGGCCTGAGCCCTATACAGTA
*
77440574 CAGT-ACAGTCTGGGCCTTAGCCCTATACAGTA
1 CAGTAACAGTCTGGGCCTGAGCCCTATACAGTA
77440606 ATAGTGTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 26 0.87
33 4 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (33 bp):
CAGTAACAGTCTGGGCCTGAGCCCTATACAGTA
Found at i:77440822 original size:27 final size:25
Alignment explanation
Indices: 77440790--77440869 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 25
77440780 AGAAACACTA
*
77440790 AATGTGGCAAAGCCACCAGTATCAGT
1 AATGTGGCATAGCCACCAGTA-CAGT
77440816 AATTGTGGCATAGCCACCAGTAACAGT
1 AA-TGTGGCATAGCCACCAGT-ACAGT
* *
77440843 GAATGTGACATAGTCACCAGTACAGT
1 -AATGTGGCATAGCCACCAGTACAGT
77440869 A
1 A
77440870 CTTCCTCCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 37 0.77
28 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (25 bp):
AATGTGGCATAGCCACCAGTACAGT
Found at i:77441037 original size:27 final size:27
Alignment explanation
Indices: 77441007--77441122 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 27
77440997 GGGTTACTCG
* * *
77441007 TCATTTTTCCATATAGGGGTATCACGA
1 TCATTTTACCCTATAGGGGTATTACGA
*
77441034 TCATTTTACCCTATAGGGGCATTACGA
1 TCATTTTACCCTATAGGGGTATTACGA
* * * *
77441061 TCATTTTACCCTACAAGAGTGTTACGA
1 TCATTTTACCCTATAGGGGTATTACGA
*
77441088 TCATTTTACCCTATAGGGGTATTACGG
1 TCATTTTACCCTATAGGGGTATTACGA
77441115 TCATTTTA
1 TCATTTTA
77441123 GCTATTTTGG
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTACGA
Found at i:77443458 original size:5 final size:5
Alignment explanation
Indices: 77443448--77443479 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
77443438 ATTCATGTGA
77443448 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
77443480 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:77443473 original size:9 final size:9
Alignment explanation
Indices: 77443449--77443479 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
77443439 TTCATGTGAA
77443449 AAATAAAAT
1 AAATAAAAT
77443458 AAAATAAAAT
1 -AAATAAAAT
77443468 AAATAAAAT
1 AAATAAAAT
77443477 AAA
1 AAA
77443480 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:77447910 original size:5 final size:5
Alignment explanation
Indices: 77447900--77447931 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
77447890 CAATTTGTGA
77447900 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
77447932 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:77447925 original size:9 final size:9
Alignment explanation
Indices: 77447901--77447931 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
77447891 AATTTGTGAA
77447901 AAATAAAAT
1 AAATAAAAT
77447910 AAAATAAAAT
1 -AAATAAAAT
77447920 AAATAAAAT
1 AAATAAAAT
77447929 AAA
1 AAA
77447932 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:77452683 original size:5 final size:5
Alignment explanation
Indices: 77452673--77452704 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
77452663 CCGATACCAA
77452673 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
77452705 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:77452698 original size:9 final size:9
Alignment explanation
Indices: 77452674--77452704 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
77452664 CGATACCAAA
77452674 AAATAAAAT
1 AAATAAAAT
77452683 AAAATAAAAT
1 -AAATAAAAT
77452693 AAATAAAAT
1 AAATAAAAT
77452702 AAA
1 AAA
77452705 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:77474366 original size:18 final size:20
Alignment explanation
Indices: 77474324--77474360 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
77474314 ATATTTTATG
*
77474324 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
77474343 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
77474361 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:77476572 original size:46 final size:46
Alignment explanation
Indices: 77476520--77476795 Score: 417
Period size: 46 Copynumber: 6.0 Consensus size: 46
77476510 AGTGTGCTCT
77476520 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
77476566 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
77476612 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
77476658 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** *
77476704 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * *
77476750 GTGACATGAAATGAATAAGACCATGTTTGAAAGATACCTTGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
77476796 ATGACAGAAA
Statistics
Matches: 213, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 213 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:77476796 original size:92 final size:92
Alignment explanation
Indices: 77476535--77476839 Score: 403
Period size: 92 Copynumber: 3.3 Consensus size: 92
77476525 ATGAAATGTG
77476535 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
* * * * ***
77476600 TACCATGGCAGCCTGATATGAAATGTG
66 TACCATGGCAACATGACAGGAAATAAA
77476627 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
*
77476692 TACCATGGCAACATGACGGGAAATAAA
66 TACCATGGCAACATGACAGGAAATAAA
* * * ** *
77476719 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGTTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
* * * *
77476784 TACCTTGGCAACATGACAGAAAATTAG
66 TACCATGGCAACATGACAGGAAATAAA
** * * *
77476811 TAAGACTGTAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
77476840 TCATGTCAAA
Statistics
Matches: 189, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 189 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGGAAATAAA
Found at i:77476814 original size:138 final size:138
Alignment explanation
Indices: 77476525--77476862 Score: 423
Period size: 138 Copynumber: 2.5 Consensus size: 138
77476515 GCTCTCTGAT
* * * ***
77476525 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAGACCAT
* **
77476590 GGTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAGCCTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC
* *
77476655 AACCTGAT
131 AACATGAC
*
77476663 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAGACCAT
* * *
77476728 GGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGTTTGAAAGATACCTTGGC
66 GGTTGAAAGATACCATGGCAGCCTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC
77476793 AACATGAC
131 AACATGAC
** * * * * *
77476801 A-GAAAAT-TAGTAAGACTGTAGTTGAAAGACACTATGGCATCATGTCA--AAGATAAATAAGAC
1 ATG-AAATGT-GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAA-ATAAATAAGAC
77476862 C
63 C
77476863 GTGGATGGGA
Statistics
Matches: 174, Mismatches: 23, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
136 2 0.01
137 14 0.08
138 158 0.91
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (138 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATAAATAAGACCAT
GGTTGAAAGATACCATGGCAGCCTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC
AACATGAC
Found at i:77476839 original size:46 final size:44
Alignment explanation
Indices: 77476545--77476861 Score: 187
Period size: 46 Copynumber: 6.9 Consensus size: 44
77476535 TAAGACCATG
* * ***
77476545 GTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATG-
1 GTTGAAAGATACCATGGCAACATGACA-GAAATAAATAAGA-C-TGT
* * * ***
77476591 GTTGAAAGATACCATGGCAGCCTGATATGAAATGTGTAAGACCATG-
1 GTTGAAAGATACCATGGCAACATGACA-GAAATAAATAAGA-C-TGT
* * ***
77476637 GTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATG-
1 GTTGAAAGATACCATGGCAACATGACA-GAAATAAATAAGA-C-TGT
*
77476683 GTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCATG-
1 GTTGAAAGATACCATGGCAACATGAC-AGAAATAAATAAGA-C-TGT
* * *
77476729 GTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGT
1 GTTGAAAGATACCATGGCAACATGACA-GAAATAAATAAGA-C-TGT
* * *
77476776 -TTGAAAGATACCTTGGCAACATGACAGAAAATTAGTAAGACTGT
1 GTTGAAAGATACCATGGCAACATGACAG-AAATAAATAAGACTGT
* * * *
77476820 AGTTGAAAGACACTATGGCATCATGTCA-AAGATAAATAAGAC
1 -GTTGAAAGATACCATGGCAACATGACAGAA-ATAAATAAGAC
77476862 CGTGGATGGG
Statistics
Matches: 240, Mismatches: 24, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
44 5 0.02
45 11 0.05
46 224 0.93
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (44 bp):
GTTGAAAGATACCATGGCAACATGACAGAAATAAATAAGACTGT
Found at i:77486925 original size:40 final size:41
Alignment explanation
Indices: 77486881--77486986 Score: 128
Period size: 40 Copynumber: 2.6 Consensus size: 41
77486871 GCTACTCATT
* * *
77486881 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
* * *
77486921 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCA
77486962 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
77486987 CATCATTCAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 3 0.05
40 42 0.75
41 11 0.20
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTAGCA
Found at i:77487333 original size:29 final size:29
Alignment explanation
Indices: 77487294--77487372 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
77487284 CTTAATAATC
*
77487294 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
77487324 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
