Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 249 of 444
Found at i:70898636 original size:40 final size:40
Alignment explanation
Indices: 70898417--70898644 Score: 216
Period size: 39 Copynumber: 5.7 Consensus size: 40
70898407 TGTTCGGATG
*
70898417 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT
* * *
70898457 A-AATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTT-GT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
* * * *
70898495 GATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTT-GT
1 -ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
** * **
70898534 GATATGCGGGTTAAGTCCCGAAGGCATTCATGTGAGTTACT
1 -ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
*
70898575 ATAATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
* * *
70898616 ATAACCGGGCTATGTGCCGAAGGCGTTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
70898645 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 68 0.42
40 54 0.34
41 38 0.24
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
Found at i:70900836 original size:50 final size:50
Alignment explanation
Indices: 70900741--70900837 Score: 167
Period size: 50 Copynumber: 1.9 Consensus size: 50
70900731 TGGAAGTATA
*
70900741 TGGTAGTATATCTGCATATCAGTGGTGGCTAGTCCACAAAGTGTTATAAG
1 TGGTAGTATATCTGCATATCAGTGGTGGCTAGTCCACAAACTGTTATAAG
* *
70900791 TGGTAGTATATCTGCATATCAGTGGTGGCTTGTCCACAATCTGTTAT
1 TGGTAGTATATCTGCATATCAGTGGTGGCTAGTCCACAAACTGTTAT
70900838 CAAAGGCAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (50 bp):
TGGTAGTATATCTGCATATCAGTGGTGGCTAGTCCACAAACTGTTATAAG
Found at i:70901092 original size:16 final size:16
Alignment explanation
Indices: 70901054--70901085 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
70901044 TATATTTTGG
*
70901054 TATGTTTATGAATATA
1 TATGTATATGAATATA
70901070 TATGTATATGAATATA
1 TATGTATATGAATATA
70901086 CTTGTATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (16 bp):
TATGTATATGAATATA
Found at i:70912262 original size:34 final size:35
Alignment explanation
Indices: 70912201--70912268 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
70912191 GAGCATAGTA
70912201 AAGGTTCGGCTAGCCTTAGGTAACCAAAAAAATTC
1 AAGGTTCGGCTAGCCTTAGGTAACCAAAAAAATTC
*
70912236 AAGGTTCGGCTAGGCTT-GGTAACCAAAAAAATT
1 AAGGTTCGGCTAGCCTTAGGTAACCAAAAAAATT
70912269 TATTCATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 16 0.50
35 16 0.50
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (35 bp):
AAGGTTCGGCTAGCCTTAGGTAACCAAAAAAATTC
Found at i:70919589 original size:40 final size:39
Alignment explanation
Indices: 70919494--70919698 Score: 163
Period size: 40 Copynumber: 5.2 Consensus size: 39
70919484 CCTTCGGAGT
* ** *
70919494 TTAACCGGATATAGCT-ACTCGTTCAAATGCCTTTGGGAC
1 TTAACCGGATTTAG-TAACTCGCACAAATGCCTTCGGGAC
* * *
70919533 ATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGAC
1 TTA-ACCGGATT-TAGTAACTCGCACAAATGCCTTCGGGAC
70919573 TTAACCTGGATTTAGTAACTCGCACAAATGCCTTC-GGATC
1 TTAACC-GGATTTAGTAACTCGCACAAATGCCTTCGGGA-C
* *
70919613 TTAGTCCGGATTTAGTAACTCGCACGAATGCCTTC-GGA-
1 TTA-ACCGGATTTAGTAACTCGCACAAATGCCTTCGGGAC
* * * *
70919651 -TAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGAC
1 TTA-ACCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGAC
*
70919690 TTACCCGGA
1 TTAACCGGA
70919699 CATCATTCGA
Statistics
Matches: 138, Mismatches: 17, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
37 22 0.16
38 10 0.07
39 14 0.10
40 88 0.64
41 4 0.03
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.27
Consensus pattern (39 bp):
TTAACCGGATTTAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:70923716 original size:24 final size:24
Alignment explanation
Indices: 70923689--70923737 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
70923679 AGGGACTTGT
70923689 TTGTAAAAGTGTAAAAGAGAATAG
1 TTGTAAAAGTGTAAAAGAGAATAG
70923713 TTGTAAAAGTGTAAAAGAGAATAG
1 TTGTAAAAGTGTAAAAGAGAATAG
70923737 T
1 T
70923738 AATAATGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (24 bp):
TTGTAAAAGTGTAAAAGAGAATAG
Found at i:70923832 original size:35 final size:35
Alignment explanation
Indices: 70923783--70923851 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
70923773 GAGCATAGTA
70923783 AAGGTTCGGCTAGGCTTGGGTAACCAAAAAAATTC
1 AAGGTTCGGCTAGGCTTGGGTAACCAAAAAAATTC
*
70923818 AAGGTTCGGTTAGGCTTGGGTAACCAAAAAAATT
1 AAGGTTCGGCTAGGCTTGGGTAACCAAAAAAATT
70923852 TATTCATTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (35 bp):
AAGGTTCGGCTAGGCTTGGGTAACCAAAAAAATTC
Found at i:70926333 original size:16 final size:16
Alignment explanation
Indices: 70926312--70926350 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
70926302 AAGCTGAAAT
70926312 GCTGAAATGCCAAAAA
1 GCTGAAATGCCAAAAA
*
70926328 GCTGAAATGCCGAAAA
1 GCTGAAATGCCAAAAA
*
70926344 GCCGAAA
1 GCTGAAA
70926351 GTTTGGCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (16 bp):
GCTGAAATGCCAAAAA
Found at i:70926609 original size:29 final size:28
Alignment explanation
Indices: 70926566--70926675 Score: 130
Period size: 29 Copynumber: 3.9 Consensus size: 28
70926556 CATGAATAAG
* *
70926566 AATGTGACTGGGCCTAACGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
70926594 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* * *
70926623 CAGGTGATTTGGGCCTAATGGGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* * *
70926652 AATATGATTGGGCTTAGTGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
70926676 GCCACAGGTA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 22 0.31
29 49 0.69
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:70930764 original size:16 final size:16
Alignment explanation
Indices: 70930743--70930785 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
70930733 ATGTATTGGA
*
70930743 AAAAGCTGAAATGCCG
1 AAAAGCCGAAATGCCG
70930759 AAAAGCCGAAATGCCG
1 AAAAGCCGAAATGCCG
*
70930775 AAAAGTCGAAA
1 AAAAGCCGAAA
70930786 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:70930766 original size:8 final size:8
Alignment explanation
Indices: 70930743--70930785 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
70930733 ATGTATTGGA
*
70930743 AAAAGCTG
1 AAAAGCCG
*
70930751 AAATGCCG
1 AAAAGCCG
70930759 AAAAGCCG
1 AAAAGCCG
*
70930767 AAATGCCG
1 AAAAGCCG
*
70930775 AAAAGTCG
1 AAAAGCCG
70930783 AAA
1 AAA
70930786 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (8 bp):
AAAAGCCG
Found at i:70930927 original size:18 final size:19
Alignment explanation
Indices: 70930894--70930929 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
70930884 ATTTGGTCAT
70930894 ATGGGCCAGCATGGGCTAA
1 ATGGGCCAGCATGGGCTAA
*
70930913 ATGGGCCCG-ATGGGCTA
1 ATGGGCCAGCATGGGCTA
70930930 TTGGGCCCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.17
Consensus pattern (19 bp):
ATGGGCCAGCATGGGCTAA
Found at i:70931051 original size:29 final size:29
Alignment explanation
Indices: 70931009--70931120 Score: 152
Period size: 29 Copynumber: 3.9 Consensus size: 29
70930999 TGAATGTGAC
* * *
70931009 TGGGCCAAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
70931038 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
70931067 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
* * *
70931096 TGGGCCTAGTGGGCCAGATATAGGT
1 TGGGCCTAATGGGCCATATAAAGGT
70931121 ATGTGAAATT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 76 1.00
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:70936438 original size:47 final size:46
Alignment explanation
Indices: 70936375--70936596 Score: 167
Period size: 47 Copynumber: 4.7 Consensus size: 46
70936365 ATTGTGGGCT
70936375 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGG-CACATTATGAGAGCC
*
70936421 AGTGTAAGAACATGTCTGGGACATGGCATCGG--CATTGA-GACGAGTGCT
1 AGTGTAAG-ACATGTCTGGGACATGGCATCGGCACATT-ATGA-GA--GCC
* * *
70936469 AGTGTAAGACATGTCTGGGACAT-GCATCGGCTAC-TAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGC-ACAT-TATGAGAGCC
* *
70936515 AGTGTAAGACCATGTATAGGACATGGCATC-G-AC-TTGA-GATATGAGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCACATT-ATG--A-GAGCC
* * *
70936562 AGTGTAAGACCATGTTTGGTACATGGCAACGGCAC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCAC
70936597 TCTATCCCAT
Statistics
Matches: 143, Mismatches: 14, Indels: 35
0.74 0.07 0.18
Matches are distributed among these distances:
44 1 0.01
45 10 0.07
46 29 0.20
47 72 0.50
48 26 0.18
49 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCACATTATGAGAGCC
Found at i:70936537 original size:94 final size:93
Alignment explanation
Indices: 70936372--70936553 Score: 267
Period size: 94 Copynumber: 1.9 Consensus size: 93
70936362 GTTATTGTGG
* *
70936372 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGAACATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGAACATGTA
* *
70936437 TGGGACATGGCATCGGCATTGAGACGAGT
66 TAGGACATGGCATCGAC-TTGAGACGAGT
* * * *
70936466 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTAC-TAGATGATAGTCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT-GATGAGAGCCAGTGTAAGAACATGT
70936530 ATAGGACATGGCATCGACTTGAGA
65 ATAGGACATGGCATCGACTTGAGA
70936554 TATGAGCCAG
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
93 7 0.09
94 72 0.91
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGAACATGTA
TAGGACATGGCATCGACTTGAGACGAGT
Found at i:70936576 original size:94 final size:94
Alignment explanation
Indices: 70936375--70936586 Score: 259
Period size: 94 Copynumber: 2.3 Consensus size: 94
70936365 ATTGTGGGCT
* * *
70936375 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGAACATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGAACATGTATAG
* * *
