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 351 of 444
Found at i:101693565 original size:46 final size:46
Alignment explanation
Indices: 101693469--101693640 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
101693459 AAGTCAAAGC
* * * *
101693469 CATGTCCCAGACATGGTCTTACACT-GACTATCATCTC-ATAGCTGACG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTCTCGTCTCAAT-GCCGATG
*
101693516 CATGTCCCAGACATGTCTTACACTAGCT-TACGTCTCGA-GCCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATG-CCGATG
* * *
101693562 CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCTGGTG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
*
101693608 CCATGTCCCAGACATGGTCTTACACTGGCTCTC
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTC
101693641 ATAATGTGGC
Statistics
Matches: 108, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
45 2 0.02
46 59 0.55
47 31 0.29
48 16 0.15
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
Found at i:101701221 original size:46 final size:47
Alignment explanation
Indices: 101701171--101701345 Score: 178
Period size: 46 Copynumber: 3.7 Consensus size: 47
101701161 CATCTTATTA
* *
101701171 CCGATGCATGTCCTAGACATGTCTTACACTGGCT-T-ATGTTTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT-TATCGAGG
* * * * * * *
101701217 CCGATGAATGTCCCAAACATGTCTGACACTAGCTCTCA-TCTCAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATTATCGAGG
* * *
101701263 CCGGTGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATTATCGAGG
*
101701311 CCGATGCATGTCCCAGACATGTCTTACATTGGCTC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTC
101701346 ACAAACAAAT
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
46 53 0.51
47 27 0.26
48 23 0.22
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATTATCGAGG
Found at i:101704273 original size:66 final size:66
Alignment explanation
Indices: 101704164--101704424 Score: 389
Period size: 66 Copynumber: 4.0 Consensus size: 66
101704154 TGAAATGTGA
* * * *
101704164 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGTTATGATTGACAGGAATTG
1 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTATTGTGAGCTGTGATTGACAGGAACTG
101704229 T
66 T
* * * *
101704230 GAAATTGATTTGTACTATTATTTGAGCATTACTCACCTATTGTGAACTTTGATTGATAGGAACTG
1 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTATTGTGAGCTGTGATTGACAGGAACTG
101704295 T
66 T
* * *
101704296 GAAATTTATTTGTACTATTGTTTGAGC-TTACTCACCTATTGTGAGCTGTGGTTGATAGGAACTG
1 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTATTGTGAGCTGTGATTGACAGGAACTG
101704360 T
66 T
* * *
101704361 GAAATTGATTTGTATTATTGTTTGAGCATTACTCACCTGTTGTGAGCTGTGATTGACATGAACT
1 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTATTGTGAGCTGTGATTGACAGGAACT
101704425 CTATTAGTAA
Statistics
Matches: 176, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
65 60 0.34
66 116 0.66
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (66 bp):
GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTATTGTGAGCTGTGATTGACAGGAACTG
T
Found at i:101704404 original size:131 final size:132
Alignment explanation
Indices: 101704164--101704416 Score: 391
Period size: 131 Copynumber: 1.9 Consensus size: 132
101704154 TGAAATGTGA
* * *
101704164 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGTTATGATTGACAGGAATTG
1 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTATTGTGAGCTATGATTGACAGGAACTG
*
101704229 TGAAATTGATTTGTACTATTATTTGAGCATTACTCACCTATTGTGAACTTTGATTGATAGGAACT
66 TGAAATTGATTTGTACTATTATTTGAGCATTACTCACCTATTGTGAACTGTGATTGATAGGAACT
101704294 GT
131 GT
* * * *
101704296 GAAATTTATTTGTACTATTGTTTGAGC-TTACTCACCTATTGTGAGCTGTGGTTGATAGGAACTG
1 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTATTGTGAGCTATGATTGACAGGAACTG
* * * *
101704360 TGAAATTGATTTGTATTATTGTTTGAGCATTACTCACCTGTTGTGAGCTGTGATTGA
66 TGAAATTGATTTGTACTATTATTTGAGCATTACTCACCTATTGTGAACTGTGATTGA
101704417 CATGAACTCT
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
131 83 0.76
132 26 0.24
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.42
Consensus pattern (132 bp):
GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTATTGTGAGCTATGATTGACAGGAACTG
TGAAATTGATTTGTACTATTATTTGAGCATTACTCACCTATTGTGAACTGTGATTGATAGGAACT
GT
Found at i:101706069 original size:17 final size:17
Alignment explanation
Indices: 101706047--101706087 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
101706037 ATCTTCGACT
*
101706047 AGCTTCCAACCCGATTG
1 AGCTTCCAACCCGATCG
*
101706064 AGCTTCCAACTCGATCG
1 AGCTTCCAACCCGATCG
101706081 AGCTTCC
1 AGCTTCC
101706088 GATAATCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (17 bp):
AGCTTCCAACCCGATCG
Found at i:101713291 original size:16 final size:16
Alignment explanation
Indices: 101713272--101713303 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
101713262 AATTGTTTTA
101713272 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
101713288 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
101713304 ACTCCATTCT
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:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:101713561 original size:50 final size:50
Alignment explanation
Indices: 101713503--101713941 Score: 439
Period size: 50 Copynumber: 8.7 Consensus size: 50
101713493 ACCGAAACTC
* *
101713503 TCTGGTACACATAGTAGCCTGTACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * * *
101713553 TCTGGTACACGTAGTAGCTTGCATTTAGGACTACACACGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * ** *
101713603 TCTGATACACGTAGTAGCCTGCACTTAGTACTACATATATGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * *
101713655 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * * *
101713704 TCCGGTACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * ** * *
101713754 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAACCTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCTATCAA
* ** * * *
101713805 TCAGGTATGCATAGTAGCCTCCACTTAGTACTACACATGTGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
101713855 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT--ATCAA
*** * *
101713907 TCTTAAACACATAGTAGCCTGCACATAGTACTACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACA
101713942 TGTGTTCTCA
Statistics
Matches: 315, Mismatches: 68, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
49 3 0.01
50 200 0.63
51 76 0.24
52 36 0.11
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:101713713 original size:101 final size:100
Alignment explanation
Indices: 101713506--101713900 Score: 366
Period size: 101 Copynumber: 3.9 Consensus size: 100
101713496 GAAACTCTCT
* * * * * *
101713506 GGTACACATAGTAGCCTGTACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACATATGACCAATCAATCGGGTACACATAGTAGC
* * * * *
101713571 TTGCATTTAGGACTACACACGTGACTTATCCATCT
66 CTGCACTTAGGACTACACACGTGACCTATCAATCC
* * * * *
101713606 GATACACGTAGTAGCCTGCACTTAGTACTACATATATGATCGAAGTTAA-CGGGTACGCATAGTA
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACATATGA-CCAA-TCAATCGGGTACACATAGTA
* *
101713670 GCCTGCACTTAGTACTACACATGTGACCTATCAATCC
64 GCCTGCACTTAGGACTACACACGTGACCTATCAATCC
* * * * * *
101713707 GGTACACGTAGTAGCCTGCACTTAGTACTATACA-AGTAACCTAA-CCATCTGATACACGTAGTA
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACATA-TGACC-AATCAATCGGGTACACATAGTA
* ** * * *
101713770 GCCTGCACTTAGTACTACACACGTGATCGAACCTATCA
64 GCCTGCACTTAGGACTACACACGTGA-CCTATCAATCC
** * * * * *
101713808 GGTATGCATAGTAGCCTCCACTTAGTACTACACATGTGACCTAA-CAATCTGGTACACGTAGTAG
1 GGTACACGTAGTAGCCTGCACTTAGTACTACACATATGACC-AATCAATCGGGTACACATAGTAG
*
101713872 CCTGCACTTAGTACTACACACGTGACCTA
65 CCTGCACTTAGGACTACACACGTGACCTA
101713901 AAACTATCTT
Statistics
Matches: 242, Mismatches: 46, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
99 1 0.00
100 74 0.31
101 164 0.68
102 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
GGTACACGTAGTAGCCTGCACTTAGTACTACACATATGACCAATCAATCGGGTACACATAGTAGC
CTGCACTTAGGACTACACACGTGACCTATCAATCC
Found at i:101713780 original size:151 final size:151
Alignment explanation
Indices: 101713506--101713942 Score: 622
Period size: 151 Copynumber: 2.9 Consensus size: 151
101713496 GAAACTCTCT
* *
101713506 GGTACACATAGTAGCCTGTACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGC
* * * * *
101713571 TTGCATTTAGGACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
* ** *
101713636 CATATATGATCGAAGTTAACG
131 CATACATGATCGAACCTAACA
*
101713657 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCCGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGC
* * *
101713722 CTGCACTTAGTACTATACAAGTAACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
* * *
101713787 CACACGTGATCGAACCTATCA
131 CATACATGATCGAACCTAACA
* * *
101713808 GGTATGCATAGTAGCCTCCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGC
* * * * *
101713873 CTGCACTTAGTACTACACACGTGACCTAAAACTATCTTAAACACATAGTAGCCTGCACATAGTAC
66 CTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACGTAGTAGCCTGCACTTAGTAC
101713938 TACAT
129 TACAT
101713943 GTGTTCTCAC
Statistics
Matches: 253, Mismatches: 31, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
151 218 0.86
153 35 0.14
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CATACATGATCGAACCTAACA
Found at i:101716991 original size:9 final size:9
Alignment explanation
Indices: 101716977--101717005 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
101716967 ACATGTCATT
101716977 TATATCCTA
1 TATATCCTA
101716986 TATATCCTA
1 TATATCCTA
101716995 TATATCCTA
1 TATATCCTA
101717004 TA
1 TA
101717006 AATTTCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (9 bp):
TATATCCTA
Found at i:101719067 original size:47 final size:47
Alignment explanation
Indices: 101719007--101719229 Score: 179
