Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 75 of 311
Found at i:23421388 original size:31 final size:31
Alignment explanation
Indices: 23421353--23421462 Score: 193
Period size: 31 Copynumber: 3.5 Consensus size: 31
23421343 TGTTTACAGT
*
23421353 AAAGGCTTCGGCCCAGTGATATGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
23421384 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
23421415 AAAGGCTTCGACCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
23421446 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
23421463 AAATGTCAAG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:23424061 original size:13 final size:13
Alignment explanation
Indices: 23424043--23424069 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23424033 GAAGTAATTG
23424043 CACACGGGCGTGT
1 CACACGGGCGTGT
23424056 CACACGGGCGTGT
1 CACACGGGCGTGT
23424069 C
1 C
23424070 CCTGCCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:23431643 original size:46 final size:46
Alignment explanation
Indices: 23431592--23431765 Score: 160
Period size: 46 Copynumber: 3.7 Consensus size: 46
23431582 ACACCTTGTA
* *
23431592 GCCGATGCATGTCCCAAACATGTCTGACACTAGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCT-CATCTCAAG
* * *
23431638 GCCGATGCATGT-CCAAGACATGTCTTACACTGGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAA-ACATGTCTTACACTAGCTCTCATCTCAAG
* **
23431684 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GC-CTC-TCAAAATGTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCATCTCAA---G
* *
23431732 GCCGATACATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGC
23431766 ACACAAATAA
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
45 8 0.07
46 54 0.50
47 28 0.26
48 19 0.17
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAAG
Found at i:23431743 original size:47 final size:47
Alignment explanation
Indices: 23431637--23431762 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 47
23431627 TACATCTCGA
* * **
23431637 GGCCGATGCATGTCCAAGACATGTCTTACACTGGCTCTCGTCTCAAT
1 GGCCGATACATGTCCCAGACATGTCTTACACTGGCTCTCGTCAAAAT
*
23431684 -GCCGATGCCATGTCCCAGACATGGTCTTACACT-GC-CTC-TCAAAATGT
1 GGCCGAT-ACATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCAAAA--T
23431731 GGCCGATACATGTCCCAGACATGTCTTACACT
1 GGCCGATACATGTCCCAGACATGTCTTACACT
23431763 AGCACACAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
45 4 0.06
46 19 0.28
47 30 0.43
48 16 0.23
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (47 bp):
GGCCGATACATGTCCCAGACATGTCTTACACTGGCTCTCGTCAAAAT
Found at i:23435134 original size:45 final size:45
Alignment explanation
Indices: 23435070--23435238 Score: 186
Period size: 45 Copynumber: 3.7 Consensus size: 45
23435060 AACCCGCCCC
* *
23435070 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCA
* * *
23435115 TAAGTGAACTCAGACTCAACTCAA--AGTTCGG-ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--TCCA
* *
23435159 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCATCCA
23435206 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
23435239 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 6 0.06
44 3 0.03
45 43 0.43
46 30 0.30
47 10 0.10
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCA
Found at i:23435229 original size:91 final size:91
Alignment explanation
Indices: 23435075--23435242 Score: 284
Period size: 91 Copynumber: 1.8 Consensus size: 91
23435065 GCCCCTAAGT
*
23435075 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA-
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
23435139 AGTTCGGATGCCTAGTTACATTTCAC
66 AGTTCGGATGCCTAGTTACATTTCAC
* *
23435165 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
23435230 CGAGTTCGGATGC
65 C-AGTTCGGATGC
23435243 TCAACCATCC
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
90 27 0.38
91 34 0.47
93 11 0.15
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
AGTTCGGATGCCTAGTTACATTTCAC
Found at i:23441638 original size:46 final size:46
Alignment explanation
Indices: 23441502--23441638 Score: 122
Period size: 46 Copynumber: 3.0 Consensus size: 46
23441492 GAATTTTTGG
** *
23441502 TCGGACTCAACTCAATGAGTTCGGATGCCTTGTTA-CATTTCA-CGAAC
1 TCGGACTCAACTCAATGAGTTCGGATG-C-TGCAACCATTT-AGTGAAC
* * * *
23441549 TCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCA-TAAGTGAAC
1 TCGGACTCAACTCAATGAGTTCGG--ATGCTGCAACCATTTAGTGAAC
23441595 TCGGACTCAACTCAATGAGTTCGGATGCT-CAACCATTCTAGTGA
1 TCGGACTCAACTCAATGAGTTCGGATGCTGCAACCATT-TAGTGA
23441639 CATGTCACTT
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
44 7 0.10
45 3 0.04
46 35 0.49
47 25 0.35
49 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (46 bp):
TCGGACTCAACTCAATGAGTTCGGATGCTGCAACCATTTAGTGAAC
Found at i:23450067 original size:21 final size:20
Alignment explanation
Indices: 23450033--23450071 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23450023 AAGATTGCAT
23450033 ATCTATAAACAAACATTCATA
1 ATCTATAAACAAAC-TTCATA
* *
23450054 ATCTATCAAGAAACTTCA
1 ATCTATAAACAAACTTCA
23450072 AAATACACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.21, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCTATAAACAAACTTCATA
Found at i:23454566 original size:39 final size:39
Alignment explanation
Indices: 23454522--23454634 Score: 201
Period size: 39 Copynumber: 2.9 Consensus size: 39
23454512 TACCAGTACA
23454522 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
23454561 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
1 AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
*
23454600 AAGCCTGC-GGATCTTTAGCCCAGATACATTTCCAG
1 AAGCCTGCGGGA-CTTTAGCCCGGATACATTTCCAG
23454635 TGTCTTGCTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
38 3 0.04
39 69 0.96
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACG
Found at i:23461522 original size:15 final size:15
Alignment explanation
Indices: 23461498--23461527 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23461488 CTAATGTATT
