Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 137 of 297
Found at i:47023547 original size:39 final size:39
Alignment explanation
Indices: 47023452--47023625 Score: 248
Period size: 39 Copynumber: 4.4 Consensus size: 39
47023442 TTGAATGATG
*
47023452 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
47023490 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
47023531 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
47023570 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
47023609 TCCGGGCTAAGCCCGAA
1 TCCGGGCTAAGCCCGAA
47023626 TACTAATTTC
Statistics
Matches: 125, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
39 101 0.81
40 12 0.10
41 11 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:47023633 original size:24 final size:24
Alignment explanation
Indices: 47023601--47023649 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
47023591 TTTGTGCGAG
47023601 ATACTAATTCCGGGCTAAGCCCGA
1 ATACTAATTCCGGGCTAAGCCCGA
*
47023625 ATACTAATTTCGGGCTAAGCCCGA
1 ATACTAATTCCGGGCTAAGCCCGA
47023649 A
1 A
47023650 GGCATTTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (24 bp):
ATACTAATTCCGGGCTAAGCCCGA
Found at i:47023661 original size:63 final size:63
Alignment explanation
Indices: 47023562--47023688 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
47023552 TTTGTGCGAG
47023562 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGA
1 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGA
*
47023625 ATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGA
1 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGA
47023688 A
1 A
47023689 GGCATTTGTG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (63 bp):
ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGA
Found at i:47023679 original size:39 final size:39
Alignment explanation
Indices: 47023625--47023893 Score: 434
Period size: 39 Copynumber: 6.8 Consensus size: 39
47023615 CTAAGCCCGA
*
47023625 ATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAG
1 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
47023664 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
1 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
47023703 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
1 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
47023742 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
1 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
47023781 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
1 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
* * *
47023820 TTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-
1 ATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAG
* *
47023859 ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTG
1 A-TACTAAT-TCCGGGCTAAG-CCCGAAGGCATTTG
47023894 AACGAGGAGC
Statistics
Matches: 218, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 172 0.79
40 46 0.21
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
Found at i:47023699 original size:102 final size:102
Alignment explanation
Indices: 47023523--47023727 Score: 401
Period size: 102 Copynumber: 2.0 Consensus size: 102
47023513 TTTGTGCGAG
47023523 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAG
1 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAG
47023588 GCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGA
66 GCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGA
*
47023625 ATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAG
1 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAG
47023690 GCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGA
66 GCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGA
47023727 A
1 A
47023728 GGCATTTGTG
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (102 bp):
ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAG
GCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGA
Found at i:47023766 original size:180 final size:181
Alignment explanation
Indices: 47023454--47023805 Score: 606
Period size: 180 Copynumber: 2.0 Consensus size: 181
47023444 GAATGATGTC
* *
47023454 CGGGCTAAGTCCCGAAGGCTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATTTGTG
1 CGGGCTAAGTCCCGAAGGCTTGTGCGAAGTGACAATATCCGGACTAAGACCCGAAGGCATTTGTG
47023519 CGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
66 CGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
47023584 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAATACTAATTT
131 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAATACTAATTT
*
47023635 CGGGCTAAG-CCCGAAGGCATTTGTGCG-AGAT-ACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGC--TTGTGCGAAG-TGAC-AATATCCGGACTAAGACCCGAAGGCATT
47023695 TGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAA
62 TGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAA
47023760 GCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAA
127 GCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAA
47023806 GGCATTTGTG
Statistics
Matches: 164, Mismatches: 3, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
180 131 0.80
181 23 0.14
182 10 0.06
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (181 bp):
CGGGCTAAGTCCCGAAGGCTTGTGCGAAGTGACAATATCCGGACTAAGACCCGAAGGCATTTGTG
CGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCC
GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAATACTAATTT
Found at i:47034538 original size:17 final size:17
Alignment explanation
Indices: 47034516--47034560 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
47034506 TTTTATTCAT
*
47034516 GTGGGGCCCACGCCGTC
1 GTGGGGCCCACGCCATC
*
47034533 GTGGGGCCCACGCTATC
1 GTGGGGCCCACGCCATC
47034550 GTGGGGCCCAC
1 GTGGGGCCCAC
47034561 ATAGCCTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.09, C:0.38, G:0.40, T:0.13
Consensus pattern (17 bp):
GTGGGGCCCACGCCATC
Found at i:47041719 original size:12 final size:13
Alignment explanation
Indices: 47041702--47041733 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
47041692 ATAGCACATT
47041702 TCAAAAC-ATGCA
1 TCAAAACTATGCA
47041714 TCAAAACTATGCA
1 TCAAAACTATGCA
47041727 -CAAAACT
1 TCAAAACT
47041734 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:47048858 original size:12 final size:13
Alignment explanation
Indices: 47048841--47048872 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
47048831 ATAGCACATT
47048841 TCAAAAC-ATGCA
1 TCAAAACTATGCA
47048853 TCAAAACTATGCA
1 TCAAAACTATGCA
47048866 -CAAAACT
1 TCAAAACT
47048873 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:47062446 original size:20 final size:20
Alignment explanation
Indices: 47062423--47062460 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47062413 ATTTATTCGC
* *
47062423 GATTTTCAATATTTTGTAAA
1 GATTTTAAAAATTTTGTAAA
47062443 GATTTTAAAAATTTTGTA
1 GATTTTAAAAATTTTGTA
47062461 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.50
Consensus pattern (20 bp):
GATTTTAAAAATTTTGTAAA
Found at i:47063826 original size:59 final size:59
Alignment explanation
Indices: 47063731--47063842 Score: 215
Period size: 59 Copynumber: 1.9 Consensus size: 59
47063721 TCGGAAGGGA
*
47063731 TCTCAGTAGCAGTCGTCGCGAAACAGGTGTGTACCGAACACCCTTTCTTAGTTGAAGAG
1 TCTCAGTAGCAGTCGTCGCGAAACAGGTGTGCACCGAACACCCTTTCTTAGTTGAAGAG
47063790 TCTCAGTAGCAGTCGTCGCGAAACAGGTGTGCACCGAACACCCTTTCTTAGTT
1 TCTCAGTAGCAGTCGTCGCGAAACAGGTGTGCACCGAACACCCTTTCTTAGTT
47063843 CAATTCGGCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (59 bp):
TCTCAGTAGCAGTCGTCGCGAAACAGGTGTGCACCGAACACCCTTTCTTAGTTGAAGAG
Found at i:47074068 original size:47 final size:45
Alignment explanation
Indices: 47074000--47074214 Score: 146
Period size: 46 Copynumber: 4.6 Consensus size: 45
47073990 TGTGAGCTAA
47074000 TGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGAGCCAG
*** * * * *
47074046 TGTAAGACCATGTCTGGGACATGGCATC-AATATTGAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATATGAGAGCCAG
* * * * * * * *
47074094 TGTCAGACATGTCTAGGACCTACTTTGGCCTCGAAATGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATG-AGAGCCAG
* * * * *
47074140 TGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGATAGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCAC-ATATGAGAGCCAG
47074186 TGTAAGACCATGTCTGGGACATGGCATCG
1 TGTAAGA-CATGTCTGGGACAT-GCATCG
47074215 ACTTGAGATA
Statistics
Matches: 128, Mismatches: 31, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
45 1 0.01
46 59 0.46
47 41 0.32
48 26 0.20
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (45 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCACATATGAGAGCCAG
Found at i:47074187 original size:46 final size:46
Alignment explanation
Indices: 47074000--47074261 Score: 194
Period size: 47 Copynumber: 5.6 Consensus size: 46
47073990 TGTGAGCTAA
* *
47074000 TGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAGAGCCAG
** * * *
47074046 TGTAAGACCATGTCTGGGACATGGCATC-AATATTGAGACGAGAGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGAGAGCCAG
* * * * * * *
47074094 TGTCAGACATGTCTAGGACCTACTTTGGCCT-CGAAATGTA-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATG-AGAGCCAG
* * *
47074140 TGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGATAGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCCAG
* * *
47074186 TGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGAT-ATGAGCCAA
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGA-GAGCCAG
*
47074233 TGTAAGACCATGTTTGGGACATTGCATCG
1 TGTAAGA-CATGTCTGGGACA-TGCATCG
47074262 ACACCTTACC
Statistics
Matches: 170, Mismatches: 33, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
45 3 0.02
46 60 0.35
47 76 0.45