Period size: 47 Copynumber: 4.7 Consensus size: 47
101718997 ACAACTCTTA
*
101719007 GCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATC-TCTGTCGAG
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCTGT-GAG
* * * *
101719054 GCCGATGCATGTCCCATACATGGTCTTACACTGACTATCAT-AGT-ATG
1 GCCGATGCATGTCCCAGACA-CGTCTTACACTGGCTATCATCTGTGA-G
* * * * ** * *
101719101 GCTGATGTATGTCCCAGACATGTCTTACACTAGCCCTCGTCTG-GAT
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCTGTGAG
* * * *
101719147 GCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGT--G
1 GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCAT-CTGTGAG
* *
101719195 GCTGAAGCATGTCCCAGACACGTCTTACACTGGCT
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCT
101719230 CACAAATCAC
Statistics
Matches: 138, Mismatches: 29, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
46 35 0.25
47 61 0.44
48 39 0.28
49 3 0.02
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATCTGTGAG
Found at i:101719092 original size:48 final size:48
Alignment explanation
Indices: 101718915--101719226 Score: 163
Period size: 47 Copynumber: 6.6 Consensus size: 48
101718905 GATATATTGT
* * * ** *
101718915 CGATGCCATGTCCCAGACATGGTCTTACATTGGA-TCTCATATACGCGTGC
1 CGATG-CATGTCCCAGACATGGTCTTACACT-GACTATCATCTGTGAG-GC
* * * *
101718965 TGATGCATGTCTCAGATAT-GTCTTACACTAGCAC-AAC-TCT-T-A-GC
1 CGATGCATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTGTGAGGC
* * *
101719009 CGATGCGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGAGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGACTATCATCTGT-GAGGC
* *
101719056 CGATGCATGTCCCATACATGGTCTTACACTGACTATCAT-AGT-ATGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGACTATCATCTGTGA-GGC
* * ** * *
101719103 TGATGTATGTCCCAGACAT-GTCTTACACT-AGCCCTCGTCTG-GATGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGA-CTATCATCTGTGAGGC
* * * *
101719149 CGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGT--GGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGACTATCAT-CTGTGAGGC
* * *
101719197 TGAAGCATGTCCCAGACA-CGTCTTACACTG
1 CGATGCATGTCCCAGACATGGTCTTACACTG
101719227 GCTCACAAAT
Statistics
Matches: 202, Mismatches: 41, Indels: 42
0.71 0.14 0.15
Matches are distributed among these distances:
42 1 0.00
43 6 0.03
44 27 0.13
45 1 0.00
46 33 0.16
47 63 0.31
48 50 0.25
49 17 0.08
50 4 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGACTATCATCTGTGAGGC
Found at i:101719126 original size:94 final size:94
Alignment explanation
Indices: 101719016--101719229 Score: 279
Period size: 94 Copynumber: 2.3 Consensus size: 94
101719006 AGCCGATGCG
* *
101719016 TGTCCCAGACACGTCTTACACTGGCTATC-TCTGTCGAGGCCGATG-CATGTCCCATACATGGTC
1 TGTCCCAGACACGTCTTACACTGGCTATCGTCTG--GAGGCCGATGCCATGCCCCAGACATGGTC
* * *
101719079 TTACACTGACTATCATAGTATGGCTGATGTA
64 TTACACTGACTATCATAATATGGCTGAAGCA
* * ** *
101719110 TGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGATGCCGATGCCATGCCCCAGACATGGTCTT
1 TGTCCCAGACACGTCTTACACTGGCTATCGTCTGGAGGCCGATGCCATGCCCCAGACATGGTCTT
* * *
101719175 ACACTGGCTCTCATAATGTGGCTGAAGCA
66 ACACTGACTATCATAATATGGCTGAAGCA
101719204 TGTCCCAGACACGTCTTACACTGGCT
1 TGTCCCAGACACGTCTTACACTGGCT
101719230 CACAAATCAC
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
93 9 0.09
94 89 0.87
95 4 0.04
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.28
Consensus pattern (94 bp):
TGTCCCAGACACGTCTTACACTGGCTATCGTCTGGAGGCCGATGCCATGCCCCAGACATGGTCTT
ACACTGACTATCATAATATGGCTGAAGCA
Found at i:101722308 original size:39 final size:39
Alignment explanation
Indices: 101722233--101722391 Score: 275
Period size: 39 Copynumber: 4.1 Consensus size: 39
101722223 ATTACCAGCA
* *
101722233 CCAGCACGAAGCCTG-GGGTCTTTAGCCCGGACACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
101722271 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
101722310 CCAGCACGAAGCCTGCGGGACTTTAGCACGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
101722349 CCCGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
101722388 CCAG
1 CCAG
101722392 TGTCTTGCAT
Statistics
Matches: 114, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
38 15 0.13
39 99 0.87
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:101723940 original size:2 final size:2
Alignment explanation
Indices: 101723933--101723978 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
101723923 ACGGAAAATA
101723933 AT AT AT AT AT 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 AT AT AT AT AT
101723975 AT AT
1 AT AT
101723979 TTTACTCGGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101724680 original size:19 final size:20
Alignment explanation
Indices: 101724648--101724685 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
101724638 AAACTCAGGG
* *
101724648 AAATTTTGAGAAAACATAGA
1 AAATTTTCAGAAAAAATAGA
101724668 AAATTTTCA-AAAAAATAG
1 AAATTTTCAGAAAAAATAG
101724686 GGGACACACG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (20 bp):
AAATTTTCAGAAAAAATAGA
Found at i:101727514 original size:18 final size:18
Alignment explanation
Indices: 101727482--101727530 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
101727472 TTTAAAACTT
*
101727482 AAATTTTGA-AAACTTAA
1 AAATTTGGAGAAACTTAA
101727499 AAATTTGGAGAAACTTAA
1 AAATTTGGAGAAACTTAA
101727517 AAATTTGGAGAAAC
1 AAATTTGGAGAAAC
101727531 GAGTTTGGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (18 bp):
AAATTTGGAGAAACTTAA
Found at i:101740582 original size:47 final size:47
Alignment explanation
Indices: 101740528--101740623 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
101740518 TTGTTTGGAT
* *
101740528 TGACATAGAAATATGTTTAAGAGATTAATTGATTTAGTATGTATGTA
1 TGACATAGAAATATGTTTAAAAGATTAATTGATTTAGTAAGTATGTA
* *
101740575 TGACATAGATATATGTTTAAAAGGTTAATTGATTTAGTAAGTATGTA
1 TGACATAGAAATATGTTTAAAAGATTAATTGATTTAGTAAGTATGTA
101740622 TG
1 TG
101740624 TGCATTAACA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.41
Consensus pattern (47 bp):
TGACATAGAAATATGTTTAAAAGATTAATTGATTTAGTAAGTATGTA
Found at i:101741751 original size:16 final size:17
Alignment explanation
Indices: 101741730--101741769 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 17
101741720 CACATTGAAG
101741730 TGTTTT-TCGAAAACCA
1 TGTTTTATCGAAAACCA
101741746 TGTTTTCATCGAAAACCA
1 TGTTTT-ATCGAAAACCA
101741764 TGTTTT
1 TGTTTT
101741770 CGTTGAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.27
18 16 0.73
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATCGAAAACCA
Found at i:101741759 original size:18 final size:18
Alignment explanation
Indices: 101741736--101741780 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
101741726 GAAGTGTTTT
101741736 TCGAAAACCATGTTTTCA
1 TCGAAAACCATGTTTTCA
*
101741754 TCGAAAACCATGTTTTCG
1 TCGAAAACCATGTTTTCA
*
101741772 TTGAAAACC
1 TCGAAAACC
101741781 CTTCTTGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.31
Consensus pattern (18 bp):
TCGAAAACCATGTTTTCA
Found at i:101749509 original size:37 final size:37
Alignment explanation
Indices: 101749416--101749509 Score: 91
Period size: 37 Copynumber: 2.5 Consensus size: 37
101749406 ACTAAACTCT
* * * * * *
101749416 AAAACTATAATATTTAAATTTCAATGACTAAATTGTAT
1 AAAACTGTAAAATTTAAA-TTCAAGGACTAAAATATAA
* *
101749454 AAAA-TGTAAGATTCTAAATTCAGGGACTAAAATATAA
1 AAAACTGTAAAATT-TAAATTCAAGGACTAAAATATAA
101749491 AAAACTGTAAAATTTAAAT
1 AAAACTGTAAAATTTAAAT
101749510 ATTAGGGATT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
37 30 0.65
38 16 0.35
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (37 bp):
AAAACTGTAAAATTTAAATTCAAGGACTAAAATATAA
Found at i:101761078 original size:22 final size:22
Alignment explanation
Indices: 101761050--101761093 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
101761040 TTTGACGAAA
101761050 AACTTGACTATAGATTTTCGAC
1 AACTTGACTATAGATTTTCGAC
*
101761072 AACTTGACTATATATTTTCGAC
1 AACTTGACTATAGATTTTCGAC
101761094 CATTGATGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (22 bp):
AACTTGACTATAGATTTTCGAC
Found at i:101769004 original size:41 final size:41
Alignment explanation
Indices: 101768936--101769218 Score: 196
Period size: 41 Copynumber: 7.0 Consensus size: 41
101768926 TATAAAACAC
*
101768936 AGAGCAATAGTGGCGTTTTGGGT--AAAACGCTGCTAAAAAA
1 AGAGCAATAGTGGCGTTTT-GGTAAAAAACGCCGCTAAAAAA
* * *
101768976 AGAGGAATAGTGGCGTTTTAGTAAAAAACGCCGCTAAAAAT
1 AGAGCAATAGTGGCGTTTTGGTAAAAAACGCCGCTAAAAAA
* * * *
101769017 AGAGCATTAGCGGCGCTTTTGGT--AAAACGCCACTAAAAACC
1 AGAGCAATAGTGGCG-TTTTGGTAAAAAACGCCGCTAAAAA-A
* * *
101769058 AGAG-AATTAGCGGCGCTTCTGGT--AAAACGCCGCTAAAAACC
1 AGAGCAA-TAGTGGCG-TTTTGGTAAAAAACGCCGCTAAAAA-A
* * * *
101769099 AGAGCATTAGCGGCGCTTCTGGT--AAAACGCCGCTAAAAACC
1 AGAGCAATAGTGGCG-TTTTGGTAAAAAACGCCGCTAAAAA-A
* * *
101769140 AGAGCATTAGCGGCGCTTTTGGT--AAGACGCCGCTAAAAACA
1 AGAGCAATAGTGGCG-TTTTGGTAAAAAACGCCGCTAAAAA-A
* *
101769181 AGAGCATTAGCGGCGCTTTTGGT--AAAACGCCGCTAAAA
1 AGAGCAATAGTGGCG-TTTTGGTAAAAAACGCCGCTAAAA
101769219 GTCATATAAC
Statistics
Matches: 219, Mismatches: 18, Indels: 11
0.88 0.07 0.04
Matches are distributed among these distances:
39 2 0.01
40 34 0.16
41 176 0.80
42 7 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (41 bp):
AGAGCAATAGTGGCGTTTTGGTAAAAAACGCCGCTAAAAAA
Found at i:101769127 original size:82 final size:82
Alignment explanation
Indices: 101768929--101769218 Score: 374
Period size: 82 Copynumber: 3.5 Consensus size: 82
101768919 CAAAAATTAT
* * * * *
101768929 AAAACACAGAGCAATAGTGGCG-TTTTGGGTAAAACGCTGCTAAAAA-AAGAGGAA-TAGTGGCG
1 AAAACA-AGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGCTAAAAACCAGA-GAATTAGCGGCG
* *
101768991 -TTTTAGTAAAAAACGCCGCTA
63 CTTCTGGT--AAAACGCCGCTA
* *
101769012 AAAA-TAGAGCATTAGCGGCGCTTTTGGTAAAACGCCACTAAAAACCAGAGAATTAGCGGCGCTT
