Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 32 of 325
Found at i:7539206 original size:24 final size:23
Alignment explanation
Indices: 7539178--7539258 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 23
7539168 AAAAAGCAAT
7539178 TTAAAATAAATAGTATAGAACAA
1 TTAAAATAAATAGTATAGAACAA
*
7539201 TTTAAAATCATCAAT-GTATAAAACAA
1 -TTAAAAT-A--AATAGTATAGAACAA
*
7539227 -TAAAAT-AATA-CATAGAACAA
1 TTAAAATAAATAGTATAGAACAA
*
7539247 CTAAAATAAATA
1 TTAAAATAAATA
7539259 ATTTATAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
20 11 0.23
21 6 0.12
22 4 0.08
24 13 0.27
25 1 0.02
26 10 0.21
27 3 0.06
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.26
Consensus pattern (23 bp):
TTAAAATAAATAGTATAGAACAA
Found at i:7539226 original size:26 final size:24
Alignment explanation
Indices: 7539151--7539279 Score: 72
Period size: 26 Copynumber: 5.3 Consensus size: 24
7539141 GAAAAACACG
* * *
7539151 TTTAAAATAGATACTACAAAAAGCAA
1 TTTAAAATAAATAGTA-TAAAA-CAA
*
7539177 TTTAAAATAAATAGTATAGAACAA
1 TTTAAAATAAATAGTATAAAACAA
7539201 TTTAAAATCATCAAT-GTATAAAACAA
1 TTTAAAAT-A--AATAGTATAAAACAA
* *
7539227 --TAAAAT-AATA-CATAGAACAA
1 TTTAAAATAAATAGTATAAAACAA
* * *
7539247 -CTAAAATAAATAATTTATAAAGCAA
1 TTTAAAATAAAT-A-GTATAAAACAA
7539272 TTTAAAAT
1 TTTAAAAT
7539280 GAGATAGAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
20 11 0.13
21 6 0.07
22 3 0.04
23 1 0.01
24 17 0.21
25 11 0.13
26 30 0.37
27 3 0.04
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.28
Consensus pattern (24 bp):
TTTAAAATAAATAGTATAAAACAA
Found at i:7539527 original size:17 final size:17
Alignment explanation
Indices: 7539507--7539542 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7539497 TAATAGTTTA
*
7539507 AAATATAATATATATAT
1 AAATATAAAATATATAT
*
7539524 AAATTTAAAATATATAT
1 AAATATAAAATATATAT
7539541 AA
1 AA
7539543 GGTAAAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATAAAATATATAT
Found at i:7539555 original size:24 final size:24
Alignment explanation
Indices: 7539490--7539541 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 24
7539480 AATAGACGAC
7539490 ATATATATAATAGTTTAAAATATAAT
1 ATATATATAA-AGTTTAAAATAT-AT
7539516 ATATATATAAA-TTTAAAATATAT
1 ATATATATAAAGTTTAAAATATAT
7539539 ATA
1 ATA
7539542 AGGTAAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 5 0.19
24 10 0.38
25 1 0.04
26 10 0.38
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
ATATATATAAAGTTTAAAATATAT
Found at i:7539993 original size:2 final size:2
Alignment explanation
Indices: 7539986--7540011 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7539976 TATTTTTATT
7539986 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
7540012 CTGTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7541039 original size:13 final size:13
Alignment explanation
Indices: 7541021--7541045 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7541011 AATGCTTTGA
7541021 TTTTTTTTTTTAC
1 TTTTTTTTTTTAC
7541034 TTTTTTTTTTTA
1 TTTTTTTTTTTA
7541046 TGATTGAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.04, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTTAC
Found at i:7543246 original size:2 final size:2
Alignment explanation
Indices: 7543239--7543273 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7543229 CACTTTTGAG
7543239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7543274 AAGATGCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7544619 original size:40 final size:40
Alignment explanation
Indices: 7544575--7544658 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
7544565 TACATTAGCA
7544575 GCGTTTTAGCAAAAACGCCGG-T-AAAAACAGAGCAATAACG
1 GCGTTTTAGCAAAAACG--GGCTAAAAAACAGAGCAATAACG
* ** *
7544615 GCGTTTTTGGGAAAACGGGCTAAAAAACAGAGCAATAGCG
1 GCGTTTTAGCAAAAACGGGCTAAAAAACAGAGCAATAACG
7544655 GCGT
1 GCGT
7544659 AAAACGCCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 2 0.05
39 1 0.03
40 35 0.92
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.17
Consensus pattern (40 bp):
GCGTTTTAGCAAAAACGGGCTAAAAAACAGAGCAATAACG
Found at i:7544777 original size:15 final size:15
Alignment explanation
Indices: 7544757--7544815 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
7544747 AATCTATAAC
7544757 CCATAAACCCTAAAA
1 CCATAAACCCTAAAA
*
7544772 CCATAAACACT-AAA
1 CCATAAACCCTAAAA
* *
7544786 CTATAACCCCTAAAA
1 CCATAAACCCTAAAA
** *
7544801 CTTTAAACCCCAAAA
1 CCATAAACCCTAAAA
7544816 AACATCATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 11 0.31
15 25 0.69
ACGTcount: A:0.51, C:0.32, G:0.00, T:0.17
Consensus pattern (15 bp):
CCATAAACCCTAAAA
Found at i:7544809 original size:36 final size:36
Alignment explanation
Indices: 7544732--7544801 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
7544722 AAACCCTCAA
* * *
7544732 AAAATCATAAACACTAATCTATAACCCATAAACCCT
1 AAAACCATAAACACTAAACTATAACCCATAAAACCT
*
7544768 AAAACCATAAACACTAAACTATAACCCCTAAAAC
1 AAAACCATAAACACTAAACTATAACCCATAAAAC
7544802 TTTAAACCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.19
Consensus pattern (36 bp):
AAAACCATAAACACTAAACTATAACCCATAAAACCT
Found at i:7544934 original size:7 final size:7
Alignment explanation
Indices: 7544922--7544978 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
7544912 TTTATTTTGG
7544922 GGTTTAA
1 GGTTTAA
7544929 GGTTTAA
1 GGTTTAA
**
7544936 TATTTAA
1 GGTTTAA
* *
7544943 GGTCTAT
1 GGTTTAA
*
7544950 GGTTTAG
1 GGTTTAA
*
7544957 GGTTTTAT
1 GG-TTTAA
7544965 GGTTTAA
1 GGTTTAA
7544972 GGTTTAA
1 GGTTTAA
7544979 TGGCCATGGG
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.25, C:0.02, G:0.26, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:7544967 original size:15 final size:15
Alignment explanation
Indices: 7544922--7544981 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
7544912 TTTATTTTGG
*
7544922 GGTTTAAGGTTTAAT
1 GGTTTAAGGTTTTAT
* *
7544937 -ATTTAAGG-TCTAT
1 GGTTTAAGGTTTTAT
*
7544950 GGTTTAGGGTTTTAT
1 GGTTTAAGGTTTTAT
*
7544965 GGTTTAAGGTTTAAT
1 GGTTTAAGGTTTTAT
7544980 GG
1 GG
7544982 CCATGGGTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
13 3 0.09
14 13 0.37
15 19 0.54
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (15 bp):
GGTTTAAGGTTTTAT
Found at i:7551255 original size:27 final size:27
Alignment explanation
Indices: 7551200--7551255 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
7551190 AAAGGCATGA
* * *
7551200 CTTTTTGCGGCGCTTGCTATAGCGGCG
1 CTTTTTGCGGCGCTTGCTAAAACGCCG
7551227 CTTTTTGCGGCGCTTG-TGAAAACGCCG
1 CTTTTTGCGGCGCTTGCT-AAAACGCCG
7551254 CT
1 CT
7551256 AATAGTTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.11, C:0.27, G:0.30, T:0.32
Consensus pattern (27 bp):
CTTTTTGCGGCGCTTGCTAAAACGCCG
Found at i:7553205 original size:44 final size:43
Alignment explanation
Indices: 7553073--7553218 Score: 153
Period size: 44 Copynumber: 3.4 Consensus size: 43
7553063 ACACCGTTAT
*
7553073 AGAACATGACCTTTAGTCGCG-TTTTCCCCACAAACATG--ACTAT
1 AGAACATGACCTTTAG-CG-GTTTTTCCCCACAAACA-GCCACTAA
* *
7553116 AGAACATGACTTTTAGCGGTGCTTTT--CCACAAACA-CCGCTAA
1 AGAACATGACCTTTAGCGGT--TTTTCCCCACAAACAGCCACTAA
7553158 AGAACATGACCTTTAGCGGTATTTTCCCCCACAAA-AGCCACTAA
1 AGAACATGACCTTTAGCGGT-TTTT-CCCCACAAACAGCCACTAA
7553202 AGAACATGACCTTTAGC
1 AGAACATGACCTTTAGC
7553219 TGCGCTTTCC
Statistics
Matches: 88, Mismatches: 6, Indels: 17
0.79 0.05 0.15
Matches are distributed among these distances:
41 5 0.06
42 33 0.38
43 16 0.18
44 34 0.39
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGTTTTTCCCCACAAACAGCCACTAA
Found at i:7553228 original size:85 final size:84
Alignment explanation
Indices: 7553061--7553234 Score: 205
Period size: 85 Copynumber: 2.1 Consensus size: 84
7553051 ATTTCTTAAA
* * *
7553061 AAACACCGTTATAGAACATGACCTTTAGTCGCGTTTTCCCCACAAACATGACTATAGAACATGAC
1 AAACACCGCTAAAGAACATGACCTTTAGTCGCGTTTTCCCCACAAACATGACTAAAGAACATGAC
* *
7553126 TTTTAGCGGTGCTTTTCCAC
66 CTTTAGCGGCGCTTTTCC-C
7553146 AAACACCGCTAAAGAACATGACCTTTAG-CG-GTATTTTCCCCCACAAA-A-GCCACTAAAGAAC
1 AAACACCGCTAAAGAACATGACCTTTAGTCGCG--TTTT-CCCCACAAACATG--ACTAAAGAAC
*
7553207 ATGACCTTTAGCTGCGC-TTTCCC
61 ATGACCTTTAGCGGCGCTTTTCCC