70936440 GACATGGCATCGGCATTGAGACGAGTGCT
66 GACATGGCATCGACATTGAGACGAGAGCC
* * * *
70936469 AGTGTAAGACATGTCTGGGACATGCATCGGCTAC-TAGATGATAGTCAGTGTAAGACCATGTATA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAT-GATGAGAGCCAGTGTAAGAACATGTATA
*
70936533 GGACATGGCATCGAC-TTGAGA-TATGAGCC
65 GGACATGGCATCGACATTGAGACGA-GAGCC
* *
70936562 AGTGTAAGACCATGTTTGGTACATG
1 AGTGTAAGA-CATGTCTGGGACATG
70936587 GCAACGGCAC
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
92 1 0.01
93 19 0.19
94 82 0.80
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGAACATGTATAG
GACATGGCATCGACATTGAGACGAGAGCC
Found at i:70937667 original size:22 final size:22
Alignment explanation
Indices: 70937629--70937670 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
70937619 TCGAAATGGT
70937629 CACAAGGGCGTGTTGCCCCTCA
1 CACAAGGGCGTGTTGCCCCTCA
*
70937651 CACACGGGACGTG-TGCCCCT
1 CACAAGGG-CGTGTTGCCCCT
70937671 ATGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.17, C:0.38, G:0.29, T:0.17
Consensus pattern (22 bp):
CACAAGGGCGTGTTGCCCCTCA
Found at i:70937903 original size:21 final size:21
Alignment explanation
Indices: 70937877--70937920 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
70937867 TGTCCCGGCG
70937877 TATGATACAGATATGGGGTGT
1 TATGATACAGATATGGGGTGT
70937898 TATGATACAGATATGGGGTGT
1 TATGATACAGATATGGGGTGT
70937919 TA
1 TA
70937921 CAGATAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.34
Consensus pattern (21 bp):
TATGATACAGATATGGGGTGT
Found at i:70942137 original size:42 final size:41
Alignment explanation
Indices: 70942085--70942167 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 41
70942075 CCCACTACAT
*
70942085 AGATTGTGGTATATCCAATATCAAAATTTTATAGAACAACTA
1 AGATTATGGTATATCCAATATC-AAATTTTATAGAACAACTA
*
70942127 AGATTATGGTATATCCAATATCAACTTTTATAGAACAACTA
1 AGATTATGGTATATCCAATATCAAATTTTATAGAACAACTA
70942168 GTTACAGTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 18 0.46
42 21 0.54
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (41 bp):
AGATTATGGTATATCCAATATCAAATTTTATAGAACAACTA
Found at i:70943742 original size:47 final size:46
Alignment explanation
Indices: 70943625--70943797 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
70943615 GGATGGTTGA
70943625 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
70943672 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
*
70943715 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAAT
*
70943765 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
70943798 TAGGGGCGGG
Statistics
Matches: 109, Mismatches: 6, Indels: 24
0.78 0.04 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 31 0.28
46 29 0.27
47 30 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:70943794 original size:93 final size:92
Alignment explanation
Indices: 70943625--70943794 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
70943615 GGATGGTTGA
* *
70943625 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
70943690 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
70943717 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
70943782 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
70943795 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 34 0.46
93 40 0.54
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:70951293 original size:47 final size:46
Alignment explanation
Indices: 70951176--70951348 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
70951166 GGATGGTTGA
70951176 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
70951223 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
*
70951266 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAAT
*
70951316 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
70951349 TAGGGGCGGG
Statistics
Matches: 109, Mismatches: 6, Indels: 24
0.78 0.04 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 31 0.28
46 29 0.27
47 30 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:70951345 original size:93 final size:92
Alignment explanation
Indices: 70951176--70951345 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
70951166 GGATGGTTGA
* *
70951176 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
70951241 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
70951268 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
70951333 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
70951346 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 34 0.46
93 40 0.54
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:70955398 original size:50 final size:49
Alignment explanation
Indices: 70955151--70955463 Score: 257
Period size: 46 Copynumber: 6.6 Consensus size: 49
70955141 TGTGTTAGCT
* * *
70955151 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGAGAGTC
* * * * * *
70955197 AGCGTAAGACCATGTCTGGGACATGGCATTC-GCATTGA-GACGAGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCGGCCTCGATGATGAGAGTC
** * * * *
70955245 AACGTAAGA-CATGTCTGGCACAT-GTATCGGCCTC-AGGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATG-AGAGTC
* *
70955291 AGTGTAAGA-CATGTCTGGAACAT-GCATCGG-CTGCGA-GAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATGATGAGAGTC
*
70955335 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGAT-ATGCGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATGAT--GAGAGTC
**
70955384 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATCGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGAGAGTC
70955434 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
70955464 AACACCTCAC
Statistics
Matches: 218, Mismatches: 26, Indels: 43
0.76 0.09 0.15
Matches are distributed among these distances:
44 11 0.05
45 18 0.08
46 60 0.28
47 29 0.13
48 21 0.10
49 38 0.17
50 39 0.18
51 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGAGAGTC
Found at i:70961024 original size:22 final size:22
Alignment explanation
Indices: 70960998--70961043 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
70960988 AATTAAATTT
70960998 AAACTTAACTCAACTAATCATA
1 AAACTTAACTCAACTAATCATA
*
70961020 AAACTTAACTCAACTATTCATA
1 AAACTTAACTCAACTAATCATA
70961042 AA
1 AA
70961044 TCTTTACCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (22 bp):
AAACTTAACTCAACTAATCATA
Found at i:70963291 original size:23 final size:23
Alignment explanation
Indices: 70963260--70963305 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
70963250 TGTTTAGGGC
70963260 TGTCAAATTTGGGGATTTTGGGT
1 TGTCAAATTTGGGGATTTTGGGT
*
70963283 TGTCGAATTTGGGGATTTTGGGT
1 TGTCAAATTTGGGGATTTTGGGT
70963306 AAGGGTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.15, C:0.04, G:0.37, T:0.43
Consensus pattern (23 bp):
TGTCAAATTTGGGGATTTTGGGT
Found at i:70963322 original size:28 final size:28
Alignment explanation
Indices: 70963290--70963361 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
70963280 GGTTGTCGAA
70963290 TTTGGGGATTTTGGGTAAGGGTTTTGAC
1 TTTGGGGATTTTGGGTAAGGGTTTTGAC
* ** * *
70963318 TTTGGGAATTTTTGTTTAAGGTTTTTGAT
1 TTTGGGGA-TTTTGGGTAAGGGTTTTGAC
* *
70963347 TTTTGAGATTTTGGG
1 TTTGGGGATTTTGGG
70963362 GATTGCTCAC
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
28 12 0.36
29 21 0.64
ACGTcount: A:0.15, C:0.01, G:0.32, T:0.51
Consensus pattern (28 bp):
TTTGGGGATTTTGGGTAAGGGTTTTGAC
Found at i:70963973 original size:11 final size:11
Alignment explanation
Indices: 70963959--70964025 Score: 72
Period size: 11 Copynumber: 6.5 Consensus size: 11
70963949 TTTAGGCTTT
70963959 TTTTAAAATAA
1 TTTTAAAATAA
*
70963970 TTTT--AATTA
1 TTTTAAAATAA
*
70963979 TTTTAAAATCA
1 TTTTAAAATAA
70963990 TTTT--AATAA
1 TTTTAAAATAA
*
70963999 TTTT-AAATTA
1 TTTTAAAATAA
70964009 TTTTAAAATAA
1 TTTTAAAATAA
70964020 TTTTAA
1 TTTTAA
70964026 TAATTTCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
9 16 0.34
10 8 0.17
11 23 0.49
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAA
Found at i:70963984 original size:20 final size:20
Alignment explanation
Indices: 70963959--70964025 Score: 82
Period size: 20 Copynumber: 3.3 Consensus size: 20
70963949 TTTAGGCTTT
*
70963959 TTTTAAAATAATTTTAATTA
1 TTTTAAAATAATTTTAATAA
*
70963979 TTTTAAAATCATTTTAATAA
1 TTTTAAAATAATTTTAATAA
*
70963999 TTTT-AAATTATTTTAAAATAA
1 TTTTAAAATAATTTT--AATAA
70964020 TTTTAA
1 TTTTAA
70964026 TAATTTCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
19 9 0.22
20 22 0.54
21 9 0.22
22 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTAAAATAATTTTAATAA
Found at i:70964008 original size:30 final size:30
Alignment explanation
Indices: 70963965--70964042 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
70963955 CTTTTTTTAA
*
70963965 AATAATTTT-AATTATTTTAAAATCATTTT
1 AATAATTTTAAATTATTTTAAAATAATTTT
70963994 AATAATTTTAAATTATTTTAAAATAATTTT
1 AATAATTTTAAATTATTTTAAAATAATTTT
*
70964024 AATAATTTCAAATTCATTT
1 AATAATTTTAAATT-ATTT
70964043 GTTGATGTGG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 9 0.20
30 32 0.71
31 4 0.09
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (30 bp):
AATAATTTTAAATTATTTTAAAATAATTTT
Found at i:70964029 original size:9 final size:10
Alignment explanation
Indices: 70963959--70964036 Score: 72
Period size: 9 Copynumber: 7.8 Consensus size: 10
70963949 TTTAGGCTTT
70963959 TTTTAAAATAA
1 TTTT-AAATAA
*
70963970 TTTT-AATTA
1 TTTTAAATAA
*
70963979 TTTTAAAATCA
1 TTTT-AAATAA
70963990 TTTT-AATAA
1 TTTTAAATAA
*
70963999 TTTTAAATTA
1 TTTTAAATAA
70964009 TTTTAAAATAA
1 TTTT-AAATAA
70964020 TTTT-AATAA
1 TTTTAAATAA
*
70964029 TTTCAAAT
1 TTTTAAAT
70964037 TCATTTGTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.43
10 11 0.20
11 21 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTTAAATAA
Found at i:70965152 original size:3 final size:3
Alignment explanation
Indices: 70965144--70965169 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
70965134 TATAAGCCTT
70965144 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
70965170 TATTATTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:70966098 original size:29 final size:30
Alignment explanation
Indices: 70966077--70966133 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
70966067 ATTAGGGGTT
*
70966077 TAAAT-TGAGAAA-AATGAAAATTATGTGG
1 TAAATGTGAGAAATAATGAAAATTATGGGG
*
70966105 TAAATGTGTGAAATAATGAAAATTATGGG
1 TAAATGTGAGAAATAATGAAAATTATGGG
70966134 CTGCTATGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 6 0.24
30 14 0.56
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (30 bp):
TAAATGTGAGAAATAATGAAAATTATGGGG
Found at i:70966969 original size:31 final size:31
Alignment explanation
Indices: 70966934--70966995 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
70966924 ATATTTGTTA
*
70966934 GGCTTTTGGATTCAAATTGAGTTGCATTATG
1 GGCTTTTAGATTCAAATTGAGTTGCATTATG
70966965 GGCTTTTAGATTCAAATTGAGTTGCATTATG
1 GGCTTTTAGATTCAAATTGAGTTGCATTATG
70966996 CTATGTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.42
Consensus pattern (31 bp):
GGCTTTTAGATTCAAATTGAGTTGCATTATG
Found at i:70968529 original size:28 final size:28
Alignment explanation
Indices: 70968464--70968564 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
70968454 ATAGTGAATC
*
70968464 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
70968493 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
70968521 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
70968551 CGCACACTTAGTGC
1 CGCACACTTAGTGC
70968565 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:70970390 original size:2 final size:2
Alignment explanation
Indices: 70970385--70970423 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
70970375 TTTTGAAATG
*
70970385 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
70970424 GGTCTTGTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:70973190 original size:28 final size:28
Alignment explanation
Indices: 70973159--70973247 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
70973149 GTGAGCATGA
*
70973159 ATATAATGTGATTTGGGCCAGATAGGCC
1 ATATAATGTGATTTGGGCCAGATGGGCC
**
70973187 ATATAA-AAGATATTGGGCCTA-ATGGGCC
1 ATATAATGTGAT-TTGGGCC-AGATGGGCC
* *
70973215 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATAT-AATGTGATTTGGGCCAGATGGGCC
70973244 ATAT
1 ATAT
70973248 GAACGTGAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
27 3 0.06
28 23 0.47
29 21 0.43
30 2 0.04
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (28 bp):
ATATAATGTGATTTGGGCCAGATGGGCC
Found at i:70973234 original size:29 final size:29
Alignment explanation
Indices: 70973198--70973263 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
70973188 TATAAAAGAT
*
70973198 ATTGGGCCTAATGGGCCATATGAATGTGA
1 ATTGGGCCTAATGGGCCATATGAACGTGA
*
70973227 ATTGGGCCTGATGGGCCATATGAACGTGA
1 ATTGGGCCTAATGGGCCATATGAACGTGA
*
70973256 ATTAGGCC
1 ATTGGGCC
70973264 GGATTGGACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (29 bp):
ATTGGGCCTAATGGGCCATATGAACGTGA
Found at i:70973275 original size:29 final size:29
Alignment explanation
Indices: 70973208--70973276 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
70973198 ATTGGGCCTA
* * * *
70973208 ATGGGCCATATGAATGTGAATTGGGCCTG
1 ATGGGACATATGAACGTGAATTAGGCCGG
*
70973237 ATGGGCCATATGAACGTGAATTAGGCCGG
1 ATGGGACATATGAACGTGAATTAGGCCGG
*
70973266 ATTGGACATAT
1 ATGGGACATAT
70973277 AAATGAGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (29 bp):
ATGGGACATATGAACGTGAATTAGGCCGG
Found at i:70973615 original size:26 final size:26
Alignment explanation
Indices: 70973563--70973615 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
70973553 AAAACCGTAA
* * *
70973563 TAAGGGAAAAATTACCGAAATGCCCC
1 TAAGGGAAAAATGACCAAAATGACCC
70973589 TAAGGGCAAAAATGACCAAAAT-ACCC
1 TAAGGG-AAAAATGACCAAAATGACCC
70973615 T
1 T
70973616 TATGTGTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.15
Consensus pattern (26 bp):
TAAGGGAAAAATGACCAAAATGACCC
Found at i:70981029 original size:29 final size:28
Alignment explanation
Indices: 70980960--70981092 Score: 119
Period size: 29 Copynumber: 4.7 Consensus size: 28
70980950 ATAATATGAT
* *
70980960 TTGGGCCAGATGGGCCATATAAAG-GAGA
1 TTGGGCCTGATGGGCCATAGAAAGTGA-A
* *
70980988 TTGGGCCTAATGGGCCATAGGAATGTGAA
1 TTGGGCCTGATGGGCCATA-GAAAGTGAA
*
70981017 TTGGGCCTGATGGGCCATATGAACGTGAA
1 TTGGGCCTGATGGGCCATA-GAAAGTGAA
* * *
70981046 TTCGGCCGGATGGGCCATATAAA-TGAGA
1 TTGGGCCTGATGGGCCATAGAAAGTGA-A
*
70981074 TTAGGCCT-AGTGGGCCATA
1 TTGGGCCTGA-TGGGCCATA
70981093 TGCATGGATG
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
27 4 0.05
28 35 0.40
29 47 0.53
30 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.34, T:0.23
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATAGAAAGTGAA
Found at i:70981081 original size:57 final size:58
Alignment explanation
Indices: 70980963--70981094 Score: 137
Period size: 57 Copynumber: 2.3 Consensus size: 58
70980953 ATATGATTTG
* * * * * *
70980963 GGCCAGATGGGCCATAT-AAAGGAGATTGGGCCTAATGGGCCATAGGAATGTGAATTG
1 GGCCTGATGGGCCATATGAAAGGAGATTCGGCCGAATGGGCCATAGAAATGAGAATTA
* * *
70981020 GGCCTGATGGGCCATATGAACGTGA-ATTCGGCCGGATGGGCCATATAAATGAG-ATTA
1 GGCCTGATGGGCCATATGAAAG-GAGATTCGGCCGAATGGGCCATAGAAATGAGAATTA
70981077 GGCCT-AGTGGGCCATATG
1 GGCCTGA-TGGGCCATATG
70981095 CATGGATGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
56 1 0.02
57 35 0.56
58 25 0.40
59 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.34, T:0.22
Consensus pattern (58 bp):
GGCCTGATGGGCCATATGAAAGGAGATTCGGCCGAATGGGCCATAGAAATGAGAATTA
Found at i:70983730 original size:15 final size:16
Alignment explanation
Indices: 70983712--70983741 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
70983702 ACAAGCCAGA
70983712 AATAAGAA-AACAAAT
1 AATAAGAATAACAAAT
70983727 AATAAGAATAACAAA
1 AATAAGAATAACAAA
70983742 CTAAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (16 bp):
AATAAGAATAACAAAT
Found at i:70985449 original size:26 final size:26
Alignment explanation
Indices: 70985420--70985475 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
70985410 TGGTACAAAT
70985420 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
70985446 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
70985472 TGAT
1 TGAT
70985476 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:70988172 original size:29 final size:29
Alignment explanation
Indices: 70988127--70988185 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
70988117 TTACACTTAC
70988127 AGTTGATATTTACAATAAATAATTGAATT
1 AGTTGATATTTACAATAAATAATTGAATT
*
70988156 AGTTGATA-TTAGGAATAAATAATTGAATT
1 AGTTGATATTTA-CAATAAATAATTGAATT
70988185 A
1 A
70988186 AATTATAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.39
Consensus pattern (29 bp):
AGTTGATATTTACAATAAATAATTGAATT
Found at i:70991564 original size:94 final size:93
Alignment explanation
Indices: 70991370--70991590 Score: 246
Period size: 94 Copynumber: 2.3 Consensus size: 93
70991360 ATGTTTGTCT
* * *
70991370 GCTAGTGTAAGACATGCCTGGGACATGCATCGACCACATTATAAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGAT-AGAGCCAGTATAAGACCATGTC
* * *
70991435 TGGAACATGGCATCGGCATTGAGACGAGA
65 TGGAACATGGCATCAGCACTCAGACGAGA
* * * * * *
70991464 GCTAGTGTAAGACATGTCTAGGACATGCATTGGCTACATGAT-GTGTCAGTATAAGACCATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATAGAGCCAGTATAAGACCATGTCT
* * *
70991528 GGGACATGGCATCAGCACTCATACGTGGAA
66 GGAACATGGCATCAGCACTCAGACG-AG-A
*
70991558 GTTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
70991591 AACTTAACGT
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
92 39 0.37
93 1 0.01
94 48 0.46
95 13 0.12
96 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATAGAGCCAGTATAAGACCATGTCT
GGAACATGGCATCAGCACTCAGACGAGA
Found at i:70993293 original size:46 final size:45
Alignment explanation
Indices: 70993150--70993321 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 45
70993140 ATGTTTGTGT
* * **
70993150 GCTAGTGTAAGACATGTCTAGGACATCCATCAACCACATT-ATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-C-TTGATGAGA
* *
70993196 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCTTGAT--GAGA
*
70993244 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCTTGATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CTTGATGAGA
*
70993290 GCTAGTGTAAGACATGTCTGGAACATGCATCG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG
70993322 ACTACATGAT
Statistics
Matches: 109, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
45 2 0.02
46 54 0.50
47 29 0.27
48 24 0.22
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCTTGATGAGA
Found at i:70993332 original size:46 final size:46
Alignment explanation
Indices: 70993150--70993465 Score: 209
Period size: 47 Copynumber: 6.7 Consensus size: 46
70993140 ATGTTTGTGT
* * * * *
70993150 GCTAGTGTAAGACATGTCTAGGACATCCATCAACCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACATGATGAGA
* * *
70993196 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-A-TTGATACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTACATGAT--GAGA
* * *
70993244 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CTTGATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACTACATGATGAGA
* *
70993290 GCTAGTGTAAGACATGTCTGGAACATGCATCGACTACATGATGTG-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACATGATGAGA
* * * * * *