1 AAAACAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGAATTAGCGGCGCTT
101769076 CTGGTAAAACGCCGCTA
66 CTGGTAAAACGCCGCTA
* * *
101769093 AAAACCAGAGCATTAGCGGCGCTTCTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTT
1 AAAACAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGAATTAGCGGCGCTT
* *
101769158 TTGGTAAGACGCCGCTA
66 CTGGTAAAACGCCGCTA
101769175 AAAACAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 AAAACAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
101769219 GTCATATAAC
Statistics
Matches: 185, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
81 49 0.26
82 127 0.69
83 9 0.05
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (82 bp):
AAAACAAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGAATTAGCGGCGCTT
CTGGTAAAACGCCGCTA
Found at i:101769441 original size:46 final size:46
Alignment explanation
Indices: 101769391--101769500 Score: 193
Period size: 46 Copynumber: 2.4 Consensus size: 46
101769381 GTTTAAGGTT
*
101769391 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAAGGTTTAAGGTTTATGAGTTAAC
*
101769437 TATGGTTTAAGATATATAGTTTAAGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAAGGTTTAAGGTTTATGAGTTAAC
*
101769483 TATGGTTTAAGATTTATG
1 TATGGTTTAAGATATATG
101769501 ATGAATTATG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.45
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAAGGTTTAAGGTTTATGAGTTAAC
Found at i:101769500 original size:14 final size:14
Alignment explanation
Indices: 101769376--101769500 Score: 70
Period size: 14 Copynumber: 8.4 Consensus size: 14
101769366 TTAATTGTCA
* *
101769376 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
101769390 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
* * *
101769404 ATATGGTTTAGGGT
1 TTATGGTTTAAGAT
* *
101769418 TTAAGGTTTATGAGT
1 TTATGGTTTAAGA-T
101769433 TAACTATGGTTTAAGAT
1 T---TATGGTTTAAGAT
* * *
101769450 ATATAGTTTAAGGT
1 TTATGGTTTAAGAT
* *
101769464 TTAAGGTTTATGAGT
1 TTATGGTTTAAGA-T
101769479 TAACTATGGTTTAAGAT
1 T---TATGGTTTAAGAT
101769496 TTATG
1 TTATG
101769501 ATGAATTATG
Statistics
Matches: 82, Mismatches: 21, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
14 55 0.67
15 4 0.05
17 3 0.04
18 20 0.24
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:101769515 original size:25 final size:25
Alignment explanation
Indices: 101769415--101769516 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 25
101769405 TATGGTTTAG
* *
101769415 GGTTTAAGGTTTATGAGTTAACTAT
1 GGTTTAAGATTTATGAGTGAACTAT
* * *
101769440 GGTTTAAGATATAT-AGT---TTAA
1 GGTTTAAGATTTATGAGTGAACTAT
* *
101769461 GGTTTAAGGTTTATGAGTTAACTAT
1 GGTTTAAGATTTATGAGTGAACTAT
*
101769486 GGTTTAAGATTTATGA-TGAATTAT
1 GGTTTAAGATTTATGAGTGAACTAT
101769510 GAGTTTA
1 G-GTTTA
101769517 GGGATTATGA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
21 14 0.23
22 3 0.05
24 10 0.16
25 34 0.56
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.44
Consensus pattern (25 bp):
GGTTTAAGATTTATGAGTGAACTAT
Found at i:101769532 original size:14 final size:15
Alignment explanation
Indices: 101769505--101769533 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
101769495 TTTATGATGA
101769505 ATTATGAGTTTAGGG
1 ATTATGAGTTTAGGG
101769520 ATTATGA-TTTAGGG
1 ATTATGAGTTTAGGG
101769534 TTTAAGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (15 bp):
ATTATGAGTTTAGGG
Found at i:101769599 original size:7 final size:7
Alignment explanation
Indices: 101769512--101769607 Score: 54
Period size: 7 Copynumber: 13.7 Consensus size: 7
101769502 TGAATTATGA
101769512 GTTTAGG
1 GTTTAGG
* *
101769519 GATTATG
1 GTTTAGG
*
101769526 ATTTAGG
1 GTTTAGG
101769533 GTTTAAGG
1 GTTT-AGG
101769541 G-TTAGG
1 GTTTAGG
101769547 G-TT-GG
1 GTTTAGG
*
101769552 AGTTTAAG
1 -GTTTAGG
*
101769560 GTGTAAGG
1 GT-TTAGG
*
101769568 GTTTGGG
1 GTTTAGG
*
101769575 GTTAAGG
1 GTTTAGG
* *
101769582 GTTAAAG
1 GTTTAGG
101769589 GTTTAGG
1 GTTTAGG
*
101769596 GTTTAGT
1 GTTTAGG
101769603 GTTTA
1 GTTTA
101769608 TGGGATACGG
Statistics
Matches: 67, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
5 2 0.03
6 7 0.10
7 48 0.72
8 10 0.15
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.40
Consensus pattern (7 bp):
GTTTAGG
Found at i:101774645 original size:42 final size:43
Alignment explanation
Indices: 101774478--101774668 Score: 285
Period size: 43 Copynumber: 4.4 Consensus size: 43
101774468 TTTTGAATTT
* **
101774478 ATGACATTTAGCGGCATTTGTGGGAAAAAATGCCGCTAAAAGTC
1 ATGACCTTTAGCGGCATTTGTGGG-AAAAGCGCCGCTAAAAGTC
* *
101774522 ATGACCTTTCGCGGCATTTTTGGGAAAAGCGCCGCTAAAAGTC
1 ATGACCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTC
* *
101774565 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAATGTC
1 ATGACCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTC
101774608 ATGACCTTTAGCGGCATTTG-GGGAAAAGCGCCGCTAAAAGTC
1 ATGACCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTC
**
101774650 ATGATTTTTAGCGGCATTT
1 ATGACCTTTAGCGGCATTT
101774669 TTTCAAATAA
Statistics
Matches: 134, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 38 0.28
43 75 0.56
44 21 0.16
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
ATGACCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTC
Found at i:101774660 original size:85 final size:87
Alignment explanation
Indices: 101774478--101774668 Score: 287
Period size: 85 Copynumber: 2.2 Consensus size: 87
101774468 TTTTGAATTT
* * * *
101774478 ATGACATTTAGCGGCATTTGTGGGAAAAAATGCCGCTAAAAGTCATGACCTTTCGCGGCATTTTT
1 ATGACCTTTAGCGGCATTTGTGGGAAAAAACGCCGCTAAAAGTCATGACCTTTAGCGGCATTTTG
101774543 GGGAAAAGCGCCGCTAAAAGTC
66 GGGAAAAGCGCCGCTAAAAGTC
* * *
101774565 ATGACCTTTAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAATGTCATGACCTTTAGCGGCA-TTTG
1 ATGACCTTTAGCGGCATTTGTGGGAAAAAACGCCGCTAAAAGTCATGACCTTTAGCGGCATTTTG
101774628 GGGAAAAGCGCCGCTAAAAGTC
66 GGGAAAAGCGCCGCTAAAAGTC
**
101774650 ATGATTTTTAGCGGCATTT
1 ATGACCTTTAGCGGCATTT
101774669 TTTCAAATAA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 41 0.44
86 31 0.33
87 22 0.23
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (87 bp):
ATGACCTTTAGCGGCATTTGTGGGAAAAAACGCCGCTAAAAGTCATGACCTTTAGCGGCATTTTG
GGGAAAAGCGCCGCTAAAAGTC
Found at i:101777766 original size:22 final size:22
Alignment explanation
Indices: 101777741--101777816 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
101777731 AAGTGTATAT
101777741 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * **
101777763 ATGTGATGAATG-TGAATGTGTATA
1 ATGTGAT-AAGGCCGAATG-G-CCA
*
101777787 TATGTGATAAGGCCGAATGGCCG
1 -ATGTGATAAGGCCGAATGGCCA
101777810 ATGTGAT
1 ATGTGAT
101777817 GGATGTGAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 4 0.10
24 5 0.12
25 12 0.30
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:101777773 original size:47 final size:47
Alignment explanation
Indices: 101777719--101777891 Score: 283
Period size: 47 Copynumber: 3.7 Consensus size: 47
101777709 ATGATGAAAT
101777719 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
* *
101777766 TGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCGATG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
* * *
101777813 TGATGGATGTGAAGGTGTATATATGTGATAAGGCCAAATGGCCAATG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
* *
101777860 TGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TGATGAATGTGAAAGTGTATATATGTGATAAG
101777892 TCCCGAAGGG
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 118 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
Found at i:101777804 original size:25 final size:25
Alignment explanation
Indices: 101777733--101777805 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
101777723 GAATGTGAAA
101777733 GTGTATATATGTGATAAGGCCGAAT
1 GTGTATATATGTGATAAGGCCGAAT
** * *
101777758 G-G-CCA-ATGTGATGAATG-TGAAT
1 GTGTATATATGTGAT-AAGGCCGAAT
101777780 GTGTATATATGTGATAAGGCCGAAT
1 GTGTATATATGTGATAAGGCCGAAT
101777805 G
1 G
101777806 GCCGATGTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
22 12 0.34
23 5 0.14
24 5 0.14
25 13 0.37
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (25 bp):
GTGTATATATGTGATAAGGCCGAAT
Found at i:101779923 original size:43 final size:43
Alignment explanation
Indices: 101779873--101780184 Score: 534
Period size: 43 Copynumber: 7.3 Consensus size: 43
101779863 AAGAGCATTC
*
101779873 GTGCCGGTGATATGTATTCGGGCCTTCATGCCTAGCAGGCTTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
101779916 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
101779959 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
101780002 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
*
101780045 GTGCCGATGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
* *
101780088 GTGCCGATGATATGTATTCAGGCCTTCGTGCCTAGCAGGCTTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
* * ** *
101780131 GTGCCGATAATATGTATTCGGGTTTTCGTGCCTAGCAGGCTTA
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
*
101780174 ATGCCGGTGAT
1 GTGCCGGTGAT
101780185 TCGAGCAAGG
Statistics
Matches: 258, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 258 1.00
ACGTcount: A:0.14, C:0.22, G:0.31, T:0.33
Consensus pattern (43 bp):
GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
Found at i:101780404 original size:28 final size:27
Alignment explanation
Indices: 101780313--101780406 Score: 80
Period size: 28 Copynumber: 3.3 Consensus size: 27
101780303 CGAATGAATA
* * *
101780313 TGGGCACTATGTGTGCGAAATCAGTAAT
1 TGGGCACTATGTGTGCGAGATC-GTCAC
* * *
101780341 TGAGGCACTGTGTGTGCGAGTTCTTCAAC
1 TG-GGCACTATGTGTGCGAGATCGTC-AC
* *
101780370 TGAGCACTATGTGTGCGAGATCGGTCAG
1 TGGGCACTATGTGTGCGAGATC-GTCAC
101780398 TGGGCACTA
1 TGGGCACTA
101780407 AGTGCGTGAA