23461498 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
23461513 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
23461528 ACAAGTGTTG
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:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:23463109 original size:25 final size:25
Alignment explanation
Indices: 23463049--23463113 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
23463039 ATCAATTTTC
*
23463049 GCTCTTTTGAGCT-ATGAACAGCAA
1 GCTCTATTGAGCTGATGAACAGCAA
** * *
23463073 GCTCCTCCTGAGCTGATGGACAGTAA
1 GCT-CTATTGAGCTGATGAACAGCAA
23463099 GCTCTATTGAGCTGA
1 GCTCTATTGAGCTGA
23463114 AACGGTAAGC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 3 0.09
25 18 0.55
26 12 0.36
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (25 bp):
GCTCTATTGAGCTGATGAACAGCAA
Found at i:23463144 original size:23 final size:23
Alignment explanation
Indices: 23463092--23463148 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
23463082 GAGCTGATGG
23463092 ACAGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTATTGAGCTGAA
*
23463115 ACGGTAAGCTCTGA-TGAGCTGAA
1 ACAGTAAGCTCT-ATTGAGCTGAA
**
23463138 TTAGTAAGCTC
1 ACAGTAAGCTC
23463149 ATACGAGTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 28 0.97
24 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (23 bp):
ACAGTAAGCTCTATTGAGCTGAA
Found at i:23467568 original size:9 final size:10
Alignment explanation
Indices: 23467546--23467584 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
23467536 CTGAAATTTG
23467546 TTTTCCATTA
1 TTTTCCATTA
23467556 TTTTCCA-TA
1 TTTTCCATTA
*
23467565 TTTTTCATTA
1 TTTTCCATTA
23467575 TTTTCTCATT
1 TTTTC-CATT
23467585 TCTACCGCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.32
10 13 0.52
11 4 0.16
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTCCATTA
Found at i:23474609 original size:9 final size:10
Alignment explanation
Indices: 23474602--23474658 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
23474592 ACGAGAAAAC
23474602 AAAGAAAAGA
1 AAAGAAAAGA
23474612 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
23474624 AAAGAAGA-A
1 AAAGAAAAGA
23474633 AAAGAAAATGA
1 AAAGAAAA-GA
23474644 AATA-AAAAGA
1 AA-AGAAAAGA
23474654 AAAGA
1 AAAGA
23474659 GAGGCAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:23474626 original size:6 final size:5
Alignment explanation
Indices: 23474602--23474658 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
23474592 ACGAGAAAAC
*
23474602 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
23474649 AAAGA AAAGA
1 AAAGA AAAGA
23474659 GAGGCAAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:23474633 original size:15 final size:14
Alignment explanation
Indices: 23474602--23474658 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
23474592 ACGAGAAAAC
23474602 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
23474618 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
23474633 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
23474649 AAAGAAAAGA
1 AAAGAAAAGA
23474659 GAGGCAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:23474821 original size:18 final size:19
Alignment explanation
Indices: 23474785--23474823 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
23474775 TTTGAGAGAG
*
23474785 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
23474804 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
23474822 AA
1 AA
23474824 TTGAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:23475409 original size:12 final size:12
Alignment explanation
Indices: 23475389--23475430 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 12
23475379 CACTTCAATT
*
23475389 TTTTATTTCAGAG
1 TTTT-TTTCAGAA
23475402 TTTTTTTC-GAA
1 TTTTTTTCAGAA
23475413 TTTTTTTCA-AA
1 TTTTTTTCAGAA
23475424 TTTTTTT
1 TTTTTTT
23475431 TAACTTGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 19 0.70
12 4 0.15
13 4 0.15
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (12 bp):
TTTTTTTCAGAA
Found at i:23483285 original size:25 final size:25
Alignment explanation
Indices: 23483251--23483298 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
23483241 GAACCTTTTA
*
23483251 CACATTATAGCTTCAGAAGAAACGC
1 CACATTATAGCTTCAGAAAAAACGC
23483276 CACATTATAGCTTCAGAAAAAAC
1 CACATTATAGCTTCAGAAAAAAC
23483299 ACATTCACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (25 bp):
CACATTATAGCTTCAGAAAAAACGC
Found at i:23504303 original size:45 final size:44
Alignment explanation
Indices: 23504196--23504311 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 44
23504186 TATCTATGCT
*
23504196 GATGCCATGTCCAAGACATGGCCTTACACTGACACATCTCATAGCC
1 GATG-CATGTCCAAGACAT-GTCTTACACTGACACATCTCATAGCC
* * *
23504242 GATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTTA-AGGCC
1 GATGCATGTCCAAGACATGTCTTACACTGAC--ACATCTCATA-GCC
23504288 GATGCATGT-CAAGACATGTCTTAC
1 GATGCATGTCCAAGACATGTCTTAC
23504312 TCCAACACTC
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
44 12 0.19
45 28 0.45
46 22 0.35
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (44 bp):
GATGCATGTCCAAGACATGTCTTACACTGACACATCTCATAGCC
Found at i:23504325 original size:45 final size:46
Alignment explanation
Indices: 23504239--23504325 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 46
23504229 ACATCTCATA
* ** *
23504239 GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTTAAG
1 GCCGATGCATGTCCAAGACATGTCTTACACCAACCTACGTCTTAAG
*
23504285 GCCGATGCATGT-CAAGACATGTCTTACTCCAACACT-CGTCT
1 GCCGATGCATGTCCAAGACATGTCTTACACCAAC-CTACGTCT
23504326 CAATGTTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
45 22 0.63
46 13 0.37
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCAAGACATGTCTTACACCAACCTACGTCTTAAG
Found at i:23506825 original size:23 final size:23
Alignment explanation
Indices: 23506795--23506848 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
23506785 TGATGGATAG