7553230 AAACA
1 AAACA
7553235 AACGCCTTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
83 1 0.01
84 9 0.12
85 36 0.46
86 32 0.41
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.25
Consensus pattern (84 bp):
AAACACCGCTAAAGAACATGACCTTTAGTCGCGTTTTCCCCACAAACATGACTAAAGAACATGAC
CTTTAGCGGCGCTTTTCCC
Found at i:7553236 original size:44 final size:44
Alignment explanation
Indices: 7553073--7553229 Score: 155
Period size: 42 Copynumber: 3.6 Consensus size: 44
7553063 ACACCGTTAT
* *
7553073 AGAACATGACCTTTAGTC-GCGTTTTCCCCACAAACATG--ACTAT
1 AGAACATGACCTTTAG-CGGCGCTTTCCCCACAAACA-GCCACTAA
* * * *
7553116 AGAACATGACTTTTAGCGGTGCTTT-TCCACAAACA-CCGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTCCCCACAAACAGCCACTAA
***
7553158 AGAACATGACCTTTAGCGGTATTTTCCCCCACAAA-AGCCACTAA
1 AGAACATGACCTTTAGCGGCGCTTT-CCCCACAAACAGCCACTAA
*
7553202 AGAACATGACCTTTAGCTGCGCTTTCCC
1 AGAACATGACCTTTAGCGGCGCTTTCCC
7553230 AAACAAACGC
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
42 35 0.38
43 24 0.26
44 34 0.37
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (44 bp):
AGAACATGACCTTTAGCGGCGCTTTCCCCACAAACAGCCACTAA
Found at i:7553247 original size:44 final size:42
Alignment explanation
Indices: 7553073--7553240 Score: 142
Period size: 44 Copynumber: 3.9 Consensus size: 42
7553063 ACACCGTTAT
*** *
7553073 AGAACATGACCTTTAGTCGCGT--TTTCCCCACAAACATGACTAT
1 AGAACATGACCTTTAG-CG-GTGCTTT-CCCACAAACGCCACTAA
* * * *
7553116 AGAACATGACTTTTAGCGGTGCTTTTCCACAAACACCGCTAA
1 AGAACATGACCTTTAGCGGTGCTTTCCCACAAACGCCACTAA
** *
7553158 AGAACATGACCTTTAGCGGTATTTTCCCCCACAAAAGCCACTAA
1 AGAACATGACCTTTAGCGGTGCTTT--CCCACAAACGCCACTAA
* *
7553202 AGAACATGACCTTTAGCTGCGCTTTCCCAAACAAACGCC
1 AGAACATGACCTTTAGCGGTGCTTTCCC--ACAAACGCC
7553241 TTTAAAGGTT
Statistics
Matches: 101, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 39 0.39
43 18 0.18
44 42 0.42
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (42 bp):
AGAACATGACCTTTAGCGGTGCTTTCCCACAAACGCCACTAA
Found at i:7556308 original size:23 final size:24
Alignment explanation
Indices: 7556265--7556326 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
7556255 CATATGTACA
7556265 AATATATATAAAAACATTTAAACG
1 AATATATATAAAAACATTTAAACG
* **
7556289 AATAT-TATACAAA-ATGTTAAAAT
1 AATATATATAAAAACAT-TTAAACG
7556312 AATATAATATAAAAA
1 AATAT-ATATAAAAA
7556327 ACTTCAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 2 0.06
23 17 0.55
24 5 0.16
25 7 0.23
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (24 bp):
AATATATATAAAAACATTTAAACG
Found at i:7562852 original size:136 final size:136
Alignment explanation
Indices: 7562608--7562892 Score: 525
Period size: 136 Copynumber: 2.1 Consensus size: 136
7562598 TATTGGGCCT
** *
7562608 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTTAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
7562673 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
7562738 ATATGC
131 ATATGC
7562744 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
7562809 AGCTCCTTATTCAGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
7562874 ATATGC
131 ATATGC
7562880 AAGCCCATTTGGG
1 AAGCCCATTTGGG
7562893 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 144 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGACCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:7562928 original size:21 final size:21
Alignment explanation
Indices: 7562899--7562946 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7562889 TGGGGAGACT
*
7562899 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCTACCAACCA-TAC
*
7562920 ACTCCACCCTACCAGCCATAC
1 ACTCCACCCTACCAACCATAC
7562941 ACTCCA
1 ACTCCA
7562947 TGTGGGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.33, C:0.52, G:0.02, T:0.12
Consensus pattern (21 bp):
ACTCCACCCTACCAACCATAC
Found at i:7563176 original size:25 final size:27
Alignment explanation
Indices: 7563139--7563192 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
7563129 TCAAACATGC
7563139 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
7563165 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
7563191 AT
1 AT
7563193 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:7564709 original size:26 final size:26
Alignment explanation
Indices: 7564671--7564753 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
7564661 CATGAAATTC
*
7564671 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
7564697 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
7564723 TTATCAT-GAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
7564748 TTATCA
1 TTATCA
7564754 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 23 0.43
26 31 0.57
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:7568716 original size:136 final size:136
Alignment explanation
Indices: 7568509--7568793 Score: 552
Period size: 136 Copynumber: 2.1 Consensus size: 136
7568499 TATTGGGCCT
**
7568509 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
7568574 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
7568639 ATATGC
131 ATATGC
7568645 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
7568710 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
7568775 ATATGC
131 ATATGC
7568781 AAGCCCATTTGGG
1 AAGCCCATTTGGG
7568794 GAGACTACTC
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:7568841 original size:20 final size:21
Alignment explanation
Indices: 7568800--7568844 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
7568790 TGGGGAGACT
7568800 ACTCAACCCACCAACCACTAC
1 ACTCAACCCACCAACCACTAC
*
7568821 ACTC-ACCCTACCAGCCA-TAC
1 ACTCAACCC-ACCAACCACTAC
7568841 ACTC
1 ACTC
7568845 CATGTGGGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.33, C:0.51, G:0.02, T:0.13
Consensus pattern (21 bp):
ACTCAACCCACCAACCACTAC
Found at i:7569076 original size:25 final size:27
Alignment explanation
Indices: 7569039--7569091 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
7569029 TCAAACATGC
7569039 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
7569065 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
7569091 A
1 A
7569092 AACAGTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:7570610 original size:26 final size:26
Alignment explanation
Indices: 7570569--7570652 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
7570559 CATGAAATTC
*
7570569 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
7570595 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
7570621 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
7570647 TTATCA
1 TTATCA
7570653 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:7572038 original size:29 final size:28
Alignment explanation
Indices: 7571995--7572049 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
7571985 TCTTTACAAA
*
7571995 TTTTAGAATTTAGTCCATGTACTTTTAT
1 TTTTAGAACTTAGTCCATGTACTTTTAT
* *
7572023 TTTTAGGAACTTAGTCTATTTACTTTT
1 TTTTA-GAACTTAGTCCATGTACTTTT
7572050 TAAATTTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (28 bp):
TTTTAGAACTTAGTCCATGTACTTTTAT
Found at i:7585940 original size:30 final size:30
Alignment explanation
Indices: 7585876--7585940 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
7585866 ATAATTAATG
*
7585876 AAAATTTATAAAAATTAAAATTTCATGTAT
1 AAAATTTATAAAAATTAAAAGTTCATGTAT
**
7585906 -AAATTTATAAAAAATT-AAAGTTGGTGTAT
1 AAAATTTAT-AAAAATTAAAAGTTCATGTAT
7585935 AAAATT
1 AAAATT
7585941 AAACATTAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (30 bp):
AAAATTTATAAAAATTAAAAGTTCATGTAT
Found at i:7588650 original size:16 final size:16
Alignment explanation
Indices: 7588631--7588670 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
7588621 TATTGCATAG
7588631 TTTTTATATTATT-TAT
1 TTTTTATATTATTGT-T
*
7588647 TTTTAATATTATTGTT
1 TTTTTATATTATTGTT
7588663 TTTTTATA
1 TTTTTATA
7588671 ATTTTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 20 0.95
17 1 0.05
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTTATATTATTGTT
Found at i:7588798 original size:16 final size:16
Alignment explanation
Indices: 7588773--7588806 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7588763 GGAATGATGC