70993335 TC-AGTATAAGACCATGTCTGGGACATGGCGTCAGAACGGATACG-TGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC-G-AC-TACATGATGAGA
* *
70993384 G-TCAGTGTAAGACCATGTCTAGGACATGGCATCGACTTA-ACG-TGAGA
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-TACATGATGAGA
* * *
70993431 GCCAGTGCAAGACTATGTCTGGGATATGGCATCGA
1 GCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGA
70993466 TATTATACCC
Statistics
Matches: 219, Mismatches: 33, Indels: 35
0.76 0.11 0.12
Matches are distributed among these distances:
44 8 0.04
45 17 0.08
46 63 0.29
47 67 0.31
48 33 0.15
49 4 0.02
50 27 0.12
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACTACATGATGAGA
Found at i:70993449 original size:47 final size:47
Alignment explanation
Indices: 70993191--70993465 Score: 224
Period size: 47 Copynumber: 5.9 Consensus size: 47
70993181 AACCACATTA
*
70993191 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAC-
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TT-A-ACG
* * * ***
70993240 -GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCTTG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACG
* * * *
70993284 ATGAAAGCTAGTGTAAGA-CATGTCTGGAACAT-GCATCGAC-T-ACA
1 -TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACG
* * * * **
70993328 TGATGTGTCAGTATAAGACCATGTCTGGGACATGGCGTCAGAACGGATACG
1 TGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTA-ACG
* *
70993379 TGAGAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGACTTAACG
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACG
* * *
70993426 TGAGAGCCAGTGCAAGACTATGTCTGGGATATGGCATCGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA
70993466 TATTATACCC
Statistics
Matches: 184, Mismatches: 31, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
43 3 0.02
44 9 0.05
45 15 0.08
46 47 0.26
47 53 0.29
48 20 0.11
49 1 0.01
50 31 0.17
51 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACG
Found at i:71004077 original size:32 final size:30
Alignment explanation
Indices: 71004016--71004087 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
71004006 CCCGTATGGC
*
71004016 TGCCCGTGTGTCACACACGGTTCAGACACA
1 TGCCCGTGTGTCACACACGGTCCAGACACA
71004046 TGCCCGTGTGTCACACACGGTCCAGACACA
1 TGCCCGTGTGTCACACACGGTCCAGACACA
**
71004076 CACCCGTGTGTC
1 TGCCCGTGTGTC
71004088 TACTCGTGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.21, C:0.36, G:0.24, T:0.19
Consensus pattern (30 bp):
TGCCCGTGTGTCACACACGGTCCAGACACA
Found at i:71005458 original size:26 final size:26
Alignment explanation
Indices: 71005429--71005481 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
71005419 CTTGATCTAT
71005429 AATACTGAATCTAGCTCATTTAATAC
1 AATACTGAATCTAGCTCATTTAATAC
71005455 AATACTGAATCTAGCTCATTTAATAC
1 AATACTGAATCTAGCTCATTTAATAC
71005481 A
1 A
71005482 TACATTACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (26 bp):
AATACTGAATCTAGCTCATTTAATAC
Found at i:71006972 original size:54 final size:55
Alignment explanation
Indices: 71006907--71007022 Score: 130
Period size: 54 Copynumber: 2.1 Consensus size: 55
71006897 AGCACACGGG
* * *
71006907 CGTGTGACCCTA-CTCAAGGAGTTACACGG-GTGAAGACATGGGC-TGAGACATGGT
1 CGTGTGACCCTAGCTCAAAG-GTTACACGGTCTG-AGACATGGGCATGAGACATAGT
* * * *
71006961 CGTGTGTCCCTAGTTCAAAGGTTACACGGTCTGAGACATGGGCATGTGACTTAGT
1 CGTGTGACCCTAGCTCAAAGGTTACACGGTCTGAGACATGGGCATGAGACATAGT
71007016 CGTGTGA
1 CGTGTGA
71007023 GTCATACGGC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
54 30 0.59
55 21 0.41
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (55 bp):
CGTGTGACCCTAGCTCAAAGGTTACACGGTCTGAGACATGGGCATGAGACATAGT
Found at i:71008457 original size:38 final size:38
Alignment explanation
Indices: 71008406--71008480 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
71008396 AAAGAAAAGA
* * *
71008406 AAAGAAACAAAGAA-GGAAGAAACAGAATAGCAAACGGG
1 AAAGAAACAAAGAACGG-AGAAAAAGAAAAGAAAACGGG
*
71008444 AAAGAAAGAAAGAACGGAGAAAAAGAAAAGAAAACGG
1 AAAGAAACAAAGAACGGAGAAAAAGAAAAGAAAACGG
71008481 AAAAACTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 30 0.94
39 2 0.06
ACGTcount: A:0.64, C:0.08, G:0.27, T:0.01
Consensus pattern (38 bp):
AAAGAAACAAAGAACGGAGAAAAAGAAAAGAAAACGGG
Found at i:71016041 original size:29 final size:29
Alignment explanation
Indices: 71015906--71016040 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
71015896 GCTTGGAAGG
71015906 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
71015935 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
71015964 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
71015993 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
71016022 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
71016041 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:71024132 original size:29 final size:29
Alignment explanation
Indices: 71023997--71024131 Score: 216
Period size: 29 Copynumber: 4.7 Consensus size: 29
71023987 GCTTGGAAGG
71023997 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
71024026 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
71024055 TATGGCACTAAGTGTGCAAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* * **
71024084 TATGGCACTATGTGTGCGAGCTTAAATCG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
71024113 CATGGCACTAAGTGTGCGA
1 TATGGCACTAAGTGTGCGA
71024132 GATCGTTTAT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:71027502 original size:2 final size:2
Alignment explanation
Indices: 71027495--71027529 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
71027485 AAAAGAATGA
71027495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71027530 ACATAAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:71027987 original size:22 final size:22
Alignment explanation
Indices: 71027949--71027996 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
71027939 AGAAATTAAG
71027949 TAGAAAAGAAGTATGAATTCAGT
1 TAGAAAAGAAG-ATGAATTCAGT
*
71027972 TAGAAAAGTAAG-TGAATTTAGT
1 TAGAAAAG-AAGATGAATTCAGT
71027994 TAG
1 TAG
71027997 GATTAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.46, C:0.02, G:0.23, T:0.29
Consensus pattern (22 bp):
TAGAAAAGAAGATGAATTCAGT
Found at i:71029746 original size:30 final size:30
Alignment explanation
Indices: 71029710--71029770 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
71029700 AAAACAAAGG
71029710 TAAGTAGCCAAACCATTCTATGAGATGCGC
1 TAAGTAGCCAAACCATTCTATGAGATGCGC
71029740 TAAGTAGCCAAACCATTCTATGAGATGCGC
1 TAAGTAGCCAAACCATTCTATGAGATGCGC
71029770 T
1 T
71029771 CCTTTTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (30 bp):
TAAGTAGCCAAACCATTCTATGAGATGCGC
Found at i:71036415 original size:30 final size:34
Alignment explanation
Indices: 71036379--71036455 Score: 117
Period size: 35 Copynumber: 2.4 Consensus size: 34
71036369 TGTTGGTTGG
71036379 TGAAAACCATGATCTCTT-A-A-C-TATTGTATA
1 TGAAAACCATGATCTCTTAATACCATATTGTATA
71036409 TGAAAACCATGATCTCTTAATAGCCATATTGTATA
1 TGAAAACCATGATCTCTTAATA-CCATATTGTATA
71036444 TGAAAACCATGA
1 TGAAAACCATGA
71036456 GGGACTAATC
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
30 18 0.43
31 1 0.02
32 1 0.02
34 1 0.02
35 21 0.50
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (34 bp):
TGAAAACCATGATCTCTTAATACCATATTGTATA
Found at i:71037163 original size:22 final size:22
Alignment explanation
Indices: 71037138--71037189 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
71037128 GGGTCACATG
71037138 CCCGTGTGGCCCAAAGGACACA
1 CCCGTGTGGCCCAAAGGACACA
* * *
71037160 CCCGTGTGGCCTAAGGGACACG
1 CCCGTGTGGCCCAAAGGACACA
71037182 CCCGTGTG
1 CCCGTGTG
71037190 ACCCTGGGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.19, C:0.35, G:0.33, T:0.13
Consensus pattern (22 bp):
CCCGTGTGGCCCAAAGGACACA
Found at i:71052233 original size:28 final size:28
Alignment explanation
Indices: 71052172--71052269 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
71052162 TCACAAATTG
** * *
71052172 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
71052201 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
71052229 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
71052257 GCACTAAGTGTGC
1 GCACTAAGTGTGC
71052270 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:71063517 original size:37 final size:37
Alignment explanation
Indices: 71063468--71063614 Score: 134
Period size: 37 Copynumber: 3.8 Consensus size: 37
71063458 ATCACGATTT
*
71063468 GCACAAATGCCTTCGGGTCTTAGCCCGGATAA-AACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAACAACTA
*
71063505 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-A-CAACTA
* *** *
71063545 GCACAATTGCCTTCGGGTCTTAACCCGGTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG-ATAACAACTA
* * *
71063584 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
71063615 TCATTCAATT
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
37 30 0.32
38 4 0.04
39 28 0.30
40 28 0.30
41 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (37 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAACAACTA
Found at i:71063572 original size:40 final size:38
Alignment explanation
Indices: 71063436--71063576 Score: 135
Period size: 40 Copynumber: 3.7 Consensus size: 38
71063426 CCGCACCAAG
* * * * *
71063436 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACAACTAGCAC-AAT
* *
71063476 GCCTTCGGGTCTTAGCCCGGATA-A-AACTCGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATATACAACTAGCAC-AAT
* *
71063513 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATA-CAACTAGCACAA-T
71063553 GCCTTCGGGTCTTAACCCGG-TATA
1 GCCTTCGGGTCTTAACCCGGATATA
71063577 ATTTCCAGCA
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
37 32 0.37
38 2 0.02
39 6 0.07
40 47 0.54