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
28 29 0.57
29 22 0.43
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (27 bp):
TGGGCACTATGTGTGCGAGATCGTCAC
Found at i:101783894 original size:22 final size:22
Alignment explanation
Indices: 101783869--101783944 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
101783859 AAGTGTATAT
101783869 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * **
101783891 ATGTGATGAATG-TGAATGTGTATA
1 ATGTGAT-AAGGCCGAATG-G-CCA
*
101783915 TATGTGATAAGGCCGAATGGCCG
1 -ATGTGATAAGGCCGAATGGCCA
101783938 ATGTGAT
1 ATGTGAT
101783945 GGATGTGAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 19 0.47
23 4 0.10
24 5 0.12
25 12 0.30
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:101783901 original size:47 final size:47
Alignment explanation
Indices: 101783847--101784019 Score: 283
Period size: 47 Copynumber: 3.7 Consensus size: 47
101783837 ATGATGAAAT
101783847 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
* *
101783894 TGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCGATG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
* * *
101783941 TGATGGATGTGAAGGTGTATATATGTGATAAGGCCAAATGGCCAATG
1 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
* *
101783988 TGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TGATGAATGTGAAAGTGTATATATGTGATAAG
101784020 TCCCGAAGGG
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 118 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
TGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATG
Found at i:101783932 original size:25 final size:25
Alignment explanation
Indices: 101783861--101783933 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
101783851 GAATGTGAAA
101783861 GTGTATATATGTGATAAGGCCGAAT
1 GTGTATATATGTGATAAGGCCGAAT
** * *
101783886 G-G-CCA-ATGTGATGAATG-TGAAT
1 GTGTATATATGTGAT-AAGGCCGAAT
101783908 GTGTATATATGTGATAAGGCCGAAT
1 GTGTATATATGTGATAAGGCCGAAT
101783933 G
1 G
101783934 GCCGATGTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
22 12 0.34
23 5 0.14
24 5 0.14
25 13 0.37
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (25 bp):
GTGTATATATGTGATAAGGCCGAAT
Found at i:101785954 original size:53 final size:53
Alignment explanation
Indices: 101785869--101785976 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
101785859 TCCTCCCCAG
101785869 ACCAATATTACGTATACGAACTTTCTTGGTAACTTTGTCCTCCAATGAAGTCA
1 ACCAATATTACGTATACGAACTTTCTTGGTAACTTTGTCCTCCAATGAAGTCA
* *
101785922 ACCATTATTATGTATACGAACTTTCTTGGTAACTTTGTCCTCCAATGAAGTCA
1 ACCAATATTACGTATACGAACTTTCTTGGTAACTTTGTCCTCCAATGAAGTCA
101785975 AC
1 AC
101785977 GATGCAGAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (53 bp):
ACCAATATTACGTATACGAACTTTCTTGGTAACTTTGTCCTCCAATGAAGTCA
Found at i:101795192 original size:48 final size:47
Alignment explanation
Indices: 101795039--101795302 Score: 179
Period size: 48 Copynumber: 5.6 Consensus size: 47
101795029 AATGCCGACG
* * * *
101795039 GCATATCCCAGACATGGTCTTACACTGGCTTTCATATAGCAAGGCTGAT
1 GCATGTCCCAGACA-GGTCTTACACTAGCTTT-ATATCGCGAGGCTGAT
* * * * *
101795088 GCCATGTCCCAGATAGGTCTTACAC-AGAC---ACA-CAAC-AAGCTGAC
1 G-CATGTCCCAGACAGGTCTTACACTAG-CTTTATATC-GCGAGGCTGAT
*
101795132 GCCATGTCCCAGACAGGTCTTACACCAGCTTGTATATCGCGAGGCTGAT
1 G-CATGTCCCAGACAGGTCTTACACTAGCTT-TATATCGCGAGGCTGAT
* * * * * * * *
101795181 GCATGTCCCAGATATGTCTCACACTGGCTTAAATATCTCTAGGCCGAT
1 GCATGTCCCAGACAGGTCTTACACTAGCTT-TATATCGCGAGGCTGAT
*
101795229 GCATGTCCCAGAC-GTGTCTTACACTAGCTTT-CAT-GCTGTA-GCTGAT
1 GCATGTCCCAGACAG-GTCTTACACTAGCTTTATATCGC-G-AGGCTGAT
*
101795275 GCATGTCCCAGATAGGTCTTACACTAGC
1 GCATGTCCCAGACAGGTCTTACACTAGC
101795303 ATACATATCA
Statistics
Matches: 168, Mismatches: 33, Indels: 31
0.72 0.14 0.13
Matches are distributed among these distances:
44 31 0.18
45 6 0.04
46 32 0.19
47 2 0.01
48 66 0.39
49 20 0.12
50 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (47 bp):
GCATGTCCCAGACAGGTCTTACACTAGCTTTATATCGCGAGGCTGAT
Found at i:101795670 original size:30 final size:30
Alignment explanation
Indices: 101795634--101795717 Score: 141
Period size: 30 Copynumber: 2.8 Consensus size: 30
101795624 ATAATTGGGA
*
101795634 AAAATGACCATTTTTCCCTTAGACTTTCAC
1 AAAATGACCATTTTACCCTTAGACTTTCAC
101795664 AAAATGACCATTTTACCCTTAGACTTTCAC
1 AAAATGACCATTTTACCCTTAGACTTTCAC
* *
101795694 AAAATAACCATTTTACCCCTAGAC
1 AAAATGACCATTTTACCCTTAGAC
101795718 GTGAAAATTG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (30 bp):
AAAATGACCATTTTACCCTTAGACTTTCAC
Found at i:101799965 original size:17 final size:18
Alignment explanation
Indices: 101799943--101799976 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101799933 AGTTGAATTG
101799943 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
*
101799960 AAATTGTGAAAATTAAA
1 AAATTGCGAAAATTAAA
101799977 ATGGAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:101800722 original size:10 final size:10
Alignment explanation
Indices: 101800695--101800744 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
101800685 TTAAATACTA
101800695 AAAGATAAAT
1 AAAGATAAAT
101800705 ACAA-ATAAAT
1 A-AAGATAAAT
*
101800715 AAAGATAATT
1 AAAGATAAAT
*
101800725 AATGATAAAT
1 AAAGATAAAT
101800735 GAAA-ATAAAT
1 -AAAGATAAAT
101800745 CCTAAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.82
11 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:101802470 original size:12 final size:12
Alignment explanation
Indices: 101802453--101802507 Score: 67
Period size: 12 Copynumber: 4.3 Consensus size: 12
101802443 TTAATATCTG
101802453 AAAATAATAAAT
1 AAAATAATAAAT
101802465 AAAATAATAAGAT
1 AAAATAATAA-AT
101802478 AAAATAAATAAAAT
1 AAAAT-AAT-AAAT
101802492 AAAAATAA-AAAT
1 -AAAATAATAAAT
101802504 AAAA
1 AAAA
101802508 ATTGGGTTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.10
12 14 0.36
13 7 0.18
14 7 0.18
15 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:101802483 original size:22 final size:21
Alignment explanation
Indices: 101802458--101802506 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
101802448 ATCTGAAAAT
101802458 AATAAATAAAATAATAAGAT-AA
1 AATAAATAAAATAA-AA-ATAAA
101802480 AATAAATAAAATAAAAATAAA
1 AATAAATAAAATAAAAATAAA
101802501 AATAAA
1 AATAAA
101802507 AATTGGGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.08
21 10 0.38
22 14 0.54
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (21 bp):
AATAAATAAAATAAAAATAAA
Found at i:101808907 original size:10 final size:10
Alignment explanation
Indices: 101808880--101808929 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
101808870 TTAAATACTA
101808880 AAAGATAAAT
1 AAAGATAAAT
101808890 ACAA-ATAAAT
1 A-AAGATAAAT
*
101808900 AAAGATAATT
1 AAAGATAAAT
*
101808910 AATGATAAAT
1 AAAGATAAAT
101808920 GAAA-ATAAAT
1 -AAAGATAAAT
101808930 CCTAAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.82
11 4 0.12
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:101809501 original size:27 final size:29
Alignment explanation
Indices: 101809463--101809519 Score: 100
Period size: 27 Copynumber: 2.0 Consensus size: 29
101809453 AATCAAATTG
101809463 CTACTCCTACTAACAAGCTAA-AAA-CTC
1 CTACTCCTACTAACAAGCTAACAAATCTC
101809490 CTACTCCTACTAACAAGCTAACAAATCTC
1 CTACTCCTACTAACAAGCTAACAAATCTC
101809519 C
1 C
101809520 CTAGGACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 21 0.75
28 3 0.11
29 4 0.14
ACGTcount: A:0.39, C:0.35, G:0.04, T:0.23
Consensus pattern (29 bp):
CTACTCCTACTAACAAGCTAACAAATCTC
Found at i:101814427 original size:26 final size:26
Alignment explanation
Indices: 101814396--101814503 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
101814386 TGAAATTCCC
*
101814396 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
101814422 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
101814448 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
101814474 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
101814500 ATCA
1 ATCA
101814504 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:101816454 original size:344 final size:343
Alignment explanation
Indices: 101815812--101816501 Score: 1290
Period size: 344 Copynumber: 2.0 Consensus size: 343
101815802 GGATGATAAA
* *
101815812 AGAATAAATAAATGAAATTAGTGCTTTGTGTCTTCTCCTCCAAGGACAAAACAAGAAAAAGAAAG
1 AGAATAAATAAATGAAATTAGTGCTTTATGTCTTCTCCTCCAACGACAAAACAAGAAAAAGAAAG
101815877 AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
66 AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
101815942 TGTTCAATTTTTGTTAAAATTCAATTTATCATAGTAGATGAATATAACCCAATTCTTAAAAGTTG
131 TGTTCAATTTTTGTTAAAATTCAATTTATCATAGTAGATGAATATAACCCAATTCTTAAAAGTTG
*
101816007 AAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGAGAAATGTTG
196 AAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGACAAATGTTG
*
101816072 AAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAAAGTATAATTATAAAAT
261 AAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAAAGTATAACTATAAAAT
* *
101816137 TATATTTATATTCGAATG
326 CATATTTATATTCGAAAG
101816155 AGAATAAATAAATGAAATTAGTGCTTTATGTCTTCTCCTCCAACGACAAAACAAGAAAAAGAAAG
1 AGAATAAATAAATGAAATTAGTGCTTTATGTCTTCTCCTCCAACGACAAAACAAGAAAAAGAAAG
101816220 AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
66 AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
* *
101816285 TGTTTAATTTTTGTTAAAATTTCAATTTATCATGGTAGATGAATATAACCCAATTCTTAAAAGTT
131 TGTTCAATTTTTGTTAAAA-TTCAATTTATCATAGTAGATGAATATAACCCAATTCTTAAAAGTT
101816350 GAAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGACAAATGTT
195 GAAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGACAAATGTT
*
101816415 GAAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAGAGTATAACTATAAAA
260 GAAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAAAGTATAACTATAAAA
101816480 TCATATTTATATTCGAAAG
325 TCATATTTATATTCGAAAG
101816499 AGA
1 AGA
101816502 GAGTTGTGAG
Statistics
Matches: 337, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
343 146 0.43
344 191 0.57
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (343 bp):
AGAATAAATAAATGAAATTAGTGCTTTATGTCTTCTCCTCCAACGACAAAACAAGAAAAAGAAAG
AAAGAAAGCTTGCATGTGTTGTTCACCATTTTCGTGAGCTTGTTATAAGAATTATTAAGCTTTCT
TGTTCAATTTTTGTTAAAATTCAATTTATCATAGTAGATGAATATAACCCAATTCTTAAAAGTTG
AAATTACTAAGGTGTTGCTAAGTAATTTATTGATGGTTGTTATGAATTTAGAGAGACAAATGTTG
AAAACTTTAGAGAAAAAATTTATGTTTATTGATAGTTTGAGGTCCCTAAAGTATAACTATAAAAT
CATATTTATATTCGAAAG
Found at i:101822194 original size:16 final size:16
Alignment explanation
Indices: 101822173--101822219 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
101822163 CACTGGAATA
*
101822173 GAATAGGGCTGTAATG
1 GAATAGAGCTGTAATG
101822189 GAATAGAGCTGTAATG
1 GAATAGAGCTGTAATG
* * *
101822205 TAATAAAGTTGTAAT
1 GAATAGAGCTGTAAT
101822220 CAATAATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.28, T:0.30
Consensus pattern (16 bp):
GAATAGAGCTGTAATG
Found at i:101822493 original size:8 final size:10
Alignment explanation
Indices: 101822469--101822497 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
101822459 TTTTTTATTT
101822469 TTATATTAAA
1 TTATATTAAA
101822479 TTATATTAAA
1 TTATATTAAA
101822489 TTAT-TTAAA
1 TTATATTAAA
101822498 ATATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTATATTAAA
Found at i:101828174 original size:59 final size:59
Alignment explanation
Indices: 101828082--101828200 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
101828072 TTATGGTTAA
101828082 AAGAGTGTTGACAGGGTGTAGACTTAGTATTCTTGAAGAGTCGATCATTTCTTCGTTGT
1 AAGAGTGTTGACAGGGTGTAGACTTAGTATTCTTGAAGAGTCGATCATTTCTTCGTTGT
101828141 AAGAGTGTTGACAGGGTGTAGACTTAGTATTCTTGAAGAGTCGATCATTTCTTCGTTGT
1 AAGAGTGTTGACAGGGTGTAGACTTAGTATTCTTGAAGAGTCGATCATTTCTTCGTTGT
101828200 A
1 A
101828201 CTTTAAGGTA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (59 bp):
AAGAGTGTTGACAGGGTGTAGACTTAGTATTCTTGAAGAGTCGATCATTTCTTCGTTGT
Found at i:101832257 original size:50 final size:48
Alignment explanation
Indices: 101832183--101832325 Score: 171
Period size: 48 Copynumber: 3.0 Consensus size: 48
101832173 TGGCGTTGAT
* *
101832183 ATGG-GATCCAATGTAAGACTATGTCTGAGACATGGCATTGGCATCAA
1 ATGGAGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCAA
* * *
101832230 CATATGAGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAA
1 -AT-GGAGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCAA
* * * * *
101832280 GTGGTGATCCCATGTAAGACCATATCTGAGATATGGCGTTGGCATC
1 ATGGAGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATC
101832326 TTATTATGTG
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
48 39 0.49
49 2 0.03
50 39 0.49
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (48 bp):
ATGGAGATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCAA
Found at i:101832316 original size:48 final size:50
Alignment explanation
Indices: 101832187--101832325 Score: 174
Period size: 50 Copynumber: 2.8 Consensus size: 50
101832177 GTTGATATGG
* * *
101832187 GATCCAATGTAAGACTATGTCTGAGACATGGCATTGGCATCAACATATGA
1 GATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCAACATAGGA
* * * *
101832237 GATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAA-GT-GGT
1 GATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCAACATAGGA
* * *
101832285 GATCCCATGTAAGACCATATCTGAGATATGGCGTTGGCATC
1 GATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATC
101832326 TTATTATGTG
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 37 0.48
49 1 0.01
50 39 0.51
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (50 bp):
GATCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCAACATAGGA
Found at i:101837066 original size:43 final size:43
Alignment explanation
Indices: 101836963--101837070 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
101836953 TAGCCCAGCT
*
101836963 ATGGTCTTACACGA-AATCAAATAACGATGCCAATGTCCCAGAA
1 ATGGTCTTACAC-ATAATCACATAACGATGCCAATGTCCCAGAA
** * * *
101837006 ATGGTCTTACATGTAATCACGTAATGATGCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAA
101837049 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
101837071 CTCGTTAATC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAGAA
Found at i:101838191 original size:11 final size:11
Alignment explanation
Indices: 101838175--101838200 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
101838165 GTAAACACCA
101838175 AAAATAATTTT
1 AAAATAATTTT
101838186 AAAATAATTTT
1 AAAATAATTTT
101838197 AAAA
1 AAAA
101838201 CCTCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:101848980 original size:44 final size:44
Alignment explanation
Indices: 101848931--101849018 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
101848921 CCTAAATGAA
*
101848931 AATGAAAATGGAGAAAACAGAATCATTTAGAAACGAATGTGGTT
1 AATGAAAATAGAGAAAACAGAATCATTTAGAAACGAATGTGGTT
* * *
101848975 AATGAAAATAGATAAAACGGAATCATTTAGAAATGAATGTGGTT
1 AATGAAAATAGAGAAAACAGAATCATTTAGAAACGAATGTGGTT
101849019 TTCTCAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.48, C:0.06, G:0.22, T:0.25
Consensus pattern (44 bp):
AATGAAAATAGAGAAAACAGAATCATTTAGAAACGAATGTGGTT
Found at i:101854055 original size:22 final size:21
Alignment explanation
Indices: 101854030--101854074 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
101854020 TTAGAAAATA
101854030 TTATATAAATTTTGGAAAATTT
1 TTAT-TAAATTTTGGAAAATTT
* **
101854052 TTATTTAATTTTTTAAAATTT
1 TTATTAAATTTTGGAAAATTT
101854073 TT
1 TT
101854075 GAAGATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTAAATTTTGGAAAATTT
Found at i:101866441 original size:40 final size:39
Alignment explanation
Indices: 101866386--101866589 Score: 264
Period size: 40 Copynumber: 5.1 Consensus size: 39
101866376 TGAATGATAC
* * *
101866386 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
* * *
101866426 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
*
101866466 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
*
101866506 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * *
101866546 CCGAGCTAAGACCCGAAGGCATTCGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GTTATAT
101866586 CCGG
1 CCGG
101866590 TTATATTCCG
Statistics
Matches: 147, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 144 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTTATAT
Found at i:101873718 original size:40 final size:39
Alignment explanation
Indices: 101873649--101873852 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 39
101873639 TGAATGATAC
* * * *
101873649 CCGGGCTAAGTCCCGAAGACATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TTATAT
* * *
101873689 CCGGGTTAAGACCCAAAGGCAATTGTGCTAGTGACTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TTATAT
* *
101873729 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGTTATAT
* * *
101873769 CCGGGATAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGTTATAT
*
101873809 CCGGGCTAAGACCCGAAGGC-ATTCGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGT-GTTATAT
101873849 CCGG
1 CCGG
101873853 TTATATTCCG
Statistics
Matches: 144, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.02
40 139 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
Found at i:101873782 original size:80 final size:80
Alignment explanation
Indices: 101873649--101873852 Score: 268
Period size: 80 Copynumber: 2.5 Consensus size: 80
101873639 TGAATGATAC
* * * *
101873649 CCGGGCTAAGTCCCGAAGACATTTATGCTAG-TGATTATATCCGGGTTAAGACCCAAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGATAAGACCCAAAGGCAATT
*
101873713 GTGCTAG-TGACTATAT
65 GTGCGAGTTG-CTATAT
* * *
101873729 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGATAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGATAAGACCCAAAGGCAATTG
*
101873794 TGCGAGTTGTTATAT
66 TGCGAGTTGCTATAT
* * *
101873809 CCGGGCTAAGACCCGAAGGCATTCGTGCTTGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGG
101873853 TTATATTCCG
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 105 0.96
81 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGATAAGACCCAAAGGCAATTG
TGCGAGTTGCTATAT
Found at i:101877833 original size:28 final size:29
Alignment explanation
Indices: 101877781--101877835 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
101877771 AGATTTTTAA
101877781 AAAAATTAAGAAAATAGGCTAAATTTTTT
1 AAAAATTAAGAAAATAGGCTAAATTTTTT
* * *
101877810 AAAATTTATGAAAATGGGCT-AATTTT
1 AAAAATTAAGAAAATAGGCTAAATTTT
101877836 AGTAAAACGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (29 bp):
AAAAATTAAGAAAATAGGCTAAATTTTTT
Found at i:101877841 original size:29 final size:29
Alignment explanation
Indices: 101877781--101877842 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
101877771 AGATTTTTAA
*
101877781 AAAAATTAAGAAAATAGGCTAAATTTTTT
1 AAAAATTAAGAAAATAGGCTAAATTTTGT
* * *
101877810 AAAATTTATGAAAATGGGCT-AATTTTAGT
1 AAAAATTAAGAAAATAGGCTAAATTTT-GT
101877839 AAAA
1 AAAA
101877843 CGTTTTCCGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.50, C:0.03, G:0.13, T:0.34
Consensus pattern (29 bp):
AAAAATTAAGAAAATAGGCTAAATTTTGT
Found at i:101884489 original size:13 final size:13
Alignment explanation
Indices: 101884471--101884497 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
101884461 CGCAGTGCCT
101884471 ATAAACTATTACA
1 ATAAACTATTACA
101884484 ATAAACTATTACA
1 ATAAACTATTACA
101884497 A
1 A
101884498 GCTTTGGAGG
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:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAAACTATTACA
Found at i:101886623 original size:35 final size:38
Alignment explanation