23506795 TAAGCTCT-ATTAAGCTGAAGCAA
1 TAAGCTCTGA-TAAGCTGAAGCAA
* * *
23506818 TAAGCTCTGATGATCTGAATCAA
1 TAAGCTCTGATAAGCTGAAGCAA
23506841 TAAGCTCT
1 TAAGCTCT
23506849 TACGAGCTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (23 bp):
TAAGCTCTGATAAGCTGAAGCAA
Found at i:23506858 original size:23 final size:23
Alignment explanation
Indices: 23506807--23506858 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
23506797 AGCTCTATTA
*
23506807 AGCTGAAGCAATAAGCTCTGATG
1 AGCTGAAGCAATAAGCTCTGACG
* * *
23506830 ATCTGAATCAATAAGCTCTTACG
1 AGCTGAAGCAATAAGCTCTGACG
23506853 AGCTGA
1 AGCTGA
23506859 TATATCAGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (23 bp):
AGCTGAAGCAATAAGCTCTGACG
Found at i:23509060 original size:21 final size:20
Alignment explanation
Indices: 23509036--23509074 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23509026 CTTGTTTAAT
23509036 TATCAACAACTATTCAAAATC
1 TATCAACAA-TATTCAAAATC
* *
23509057 TATCATCAATCTTCAAAA
1 TATCAACAATATTCAAAA
23509075 CTCATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
TATCAACAATATTCAAAATC
Found at i:23512356 original size:13 final size:13
Alignment explanation
Indices: 23512338--23512363 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23512328 GCTCGACAGC
23512338 GACACGCCCGTGT
1 GACACGCCCGTGT
23512351 GACACGCCCGTGT
1 GACACGCCCGTGT
23512364 TCAATTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:23522667 original size:28 final size:28
Alignment explanation
Indices: 23522629--23522730 Score: 159
Period size: 28 Copynumber: 3.6 Consensus size: 28
23522619 GAATCATTCG
*
23522629 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
23522657 ATATCTCGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
* *
23522685 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGTCATTCTCA
*
23522713 ATATTTCGTACACTAAGT
1 ATATTTCGCACACTAAGT
23522731 ACCATATTTG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGTCATTCTCA
Found at i:23527732 original size:28 final size:28
Alignment explanation
Indices: 23527698--23527852 Score: 157
Period size: 28 Copynumber: 5.5 Consensus size: 28
23527688 AACCGATCTT
* *
23527698 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* ** * *
23527726 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
* *
23527755 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* ** * *
23527783 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
23527812 GCACACACAGTGCTCGATTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
*
23527840 ACACACACAGTGC
1 GCACACACAGTGC
23527853 CTATGTTCAC
Statistics
Matches: 98, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
28 56 0.57
29 42 0.43
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.17
Consensus pattern (28 bp):
GCACACACAGTGCTCGATTACGGAACTC
Found at i:23527738 original size:57 final size:57
Alignment explanation
Indices: 23527668--23527854 Score: 311
Period size: 57 Copynumber: 3.2 Consensus size: 57
23527658 GATCTCATTT
* *
23527668 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
23527727 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
* * *
23527784 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
23527841 CACACACAGTGCCT
1 CACACACAGTGCCT
23527855 ATGTTCACTT
Statistics
Matches: 123, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
57 116 0.94
59 7 0.06
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTTGGTTACGGAACTCG
Found at i:23527764 original size:29 final size:29
Alignment explanation
Indices: 23527668--23527824 Score: 138
Period size: 29 Copynumber: 5.4 Consensus size: 29
23527658 GATCTCATTT
* *
23527668 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
***** * *
23527699 CACACACAGTG-CTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
23527727 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
***** * *
23527756 CACACACAGTG-CTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
23527784 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
23527813 CACACACAGTGC
1 CACACACAGTGC
23527825 TCGATTACGG
Statistics
Matches: 94, Mismatches: 30, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
28 40 0.43
29 47 0.50
31 7 0.07
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:23529870 original size:28 final size:28
Alignment explanation
Indices: 23529832--23529938 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
23529822 GAATCATTCG
* *
23529832 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
23529860 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
23529888 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
23529916 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
23529939 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:23541725 original size:27 final size:26
Alignment explanation
Indices: 23541681--23541732 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
23541671 CTCCCTGCAA
* *
23541681 TCTGGTGGCCTCGCCACATATATCTGC
1 TCTGGTGACCACGCCACA-ATATCTGC
*
23541708 TCTGGTGACCACGTCACAATATCTG
1 TCTGGTGACCACGCCACAATATCTG
23541733 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.19, C:0.31, G:0.21, T:0.29
Consensus pattern (26 bp):
TCTGGTGACCACGCCACAATATCTGC
Found at i:23548924 original size:15 final size:17
Alignment explanation
Indices: 23548899--23548932 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
23548889 GCTAAAGACT
23548899 AAATTAGAAA-GTGATA
1 AAATTAGAAAGGTGATA
23548915 AAATTA-AAAGGTGATA
1 AAATTAGAAAGGTGATA
23548931 AA
1 AA
23548933 TAATTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.24
Consensus pattern (17 bp):
AAATTAGAAAGGTGATA
Found at i:23555729 original size:43 final size:42
Alignment explanation
Indices: 23555595--23555754 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 42
23555585 GAATTTTTGC
* *
23555595 TATTTGATTTCGTGTAAGACCACGTCTGGGACTTTGGCATCGA
1 TATTTGATTTCGTGTAAGACCACGTCTGGGA-TATGGCATCCA
* * * * *