48 30 0.18
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCCAG
Found at i:47076305 original size:170 final size:171
Alignment explanation
Indices: 47076019--47076367 Score: 434
Period size: 170 Copynumber: 2.0 Consensus size: 171
47076009 TATATAAACT
* * * *
47076019 TTATGTGACAGCCCTAAAGTAACCCTAGTTGGAAAGCGATCTCGGGACCGCTAGACCGAGTCACC
1 TTATGTGACAGCCCAAAAGTAACCCTAGTCGGAAAGCGATCTCAGGACCGCTAAACCGAGTCACC
* * * *
47076084 AAATTATTTGAATGTGATAATTATTGCCTAAAATATGTGAATATAAATGTGTGAAAGTTTTAAGC
66 AAATTATTCGAATGTGATAATTATGGCCTAAAATATGTGAATATAAATGTGTGAAAATTTCAAGC
* **
47076149 TTCGATTTAGTTAATTGCATGTCA-ATTTAGTTGATAGGAC
131 TTCGATTTAGTCAATTGCATGTCAGATTTAGTAAATAGGAC
* * * * * *
47076189 TTATGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTCAGGACCGCTAAACCGAGTCACC
1 TTATGTGACAGCCCAAAAGTAACCCTAGTCGGAAAGCGATCTCAGGACCGCTAAACCGAGTCACC
* * * * *
47076254 GAAA-TGTTCGAATGTGATATTTATGGTCTAGAATATGT-AATTATGAATGTGTGAAAATTTCAA
66 -AAATTATTCGAATGTGATAATTATGGCCTAAAATATGTGAA-TATAAATGTGTGAAAATTTCAA
* * *
47076317 GCTTCGATTTAGTCGATTGCATGTGAGTTTTAGTAAATAGGAC
129 GCTTCGATTTAGTCAATTGCATGTCAGATTTAGTAAATAGGAC
47076360 TTATGTGA
1 TTATGTGA
47076368 GAAAATTTTG
Statistics
Matches: 151, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
169 2 0.01
170 125 0.83
171 24 0.16
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.32
Consensus pattern (171 bp):
TTATGTGACAGCCCAAAAGTAACCCTAGTCGGAAAGCGATCTCAGGACCGCTAAACCGAGTCACC
AAATTATTCGAATGTGATAATTATGGCCTAAAATATGTGAATATAAATGTGTGAAAATTTCAAGC
TTCGATTTAGTCAATTGCATGTCAGATTTAGTAAATAGGAC
Found at i:47077931 original size:79 final size:81
Alignment explanation
Indices: 47077795--47077979 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
47077785 TTGAATGATG
*
47077795 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
47077859 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
47077874 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
47077936 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
47077954 ACCGGGTTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47077980 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:47077986 original size:40 final size:40
Alignment explanation
Indices: 47077795--47077979 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
47077785 TTGAATGATG
* * * * *
47077795 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
47077835 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47077875 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
47077914 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47077955 -CCGGGTTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
47077980 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 35 0.27
40 83 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47078001 original size:79 final size:79
Alignment explanation
Indices: 47077848--47078012 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
47077838 GGACTAAGAT
* **
47077848 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
47077913 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
47077927 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGTTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
47077990 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
47078006 CCGAAGG
1 CCGAAGG
47078013 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:47096439 original size:16 final size:16
Alignment explanation
Indices: 47096418--47096468 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
47096408 GTAAATCCCA
47096418 AAATGCTGAAAAGTCG
1 AAATGCTGAAAAGTCG
* *
47096434 AAATGCCGAAAAGCCG
1 AAATGCTGAAAAGTCG
*
47096450 AAATG-TCGAAAAGTTG
1 AAATGCT-GAAAAGTCG
47096466 AAA
1 AAA
47096469 GTTTAGCTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.47, C:0.14, G:0.24, T:0.16
Consensus pattern (16 bp):
AAATGCTGAAAAGTCG
Found at i:47096726 original size:29 final size:29
Alignment explanation
Indices: 47096684--47096803 Score: 152
Period size: 29 Copynumber: 4.2 Consensus size: 29
47096674 CATGTATACA
*
47096684 AATGTGATTTGGGCCTAATGGGCCGTATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* *
47096713 AATGTTATTTGGGCCTAATGGGCCATACG
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
47096742 AATATGATTTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * * *
47096771 AATGAGA-TTAGGCCTAGTGGGCTATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
47096799 CATGT
1 AATGT
47096804 ATGTAGACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 21 0.27
29 57 0.73
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:47100958 original size:16 final size:16
Alignment explanation
Indices: 47100937--47100971 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
47100927 GCAAATCCCA
* *
47100937 AAATGCTGAAAAGCTG
1 AAATGCCGAAAAGCCG
47100953 AAATGCCGAAAAGCCG
1 AAATGCCGAAAAGCCG
47100969 AAA
1 AAA
47100972 GTTTAGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (16 bp):
AAATGCCGAAAAGCCG
Found at i:47101222 original size:29 final size:29
Alignment explanation
Indices: 47101180--47101303 Score: 162
Period size: 29 Copynumber: 4.3 Consensus size: 29
47101170 GAAAGCATGT
*
47101180 ATATGAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
47101209 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * * *
47101238 CTACGAATATGATTTGGGCCT-GTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
47101266 ATATGAATGAGA-TTGGGCATAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
47101294 ATATGCATGT
1 ATATGAATGT
47101304 ATGTAGACTT
Statistics
Matches: 81, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
27 7 0.09
28 28 0.35
29 46 0.57
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:47103142 original size:45 final size:45
Alignment explanation
Indices: 47103078--47103167 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
47103068 GCTTTATATT
47103078 ATGGAAGAAAGAATAATTAAAAGAAGGAAAGAGAGATAGAAACAA
1 ATGGAAGAAAGAATAATTAAAAGAAGGAAAGAGAGATAGAAACAA
* * *
47103123 ATGGAAGAAAGAATAATTAAAATAATGAAAGAGTGATAGAAACAA
1 ATGGAAGAAAGAATAATTAAAAGAAGGAAAGAGAGATAGAAACAA
47103168 GGTATGTCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.61, C:0.02, G:0.22, T:0.14
Consensus pattern (45 bp):
ATGGAAGAAAGAATAATTAAAAGAAGGAAAGAGAGATAGAAACAA
Found at i:47104854 original size:39 final size:40
Alignment explanation
Indices: 47104737--47104920 Score: 195
Period size: 40 Copynumber: 4.7 Consensus size: 40
47104727 GCTCCTCGTT
*
47104737 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
47104777 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
47104817 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * *
47104856 CAAATGCCTTC-GGATCTTAGTCCGAATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-ATC-TCGCA
47104897 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47104921 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
38 2 0.02
39 49 0.40
40 63 0.51
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:47104914 original size:79 final size:81
Alignment explanation
Indices: 47104737--47104920 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
47104727 GCTCCTCGTT
* *
47104737 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
* *
47104801 GATTTAGTAACTCGCA
66 AATTTAGTAACTAGCA
**
47104817 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
*
47104878 CGAATATT-GTCACTTAGCA
64 CGAAT-TTAGTAAC-TAGCA
47104897 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47104921 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
AATTTAGTAACTAGCA
Found at i:47107233 original size:37 final size:37
Alignment explanation
Indices: 47107180--47107281 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
47107170 CGAATAGTCC
*
47107180 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
47107217 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
47107254 CCACACATAGTC-TCGGGTCTTACTCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
47107282 GTATATTTCC
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 15 0.25
37 46 0.75
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:47107562 original size:89 final size:89
Alignment explanation
Indices: 47107461--47108400 Score: 1817
Period size: 89 Copynumber: 10.6 Consensus size: 89
47107451 GGCTTTACCA
* *
47107461 CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACACATATATATTTAT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
47107526 CTTGTACATCAATTTCAGCAATAG
66 CTTGTACATCAATTTCAGCAATAG
* *
47107550 CATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCACACACATATATATTTAT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
47107615 CTTGTACATCAATTTCAGCAATAG
66 CTTGTACATCAATTTCAGCAATAG
* *
47107639 CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACACATATATATTTAT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
47107704 CTTGTACATCAATTTCAGCAATAG
66 CTTGTACATCAATTTCAGCAATAG
47107728 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
47107793 CTTGTACATCAATTTCAGCAATAG
66 CTTGTACATCAATTTCAGCAATAG
47107817 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
47107882 CTTGTACATCAATTTCAGCAATAG
66 CTTGTACATCAATTTCAGCAATAG
47107906 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
47107971 CTTGTACATCAATTTCAGCAATAG
66 CTTGTACATCAATTTCAGCAATAG
47107995 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
47108060 CTTGTACATCAATTTCAGCAATAG
66 CTTGTACATCAATTTCAGCAATAG
47108084 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
47108149 CTTGTACATCAATTTCAGCAATAG
66 CTTGTACATCAATTTCAGCAATAG
47108173 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
47108238 CTTGTACATCAATTTCAGCAATAG