*
7588773 ATTTTGAATTACTTTA
1 ATTTTAAATTACTTTA
*
7588789 ATTTTAAATTTCTTTA
1 ATTTTAAATTACTTTA
7588805 AT
1 AT
7588807 ATTTTAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (16 bp):
ATTTTAAATTACTTTA
Found at i:7591685 original size:2 final size:2
Alignment explanation
Indices: 7591678--7591707 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7591668 ATCAAGTATC
7591678 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
7591708 TATTAATGGA
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:7596824 original size:17 final size:16
Alignment explanation
Indices: 7596801--7596849 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
7596791 TTTAAAATAC
7596801 TCTAAACCCTAAAAAA
1 TCTAAACCCTAAAAAA
*
7596817 TCTAAAACTCTCAAAAAA
1 TCT-AAACCCT-AAAAAA
*
7596835 TCTTAACCCTAAAAA
1 TCTAAACCCTAAAAA
7596850 GTAAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 8 0.29
17 11 0.39
18 9 0.32
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.22
Consensus pattern (16 bp):
TCTAAACCCTAAAAAA
Found at i:7597110 original size:20 final size:21
Alignment explanation
Indices: 7597076--7597115 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
7597066 ATTTTAAATA
*
7597076 AAAATATTAAGAATATTATTT
1 AAAATATTAAAAATATTATTT
7597097 AAAA-ATTAAAAATATTATT
1 AAAATATTAAAAATATTATT
7597116 AATATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
AAAATATTAAAAATATTATTT
Found at i:7597306 original size:19 final size:17
Alignment explanation
Indices: 7597273--7597308 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
7597263 AAGATATTTT
7597273 AAAAAATTAAAATATAA
1 AAAAAATTAAAATATAA
7597290 AAAAATATTATAAATATAA
1 AAAAA-ATTA-AAATATAA
7597309 TAATATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 4 0.24
19 8 0.47
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAATTAAAATATAA
Found at i:7606127 original size:22 final size:22
Alignment explanation
Indices: 7606100--7606152 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
7606090 AGTGCAATAT
7606100 CATGATAACTATCATATGATGG
1 CATGATAACTATCATATGATGG
7606122 CATGATAACTATCATATGATGG
1 CATGATAACTATCATATGATGG
*
7606144 CATAATAAC
1 CATGATAAC
7606153 ATAATCACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (22 bp):
CATGATAACTATCATATGATGG
Found at i:7606545 original size:51 final size:51
Alignment explanation
Indices: 7606461--7606557 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
7606451 CCTTATAACA
* *
7606461 TGTAACACATCCATAATGAATTCGGACCTCTCAACGAGCTCGGATGTTACG
1 TGTAACACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGTTACG
* *
7606512 TGTATCACATCCATTATGAACTCGGACCACTCAACGAGCTCGGATG
1 TGTAACACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATG
7606558 CTTGTATCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (51 bp):
TGTAACACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGTTACG
Found at i:7606629 original size:42 final size:43
Alignment explanation
Indices: 7606527--7606680 Score: 148
Period size: 43 Copynumber: 3.6 Consensus size: 43
7606517 CACATCCATT
* * *** ** *
7606527 ATGAACTCGGACCACTCAACGAGCTCGGATGCTTGTATCCATA
1 ATGAACTCGGACCACTCAACAAGCTCAGATGCTCACATATATC
*** *
7606570 ATGAACTCGGACCACTCAATGTGCTCAGGTGCT-ACATATATC
1 ATGAACTCGGACCACTCAACAAGCTCAGATGCTCACATATATC
* * * *
7606612 ATGAACTTGGGCCACTCAACAAGTTCAGATTCTCACATATATC
1 ATGAACTCGGACCACTCAACAAGCTCAGATGCTCACATATATC
*
7606655 ATGAACTCGGACCACTCAACGAGCTC
1 ATGAACTCGGACCACTCAACAAGCTC
7606681 GGATTTCTTA
Statistics
Matches: 89, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 29 0.33
43 60 0.67
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGAACTCGGACCACTCAACAAGCTCAGATGCTCACATATATC
Found at i:7613300 original size:25 final size:25
Alignment explanation
Indices: 7613263--7613321 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
7613253 ACTGATACGG
* *
7613263 GTTAGGGGTGTTACAGCAACACACC
1 GTTAAGGGCGTTACAGCAACACACC
7613288 GTTAAGGGCGTTACAGCAACACACC
1 GTTAAGGGCGTTACAGCAACACACC
7613313 GTTAAGGGC
1 GTTAAGGGC
7613322 ATTCAATGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.19
Consensus pattern (25 bp):
GTTAAGGGCGTTACAGCAACACACC
Found at i:7613934 original size:44 final size:42
Alignment explanation
Indices: 7613854--7613944 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 42
7613844 AATCAGAGAG
*
7613854 TCACATGGCCTGGATAGAAGGCCGTGTCCTTACCCGTATGGC
1 TCACATGGCCTGGATAGAAGGCCATGTCCTTACCCGTATGGC
* *
7613896 TCACATGGCCTAGGCATA-CAGGCCCATGTCCTTGCCCGTATGGC
1 TCACATGGCCT-GG-ATAGAAGG-CCATGTCCTTACCCGTATGGC
7613940 TCACA
1 TCACA
7613945 CGACTTGGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 11 0.26
43 5 0.12
44 27 0.63
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.23
Consensus pattern (42 bp):
TCACATGGCCTGGATAGAAGGCCATGTCCTTACCCGTATGGC
Found at i:7614034 original size:149 final size:148
Alignment explanation
Indices: 7613750--7614071 Score: 569
Period size: 149 Copynumber: 2.2 Consensus size: 148
7613740 TTATATACGC
*
7613750 CACATGGCCTGG-ACACAGGCCCATGTCCTTGCCCGTGTGGCTCACACGACTTGGGTACACACCC
1 CACATGGCCTGGCACACAGGCCCATGTCCTTGCCCGTATGGCTCACACGACTTGGGTACACACCC
7613814 ATGTCCTTGCTCGTATGGTTTTAAAGCATAAATCAGAGAGTCACATGGCCTGGATAGAAGGCCGT
66 ATGTCCTTGCTCGTATGGTTTTAAAGCATAAATCAGAGAGTCACATGGCCTGGATAGAAGGCCGT
*
7613879 GTCCTTACCCGTATGGCT
131 GTCCTTACCCATATGGCT
*
7613897 CACATGGCCTAGGCATACAGGCCCATGTCCTTGCCCGTATGGCTCACACGACTTGGGTACACACC
1 CACATGGCCT-GGCACACAGGCCCATGTCCTTGCCCGTATGGCTCACACGACTTGGGTACACACC
*
7613962 CATGTCCTTGCTCGTGTGGTTTTAAAGCATAAATCAGAGAGTCACATGGCCTGGATAGAAGGCCG
65 CATGTCCTTGCTCGTATGGTTTTAAAGCATAAATCAGAGAGTCACATGGCCTGGATAGAAGGCCG
7614027 TGTCCTTACCCATATGGCT
130 TGTCCTTACCCATATGGCT
7614046 CACATGGCCTGGGCACAC--GCCCATGT
1 CACATGGCCT-GGCACACAGGCCCATGT
7614072 GCTAGCTCGT
Statistics
Matches: 167, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
147 18 0.11
148 2 0.01
149 147 0.88
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (148 bp):
CACATGGCCTGGCACACAGGCCCATGTCCTTGCCCGTATGGCTCACACGACTTGGGTACACACCC
ATGTCCTTGCTCGTATGGTTTTAAAGCATAAATCAGAGAGTCACATGGCCTGGATAGAAGGCCGT
GTCCTTACCCATATGGCT
Found at i:7614776 original size:21 final size:21
Alignment explanation
Indices: 7614752--7614815 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
7614742 AGGAGAAATC
7614752 AAAGAAGTAAA-AAGAAGAAAG
1 AAAGAAG-AAAGAAGAAGAAAG
* *
7614773 AAAGGAA-AAATAAAAAGAAAG
1 AAA-GAAGAAAGAAGAAGAAAG
*
7614794 AAA-AGGAAAAGAAGAAGAAAG
1 AAAGAAG-AAAGAAGAAGAAAG
7614815 A
1 A
7614816 GTACAGAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 1 0.03
20 3 0.09
21 28 0.80
22 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (21 bp):
AAAGAAGAAAGAAGAAGAAAG
Found at i:7614781 original size:17 final size:18
Alignment explanation
Indices: 7614760--7614797 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
7614750 TCAAAGAAGT
7614760 AAAAAGAAGAAAGAAAGG
1 AAAAAGAAGAAAGAAAGG
*
7614778 AAAAATAA-AAAGAAA-G
1 AAAAAGAAGAAAGAAAGG
7614794 AAAA
1 AAAA
7614798 GGAAAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 7 0.37
18 7 0.37
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAAAGAAGAAAGAAAGG
Found at i:7616878 original size:19 final size:19
Alignment explanation
Indices: 7616854--7616897 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
7616844 TAAAAACAAC
7616854 ACAACATCAATCCAAGTAA
1 ACAACATCAATCCAAGTAA
* *
7616873 ACAACATGAGTCCAAGTAA
1 ACAACATCAATCCAAGTAA
7616892 ACAACA
1 ACAACA
7616898 ATAAACAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.52, C:0.25, G:0.09, T:0.14
Consensus pattern (19 bp):
ACAACATCAATCCAAGTAA
Found at i:7617037 original size:22 final size:22
Alignment explanation
Indices: 7617012--7617053 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7617002 AAAGTCCAAT
*
7617012 AAACTAGCAACAATAACACAAC
1 AAACTAACAACAATAACACAAC
* *
7617034 AAACTAATAATAATAACACA
1 AAACTAACAACAATAACACA
7617054 TTAGTTCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.21, G:0.02, T:0.14
Consensus pattern (22 bp):
AAACTAACAACAATAACACAAC
Found at i:7622422 original size:26 final size:26
Alignment explanation