77487353 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
77487373 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:77487415 original size:43 final size:43
Alignment explanation
Indices: 77487354--77487499 Score: 292
Period size: 43 Copynumber: 3.4 Consensus size: 43
77487344 TGCATTTCAA
77487354 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
77487397 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
77487440 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
77487483 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
77487500 TGAAAACCAA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:77490679 original size:25 final size:25
Alignment explanation
Indices: 77490645--77490697 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
77490635 GTCAGCAACA
77490645 AATGTAAGATCTCATTTTATAAGGC
1 AATGTAAGATCTCATTTTATAAGGC
77490670 AATGTAAGATCTCATTTTATAAGGC
1 AATGTAAGATCTCATTTTATAAGGC
77490695 AAT
1 AAT
77490698 CACATTTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (25 bp):
AATGTAAGATCTCATTTTATAAGGC
Found at i:77495134 original size:43 final size:43
Alignment explanation
Indices: 77495071--77495152 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
77495061 CGACACGGCA
* *
77495071 ATGTGTCCACAATTCGAATATACACACAGTTTGGCACACAGCC
1 ATGTGTCCAAAATTCAAATATACACACAGTTTGGCACACAGCC
*
77495114 ATGTGTCCAAAATTCAAATATACACACGGTTTGGCACAC
1 ATGTGTCCAAAATTCAAATATACACACAGTTTGGCACAC
77495153 TTTGGCACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGTGTCCAAAATTCAAATATACACACAGTTTGGCACACAGCC
Found at i:77495222 original size:43 final size:43
Alignment explanation
Indices: 77495153--77495235 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
77495143 TTTGGCACAC
* * *
77495153 TTTGGCACACGGTCGTGTGGCTCTATTTCGAATATACACATGG
1 TTTGACACACGGTCGTGTGGCCCTATTTCAAATATACACATGG
*
77495196 TTTGACACACGGTCGTGTGGCCCTATTTCAAATATTCACA
1 TTTGACACACGGTCGTGTGGCCCTATTTCAAATATACACA
77495236 CGAGCAGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.33
Consensus pattern (43 bp):
TTTGACACACGGTCGTGTGGCCCTATTTCAAATATACACATGG
Found at i:77495246 original size:43 final size:43
Alignment explanation
Indices: 77495158--77495250 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
77495148 CACACTTTGG
* * * **
77495158 CACACGGTCGTGTGGCTCTATTTCGAATATACACATGGTTTGA
1 CACACGGTCGTGTGGCCCTATTTCAAATATACACACGGTCAGA
*
77495201 CACACGGTCGTGTGGCCCTATTTCAAATATTCACACGAG-CAGA
1 CACACGGTCGTGTGGCCCTATTTCAAATATACACACG-GTCAGA
77495244 CACACGG
1 CACACGG
77495251 GCTGAGACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 42 0.98
44 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (43 bp):
CACACGGTCGTGTGGCCCTATTTCAAATATACACACGGTCAGA
Found at i:77498108 original size:4 final size:4
Alignment explanation
Indices: 77498099--77498139 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
77498089 TCAATTATTC
77498099 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
77498140 GAGTTACTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:77499082 original size:44 final size:44
Alignment explanation
Indices: 77499034--77499123 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
77499024 AATAAAATAG
* *
77499034 AATAGAAGTTGTTATAATTATACATTTAAAAATGATTAAAATTT
1 AATAGAAGTTGTGATAATTATACATTTAAAAATAATTAAAATTT
**
77499078 AATAGATTTTGTGATAATTATACATTTAAAAATAATTAAAATTT
1 AATAGAAGTTGTGATAATTATACATTTAAAAATAATTAAAATTT
77499122 AA
1 AA
77499124 AGTAAAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (44 bp):
AATAGAAGTTGTGATAATTATACATTTAAAAATAATTAAAATTT
Found at i:77499123 original size:17 final size:18
Alignment explanation
Indices: 77499091--77499124 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
77499081 AGATTTTGTG
*
77499091 ATAATTATACATTTAAAA
1 ATAATTATAAATTTAAAA
77499109 ATAATTA-AAATTTAAA
1 ATAATTATAAATTTAAA
77499125 GTAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATTATAAATTTAAAA
Found at i:77502960 original size:19 final size:19
Alignment explanation
Indices: 77502938--77502976 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
77502928 TTTTTAAAAA
77502938 TATAAAT-TTTATAATTTTT
1 TATAAATATTT-TAATTTTT
*
77502957 TATAAATATTTTGATTTTT
1 TATAAATATTTTAATTTTT
77502976 T
1 T
77502977 TTGTGGTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TATAAATATTTTAATTTTT
Found at i:77502975 original size:28 final size:28
Alignment explanation
Indices: 77502891--77502975 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
77502881 TTATATGTTC
* *
77502891 TTTA-AATTTTTTA-GAATTTTTTAATT
1 TTTATAATTTTTTATAAATATTTTAATT
* * * *
77502917 TTTATAATTTTTTTTTAAA-AATATAAAT
1 TTTATAA-TTTTTTATAAATATTTTAATT
*
77502945 TTTATAATTTTTTATAAATATTTTGATT
1 TTTATAATTTTTTATAAATATTTTAATT
77502973 TTT
1 TTT
77502976 TTTGTGGTGA
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
26 4 0.09
27 12 0.27
28 26 0.59
29 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTATAATTTTTTATAAATATTTTAATT
Found at i:77503870 original size:31 final size:31
Alignment explanation
Indices: 77503835--77503894 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
77503825 TGGATGAAAT
77503835 GTAAAACAAATATTTGAATATAATATAAAAA
1 GTAAAACAAATATTTGAATATAATATAAAAA
77503866 GTAAAACAAATATTTGAATATAATATAAA
1 GTAAAACAAATATTTGAATATAATATAAA
77503895 TAAGATATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (31 bp):
GTAAAACAAATATTTGAATATAATATAAAAA
Found at i:77511324 original size:18 final size:18
Alignment explanation
Indices: 77511301--77511338 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
77511291 AGTCTTCTTA
* *
77511301 AAATTATTTATAGAGTAT
1 AAATTAGTTATAGAATAT
77511319 AAATTAGTTATAGAATAT
1 AAATTAGTTATAGAATAT
77511337 AA
1 AA
77511339 TATTGAGGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (18 bp):
AAATTAGTTATAGAATAT
Found at i:77511882 original size:26 final size:27
Alignment explanation
Indices: 77511859--77511909 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
77511849 AAGGTTTTGC
*
77511859 TACGTTCT-TTTTTCTTTTTTTTTTCT
1 TACGTTCTATTTATCTTTTTTTTTTCT
*
77511885 TTCGTTCTATTTATCTTTTTTTTTT
1 TACGTTCTATTTATCTTTTTTTTTT
77511910 TATGTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.06, C:0.14, G:0.04, T:0.76
Consensus pattern (27 bp):
TACGTTCTATTTATCTTTTTTTTTTCT
Found at i:77512897 original size:22 final size:24
Alignment explanation
Indices: 77512872--77512921 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
77512862 TTATGCAAAC
* *
77512872 TATTGTAAA-TTCTT-TTCTTATT
1 TATTGTAAACCTCTTGTTATTATT
77512894 TATTGTAAACCTCTTGTTATTATT
1 TATTGTAAACCTCTTGTTATTATT
77512918 TATT
1 TATT
77512922 TTAAGATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
23 4 0.17
24 11 0.46
ACGTcount: A:0.24, C:0.10, G:0.06, T:0.60
Consensus pattern (24 bp):
TATTGTAAACCTCTTGTTATTATT
Found at i:77513206 original size:22 final size:22
Alignment explanation
Indices: 77513176--77513218 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
77513166 TTTTTTATGT
*
77513176 ATTACTTATTTAAAATTGTTTC
1 ATTACTTATTTAAAATGGTTTC
* *
77513198 ATTATTTATTTTAAATGGTTT
1 ATTACTTATTTAAAATGGTTT
77513219 TATGTTATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (22 bp):
ATTACTTATTTAAAATGGTTTC
Found at i:77518283 original size:30 final size:30
Alignment explanation
Indices: 77518247--77518307 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
77518237 CCTGTTATTA
77518247 GCTTTAATAAGTGAAAGACCATGTGAATTG
1 GCTTTAATAAGTGAAAGACCATGTGAATTG
*
77518277 GCTTTAATAAGTGAAAGATCATGTGAATTG
1 GCTTTAATAAGTGAAAGACCATGTGAATTG
77518307 G
1 G
77518308 ATTATACGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (30 bp):
GCTTTAATAAGTGAAAGACCATGTGAATTG
Found at i:77521054 original size:18 final size:18
Alignment explanation
Indices: 77521028--77521073 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
77521018 CCATGTGGCC
* * *
77521028 TGCCTGTGTGGGCCCATA
1 TGCCCGTGTGGACCCACA
77521046 TGCCCGTGTGGACCCACA
1 TGCCCGTGTGGACCCACA
*
77521064 CGCCCGTGTG
1 TGCCCGTGTG
77521074 ACCAATACGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.35, G:0.33, T:0.22
Consensus pattern (18 bp):
TGCCCGTGTGGACCCACA
Found at i:77536367 original size:11 final size:11
Alignment explanation
Indices: 77536351--77536384 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
77536341 AAGTAATTTC
77536351 AAAATATAAAT
1 AAAATATAAAT
*
77536362 AAAATAAAAAT
1 AAAATATAAAT
77536373 AAAA-ATAAAT
1 AAAATATAAAT
77536383 AA
1 AA
77536385 TAGGTGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATATAAAT
Found at i:77556248 original size:47 final size:47
Alignment explanation
Indices: 77556179--77556404 Score: 418
Period size: 47 Copynumber: 4.8 Consensus size: 47
77556169 NNNNNNNNNN
77556179 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGT
77556226 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGT
*
77556273 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATAT-T
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGT
*
77556319 GGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGTGTATGTGT
1 -GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGT
77556367 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
77556405 CATATATGAG
Statistics
Matches: 173, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
46 1 0.01
47 171 0.99
48 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (47 bp):
GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGT
Found at i:77558177 original size:48 final size:48
Alignment explanation
Indices: 77558097--77558447 Score: 379
Period size: 48 Copynumber: 7.3 Consensus size: 48
77558087 GGGGCATTAC
* * * *
77558097 ACATGGCATCGACATTGATATGA-GAGCTAGTGTAAGACCATGTCTGGG
1 ACATGGCATCGGCCTCGATAT-ATGAGCTAGTGTAAGACCATGTTTGGG
* * * *
77558145 ACATGGCATCGGCCTCGATATATGAGCCAGTGTGAGACCATGATTGGA
1 ACATGGCATCGGCCTCGATATATGAGCTAGTGTAAGACCATGTTTGGG
* * *
77558193 ACATGGCATCGACATTGATATGA-GAGCTAGTGTAAGACCATGTTTGGG
1 ACATGGCATCGGCCTCGATAT-ATGAGCTAGTGTAAGACCATGTTTGGG
* * *
77558241 ACATGGCATCGGCCTCGATATATGAGCCAGTGTAAGACCATGTTTTGA
1 ACATGGCATCGGCCTCGATATATGAGCTAGTGTAAGACCATGTTTGGG
* ** * *
77558289 ACATGGCATCGGCATTTATATGA-GAGCTAGTGTAAGACTATGTCTGGG
1 ACATGGCATCGGCCTCGATAT-ATGAGCTAGTGTAAGACCATGTTTGGG
* * *
77558337 ACATGGCATCGGCCTCGACATGTGA-CGTAGTGTAAGACCATGTTTGGA
1 ACATGGCATCGGCCTCGATATATGAGC-TAGTGTAAGACCATGTTTGGG
* * *
77558385 ACATAGCATCGACAC-CGATATATGAGAGCTAATGTAAGACCATGTTTGGG
1 ACATGGCATCGGC-CTCGATATAT--GAGCTAGTGTAAGACCATGTTTGGG
77558435 ACATGGCATCGGC
1 ACATGGCATCGGC
77558448 ATCTTACCCT
Statistics
Matches: 248, Mismatches: 45, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
47 3 0.01
48 209 0.84
49 3 0.01
50 32 0.13
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
ACATGGCATCGGCCTCGATATATGAGCTAGTGTAAGACCATGTTTGGG
Found at i:77558224 original size:96 final size:96
Alignment explanation
Indices: 77558097--77558447 Score: 533
Period size: 96 Copynumber: 3.6 Consensus size: 96
77558087 GGGGCATTAC
77558097 ACATGGCATCGACATTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG
1 ACATGGCATCGACATTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG
* *
77558162 ATATATGAGCCAGTGTGAGACCATGATTGGA
66 ATATATGAGCCAGTGTAAGACCATGTTTGGA
*
77558193 ACATGGCATCGACATTGATATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCG
1 ACATGGCATCGACATTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG
*
77558258 ATATATGAGCCAGTGTAAGACCATGTTTTGA
66 ATATATGAGCCAGTGTAAGACCATGTTTGGA
* * *
77558289 ACATGGCATCGGCATTTATATGAGAGCTAGTGTAAGACTATGTCTGGGACATGGCATCGGCCTCG
1 ACATGGCATCGACATTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG
* * *
77558354 ACATGTGA-CGTAGTGTAAGACCATGTTTGGA
66 ATATATGAGC-CAGTGTAAGACCATGTTTGGA
* ** * *
77558385 ACATAGCATCGACACCGATATATGAGAGCTAATGTAAGACCATGTTTGGGACATGGCATCGGC
1 ACATGGCATCGACATTG--ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
77558448 ATCTTACCCT
Statistics
Matches: 232, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
95 1 0.00
96 190 0.82
98 41 0.18
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (96 bp):
ACATGGCATCGACATTGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG
ATATATGAGCCAGTGTAAGACCATGTTTGGA
Found at i:77568879 original size:48 final size:48
Alignment explanation
Indices: 77568803--77569131 Score: 373
Period size: 48 Copynumber: 6.8 Consensus size: 48
77568793 ATGCATGACA
* * *
77568803 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGTG
1 AGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCATCGATATGAG
* *
77568851 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGAG-ATCGATATATGAG
1 AGCTAGTGTAAGACCATGTTTGGGACATGGCATC-AGCATCG--ATATGAG
* * *
77568901 AGCTAG-GTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGTG
1 AGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCATCGATATGAG
* * * **
77568948 AGCCAGTGTAAGACCATGTTTGGAACATGGCA-CCGACATTTATATGAG
1 AGCTAGTGTAAGACCATGTTTGGGACATGGCATCAG-CATCGATATGAG
* * * *
77568996 AGCTAGTGTAAGACCATGTTTGGGACAT-GCATCGGCCTCGACATGTG
1 AGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCATCGATATGAG
*
77569043 AGCTAGTGTAAGACCATGTTTGGAACATGGCATCGAG-ATCGATATATGAG
1 AGCTAGTGTAAGACCATGTTTGGGACATGGCATC-AGCATCG--ATATGAG
* *
77569093 AGCTAG-GTAAGACCATGTCTGGGACATGGCATCGGCATC
1 AGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCATC
77569132 TTACACTTTT
Statistics
Matches: 235, Mismatches: 34, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
47 50 0.21
48 104 0.44
49 59 0.25
50 22 0.09
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
AGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCATCGATATGAG
Found at i:77568976 original size:97 final size:98
Alignment explanation
Indices: 77568803--77569125 Score: 548
Period size: 97 Copynumber: 3.3 Consensus size: 98
77568793 ATGCATGACA
77568803 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGTGAGCCAGTGTAAGACCAT
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGTGAGCCAGTGTAAGACCAT
77568868 GTTTGGAACATGGCATCGAGATCGATATATGAG
66 GTTTGGAACATGGCATCGAGATCGATATATGAG
77568901 AGCTAG-GTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGTGAGCCAGTGTAAGACCAT
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGTGAGCCAGTGTAAGACCAT
* * *
77568965 GTTTGGAACATGGCACCGACAT--TTATATGAG
66 GTTTGGAACATGGCATCGAGATCGATATATGAG
* * * *
77568996 AGCTAGTGTAAGACCATGTTTGGGACAT-GCATCGGCCTCGACATGTGAGCTAGTGTAAGACCAT
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGTGAGCCAGTGTAAGACCAT
77569060 GTTTGGAACATGGCATCGAGATCGATATATGAG
66 GTTTGGAACATGGCATCGAGATCGATATATGAG
77569093 AGCTAG-GTAAGACCATGTCTGGGACATGGCATC
1 AGCTAGTGTAAGACCATGTCTGGGACATGGCATC
77569126 GGCATCTTAC
Statistics
Matches: 210, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
95 67 0.32
96 40 0.19
97 97 0.46
98 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (98 bp):
AGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATGTGAGCCAGTGTAAGACCAT
GTTTGGAACATGGCATCGAGATCGATATATGAG
Found at i:77587221 original size:13 final size:14
Alignment explanation
Indices: 77587198--77587232 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
77587188 GATACAAATA
77587198 ACAGAATCAGATAT
1 ACAGAATCAGATAT
*
77587212 GCAGAA-CAGATAT
1 ACAGAATCAGATAT
77587225 ACAGAATC
1 ACAGAATC
77587233 CTAACCCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (14 bp):
ACAGAATCAGATAT
Found at i:77587733 original size:31 final size:31
Alignment explanation
Indices: 77587689--77587758 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
77587679 TTGGCCCAAA
77587689 ACCCACACACTCGTGTGGCCCACAGGGTCAC
1 ACCCACACACTCGTGTGGCCCACAGGGTCAC
**
77587720 ACCCACATGCTCGTGTGGCCCACAGGGTCAC
1 ACCCACACACTCGTGTGGCCCACAGGGTCAC
*
77587751 ACGCACAC
1 ACCCACAC
77587759 CACCACATGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.23, C:0.41, G:0.23, T:0.13
Consensus pattern (31 bp):
ACCCACACACTCGTGTGGCCCACAGGGTCAC
Found at i:77589386 original size:20 final size:20
Alignment explanation
Indices: 77589361--77589398 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
77589351 TTTATTAATC
77589361 AAATGAAAAG-AAAAAACTCA
1 AAATG-AAAGTAAAAAACTCA
77589381 AAATGAAAGTAAAAAACT
1 AAATGAAAGTAAAAAACT
77589399 TTTTATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.68, C:0.08, G:0.11, T:0.13
Consensus pattern (20 bp):
AAATGAAAGTAAAAAACTCA
Found at i:77593181 original size:21 final size:20
Alignment explanation
Indices: 77593142--77593184 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
77593132 TTGAATAAAA
*
77593142 AATATTTATTAATATTATTT
1 AATATATATTAATATTATTT
*
77593162 AATATATATTTATCATTATTT
1 AATATATATTAAT-ATTATTT
77593183 AA
1 AA
77593185 ATTTAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
AATATATATTAATATTATTT
Found at i:77593545 original size:11 final size:11
Alignment explanation
Indices: 77593529--77593561 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
77593519 GAAAATAAAA
77593529 AAATATTTTTT
1 AAATATTTTTT
77593540 AAATATTTTTT
1 AAATATTTTTT
*
77593551 ATA-ATTTTTT
1 AAATATTTTTT
77593561 A
1 A
77593562 TGTACTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
AAATATTTTTT
Found at i:77594527 original size:29 final size:31
Alignment explanation
Indices: 77594459--77594527 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
77594449 TTTGAAAAGT
*
77594459 AGGACTAAAATTGACCAAATTAAGAAGTACA
1 AGGACTAAAATTAACCAAATTAAGAAGTACA
* * *
77594490 TGGACTAAAATTAATCAAA-TAA-AAGTAGA
1 AGGACTAAAATTAACCAAATTAAGAAGTACA
*
77594519 AGGAATAAA
1 AGGACTAAA
77594528 TCCACAAGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 13 0.41
30 3 0.09
31 16 0.50
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (31 bp):
AGGACTAAAATTAACCAAATTAAGAAGTACA
Found at i:77596985 original size:21 final size:21
Alignment explanation
Indices: 77596944--77596985 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
77596934 AAAATTTTAG
* *
77596944 AAATTTCTAAAATATATAAAT
1 AAATTTCAAAAATATAAAAAT
77596965 AAATATTCAAAAATA-AAAAAT
1 AAAT-TTCAAAAATATAAAAAT
77596986 TAGTTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATTTCAAAAATATAAAAAT
Found at i:77597021 original size:28 final size:26
Alignment explanation
Indices: 77596964--77597031 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 26
77596954 AATATATAAA
* *
77596964 TAAATATTCAAAAA-TAAAAAATTAGT
1 TAAAT-TTTAAAAATTAAAAAATTAGG
77596990 TAAATTTCTAGAAAATTAAAAAACTT-GG
1 TAAATTT-TA-AAAATTAAAAAA-TTAGG
77597018 TAAATTTTAAAAAT
1 TAAATTTTAAAAAT
77597032 CTAGAAACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
25 2 0.06
26 11 0.31
27 6 0.17
28 15 0.42
29 2 0.06
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (26 bp):
TAAATTTTAAAAATTAAAAAATTAGG
Found at i:77597093 original size:24 final size:23
Alignment explanation
Indices: 77597064--77597109 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
77597054 AATATAAGCT
77597064 AAAAATAAAAATTTTAAAATTTTA
1 AAAAATAAAAA-TTTAAAATTTTA
*
77597088 AAAAATAAAAATTTAACATTTT
1 AAAAATAAAAATTTAAAATTTT
77597110 GTTTAACTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAAATAAAAATTTAAAATTTTA
Found at i:77612155 original size:7 final size:7
Alignment explanation
Indices: 77612143--77612173 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
77612133 AATGAATTGA
77612143 AAAATGT
1 AAAATGT
77612150 AAAATGT
1 AAAATGT
77612157 AAAATGT
1 AAAATGT
77612164 AAAATGT
1 AAAATGT
77612171 AAA
1 AAA
77612174 TTTTTTTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (7 bp):
AAAATGT
Found at i:77624359 original size:20 final size:21
Alignment explanation
Indices: 77624331--77624369 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
77624321 TAAAAAATTA
77624331 GATTGTTTTCTA-AATTTTAAG
1 GATTGTTTT-TAGAATTTTAAG
77624352 GATT-TTTTTAGAATTTTA
1 GATTGTTTTTAGAATTTTA
77624370 GATATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 11 0.65
21 4 0.24
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (21 bp):
GATTGTTTTTAGAATTTTAAG
Found at i:77624438 original size:20 final size:20
Alignment explanation
Indices: 77624399--77624443 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
77624389 CATTTCTATA
* *
77624399 ATTTAAAAATAATGTTTTTT
1 ATTTAAAAATAATCTCTTTT
77624419 ATTTAAAAATAATCTCTTTT
1 ATTTAAAAATAATCTCTTTT
*
77624439 TTTTA
1 ATTTA
77624444 TATTCTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTAAAAATAATCTCTTTT
Found at i:77628972 original size:25 final size:24
Alignment explanation
Indices: 77628935--77628981 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
77628925 CCAACGAAAG
77628935 TTGACAGCGGGCCGACCAGTGGTGA
1 TTGACAGCGGGCCGA-CAGTGGTGA
*
77628960 TTGACAG-GTGGCCTACAGTGGT
1 TTGACAGCG-GGCCGACAGTGGT
77628982 TGGACAATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.19, C:0.21, G:0.38, T:0.21
Consensus pattern (24 bp):
TTGACAGCGGGCCGACAGTGGTGA
Found at i:77633885 original size:76 final size:76
Alignment explanation
Indices: 77633771--77633953 Score: 233
Period size: 76 Copynumber: 2.4 Consensus size: 76
77633761 GCGCTGGGAT
* * * *
77633771 CAACTCATTATTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCGTCAATTTACCCGACT
1 CAACTCATCATTGGTACATCCAACTAGTGCTCGACACACATATGATATCGTCAATTTACCCGACT
77633836 AGCACTAGGAG
66 AGCACTAGGAG
* * *
77633847 CAACTCATCGTTGGTACATCCAACTAGTGCTCGACACACATATGATATCGTCAGTTTATCCGACT
1 CAACTCATCATTGGTACATCCAACTAGTGCTCGACACACATATGATATCGTCAATTTACCCGACT
* *
77633912 AGCACTGGGCG
66 AGCACTAGGAG
* ** *
77633923 CAAC-CTATTATTGGTTTATCTAACTAGTGCT
1 CAACTC-ATCATTGGTACATCCAACTAGTGCT
77633954 GGGCACAAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
75 1 0.01
76 91 0.99
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (76 bp):
CAACTCATCATTGGTACATCCAACTAGTGCTCGACACACATATGATATCGTCAATTTACCCGACT
AGCACTAGGAG
Found at i:77641218 original size:150 final size:150
Alignment explanation
Indices: 77640963--77641265 Score: 597
Period size: 150 Copynumber: 2.0 Consensus size: 150
77640953 GATATTATAG
77640963 TATATGCATTAATTGTTTTCTGGCTTGAGACATTTATATATATGCACAATGTGAATAATACAAAA
1 TATATGCATTAATTGTTTTCTGGCTTGAGACATTTATATATATGCACAATGTGAATAATACAAAA
77641028 GAATATTAGTTGAATTAATTGATGAATGACCTGAATTGCAACAGTATCTACAAAAGATTTAGAGC
66 GAATATTAGTTGAATTAATTGATGAATGACCTGAATTGCAACAGTATCTACAAAAGATTTAGAGC
77641093 TATGATTTTCTTACTAAATT
131 TATGATTTTCTTACTAAATT
77641113 TATATGCATTAATTGTTTTCTGGCTTGAGACATTTATATATATGCACAATGTGAATAATACAAAA
1 TATATGCATTAATTGTTTTCTGGCTTGAGACATTTATATATATGCACAATGTGAATAATACAAAA
*
77641178 GAATATTTGTTGAATTAATTGATGAATGACCTGAATTGCAACAGTATCTACAAAAGATTTAGAGC
66 GAATATTAGTTGAATTAATTGATGAATGACCTGAATTGCAACAGTATCTACAAAAGATTTAGAGC
77641243 TATGATTTTCTTACTAAATT
131 TATGATTTTCTTACTAAATT
77641263 TAT
1 TAT
77641266 GTTATTTCCA
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 152 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (150 bp):
TATATGCATTAATTGTTTTCTGGCTTGAGACATTTATATATATGCACAATGTGAATAATACAAAA
GAATATTAGTTGAATTAATTGATGAATGACCTGAATTGCAACAGTATCTACAAAAGATTTAGAGC
TATGATTTTCTTACTAAATT
Found at i:77644808 original size:76 final size:76
Alignment explanation
Indices: 77644706--77644916 Score: 226
Period size: 76 Copynumber: 2.8 Consensus size: 76
77644696 AGCATCGGGT
* * *
77644706 GCAACTCATTATTGGTACATCAAACTAGTGTTGGGCACACATTCGATATCATCAGTTTACCCAAC
1 GCAACTCATTATTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCATCAGTTTACCCAAC
77644771 TAGCACTGGAC
66 TAGCACTGGAC
* ** * * * * *
77644782 GCAACTCATTATTGGTACATCCAACTAGTGCAGGGCACATTTTTGATATCGTCGGTGTACTCGAC
1 GCAACTCATTATTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCATCAGTTTACCCAAC
* *
77644847 TAGCTCTGGGC
66 TAGCACTGGAC
* * ** * * *
77644858 ACAACTCATTGTTGGTTTATCCGACTAGTACTAGGCACACATTTGATAT-AGTCAGTTTA
1 GCAACTCATTATTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCA-TCAGTTTA
77644917 TTTGACTAGC
Statistics
Matches: 108, Mismatches: 26, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
76 108 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (76 bp):
GCAACTCATTATTGGTACATCCAACTAGTGCTGGGCACACATTTGATATCATCAGTTTACCCAAC
TAGCACTGGAC
Found at i:77651688 original size:40 final size:40
Alignment explanation
Indices: 77651633--77651912 Score: 497
Period size: 40 Copynumber: 7.0 Consensus size: 40
77651623 TGAGCATTGG
* *
77651633 AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
77651673 AATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
77651713 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
77651753 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
77651793 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
77651833 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTG
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
77651873 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
77651913 NNNNNNNNNN
Statistics
Matches: 232, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 232 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:77665476 original size:21 final size:23
Alignment explanation
Indices: 77665445--77665490 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
77665435 AATACAAACA
*
77665445 AATTACAAACCCATTTACAA-CC
1 AATTACAAACCCAATTACAAGCC
77665467 AATTA-AAACCCAATTACAAGCC
1 AATTACAAACCCAATTACAAGCC
77665489 AA
1 AA
77665491 ATTTTACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.50, C:0.28, G:0.02, T:0.20
Consensus pattern (23 bp):
AATTACAAACCCAATTACAAGCC
Found at i:77666829 original size:23 final size:24
Alignment explanation
Indices: 77666803--77666853 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
77666793 TTCACATTCT
*
77666803 TTTTTATTATT-TTAT-TCTTTTTA
1 TTTTTATT-TTATTATGCCTTTTTA
77666826 -TTTTATTTTATTATGCCTTTTTA
1 TTTTTATTTTATTATGCCTTTTTA
77666849 TTTTT
1 TTTTT
77666854 TTACTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 2 0.08
22 11 0.46
23 7 0.29
24 4 0.17
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTTATTTTATTATGCCTTTTTA
Found at i:77666831 original size:19 final size:18
Alignment explanation
Indices: 77666798--77666837 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
77666788 TCGTTTTCAC
77666798 ATTCTTTTTTATTATTTT
1 ATTCTTTTTTATTATTTT
*
77666816 ATTCTTTTTATTTTATTTT
1 ATTCTTTTT-TATTATTTT
77666835 ATT
1 ATT
77666838 ATGCCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
ATTCTTTTTTATTATTTT
Found at i:77669704 original size:49 final size:49
Alignment explanation
Indices: 77669627--77669811 Score: 320
Period size: 49 Copynumber: 3.8 Consensus size: 49
77669617 NNNNNNNNNN
* *
77669627 GGCCTTATCAC--ATATATACACTTTCACATTTATCACATTGGCCATTC
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTA
*
77669674 GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTA
*
77669723 GGCCCTATCACATATATATACACTTTCACATTCATCACATTGGCCATTA
1 GGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTA
77669772 GGCCTTATCACATATATATACACTTTCACATTCATCACAT
1 GGCCTTATCACATATATATACACTTTCACATTCATCACAT
77669812 AGAATCCTAA
Statistics
Matches: 130, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
47 11 0.08
49 119 0.92
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (49 bp):
GGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTA
Found at i:77671790 original size:13 final size:13
Alignment explanation
Indices: 77671772--77671796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77671762 TACTAAATTT
77671772 TCATGGATTCAAA
1 TCATGGATTCAAA
77671785 TCATGGATTCAA
1 TCATGGATTCAA
77671797 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:77686073 original size:18 final size:18
Alignment explanation
Indices: 77686050--77686086 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
77686040 TAGGGAATAG
77686050 TAAAACTTCCTGGATCTT
1 TAAAACTTCCTGGATCTT
77686068 TAAAACTTCCTGGATCTT
1 TAAAACTTCCTGGATCTT
77686086 T
1 T
77686087 TAGTTTGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (18 bp):
TAAAACTTCCTGGATCTT
Found at i:77692434 original size:45 final size:45
Alignment explanation
Indices: 77692316--77692721 Score: 300
Period size: 45 Copynumber: 8.9 Consensus size: 45
77692306 TAAGCCACCC
* * * * *
77692316 TAGCTAATCTTGTCTCCCTGAAGTTGCATTGGAGCAGATTAAAGC
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * *
77692361 TA-CAAGTCTTATCTCCCTAAAGTCGCAGTGGAGCAGATTGAAGA
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * * * * *
77692405 TAGCAAACCTCATCTCCCTGAAGTTGCAGTAGAGCAGGTGGAAGT
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* *
77692450 TA-CAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGA
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * * * * * * * *
77692494 TGGCAAATCTTGTTTCTCTGACGTTGCAATGGAACGGATTAAAGCTACAAGT
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGA
* * * * * *
77692546 TAAGGCGAATCTTATCTTCCTGAAGTTCCAGTGGAGTAGATTAAAGC
1 T-A-GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * * * *
77692593 TA-CAAGTCTTATCTCCTTGAAGTTACAGTGGAGTAGACT-AAGGA
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GA
* * *
77692637 TAGCAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGA
1 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
* * *
77692682 TAGCAGATCTTAT-TCCCCTGAAGTTGCAGTGAAACAGATT
1 TAGCAAATCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATT
77692722 TAAGCTACAA
Statistics
Matches: 275, Mismatches: 71, Indels: 30
0.73 0.19 0.08
Matches are distributed among these distances:
43 2 0.01
44 106 0.39
45 128 0.47
46 3 0.01
47 4 0.01
48 1 0.00
52 4 0.01
54 27 0.10
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
Found at i:77692543 original size:89 final size:89
Alignment explanation
Indices: 77692316--77692545 Score: 291
Period size: 89 Copynumber: 2.6 Consensus size: 89
77692306 TAAGCCACCC
* * *
77692316 TAGCTAATCTTGTCTCCCTGAAGTTGCATTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCTAA
1 TAGCAAATCTTGTCTCCCTGAAGTTGCAATGGAGCGGATTAAAGCTACAAGTCTTATCTCCCTAA
77692381 AGTCGCAGTGGAGCAGATTGAAGA
66 AGTCGCAGTGGAGCAGATTGAAGA
* ** * * ** *
77692405 TAGCAAACCTCATCTCCCTGAAGTTGCAGTAGAGCAGG-TGGAAGTTACAAGTCTTATCTCCCTA
1 TAGCAAATCTTGTCTCCCTGAAGTTGCAATGGAGC-GGATTAAAGCTACAAGTCTTATCTCCCTA
*
77692469 AAGTTGCAGTGGAGCAGATTGAAGA
65 AAGTCGCAGTGGAGCAGATTGAAGA
* * * * *
77692494 TGGCAAATCTTGTTTCTCTGACGTTGCAATGGAACGGATTAAAGCTACAAGT
1 TAGCAAATCTTGTCTCCCTGAAGTTGCAATGGAGCGGATTAAAGCTACAAGT
77692546 TAAGGCGAAT
Statistics
Matches: 115, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
88 2 0.02
89 112 0.97
90 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (89 bp):
TAGCAAATCTTGTCTCCCTGAAGTTGCAATGGAGCGGATTAAAGCTACAAGTCTTATCTCCCTAA
AGTCGCAGTGGAGCAGATTGAAGA
Found at i:77692856 original size:44 final size:44
Alignment explanation
Indices: 77692808--77692914 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
77692798 AGTTCCAGCA
** *
77692808 GAGTAGATCGAAGCTACAAACCTCTTCTCTTTGAAATTACATTG
1 GAGTAGATCGAAGCTACAAACCTCTTCTCCCTAAAATTACATTG
* * *
77692852 GAGTAGATTGAAGCTACAAATCTTTTCTCCCTAAAATTACATTG
1 GAGTAGATCGAAGCTACAAACCTCTTCTCCCTAAAATTACATTG
* *
77692896 GAATAAATCGAAGCTACAA
1 GAGTAGATCGAAGCTACAA
77692915 GTCTTATCTC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (44 bp):
GAGTAGATCGAAGCTACAAACCTCTTCTCCCTAAAATTACATTG
Found at i:77694493 original size:17 final size:17
Alignment explanation
Indices: 77694469--77694526 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
77694459 TCATTTTCAC
77694469 ATTC-TTTTTATTTATTT
1 ATTCATTTTTATTTA-TT
77694486 ATT-ATTTTCT-TTTATT
1 ATTCATTTT-TATTTATT
*
77694502 ATTCCTTTTTATTT-TT
1 ATTCATTTTTATTTATT
*
77694518 ATTTATTTT
1 ATTCATTTT
77694527 GCATATTTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
16 15 0.44
17 18 0.53
18 1 0.03
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTCATTTTTATTTATT
Found at i:77694647 original size:24 final size:27
Alignment explanation
Indices: 77694606--77694655 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 27
77694596 TTATGTTATT
77694606 ATTATTATCTCCTATATTATCGTTTAC
1 ATTATTATCTCCTATATTATCGTTTAC
*
77694633 ATTATTAT-T-CT-TATTATTGTTTA
1 ATTATTATCTCCTATATTATCGTTTA
77694656 TGCTTGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 2 0.09
26 1 0.05
27 8 0.36
ACGTcount: A:0.26, C:0.12, G:0.04, T:0.58
Consensus pattern (27 bp):
ATTATTATCTCCTATATTATCGTTTAC
Found at i:77704813 original size:15 final size:15
Alignment explanation
Indices: 77704793--77704821 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
77704783 ACAGAAAGAG
77704793 GATCTCACTAAGGGT
1 GATCTCACTAAGGGT
77704808 GATCTCACTAAGGG
1 GATCTCACTAAGGG
77704822 CTTATACTTT
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:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (15 bp):
GATCTCACTAAGGGT
Found at i:77705762 original size:33 final size:33
Alignment explanation
Indices: 77705720--77705782 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
77705710 ACTTTTTAAC
77705720 AAAAATAATTTTTAAGGCATTATAAATTCTAAT
1 AAAAATAATTTTTAAGGCATTATAAATTCTAAT
77705753 AAAAATAATTTTTAAGGCATTATAAATTCT
1 AAAAATAATTTTTAAGGCATTATAAATTCT
77705783 CTTACCCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (33 bp):
AAAAATAATTTTTAAGGCATTATAAATTCTAAT
Found at i:77730001 original size:50 final size:49
Alignment explanation
Indices: 77729947--77730186 Score: 211
Period size: 50 Copynumber: 4.8 Consensus size: 49
77729937 GAATGATCTA
* *
77729947 TTGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATGATCCG
1 TTGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGT-ATCCG
** * * * * **
77729997 TTGTGAGAACACATTTGTAGTACTATGTACAGGCTACTATGTGTTTTAGACG
1 TTGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTG---TATCCG
* *
77730049 ATT-TTAGGTCA-AGTGTGTAGTACTAAGTGAAGGCTACTACGTGTATCCG
1 -TTGTGAGGTCACA-TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCG
* *
77730098 TTGGTTAGGTCACATGTGTAGTACTAAGTGCAGGTTACTACGTGTA-CCG
1 TT-GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCG
* *
77730147 --GATAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TTG-TGA--GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
77730187 TGCGTACCAG
Statistics
Matches: 154, Mismatches: 25, Indels: 23
0.76 0.12 0.11
Matches are distributed among these distances:
46 1 0.01
47 2 0.01
48 2 0.01
49 38 0.25
50 73 0.47
51 2 0.01
52 33 0.21
53 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (49 bp):
TTGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCCG
Found at i:77730137 original size:102 final size:102
Alignment explanation
Indices: 77729952--77730142 Score: 267
Period size: 102 Copynumber: 1.9 Consensus size: 102
77729942 ATCTATTGTG
* * *
77729952 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATGATCCGTTGTGAGAACACATTTGTAG
1 AGGTCAAGTGTGTAGTACTAAGTGAAGGCTACTACGTATGATCCGTTGTGAGAACACATGTGTAG
* *
77730017 TACTATGTACAGGCTACTATGTGTTTTAGACGATTTT
66 TACTAAGTACAGGCTACTACGTGTTTTAGACGATTTT
* * **
77730054 AGGTCAAGTGTGTAGTACTAAGTGAAGGCTACTACGTGT-ATCCGTTGGTTAGGTCACATGTGTA
1 AGGTCAAGTGTGTAGTACTAAGTGAAGGCTACTACGTATGATCCGTT-GTGAGAACACATGTGTA
* *
77730118 GTACTAAGTGCAGGTTACTACGTGT
65 GTACTAAGTACAGGCTACTACGTGT
77730143 ACCGGATAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 7 0.09
102 70 0.91
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (102 bp):
AGGTCAAGTGTGTAGTACTAAGTGAAGGCTACTACGTATGATCCGTTGTGAGAACACATGTGTAG
TACTAAGTACAGGCTACTACGTGTTTTAGACGATTTT
Found at i:77733326 original size:49 final size:49
Alignment explanation
Indices: 77733235--77733476 Score: 245
Period size: 49 Copynumber: 4.9 Consensus size: 49
77733225 GATCTATTGT
* * * * *
77733235 TAGGTCACGTGTGCAGTACTAAGTGTAGGCTACTACGTGTACCGAATTA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAA
* * *
77733284 TGGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-ATAA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCGAATAA
* * * * **
77733333 CTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATC-AATTGGT
1 --TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAA-T-AA
* * *
77733385 TAGGTCACATGTGTAGTACTAAGTGCAGGTTACTACGTGTACCGGATAA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAA
* * *
77733434 TTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