Indices: 101886584--101886658 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 38
101886574 ATAATAAAAA
* *
101886584 TAATATAT-GTAGAAA-AT-TTTAATATTATAATTTAT
1 TAATATATAGTAGAAATATATTTAATAGTATAATATAT
* *
101886619 TAATATATATTATAAATATATTTAATAGTATAATATAT
1 TAATATATAGTAGAAATATATTTAATAGTATAATATAT
101886657 TA
1 TA
101886659 TTTATAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 8 0.24
36 5 0.15
37 2 0.06
38 18 0.55
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (38 bp):
TAATATATAGTAGAAATATATTTAATAGTATAATATAT
Found at i:101886662 original size:20 final size:20
Alignment explanation
Indices: 101886601--101886662 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
101886591 TGTAGAAAAT
*
101886601 TTTAATATTATAATTTATTA
1 TTTAATATTATAATATATTA
*
101886621 -ATATATATTATAA-ATA-TA
1 TTTA-ATATTATAATATATTA
*
101886639 TTTAATAGTATAATATATTA
1 TTTAATATTATAATATATTA
101886659 TTTA
1 TTTA
101886663 TAAAATATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 10 0.29
19 9 0.26
20 15 0.44
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTTAATATTATAATATATTA
Found at i:101889085 original size:25 final size:25
Alignment explanation
Indices: 101889056--101889106 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
101889046 TGCCCTGAAA
101889056 GAAATTTGGGATATTGTAAAATCTT
1 GAAATTTGGGATATTGTAAAATCTT
101889081 GAAATTTGGGATATTGTAAAATCTT
1 GAAATTTGGGATATTGTAAAATCTT
101889106 G
1 G
101889107 TCTTAGCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (25 bp):
GAAATTTGGGATATTGTAAAATCTT
Found at i:101895667 original size:24 final size:25
Alignment explanation
Indices: 101895618--101895667 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
101895608 ACCCTTCTCA
* *
101895618 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCCCTCTCATTGTTC
101895643 TCTCTTCA-TTCCCT-TCCATTGTTC
1 TCTCTTCACTTCCCTCT-CATTGTTC
101895667 T
1 T
101895668 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 1 0.05
24 13 0.59
25 8 0.36
ACGTcount: A:0.08, C:0.36, G:0.02, T:0.54
Consensus pattern (25 bp):
TCTCTTCACTTCCCTCTCATTGTTC
Found at i:101899376 original size:15 final size:15
Alignment explanation
Indices: 101899356--101899385 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
101899346 ATCAGACCCT
101899356 CCAAATGATGAAGAG
1 CCAAATGATGAAGAG
101899371 CCAAATGATGAAGAG
1 CCAAATGATGAAGAG
101899386 GAGGATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.27, T:0.13
Consensus pattern (15 bp):
CCAAATGATGAAGAG
Found at i:101902982 original size:25 final size:24
Alignment explanation
Indices: 101902943--101902998 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
101902933 TTTTCTCCTA
* *
101902943 AATTTTTATTTTATTTAATTATTT
1 AATTTTTAATTTATTGAATTATTT
101902967 AATTTTCTAATTTATTGAATTA-TT
1 AATTTT-TAATTTATTGAATTATTT
*
101902991 AATATTTA
1 AATTTTTA
101902999 TACTAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 13 0.46
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
AATTTTTAATTTATTGAATTATTT
Found at i:101903944 original size:26 final size:26
Alignment explanation
Indices: 101903908--101903960 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
101903898 AGAAGAAGAA
* * *
101903908 GATCCTATAGAGATTGAACCAGTGCT
1 GATCCCATAGAGATCGAACCAATGCT
101903934 GATCCCATAGAGATCGAACCAATGCT
1 GATCCCATAGAGATCGAACCAATGCT
101903960 G
1 G
101903961 CCAGCTGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (26 bp):
GATCCCATAGAGATCGAACCAATGCT
Found at i:101907075 original size:40 final size:40
Alignment explanation
Indices: 101907030--101907197 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
101907020 CGGAATATAA
101907030 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
101907070 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
101907110 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
101907150 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
101907190 CCGGATAT
1 CCGGATAT
101907198 TATTCAATTT
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 108 0.99
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:101914163 original size:2 final size:2
Alignment explanation
Indices: 101914156--101914183 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
101914146 CTCCAATGCC
101914156 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
101914184 TATGGGCTTA
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:101921026 original size:35 final size:35
Alignment explanation
Indices: 101920987--101921056 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
101920977 ATAAACGTAT
**
101920987 TTAAATTGTGTTATAAATGCTTATTTATTATTGAA
1 TTAAATTGAATTATAAATGCTTATTTATTATTGAA
* * * *
101921022 TTAAATTGAATTCTATATGTTTATTTTTTATTGAA
1 TTAAATTGAATTATAAATGCTTATTTATTATTGAA
101921057 CTGTTATGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (35 bp):
TTAAATTGAATTATAAATGCTTATTTATTATTGAA
Found at i:101921320 original size:43 final size:42
Alignment explanation
Indices: 101921176--101921350 Score: 158
Period size: 43 Copynumber: 4.1 Consensus size: 42
101921166 GATTGCTGAG
* * *
101921176 ATGAGATTACATATAAGACCATGTCTGGGACATTGTCATTGT
1 ATGAGATTACATGTAAGACTATGTCTGGGACATTGGCATTGT
* * * *
101921218 ATTGTGATTGCGTGTAAGACTATGTTTGGGACATTGGCATTGT
1 A-TGAGATTACATGTAAGACTATGTCTGGGACATTGGCATTGT
* * * *
101921261 -TGTATGATTTCGTGTAAGACTATGTCTAGGACATTGGCATCGAT
1 ATG-A-GATTACATGTAAGACTATGTCTGGGACATTGGCATTG-T
* * *
101921305 ATGAGATAACATGTAAGA-TCATATCTGGGATA-TGGCATTGT
1 ATGAGATTACATGTAAGACT-ATGTCTGGGACATTGGCATTGT
101921346 ATGAG
1 ATGAG
101921351 CTTTATGTGA
Statistics
Matches: 108, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
41 8 0.07
42 9 0.08
43 87 0.81
44 2 0.02
45 2 0.02
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (42 bp):
ATGAGATTACATGTAAGACTATGTCTGGGACATTGGCATTGT
Found at i:101923579 original size:40 final size:39
Alignment explanation
Indices: 101923402--101923579 Score: 162
Period size: 40 Copynumber: 4.5 Consensus size: 39
101923392 TTCAAATGCT
* * * *
101923402 TTCGGGACATAGCCCGGTTATAGTAACTCGCACAGATGCC
1 TTCGGGACTTAGCCCGGATATAGTAACTAGCACA-AAGCC
* *
101923442 TTCGGGACTTAACCCGGATTTAGTAACTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTAACTAGCACAAA-GCC
* * * * * *
101923482 TTC-AGATCTTAGTCCGAATTTAGTAACTTGCACGAATGCC
1 TTCGGGA-CTTAGCCCGGATATAGTAACTAGCAC-AAAGCC
* *
101923522 TTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCC
1 TTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCACAAAGCC
101923562 TTCGGGACTTAGCCCGGA
1 TTCGGGACTTAGCCCGGA
101923580 CATCATTCAA
Statistics
Matches: 114, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 101 0.89
41 10 0.09
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (39 bp):
TTCGGGACTTAGCCCGGATATAGTAACTAGCACAAAGCC
Found at i:101934021 original size:18 final size:18
Alignment explanation
Indices: 101933987--101934020 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
101933977 GGTCATTCAT
101933987 TTTATCTTTTTAATTTTC
1 TTTATCTTTTTAATTTTC
*
101934005 TTTAT-TTTTTCATTTT
1 TTTATCTTTTTAATTTT
101934021 TAAGAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATCTTTTTAATTTTC
Found at i:101934512 original size:25 final size:25
Alignment explanation
Indices: 101934478--101934527 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
101934468 GAGTTTTTAC
101934478 ATGGAATTAAGTTACCAGTGAAAAG
1 ATGGAATTAAGTTACCAGTGAAAAG
*
101934503 ATGGAATTAAGTTACTAGTGAAAAG
1 ATGGAATTAAGTTACCAGTGAAAAG
101934528 CTTGGGTTTC
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:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (25 bp):
ATGGAATTAAGTTACCAGTGAAAAG
Found at i:101941752 original size:39 final size:39
Alignment explanation
Indices: 101941698--101941773 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
101941688 TTGATTGCCT
*
101941698 TGTTCTCACAGTACAACTTGATAGGCATGGTTATAGACC
1 TGTTCTCACAGTACAACTTGATAGGCATGGTCATAGACC
*
101941737 TGTTCTCATAGTACAACTTGATAGGCATGGTCATAGA
1 TGTTCTCACAGTACAACTTGATAGGCATGGTCATAGA
101941774 TCTTTTTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (39 bp):
TGTTCTCACAGTACAACTTGATAGGCATGGTCATAGACC
Found at i:101942244 original size:15 final size:15
Alignment explanation
Indices: 101942209--101942238 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
101942199 CTAGAATGTG
101942209 AATAAAACTTATCTA
1 AATAAAACTTATCTA
*
101942224 AATAAAATTTATCTA
1 AATAAAACTTATCTA
101942239 CCTAAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (15 bp):
AATAAAACTTATCTA
Found at i:101946890 original size:19 final size:18
Alignment explanation
Indices: 101946868--101946907 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
101946858 TGAATAAAAC
101946868 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
101946887 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
101946905 TTA
1 TTA
101946908 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:101953695 original size:2 final size:2
Alignment explanation
Indices: 101953688--101953717 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
101953678 AAATATTTGC
101953688 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
101953718 CTAATGTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101955504 original size:31 final size:32
Alignment explanation
Indices: 101955466--101955527 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
101955456 TAACAGCAAA
101955466 GTGACTTAAAT-AAAAA-TTTTCGAATAGTTCT
1 GTGACTTAAATAAAAAACTTTT-GAATAGTTCT
*
101955497 GTGACTTATATAAAAAACTTTTGAATAGTTC
1 GTGACTTAAATAAAAAACTTTTGAATAGTTC
101955528 AAAAACAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 10 0.36
32 14 0.50
33 4 0.14
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (32 bp):
GTGACTTAAATAAAAAACTTTTGAATAGTTCT