Indices: 7622386--7622492 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
7622376 TGAAATTCCA
7622386 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
7622412 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
7622438 ATCATGAAACATTTACCTAA-CCATT
1 ATCATGAAACATTTACCTAACCCATT
*
7622463 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
7622489 ATCA
1 ATCA
7622493 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 24 0.31
26 53 0.69
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:7622479 original size:51 final size:52
Alignment explanation
Indices: 7622386--7622492 Score: 207
Period size: 51 Copynumber: 2.1 Consensus size: 52
7622376 TGAAATTCCA
7622386 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
7622438 ATCATGAAACATTTACCTAA-CCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
7622489 ATCA
1 ATCA
7622493 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 35 0.64
52 20 0.36
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (52 bp):
ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
Found at i:7623149 original size:21 final size:19
Alignment explanation
Indices: 7623123--7623195 Score: 65
Period size: 21 Copynumber: 3.6 Consensus size: 19
7623113 ATCTAATTAC
7623123 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TAT-TTT
*
7623144 AAATATTTAAATATATTTT
1 AAATATTTAATTATATTTT
* *
7623163 ATATATTCTAATTAAATTTAAT
1 AAATATT-TAATTATATTT--T
*
7623185 AAATAATTAAT
1 AAATATTTAAT
7623196 ATCAATTACT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 9 0.21
20 12 0.28
21 16 0.37
22 6 0.14
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATATTTT
Found at i:7624319 original size:32 final size:33
Alignment explanation
Indices: 7624261--7624329 Score: 88
Period size: 32 Copynumber: 2.1 Consensus size: 33
7624251 GGGGTAGATG
7624261 GGCTTTAGAGGGAAAATGAGGCAAAAGGGTTTA
1 GGCTTTAGAGGGAAAATGAGGCAAAAGGGTTTA
* * *
7624294 GGCTTT-GAGGGGAAAT-AGGGTAAAAGGGTTTG
1 GGCTTTAGAGGGAAAATGA-GGCAAAAGGGTTTA
7624326 GGCT
1 GGCT
7624330 GGTATAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 1 0.03
32 25 0.78
33 6 0.19
ACGTcount: A:0.30, C:0.06, G:0.41, T:0.23
Consensus pattern (33 bp):
GGCTTTAGAGGGAAAATGAGGCAAAAGGGTTTA
Found at i:7625403 original size:17 final size:18
Alignment explanation
Indices: 7625369--7625415 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
7625359 TAAATGTTAT
*
7625369 TAATGGTTAAAATGGTAA
1 TAATGATTAAAATGGTAA
7625387 -AATGATTAATAAT-GTAA
1 TAATGATTAA-AATGGTAA
*
7625404 TAATAATTAAAA
1 TAATGATTAAAA
7625416 CAAAGCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.34
Consensus pattern (18 bp):
TAATGATTAAAATGGTAA
Found at i:7626352 original size:43 final size:44
Alignment explanation
Indices: 7626259--7626429 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 44
7626249 GGTTACCGAG
** * *
7626259 ATGTGATTACATGAAAGACCATGTTTGGGACATTGGCAT-TGTA
1 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCTGTA
*
7626302 TTGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCAT-TA
1 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATC-TGTA
* *
7626346 AT-TGATTTTGTGTAAGACGC-TGTCTGGGACAGTGGCATC-G-A
1 ATGTGATTATGTGTAAGAC-CATGTCTGGGACATTGGCATCTGTA
* ** * *
7626387 TATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT-TGTA
1 -ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCTGTA
7626430 CAAGCTATAT
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.01
42 10 0.10
43 89 0.85
44 4 0.04
45 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.33
Consensus pattern (44 bp):
ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCTGTA
Found at i:7628695 original size:39 final size:39
Alignment explanation
Indices: 7628641--7628816 Score: 255
Period size: 39 Copynumber: 4.5 Consensus size: 39
7628631 TCTGATGAGT
7628641 TTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGTGC
1 TTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGTGC
*
7628680 TTCAGTTAGCCTTCAGGATTCCGTTTAGCACTTGTGTGC
1 TTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGTGC
* * **
7628719 TTCAGTCAGCCTTCGGGCTTCCGTTTAAAACTTGTGTGC
1 TTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGTGC
* *
7628758 TTCAGTTAGCCTTC-GGGTTCCGTTTAGCACTTATGTGC
1 TTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGTGC
* * *
7628796 TTCAGCTAGACTTCGGGCTTC
1 TTCAGTTAGCCTTCAGGCTTC
7628817 AGATCACGAT
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
38 32 0.26
39 90 0.74
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (39 bp):
TTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTGTGTGC
Found at i:7644504 original size:23 final size:23
Alignment explanation
Indices: 7644443--7644506 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
7644433 TCAGAAGCAG
7644443 TATACGACACATAAAGTGCC-GA
1 TATACGACACATAAAGTGCCTGA
** *
7644465 TAT--GACACACGAGGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
7644486 TATACGACACATAAAGTGCCT
1 TATACGACACATAAAGTGCCT
7644507 AATCGGCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
20 12 0.36
21 5 0.15
22 3 0.09
23 13 0.39
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:7649816 original size:44 final size:40
Alignment explanation
Indices: 7649722--7649820 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 40
7649712 TTGAAATCAT
* **
7649722 TGGCACTAAGTGTGCGATTTAAACTAGCTTCGGCTATTAA
1 TGGCACTAAGTGTGCAATACAAACTAGCTTCGGCTATTAA
* * *
7649762 AGGCACTAAGTGTGCAATACCAACTTAGTTTCGGCTAGTTGAGA
1 TGGCACTAAGTGTGCAATACAAAC-TAGCTTCGGCTA-TT-A-A
7649806 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
7649821 GGAATCATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 19 0.40
41 11 0.23
42 2 0.04
43 1 0.02
44 15 0.31
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (40 bp):
TGGCACTAAGTGTGCAATACAAACTAGCTTCGGCTATTAA
Found at i:7651817 original size:21 final size:20
Alignment explanation
Indices: 7651788--7651842 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
7651778 TTTAGATAAA
*
7651788 ATTACAATTGTAATTTTATTT
1 ATTAAAATT-TAATTTTATTT
*
7651809 ATTAAAATTTATTTTTATTT
1 ATTAAAATTTAATTTTATTT
* *
7651829 AATAAAATATAATT
1 ATTAAAATTTAATT
7651843 AATATTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTAAAATTTAATTTTATTT
Found at i:7652789 original size:19 final size:18
Alignment explanation
Indices: 7652765--7652804 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
7652755 TGGTTCATGT
7652765 TTTCAA-TCTCATATCTCAA
1 TTTCAATTCTCA-AT-TCAA
7652784 TTTCAATTCTCAATTCAA
1 TTTCAATTCTCAATTCAA
7652802 TTT
1 TTT
7652805 ATCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 8 0.40
20 5 0.25
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTCAATTCTCAATTCAA
Found at i:7652940 original size:23 final size:23
Alignment explanation
Indices: 7652910--7652991 Score: 146
Period size: 23 Copynumber: 3.6 Consensus size: 23
7652900 GTGGATTCCT
*
7652910 CCCAAACACACTAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
7652933 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
*
7652956 CCTAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
7652979 CCCAAACACACCA
1 CCCAAACACACCA
7652992 ATAAGGCATT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.48, C:0.39, G:0.04, T:0.10
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:7653216 original size:18 final size:18
Alignment explanation
Indices: 7653195--7653233 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
7653185 CTAATAATCA
7653195 CATAAATTCACACATTTT
1 CATAAATTCACACATTTT
* * *
7653213 CATAATTTCATATATTTT
1 CATAAATTCACACATTTT
7653231 CAT
1 CAT
7653234 TCAATTCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (18 bp):
CATAAATTCACACATTTT
Found at i:7660159 original size:31 final size:30
Alignment explanation
Indices: 7660083--7660161 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
7660073 AAGTTATGGA
*
7660083 TTTAATCCTTATACTTTTAATTTGATAAAT
1 TTTAGTCCTTATACTTTTAATTTGATAAAT
* * * *
7660113 TTTAGTCTTTGTACTTTTCAATTTGGTTAAT
1 TTTAGTCCTTATACTTTT-AATTTGATAAAT
*
7660144 TTTAGTCCCTATACTTTT
1 TTTAGTCCTTATACTTTT
7660162 TTACTTTTGA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 15 0.38