77733477 AGATAGCTTT
Statistics
Matches: 156, Mismatches: 30, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
49 75 0.48
50 43 0.28
51 38 0.24
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (49 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAA
Found at i:77733433 original size:101 final size:98
Alignment explanation
Indices: 77733239--77733476 Score: 298
Period size: 101 Copynumber: 2.4 Consensus size: 98
77733229 TATTGTTAGG
* * * * *
77733239 TCACGTGTGCAGTACTAAGTGTAGGCTACTACGTGTACCGAATTATGGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATTATAGGTCACATGTGTAGTACT
*
77733304 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCCGATAA-TT-GA
* *
77733339 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATC-AATTGGTTAGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATT--ATAGGTCACATGTGTAGTA
* * * *
77733403 CTAAGTGCAGGTTACTACGTGTACCGGATAATTGG
64 CTAAGTGCAGGCTACTACGCGTACCCGATAATTGA
* * *
77733438 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
77733477 AGATAGCTTT
Statistics
Matches: 120, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
99 40 0.33
100 37 0.31
101 43 0.36
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATTATAGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:77738322 original size:89 final size:89
Alignment explanation
Indices: 77738171--77738346 Score: 334
Period size: 89 Copynumber: 2.0 Consensus size: 89
77738161 GACTATGAAT
77738171 AAATTGTAACATGTTGGAAAGTGAGGAATTTCCCGATTGAGCCTTCAGAATAAAAACGATACGAA
1 AAATTGTAACATGTTGGAAAGTGAGGAATTTCCCGATTGAGCCTTCAGAATAAAAACGATACGAA
77738236 TGATCTATTGTTAGGTCACGTGAC
66 TGATCTATTGTTAGGTCACGTGAC
* *
77738260 AAATTGTAACATGTTGGAAAGTGAGGAATTTCCCGGTTGAGCCTTCGGAATAAAAACGATACGAA
1 AAATTGTAACATGTTGGAAAGTGAGGAATTTCCCGATTGAGCCTTCAGAATAAAAACGATACGAA
77738325 TGATCTATTGTTAGGTCACGTG
66 TGATCTATTGTTAGGTCACGTG
77738347 TGTAGTACTA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 85 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (89 bp):
AAATTGTAACATGTTGGAAAGTGAGGAATTTCCCGATTGAGCCTTCAGAATAAAAACGATACGAA
TGATCTATTGTTAGGTCACGTGAC
Found at i:77738578 original size:49 final size:50
Alignment explanation
Indices: 77738335--77738582 Score: 245
Period size: 49 Copynumber: 5.0 Consensus size: 50
77738325 TGATCTATTG
* * * * *
77738335 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CTGAATTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG-ATAA
* * *
77738385 TTA-GTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
* * * * * * * * * **
77738434 CTTCGATCACGTGTGTAGTACTAAGTACAGGCTGCTACGTGTATCAGTTGG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
77738485 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACAT-C-TACCAGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACT--ATGCGTACCAGATAA
*
77738535 TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
77738583 GCTTTGGCTA
Statistics
Matches: 159, Mismatches: 32, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
47 2 0.01
48 1 0.01
49 76 0.48
50 46 0.29
51 33 0.21
52 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
Found at i:77745695 original size:40 final size:39
Alignment explanation
Indices: 77745597--77745819 Score: 250
Period size: 40 Copynumber: 5.6 Consensus size: 39
77745587 TCCTCGTTCA
* * * *
77745597 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* **
77745636 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
77745675 GAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
77745715 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * * * *
77745755 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
77745796 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
77745820 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:77753607 original size:40 final size:40
Alignment explanation
Indices: 77753509--77753771 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
77753499 TCCTCGTTCA
* * * *
77753509 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* **
77753548 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
77753588 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
77753628 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* *
77753668 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * * * * *
77753708 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACG
* *
77753748 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
77753772 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:77761891 original size:12 final size:10
Alignment explanation
Indices: 77761857--77761942 Score: 79
Period size: 10 Copynumber: 8.3 Consensus size: 10
77761847 ATAAAACTAT
*
77761857 AAAAATCATA
1 AAAAATTATA
77761867 AAAAA-TA-A
1 AAAAATTATA
77761875 AAAAATTCATTA
1 AAAAATT-A-TA
77761887 AAAAACTTATA
1 AAAAA-TTATA
77761898 AAAAA-TATA
1 AAAAATTATA
*
77761907 AAAACTTATA
1 AAAAATTATA
77761917 TTATAAAATTATA
1 --A-AAAATTATA
77761930 AAAAATTATA
1 AAAAATTATA
77761940 AAA
1 AAA
77761943 TTTTAATATA
Statistics
Matches: 64, Mismatches: 3, Indels: 18
0.75 0.04 0.21
Matches are distributed among these distances:
8 6 0.09
9 10 0.16
10 22 0.34
11 8 0.12
12 8 0.12
13 10 0.16
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAAATTATA
Found at i:77761910 original size:32 final size:32
Alignment explanation
Indices: 77761857--77761942 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 32
77761847 ATAAAACTAT
*
77761857 AAAAATCATAAAAAATA-AAAAAATT-CATTA
1 AAAAATTATAAAAAATATAAAAAATTACATTA
* *
77761887 AAAAACTTATAAAAAATATAAAAACTTATATTA
1 AAAAA-TTATAAAAAATATAAAAAATTACATTA
*
77761920 TAAAATTATAAAAAATTATAAAA
1 AAAAATTATAAAAAA-TATAAAA
77761943 TTTTAATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 5 0.10
31 11 0.23
32 17 0.35
33 15 0.31
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (32 bp):
AAAAATTATAAAAAATATAAAAAATTACATTA
Found at i:77761924 original size:23 final size:24
Alignment explanation
Indices: 77761893--77761939 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
77761883 ATTAAAAAAC
*
77761893 TTATAAAAAATATAAAAACTTATA
1 TTATAAAAAATATAAAAAATTATA
*
77761917 TTAT-AAAATTATAAAAAATTATA
1 TTATAAAAAATATAAAAAATTATA
77761940 AAATTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
TTATAAAAAATATAAAAAATTATA
Found at i:77761955 original size:18 final size:18
Alignment explanation
Indices: 77761913--77761955 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
77761903 TATAAAAACT
77761913 TATATTATAAAATTATAA
1 TATATTATAAAATTATAA
* * *
77761931 AAAATTATAAAATTTTAA
1 TATATTATAAAATTATAA
77761949 TATATTA
1 TATATTA
77761956 ATATATGTAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATATTATAAAATTATAA
Found at i:77762691 original size:9 final size:10
Alignment explanation
Indices: 77762646--77762688 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
77762636 GTTTTTTACA
*
77762646 TTTTATAGGT
1 TTTTATAAGT
* * *
77762656 TTTTGTGATT
1 TTTTATAAGT
77762666 TTTTATAAGT
1 TTTTATAAGT
77762676 TTTTATAAGT
1 TTTTATAAGT
77762686 TTT
1 TTT
77762689 ATACGTTCAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.65
Consensus pattern (10 bp):
TTTTATAAGT
Found at i:77763490 original size:8 final size:8
Alignment explanation
Indices: 77763477--77763512 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
77763467 AAGTCATTAC
77763477 TTTTTTTG
1 TTTTTTTG
77763485 TTTTTTTG
1 TTTTTTTG
77763493 TTTTTTTG
1 TTTTTTTG
77763501 TTTTTTT-
1 TTTTTTTG
77763508 TTTTT
1 TTTTT
77763513 GCCCTTTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 5 0.18
8 23 0.82
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (8 bp):
TTTTTTTG
Found at i:77765451 original size:20 final size:20
Alignment explanation
Indices: 77765410--77765449 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
77765400 AAAAAAACAT
*
77765410 ATATTTTGGAATTTTTATAA
1 ATATTTTGGAATTTTTAAAA
*
77765430 ATATTTT-GATTTTTTAAAA
1 ATATTTTGGAATTTTTAAAA
77765449 A
1 A
77765450 ATTATTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
ATATTTTGGAATTTTTAAAA
Found at i:77770563 original size:21 final size:20
Alignment explanation
Indices: 77770487--77770566 Score: 69
Period size: 17 Copynumber: 4.0 Consensus size: 20
77770477 TTTTTATTTA
*
77770487 TTATGTATTATAATTATATG
1 TTATGTATTATAATTATATT
*
77770507 TTAT-T-TT-TAAATATATT
1 TTATGTATTATAATTATATT
* *
77770524 TT-TGTGTTTTAAATATATAGTT
1 TTATGTATTAT-AAT-TATA-TT
77770546 TTATGTATTATAATTATATT
1 TTATGTATTATAATTATATT
77770566 T
1 T
77770567 AAAATATTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
16 1 0.02
17 11 0.23
18 4 0.08
19 2 0.04
20 9 0.19
21 8 0.17
22 7 0.15
23 6 0.12
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTATGTATTATAATTATATT
Found at i:77773416 original size:93 final size:93
Alignment explanation
Indices: 77773304--77773474 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
77773294 GCCCATAAGT
* *
77773304 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77773369 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