66 CTTGTACATCAATTTCAGCAATAG
47108262 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
1 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
47108327 CTTGTACATCAATTTCAGCAATAG
66 CTTGTACATCAATTTCAGCAATAG
*
47108351 CATATACATATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACA
1 CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACA
47108401 TATACCTATC
Statistics
Matches: 844, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 844 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.36
Consensus pattern (89 bp):
CATATACATATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACACACATATATATTTAT
CTTGTACATCAATTTCAGCAATAG
Found at i:47108472 original size:54 final size:48
Alignment explanation
Indices: 47108351--47108448 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
47108341 TCAGCAATAG
*
47108351 CATATACATATCTCATACATATTTCACACTAGCCATTCAGCTTTACCA
1 CATATACCTATCTCATACATATTTCACACTAGCCATTCAGCTTTACCA
*
47108399 CATATACCTATCTCATACATATTTCACATTAGCCATTCAGCTTTACCA
1 CATATACCTATCTCATACATATTTCACACTAGCCATTCAGCTTTACCA
47108447 CA
1 CA
47108449 CACATATATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.34
Consensus pattern (48 bp):
CATATACCTATCTCATACATATTTCACACTAGCCATTCAGCTTTACCA
Found at i:47111451 original size:44 final size:44
Alignment explanation
Indices: 47111403--47111487 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
47111393 ATTTTTGATA
*
47111403 TCTGTTCTGCATGTAAGACCATGTCT-ATGACGTTGGCATCGACT
1 TCTGTTCTGCATGTAAGACCATGTCTGA-GACATTGGCATCGACT
* ***
47111447 TCTGTTTTTTGTGTAAGACCATGTCTGAGACATTGGCATCG
1 TCTGTTCTGCATGTAAGACCATGTCTGAGACATTGGCATCG
47111488 TATTTGATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 34 0.97
45 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (44 bp):
TCTGTTCTGCATGTAAGACCATGTCTGAGACATTGGCATCGACT
Found at i:47111526 original size:42 final size:43
Alignment explanation
Indices: 47111414--47111560 Score: 126
Period size: 42 Copynumber: 3.4 Consensus size: 43
47111404 CTGTTCTGCA
* * *
47111414 TGTAAGACCATGTCT-ATGAC-GTTGGCATCGACT-TCTGTTTTTTG
1 TGTAAGACCATGTCTGA-GACAG-TGGCATCGA-TATTTG-ATTTCG
*
47111458 TGTAAGACCATGTCTGAGACATTGGCATCG-TATTTGATTTCG
1 TGTAAGACCATGTCTGAGACAGTGGCATCGATATTTGATTTCG
* * * *
47111500 TGTAAGACCCA-GTCTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGA-CCATGTCTGAGACAGTGGCATCGATATTTGATTTCG
*
47111543 TGTATGACCATGTC-GAGA
1 TGTAAGACCATGTCTGAGA
47111561 ACGTCGACAT
Statistics
Matches: 86, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
42 35 0.41
43 24 0.28
44 26 0.30
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGAGACAGTGGCATCGATATTTGATTTCG
Found at i:47120148 original size:4 final size:4
Alignment explanation
Indices: 47120139--47120167 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
47120129 AGCAAACGTG
47120139 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
47120168 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:47127420 original size:18 final size:18
Alignment explanation
Indices: 47127399--47127433 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
47127389 TCCAAAAGAA
47127399 ATTTTTAATTTTATTTGC
1 ATTTTTAATTTTATTTGC
47127417 ATTTTTAATTTTATTTG
1 ATTTTTAATTTTATTTG
47127434 TTTATGCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.06, T:0.69
Consensus pattern (18 bp):
ATTTTTAATTTTATTTGC
Found at i:47129655 original size:17 final size:17
Alignment explanation
Indices: 47129635--47129670 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
47129625 TGATTATGAT
47129635 ATGGTTCTGGTATATAA
1 ATGGTTCTGGTATATAA
47129652 ATGGTTCTGGTATATAA
1 ATGGTTCTGGTATATAA
47129669 AT
1 AT
47129671 TATGAGGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.42
Consensus pattern (17 bp):
ATGGTTCTGGTATATAA
Found at i:47129932 original size:48 final size:48
Alignment explanation
Indices: 47129880--47129975 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
47129870 TATCATGAAT
*
47129880 GGATTATGTTTTGGTTGTGAATTGGTCATAGAATGTTGTGCAAATAAG
1 GGATTATGTTTTGGTCGTGAATTGGTCATAGAATGTTGTGCAAATAAG
47129928 GGATTATGTTTTGGTCGTGAATTGGTCATAGAATGTTGTGCAAATAAG
1 GGATTATGTTTTGGTCGTGAATTGGTCATAGAATGTTGTGCAAATAAG
47129976 TTTGGTTTGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.27, C:0.05, G:0.29, T:0.39
Consensus pattern (48 bp):
GGATTATGTTTTGGTCGTGAATTGGTCATAGAATGTTGTGCAAATAAG
Found at i:47130946 original size:21 final size:24
Alignment explanation
Indices: 47130920--47130966 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
47130910 TTACTCCAAG
47130920 GAAGCCG-ATT-A-ATCCATCTCA
1 GAAGCCGAATTCACATCCATCTCA
47130941 GAAGCCGAATTCATCATCCATCTCA
1 GAAGCCGAATTCA-CATCCATCTCA
47130966 G
1 G
47130967 GAGTTTTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.32
22 3 0.14
23 1 0.05
25 11 0.50
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (24 bp):
GAAGCCGAATTCACATCCATCTCA
Found at i:47131509 original size:31 final size:31
Alignment explanation
Indices: 47131471--47131534 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
47131461 TCCCAACGTT
*
47131471 CACTTAGCGAACTTCTTGGAACTATGCGATA
1 CACTTAGCGAACTTCTAGGAACTATGCGATA
47131502 CACTTAGCGAACTTCTAGGAACTATGCGATA
1 CACTTAGCGAACTTCTAGGAACTATGCGATA
47131533 CA
1 CA
47131535 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (31 bp):
CACTTAGCGAACTTCTAGGAACTATGCGATA
Found at i:47133509 original size:17 final size:18
Alignment explanation
Indices: 47133477--47133515 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
47133467 TGAATGGCAA
47133477 ACACATAAACCGAAAAC-
1 ACACATAAACCGAAAACT
47133494 ACACGATAAACC-AAAACT
1 ACAC-ATAAACCGAAAACT
47133512 ACAC
1 ACAC
47133516 CAGAACAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.56, C:0.31, G:0.05, T:0.08
Consensus pattern (18 bp):
ACACATAAACCGAAAACT
Found at i:47147467 original size:27 final size:26
Alignment explanation
Indices: 47147437--47147508 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
47147427 CAACAAGACG
*
47147437 TTAAACATGGGATAGTCTATTGGGACA
1 TTAAACA-GGGATAGTCTAATGGGACA
*
47147464 TTAAATAGGGTATAGTCTAATGGGACA
1 TTAAACAGGG-ATAGTCTAATGGGACA
*
47147491 TTAAACACAGGATAGTCT
1 TTAAACA-GGGATAGTCT
47147509 GATAAGATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 3 0.08
27 34 0.87
28 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (26 bp):
TTAAACAGGGATAGTCTAATGGGACA
Found at i:47160252 original size:45 final size:45
Alignment explanation
Indices: 47160168--47160253 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
47160158 TATATGCCTA
* * *
47160168 AAATGAGTAAAACCATAATTGAAAGATGCTATGGCATCATGATAT
1 AAATGAGTAAAACCATAACTGAAAGATGCTAAGACATCATGATAT
* ** *
47160213 AAATGAGTAAGACCATGGCTGAAAGATGCTAAGATATCATG
1 AAATGAGTAAAACCATAACTGAAAGATGCTAAGACATCATG
47160254 TGAAAGCATG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (45 bp):
AAATGAGTAAAACCATAACTGAAAGATGCTAAGACATCATGATAT
Found at i:47160464 original size:27 final size:27
Alignment explanation
Indices: 47160390--47160480 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 27
47160380 ACGACATCAT
47160390 AGATAGTCCGATGGGACGTTAAACACG
1 AGATAGTCCGATGGGACGTTAAACACG
** *** * *
47160417 AGATAGTTTGACAAGAAGTTAAACATG
1 AGATAGTCCGATGGGACGTTAAACACG
*
47160444 -GCATAGTCCGATGGGACGTTAAACACA
1 AG-ATAGTCCGATGGGACGTTAAACACG
*
47160471 AGGTAGTCCG
1 AGATAGTCCG
47160481 TCAGGAAAGT
Statistics
Matches: 46, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
26 1 0.02
27 44 0.96
28 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.21
Consensus pattern (27 bp):
AGATAGTCCGATGGGACGTTAAACACG
Found at i:47163290 original size:26 final size:25
Alignment explanation
Indices: 47163223--47163295 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
47163213 TCCCATCCCT
*
47163223 ATTTTACCCTAGCAAAATTTTGATG
1 ATTTTACCCTAGTAAAATTTTGATG
* *
47163248 ATTTTACCATTGATAAAATTTTGATG
1 ATTTTACCCTAG-TAAAATTTTGATG
*
47163274 ATTTTGGCCCTAGTAAAATTTT
1 ATTTT-ACCCTAGTAAAATTTT
47163296 AAAAAAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 10 0.25
26 26 0.65
27 4 0.10
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (25 bp):
ATTTTACCCTAGTAAAATTTTGATG
Found at i:47170473 original size:31 final size:31
Alignment explanation
Indices: 47170438--47170549 Score: 136
Period size: 31 Copynumber: 3.6 Consensus size: 31
47170428 TACATGGTAC
47170438 AAATATGCAATTATGAATGATTACAGAGTAT
1 AAATATGCAATTATGAATGATTACAGAGTAT
* * *
47170469 AAATATGCAGTTATGAATGATTATAGGGTAT
1 AAATATGCAATTATGAATGATTACAGAGTAT
* * * *
47170500 AAATATACAATTATAAATGATTGCAGTGTAT
1 AAATATGCAATTATGAATGATTACAGAGTAT
*
47170531 GAAA-ATGCAAATATGAATG
1 -AAATATGCAATTATGAATG
47170550 GTTGATGGCC
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
31 65 0.96
32 3 0.04
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (31 bp):
AAATATGCAATTATGAATGATTACAGAGTAT
Found at i:47170511 original size:62 final size:62
Alignment explanation
Indices: 47170433--47170549 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 62
47170423 GATAGTACAT
* * **
47170433 GGTACAAATATGCAATTATGAATGATTACAGAGTAT-AAATATGCAGTTATGAATGATTATAG
1 GGTACAAATATACAATTATAAATGATTACAGAGTATGAAA-ATGCAAATATGAATGATTATAG
* * *
47170495 GGTATAAATATACAATTATAAATGATTGCAGTGTATGAAAATGCAAATATGAATG
1 GGTACAAATATACAATTATAAATGATTACAGAGTATGAAAATGCAAATATGAATG
47170550 GTTGATGGCC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
62 44 0.94
63 3 0.06
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.32
Consensus pattern (62 bp):
GGTACAAATATACAATTATAAATGATTACAGAGTATGAAAATGCAAATATGAATGATTATAG
Found at i:47171333 original size:105 final size:105
Alignment explanation
Indices: 47171146--47171354 Score: 364