23555638 T-TTGAGATTTATGTGTAAGACCATGTCTGGGACATCGGCAT-CG
1 TATT-TGATTT-CGTGTAAGACCACGTCTGGGATAT-GGCATCCA
23555681 TATTTGATTTCGTGTAAGACC-CTGTCTGGGATAGTGGCATCCA
1 TATTTGATTTCGTGTAAGACCAC-GTCTGGGATA-TGGCATCCA
* *
23555724 TATTTGATTACATGTAAGACCACGTCTGGGA
1 TATTTGATTTCGTGTAAGACCACGTCTGGGA
23555755 CGTTGGTATT
Statistics
Matches: 95, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
42 26 0.27
43 42 0.44
44 27 0.28
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (42 bp):
TATTTGATTTCGTGTAAGACCACGTCTGGGATATGGCATCCA
Found at i:23561427 original size:15 final size:15
Alignment explanation
Indices: 23561407--23561437 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23561397 AATTATGAAA
23561407 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
23561422 GATATGTTTTGTATT
1 GATATGTTTTGGATT
23561437 G
1 G
23561438 TAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:23565972 original size:41 final size:41
Alignment explanation
Indices: 23565915--23565999 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
23565905 ACATTTGTTA
23565915 ATGAGAAGTAAGCATATGTGCAAGTGATGATATGAGAAAAT
1 ATGAGAAGTAAGCATATGTGCAAGTGATGATATGAGAAAAT
23565956 ATGAGAAGTAAGCATATGTGCAAGTGATGATATGAGAAAAT
1 ATGAGAAGTAAGCATATGTGCAAGTGATGATATGAGAAAAT
23565997 ATG
1 ATG
23566000 CTATATGTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.25
Consensus pattern (41 bp):
ATGAGAAGTAAGCATATGTGCAAGTGATGATATGAGAAAAT
Found at i:23569291 original size:48 final size:50
Alignment explanation
Indices: 23569229--23569362 Score: 163
Period size: 48 Copynumber: 2.8 Consensus size: 50
23569219 GGAGGAAGTA
*
23569229 AGTGGCAGTTTATCTTCAAATTAGTGGTGGCTT-TCCACAAAGTGT-TT-T-
1 AGTGGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCAC--AGTGTATTATC
* * *
23569277 TGTGGCAGTATATCTGCATA-T-GTGGTGGCTTGTCCACAGTGTATTATC
1 AGTGGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCACAGTGTATTATC
*
23569325 AGTGGCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCA
1 AGTGGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCA
23569363 TAAATGGTGG
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
45 5 0.07
46 12 0.17
47 7 0.10
48 33 0.46
50 15 0.21
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (50 bp):
AGTGGCAGTTTATCTGCAAATTAGTGGTGGCTTGTCCACAGTGTATTATC
Found at i:23581029 original size:26 final size:28
Alignment explanation
Indices: 23580978--23581033 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
23580968 GGCTATGGAG
23580978 AAAAGAAGAAGAGAAGGTAGATGGAGAGA
1 AAAAGAAGAAGAGAAGGTAGATGGAG-GA
23581007 AAAAGAA-AAGA-AAGG-AGGA-GGAGGA
1 AAAAGAAGAAGAGAAGGTA-GATGGAGGA
23581032 AA
1 AA
23581034 GATGGTCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
25 4 0.15
26 5 0.19
27 6 0.23
28 4 0.15
29 7 0.27
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.04
Consensus pattern (28 bp):
AAAAGAAGAAGAGAAGGTAGATGGAGGA
Found at i:23588376 original size:40 final size:40
Alignment explanation
Indices: 23588330--23588554 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 40
23588320 CTTGCACAAG
* * *
23588330 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
23588370 GCCTTCGGGACTTAGCCCGGATGTAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
** * * *
23588410 GCCTTCAAGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
23588450 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACT-AGCACAAAT
* * * *
23588490 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
23588531 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
23588555 CATTCGAATA
Statistics
Matches: 155, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 125 0.81
41 29 0.19
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:23588491 original size:80 final size:80
Alignment explanation
Indices: 23588294--23588554 Score: 246
Period size: 80 Copynumber: 3.3 Consensus size: 80
23588284 CTCAAGTAAT
* * * * * * * *
23588294 CTTCGGGATTTAG-CCGGATAT-AACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGG
1 CTTCGGGACTTAGCCCGGATATAAAC-GCTAGCACAAATGCCTTCAGATCTTAGCCCGGATATAG
*
23588356 TCACTAGCATAAATGC
65 TCACTAGCACAAATGC
* * * *
23588372 CTTCGGGACTTAGCCCGGATGTAATCGCTAGCACAAATGCCTTCA-AGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAAACGCTAGCACAAATGCCTTCAGA-TCTTAGCCCGGATATAG
*
23588436 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
23588452 CTTCGGGTCTTAGCCCGGATATAGCAACTC-A-CACGAATGCCTTCGGATCTTAGTCCGGTTATA
1 CTTCGGGACTTAGCCCGGATATA--AACGCTAGCACAAATGCCTTCAGATCTTAGCCCGGATATA
*
23588515 GTCACCTAGCACAAAAGC
64 GTCA-CTAGCACAAATGC
23588533 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
23588555 CATTCGAATA
Statistics
Matches: 148, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
78 12 0.08
79 13 0.09
80 85 0.57
81 35 0.24
82 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAAACGCTAGCACAAATGCCTTCAGATCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:23598925 original size:46 final size:46
Alignment explanation
Indices: 23598875--23599047 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
23598865 TGGTTGAGCA
*
23598875 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
23598921 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
23598968 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
23599014 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
23599048 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:23599031 original size:93 final size:93
Alignment explanation
Indices: 23598872--23599042 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
23598862 GGATGGTTGA
* *
23598872 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
23598937 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
23598965 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
23599030 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
23599043 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23601252 original size:21 final size:21
Alignment explanation