77773397 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
77773462 CGAGTTCGGATGC
66 CGAGCTCGGATGC
77773475 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:77773471 original size:46 final size:46
Alignment explanation
Indices: 77773296--77773471 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
77773286 TGTAACCCGC
* *
77773296 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
77773342 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
77773388 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
77773435 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
77773472 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:77775893 original size:15 final size:15
Alignment explanation
Indices: 77775873--77775910 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
77775863 CAAGAAAACC
77775873 GAATAAAGA-ATTCCA
1 GAATAAAGAGA-TCCA
77775888 GAATAAAGAGATCCA
1 GAATAAAGAGATCCA
*
77775903 GGATAAAG
1 GAATAAAG
77775911 CAACCCAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.95
16 1 0.05
ACGTcount: A:0.53, C:0.11, G:0.21, T:0.16
Consensus pattern (15 bp):
GAATAAAGAGATCCA
Found at i:77778976 original size:93 final size:93
Alignment explanation
Indices: 77778864--77779034 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
77778854 GCCCATAAGT
* *
77778864 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77778929 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
77778957 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77779022 CGAGTTCGGATGC
66 CGAGTTCGGATGC
77779035 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:77779031 original size:46 final size:46
Alignment explanation
Indices: 77778856--77779031 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
77778846 TGTAACCCGC
* * *
77778856 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
77778902 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
77778952 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
77778995 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
77779032 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:77780829 original size:45 final size:45
Alignment explanation
Indices: 77780778--77780868 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
77780768 TTCGAGCAAG
*
77780778 AAGATCACGAATGTATTTCTGCTGACACAAGTGAAGACATCTAGT
1 AAGATCACGAATGTATTTCTGCTGACACAAGTGAAGACACCTAGT
77780823 AAGATCACGAATGTATTTCTGCTGACACAAGTGAAGACACCTAGT
1 AAGATCACGAATGTATTTCTGCTGACACAAGTGAAGACACCTAGT
77780868 A
1 A
77780869 GACAAGCGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (45 bp):
AAGATCACGAATGTATTTCTGCTGACACAAGTGAAGACACCTAGT
Found at i:77783021 original size:134 final size:134
Alignment explanation
Indices: 77782781--77783049 Score: 504
Period size: 134 Copynumber: 2.0 Consensus size: 134
77782771 TTACCCCTAT
77782781 TAACAAACCCGGACTTTGACGGATACACGGATTCCAACCCAAACACACCAGTACGGCACATTGTG
1 TAACAAACCCGGACTTTGACGGATACACGGATTCCAACCCAAACACACCAGTACGGCACATTGTG
*
77782846 CCTAAAACGGTACATAGTACCTGATCAGTATACGACACATAAAGTGCCTAAAACGACACACGAGG
66 CCTAAAACGGTACAGAGTACCTGATCAGTATACGACACATAAAGTGCCTAAAACGACACACGAGG
77782911 TGCC
131 TGCC
77782915 TAACAAACCCGGACTTTGACGGATACACGGATTCCAACCCAAACACACCAGTACGGCACATTGTG
1 TAACAAACCCGGACTTTGACGGATACACGGATTCCAACCCAAACACACCAGTACGGCACATTGTG
*
77782980 CCTAAAACGGTACAGAGTACCTGATCAG-AGTACGGCACATAAAGTGCCTAAAACGACACACGAG
66 CCTAAAACGGTACAGAGTACCTGATCAGTA-TACGACACATAAAGTGCCTAAAACGACACACGAG
77783044 GTGCC
130 GTGCC
77783049 T
1 T
77783050 GAAATACGAC
Statistics
Matches: 132, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
133 1 0.01
134 131 0.99
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (134 bp):
TAACAAACCCGGACTTTGACGGATACACGGATTCCAACCCAAACACACCAGTACGGCACATTGTG
CCTAAAACGGTACAGAGTACCTGATCAGTATACGACACATAAAGTGCCTAAAACGACACACGAGG
TGCC
Found at i:77783070 original size:23 final size:23
Alignment explanation
Indices: 77783010--77783074 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
77783000 CTGATCAGAG
*
77783010 TACGGCACATAAAGTGCCT-AAA
1 TACGACACATAAAGTGCCTGAAA
** *
77783032 -ACGACACACGAGGTGCCTGAAA
1 TACGACACATAAAGTGCCTGAAA
77783054 TACGACACATAAAGTGCCTGA
1 TACGACACATAAAGTGCCTGA
77783075 TCGATAAAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 14 0.41
22 3 0.09
23 17 0.50
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
TACGACACATAAAGTGCCTGAAA
Found at i:77783470 original size:15 final size:15
Alignment explanation
Indices: 77783445--77783502 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
77783435 TCATATATAT
77783445 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
77783461 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
77783476 AATAATTTCAATCAA
1 TATAAATTCAATCAA
77783491 TATAAATTCAAT
1 TATAAATTCAAT
77783503 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:77795728 original size:40 final size:40
Alignment explanation
Indices: 77795684--77795800 Score: 162
Period size: 40 Copynumber: 2.9 Consensus size: 40
77795674 AGAGAGTAAG
* * *
77795684 GTTGTTTTCAAAAAATGACCTTTGACCAAGATATTATAAA
1 GTTGTTTTCAAAAAATGACCTTCGATCGAGATATTATAAA
* * * * *
77795724 GTTGTTTTCAAAAACTAACCTTCAATCGGGATATTATAAG
1 GTTGTTTTCAAAAAATGACCTTCGATCGAGATATTATAAA
77795764 GTTGTTTTCAAAAAATGACCTTCGATCGAGATATTAT
1 GTTGTTTTCAAAAAATGACCTTCGATCGAGATATTAT
77795801 CAGGTCCAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (40 bp):
GTTGTTTTCAAAAAATGACCTTCGATCGAGATATTATAAA
Found at i:77801840 original size:48 final size:48
Alignment explanation
Indices: 77801644--77801923 Score: 223
Period size: 48 Copynumber: 5.8 Consensus size: 48
77801634 GTATAATGTT
* * * * * * **
77801644 GATGTCATGTCTCAGGCATGGTTTTACACTTGCTATCGAAATCAAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTCAAGGCC
* * * * * *
77801693 AACGCCATGTCCCAGACATGGTCTTACTCTAGCTCTCACATATC-CGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATCTCAAG-GCC
* * * *
77801743 AATGCCATGTCCCAGACATGGTCTTACAC-CG-TCACCTCT-ATACGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA-A-G-GCC
* * *
77801791 GATGCCACGTCCCAGACATGGTCTTACATTGGCT-TACATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTCAAGGCC
* * *
77801839 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAGGCC
77801885 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
77801924 AATGTGGTTG
Statistics
Matches: 185, Mismatches: 33, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
46 28 0.15
47 28 0.15
48 57 0.31
49 31 0.17
50 40 0.22
51 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAAGGCC
Found at i:77801890 original size:94 final size:94
Alignment explanation
Indices: 77801787--77801962 Score: 248
Period size: 94 Copynumber: 1.9 Consensus size: 94
77801777 CCTCTATACG
* *
77801787 TGCCGATGCCACGTCCCAGACATGGTCTTACATTGGCT-TACAT-CTCGAGGCCGATGCATGTCC
1 TGCCGATGCCACGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATGTCC
*
77801850 CAGACATGTCTTACACTAGCTCTCGTCTCAA
64 CAAACATGTCTTACACTAGCTCTCGTCTCAA
* * ** *
77801881 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTTGATGCATGTCCTA
1 TGCCGATGCCACGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCA
77801946 AACATGTCTTACACTAG
66 AACATGTCTTACACTAG
77801963 TACACAATTA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
94 70 0.97
95 2 0.03
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
TGCCGATGCCACGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCA
AACATGTCTTACACTAGCTCTCGTCTCAA
Found at i:77801937 original size:48 final size:47
Alignment explanation
Indices: 77801696--77801960 Score: 197
Period size: 48 Copynumber: 5.6 Consensus size: 47
77801686 CAAGGCCAAC
* * * *
77801696 GCCATGTCCCAGACATGGTCTTACTCTAGCTCTCACATATCCGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGCCGAT
* * * *
77801746 GCCATGTCCCAGACATGGTCTTACACCGTCACCTC-TATACGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-ATGTGCCGAT
* * * *
77801794 GCCACGTCCCAGACATGGTCTTACATTGGCT-TACAT-CTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-G-TGCCGAT
* *
77801842 G-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA--TGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTGCCGAT
**
77801888 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTTGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GCCGAT
* *
77801936 G-CATGTCCTAAACAT-GTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
77801961 AGTACACAAT
Statistics
Matches: 172, Mismatches: 28, Indels: 34
0.74 0.12 0.15
Matches are distributed among these distances:
45 2 0.01
46 32 0.19
47 43 0.25
48 63 0.37
50 29 0.17
51 3 0.02
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCCGAT
Found at i:77808771 original size:46 final size:46
Alignment explanation
Indices: 77808721--77808895 Score: 298
Period size: 46 Copynumber: 3.8 Consensus size: 46
77808711 TGGTTGAGCA
77808721 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
77808767 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
77808813 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