Period size: 105 Copynumber: 2.0 Consensus size: 105
47171136 AGCTAGATCA
* *
47171146 TTGCGGACATCATACTATCATCGAAACAGTACAATTATGTTCATTTTGAATCCTAATATTGTGGC
1 TTGCAGACATCATACTATCATCGAAACAGTACAATTATATTCATTTTGAATCCTAATATTGTGGC
*
47171211 CTGTATATAGGGTCTTTATTATAGAAATGATCATCCCTAC
66 CCGTATATAGGGTCTTTATTATAGAAATGATCATCCCTAC
*
47171251 TTGCAGACATCATACTATCATCGAAACAGTACAATTATATTCATTTTGAGTCCTAATATTGTGGC
1 TTGCAGACATCATACTATCATCGAAACAGTACAATTATATTCATTTTGAATCCTAATATTGTGGC
* *
47171316 CCGTATATAGGGTCTTTATTATGGAAATGATTATCCCTA
66 CCGTATATAGGGTCTTTATTATAGAAATGATCATCCCTA
47171355 TTTGTGAGTG
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 98 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (105 bp):
TTGCAGACATCATACTATCATCGAAACAGTACAATTATATTCATTTTGAATCCTAATATTGTGGC
CCGTATATAGGGTCTTTATTATAGAAATGATCATCCCTAC
Found at i:47172774 original size:13 final size:13
Alignment explanation
Indices: 47172756--47172782 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47172746 GCTTGGCAGG
47172756 GACACGCCCGTGT
1 GACACGCCCGTGT
47172769 GACACGCCCGTGT
1 GACACGCCCGTGT
47172782 G
1 G
47172783 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:47181859 original size:20 final size:20
Alignment explanation
Indices: 47181832--47181873 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
47181822 TAAATTTTAA
*
47181832 ATTTAACCCTTA-AAAATGC
1 ATTTAACCCTCATAAAATGC
*
47181851 ATTTCAACCGTCATAAAATGC
1 ATTT-AACCCTCATAAAATGC
47181872 AT
1 AT
47181874 ACCTTAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 9 0.47
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.31
Consensus pattern (20 bp):
ATTTAACCCTCATAAAATGC
Found at i:47183776 original size:18 final size:18
Alignment explanation
Indices: 47183753--47183789 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
47183743 CTTGTTTTTG
47183753 TAAGCTGAAATACTCATA
1 TAAGCTGAAATACTCATA
47183771 TAAGCTGAAATACTCATA
1 TAAGCTGAAATACTCATA
47183789 T
1 T
47183790 TCAATAACTT
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:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (18 bp):
TAAGCTGAAATACTCATA
Found at i:47199493 original size:76 final size:76
Alignment explanation
Indices: 47199382--47199532 Score: 275
Period size: 76 Copynumber: 2.0 Consensus size: 76
47199372 ACAACCCTCT
*
47199382 AAAGACCTTTTGATTGATGTATCATCTCAAATTATAGTGGTGGAGATTTGATTTTCATGCAAGCC
1 AAAGACCTTTTGATTGATGTATCATCTCAAATTATAGTGGTGGAGATGTGATTTTCATGCAAGCC
*
47199447 TATGGTAATGA
66 TATCGTAATGA
*
47199458 AAAGACCTTTTGATTGATGTATCATCTCAATTTATAGTGGTGGAGATGTGATTTTCATGCAAGCC
1 AAAGACCTTTTGATTGATGTATCATCTCAAATTATAGTGGTGGAGATGTGATTTTCATGCAAGCC
47199523 TATCGTAATG
66 TATCGTAATG
47199533 CTTTTCATTA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (76 bp):
AAAGACCTTTTGATTGATGTATCATCTCAAATTATAGTGGTGGAGATGTGATTTTCATGCAAGCC
TATCGTAATGA
Found at i:47202722 original size:48 final size:47
Alignment explanation
Indices: 47202565--47202749 Score: 148
Period size: 48 Copynumber: 3.9 Consensus size: 47
47202555 TAGGGATATG
*
47202565 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATCAATA
1 TGTGATCCCATGTAAGACCATGTCT-GGACATGGCATTGGCATCAATA
* * * * * *
47202613 TGAGA-CATCGTGTAAGACCATAG-CTGGGC-T---ATCGGCTTCAATA
1 TGTGATC-CCATGTAAGACCAT-GTCTGGACATGGCATTGGCATCAATA
* * * *
47202656 TGCATGATCCAATATAAGACCATGTCTGGAACATGGTATTGGCATCGATA
1 TG--TGATCCCATGTAAGACCATGTCTGG-ACATGGCATTGGCATCAATA
* *
47202706 TGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCT-GGACATGGCATTGGCATC
47202750 CTACTATGTG
Statistics
Matches: 104, Mismatches: 21, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
43 12 0.12
44 1 0.01
45 16 0.15
46 3 0.03
47 5 0.05
48 52 0.50
49 3 0.03
50 12 0.12
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (47 bp):
TGTGATCCCATGTAAGACCATGTCTGGACATGGCATTGGCATCAATA
Found at i:47228618 original size:341 final size:340
Alignment explanation
Indices: 47227995--47228676 Score: 1346
Period size: 341 Copynumber: 2.0 Consensus size: 340
47227985 CTTCGAATGT
*
47227995 CGAGTCTGTTCCTAATTTTGAATAGACATAAATATCAAATAAAGTGAAAATTATTAGCATTAAGA
1 CGAGTCTGGTCCTAATTTTGAATAGACATAAATATCAAATAAAGTGAAAATTATTAGCATTAAGA
47228060 GAAGAACAAAAAACCATCATAGGAATTTCATATCTTTACATAAGCATTATCAATATTGATGTCAA
66 GAAGAACAAAAAACCATCATAGGAATTTCATATCTTTACATAAGCATTATCAATATTGATGTCAA
47228125 AAAGTGTATGAGCATGGGTCATCATTCATTCAAGTAACAATCATTAATTTCAATACCATTCCATA
131 AAAGTGTATGAGCATGGGTCATCATTCATTCAAGTAACAATCATTAATTTCAATACCATTCCATA
47228190 CAACAAAATACAATATGTAGCATAAATCAATAACATTCGAATATGTCATGCACATGATGCAATGC
196 CAACAAAATACAATATGTAGCATAAATCAATAACATTCGAATATGTCATGCACATGATGCAATGC
47228255 AAAAAGGTTCTTACCCATACCATCCGCTACACACCACGAGTTCCCCAAAACCCATCATCTGAACT
261 AAAAAGGTTCTTACCCATACCATCCGCTACACACCACGAGTTCCCCAAAACCCATCATCTGAACT
47228320 CCAAAACATTACGGG
326 CCAAAACATTACGGG
47228335 NCGAGTCTGGTCCTAATTTTGAATAGACATAAATATCAAATAAAGTGAAAATTATTAGCATTAAG
1 -CGAGTCTGGTCCTAATTTTGAATAGACATAAATATCAAATAAAGTGAAAATTATTAGCATTAAG
47228400 AGAAGAACAAAAAACCATCATAGGAATTTCATATCTTTACATAAGCATTATCAATATTGATGTCA
65 AGAAGAACAAAAAACCATCATAGGAATTTCATATCTTTACATAAGCATTATCAATATTGATGTCA
47228465 AAAAGTGTATGAGCATGGGTCATCATTCATTCAAGTAACAATCATTAATTTCAATACCATTCCAT
130 AAAAGTGTATGAGCATGGGTCATCATTCATTCAAGTAACAATCATTAATTTCAATACCATTCCAT
47228530 ACAACAAAATACAATATGTAGCATAAATCAATAACATTCGAATATGTCATGCACATGATGCAATG
195 ACAACAAAATACAATATGTAGCATAAATCAATAACATTCGAATATGTCATGCACATGATGCAATG
47228595 CAAAAAGGTTCTTACCCATACCATCCGCTACACACCACGAGTTCCCCAAAACCCATCATCTGAAC
260 CAAAAAGGTTCTTACCCATACCATCCGCTACACACCACGAGTTCCCCAAAACCCATCATCTGAAC
47228660 TCCAAAACATTACGGG
325 TCCAAAACATTACGGG
47228676 C
1 C
47228677 TTAAGCCCGT
Statistics
Matches: 340, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
340 1 0.00
341 339 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.27
Consensus pattern (340 bp):
CGAGTCTGGTCCTAATTTTGAATAGACATAAATATCAAATAAAGTGAAAATTATTAGCATTAAGA
GAAGAACAAAAAACCATCATAGGAATTTCATATCTTTACATAAGCATTATCAATATTGATGTCAA
AAAGTGTATGAGCATGGGTCATCATTCATTCAAGTAACAATCATTAATTTCAATACCATTCCATA
CAACAAAATACAATATGTAGCATAAATCAATAACATTCGAATATGTCATGCACATGATGCAATGC
AAAAAGGTTCTTACCCATACCATCCGCTACACACCACGAGTTCCCCAAAACCCATCATCTGAACT
CCAAAACATTACGGG
Found at i:47251567 original size:22 final size:24
Alignment explanation
Indices: 47251542--47251603 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 24
47251532 TTAGACTTTA
47251542 TGTATTGAATGCTTG-TTAAA-AT
1 TGTATTGAATGCTTGTTTAAAGAT
* * *
47251564 TGTATTAAATTCTTGTTTAAAGGT
1 TGTATTGAATGCTTGTTTAAAGAT
*
47251588 TGGATTGAATGGCTTG
1 TGTATTGAAT-GCTTG
47251604 ATTGGTATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 13 0.42
23 5 0.16
24 9 0.29
25 4 0.13
ACGTcount: A:0.27, C:0.05, G:0.23, T:0.45
Consensus pattern (24 bp):
TGTATTGAATGCTTGTTTAAAGAT
Found at i:47257287 original size:29 final size:31
Alignment explanation
Indices: 47257217--47257281 Score: 103
Period size: 32 Copynumber: 2.1 Consensus size: 31
47257207 CACTTTTATT
* *
47257217 CTCTTAAAAATTTATAATTCAATTATTATATC
1 CTCTTAAAATTTTATAATTCAATTATTACA-C
47257249 CTCTTAAAATTTTATAATTCAATTATTACAC
1 CTCTTAAAATTTTATAATTCAATTATTACAC
47257280 CT
1 CT
47257282 TAAAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (31 bp):
CTCTTAAAATTTTATAATTCAATTATTACAC
Found at i:47265632 original size:17 final size:18
Alignment explanation
Indices: 47265607--47265668 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
47265597 TTTTTAATAT
*
47265607 TATTAAATAAA-CATTTA
1 TATTTAATAAATCATTTA
*
47265624 TATTTAATAAATTATTTA
1 TATTTAATAAATCATTTA
47265642 T-TTTAATTAAATCATTTA
1 TATTTAA-TAAATCATTTA
*
47265660 -ATATAATAA
1 TATTTAATAA
47265669 TATTATTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
17 18 0.47
18 20 0.53
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (18 bp):
TATTTAATAAATCATTTA
Found at i:47265640 original size:18 final size:18
Alignment explanation
Indices: 47265619--47265675 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
47265609 TTAAATAAAC
47265619 ATTTATATTTAATAAATT
1 ATTTATATTTAATAAATT
*
47265637 ATTTAT-TTTAATTAAATC
1 ATTTATATTTAA-TAAATT
*
47265655 ATTTA-ATATAATAATATT
1 ATTTATATTTAATAA-ATT
47265673 ATT
1 ATT
47265676 AATAATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 8 0.24
18 25 0.76
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTATATTTAATAAATT
Found at i:47265684 original size:39 final size:37
Alignment explanation
Indices: 47265595--47265684 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 37
47265585 CAAATATTGT
* *
47265595 AATTTTTAATATTATTAAATAAACATTTATATTTAATA
1 AATTATTAATATT-TTAAATAAACATTTATATATAATA
*
47265633 AATTATT--TATTTTAATTAAATCATTTA-ATATAATA
1 AATTATTAATATTTTAAATAAA-CATTTATATATAATA
47265668 ATATTATTAATAATTTT
1 A-ATTATTAAT-ATTTT
47265685 TAAAATTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
35 16 0.36
36 16 0.36
38 7 0.16
39 5 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (37 bp):
AATTATTAATATTTTAAATAAACATTTATATATAATA
Found at i:47265694 original size:16 final size:17
Alignment explanation
Indices: 47265673--47265708 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
47265663 TAATAATATT
47265673 ATTAATAATT-TTTAAA
1 ATTAATAATTATTTAAA
*
47265689 ATTAATAATTATTTTAA
1 ATTAATAATTATTTAAA
47265706 ATT
1 ATT
47265709 TTAAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAATAATTATTTAAA
Found at i:47265712 original size:19 final size:18
Alignment explanation
Indices: 47265674--47265732 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 18
47265664 AATAATATTA
*
47265674 TTAATAAT-TTTTAAA-A
1 TTAATAATATTTTAAATT
47265690 TTAATAATTATTTTAAATT
1 TTAATAA-TATTTTAAATT
47265709 TTAAATAATATTCTTAATATT