31 25 0.62
ACGTcount: A:0.24, C:0.13, G:0.08, T:0.56
Consensus pattern (30 bp):
TTTAGTCCTTATACTTTTAATTTGATAAAT
Found at i:7660542 original size:42 final size:43
Alignment explanation
Indices: 7660483--7660565 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 43
7660473 TCTCGAACTA
*
7660483 ATAATAAGACTATATTAA-AATAATTTTA-GAGAAAACTTACTT
1 ATAATAAGACTATATTAAGAATAA-ATTAGGAGAAAACTTACTT
*
7660525 ATAATAAGA-TTTAATTAAGAATAAATTAGGAGAAAACTTAC
1 ATAATAAGACTAT-ATTAAGAATAAATTAGGAGAAAACTTAC
7660566 ACATAATTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
41 2 0.06
42 17 0.47
43 17 0.47
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.33
Consensus pattern (43 bp):
ATAATAAGACTATATTAAGAATAAATTAGGAGAAAACTTACTT
Found at i:7666123 original size:31 final size:31
Alignment explanation
Indices: 7666080--7666145 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
7666070 AACCCTTCCT
*
7666080 GCATTAAATCCAACAAAAAACAGCAAATATA
1 GCATGAAATCCAACAAAAAACAGCAAATATA
* *
7666111 GCATGAAATCCAACCAAAAACAGCAAATGTA
1 GCATGAAATCCAACAAAAAACAGCAAATATA
7666142 GCAT
1 GCAT
7666146 AAAAAATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.53, C:0.21, G:0.11, T:0.15
Consensus pattern (31 bp):
GCATGAAATCCAACAAAAAACAGCAAATATA
Found at i:7666878 original size:13 final size:14
Alignment explanation
Indices: 7666852--7666880 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7666842 ACTAACGACG
7666852 AATTAAACCATTAT
1 AATTAAACCATTAT
7666866 AATTAAA-CATTAT
1 AATTAAACCATTAT
7666879 AA
1 AA
7666881 ATATTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:7671954 original size:9 final size:9
Alignment explanation
Indices: 7671940--7672096 Score: 167
Period size: 9 Copynumber: 17.7 Consensus size: 9
7671930 TAACTCTAAT
7671940 TAAGTTATG
1 TAAGTTATG
7671949 TAAGTTATG
1 TAAGTTATG
* * *
7671958 ATATGATATA
1 -TAAGTTATG
*
7671968 T-ATTTATG
1 TAAGTTATG
7671976 T-A-TTATG
1 TAAGTTATG
*
7671983 TAAATTATG
1 TAAGTTATG
*
7671992 TAAGTTCTG
1 TAAGTTATG
7672001 TAAGTTATG
1 TAAGTTATG
*
7672010 TGAGTTATG
1 TAAGTTATG
7672019 TAAGTTATG
1 TAAGTTATG
**
7672028 TAAGTTAAA
1 TAAGTTATG
7672037 TAAGTTATG
1 TAAGTTATG
*
7672046 TGAGTTATG
1 TAAGTTATG
*
7672055 TGAGTTATG
1 TAAGTTATG
7672064 TAAGTTATG
1 TAAGTTATG
*
7672073 TAAGTTATA
1 TAAGTTATG
*
7672082 TTAGTTATG
1 TAAGTTATG
7672091 TAAGTT
1 TAAGTT
7672097 CAAGTATATA
Statistics
Matches: 123, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
7 6 0.05
8 6 0.05
9 105 0.85
10 6 0.05
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:7672410 original size:29 final size:28
Alignment explanation
Indices: 7672367--7672433 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
7672357 AATCACATGG
* *
7672367 AAAAAAATATTTTAATTAAATAATATTT
1 AAAAAATTATATTAATTAAATAATATTT
*
7672395 ATAAAAATTATATTAATTTAATAATATTT
1 A-AAAAATTATATTAATTAAATAATATTT
7672424 AAATAAATTA
1 AAA-AAATTA
7672434 ATCCAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
AAAAAATTATATTAATTAAATAATATTT
Found at i:7675001 original size:39 final size:38
Alignment explanation
Indices: 7674957--7675034 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 38
7674947 TAAATATATT
* *
7674957 TATATGGATGTAATTGAGATATATTATGTATATATAACA
1 TATATGGATGTAATTGAGATAAATCATGTAT-TATAACA
7674996 TATATGGATGTAATTGAGATAAATCATGTATTATAACA
1 TATATGGATGTAATTGAGATAAATCATGTATTATAACA
7675034 T
1 T
7675035 TTAAGTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 8 0.22
39 29 0.78
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.40
Consensus pattern (38 bp):
TATATGGATGTAATTGAGATAAATCATGTATTATAACA
Found at i:7676415 original size:75 final size:75
Alignment explanation
Indices: 7676263--7676423 Score: 181
Period size: 75 Copynumber: 2.2 Consensus size: 75
7676253 ATTTCACACC
*
7676263 TTTTGTGGCG-TTTAT--AAAAGCGCCACTAAGAAAAGGCTATAAAACGACGACGTTTTAAAATC
1 TTTTGTGGCGTTTTTTGAAAAAGCGCCACTAAGAAAAGGCTATAAAACGACGACGTTTTAAAATC
*
7676325 TCTTTAGATG
66 TATTTAGATG
* * * **
7676335 TTTTGTGGCGTTTTTTGAAAAAGCGCCACTAATAACAAGG-TA-ATAACGACGCCGTTTTGCAAT
1 TTTTGTGGCGTTTTTTGAAAAAGCGCCACTAAGAA-AAGGCTATAAAACGACGACGTTTTAAAAT
*
7676398 CTATTAATATATG
65 CTATT--TAGATG
7676411 -TTTGTGGCGTTTT
1 TTTTGTGGCGTTTT
7676424 CTAGTGAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
72 10 0.13
73 4 0.05
74 21 0.28
75 31 0.41
76 9 0.12
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (75 bp):
TTTTGTGGCGTTTTTTGAAAAAGCGCCACTAAGAAAAGGCTATAAAACGACGACGTTTTAAAATC
TATTTAGATG
Found at i:7676465 original size:188 final size:190
Alignment explanation
Indices: 7676149--7676562 Score: 536
Period size: 188 Copynumber: 2.2 Consensus size: 190
7676139 TTAATAAATA
* * * *
7676149 TTTGTGGC-ATTTTTATAAAGCGCCACTAATTAGAAGGCTACAAACGACGCAGTTTTTGCAATCT
1 TTTGTGGCGTTTTTTAAAAAGCGCCACTAATAACAAGGCTACAAACGACGCAGTTTTTGCAATCT
* * * * * *
7676213 GTTAATAGATTTTTGTGGCGTTTCTAGTGAAAACGCCGGTATTTCACACCTTTTGTGGCGTTTAT
66 ATTAATAGATGTTTGTGGCGTTTCTAGTGAAAACACCGGTAATTCACACCTCTTGCGGCGTTTAT
* *
7676278 AAAAGCGCCACTAAGAA-AAGGCTATAAAACGACGACGTTTTAAAATCTCTT-TAGATG-T
131 AAAAGCGCCACTAAGAACAAGGATAT-AAACGACGACATTTTAAAATCTCTTATAGATGTT
*
7676336 TTTGTGGCGTTTTTTGAAAAAGCGCCACTAATAACAAGG-TA-ATAACGACGCCG-TTTTGCAAT
1 TTTGTGGCGTTTTTT-AAAAAGCGCCACTAATAACAAGGCTACA-AACGACGCAGTTTTTGCAAT
*
7676398 CTATTAATATATGTTTGTGGCGTTTTCTAGTGAAAACACCGGTAATTCACACCTCTTGCGGCGTT
64 CTATTAATAGATGTTTGTGGCG-TTTCTAGTGAAAACACCGGTAATTCACACCTCTTGCGGCGTT
* * * * * * *
7676463 TATATAAGCGCCACTAATAACAAGGATGTAAACGACGCCATTTTACATTCTCTTAATGGATGTT
128 TATAAAAGCGCCACTAAGAACAAGGATATAAACGACGACATTTTAAAATCTCTT-ATAGATGTT
*
7676527 TTTGTGGCGTTTTTTTAAAAGCGCCACTAATAACAA
1 TTTGTGGCGTTTTTTAAAAAGCGCCACTAATAACAA
7676563 AGCTTTAAAA
Statistics
Matches: 197, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
187 37 0.19
188 93 0.47
189 26 0.13
190 25 0.13
191 16 0.08
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (190 bp):
TTTGTGGCGTTTTTTAAAAAGCGCCACTAATAACAAGGCTACAAACGACGCAGTTTTTGCAATCT
ATTAATAGATGTTTGTGGCGTTTCTAGTGAAAACACCGGTAATTCACACCTCTTGCGGCGTTTAT
AAAAGCGCCACTAAGAACAAGGATATAAACGACGACATTTTAAAATCTCTTATAGATGTT
Found at i:7676675 original size:3 final size:3
Alignment explanation
Indices: 7676669--7676703 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
7676659 TTTTTCTCTT
7676669 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7676704 TACTATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7676813 original size:16 final size:17
Alignment explanation
Indices: 7676792--7676824 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7676782 CACATTGAAG
7676792 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
7676808 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
7676825 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:7677583 original size:28 final size:27
Alignment explanation
Indices: 7677482--7677583 Score: 71
Period size: 28 Copynumber: 3.5 Consensus size: 27
7677472 TCAGTGTTAA
* * *
7677482 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCATAGCCCATA-CAGTATCAAT
* *
7677510 CTAGGCCATAGCCCCTTACAGTATCAGAGTAT
1 CTGGGCCATAG-CCCATACAGTATC--A--AT
*
7677542 ATTGGGCC-TAGCCCATAGCAGTATCAAT
1 -CTGGGCCATAGCCCATA-CAGTATCAAT
7677570 CTGGGCCATAGCCC
1 CTGGGCCATAGCCC
7677584 TATTACAAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 16
0.70 0.11 0.20
Matches are distributed among these distances:
27 6 0.11
28 22 0.39
29 5 0.09
30 2 0.04
31 5 0.09
32 12 0.21
33 5 0.09
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (27 bp):
CTGGGCCATAGCCCATACAGTATCAAT
Found at i:7677603 original size:60 final size:59
Alignment explanation
Indices: 7677483--7677610 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 59
7677473 CAGTGTTAAC
* * *
7677483 TGGGCCTTAGCCCATATCAATATTAATCTAGGCCATAGCCCCTTACAGTATCAGAGTATAT
1 TGGGCC-TAGCCCATAGCAATATCAATCTAGGCCATAGCCCATTACAG-ATCAGAGTATAT
* *
7677544 TGGGCCTAGCCCATAGCAGTATCAATCTGGGCCATAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATAGCAATATCAATCTAGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
7677604 TGGGCCT
1 TGGGCCT
7677611 TGGCCATATT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