77808859 CCCGAGA-TCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
77808896 GCGGGTTACA
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
46 123 0.99
47 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:77814213 original size:13 final size:13
Alignment explanation
Indices: 77814191--77814223 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
77814181 AAGGGTTTGT
77814191 TTAT-TAAACTAA
1 TTATCTAAACTAA
77814203 TTATCTAAACTAA
1 TTATCTAAACTAA
*
77814216 TTAACTAA
1 TTATCTAA
77814224 TTTAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:77814984 original size:5 final size:5
Alignment explanation
Indices: 77814974--77815049 Score: 63
Period size: 5 Copynumber: 15.4 Consensus size: 5
77814964 TATGTCTTTC
* *
77814974 AAAAT AAAAT --AAT AAAACT GAAAT GAAAAT AAAA- AATA- AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
77815022 -AAAT AAAAT AAAAT AAGAAT AAGAAT AA
1 AAAAT AAAAT AAAAT AA-AAT AA-AAT AA
77815050 GAAGATAGGA
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
3 3 0.05
4 10 0.17
5 28 0.47
6 19 0.32
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:77815050 original size:12 final size:11
Alignment explanation
Indices: 77815012--77815052 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 11
77815002 ATAAAAAATA
77815012 AAAATAA-AAT
1 AAAATAAGAAT
77815022 -AAATAA-AAT
1 AAAATAAGAAT
77815031 AAAATAAGAAT
1 AAAATAAGAAT
77815042 AAGAATAAGAA
1 AA-AATAAGAA
77815053 GATAGGAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.32
10 6 0.21
11 5 0.18
12 8 0.29
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (11 bp):
AAAATAAGAAT
Found at i:77826041 original size:46 final size:46
Alignment explanation
Indices: 77825991--77826163 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
77825981 TGGTTGAGCA
77825991 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
77826037 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
77826082 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
77826130 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
77826164 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:77826147 original size:93 final size:93
Alignment explanation
Indices: 77825988--77826158 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
77825978 GGATGGTTGA
* *
77825988 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
77826053 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
77826081 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
77826146 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
77826159 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:77843152 original size:47 final size:46
Alignment explanation
Indices: 77843035--77843166 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 46
77843025 ATAATCTCAC
* * * * *
77843035 CCATAATAAATTCGAAACGCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGTTCGCAT
* * *
77843081 CCATAATGAACTCGGAACACAACTCAATGAGTTCGGATGTTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGTTCGCAT
* *
77843127 CCATAGGTGAACTCGGAATGCAACTCAACGAGTTCGGATG
1 CCATA-ATGAACTCGGAACGCAACTCAACGAGTTCGGATG
77843167 CCTCATAATT
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
46 43 0.59
47 30 0.41
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:77844214 original size:157 final size:157
Alignment explanation
Indices: 77843940--77844254 Score: 630
Period size: 157 Copynumber: 2.0 Consensus size: 157
77843930 AATCGCTTAG
77843940 AAAAAGTCGTTTATTTAACACCCAACCTTCATTTTCTATCATTAGACATCAAAATACATGCATAT
1 AAAAAGTCGTTTATTTAACACCCAACCTTCATTTTCTATCATTAGACATCAAAATACATGCATAT
77844005 TATTCATGGGTAAATTTTTGTACATGAACCTTAGCTTAAATTAATGGTAGAAATAAGTAGAACAA
66 TATTCATGGGTAAATTTTTGTACATGAACCTTAGCTTAAATTAATGGTAGAAATAAGTAGAACAA
77844070 GTTACCGGGATTTCAAAAATATAAAGA
131 GTTACCGGGATTTCAAAAATATAAAGA
77844097 AAAAAGTCGTTTATTTAACACCCAACCTTCATTTTCTATCATTAGACATCAAAATACATGCATAT
1 AAAAAGTCGTTTATTTAACACCCAACCTTCATTTTCTATCATTAGACATCAAAATACATGCATAT
77844162 TATTCATGGGTAAATTTTTGTACATGAACCTTAGCTTAAATTAATGGTAGAAATAAGTAGAACAA
66 TATTCATGGGTAAATTTTTGTACATGAACCTTAGCTTAAATTAATGGTAGAAATAAGTAGAACAA
77844227 GTTACCGGGATTTCAAAAATATAAAGA
131 GTTACCGGGATTTCAAAAATATAAAGA
77844254 A
1 A
77844255 CTTTAAAAAC
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 158 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (157 bp):
AAAAAGTCGTTTATTTAACACCCAACCTTCATTTTCTATCATTAGACATCAAAATACATGCATAT
TATTCATGGGTAAATTTTTGTACATGAACCTTAGCTTAAATTAATGGTAGAAATAAGTAGAACAA
GTTACCGGGATTTCAAAAATATAAAGA
Found at i:77866205 original size:13 final size:13
Alignment explanation
Indices: 77866184--77866218 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
77866174 CCTGACACAC
77866184 GCCCGTGTCTATG
1 GCCCGTGTCTATG
*
77866197 GCCCTTGTCTATG
1 GCCCGTGTCTATG
77866210 GCCCGTGTC
1 GCCCGTGTC
77866219 CCATGCTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.34, G:0.29, T:0.31
Consensus pattern (13 bp):
GCCCGTGTCTATG
Found at i:77866283 original size:99 final size:99
Alignment explanation
Indices: 77866111--77866298 Score: 295
Period size: 99 Copynumber: 1.9 Consensus size: 99
77866101 TAAGGGACAC
77866111 GCCCGTGTCCCATGCCCGTGTAAATTAAATTCTAAATTCAAACCTACAGAGGTTTTCACAAAGCC
1 GCCCGTGTCCCATGCCCGTGTAAATTAAATTCTAAATTCAAACCTACAGAGGTTTTCACAAAGCC
* *
77866176 TGACACACGCCCGTGTCTATGGCCCTTGTCTATG
66 TAAAACACGCCCGTGTCTATGGCCCTTGTCTATG
* * * * **
77866210 GCCCGTGTCCCATGCTCGTGTGAATTAAATTCTAAATTCGAACCTACAGGGGTTTTCACACGGCC
1 GCCCGTGTCCCATGCCCGTGTAAATTAAATTCTAAATTCAAACCTACAGAGGTTTTCACAAAGCC
*
77866275 TAAAACACGCTCGTGTCTATGGCC
66 TAAAACACGCCCGTGTCTATGGCC
77866299 TGTGTCCCTC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (99 bp):
GCCCGTGTCCCATGCCCGTGTAAATTAAATTCTAAATTCAAACCTACAGAGGTTTTCACAAAGCC
TAAAACACGCCCGTGTCTATGGCCCTTGTCTATG
Found at i:77868317 original size:28 final size:28
Alignment explanation
Indices: 77868284--77868339 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
77868274 AAAGTACAAA
77868284 AATATTTAAGAAAAGTCATCAAAATCAC
1 AATATTTAAGAAAAGTCATCAAAATCAC
*
77868312 AATATTTAAGAAAAGTCATCAAGATCAC
1 AATATTTAAGAAAAGTCATCAAAATCAC
77868340 TTACTTGCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.25
Consensus pattern (28 bp):
AATATTTAAGAAAAGTCATCAAAATCAC
Found at i:77869862 original size:18 final size:18
Alignment explanation
Indices: 77869836--77869872 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
77869826 TTCGTCACCC
77869836 ATGGCCCACCGTGCTTTT
1 ATGGCCCACCGTGCTTTT
*
77869854 ATGGGCCACCGTGCTTTT
1 ATGGCCCACCGTGCTTTT
77869872 A
1 A
77869873 CTTTGATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.30, G:0.24, T:0.32
Consensus pattern (18 bp):
ATGGCCCACCGTGCTTTT
Found at i:77874767 original size:30 final size:30
Alignment explanation
Indices: 77874731--77874791 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
77874721 ATTTTATTGT
*
77874731 TAATTTTTTTATTATTTTA-AAGACATTTGC
1 TAATTTTGTTATTATTTTAGAAGA-ATTTGC
77874761 TAATTTTGTTATTATTTTAGAAGAATTTGC
1 TAATTTTGTTATTATTTTAGAAGAATTTGC
77874791 T
1 T
77874792 TGTTAAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.56
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAGAAGAATTTGC
Found at i:77874943 original size:12 final size:12
Alignment explanation
Indices: 77874913--77874945 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
77874903 TATATATTTT
77874913 AAAATT-ATATA
1 AAAATTAATATA
77874924 AAAA-TAATATA
1 AAAATTAATATA
77874935 AAAATTAATAT
1 AAAATTAATAT
77874946 GGGTGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:77877736 original size:20 final size:19
Alignment explanation
Indices: 77877711--77877760 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
77877701 ACAATCAATA
*
77877711 TTCATAATTCAGTACACTAT
1 TTCATAATTCACTACAC-AT
*
77877731 TTCAT-ATTCTACTTCACAT
1 TTCATAATTC-ACTACACAT
77877750 TTCATAATTCA
1 TTCATAATTCA
77877761 TTTACAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.32, C:0.22, G:0.02, T:0.44
Consensus pattern (19 bp):
TTCATAATTCACTACACAT
Found at i:77883836 original size:50 final size:50
Alignment explanation
Indices: 77883777--77883878 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
77883767 TTTAGAAGAT
*
77883777 AAAGTTGATAGACTTACTAATATTATGAATTCTCTTTTTACAGTAAAAGC
1 AAAGTTGATAAACTTACTAATATTATGAATTCTCTTTTTACAGTAAAAGC
*
77883827 AAAGTTGATAAACTTACTAATATTGTGAATTCTCTTTTTACAGTAAAAGC
1 AAAGTTGATAAACTTACTAATATTATGAATTCTCTTTTTACAGTAAAAGC
77883877 AA
1 AA
77883879 GGCCTCTACG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (50 bp):
AAAGTTGATAAACTTACTAATATTATGAATTCTCTTTTTACAGTAAAAGC
Found at i:77892124 original size:18 final size:19
Alignment explanation
Indices: 77892091--77892131 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
77892081 TGAAATAATT
77892091 AATTAGCTTATAATTGAAC
1 AATTAGCTTATAATTGAAC
*
77892110 AATTA-CTTATGATTGAAC
1 AATTAGCTTATAATTGAAC
77892128 AATT
1 AATT
77892132 TTTTTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (19 bp):
AATTAGCTTATAATTGAAC
Done.