1 TT-AATAATATT-TTAA-ATT
47265730 TTA
1 TTA
47265733 TATTAGCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
16 7 0.19
17 1 0.03
18 7 0.19
19 6 0.17
20 10 0.28
21 5 0.14
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATAATATTTTAAATT
Found at i:47266786 original size:19 final size:21
Alignment explanation
Indices: 47266754--47266799 Score: 78
Period size: 19 Copynumber: 2.3 Consensus size: 21
47266744 AAAAATATTA
47266754 AATAAATGATTAAATTTAATT
1 AATAAATGATTAAATTTAATT
47266775 AATAAAT-A-TAAATTTAATT
1 AATAAATGATTAAATTTAATT
47266794 AATAAA
1 AATAAA
47266800 AAAATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 17 0.68
20 1 0.04
21 7 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AATAAATGATTAAATTTAATT
Found at i:47272150 original size:33 final size:35
Alignment explanation
Indices: 47272084--47272158 Score: 127
Period size: 33 Copynumber: 2.2 Consensus size: 35
47272074 CGTGAAATTT
47272084 TAAAATATTTATTTTAGATATAAAATTATGATGTA
1 TAAAATATTTATTTTAGATATAAAATTATGATGTA
*
47272119 TAAAATATTTATTTTA-A-ATAATATTATGATGTA
1 TAAAATATTTATTTTAGATATAAAATTATGATGTA
47272152 TAAAATA
1 TAAAATA
47272159 AGAGAGGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 22 0.56
34 1 0.03
35 16 0.41
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (35 bp):
TAAAATATTTATTTTAGATATAAAATTATGATGTA
Found at i:47272677 original size:28 final size:29
Alignment explanation
Indices: 47272632--47272692 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
47272622 AATTTAGGGT
47272632 TTAAGGTTTAAGA-ATTTTAAAAAATAAA
1 TTAAGGTTTAAGATATTTTAAAAAATAAA
* * *
47272660 TTAAGGTTT-AGATTTTTTTGAAAAATTAA
1 TTAAGGTTTAAGA-TATTTTAAAAAATAAA
47272689 TTAA
1 TTAA
47272693 ATTAGGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 3 0.11
28 9 0.32
29 16 0.57
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (29 bp):
TTAAGGTTTAAGATATTTTAAAAAATAAA
Found at i:47272695 original size:34 final size:33
Alignment explanation
Indices: 47272656--47272787 Score: 133
Period size: 34 Copynumber: 3.9 Consensus size: 33
47272646 TTTTAAAAAA
* *
47272656 TAAATTAAGGTTTAGATTTTTTTGAAAAATTAAT
1 TAAATTAAGGTTTA-ATGTTTTTAAAAAATTAAT
* **
47272690 TAAATT-AGGTTTAAAGGGTTTAAATAAATTAAT
1 TAAATTAAGGTTTAATGTTTTTAAA-AAATTAAT
*
47272723 TAAATTAGGGTTTAGA-GTTTTTAAGAAAATTAAT
1 TAAATTAAGGTTTA-ATGTTTTTAA-AAAATTAAT
* *
47272757 TAAATTAGGGTTTAATTTTTTTAAAATAATT
1 TAAATTAAGGTTTAATGTTTTTAAAA-AATT
47272788 TTTTTGTTTA
Statistics
Matches: 83, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
32 6 0.07
33 24 0.29
34 51 0.61
35 2 0.02
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.45
Consensus pattern (33 bp):
TAAATTAAGGTTTAATGTTTTTAAAAAATTAAT
Found at i:47273100 original size:124 final size:123
Alignment explanation
Indices: 47272875--47273115 Score: 288
Period size: 124 Copynumber: 1.9 Consensus size: 123
47272865 GAAAAATTAA
* * * * * *
47272875 TTTTGAGAAGACGGTTCTGAAAAGATAATGTCAAAAACGCTTCAAACAAAATGCACTGTTAGCAA
1 TTTTGAGAAAACGGTTCTGAAAAAATAATGTAAAAAACCCTTCAAACAAAATGCACTATCAGCAA
* * *
47272940 AATTACTGAAAAAAGCTTTCACATGGATGCTCTTTTTTTACAGTAGTTCCTAAATTTTT
66 AATTACTGAAAAAAGC-TTCACATGGACGCTATTTTTCTACAGTAGTTCCTAAATTTTT
* * * **
47272999 TTTTGAGAAAACGGTTTTGAAAAAATAGTGTAAAAAACCCTTCAAGCAGGATGCACTATCAGCAA
1 TTTTGAGAAAACGGTTCTGAAAAAATAATGTAAAAAACCCTTCAAACAAAATGCACTATCAGCAA
* *
47273064 AATT-CATGAAAAAAGC-TCCCATGTGAACGCTATTTTTCTATAGTAGTTCCTA
66 AATTAC-TGAAAAAAGCTTCACATG-G-ACGCTATTTTTCTACAGTAGTTCCTA
47273116 TTTGACCTTA
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
122 6 0.06
123 2 0.02
124 90 0.92
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (123 bp):
TTTTGAGAAAACGGTTCTGAAAAAATAATGTAAAAAACCCTTCAAACAAAATGCACTATCAGCAA
AATTACTGAAAAAAGCTTCACATGGACGCTATTTTTCTACAGTAGTTCCTAAATTTTT
Found at i:47276213 original size:24 final size:23
Alignment explanation
Indices: 47276157--47276213 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
47276147 AAGAACTTCT
47276157 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAATA
47276180 ATTTGCTATT-AAAATATTAAAAATA
1 ATTT--TATTAAAAATA-TAAAAATA
47276205 ACTTTTATT
1 A-TTTTATT
47276214 TTATTAAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.13
24 10 0.33
25 13 0.43
26 3 0.10
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAATA
Found at i:47276688 original size:17 final size:18
Alignment explanation
Indices: 47276656--47276698 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
47276646 GACTGGGAAA
*
47276656 AGGAAACATATAAGGGCT
1 AGGATACATATAAGGGCT
47276674 AGGATACAT-TAAGGGCT
1 AGGATACATATAAGGGCT
47276691 AGGATACA
1 AGGATACA
47276699 CACCTCGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:47282912 original size:10 final size:10
Alignment explanation
Indices: 47282885--47282944 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
47282875 TGAAATTCTA
47282885 AAAGATAAAT
1 AAAGATAAAT
*
47282895 ACAA-ATAATT
1 A-AAGATAAAT
*
47282905 AAAGATAATT
1 AAAGATAAAT
47282915 AAAGATAAAT
1 AAAGATAAAT
47282925 AAAGATAAAT
1 AAAGATAAAT
47282935 GAAA-ATAAAT
1 -AAAGATAAAT
47282945 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:47284764 original size:10 final size:10
Alignment explanation
Indices: 47284737--47284796 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
47284727 TGAAATTCTA
47284737 AAAGATAAAT
1 AAAGATAAAT
*
47284747 ACAA-ATAATT
1 A-AAGATAAAT
*
47284757 AAAGATAATT
1 AAAGATAAAT
47284767 AAAGATAAAT
1 AAAGATAAAT
47284777 AAAGATAAAT
1 AAAGATAAAT
47284787 GAAA-ATAAAT
1 -AAAGATAAAT
47284797 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:47287093 original size:47 final size:47
Alignment explanation
Indices: 47287040--47287450 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
47287030 TTAGGATTCT
47287040 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
47287087 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
47287134 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
47287181 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
47287228 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
47287275 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
47287322 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
47287369 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
47287416 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
47287451 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:47287625 original size:37 final size:37
Alignment explanation
Indices: 47287569--47287647 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
47287559 CCGAGCTCTA
* * *
47287569 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
47287606 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47287643 AAGAC
1 AAGAC
47287648 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47288480 original size:19 final size:19
Alignment explanation
Indices: 47288456--47288492 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
47288446 TAATATGTCT
47288456 TTTTTTCTTTC-CTTTTTTC
1 TTTTTT-TTTCTCTTTTTTC
47288475 TTTTTTTTTCTCTTTTTT
1 TTTTTTTTTCTCTTTTTT
47288493 AATAGAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTTTTCTCTTTTTTC
Found at i:47288689 original size:96 final size:97
Alignment explanation
Indices: 47288515--47288696 Score: 267
Period size: 96 Copynumber: 1.9 Consensus size: 97
47288505 ATTTAATTTA
* * * * *
47288515 TTTATTTTTACTTAGGAATATATTAAACCTTTTGACACGAAGAGAGATGACAGCTAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACACAAAGAGAGATGACAGCCAAGCACCCCA
47288580 CCCCAATTACTCAGCCCAACATACTCCTAATT
66 CCCCAATTACTCAGCCCAACATACTCCTAATT
* *
47288612 TTTATTTTT-CTTAAGAACATATCGAACCTTTTGACACAAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATCAAACCTTTTGACACAAAGAGAGATGACAGCCAAGCACCCCA
** *
47288676 CCCCGGTTGCTCAGCCCAACA
66 CCCCAATTACTCAGCCCAACA
47288697 CATTCTTAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 66 0.88
97 9 0.12
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCAAACCTTTTGACACAAAGAGAGATGACAGCCAAGCACCCCA
CCCCAATTACTCAGCCCAACATACTCCTAATT
Found at i:47289514 original size:15 final size:15
Alignment explanation
Indices: 47289494--47289541 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
47289484 TTAATATCTG
*
47289494 AAAATAATAAATAAT
1 AAAATAATAAATAAA
47289509 AAAATAATAAGATAAA
1 AAAATAATAA-ATAAA
47289525 ATAAATAA-AAATAAA
1 A-AAATAATAAATAAA
47289540 AA
1 AA
47289542 TTTGTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
16 7 0.23
17 6 0.20
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAATAAATAAA
Found at i:47293211 original size:10 final size:9
Alignment explanation
Indices: 47293196--47293249 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 9
47293186 ATTCTAAAAG
47293196 ATAAATACAA
1 ATAAATA-AA
47293206 ATAAATAAA
1 ATAAATAAA
*
47293215 GATAATTAAA
1 -ATAAATAAA
47293225 GATAAATAAA
1 -ATAAATAAA
47293235 A-AAATGAAA
1 ATAAAT-AAA
47293244 ATAAAT
1 ATAAAT
47293250 CCTAAAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
8 4 0.10
9 7 0.18
10 28 0.72
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (9 bp):
ATAAATAAA
Found at i:47296933 original size:39 final size:39
Alignment explanation
Indices: 47296879--47296957 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
47296869 AAATCAATAA
47296879 ACCAATCAGAAAGATTAACTTGCTTCAGGGTTTGTAACT
1 ACCAATCAGAAAGATTAACTTGCTTCAGGGTTTGTAACT
47296918 ACCAATCAGAAAGATTAACTTGCTTCAGGGTTTGTAACT
1 ACCAATCAGAAAGATTAACTTGCTTCAGGGTTTGTAACT
47296957 A
1 A
47296958 ACTTTGGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (39 bp):
ACCAATCAGAAAGATTAACTTGCTTCAGGGTTTGTAACT
Found at i:47299222 original size:25 final size:25
Alignment explanation