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (38 bp):
GCCTTCGGGTCTTAACCCGGATATACAACTAGCACAAT
Found at i:71065335 original size:37 final size:37
Alignment explanation
Indices: 71065285--71065373 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
71065275 TGTCACATAG
*
71065285 CGGGTCTCACCCGGACAAAATCTCCACACGTAGTCAT
1 CGGGTCTTACCCGGACAAAATCTCCACACGTAGTCAT
* *
71065322 CGGGTCTTACCCGGACATAATCTTCACACGTAGTCAT
1 CGGGTCTTACCCGGACAAAATCTCCACACGTAGTCAT
71065359 CGGGTCTTACCCGGA
1 CGGGTCTTACCCGGA
71065374 ATATATTTCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (37 bp):
CGGGTCTTACCCGGACAAAATCTCCACACGTAGTCAT
Found at i:71065572 original size:48 final size:48
Alignment explanation
Indices: 71065514--71065803 Score: 492
Period size: 48 Copynumber: 6.0 Consensus size: 48
71065504 ATATACACAC
* * *
71065514 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
71065562 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
71065610 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
71065658 ATCTCATACATATTTCACACTATCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
71065706 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
*
71065754 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
71065802 AT
1 AT
71065804 ATATATATAT
Statistics
Matches: 230, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 1 0.00
48 228 0.99
49 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:71065801 original size:2 final size:2
Alignment explanation
Indices: 71065794--71065821 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
71065784 GCTTTACCAC
71065794 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71065822 TTGTCTTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71069507 original size:40 final size:40
Alignment explanation
Indices: 71069449--71069734 Score: 412
Period size: 40 Copynumber: 7.2 Consensus size: 40
71069439 CCGAATACAC
* * * * **
71069449 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCTAGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * *
71069489 AACACCAGCACGAATGCTCTTCGGGACTTAACCCTGG-TAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCC-GGATAT
* * * * *
71069529 AACTCTAGCACGAATGCTCTTTGAGACTTAGCCCGGGTAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
71069569 ATCACTAGCACGAATGCTCTTCGGGACTTAGGCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
71069609 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
71069649 ATCACTAGCACGAATGTTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
71069689 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
71069729 ATCACT
1 ATCACT
71069735 CTCAATTCTC
Statistics
Matches: 223, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 220 0.99
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:71071066 original size:37 final size:37
Alignment explanation
Indices: 71071011--71071113 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
71071001 CGAATAGTCC
* * * *
71071011 CCACTCGTAGTTAGCGGGTCTCACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
71071048 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
71071085 TCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
71071114 ATATATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:71071311 original size:48 final size:48
Alignment explanation
Indices: 71071253--71071542 Score: 492
Period size: 48 Copynumber: 6.0 Consensus size: 48
71071243 ATATACACAC
* * *
71071253 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
71071301 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
71071349 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
71071397 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
71071445 ATCTCATATATATTTCAC-CTTAGCCATACGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACAC-TAGCCATTCGGCTTTACCACATATACAT
*
71071493 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
71071541 AT
1 AT
71071543 ATATATATTT
Statistics
Matches: 230, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 1 0.00
48 228 0.99
49 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:71077520 original size:44 final size:42
Alignment explanation
Indices: 71077455--71077550 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 42
71077445 ATGTGTTTTC
* * *
71077455 GTGTAAGACCACGTCTAGGACGTTGGCATCG-ACTTATGATTTAT
1 GTGTAAGACCACATCTAGGACGTAGGCATAGTAC-T-TGA-TTAT
* *
71077499 GTGTAAGAGCACATCTGGGACGTAGGCATAGTACTTGATTAT
1 GTGTAAGACCACATCTAGGACGTAGGCATAGTACTTGATTAT
71077541 GTGTAAGACC
1 GTGTAAGACC
71077551 CTGTCTAGGA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 13 0.29
43 3 0.07
44 27 0.60
45 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCACATCTAGGACGTAGGCATAGTACTTGATTAT
Found at i:71077967 original size:33 final size:34
Alignment explanation
Indices: 71077930--71077997 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
71077920 TTTGTATATG
71077930 GCTTACTAAGC-TTTGAAAGCTTACTTTGTGTGT
1 GCTTACTAAGCTTTTGAAAGCTTACTTTGTGTGT
71077963 GCTTACTAAGCTTTTGAAAGCTTACTTTGTGTGT
1 GCTTACTAAGCTTTTGAAAGCTTACTTTGTGTGT
71077997 G
1 G
71077998 TTTGCATTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 11 0.32
34 23 0.68
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.43
Consensus pattern (34 bp):
GCTTACTAAGCTTTTGAAAGCTTACTTTGTGTGT
Found at i:71080180 original size:27 final size:27
Alignment explanation
Indices: 71080126--71080262 Score: 197
Period size: 27 Copynumber: 5.1 Consensus size: 27
71080116 AGCATGGCTG
** *
71080126 CCAGAACAGATAA-TGTGATAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
71080152 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
71080179 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
71080206 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
71080233 CCAGATCAGATAATTATGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
71080260 CCA
1 CCA
71080263 AGACGCTTCC
Statistics
Matches: 102, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
26 15 0.15
27 85 0.83
28 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:71081709 original size:24 final size:24
Alignment explanation
Indices: 71081674--71081773 Score: 146
Period size: 24 Copynumber: 4.2 Consensus size: 24
71081664 CCAACACTGT
* *
71081674 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
*
71081698 TCTCCCTTATCAACTCCTGAATCC
1 TCTCCCTTATCAACTCCTAAATCC
* *
71081722 TATCCCTTATCAACTCCTAAACCC
1 TCTCCCTTATCAACTCCTAAATCC
*
71081746 TATCCCTTATCAACTCCTAAATCC
1 TCTCCCTTATCAACTCCTAAATCC
71081770 TCTC
1 TCTC
71081774 ATGATAGACT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 68 1.00
ACGTcount: A:0.25, C:0.41, G:0.02, T:0.32
Consensus pattern (24 bp):
TCTCCCTTATCAACTCCTAAATCC
Found at i:71082992 original size:26 final size:27
Alignment explanation
Indices: 71082947--71082997 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
71082937 TCAACCTTAA
*
71082947 CCCTAGGGGTATATTAGT-AATTTTGC
1 CCCTAGGGGTAAATTAGTAAATTTTGC
71082973 CCCTAGGGGTAAATCT-GTAAATTTT
1 CCCTAGGGGTAAAT-TAGTAAATTTT
71082998 CCACCTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (27 bp):
CCCTAGGGGTAAATTAGTAAATTTTGC
Found at i:71085663 original size:29 final size:28
Alignment explanation
Indices: 71085631--71085701 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
71085621 TTAAGCCCGG
*
71085631 ACACATAGTGCCATATAGTCCAAACTCGC
1 ACAC-TAGTGCCATACAGTCCAAACTCGC
* * *
71085660 ACACTTAGTGCCATACATTTCAAGCTCGC
1 ACAC-TAGTGCCATACAGTCCAAACTCGC
71085689 ACACTCAGTGCCA
1 ACACT-AGTGCCA
71085702 ATCTCGTCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 1 0.03
29 35 0.97
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.23
Consensus pattern (28 bp):
ACACTAGTGCCATACAGTCCAAACTCGC
Found at i:71088423 original size:2 final size:2
Alignment explanation
Indices: 71088411--71088467 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
71088401 ACAATACTTT
* * *
71088411 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
71088453 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
71088468 TTCCTATCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:71097214 original size:2 final size:2
Alignment explanation
Indices: 71097207--71097238 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
71097197 AAATGGCATA
71097207 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71097239 GTGAATACGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71097897 original size:40 final size:40
Alignment explanation
Indices: 71097842--71097942 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 40
71097832 TATGTGCATA
* *
71097842 GCATTCGTGTGGGTTATTATAATCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
71097882 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
71097922 GCATTCGTGCTGGTTGTTATA
1 GCATTCGTGCGGGTTATTATA
71097943 TCCGAGCCAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.33
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:71097960 original size:40 final size:40
Alignment explanation
Indices: 71097842--71097960 Score: 112
Period size: 40 Copynumber: 3.0 Consensus size: 40
71097832 TATGTGCATA
* * * ** *
71097842 GCATTCGTGTGGGTTATTATAATCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAG
* ** *
71097882 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAG
* * * *
71097922 GCATTCGTGCTGGTTGTTATATCCGAGCCAAATTCCGAA
1 GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAA
71097961 AGTATTTATG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGAGCCAAATCCCGAAG
Found at i:71106066 original size:38 final size:38
Alignment explanation
Indices: 71106010--71106096 Score: 156
Period size: 38 Copynumber: 2.2 Consensus size: 38