59 4 0.07
60 44 0.75
61 11 0.19
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (59 bp):
TGGGCCTAGCCCATAGCAATATCAATCTAGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:7680006 original size:3 final size:3
Alignment explanation
Indices: 7679998--7680040 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
7679988 ATTTAATTAC
7679998 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
7680041 TTCATAAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:7680109 original size:12 final size:12
Alignment explanation
Indices: 7680094--7680118 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7680084 ACAACAAATA
7680094 ATAAAAATTTTC
1 ATAAAAATTTTC
7680106 ATAAAAATTTTC
1 ATAAAAATTTTC
7680118 A
1 A
7680119 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:7681595 original size:27 final size:26
Alignment explanation
Indices: 7681533--7681619 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
7681523 GCATGGCTGG
* *
7681533 CAGAACAGATAATGTGACAGAGTCAC
1 CAGAACAGATAATGTGGCAGAGCCAC
*
7681559 CAAACACAGATAATCGTGGCAGAGCCAC
1 CAGA-ACAGATAAT-GTGGCAGAGCCAC
* * *
7681587 CAGATCAGATATTTGTGGCATAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
7681614 CAGAAC
1 CAGAAC
7681620 GCTTCCTCCA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.06
27 32 0.64
28 15 0.30
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (26 bp):
CAGAACAGATAATGTGGCAGAGCCAC
Found at i:7681751 original size:26 final size:27
Alignment explanation
Indices: 7681722--7681795 Score: 96
Period size: 26 Copynumber: 2.7 Consensus size: 27
7681712 AAATTAACCC
* *
7681722 TAGGGGTATAACAGTAATTTTGC-ACT
1 TAGGGGTATAATAGTAATTTTGCAACA
*
7681748 TAGGGGTATAATAGTAATTTTTCATACA
1 TAGGGGTATAATAGTAATTTTGCA-ACA
*
7681776 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
7681796 AGCTACTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 21 0.50
28 21 0.50
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.39
Consensus pattern (27 bp):
TAGGGGTATAATAGTAATTTTGCAACA
Found at i:7683250 original size:26 final size:26
Alignment explanation
Indices: 7683214--7683323 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
7683204 CATGAAATTC
7683214 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
7683240 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
7683266 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
7683292 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
7683318 TTATCA
1 TTATCA
7683324 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 79 0.99
27 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:7683757 original size:21 final size:21
Alignment explanation
Indices: 7683739--7683781 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
7683729 TATGGTTTTG
7683739 GATTTAGGGTTTATAGTTTAA
1 GATTTAGGGTTTATAGTTTAA
*
7683760 GATTTAGGGTTTATAATTTAA
1 GATTTAGGGTTTATAGTTTAA
7683781 G
1 G
7683782 CTGGTCTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (21 bp):
GATTTAGGGTTTATAGTTTAA
Found at i:7683878 original size:29 final size:29
Alignment explanation
Indices: 7683823--7683878 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
7683813 GATTTAGGAA
*
7683823 TCTATATTTAAGGGTTTAAGGGTTTAGTG
1 TCTATATTTAAGGGTTTAAGGGCTTAGTG
* *
7683852 TCTATAATTT-AGGGTTTTATGGCTTAG
1 TCTAT-ATTTAAGGGTTTAAGGGCTTAG
7683879 GATTCAAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.46
Consensus pattern (29 bp):
TCTATATTTAAGGGTTTAAGGGCTTAGTG
Found at i:7683910 original size:21 final size:21
Alignment explanation
Indices: 7683886--7683926 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7683876 TAGGATTCAA
7683886 GGTTTAATA-TTTAGGGTTTAC
1 GGTTT-ATAGTTTAGGGTTTAC
7683907 GGTTTATAGTTTAGGGTTTA
1 GGTTTATAGTTTAGGGTTTA
7683927 TGACTAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.22, C:0.02, G:0.27, T:0.49
Consensus pattern (21 bp):
GGTTTATAGTTTAGGGTTTAC
Found at i:7685467 original size:45 final size:45
Alignment explanation
Indices: 7685403--7685494 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
7685393 CAATCAAACA
7685403 TTGACAATAAACTATGTCAAACAATGAATTAATCTTTGGACTAAC
1 TTGACAATAAACTATGTCAAACAATGAATTAATCTTTGGACTAAC
7685448 TTGACAATAAACTATGTCAAACAATGAATTAATCTTTGGACTAAC
1 TTGACAATAAACTATGTCAAACAATGAATTAATCTTTGGACTAAC
7685493 TT
1 TT
7685495 ATTGCTCACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (45 bp):
TTGACAATAAACTATGTCAAACAATGAATTAATCTTTGGACTAAC
Found at i:7693072 original size:25 final size:25
Alignment explanation
Indices: 7693044--7693094 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
7693034 ATTAGGTCCC
7693044 ATTCCTAGGATTTTTGTACCAAGGT
1 ATTCCTAGGATTTTTGTACCAAGGT
7693069 ATTCCTAGGATTTTTGTACCAAGGT
1 ATTCCTAGGATTTTTGTACCAAGGT
7693094 A
1 A
7693095 AGTTCGTATG
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:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (25 bp):
ATTCCTAGGATTTTTGTACCAAGGT
Found at i:7703233 original size:18 final size:18
Alignment explanation
Indices: 7703210--7703270 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
7703200 TTTGTTTATT
7703210 GTTATTCAATAACAATCA
1 GTTATTCAATAACAATCA
* *
7703228 GTTATTCAGTATCAATCA
1 GTTATTCAATAACAATCA
* * *
7703246 ATCAATCAATAACAATCA
1 GTTATTCAATAACAATCA
7703264 GTTATTC
1 GTTATTC
7703271 GGTCTAGTAA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (18 bp):
GTTATTCAATAACAATCA
Found at i:7704591 original size:5 final size:5
Alignment explanation
Indices: 7704583--7704622 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
7704573 TTATTTTATA
7704583 ATAAT ATAAT ATAAT ATAAT ATAAT ATAATTT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAA--T ATAAT ATA
7704623 CTTTTTATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 28 0.85
7 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:7704641 original size:20 final size:21
Alignment explanation
Indices: 7704616--7704661 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
7704606 ATATAATTTA
*
7704616 TAATATACT-TTTTATCTAAT-
1 TAATATAATATTTTAT-TAATG
7704636 TAATATAATATTTTATTAATG
1 TAATATAATATTTTATTAATG
7704657 TAATA
1 TAATA
7704662 ATTTAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (21 bp):
TAATATAATATTTTATTAATG
Found at i:7708485 original size:15 final size:16
Alignment explanation
Indices: 7708464--7708510 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
7708454 CACTTTTAAA
7708464 ATTAAAATTCAAAAGT
1 ATTAAAATTCAAAAGT
*
7708480 -TTAAAATATAAAAAAGT
1 ATTAAAAT-T-CAAAAGT
7708497 ATTATAAATTCAAA
1 ATTA-AAATTCAAA
7708511 CTTATTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
15 7 0.28
16 1 0.04
17 9 0.36
18 4 0.16
19 4 0.16
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (16 bp):
ATTAAAATTCAAAAGT
Found at i:7708623 original size:16 final size:16
Alignment explanation
Indices: 7708602--7708636 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
7708592 TTACTTTTCT
7708602 AAATTTTATAAA-ATTA
1 AAATTTTA-AAATATTA
7708618 AAATTTTAAAATATTA
1 AAATTTTAAAATATTA
7708634 AAA
1 AAA
7708637 AAAAAAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTTTAAAATATTA
Found at i:7709346 original size:23 final size:23
Alignment explanation
Indices: 7709298--7709348 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
7709288 ATTTTGTTTG
*
7709298 TTTGTGCAATTTTGATATTACTT
1 TTTGTGCAATGTTGATATTACTT
7709321 TTTGTAGCAATGTTGATATTACTT
1 TTTGT-GCAATGTTGATATTACTT
7709345 TTTG
1 TTTG
7709349 GTATTATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.22, C:0.08, G:0.16, T:0.55
Consensus pattern (23 bp):
TTTGTGCAATGTTGATATTACTT
Found at i:7710151 original size:9 final size:9
Alignment explanation
Indices: 7710137--7710197 Score: 59
Period size: 9 Copynumber: 6.3 Consensus size: 9
7710127 TTTTAAAATA
7710137 AAAATTATT
1 AAAATTATT
*
7710146 AAAATTCTT
1 AAAATTATT
*
7710155 AAAAAATTATA
1 --AAAATTATT
7710166 AAAATTATT
1 AAAATTATT
*
7710175 AAAAATTATA
1 -AAAATTATT
7710185 AAAATTAATT
1 AAAATT-ATT
7710195 AAA
1 AAA
7710198 TACTAACATG
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
9 22 0.52
10 13 0.31
11 7 0.17