Indices: 23601219--23601261 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
23601209 ATCTTCTCGA
*
23601219 TTTGGTCTGTTTTG-TGCCTTT
1 TTTGCTCTGTTTTGCT-CCTTT
*
23601240 TTTGCTCTTTTTTGCTCCTTT
1 TTTGCTCTGTTTTGCTCCTTT
23601261 T
1 T
23601262 AACTCTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.00, C:0.19, G:0.16, T:0.65
Consensus pattern (21 bp):
TTTGCTCTGTTTTGCTCCTTT
Found at i:23606947 original size:16 final size:18
Alignment explanation
Indices: 23606926--23606958 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
23606916 CCACACAACT
23606926 CCAAAAT-AT-AATAGTA
1 CCAAAATGATCAATAGTA
23606942 CCAAAATGATCAATAGT
1 CCAAAATGATCAATAGT
23606959 GTGATGAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (18 bp):
CCAAAATGATCAATAGTA
Found at i:23607619 original size:38 final size:38
Alignment explanation
Indices: 23607538--23607738 Score: 143
Period size: 38 Copynumber: 4.9 Consensus size: 38
23607528 GAATCTAGTC
* * * *
23607538 ACCAGCACAAA-CCTGCGGGGCTTTAAGCTCAGATATAAT
1 ACCAGCACAAAGCCTGC-GAGATTTAA-CCCGGATATAAT
* *
23607577 ACCAGCACTAGGCCTGCGAGATTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGCGAGATTTAACCCGGATATAAT
23607615 ACCAGCACAAAGCCTGCGAGATTTAACCCGAGATTTAACCCGGATATATT
1 ACCAGCACAAAGCCTGCGAGATTTAACCCG-GA--T-------ATA-A-T
* *
23607665 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGCGAGATTTAACCCGGATATAAT
* * * *
23607703 TCCAGCATATAGCCTGCGAGTCTTTAAGCCCGGATA
1 ACCAGCACAAAGCCTGCGAG-ATTTAA-CCCGGATA
23607739 CACATCAAAT
Statistics
Matches: 131, Mismatches: 16, Indels: 29
0.74 0.09 0.16
Matches are distributed among these distances:
38 54 0.41
39 24 0.18
40 16 0.12
41 1 0.01
47 1 0.01
48 3 0.02
49 3 0.02
50 29 0.22
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
ACCAGCACAAAGCCTGCGAGATTTAACCCGGATATAAT
Found at i:23607648 original size:12 final size:12
Alignment explanation
Indices: 23607631--23607656 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23607621 ACAAAGCCTG
23607631 CGAGATTTAACC
1 CGAGATTTAACC
23607643 CGAGATTTAACC
1 CGAGATTTAACC
23607655 CG
1 CG
23607657 GATATATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (12 bp):
CGAGATTTAACC
Found at i:23607668 original size:50 final size:50
Alignment explanation
Indices: 23607593--23607694 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
23607583 ACTAGGCCTG
23607593 CGAGATTTAACCCGGATATAATACCAGCACAAAGCCTGCGAGATTTAACC
1 CGAGATTTAACCCGGATATAATACCAGCACAAAGCCTGCGAGATTTAACC
* * *
23607643 CGAGATTTAACCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAACC
1 CGAGATTTAACCCGGATATAATACCAGCACAAAGCCTGCGAGATTTAACC
23607693 CG
1 CG
23607695 GATATAATTC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (50 bp):
CGAGATTTAACCCGGATATAATACCAGCACAAAGCCTGCGAGATTTAACC
Found at i:23611743 original size:44 final size:44
Alignment explanation
Indices: 23611683--23611798 Score: 189
Period size: 44 Copynumber: 2.7 Consensus size: 44
23611673 CGATGTCGAT
*
23611683 GTCCCAGACATGGTCTTACATGTAAATCATAAGTCGATGCCAAC
1 GTCCCAGACGTGGTCTTACATGTAAATCATAAGTCGATGCCAAC
* *
23611727 GTCCTAGACGTTGTCTTACATGTAAATCATAAGTCGATGCCAAC
1 GTCCCAGACGTGGTCTTACATGTAAATCATAAGTCGATGCCAAC
*
23611771 GTCCCAGACGTGGTCTTACACG-AAATCA
1 GTCCCAGACGTGGTCTTACATGTAAATCA
23611799 CATATCAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
43 6 0.09
44 60 0.91
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (44 bp):
GTCCCAGACGTGGTCTTACATGTAAATCATAAGTCGATGCCAAC
Found at i:23612103 original size:15 final size:17
Alignment explanation
Indices: 23612082--23612121 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
23612072 GATCTAAACG
*
23612082 CATTCAAATTTGAC-TT
1 CATTCAAATTTCACATT
23612098 -ATTC-AATTTCACATT
1 CATTCAAATTTCACATT
23612113 CATTCAAAT
1 CATTCAAAT
23612122 CAATCCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
14 7 0.35
15 6 0.30
16 4 0.20
17 3 0.15
ACGTcount: A:0.35, C:0.20, G:0.03, T:0.42
Consensus pattern (17 bp):
CATTCAAATTTCACATT
Found at i:23619945 original size:28 final size:28
Alignment explanation
Indices: 23619895--23619976 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
23619885 GCAATCAAAT
* *
23619895 ATGGCACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
23619923 ATGGCACTTAATGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
23619951 ATGACACTTAGTGTGCAAAATATTGA
1 ATGGCACTTAGTGTGCGAAATATTGA
23619977 TTGATTAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:23620093 original size:39 final size:39
Alignment explanation
Indices: 23620049--23620271 Score: 313
Period size: 39 Copynumber: 5.7 Consensus size: 39
23620039 GACTTTATAA
*
23620049 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
23620088 TGGTGTTATATCTGGGCTAAGTCCTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
23620127 TAGTGTTATATCCGGGCTAAGTCCCAAAGGCATTCGTAC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
23620166 TGGTGTTATATCCGGGCTAATTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
23620205 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
* *
23620244 TGGTATTATATCCGAGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
23620272 CATGCTTTGT
Statistics
Matches: 165, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 144 0.87
40 21 0.13
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:23629639 original size:43 final size:44
Alignment explanation
Indices: 23629592--23629714 Score: 130
Period size: 42 Copynumber: 2.9 Consensus size: 44
23629582 CCCAGACCTA
23629592 GTCTTACATGTAATCAAATATCGATGCC-ACTATCCCAAACAGG
1 GTCTTACATGTAATCAAATATCGATGCCAACTATCCCAAACAGG
* * * * * *
23629635 GTCTTACACGAAATCAAATA-CGATGCCGA-TGTCCCAGACATG
1 GTCTTACATGTAATCAAATATCGATGCCAACTATCCCAAACAGG
*
23629677 GTCTTACATGTAAATCTCAA-ATCGATGCCAAC-ATCCCA
1 GTCTTACATGT-AATC-AAATATCGATGCCAACTATCCCA
23629715 GATGTGGTCT
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
42 26 0.40
43 24 0.37
44 15 0.23
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (44 bp):