Indices: 47299194--47299243 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
47299184 ACATGACAAA
47299194 TGATAACACAAAACAATACCACATG
1 TGATAACACAAAACAATACCACATG
*
47299219 TGATAACACAATACAATACCACATG
1 TGATAACACAAAACAATACCACATG
47299244 ACATGCTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.24, G:0.08, T:0.18
Consensus pattern (25 bp):
TGATAACACAAAACAATACCACATG
Found at i:47304693 original size:41 final size:41
Alignment explanation
Indices: 47304648--47304729 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
47304638 GCCAGGCTCG
* *
47304648 AAGCCTGATATAACGCATCAACACAAAGCCTACTAGGCACA
1 AAGCCTGATATAACACACCAACACAAAGCCTACTAGGCACA
** * *
47304689 AAGCCTGATATAACACACCGGCACGAAGCCTGCTAGGCACA
1 AAGCCTGATATAACACACCAACACAAAGCCTACTAGGCACA
47304730 TAGCTCGTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.38, C:0.30, G:0.18, T:0.13
Consensus pattern (41 bp):
AAGCCTGATATAACACACCAACACAAAGCCTACTAGGCACA
Found at i:47304791 original size:38 final size:38
Alignment explanation
Indices: 47304669--47304816 Score: 129
Period size: 38 Copynumber: 3.8 Consensus size: 38
47304659 AACGCATCAA
* *
47304669 CACAAAGCCT-ACTAGGCACAAAGCCTGATATAACACACCGG
1 CACAAAGCCTGA-TAGGCACAAAGCCCGA-AT-A-TCACCGG
* * * * * * *
47304710 CACGAAGCCTGCTAGGCACATAGCTCGTATATTACCAG
1 CACAAAGCCTGATAGGCACAAAGCCCGAATATCACCGG
* *
47304748 CACAAAGCCTGATAGGCACAGAGCCCAAATATCACCGG
1 CACAAAGCCTGATAGGCACAAAGCCCGAATATCACCGG
*
47304786 TACAAAGCCT-ACTAGGCACAAAGCCCGAATA
1 CACAAAGCCTGA-TAGGCACAAAGCCCGAATA
47304817 ACGTTACGTT
Statistics
Matches: 85, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
37 1 0.01
38 60 0.71
39 1 0.01
40 2 0.02
41 21 0.25
ACGTcount: A:0.36, C:0.30, G:0.19, T:0.14
Consensus pattern (38 bp):
CACAAAGCCTGATAGGCACAAAGCCCGAATATCACCGG
Found at i:47316305 original size:40 final size:40
Alignment explanation
Indices: 47316240--47316334 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
47316230 ACCAACTCCG
* * *
47316240 TCCAACCCAACACACC--ATGTGGGGATAAAATTGACCCA
1 TCCAACCCTACACACCAAATATGGGGATAAAATCGACCCA
* *
47316278 -CCTATCCCTGCACACCAAATATGGGGATAAAATCGACCCA
1 TCC-AACCCTACACACCAAATATGGGGATAAAATCGACCCA
47316318 TCCAACCCTACACACCA
1 TCCAACCCTACACACCA
47316335 TAAAGTACTG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.04
38 10 0.22
40 32 0.70
41 2 0.04
ACGTcount: A:0.36, C:0.36, G:0.13, T:0.16
Consensus pattern (40 bp):
TCCAACCCTACACACCAAATATGGGGATAAAATCGACCCA
Found at i:47320863 original size:38 final size:38
Alignment explanation
Indices: 47320807--47320910 Score: 122
Period size: 38 Copynumber: 2.8 Consensus size: 38
47320797 AGCCTAATAT
* *
47320807 AATA-CACTGGCATGAAGCCTGCTAGGCACATAGC-CTG
1 AATATCACTGGCATAAAGCCTGCTAGGCACAAAGCTC-G
*
47320844 AATATCACTGGCATAAAGCCTGCTAGGCGCAAAGCTCG
1 AATATCACTGGCATAAAGCCTGCTAGGCACAAAGCTCG
** * *
47320882 AATATCACCAGCACAAAGCCTACTAGGCA
1 AATATCACTGGCATAAAGCCTGCTAGGCA
47320911 TAGAGCCCGA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
37 4 0.07
38 52 0.91
39 1 0.02
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (38 bp):
AATATCACTGGCATAAAGCCTGCTAGGCACAAAGCTCG
Found at i:47320922 original size:38 final size:38
Alignment explanation
Indices: 47320821--47320923 Score: 116
Period size: 38 Copynumber: 2.7 Consensus size: 38
47320811 CACTGGCATG
* * ** *
47320821 AAGCCTGCTAGGCACATAGCCTGAATATCACTGGCATA
1 AAGCCTGCTAGGCACAAAGCCCGAATATCACCAGCACA
* *
47320859 AAGCCTGCTAGGCGCAAAGCTCGAATATCACCAGCACA
1 AAGCCTGCTAGGCACAAAGCCCGAATATCACCAGCACA
* * *
47320897 AAGCCTACTAGGCATAGAGCCCGAATA
1 AAGCCTGCTAGGCACAAAGCCCGAATA
47320924 ACATTACGTT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (38 bp):
AAGCCTGCTAGGCACAAAGCCCGAATATCACCAGCACA
Found at i:47322292 original size:3 final size:3
Alignment explanation
Indices: 47322277--47322328 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
47322267 CAGAATGACA
* * *
47322277 TTG TTG ATG TTG TTG TTG TTG TTG TTG TTT TTG TTG TTG TTG GTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
47322325 TTG T
1 TTG T
47322329 GATTTTTCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.02, C:0.00, G:0.33, T:0.65
Consensus pattern (3 bp):
TTG
Found at i:47325111 original size:25 final size:25
Alignment explanation
Indices: 47325083--47325133 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
47325073 TATGTTTGGG
*
47325083 TACGTTTTGGATTAACTTACTTTGA
1 TACGTTTTAGATTAACTTACTTTGA
47325108 TACGTTTTAGATTAACTTACTTTGA
1 TACGTTTTAGATTAACTTACTTTGA
47325133 T
1 T
47325134 TTTATCCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (25 bp):
TACGTTTTAGATTAACTTACTTTGA
Found at i:47325129 original size:68 final size:68
Alignment explanation
Indices: 47325040--47325176 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
47325030 GCTTTTTGGG
*
47325040 TACGTTTTGGATTAACTTACTTTGATTTTACCCTATGTTTGGGTACGTTTTGGATTAACTTACTT
1 TACGTTTTAGATTAACTTACTTTGATTTTACCCTATGTTTGGGTACGTTTTGGATTAACTTACTT
47325105 TGA
66 TGA
*
47325108 TACGTTTTAGATTAACTTACTTTGATTTTATCCTATGTTTGGGTACGTTTTGGATTAACTTACTT
1 TACGTTTTAGATTAACTTACTTTGATTTTACCCTATGTTTGGGTACGTTTTGGATTAACTTACTT
47325173 TGA
66 TGA
47325176 T
1 T
47325177 TTTATCCTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (68 bp):
TACGTTTTAGATTAACTTACTTTGATTTTACCCTATGTTTGGGTACGTTTTGGATTAACTTACTT
TGA
Found at i:47325156 original size:43 final size:43
Alignment explanation
Indices: 47325108--47325196 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
47325098 CTTACTTTGA
*
47325108 TACGTTTTAGATTAACTTACTTTGATTTTATCCTATGTTTGGG
1 TACGTTTTAGATTAACTTACTTTGATTTTATCCTATGTTAGGG
*
47325151 TACGTTTTGGATTAACTTACTTTGATTTTATCCTATGTTAGGG
1 TACGTTTTAGATTAACTTACTTTGATTTTATCCTATGTTAGGG
47325194 TAC
1 TAC
47325197 TTCTGTTGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.49
Consensus pattern (43 bp):
TACGTTTTAGATTAACTTACTTTGATTTTATCCTATGTTAGGG
Found at i:47326507 original size:27 final size:27
Alignment explanation
Indices: 47326457--47326783 Score: 284
Period size: 27 Copynumber: 12.1 Consensus size: 27
47326447 GGTCGTTATT
* * * *
47326457 TGACCGTAATACCCGTGTAAGGTAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAA
*
47326484 TGACCATAATGCCCCTGA-AGGGTAAAA
1 TGACCGTAATGCCCCT-ATAGGGTAAAA
* * * *
47326511 TGACCATAATACCCTTGTAGGGTAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAA
* * *
47326538 TGATCGTAATACCCCTATAGGCTAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAA
* * *
47326565 TGGCCCTAATACCCCTATAGGGTAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAA
* *
47326592 TGACTGTAATGCCCCTATAGGGTTAAA
1 TGACCGTAATGCCCCTATAGGGTAAAA
* * *
47326619 TGACCGTAATAG-CCCTTTATGATAAAA
1 TGACCGTAAT-GCCCCTATAGGGTAAAA
*
47326646 TGACCGTAATGCCCCTATAGGGTTAAA
1 TGACCGTAATGCCCCTATAGGGTAAAA
* *
47326673 TGACCGTAATAG-CCCTGTAGGATAAAA
1 TGACCGTAAT-GCCCCTATAGGGTAAAA
* * * *
47326700 TAACCGTAATACCCCCATAAGGT-AAA
1 TGACCGTAATGCCCCTATAGGGTAAAA
* * *
47326726 TGACCGTAATTCCCTTCTAGGGTAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAA
* * * * *
47326753 TGATCGTGATACCCCTATATGGCAAAA
1 TGACCGTAATGCCCCTATAGGGTAAAA
47326780 TGAC
1 TGAC
47326784 GAGTAGCCCT
Statistics
Matches: 239, Mismatches: 54, Indels: 14
0.78 0.18 0.05
Matches are distributed among these distances:
26 21 0.09
27 216 0.90
28 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (27 bp):
TGACCGTAATGCCCCTATAGGGTAAAA
Found at i:47326539 original size:54 final size:54
Alignment explanation
Indices: 47326457--47326783 Score: 347
Period size: 54 Copynumber: 6.1 Consensus size: 54
47326447 GGTCGTTATT
* * *
47326457 TGACCGTAATACCCGTGTAAGGTAAAATGACCATAATGCCCCTGA-AGGGTAAAA
1 TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCT-ATAGGGTAAAA
* * * *
47326511 TGACCATAATACCCTTGTAGGGTAAAATGATCGTAATACCCCTATAGGCTAAAA
1 TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAA
* * * * * *
47326565 TGGCCCTAATACCCCTATAGGGTAAAATGACTGTAATGCCCCTATAGGGTTAAA
1 TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAA
* * *
47326619 TGACCGTAATAGCCCTT-TATGATAAAATGACCGTAATGCCCCTATAGGGTTAAA
1 TGACCGTAATA-CCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAA
* * * * *
47326673 TGACCGTAATAGCCC-TGTAGGATAAAATAACCGTAATACCCCCATAAGGT-AAA
1 TGACCGTAATA-CCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAA
* * * * * * *
47326726 TGACCGTAATTCCCTTCTAGGGTAAAATGATCGTGATACCCCTATATGGCAAAA
1 TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAA
47326780 TGAC
1 TGAC
47326784 GAGTAGCCCT
Statistics
Matches: 232, Mismatches: 36, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
52 3 0.01
53 42 0.18
54 183 0.79
55 4 0.02
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (54 bp):
TGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAA
Found at i:47326613 original size:81 final size:81
Alignment explanation
Indices: 47326457--47326783 Score: 345
Period size: 81 Copynumber: 4.0 Consensus size: 81
47326447 GGTCGTTATT
* * * *
47326457 TGACCGTAATACCCGTGTAAGGTAAAATGACCATAATGCCCCTGA-AGGGTAAAATGACCATAAT
1 TGACCGTAATACCCCTATAAGGTAAAATGACCGTAATGCCCCT-ATAGGGTAAAATGACCGTAAT
* *
47326521 ACCCTTGTAGGGTAAAA
65 ACCCCTATAGGGTAAAA
* * * * *
47326538 TGATCGTAATACCCCTAT-AGGCTAAAATGGCCCTAATACCCCTATAGGGTAAAATGACTGTAAT
1 TGACCGTAATACCCCTATAAGG-TAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAAT
* *
47326602 GCCCCTATAGGGTTAAA
65 ACCCCTATAGGGTAAAA
* * * * *
47326619 TGACCGTAATAGCCCTTTATGATAAAATGACCGTAATGCCCCTATAGGGTTAAATGACCGTAATA
1 TGACCGTAATACCCCTATAAGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATA
* * *
47326684 GCCCTGTAGGATAAAA
66 CCCCTATAGGGTAAAA
* * * * * * *
47326700 TAACCGTAATACCCCCATAAGGT-AAATGACCGTAATTCCCTTCTAGGGTAAAATGATCGTGATA
1 TGACCGTAATACCCCTATAAGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATA
* *
47326764 CCCCTATATGGCAAAA
66 CCCCTATAGGGTAAAA
47326780 TGAC
1 TGAC
47326784 GAGTAGCCCT
Statistics
Matches: 198, Mismatches: 45, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
80 53 0.27
81 144 0.73
82 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (81 bp):
TGACCGTAATACCCCTATAAGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACCGTAATA
CCCCTATAGGGTAAAA
Found at i:47326964 original size:27 final size:25
Alignment explanation
Indices: 47326920--47326999 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 25
47326910 ATGGAGGAAG
* * *
47326920 TACTGTACAGGTGACTATGTCACAT
1 TACTGTACTGGTGGCTATGCCACAT
47326945 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTG-TACTGGTGGCTATGCCAC-AT
* *
47326973 TACTGATACTGGTGGCTTTGGCACAT
1 TACTG-TACTGGTGGCTATGCCACAT
47326999 T
1 T
47327000 TGCTGTTTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 35 0.76
28 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (25 bp):
TACTGTACTGGTGGCTATGCCACAT
Found at i:47327011 original size:27 final size:27
Alignment explanation
Indices: 47326920--47326989 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
47326910 ATGGAGGAAG
* * *
47326920 TACTG-TACAGGTGACTATGTCAC-AT
1 TACTGTTACTGGTGGCTATGCCACAAT
47326945 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTGTTACTGGTGGCTATGCCACAAT
*
47326973 TACTGATACTGGTGGCT
1 TACTGTTACTGGTGGCT
47326990 TTGGCACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 4 0.11
27 30 0.79
28 3 0.08
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTATGCCACAAT
Found at i:47327224 original size:33 final size:33
Alignment explanation
Indices: 47327187--47327252 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
47327177 GCTTAGGCCC
* * *
47327187 ATACTGTTACTGTATAGGGCTAAGGCCCAGACT
1 ATACTGATACTGAATAGCGCTAAGGCCCAGACT
* *
47327220 ATACTGATACTGAATAGCGCTCAGGCCTAGACT
1 ATACTGATACTGAATAGCGCTAAGGCCCAGACT
47327253 GTTACCGATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (33 bp):
ATACTGATACTGAATAGCGCTAAGGCCCAGACT
Found at i:47330473 original size:21 final size:21
Alignment explanation
Indices: 47330449--47330489 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47330439 ATTTGTGATT
*
47330449 TTTTTGAATTAT-TTTTTTATG
1 TTTTT-AATTATATTATTTATG
47330470 TTTTTAATTATATTATTTAT
1 TTTTTAATTATATTATTTAT
47330490 AATTATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTTAATTATATTATTTATG
Found at i:47347971 original size:14 final size:14
Alignment explanation
Indices: 47347952--47347996 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
47347942 CTAATTTTTA
*
47347952 CAAGTTGTAATTTG
1 CAAGTTGTAATATG
*
47347966 CAAGTTG--ATCTG
1 CAAGTTGTAATATG
47347978 CAAGTTGTAATATG
1 CAAGTTGTAATATG
47347992 CAAGT
1 CAAGT
47347997 GGTGCAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 11 0.41
14 16 0.59
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (14 bp):
CAAGTTGTAATATG
Found at i:47352594 original size:14 final size:13
Alignment explanation
Indices: 47352575--47352618 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
47352565 CTAATTTTTA
47352575 CAAGTTGTAATTTG
1 CAAGTTG-AATTTG
47352589 CAAGTTG-ATTTG
1 CAAGTTGAATTTG
*
47352601 CAAGTTGCAATATG
1 CAAGTTG-AATTTG
47352615 CAAG
1 CAAG
47352619 CGGTGCAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 12 0.44
14 15 0.56
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (13 bp):
CAAGTTGAATTTG
Found at i:47355204 original size:12 final size:12
Alignment explanation
Indices: 47355189--47355225 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
47355179 TTTAATTTGA
47355189 ATTTAGATTTAG
1 ATTTAGATTTAG
47355201 ATTTAGATTTAG
1 ATTTAGATTTAG
*
47355213 ATTT-GAATTAG
1 ATTTAGATTTAG
47355224 AT
1 AT
47355226 AATTTGTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (12 bp):
ATTTAGATTTAG
Found at i:47355210 original size:18 final size:17
Alignment explanation
Indices: 47355189--47355225 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
47355179 TTTAATTTGA
*
47355189 ATTTAGATTTAGATTTAG
1 ATTTAGATTT-GAATTAG
47355207 ATTTAGATTTGAATTAG
1 ATTTAGATTTGAATTAG
47355224 AT
1 AT
47355226 AATTTGTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
ATTTAGATTTGAATTAG
Found at i:47356130 original size:16 final size:15
Alignment explanation
Indices: 47356105--47356158 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
47356095 TAAAATCACA
*
47356105 AAATAAAATATAAAT
1 AAATTAAATATAAAT
* *
47356120 GAAATTCAATAATAAAA
1 -AAATTAAAT-ATAAAT
47356137 AAATTAAAT-TAAAT
1 AAATTAAATATAAAT
47356151 AAATTAAA
1 AAATTAAA
47356159 ACCACATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 12 0.38
16 15 0.47
17 5 0.16
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (15 bp):
AAATTAAATATAAAT
Found at i:47356130 original size:21 final size:20
Alignment explanation
Indices: 47356105--47356153 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
47356095 TAAAATCACA
*
47356105 AAATAAAATATAAATGAAATT
1 AAATAAAA-AAAAATGAAATT
* *
47356126 CAATAATAAAAAAATTAAATT
1 AAATAA-AAAAAAATGAAATT
47356147 AAATAAA
1 AAATAAA
47356154 TTAAAACCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 20 0.87
22 2 0.09
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAATAAAAAAAAATGAAATT
Found at i:47360092 original size:21 final size:21
Alignment explanation
Indices: 47360046--47360092 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
47360036 TTTCGTTTCT
*
47360046 CTTTTAGGTTTCAAATTTCGG
1 CTTTTAGGTTTCAAATTTCGA
* * *
47360067 GTTTTAGGTTTCAAGTTTTGA
1 CTTTTAGGTTTCAAATTTCGA
47360088 CTTTT
1 CTTTT
47360093 GATTTTTGGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.11, G:0.19, T:0.53
Consensus pattern (21 bp):
CTTTTAGGTTTCAAATTTCGA
Found at i:47360230 original size:20 final size:20
Alignment explanation
Indices: 47360194--47360238 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
47360184 ACAGTGCATT
*
47360194 AAATATCCTAATGTGAGGGA
1 AAATATCCTAATATGAGGGA
47360214 AAATATCCT-ATCATGAGGGA
1 AAATATCCTAAT-ATGAGGGA
*
47360234 TAATA
1 AAATA
47360239 AACATTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATATCCTAATATGAGGGA
Found at i:47364796 original size:21 final size:21
Alignment explanation
Indices: 47364750--47364796 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
47364740 TTTCGTTTCT
*
47364750 CTTTTAGGTTTCAAATTTCGG
1 CTTTTAGGTTTCAAATTTCGA
* * *
47364771 GTTTTAGGTTTCAAGTTTTGA
1 CTTTTAGGTTTCAAATTTCGA
47364792 CTTTT
1 CTTTT
47364797 GATTTTTGGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.11, G:0.19, T:0.53
Consensus pattern (21 bp):
CTTTTAGGTTTCAAATTTCGA
Found at i:47364934 original size:20 final size:20
Alignment explanation
Indices: 47364898--47364942 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
47364888 ACAGTGCATT
*
47364898 AAATATCCTAATGTGAGGGA
1 AAATATCCTAATATGAGGGA
47364918 AAATATCCT-ATCATGAGGGA
1 AAATATCCTAAT-ATGAGGGA
*
47364938 TAATA
1 AAATA
47364943 AACATTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATATCCTAATATGAGGGA
Found at i:47370175 original size:43 final size:42
Alignment explanation
Indices: 47370076--47370180 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 42
47370066 AGGGTTACTA
* * * *
47370076 AGATTACATGTAAGACCATATCTGGGATATGACATCGATATG
1 AGATTTCATGTAAGACCATAGCTAGGATATGACATCGATACG
* * * * * *
47370118 AGACTTCGTATAAGACTATAGCTAGGTTATTGGCATCGATACG
1 AGATTTCATGTAAGACCATAGCTAGGATA-TGACATCGATACG
47370161 AGATTTCATGTAAGACCATA
1 AGATTTCATGTAAGACCATA
47370181 TTTGGGATAT
Statistics
Matches: 48, Mismatches: 14, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
42 21 0.44
43 27 0.56
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (42 bp):
AGATTTCATGTAAGACCATAGCTAGGATATGACATCGATACG
Found at i:47380780 original size:15 final size:16
Alignment explanation
Indices: 47380751--47380780 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47380741 CAAACATGCT
47380751 TTAACACATTATCAAA
1 TTAACACATTATCAAA
47380767 TTAACACA-TATCAA
1 TTAACACATTATCAA
47380781 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:47391520 original size:40 final size:39
Alignment explanation
Indices: 47391476--47391580 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
47391466 AGTGACCATA
*
47391476 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
47391516 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
47391554 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
47391581 AACGAGGAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:47391537 original size:39 final size:40
Alignment explanation
Indices: 47391436--47391580 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
47391426 TTGAATGATG
* *
47391436 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
47391476 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
47391515 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* *
47391555 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47391581 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
39 34 0.37
40 46 0.51
41 10 0.11
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:47391594 original size:40 final size:39
Alignment explanation
Indices: 47391437--47391599 Score: 100
Period size: 40 Copynumber: 4.1 Consensus size: 39
47391427 TGAATGATGT
** * * *
47391437 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTATAA
* * ** *
47391477 CCGGACTAAGATCCGAAGGCATTTGTGCGAGAT-ACTA-ATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAG-TGACTATA-A
** *
47391517 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
* *