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (9 bp):
AAAATTATT
Found at i:7710161 original size:20 final size:19
Alignment explanation
Indices: 7710135--7710197 Score: 90
Period size: 20 Copynumber: 3.2 Consensus size: 19
7710125 ATTTTTAAAA
* *
7710135 TAAAAATTATTAAAATTCT
1 TAAAAATTATAAAAATTAT
7710154 TAAAAAATTATAAAAATTAT
1 T-AAAAATTATAAAAATTAT
7710174 TAAAAATTATAAAAATTAAT
1 TAAAAATTATAAAAATT-AT
7710194 TAAA
1 TAAA
7710198 TACTAACATG
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.43
20 23 0.57
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAAAATTATAAAAATTAT
Found at i:7716371 original size:19 final size:20
Alignment explanation
Indices: 7716344--7716382 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
7716334 TAAAATAGAT
* *
7716344 AATATATTTTAATTATGTTG
1 AATATATTTAAATAATGTTG
7716364 AATA-ATTTAAATAATGTTG
1 AATATATTTAAATAATGTTG
7716383 CTTTAGATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (20 bp):
AATATATTTAAATAATGTTG
Found at i:7721217 original size:27 final size:27
Alignment explanation
Indices: 7721187--7721244 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
7721177 GAGTTTTATA
7721187 TTTAGTGGACT-TTCCGAACTGTTGGTT
1 TTTAGTGGACTCTT-CGAACTGTTGGTT
* *
7721214 TTTAGTGGACTCTTTGGACTGTTGGTT
1 TTTAGTGGACTCTTCGAACTGTTGGTT
7721241 TTTA
1 TTTA
7721245 ATTAGGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 26 0.93
28 2 0.07
ACGTcount: A:0.14, C:0.12, G:0.26, T:0.48
Consensus pattern (27 bp):
TTTAGTGGACTCTTCGAACTGTTGGTT
Found at i:7723782 original size:15 final size:17
Alignment explanation
Indices: 7723754--7723785 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
7723744 TTGTATATAT
7723754 TATATTTATATTATGTA
1 TATATTTATATTATGTA
7723771 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
7723786 CGTTTTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:7741819 original size:36 final size:35
Alignment explanation
Indices: 7741774--7741841 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 35
7741764 CGATGTTGTT
7741774 TTGATTAGCCA-AATGTAT-TGGCTTATAATGATCTG
1 TTGATTAGCCATAA-G-ATGTGGCTTATAATGATCTG
7741809 TTGATGTAGCCATAAGATGTGGCTTATAATGAT
1 TTGAT-TAGCCATAAGATGTGGCTTATAATGAT
7741842 TTTGGCTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
35 7 0.23
36 21 0.70
37 2 0.07
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (35 bp):
TTGATTAGCCATAAGATGTGGCTTATAATGATCTG
Found at i:7750510 original size:24 final size:24
Alignment explanation
Indices: 7750451--7750503 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
7750441 CAAAACCACA
7750451 AGGCCAGGCACACGGGCGTCCCGT
1 AGGCCAGGCACACGGGCGTCCCGT
7750475 AGGCCAGGCACACGGGCGTCCCGT
1 AGGCCAGGCACACGGGCGTCCCGT
7750499 AGGCC
1 AGGCC
7750504 GTGCACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.17, C:0.38, G:0.38, T:0.08
Consensus pattern (24 bp):
AGGCCAGGCACACGGGCGTCCCGT
Found at i:7753012 original size:38 final size:39
Alignment explanation
Indices: 7752928--7753021 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 39
7752918 ACCAATATGG
*
7752928 CACCCAGTGCCTCATCGGATAGTTCGAAGTAACAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAACAGTTGA
* * *
7752967 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAACAGTTGA
* *
7753005 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
7753022 AATCTATCCG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
38 19 0.40
39 25 0.53
40 3 0.06
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAACAGTTGA
Found at i:7754967 original size:24 final size:22
Alignment explanation
Indices: 7754940--7755003 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 22
7754930 ATTAGTAATC
7754940 ATAATAATTTAATATAAAACTAT
1 ATAATAATTTAATATAAAA-TAT
*
7754963 AATAATAATCATTAATAT-ATATAT
1 -ATAATAAT--TTAATATAAAATAT
7754987 ATATATAATTTAATATA
1 ATA-ATAATTTAATATA
7755004 TAAAACCTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 7 0.20
23 3 0.09
24 16 0.46
25 2 0.06
26 7 0.20
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAATAATTTAATATAAAATAT
Found at i:7761104 original size:38 final size:39
Alignment explanation
Indices: 7761020--7761154 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
7761010 ACCAATATGG
*
7761020 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
7761059 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
7761097 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
7761138 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
7761155 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:7762675 original size:16 final size:16
Alignment explanation
Indices: 7762656--7762686 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7762646 TTTCTCCTTC
7762656 TTTCTCCCCTGTTTCG
1 TTTCTCCCCTGTTTCG
*
7762672 TTTCTTCCCTGTTTC
1 TTTCTCCCCTGTTTC
7762687 TTTTGTTATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.35, G:0.10, T:0.55
Consensus pattern (16 bp):
TTTCTCCCCTGTTTCG
Found at i:7763087 original size:22 final size:18
Alignment explanation
Indices: 7763055--7763099 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
7763045 AATATAAAAC
7763055 TATAATAATAATCATTAATA
1 TATAATAATAAT--TTAATA
7763075 TATATATATATAATTTAATA
1 TATA-ATA-ATAATTTAATA
7763095 TATAA
1 TATAA
7763100 AACCTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 14 0.61
21 3 0.13
22 5 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TATAATAATAATTTAATA
Found at i:7780413 original size:18 final size:19
Alignment explanation
Indices: 7780391--7780429 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7780381 AATTTGGAAT
*
7780391 TTTTATAAA-TATGTTGAA
1 TTTTAAAAATTATGTTGAA
*
7780409 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATGTTGAA
7780428 TT
1 TT
7780430 ATTCTGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTAAAAATTATGTTGAA
Found at i:7784800 original size:15 final size:15
Alignment explanation
Indices: 7784780--7784811 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7784770 TACCACTTAG
7784780 TTAACATCTTTCACC
1 TTAACATCTTTCACC
7784795 TTAACATCTTTCACC
1 TTAACATCTTTCACC
7784810 TT
1 TT
7784812 CCAGCTACGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAACATCTTTCACC
Found at i:7785548 original size:14 final size:15
Alignment explanation
Indices: 7785520--7785550 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
7785510 CACATGTCAA
7785520 ATTTCTGTGTATTTC
1 ATTTCTGTGTATTTC
7785535 ATTTCTGT-TATTTC
1 ATTTCTGTGTATTTC
7785549 AT
1 AT
7785551 CCACATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.16, C:0.13, G:0.10, T:0.61
Consensus pattern (15 bp):
ATTTCTGTGTATTTC
Found at i:7791506 original size:19 final size:20
Alignment explanation
Indices: 7791484--7791521 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
7791474 ACCACTGTCA
*
7791484 TCCATCGTAAT-AAAATTTG
1 TCCACCGTAATCAAAATTTG
*
7791503 TCCACCTTAATCAAAATTT
1 TCCACCGTAATCAAAATTT
7791522 TTATTAACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (20 bp):
TCCACCGTAATCAAAATTTG
Found at i:7791815 original size:17 final size:17
Alignment explanation
Indices: 7791765--7791844 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 17
7791755 AATTCAATTT
7791765 TAATATAAAT-ATTCAA
1 TAATATAAATAATTCAA
7791781 T-ATGACTAAA-AATTCAA
1 TAAT-A-TAAATAATTCAA
*
7791798 TAATATAAATAATACAA
1 TAATATAAATAATTCAA
* *
7791815 T-ATTTGAAATTTAATTTAA
1 TAATAT-AAA--TAATTCAA
7791834 TAATATAAATA
1 TAATATAAATA
7791845 GTAGATATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
15 2 0.04
16 9 0.18
17 24 0.48
18 2 0.04
19 10 0.20
20 3 0.06
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATATAAATAATTCAA
Found at i:7792365 original size:9 final size:9
Alignment explanation
Indices: 7792347--7792383 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
7792337 TATAGTTTGA
7792347 TATTCGAAT
1 TATTCGAAT
*
7792356 TATTCAAAT
1 TATTCGAAT
*
7792365 TATTCGAGT
1 TATTCGAAT
7792374 TATTCGAAT
1 TATTCGAAT
7792383 T
1 T
7792384 CGAAACTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7796136 original size:47 final size:47
Alignment explanation
Indices: 7796028--7796146 Score: 140