GTCTTACATGTAATCAAATATCGATGCCAACTATCCCAAACAGG
Found at i:23629680 original size:42 final size:41
Alignment explanation
Indices: 23629581--23629731 Score: 142
Period size: 43 Copynumber: 3.5 Consensus size: 41
23629571 AATGCCAACG
* * *
23629581 TCCCAGACCTAGTCTTACATGTAATCAAATATCGATGCCACTA
1 TCCCAGACATGGTCTTACATGAAATCAAATA-CGATGCCA-TA
* * * *
23629624 TCCCAAACAGGGTCTTACACGAAATCAAATACGATGCCGATG
1 TCCCAGACATGGTCTTACATGAAATCAAATACGATGCC-ATA
*
23629666 TCCCAGACATGGTCTTACATGTAAATCTCAAAT-CGATGCCAACA
1 TCCCAGACATGGTCTTACATG-AAA--TCAAATACGATGCC-ATA
**
23629710 TCCCAGATGTGGTCTTACATGA
1 TCCCAGACATGGTCTTACATGA
23629732 TAACATAACT
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
42 26 0.29
43 30 0.34
44 27 0.30
45 6 0.07
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (41 bp):
TCCCAGACATGGTCTTACATGAAATCAAATACGATGCCATA
Found at i:23635401 original size:47 final size:47
Alignment explanation
Indices: 23635348--23635437 Score: 180
Period size: 47 Copynumber: 1.9 Consensus size: 47
23635338 TTTCATTAAG
23635348 GGTAAAATTGGTATTTGGTTAATATGATAATTAAAATAAAACATGTC
1 GGTAAAATTGGTATTTGGTTAATATGATAATTAAAATAAAACATGTC
23635395 GGTAAAATTGGTATTTGGTTAATATGATAATTAAAATAAAACA
1 GGTAAAATTGGTATTTGGTTAATATGATAATTAAAATAAAACA
23635438 AAGGCATGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (47 bp):
GGTAAAATTGGTATTTGGTTAATATGATAATTAAAATAAAACATGTC
Found at i:23636363 original size:44 final size:42
Alignment explanation
Indices: 23636279--23636430 Score: 132
Period size: 42 Copynumber: 3.6 Consensus size: 42
23636269 ATGTCCTCCT
* * * **
23636279 ATATGTGATTT-CGTGTAAGACCACGTTTGGGATGTTGGCATC
1 ATATTTGATTTACATGTAAGACCATGTTTGGGA-CATGGCATC
*
23636321 AT-TTTGAGATTTACATGTAAGACCATGTCTGGGACATCGGCATC
1 ATATTT--GATTTACATGTAAGACCATGTTTGGGACAT-GGCATC
* * *
23636365 GTATTTGATTT-CATGTCAGACCCTGTTTGGGACAGTGGCATC
1 ATATTTGATTTACATGTAAGACCATGTTTGGGACA-TGGCATC
*
23636407 GATACTTGA-TTACATGTAAGACCA
1 -ATATTTGATTTACATGTAAGACCA
23636431 CATCTAAGAC
Statistics
Matches: 88, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
41 2 0.02
42 30 0.34
43 28 0.32
44 25 0.28
45 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
ATATTTGATTTACATGTAAGACCATGTTTGGGACATGGCATC
Found at i:23641597 original size:60 final size:61
Alignment explanation
Indices: 23641500--23641619 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 61
23641490 GTTCCGTTGT
* * *
23641500 TGATAATGTGAGTTTTATGAAGTTATATGATAGTAAATGAAATATATGTGTTAGATTACTG
1 TGATAATGTGAGTTTTATGAAGTTAGATGATAATAAATGAAAGATATGTGTTAGATTACTG
23641561 TGATAATGTGAG-TTTATGAAGTTAGATGATAATAAATGAAAGATATGTGTTAGATTACT
1 TGATAATGTGAGTTTTATGAAGTTAGATGATAATAAATGAAAGATATGTGTTAGATTACT
23641620 ATGTTTTGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 44 0.79
61 12 0.21
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.39
Consensus pattern (61 bp):
TGATAATGTGAGTTTTATGAAGTTAGATGATAATAAATGAAAGATATGTGTTAGATTACTG
Found at i:23642337 original size:43 final size:42
Alignment explanation
Indices: 23642280--23642360 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
23642270 TGGGACATCA
* * * *
23642280 GCATCATATTTGATTTCATGTAAGGCC-CTGTCTGGGACAGTG
1 GCATCATACTTGATTACAGGTAAGACCAC-GTCTGGGACAGTG
23642322 GCATCGATACTTGATTACAGGTAAGACCACGTCTGGGAC
1 GCATC-ATACTTGATTACAGGTAAGACCACGTCTGGGAC
23642361 TTTGGCATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 5 0.15
43 27 0.82
44 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (42 bp):
GCATCATACTTGATTACAGGTAAGACCACGTCTGGGACAGTG
Found at i:23643842 original size:100 final size:100
Alignment explanation
Indices: 23643664--23643843 Score: 324
Period size: 100 Copynumber: 1.8 Consensus size: 100
23643654 TGTTGATGTT
*
23643664 TGACTATGATGCTATGATGTTTGTGAAATGAATGTGAAATGTTCTGATATGTCCGGTAATGCCTT
1 TGACTATGATGCTATGATGTTTGTGAAATGAATGTGAAATGTTCTGACATGTCCGGTAATGCCTT
*
23643729 TTAACCCCGGTCTAGTGACAGATATGGGTTTGGGG
66 TTAACCCCAGTCTAGTGACAGATATGGGTTTGGGG
*
23643764 TGACTATGATGCTATGATGTTTGTGAAATGAATGTGAAATGTTCTGACATGTTCGGTAATGCCTT
1 TGACTATGATGCTATGATGTTTGTGAAATGAATGTGAAATGTTCTGACATGTCCGGTAATGCCTT
*
23643829 TTAATCCCAGTCTAG
66 TTAACCCCAGTCTAG
23643844 CGATGGATAC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 76 1.00
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (100 bp):
TGACTATGATGCTATGATGTTTGTGAAATGAATGTGAAATGTTCTGACATGTCCGGTAATGCCTT
TTAACCCCAGTCTAGTGACAGATATGGGTTTGGGG
Found at i:23655243 original size:23 final size:23
Alignment explanation
Indices: 23655200--23655244 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23655190 TTTTTCTTTT
* *
23655200 TATTTTCTTTTTTTTTGCATTTC
1 TATTTTCTTTATTTATGCATTTC
23655223 TATTTGTCTTTATTTAT-CATTT
1 TATTT-TCTTTATTTATGCATTT
23655245 TCTTCAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.71
Consensus pattern (23 bp):
TATTTTCTTTATTTATGCATTTC
Found at i:23664357 original size:49 final size:49
Alignment explanation
Indices: 23664231--23664369 Score: 224
Period size: 49 Copynumber: 2.8 Consensus size: 49
23664221 TGTGAGGTCA
* * ***
23664231 CATGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATAATTAGTCG
1 CATGTGTAGTACGAAGTGCAGGCTACTATGCGTACCGGATAATTAGTCG
23664280 CATGTGTAGTACGAAGTGCAGGCTACTATGCGTACCGGATAATTAGTCG
1 CATGTGTAGTACGAAGTGCAGGCTACTATGCGTACCGGATAATTAGTCG
*
23664329 CATGTGTAGTACGAAGTGCAGGCTACTATGCGTACCAGATA
1 CATGTGTAGTACGAAGTGCAGGCTACTATGCGTACCGGATA
23664370 GCTTTGGCTA
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 84 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (49 bp):
CATGTGTAGTACGAAGTGCAGGCTACTATGCGTACCGGATAATTAGTCG
Found at i:23680490 original size:27 final size:27
Alignment explanation
Indices: 23680459--23680636 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23680449 TAAATTGTAC
23680459 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
23680486 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23680512 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