71106000 TATGTGCATA
71106010 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGT--GGGTTATTATAACCGGGTTAAGTCCCGAAG
71106050 GCATTCGTGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGGGTTATTATAACCGGGTTAAGTCCCGAAG
71106088 GCATTCGTG
1 GCATTCGTG
71106097 CTGGTTGTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 39 0.83
40 8 0.17
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (38 bp):
GCATTCGTGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:71114651 original size:40 final size:40
Alignment explanation
Indices: 71114596--71114805 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
71114586 AACATTGGAA
71114596 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71114636 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71114676 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
71114716 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
71114755 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
71114796 CTATATCCGG
1 ATATATCCGG
71114806 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:71117765 original size:93 final size:93
Alignment explanation
Indices: 71117653--71117823 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
71117643 GCCCATAAGT
*
71117653 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
71117718 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGAATGCCTAGTTACATCTCAC
* *
71117746 GAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
71117811 CGAGTTCGAATGC
66 CGAGCTCGAATGC
71117824 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCAC
Found at i:71117818 original size:46 final size:46
Alignment explanation
Indices: 71117645--71117814 Score: 213
Period size: 46 Copynumber: 3.7 Consensus size: 46
71117635 TGTAACCTGC
*
71117645 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
71117691 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCGCAT
* * *
71117741 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
71117784 CCATAAGTGAACTTGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
71117815 TTCGAATGCT
Statistics
Matches: 106, Mismatches: 9, Indels: 18
0.80 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 3 0.03
46 58 0.55
47 27 0.25
48 3 0.03
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):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:71124586 original size:13 final size:12
Alignment explanation
Indices: 71124568--71124628 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 12
71124558 ATGTATATGC
71124568 ATATAATAAAA-
1 ATATAATAAAAT
71124579 ATAT-ATAATAAT
1 ATATAATAA-AAT
71124591 ATATAAT--AAT
1 ATATAATAAAAT
71124601 A-ATAATAATAAT
1 ATATAATAA-AAT
71124613 ATACTAATAATAAT
1 ATA-TAATAA-AAT
71124627 AT
1 AT
71124629 GAAAATACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
9 5 0.12
10 8 0.19
11 6 0.14
12 8 0.19
13 3 0.07
14 12 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (12 bp):
ATATAATAAAAT
Found at i:71124589 original size:3 final size:3
Alignment explanation
Indices: 71124570--71124627 Score: 73
Period size: 3 Copynumber: 19.0 Consensus size: 3
71124560 GTATATGCAT
*
71124570 ATA ATA AAA ATA TATA ATA ATA TATA ATA ATA ATA ATA ATA AT- ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
71124616 CTA ATA ATA ATA
1 ATA ATA ATA ATA
71124628 TGAAAATACA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.04
3 40 0.83
4 6 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:71124594 original size:23 final size:23
Alignment explanation
Indices: 71124568--71124628 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
71124558 ATGTATATGC
*
71124568 ATATAATAAAAATATATAATAAT
1 ATATAATAATAATATATAATAAT
71124591 ATATAATAATAATA-ATAATAAT
1 ATATAATAATAATATATAATAAT
71124613 ATACTAATAATAATAT
1 ATA-TAATAATAATAT
71124629 GAAAATACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
22 11 0.31
23 24 0.69
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
ATATAATAATAATATATAATAAT
Found at i:71125140 original size:20 final size:22
Alignment explanation
Indices: 71125081--71125137 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
71125071 TTAGGGAAGG
* **
71125081 GGAGAA-AGAAAAAAAAAGAGA
1 GGAGAAGAGAGAAAAAGGGAGA
71125102 GGAGAAGAGAGAAAAAGGGAGA
1 GGAGAAGAGAGAAAAAGGGAGA
*
71125124 GGAGAAGGGAGAAA
1 GGAGAAGAGAGAAA
71125138 GGGGGGACCG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 6 0.19
22 25 0.81
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (22 bp):
GGAGAAGAGAGAAAAAGGGAGA
Found at i:71125273 original size:15 final size:15
Alignment explanation
Indices: 71125253--71125286 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
71125243 GGTTAGATTT
* *
71125253 TTTTTTTTTTTTATA
1 TTTTTTTGTATTATA
71125268 TTTTTTTGTATTATA
1 TTTTTTTGTATTATA
71125283 TTTT
1 TTTT
71125287 CGTATAGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTTTTGTATTATA
Found at i:71128781 original size:47 final size:47
Alignment explanation
Indices: 71128714--71128861 Score: 219
Period size: 46 Copynumber: 3.2 Consensus size: 47
71128704 TGATGTCATA
71128714 TTACTCATTTT-CTGTCATGTTGCCATGGTATCTTTCAACCATGGTC
1 TTACTCATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTC
* * **
71128760 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCACAGTC
1 TTACTCATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTC
* * *
71128807 TTACTCA-TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTC
1 TTACTCATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTC
71128853 TTACTCATT
1 TTACTCATT
71128862 CAACCATGGT
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
46 50 0.56
47 39 0.44
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.42
Consensus pattern (47 bp):
TTACTCATTTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTC
Found at i:71128865 original size:20 final size:20
Alignment explanation
Indices: 71128840--71128881 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
71128830 CATGGTATCT
*
71128840 TTCAACCATGGTCTTACTCA
1 TTCAACCATGGTCTTACACA
71128860 TTCAACCATGGTCTTACACA
1 TTCAACCATGGTCTTACACA
71128880 TT
1 TT
71128882 TCATATCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.36
Consensus pattern (20 bp):
TTCAACCATGGTCTTACACA
Found at i:71128885 original size:66 final size:66
Alignment explanation
Indices: 71128794--71128927 Score: 214
Period size: 66 Copynumber: 2.0 Consensus size: 66
71128784 CATGGTATCT
* *
71128794 TTCAACCACAGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACTC
1 TTCAACCACAGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
71128859 A
66 A
** * *
71128860 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTCTCTTTCAACCATGGTCTTACAC
1 TTCAACCACAGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
71128925 A
66 A
71128926 TT
1 TT
71128928 TCATATCAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (66 bp):
TTCAACCACAGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
A
Found at i:71128916 original size:46 final size:46
Alignment explanation
Indices: 71128860--71129028 Score: 311
Period size: 46 Copynumber: 3.7 Consensus size: 46
71128850 GTCTTACTCA
* *
71128860 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTCTCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
71128906 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
71128952 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
1 TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
*
71128998 TTCAACCATGGTCTTACACATTCCATATCAG
1 TTCAACCATGGTCTTACACATTTCATATCAG
71129029 ATAGCACACT
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 120 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (46 bp):
TTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCT
Found at i:71128945 original size:112 final size:113
Alignment explanation
Indices: 71128747--71128973 Score: 348
Period size: 112 Copynumber: 2.0 Consensus size: 113
71128737 CATGGTATCT
** * * *
71128747 TTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCACAGTCTTACT
1 TTCAACCATGGTCTTACACATTTTCACATCATGTTGCCATGGTATCTTTCAACCACAGTCTTACA
*
71128812 CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA
66 CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
* * **
71128860 TTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTCTCTTTCAACCATGGTCTTACA
1 TTCAACCATGGTCTTACACATTTTCACATCATGTTGCCATGGTATCTTTCAACCACAGTCTTACA
*
71128924 CATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
66 CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
71128972 TT
1 TT
71128974 TCATATCAGG
Statistics
Matches: 103, Mismatches: 11, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
112 85 0.83
113 18 0.17
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.38
Consensus pattern (113 bp):
TTCAACCATGGTCTTACACATTTTCACATCATGTTGCCATGGTATCTTTCAACCACAGTCTTACA
CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:71129008 original size:158 final size:159
Alignment explanation
Indices: 71128728--71129020 Score: 471
Period size: 158 Copynumber: 1.8 Consensus size: 159
71128718 TCATTTTCTG
** * * *
71128728 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTATC
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCACATCAGGTTGCCATGGTATC
* *
71128793 TTTCAACCACAGTCTTACTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACT
66 TTTCAACCACAGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACA
71128858 CATTCAACCATGGTCTTACACATTTCATA
131 CATTCAACCATGGTCTTACACATTTCATA
* *
71128887 TCATGTTGCCATGGTCTCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATC
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCACATCAGGTTGCCATGGTATC
** *
71128951 TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
66 TTTCAACCACAGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACA
71129016 CATTC
131 CATTC
71129021 CATATCAGAT
Statistics
Matches: 122, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
158 86 0.70
159 36 0.30
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (159 bp):
TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCACATCAGGTTGCCATGGTATC
TTTCAACCACAGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACA
CATTCAACCATGGTCTTACACATTTCATA
Found at i:71132832 original size:42 final size:42
Alignment explanation
Indices: 71132709--71132832 Score: 108
Period size: 43 Copynumber: 2.9 Consensus size: 42
71132699 AGCACTATAC
* * * **
71132709 CAATGCCATGTCCGAGATATGGTCTTACATGGGATCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
* * *
71132751 CAATGACA-ATTGCCCAGCTATGGTCTTTCAC-AAAGTCTCATAT
1 CAATGCCATA-T-CCCAGATATGGTCTTACACGAAA-TCTCATAT
* * *
71132794 CGATGCCATATCCCAGATGTGGTCTTACACGTAATCTCA
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
71132833 AATAACCCTA
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
42 30 0.48
43 32 0.51
44 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAT
Found at i:71135870 original size:47 final size:47
Alignment explanation
Indices: 71135811--71135932 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
71135801 GCATTGGCAC
71135811 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
71135858 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
71135905 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
71135933 CCAAGGCATG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:71135975 original size:54 final size:54
Alignment explanation
Indices: 71135911--71136094 Score: 221
Period size: 55 Copynumber: 3.4 Consensus size: 54
71135901 TTGGTAAGAT
* *
71135911 AAGGATATCATGTAAGACCATGCCAAGGCATGGCACTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * * * *
71135965 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGAA
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGG-C
* * * *
71136021 AAGG-TCTCATGTAAGACCATGCTAAGGCATGGCATTGGTGAGTTC-ATAAGAC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
71136073 AAGGATA-CAATGTAAGACCATG
1 AAGGATATC-ATGTAAGACCATG
71136095 TTTAGAACAT
Statistics
Matches: 109, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
52 5 0.05
53 19 0.17
54 40 0.37
55 41 0.38
56 4 0.04
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:71136034 original size:55 final size:53
Alignment explanation
Indices: 71135911--71136094 Score: 187
Period size: 54 Copynumber: 3.4 Consensus size: 53
71135901 TTGGTAAGAT
* * * *
71135911 AAGGATATCATGTAAGACCATGCCAAGGCATGGCACTGATAAGTTCTATAAGGC
1 AAGGAAATCATGTAAGACCATG-CAAGGCATGGCATTGATGAGTTCTATAAGGA
* *
71135965 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGAA
1 AAGGAAATCATGTAAGACCATG-CAAGGCATGGCATTGATGAGTT-CTATAAGG-A
** *
71136021 AAGG-TCTCATGTAAGACCATGCTAAGGCATGGCATTGGTGAGTTC-ATAA-GA
1 AAGGAAATCATGTAAGACCATGC-AAGGCATGGCATTGATGAGTTCTATAAGGA
*
71136072 CAAGGATA-CAATGTAAGACCATG
1 -AAGGAAATC-ATGTAAGACCATG
71136095 TTTAGAACAT
Statistics
Matches: 111, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
51 1 0.01
52 6 0.05
53 18 0.16
54 41 0.37
55 41 0.37
56 4 0.04
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.23
Consensus pattern (53 bp):
AAGGAAATCATGTAAGACCATGCAAGGCATGGCATTGATGAGTTCTATAAGGA
Found at i:71136168 original size:188 final size:187
Alignment explanation
Indices: 71135947--71136297 Score: 510
Period size: 188 Copynumber: 1.9 Consensus size: 187
71135937 GGCATGGCAC
*
71135947 TGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATG-TCAAGACATGACATTGATGAGTTA
1 TGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGCT-AAGACATGACATTGATAAGTT-
** * * *
71136011 CTATAAGGAAAAGG-TCTCATGTAAGACCATGCTAAGGCATGGCATTGGTGAGTTC-ATAAGACA
64 CTATAAGG-AAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGACA
* **
71136074 AGGATACAATGTAAGACCATGTTTAGAACATGGCATTTGGTAAGACAAGGATATCATGTAT
128 AGGAAACAATGTAAGACCATGTCAAG-ACATGGCATTTGGTAAGACAAGGATATCATGTAT
* *
71136135 TGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGCTAAGGCATGGCATTGATAAGTTCT
1 TGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGCTAAGACATGACATTGATAAGTTCT
* * *
71136200 ATAAGGCAAGGAAATCATGTAAGACCGTGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGG
66 ATAAGGAAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGACAAGG
*
71136265 AAACCATGTAAGACCATGTCAAGACATGGCATT
131 AAACAATGTAAGACCATGTCAAGACATGGCATT
71136298 GATGAGTTAC
Statistics
Matches: 145, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
186 4 0.03
187 53 0.37
188 87 0.60
189 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (187 bp):
TGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGCTAAGACATGACATTGATAAGTTCT
ATAAGGAAAGGAAATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGACAAGG
AAACAATGTAAGACCATGTCAAGACATGGCATTTGGTAAGACAAGGATATCATGTAT
Found at i:71136180 original size:29 final size:28
Alignment explanation
Indices: 71136147--71136236 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
71136137 ATAAGTTCTA
71136147 TAAGGCAAGGAAATCATGTAAGACCATGC
1 TAAGGCAAGGAAATCATGTAAGACC-TGC
* * ** *
71136176 TAAGGCATGG-CAT--TGATAAGTTCT-A
1 TAAGGCAAGGAAATCATG-TAAGACCTGC
71136201 TAAGGCAAGGAAATCATGTAAGACCGTGC
1 TAAGGCAAGGAAATCATGTAAGACC-TGC
*
71136230 CAAGGCA
1 TAAGGCA
71136237 TGGCATTGAT
Statistics
Matches: 44, Mismatches: 11, Indels: 12
0.66 0.16 0.18
Matches are distributed among these distances:
25 9 0.20
26 5 0.11
27 10 0.23
28 5 0.11
29 15 0.34
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.20
Consensus pattern (28 bp):
TAAGGCAAGGAAATCATGTAAGACCTGC
Found at i:71136195 original size:54 final size:54
Alignment explanation
Indices: 71136133--71136414 Score: 356
Period size: 54 Copynumber: 5.2 Consensus size: 54
71136123 GATATCATGT
*
71136133 ATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGCTAAGGCATGGC
1 ATTGATAAGTTCTATAAGGCAAGGAAACCATGTAAGACCATGCTAAGGCATGGC
* * *
71136187 ATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCGTGCCAAGGCATGGC
1 ATTGATAAGTTCTATAAGGCAAGGAAACCATGTAAGACCATGCTAAGGCATGGC
*
71136241 ATTGATAAGTTCTATAAGGCAAGGAAACCATGTAAGACCATG-TCAAGACATGGC
1 ATTGATAAGTTCTATAAGGCAAGGAAACCATGTAAGACCATGCT-AAGGCATGGC
* ** * *
71136295 ATTGATGAGTTACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGTATGGC
1 ATTGATAAGTT-CTATAAGGC-AAGGAAACCATGTAAGACCATGCTAAGGCATGGC
* * * *
71136350 ATTGGTGAGTTC-ATAAGGCAAGGATACCATGTAAGACCATG-TCAAGACATGGC
1 ATTGATAAGTTCTATAAGGCAAGGAAACCATGTAAGACCATGCT-AAGGCATGGC
* *
71136403 AATGGTAAGTTC
1 ATTGATAAGTTC
71136415 AAAAAGGAAA
Statistics
Matches: 203, Mismatches: 19, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
52 4 0.02
53 41 0.20
54 112 0.55
55 42 0.21
56 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.23
Consensus pattern (54 bp):
ATTGATAAGTTCTATAAGGCAAGGAAACCATGTAAGACCATGCTAAGGCATGGC
Found at i:71136204 original size:25 final size:25
Alignment explanation
Indices: 71136176--71136261 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 25
71136166 AAGACCATGC
71136176 TAAGGCATGGCATTGATAAGTTCTA
1 TAAGGCATGGCATTGATAAGTTCTA
* * ** *
71136201 TAAGGCAAGGAAATCATG-TAAGACCGTGC
1 TAAGGCATGG-CAT--TGATAAGTTC-T-A
*
71136230 CAAGGCATGGCATTGATAAGTTCTA
1 TAAGGCATGGCATTGATAAGTTCTA
71136255 TAAGGCA
1 TAAGGCA
71136262 AGGAAACCAT
Statistics
Matches: 43, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
25 15 0.35
26 5 0.12
27 10 0.23
28 5 0.12
29 8 0.19
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (25 bp):
TAAGGCATGGCATTGATAAGTTCTA
Found at i:71136366 original size:108 final size:108
Alignment explanation
Indices: 71136133--71136414 Score: 399
Period size: 108 Copynumber: 2.6 Consensus size: 108
71136123 GATATCATGT
* *
71136133 ATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATG-CTAAGGCATGGCATTGATAAGT
1 ATTGATAAGTTCTATAAGGCAAGGAAACCATGTAAGACCATGTC-AAGACATGGCATTGATAAGT
* *
71136197 TCTATAAGGCAAGGAAATCATGTAAGACCGTGCCAAGGCATGGC
65 TCTATAAGGCAAGGAAACCATGTAAGACCATGCCAAGGCATGGC
*
71136241 ATTGATAAGTTCTATAAGGCAAGGAAACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT
1 ATTGATAAGTTCTATAAGGCAAGGAAACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT
** *
71136306 ACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGTATGGC
66 -CTATAAGGC-AAGGAAACCATGTAAGACCATGCCAAGGCATGGC
* * * * *
71136350 ATTGGTGAGTTC-ATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 ATTGATAAGTTCTATAAGGCAAGGAAACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT
71136414 C
66 C
71136415 AAAAAGGAAA
Statistics
Matches: 157, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 108 0.69
109 44 0.28
110 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.23
Consensus pattern (108 bp):
ATTGATAAGTTCTATAAGGCAAGGAAACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT
CTATAAGGCAAGGAAACCATGTAAGACCATGCCAAGGCATGGC
Found at i:71140348 original size:50 final size:50
Alignment explanation
Indices: 71140226--71140507 Score: 248
Period size: 50 Copynumber: 5.6 Consensus size: 50
71140216 CTGGTACGCA
** * * * *
71140226 TAGTAGCCTGCACTTAGTACTACACATGCAACC-AACAATCCGGTACGCG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
*
71140275 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
* * ** * * * *
71140325 TAGTAGCTTGCACTTAGTACTACACATGTGA-TTGAA-GTTGTTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT-AACCAT-CT-GATACACG
* * * * *
71140376 TAGTAGCCTGCACTTAGTAATATACATGCGACCTAACTATCT-AGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGA-TACACG