Period size: 47 Copynumber: 2.5 Consensus size: 47
7796018 ATTTGTGCGT
*
7796028 TAGTGTAAGACATGTCTGGGACAT-GCATTGGCCACATTATGAGAGCCA
1 TAGTGTAAGACATGTCTGGGACATGGCATTGG-C-CATTATGAGAGACA
*
7796076 T--TGTAAGACCATGTCTGGGACATGGCATTGG-CATTGA-GACGAGAGA
1 TAGTGTAAGA-CATGTCTGGGACATGGCATTGGCCATT-ATGA-GAGACA
7796122 TAGTGTAAGACATGTCTGGGACATG
1 TAGTGTAAGACATGTCTGGGACATG
7796147 CATCTGCCTC
Statistics
Matches: 63, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
45 6 0.10
46 13 0.21
47 29 0.46
48 15 0.24
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (47 bp):
TAGTGTAAGACATGTCTGGGACATGGCATTGGCCATTATGAGAGACA
Found at i:7796334 original size:49 final size:50
Alignment explanation
Indices: 7796029--7796345 Score: 219
Period size: 46 Copynumber: 6.7 Consensus size: 50
7796019 TTTGTGCGTT
* * * *
7796029 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCAC--A-TTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGTAGATGTGAGAGTC
* * * * *
7796075 ATTGTAAGACCATGTCTGGGACATGGCATTGGCA-TTGAGACGAGAGA-T-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGT-AGATGTGAGAGTC
* * * *
7796123 AGTGTAAGA-CATGTCTGGGACAT-GCATCTGCCTCG-CGATGT-A-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGCACGTAGATGTGAGAGTC
* *
7796169 AGTGTAAGA-CATGTATGGGACAT-GCATCAGCTACG-AGATGT----GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGTAGATGTGAGAGTC
* *
7796213 AGTGTAAGACCATGTCTGGGACATGGCATCGTCACGTAGATGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAGATGTGAGAGTC
* * ** * * *
7796263 AGTGTAAGACCATGCCTAGGACATGGTGTCGGC-C-TCGATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAGATGT-GAGAGTC
7796312 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
7796346 TTACACCCTA
Statistics
Matches: 213, Mismatches: 38, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
44 12 0.06
45 18 0.08
46 61 0.29
47 32 0.15
48 20 0.09
49 36 0.17
50 34 0.16
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAGATGTGAGAGTC
Found at i:7800501 original size:28 final size:28
Alignment explanation
Indices: 7800433--7800502 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
7800423 GAATCATTCG
*
7800433 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
**
7800461 ATACCTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
7800489 ATATTTCGTACACT
1 ATATTTCGCACACT
7800503 GAGTACCATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.36
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:7802893 original size:49 final size:49
Alignment explanation
Indices: 7802836--7802935 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
7802826 TCATCTTACG
*
7802836 CGTGATCTCTACTTATAAATACTTCCAAGAGCGATGAAGAAAAGATACA
1 CGTGATCTCTACTTATAAATACTTCCAAGAGCGATAAAGAAAAGATACA
*
7802885 CGTGATCTCTACTTATAAATACTTCCAAGAGCGATAAAGAAAAGATTCA
1 CGTGATCTCTACTTATAAATACTTCCAAGAGCGATAAAGAAAAGATACA
7802934 CG
1 CG
7802936 CGATGAAGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (49 bp):
CGTGATCTCTACTTATAAATACTTCCAAGAGCGATAAAGAAAAGATACA
Found at i:7805611 original size:33 final size:33
Alignment explanation
Indices: 7805569--7805637 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
7805559 CTAATTGAAA
7805569 GTTCCATTTTAATCACTAGGAAAAATGATTTAG
1 GTTCCATTTTAATCACTAGGAAAAATGATTTAG
7805602 GTTCCATTTTAATCACTAGGAAAAATGATTTAG
1 GTTCCATTTTAATCACTAGGAAAAATGATTTAG
7805635 GTT
1 GTT
7805638 TTTTTATCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.38
Consensus pattern (33 bp):
GTTCCATTTTAATCACTAGGAAAAATGATTTAG
Found at i:7805930 original size:20 final size:20
Alignment explanation
Indices: 7805905--7805944 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7805895 TCTTTAATGT
7805905 CAATCGCCAAATCAACTTGG
1 CAATCGCCAAATCAACTTGG
7805925 CAATCGCCAAATCAACTTGG
1 CAATCGCCAAATCAACTTGG
7805945 ATCTTCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (20 bp):
CAATCGCCAAATCAACTTGG
Found at i:7814084 original size:30 final size:30
Alignment explanation
Indices: 7814050--7814108 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
7814040 CTTAACAAGA
* *
7814050 AAATGCCTTTAAAATATTAGCAAAATTAAC
1 AAATGCCTTTAAAATAATAACAAAATTAAC
7814080 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATGCCTTTAAAATAATAACAAAATTAA
7814109 TAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (30 bp):
AAATGCCTTTAAAATAATAACAAAATTAAC
Found at i:7815016 original size:13 final size:12
Alignment explanation
Indices: 7814997--7815032 Score: 63
Period size: 12 Copynumber: 2.9 Consensus size: 12
7814987 TAACCCAACC
7814997 CAAAAAAAAAAT
1 CAAAAAAAAAAT
7815009 CAAAAAAAAAAT
1 CAAAAAAAAAAT
7815021 CAAAAAAGAAAA
1 CAAAAAA-AAAA
7815033 AACCTAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 19 0.83
13 4 0.17
ACGTcount: A:0.83, C:0.08, G:0.03, T:0.06
Consensus pattern (12 bp):
CAAAAAAAAAAT
Found at i:7815247 original size:22 final size:24
Alignment explanation
Indices: 7815221--7815269 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
7815211 TATTTTGGAG
7815221 AGAAGA-A-ATTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
*
7815243 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGATATTTTTTGAGATTCA
7815267 AGA
1 AGA
7815270 GGGGATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 17 0.71
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (24 bp):
AGAAGAGATATTTTTTGAGATTCA
Found at i:7815261 original size:24 final size:24
Alignment explanation
Indices: 7815229--7815279 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
7815219 AGAGAAGAAA
7815229 TTTTTTGAGATTCAAGAAGAGATT
1 TTTTTTGAGATTCAAGAAGAGATT
* *
7815253 TTTTTTGAGATTCAAGAGGGGATT
1 TTTTTTGAGATTCAAGAAGAGATT
7815277 TTT
1 TTT
7815280 CTTTTTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.45
Consensus pattern (24 bp):
TTTTTTGAGATTCAAGAAGAGATT
Found at i:7815278 original size:21 final size:22
Alignment explanation
Indices: 7815221--7815279 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 22
7815211 TATTTTGGAG
*
7815221 AGAAGAAATTTTTTGAGATTCA
1 AGAAGAGATTTTTTGAGATTCA
7815243 AGAAGAGATTTTTTTTGAGATTCA
1 AGAAGAGA--TTTTTTGAGATTCA
* *
7815267 AGAGGGGATTTTT
1 AGAAGAGATTTTT
7815280 CTTTTTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 12 0.38
24 20 0.62
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (22 bp):
AGAAGAGATTTTTTGAGATTCA
Found at i:7815763 original size:3 final size:3
Alignment explanation
Indices: 7815755--7815790 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
7815745 TGCATTTTAA
7815755 TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA
7815791 GTGTATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7815889 original size:3 final size:3
Alignment explanation
Indices: 7815881--7815907 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7815871 TGTATTTCTA
7815881 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
7815908 ATGGTAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7816033 original size:16 final size:15
Alignment explanation
Indices: 7816002--7816044 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
7815992 CCTTCATTCC
*
7816002 ATTATTATTATTACT
1 ATTATTATTTTTACT
7816017 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
7816033 ATCATTATTTTT
1 ATTATTATTTTT
7816045 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:7816170 original size:16 final size:16
Alignment explanation
Indices: 7816149--7816180 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7816139 CTATTGTTAC
7816149 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
7816165 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
7816181 ATTATTATAA
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:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:7816222 original size:11 final size:13
Alignment explanation
Indices: 7816192--7816223 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
7816182 TTATTATAAT
7816192 TTATTATTGTTAC
1 TTATTATTGTTAC
7816205 TTATTATT-TTAC
1 TTATTATTGTTAC
7816217 -TATTATT
1 TTATTATT
7816224 ATCTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 4 0.21
13 8 0.42
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (13 bp):
TTATTATTGTTAC
Done.