23680540 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
23680568 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23680595 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
23680622 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23680637 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:23680573 original size:82 final size:81
Alignment explanation
Indices: 23680460--23680615 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23680450 AAATTGTACA
* *
23680460 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
23680524 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23680541 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
23680606 TGCGAGTTGA
65 TGCGAATTGA
23680616 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23680627 original size:82 final size:81
Alignment explanation
Indices: 23680456--23680636 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
23680446 GATTAAATTG
* *
23680456 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
23680521 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
23680537 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
23680601 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
23680619 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
23680637 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:23683822 original size:20 final size:20
Alignment explanation
Indices: 23683797--23683893 Score: 72
Period size: 20 Copynumber: 4.8 Consensus size: 20
23683787 TTGTAGGGGA
23683797 TTTGCACTTCGGTGCCTTTG
1 TTTGCACTTCGGTGCCTTTG
* *
23683817 TTTGCACTTTGGTGCCCTTG
1 TTTGCACTTCGGTGCCTTTG
* * ** *
23683837 TTTTCACCTCAATGCCCTTG
1 TTTGCACTTCGGTGCCTTTG
* * *
23683857 ATTGCACATT-TGTACCTTT-
1 TTTGCAC-TTCGGTGCCTTTG
23683876 TTCTGCACTTCGGTGCCT
1 TT-TGCACTTCGGTGCCT
23683894 CTATTATGCA
Statistics
Matches: 57, Mismatches: 17, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
19 3 0.05
20 53 0.93
21 1 0.02
ACGTcount: A:0.10, C:0.28, G:0.19, T:0.43
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTTTG
Found at i:23689872 original size:40 final size:38
Alignment explanation
Indices: 23689783--23689873 Score: 103
Period size: 39 Copynumber: 2.3 Consensus size: 38
23689773 AAAGCATATA
*
23689783 CAGTCTGGGCCTAAGCCCAATTCAGTAACAGTTCAGTTT
1 CAGT-TGGGCCTAAGCCCAATTCAGTAACAGTTCAGTAT
* *
23689822 CAGTTAGGGCCTTAGCCC-ATTACAGTATCAGTATCAGTAT
1 CAGTT-GGGCCTAAGCCCAATT-CAGTAACAGT-TCAGTAT
23689862 CAGTGTGGGCCT
1 CAGT-TGGGCCT
23689874 CAGTCCATCC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
38 4 0.09
39 24 0.53
40 16 0.36
41 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (38 bp):
CAGTTGGGCCTAAGCCCAATTCAGTAACAGTTCAGTAT
Found at i:23689888 original size:40 final size:39
Alignment explanation
Indices: 23689805--23689891 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
23689795 AAGCCCAATT
* * *
23689805 CAGTAACAGTTCAGTTTCAGTTAGGGCCTTAGCCCATTA
1 CAGTAACAGTTCAGTATCAGTTAGGGCCTCAGCCCATCA
* * *
23689844 CAGTATCAGTATCAGTATCAGTGT-GGGCCTCAGTCCATCC
1 CAGTAACAGT-TCAGTATCAGT-TAGGGCCTCAGCCCATCA
23689884 CAGTAACA
1 CAGTAACA
23689892 ATACAGTACA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
39 9 0.23
40 29 0.74
41 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (39 bp):
CAGTAACAGTTCAGTATCAGTTAGGGCCTCAGCCCATCA
Found at i:23700736 original size:23 final size:23
Alignment explanation
Indices: 23700692--23700736 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
23700682 TTGTCATACC
* * *
23700692 CATGCCATTACTATGCTCATTCT
1 CATGCCATTACCATACTAATTCT
*
23700715 CATGCTATTACCATACTAATTC
1 CATGCCATTACCATACTAATTC
23700737 CACGAAATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.29, G:0.07, T:0.38
Consensus pattern (23 bp):
CATGCCATTACCATACTAATTCT
Found at i:23706617 original size:23 final size:21
Alignment explanation
Indices: 23706566--23706641 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 21
23706556 CGGACTCACC
*
23706566 TTAGCTCATATGAGCTTACCGT
1 TTAGCTCAT-TGAGCTTACCAT
*
23706588 ATCAGCTCATTGGAGCTTACCAAT
1 -TTAGCTCATT-GAGCTTACC-AT
* *
23706612 TTAGCTCGTAAGAGCTTACCAT
1 TTAGCTCAT-TGAGCTTACCAT
23706634 TTCAGCTC
1 TT-AGCTC
23706642 TTCGGGGCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
22 5 0.11
23 38 0.86
24 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (21 bp):
TTAGCTCATTGAGCTTACCAT
Found at i:23706654 original size:23 final size:23
Alignment explanation
Indices: 23706589--23706699 Score: 75
Period size: 23 Copynumber: 4.9 Consensus size: 23
23706579 GCTTACCGTA
*
23706589 TCAGCTCATT-GGAGCTTACCAATT
1 TCAGCTC-TTCGGAGCCTACC-ATT
* ** *
23706613 T-AGCTCGTAAGAGCTTACCATT
1 TCAGCTCTTCGGAGCCTACCATT
*
23706635 TCAGCTCTTCGGGGCCTACCATT
1 TCAGCTCTTCGGAGCCTACCATT
* * * *
23706658 TCAACTCTACGGAGCTTACC-GT
1 TCAGCTCTTCGGAGCCTACCATT
* *
23706680 TCAGTTCTTCGGAGCTTACC
1 TCAGCTCTTCGGAGCCTACC
23706700 GATCATGGCT
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
22 23 0.33
23 46 0.66
24 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.32
Consensus pattern (23 bp):
TCAGCTCTTCGGAGCCTACCATT
Found at i:23706655 original size:46 final size:46
Alignment explanation
Indices: 23706566--23706655 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
23706556 CGGACTCACC
* * *
23706566 TTAGCTCATATGAGCTTACCGTATCAGCTCATTGGAGCTTACCAAT
1 TTAGCTCATAAGAGCTTACCATATCAGCTCATTGGAGCCTACCAAT
* * *
23706612 TTAGCTCGTAAGAGCTTACCATTTCAGCTC-TTCGGGGCCTACCA
1 TTAGCTCATAAGAGCTTACCATATCAGCTCATT-GGAGCCTACCA
23706656 TTTCAACTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
45 2 0.05
46 35 0.95
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (46 bp):
TTAGCTCATAAGAGCTTACCATATCAGCTCATTGGAGCCTACCAAT
Found at i:23709927 original size:20 final size:20
Alignment explanation
Indices: 23709902--23709973 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
23709892 CAAAATTTAA