* * * * *
71140426 TAGTAGCCTACACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGATACACG
*
71140478 TAGTAGCCTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
71140508 TTCTCACAAT
Statistics
Matches: 183, Mismatches: 40, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
49 32 0.17
50 76 0.42
51 35 0.19
52 39 0.21
53 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
Found at i:71140410 original size:101 final size:101
Alignment explanation
Indices: 71140267--71140456 Score: 274
Period size: 101 Copynumber: 1.9 Consensus size: 101
71140257 CCAACAATCC
* * *
71140267 GGTACGCGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCT-GATACACGTAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTAATACACACGCGACCTAACCATCTAG-TACACGTAGTAG
* * *
71140331 CTTGCACTTAGTACTACACATGTGATTGAAGTTGTTG
65 CCTACACTTAGTACTACACACGTGATTGAAGTTGTTG
* * * *
71140368 GGTACGCATAGTAGCCTGCACTTAGTAATATACATGCGACCTAACTATCTAGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTAATACACACGCGACCTAACCATCTAGTACACGTAGTAGC
71140433 CTACACTTAGTACTACACACGTGA
66 CTACACTTAGTACTACACACGTGA
71140457 CCTAAAACCA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 77 0.99
102 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (101 bp):
GGTACGCATAGTAGCCTGCACTTAGTAATACACACGCGACCTAACCATCTAGTACACGTAGTAGC
CTACACTTAGTACTACACACGTGATTGAAGTTGTTG
Found at i:71143953 original size:46 final size:46
Alignment explanation
Indices: 71143903--71144078 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
71143893 TGGTTGAGCA
71143903 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
71143949 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
71143994 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
71144042 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
71144079 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:71144059 original size:93 final size:93
Alignment explanation
Indices: 71143900--71144070 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
71143890 GGATGGTTGA
* *
71143900 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71143965 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
71143993 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
71144058 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
71144071 ACTTATGGGC
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:71145560 original size:24 final size:24
Alignment explanation
Indices: 71145497--71145569 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
71145487 AGACTCACCA
* * *
71145497 CAGCTCATATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACTG-T-TCT
* *
71145523 CAACTCGTAAGAGCTTACTGTTCT
1 CAGCTCGTATGAGCTTACTGTTCT
71145547 CAGCTCGTATGAGCTTACTGTTC
1 CAGCTCGTATGAGCTTACTGTTC
71145570 AACTAGTCAG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
24 23 0.57
25 1 0.03
26 16 0.40
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACTGTTCT
Found at i:71145585 original size:22 final size:23
Alignment explanation
Indices: 71145522--71145614 Score: 75
Period size: 23 Copynumber: 4.0 Consensus size: 23
71145512 TACCGATATA
71145522 TCAACTCGTAAGAGCTTACTGTTC
1 TCAACTCGT-AGAGCTTACTGTTC
*
71145546 TCAGCTCGTATGAGCTTACTG-T-
1 TCAACTCGTA-GAGCTTACTGTTC
* *
71145568 TCAACTAGTCAGAGCTTACTATT-
1 TCAACTCGT-AGAGCTTACTGTTC
* * *
71145591 TCAGCTCAATAGAGCTTACAGTTC
1 TCAACTC-GTAGAGCTTACTGTTC
71145615 ATCAGCTCAG
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
22 16 0.29
23 20 0.36
24 19 0.35
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (23 bp):
TCAACTCGTAGAGCTTACTGTTC
Found at i:71145615 original size:45 final size:46
Alignment explanation
Indices: 71145497--71145615 Score: 125
Period size: 45 Copynumber: 2.5 Consensus size: 46
71145487 AGACTCACCA
* * *
71145497 CAGCTCATATGAGCTTACCGATATATCAACTCGTAAGAGCTTACTGTTCT
1 CAGCTCATATGAGCTTA-C-A-GT-TCAACTAGTAAGAGCTTACTATTCT
* * *
71145547 CAGCTCGTATGAGCTTACTGTTCAACTAGTCAGAGCTTACTATT-T
1 CAGCTCATATGAGCTTACAGTTCAACTAGTAAGAGCTTACTATTCT
71145592 CAGCTCA-ATAGAGCTTACAGTTCA
1 CAGCTCATAT-GAGCTTACAGTTCA
71145616 TCAGCTCAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
44 2 0.03
45 20 0.33
46 20 0.33
47 1 0.02
49 1 0.02
50 16 0.27
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (46 bp):
CAGCTCATATGAGCTTACAGTTCAACTAGTAAGAGCTTACTATTCT
Found at i:71147096 original size:29 final size:29
Alignment explanation
Indices: 71147063--71147194 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
71147053 GTGACGAGAT
*
71147063 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
71147092 TGGCACCAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
71147121 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
71147150 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
71147179 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
71147195 AGCTCGAAGG
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:71152193 original size:30 final size:30
Alignment explanation
Indices: 71152159--71152218 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
71152149 GGAAAAATCA
71152159 ATGAATGAACTTGGATGCAAGAAGCTTAAT
1 ATGAATGAACTTGGATGCAAGAAGCTTAAT
71152189 ATGAATGAACTTGGATGCAAGAAGCTTAAT
1 ATGAATGAACTTGGATGCAAGAAGCTTAAT
71152219 GGCCTTGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (30 bp):
ATGAATGAACTTGGATGCAAGAAGCTTAAT
Found at i:71152915 original size:20 final size:20
Alignment explanation
Indices: 71152892--71152937 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
71152882 TAAGCTCGGT
71152892 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACGAGCTGAAA
* *
71152912 TGAGCTCAAATGAGCTGAAT
1 TGAGCTCAAACGAGCTGAAA
71152932 TGAGCT
1 TGAGCT
71152938 GGATGGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGAAA
Found at i:71152938 original size:10 final size:10
Alignment explanation
Indices: 71152892--71152938 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
71152882 TAAGCTCGGT
*
71152892 TGAGCTCAAA
1 TGAGCTGAAA
*
71152902 CGAGCTGAAA
1 TGAGCTGAAA
*
71152912 TGAGCTCAAA
1 TGAGCTGAAA
*
71152922 TGAGCTGAAT
1 TGAGCTGAAA
71152932 TGAGCTG
1 TGAGCTG
71152939 GATGGAGCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (10 bp):
TGAGCTGAAA
Found at i:71155976 original size:35 final size:35
Alignment explanation
Indices: 71155933--71156028 Score: 122
Period size: 35 Copynumber: 2.7 Consensus size: 35
71155923 AGTCCATCTG
*
71155933 AAACACACCAATGCTTGTAAGAGCTAATCCCTCCA
1 AAACACACCAATGCTTGTAAGAACTAATCCCTCCA
* *
71155968 AAATACACCAATG-TTCGTAAAAACTAATCCCTCCA
1 AAACACACCAATGCTT-GTAAGAACTAATCCCTCCA
* * *
71156003 AAACACATCAATACTTATAAGAACTA
1 AAACACACCAATGCTTGTAAGAACTA
71156029 GTCCAACCGA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
34 2 0.04
35 47 0.92
36 2 0.04
ACGTcount: A:0.44, C:0.27, G:0.07, T:0.22
Consensus pattern (35 bp):
AAACACACCAATGCTTGTAAGAACTAATCCCTCCA
Found at i:71167562 original size:93 final size:93
Alignment explanation
Indices: 71167450--71167621 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
71167440 CGCCCATAAG
* *
71167450 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71167515 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
71167543 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71167608 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
71167622 TCTACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:71167637 original size:46 final size:47
Alignment explanation
Indices: 71167443--71167618 Score: 220
Period size: 46 Copynumber: 3.8 Consensus size: 47
71167433 TGTAACCCGC
* * *
71167443 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-GCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
*
71167489 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
* *
71167539 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
71167582 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71167619 TGCTCTACCA
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 63 0.56
47 29 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:71170045 original size:30 final size:30
Alignment explanation
Indices: 71170001--71170089 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
71169991 CAAAGATAAC
71170001 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
71170030 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
71170060 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
71170090 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:71170049 original size:15 final size:15
Alignment explanation
Indices: 71170001--71170080 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
71169991 CAAAGATAAC
*
71170001 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
71170015 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
71170030 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
71170045 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
71170060 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
71170075 AAGAAA
1 AAGAAA
71170081 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:71170089 original size:15 final size:15
Alignment explanation
Indices: 71170012--71170089 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
71170002 AGAAAACCGA
71170012 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
71170027 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
71170041 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
71170056 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
71170072 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
71170087 ATA
1 ATA
71170090 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Done.