Found at i:101956459 original size:3 final size:3
Alignment explanation
Indices: 101956451--101956486 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
101956441 TTTAATTTAG
101956451 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
101956487 GTTGTAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:101957315 original size:2 final size:2
Alignment explanation
Indices: 101957308--101957349 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
101957298 TATTAATTAG
101957308 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
101957350 AGAAATGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101957439 original size:12 final size:12
Alignment explanation
Indices: 101957417--101957449 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
101957407 GAGAAAGAAA
101957417 GAAAGGAAAAAGG
1 GAAA-GAAAAAGG
101957430 GAAAGAAAAAGG
1 GAAAGAAAAAGG
101957442 GAAAGAAA
1 GAAAGAAA
101957450 GAAATGGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
GAAAGAAAAAGG
Found at i:101957823 original size:2 final size:2
Alignment explanation
Indices: 101957816--101957851 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
101957806 ATTTATATGG
101957816 AT AT 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 AT AT
101957852 GATTATGTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101958273 original size:6 final size:6
Alignment explanation
Indices: 101958255--101958293 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
101958245 GTACTTTGTG
* * *
101958255 TACTGC TACTGT TATTGT TACTGT TACTGT TACCGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
101958294 GGTGTATTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:101958282 original size:18 final size:19
Alignment explanation
Indices: 101958250--101958286 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
101958240 ATGAGGTACT
101958250 TTGTGTACTGCTACTGTTA
1 TTGTGTACTGCTACTGTTA
*
101958269 TTGT-TACTGTTACTGTTA
1 TTGTGTACTGCTACTGTTA
101958287 CCGTTACGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.16, C:0.14, G:0.19, T:0.51
Consensus pattern (19 bp):
TTGTGTACTGCTACTGTTA
Found at i:101958423 original size:18 final size:18
Alignment explanation
Indices: 101958400--101958506 Score: 135
Period size: 18 Copynumber: 5.9 Consensus size: 18
101958390 TAAATAAAGG
*
101958400 TACTGAATAACTAACTGC
1 TACTGAATAACTGACTGC
101958418 TACTGAATAACTGACTGC
1 TACTGAATAACTGACTGC
*
101958436 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGC
* *
101958454 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGC
* *
101958472 TACTGAATAATTTA-TCGC
1 TACTGAATAACTGACT-GC
*
101958490 TATTGAATAACTGACTG
1 TACTGAATAACTGACTG
101958507 TTAAAGAGTG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
17 1 0.01
18 75 0.97
19 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (18 bp):
TACTGAATAACTGACTGC
Found at i:101961204 original size:28 final size:28
Alignment explanation
Indices: 101961135--101961235 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
101961125 GACAAGATTG
* * * *
101961135 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
101961165 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
101961193 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
*
101961222 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
101961236 GATTCACTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 18 0.29
30 18 0.29
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:101961230 original size:29 final size:28
Alignment explanation
Indices: 101961166--101961235 Score: 97
Period size: 29 Copynumber: 2.5 Consensus size: 28
101961156 AATTGTACAG
* *
101961166 CACTAAGTGTGCGAGTTTGATTATATAG
1 CACTAAGTGTGCGAGTTTGATCATATAA
101961194 CACTAAGTGTGCGAG-TTGAATACATATAA
1 CACTAAGTGTGCGAGTTTG-AT-CATATAA
101961223 CACTAAGTGTGCG
1 CACTAAGTGTGCG
101961236 GATTCACTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 3 0.08
28 17 0.45
29 18 0.47
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTGATCATATAA
Found at i:101964884 original size:34 final size:34
Alignment explanation
Indices: 101964846--101964916 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
101964836 AAAACCTCCA
*
101964846 TAACAAGCACATTTTAATAAAATATGCTTTTAGG
1 TAACAAGCACATTTTAATAAAATATACTTTTAGG
101964880 TAACAAGCACATTTTAATAAAATATACTTTTAGG
1 TAACAAGCACATTTTAATAAAATATACTTTTAGG
101964914 TAA
1 TAA
101964917 TCTTATATCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (34 bp):
TAACAAGCACATTTTAATAAAATATACTTTTAGG
Found at i:101980345 original size:13 final size:13
Alignment explanation
Indices: 101980327--101980377 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
101980317 GAAGCACGTG
101980327 TAAAACATATCTT
1 TAAAACATATCTT
*
101980340 TAAAACATAACTT
1 TAAAACATATCTT
*
101980353 TAAAATATATCTT
1 TAAAACATATCTT
*
101980366 GAAAACAATATC
1 TAAAAC-ATATC
101980378 AGAACTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 27 0.84
14 5 0.16
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (13 bp):
TAAAACATATCTT
Found at i:101982680 original size:41 final size:41
Alignment explanation
Indices: 101982623--101982772 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
101982613 TCGGGGTTTA
101982623 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
101982664 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
101982705 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
101982745 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
101982773 TGAGTCAGCG
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 32 0.34
41 62 0.66
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:101990911 original size:40 final size:40
Alignment explanation
Indices: 101990856--101991039 Score: 271
Period size: 40 Copynumber: 4.6 Consensus size: 40
101990846 GGTTTAAATC
101990856 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
101990896 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
*
101990936 CGAGCTTGGTCTCGAAGGGCTTTTGAG-CAGTGTCATAAC
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
* * * * * * * *
101990975 CGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCATAAT
1 CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
101991015 CCGAGCTTGGTCTCGAAGGGCTTTT
1 -CGAGCTTGGTCTCGAAGGGCTTTT
101991040 TGAGTCAGCG
Statistics
Matches: 126, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 31 0.25
40 77 0.61
41 18 0.14
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (40 bp):
CGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAAT
Found at i:101993509 original size:23 final size:23
Alignment explanation
Indices: 101993466--101993510 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
101993456 GAAAAGAACT
* *
101993466 GAAAAGAAATCTAAAGCCTAAAA
1 GAAAAGAAAACTAAAGACTAAAA
101993489 GAAAAGAAAACTAGAA-ACTAAA
1 GAAAAGAAAACTA-AAGACTAAA
101993511 TTATAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.11
Consensus pattern (23 bp):
GAAAAGAAAACTAAAGACTAAAA
Found at i:101994119 original size:8 final size:8
Alignment explanation
Indices: 101994106--101994132 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
101994096 CAAGCAAGGC
101994106 AAAAAACA
1 AAAAAACA
101994114 AAAAAACA
1 AAAAAACA
101994122 AAAAAACA
1 AAAAAACA
101994130 AAA
1 AAA
101994133 GCAAAAACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:101997677 original size:26 final size:26
Alignment explanation
Indices: 101997648--101997755 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
101997638 TGGTACAAAT
101997648 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
101997674 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
101997700 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
101997726 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
101997752 TGAT
1 TGAT
101997756 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:101999264 original size:26 final size:28
Alignment explanation
Indices: 101999194--101999299 Score: 91
Period size: 26 Copynumber: 3.9 Consensus size: 28
101999184 TGGAGGAAGC
*
101999194 GTCCTGGTGGCTATGCCACAATTTATCTA
1 GTCCTGGTGGCTATGCCAC-ATATATCTA
* *
101999223 AT-CTGGTGGCTCTGCCACATATAT-T-
1 GTCCTGGTGGCTATGCCACATATATCTA
101999248 GTCCTGGTGGCTATGCCACA-ATTATCT-
1 GTCCTGGTGGCTATGCCACATA-TATCTA
* *
101999275 GAT-CTGGTGGCTCTGTCACA-ATATC
1 G-TCCTGGTGGCTATGCCACATATATC
101999300 GGTATCTGGT
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
25 2 0.03
26 24 0.36
27 23 0.35
28 16 0.24
29 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.34
Consensus pattern (28 bp):
GTCCTGGTGGCTATGCCACATATATCTA
Found at i:101999285 original size:27 final size:27
Alignment explanation
Indices: 101999197--101999310 Score: 119
Period size: 27 Copynumber: 4.2 Consensus size: 27
101999187 AGGAAGCGTC
*
101999197 CTGGTGGCTATGCCACAATTTATCTAAT
1 CTGGTGGCTATGCCACAA-TTATCTGAT
*
101999225 CTGGTGGCTCTGCCAC-ATATAT-TG-T
1 CTGGTGGCTATGCCACAAT-TATCTGAT
101999250 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTATGCCACAATTATCTGAT
* * *
101999278 CTGGTGGCTCTGTCACAA-TATCGGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
101999305 CTGGTG
1 CTGGTG
101999311 ACTTCGTCAC
Statistics
Matches: 74, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.01
26 25 0.34
27 32 0.43
28 16 0.22
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:101999310 original size:54 final size:54
Alignment explanation
Indices: 101999194--101999298 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 54
101999184 TGGAGGAAGC
*
101999194 GTCCTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATT
1 GTCCTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATG
* *
101999248 GTCCTGGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGTCACA-ATAT