47391556 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATAA
47391596 CCGG
1 CCGG
47391600 TTAAATTCCA
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
38 1 0.01
39 34 0.33
40 60 0.58
41 8 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:47391599 original size:79 final size:80
Alignment explanation
Indices: 47391436--47391586 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
47391426 TTGAATGATG
*
47391436 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
47391501 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
47391516 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
47391578 TTGAACGAG
64 TTGAACGAG
47391587 GAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:47398708 original size:54 final size:55
Alignment explanation
Indices: 47398613--47398739 Score: 179
Period size: 54 Copynumber: 2.3 Consensus size: 55
47398603 TGAGACATAG
* *
47398613 CCGTGGTCGAACCTGCTAAAACAACACGGGCGTGCGACACGCCCGTGTGGAAG-AA
1 CCGTGGTCGAACCTGTTAAAACAACACGGGCGTGCGACACGCCCGTGT-CAAGCAA
* *
47398668 CCGTGGGT-GAACCTGTTAAAA-AGCACGGGCGTGCGACACGCCCGTGTCTAGCAA
1 CCGT-GGTCGAACCTGTTAAAACAACACGGGCGTGCGACACGCCCGTGTCAAGCAA
47398722 CCGTGGTCGAACCTGTTA
1 CCGTGGTCGAACCTGTTA
47398740 GATTGACACG
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
53 5 0.08
54 41 0.63
55 16 0.25
56 3 0.05
ACGTcount: A:0.24, C:0.28, G:0.31, T:0.17
Consensus pattern (55 bp):
CCGTGGTCGAACCTGTTAAAACAACACGGGCGTGCGACACGCCCGTGTCAAGCAA
Found at i:47400768 original size:163 final size:163
Alignment explanation
Indices: 47400498--47400823 Score: 535
Period size: 163 Copynumber: 2.0 Consensus size: 163
47400488 CACCCTCTCG
** * *
47400498 TCCAGTTCATGCGGCGGCTTCATATGCTGACATCTCTGAGCGTCTCACTCGATTCGAGCAGCAGT
1 TCCAGTTCATGCGGCGGCTTCATATGCTGACATCTCTGAGCACCTCACTCAATTCAAGCAGCAGT
* * *
47400563 GTTTTCAACGATTTGACAACATTGATGCTACTCTATAGTAGATTTGTCAGCACCTCCACATCTTA
66 GTTTTCAACGATTTGACAACATTGATGCTACTCTACAGTAGATTTGTCAGCACATCCACATCTCA
47400628 TCGCCAGTCCCACCTCGCAAACCATCCAGCGAT
131 TCGCCAGTCCCACCTCGCAAACCATCCAGCGAT
*
47400661 TCCAGTTCATGCGGTGGCTTCATATGCTGACATCTCTGAGCACCTCACTCAATTCAAGCAGCAGT
1 TCCAGTTCATGCGGCGGCTTCATATGCTGACATCTCTGAGCACCTCACTCAATTCAAGCAGCAGT
* *
47400726 GTTTTCAACGATTTGACAACATTGATGCTACTTTACAGTAGATTTGTTAGCACATCCACATCTCA
66 GTTTTCAACGATTTGACAACATTGATGCTACTCTACAGTAGATTTGTCAGCACATCCACATCTCA
* * *
47400791 TCTCCAGTCCGACCTCGCGAACCATCCAGCGAT
131 TCGCCAGTCCCACCTCGCAAACCATCCAGCGAT
47400824 GAAGATGTTT
Statistics
Matches: 150, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
163 150 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (163 bp):
TCCAGTTCATGCGGCGGCTTCATATGCTGACATCTCTGAGCACCTCACTCAATTCAAGCAGCAGT
GTTTTCAACGATTTGACAACATTGATGCTACTCTACAGTAGATTTGTCAGCACATCCACATCTCA
TCGCCAGTCCCACCTCGCAAACCATCCAGCGAT
Found at i:47401082 original size:119 final size:119
Alignment explanation
Indices: 47400882--47401104 Score: 324
Period size: 119 Copynumber: 1.9 Consensus size: 119
47400872 TTAAAACTAC
* * * *
47400882 TTTTTATTTTTATTAGATTTTAGAATTTTATTTTTAATTATCATTTTCGGTTATTCCTTTATGAG
1 TTTTTATTTTTATTAGATTTTAGAATGTTATTTTTAATTATCAATTTCGGTTATTCCATTAAGAG
*
47400947 TAATTATTATTCCTAATATCCCCTAAAAACTTCCTGATTATTTATTATTTTATG
66 TAATTATTATTACTAATATCCCCTAAAAACTTCCTGATTATTTATTATTTTATG
* *
47401001 TTTTTAATTTTTATTAAGATTTTAGTATGTTA-TTTT-ATTATCAATTTCGGTTATTTCATTAAG
1 TTTTT-ATTTTTATT-AGATTTTAGAATGTTATTTTTAATTATCAATTTCGGTTATTCCATTAAG
* * *
47401064 AGTAATTATTCTTACTAATATCCCCTAAAAAGTTCTTGATT
64 AGTAATTATTATTACTAATATCCCCTAAAAACTTCCTGATT
47401105 TTGTCACAGT
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
119 65 0.71
120 13 0.14
121 14 0.15
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (119 bp):
TTTTTATTTTTATTAGATTTTAGAATGTTATTTTTAATTATCAATTTCGGTTATTCCATTAAGAG
TAATTATTATTACTAATATCCCCTAAAAACTTCCTGATTATTTATTATTTTATG
Found at i:47418150 original size:18 final size:18
Alignment explanation
Indices: 47418129--47418165 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
47418119 GAATGAGGCC
47418129 TAAGGGAGAGCTAACGTA
1 TAAGGGAGAGCTAACGTA
47418147 TAAGGGAGAGCTAACGTA
1 TAAGGGAGAGCTAACGTA
47418165 T
1 T
47418166 CTTATGAGTG
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:0.38, C:0.11, G:0.32, T:0.19
Consensus pattern (18 bp):
TAAGGGAGAGCTAACGTA
Found at i:47420072 original size:15 final size:16
Alignment explanation
Indices: 47420040--47420076 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
47420030 TAGTTTGCAT
47420040 ATTTAGGATAATTTGC
1 ATTTAGGATAATTTGC
*
47420056 ATTTGGGATAA-TTGC
1 ATTTAGGATAATTTGC
47420071 ATTTAG
1 ATTTAG
47420077 TTTAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (16 bp):
ATTTAGGATAATTTGC
Found at i:47424037 original size:30 final size:30
Alignment explanation
Indices: 47424003--47424063 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
47423993 ATTTAATACG
47424003 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
47424033 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47424063 A
1 A
47424064 GCTCGGGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47431221 original size:45 final size:45
Alignment explanation
Indices: 47431139--47431224 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
47431129 TACTAATATA
* * *
47431139 TCAGCTCGAAAGAGCTTACTGTTTAGCTTATTGGAGCTTACCGTT
1 TCAGCTCGAAAGAGCTTACAGTTCAGCTTATTAGAGCTTACCGTT
* *
47431184 TCAGCTCGTATGAGCTTACAGTTCAGCTTGA-TAGAGCTTAC
1 TCAGCTCGAAAGAGCTTACAGTTCAGCTT-ATTAGAGCTTAC
47431225 TGTTCATCAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
45 34 0.97
46 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (45 bp):
TCAGCTCGAAAGAGCTTACAGTTCAGCTTATTAGAGCTTACCGTT
Found at i:47431229 original size:22 final size:22
Alignment explanation
Indices: 47431139--47431230 Score: 80
Period size: 22 Copynumber: 4.1 Consensus size: 22
47431129 TACTAATATA
*
47431139 TCAGCTCGAAAGAGCTTACTGT
1 TCAGCTCGATAGAGCTTACTGT
* * * *
47431161 TTAGCT-TATTGGAGCTTACCGTT
1 TCAGCTCGA-TAGAGCTTACTG-T
*
47431184 TCAGCTCG-TATGAGCTTACAGT
1 TCAGCTCGATA-GAGCTTACTGT
*
47431206 TCAGCTTGATAGAGCTTACTGT
1 TCAGCTCGATAGAGCTTACTGT
47431228 TCA
1 TCA
47431231 TCAGCTTAGA
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
21 1 0.02
22 36 0.67
23 17 0.31
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (22 bp):
TCAGCTCGATAGAGCTTACTGT
Found at i:47445410 original size:31 final size:32
Alignment explanation
Indices: 47445372--47445433 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
47445362 CTTCGCTGCA
* *
47445372 ATCTGGTGGCTTCGCCAC-ATATATATATCTG
1 ATCTGGTGGCCTAGCCACAATATATATATCTG
*
47445403 ATCTGGTGGCCTAGCCACAATATCTATATCT
1 ATCTGGTGGCCTAGCCACAATATATATATCT
47445434 AGTGACTTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (32 bp):
ATCTGGTGGCCTAGCCACAATATATATATCTG
Found at i:47450086 original size:25 final size:25
Alignment explanation
Indices: 47450057--47450106 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
47450047 GGAGAAATGG
47450057 AATCATTTAGAAATGAATTTAGGTT
1 AATCATTTAGAAATGAATTTAGGTT
*
47450082 AATCATTTGGAAATGAATTTAGGTT
1 AATCATTTAGAAATGAATTTAGGTT
47450107 TTCAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (25 bp):
AATCATTTAGAAATGAATTTAGGTT
Found at i:47450315 original size:26 final size:26
Alignment explanation
Indices: 47450280--47450330 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
47450270 TTCTCGAATT
*
47450280 TTTACAAGGGGCAAAATCGTCAAAAA
1 TTTACAAGGGGCAAAATCATCAAAAA
* *
47450306 TTTACCAGGGGTAAAATCATCAAAA
1 TTTACAAGGGGCAAAATCATCAAAA
47450331 TTTTGTTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.22
Consensus pattern (26 bp):
TTTACAAGGGGCAAAATCATCAAAAA
Found at i:47454595 original size:44 final size:43
Alignment explanation
Indices: 47454509--47454608 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 43
47454499 CAAAAAACTT
* *
47454509 GCACACTTAGTGCCTAATAAATAGCTGAAGCTATATCAATCTC
1 GCACACTAAGTGCATAATAAATAGCTGAAGCTATATCAATCTC
* * * *
47454552 TCACACTAAGTGCATATATATATAG-TCGAAGCTATCTCGATCTC
1 GCACACTAAGTGCATA-ATAAATAGCT-GAAGCTATATCAATCTC
47454596 GCACACTAAGTGC
1 GCACACTAAGTGC
47454609 CAAAAATTAG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 14 0.29
44 34 0.71
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (43 bp):
GCACACTAAGTGCATAATAAATAGCTGAAGCTATATCAATCTC
Found at i:47461272 original size:29 final size:29
Alignment explanation
Indices: 47461215--47461274 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
47461205 GCTTTTTGAA
* * *
47461215 AATATTTACAAAAAAGGCATCTAATTTTT
1 AATATTTACAAAAAAGGCAACCAAATTTT
47461244 AATATTTAC-AAAAAGAGCAACCAAATTTT
1 AATATTTACAAAAAAG-GCAACCAAATTTT
47461273 AA
1 AA
47461275 AAATAGTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.32
Consensus pattern (29 bp):
AATATTTACAAAAAAGGCAACCAAATTTT
Found at i:47462595 original size:14 final size:15
Alignment explanation
Indices: 47462573--47462601 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47462563 CAAAAGAATC
47462573 TGGCTTGCAATACGT
1 TGGCTTGCAATACGT
47462588 TGGC-TGCAATACGT
1 TGGCTTGCAATACGT
47462602 GTATGTCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (15 bp):
TGGCTTGCAATACGT
Found at i:47463671 original size:41 final size:41
Alignment explanation
Indices: 47463614--47463696 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
47463604 ATTAGGGACC
* * * *
47463614 AAATTGAATAACTTGCAAAACTTGGGTTCTAGAAGCATTTT
1 AAATTGAATAAATTGCAAAACTTAGGTCCTAAAAGCATTTT
47463655 AAATTGAATAAATTGCAAAACTTAGGTCCTAAAAGCATTTT
1 AAATTGAATAAATTGCAAAACTTAGGTCCTAAAAGCATTTT
47463696 A
1 A
47463697 CATGAAATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (41 bp):
AAATTGAATAAATTGCAAAACTTAGGTCCTAAAAGCATTTT
Done.