1 GTCCTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATAT
101999299 CGGTATCTGG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 4 0.08
53 24 0.49
54 21 0.43
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATG
Found at i:101999328 original size:53 final size:53
Alignment explanation
Indices: 101999194--101999313 Score: 152
Period size: 54 Copynumber: 2.2 Consensus size: 53
101999184 TGGAGGAAGC
* * *
101999194 GTCCTGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATT
1 GTCCTGGTGACTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATG
* *
101999248 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACA-ATATCG
1 GTCCTGGTGACTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAT-G
*
101999301 GTATCTGGTGACT
1 GT-CCTGGTGACT
101999314 TCGTCACAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
52 4 0.07
53 26 0.44
54 29 0.49
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.34
Consensus pattern (53 bp):
GTCCTGGTGACTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATG
Found at i:102005617 original size:26 final size:26
Alignment explanation
Indices: 102005588--102005695 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
102005578 TGGTACAAAT
102005588 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
102005614 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
102005640 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
102005666 TGATAATGGTTTAGGTAAATGTTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
102005692 TGAT
1 TGAT
102005696 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:102007000 original size:28 final size:26
Alignment explanation
Indices: 102006958--102007032 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
102006948 AAAAGTAGAT
* * *
102006958 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
* *
102006986 AAATTACTGTTATACTCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
102007012 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
102007033 GGTTACTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.55
27 1 0.03
28 17 0.43
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:102007230 original size:54 final size:54
Alignment explanation
Indices: 102007134--102007278 Score: 222
Period size: 54 Copynumber: 2.7 Consensus size: 54
102007124 TGGAGGAAGC
102007134 GTCCTGGTGGCTATGTCC-CAATTTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATG-CCACAA-TTATCTAATCTGGTGGCTCTGCCACATATATCT
*
102007189 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
* *
102007243 GTTCTGGTGGCTCTGCCACAA-TATCTATATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTA-ATCTGGTG
102007279 ACTTCGTCTG
Statistics
Matches: 84, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
53 5 0.06
54 61 0.73
55 18 0.21
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
Found at i:102007275 original size:27 final size:28
Alignment explanation
Indices: 102007157--102007278 Score: 148
Period size: 27 Copynumber: 4.5 Consensus size: 28
102007147 TGTCCCAATT
102007157 TATCTA-ATCTGGTGGCTCTGCCACATA
1 TATCTATATCTGGTGGCTCTGCCACATA
* * *
102007184 TATCTGT-CCTGGTGGCTATGCCACA-A
1 TATCTATATCTGGTGGCTCTGCCACATA
*
102007210 TTATCT-GATCTGGTGGCTCTGCCACATA
1 -TATCTATATCTGGTGGCTCTGCCACATA
*
102007238 TATCTGT-TCTGGTGGCTCTGCCACA-A
1 TATCTATATCTGGTGGCTCTGCCACATA
102007264 TATCTATATCTGGTG
1 TATCTATATCTGGTG
102007279 ACTTCGTCTG
Statistics
Matches: 81, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
26 8 0.10
27 72 0.89
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (28 bp):
TATCTATATCTGGTGGCTCTGCCACATA
Found at i:102009073 original size:21 final size:21
Alignment explanation
Indices: 102009023--102009073 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
102009013 TTTTTTTAGG
*
102009023 ATTTCTTTTACCGTGTTTTGA
1 ATTTCTTTTACCGTGTTGTGA
* * *
102009044 TTTTTTTTTATTC-TGTTGTGA
1 ATTTCTTTTA-CCGTGTTGTGA
102009065 ATTTCTTTT
1 ATTTCTTTT
102009074 GGGAGGGGCC
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.12, C:0.10, G:0.12, T:0.67
Consensus pattern (21 bp):
ATTTCTTTTACCGTGTTGTGA
Found at i:102021669 original size:21 final size:20
Alignment explanation
Indices: 102021605--102021669 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 20
102021595 AAAATACAAA
*
102021605 TAATCATAAATGCAATTACT
1 TAATAATAAATGCAATTACT
*
102021625 TAAT-AT-GATGTCAATT-CAT
1 TAATAATAAATG-CAATTAC-T
*
102021644 GAATAAGTAAATGCAATTACT
1 TAATAA-TAAATGCAATTACT
102021665 TAATA
1 TAATA
102021670 TGGTATGCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
18 4 0.11
19 11 0.31
20 5 0.14
21 11 0.31
22 4 0.11
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (20 bp):
TAATAATAAATGCAATTACT
Found at i:102024455 original size:12 final size:12
Alignment explanation
Indices: 102024440--102024471 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
102024430 CACTGTAAAG
102024440 GTAACAGTAATA
1 GTAACAGTAATA
*
102024452 GTAATAGTAATA
1 GTAACAGTAATA
102024464 GTAACAGT
1 GTAACAGT
102024472 CAGGTACGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (12 bp):
GTAACAGTAATA
Found at i:102026754 original size:19 final size:19
Alignment explanation
Indices: 102026726--102026762 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
102026716 AGTGCCATAT
102026726 TAATAATATTA-AAATAAA
1 TAATAATATTAGAAATAAA
102026744 TAATGAATATTAGAAATAA
1 TAAT-AATATTAGAAATAA
102026763 CTTATTGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
TAATAATATTAGAAATAAA
Found at i:102027746 original size:14 final size:14
Alignment explanation
Indices: 102027727--102027754 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
102027717 AAAAACAGGC
102027727 GACGTTAAATGGAA
1 GACGTTAAATGGAA
102027741 GACGTTAAATGGAA
1 GACGTTAAATGGAA
102027755 AACATCAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (14 bp):
GACGTTAAATGGAA
Found at i:102039836 original size:22 final size:19
Alignment explanation
Indices: 102039786--102039835 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
102039776 GAATAAATAA
102039786 AAATAAACAACATTAGTCC
1 AAATAAACAACATTAGTCC
102039805 AAATAAACAACATTAGTCC
1 AAATAAACAACATTAGTCC
102039824 AAATAAACAACA
1 AAATAAACAACA
102039836 AAAACAATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.58, C:0.20, G:0.04, T:0.18
Consensus pattern (19 bp):
AAATAAACAACATTAGTCC
Found at i:102040917 original size:30 final size:30
Alignment explanation
Indices: 102040881--102040972 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
102040871 CCTTTTCATA
*
102040881 TTTCATATTTCATAATACTGGGCGAAGCCT
1 TTTCATATTTCATATTACTGGGCGAAGCCT
102040911 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGG-CGAAGCCT
*
102040942 TTTCA-ATTTCATATTACTGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCGAAGCCT
102040971 TT
1 TT
102040973 ACTGTAAACG
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
29 10 0.17
30 36 0.61
31 13 0.22
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (30 bp):
TTTCATATTTCATATTACTGGGCGAAGCCT
Found at i:102041214 original size:24 final size:24
Alignment explanation
Indices: 102041163--102041305 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
102041153 GCTTTATCAT
*
102041163 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
102041188 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
102041212 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
102041235 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
102041259 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
102041283 ATAACTGGGGCATAAGCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTT
102041306 CACTTCCTCC
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 23 0.21
24 75 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:102041242 original size:47 final size:48
Alignment explanation
Indices: 102041163--102041300 Score: 199
Period size: 47 Copynumber: 2.9 Consensus size: 48
102041153 GCTTTATCAT
* *
102041163 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
102041212 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
102041259 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
102041301 TTTTTCACTT
Statistics
Matches: 83, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
47 44 0.53
48 27 0.33
49 12 0.14
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:102041263 original size:71 final size:72
Alignment explanation
Indices: 102041162--102041305 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
102041152 TGCTTTATCA
*
102041162 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
102041227 GCCCTTT
66 GCCCTTT
* * **
102041234 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
*
102041297 AGCCTTTT
65 AGCCCTTT
102041305 T
1 T
102041306 CACTTCCTCC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 52 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:102041391 original size:19 final size:20
Alignment explanation
Indices: 102041355--102041413 Score: 93
Period size: 19 Copynumber: 3.0 Consensus size: 20
102041345 TATGATTACC
102041355 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
102041375 TCATGTGCAT-GCATACATT
1 TCATGTGCATATCATACATA
102041394 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
102041414 CCATATTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:102041488 original size:25 final size:25
Alignment explanation
Indices: 102041456--102041503 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
102041446 ATACATAAAC
* * *
102041456 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
102041481 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
102041504 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Done.