23709902 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAATTTTTA-AAACT
* *
23709922 ATTTTG-AATTTTAAAAATT
1 ATTTTGAAATTTTTAAAACT
* *
23709941 ATTTTGAAAATTTGAAAACT
1 ATTTTGAAATTTTTAAAACT
23709961 ATTTT-AAATTTTT
1 ATTTTGAAATTTTT
23709974 TTGTAACTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 3 0.07
19 20 0.45
20 21 0.48
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAACT
Found at i:23713923 original size:14 final size:13
Alignment explanation
Indices: 23713879--23713927 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 13
23713869 TTAGAAATAA
*
23713879 TAAATTTATAAACC
1 TAAATTT-TAAAAC
23713893 ATAAATTTTAAAAC
1 -TAAATTTTAAAAC
23713907 TAAATTTTAAAATC
1 TAAATTTTAAAA-C
23713921 TAAATTT
1 TAAATTT
23713928 CAATTCCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
13 12 0.38
14 13 0.41
15 7 0.22
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAATTTTAAAAC
Found at i:23721053 original size:10 final size:10
Alignment explanation
Indices: 23721038--23721062 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23721028 AGGTACATCG
23721038 ACTTCTTTCA
1 ACTTCTTTCA
23721048 ACTTCTTTCA
1 ACTTCTTTCA
23721058 ACTTC
1 ACTTC
23721063 AACTGATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (10 bp):
ACTTCTTTCA
Found at i:23725820 original size:30 final size:30
Alignment explanation
Indices: 23725762--23725820 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
23725752 ATTTTCAAGC
* **
23725762 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
*
23725792 CTAGGGGCAAAATGGTTATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
23725821 AAGTGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:23726305 original size:46 final size:46
Alignment explanation
Indices: 23726159--23726334 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
23726149 TCACTTGTGT
* * * * **
23726159 GAGCTAGTGTAAGCCATGTCTAGGACATGCATCGACCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACATGA
* * * * *
23726205 GAGCCAGTGTAAGACCATGTTTGGGACATAGCATCGGCATTAAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAACATGA
*
23726253 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACAT-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-A-ACATGA
23726300 -AGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
23726335 TACGAGATGT
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
46 55 0.50
47 27 0.25
48 27 0.25
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACATGA
Found at i:23733459 original size:30 final size:30
Alignment explanation
Indices: 23733425--23733483 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
23733415 ATTTTCAAGG
* *
23733425 CTAGGGGTAAAATGGTCATTTTATCAAAGT
1 CTAGGGGCAAAATGGTCATTTTACCAAAGT
*
23733455 CTAGGGGCAAAATGGTTATTTTACCAAAG
1 CTAGGGGCAAAATGGTCATTTTACCAAAG
23733484 AAGTGAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTACCAAAGT
Found at i:23733968 original size:46 final size:47
Alignment explanation
Indices: 23733872--23733973 Score: 120
Period size: 46 Copynumber: 2.2 Consensus size: 47
23733862 TATGAGAGCC
* * *
23733872 AGTGTAAGAATATGTCTGGGACATGGTATCGGCATTGAGACGAGTTCT
1 AGTGTAAGAACATGTCTGGGACATGGCATCGGCATCGAGACGAG-TCT
*
23733920 AGTGTAA-AACATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAG-CT
1 AGTGTAAGAACATGTCTGGGACATGGCATCGGCATCGAGACG--AGTCT
23733966 AGTGTAAG
1 AGTGTAAG
23733974 TGTAACATCC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
46 23 0.49
47 15 0.32
48 9 0.19
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGAACATGTCTGGGACATGGCATCGGCATCGAGACGAGTCT
Found at i:23745752 original size:30 final size:30
Alignment explanation
Indices: 23745718--23745775 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
23745708 TCCTTAACTC
23745718 AAACTTTGGCAAAATTACAATTTTGCCCTT
1 AAACTTTGGCAAAATTACAATTTTGCCCTT
* * * *
23745748 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTGGCAAAATTACAATTTTGCCC
23745776 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCTT
Found at i:23748226 original size:118 final size:118
Alignment explanation
Indices: 23748014--23748377 Score: 514
Period size: 118 Copynumber: 3.1 Consensus size: 118
23748004 GACTTAAGGT
*
23748014 CCGCAGGCTTTGTACTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
1 CCGCAGGCTTCGTACTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
* *
23748079 CCGGACTTAAGGTCCGCAGGCTTCATGCTGGAATTGTATCCGGGCTTAAAGAC
66 CCGAACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
* * * *
23748132 CCGCAGGCTTCGTATTGGTACTATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
1 CCGCAGGCTTCGTACTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
*
23748197 CCGAACTTAAGGTCCGCAGGCTCCGTGCTGGAATTGTATCCGGGCTTAAAGAC
66 CCGAACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
* * * * * * *
23748250 CCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCACAGGCTTCGTACTGGTACTATAT
1 CCGCAGGCTTCGTACTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
* * * * * *
23748315 CC-AGACTTAAGGTCCGCAGGCTTCGTACTGGTACTATAACCGGGCTTAAAGTC
66 CCGA-ACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
*
23748368 CCGTAGGCTT
1 CCGCAGGCTT
23748378 TGTGTTGGTG
Statistics
Matches: 218, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
117 1 0.00
118 217 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.27
Consensus pattern (118 bp):
CCGCAGGCTTCGTACTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTAT
CCGAACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
Found at i:23748363 original size:39 final size:39
Alignment explanation
Indices: 23747998--23748345 Score: 462
Period size: 39 Copynumber: 8.9 Consensus size: 39
23747988 ATTTGATGTA
* *
23747998 TATCCGGACTTAAGGTCCGCAGGCTTTGTACTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
23748037 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
*
23748076 TATCCGGACTTAAGGTCCGCAGGCTTCATGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* ** ** * * *
23748115 TATCCGGGCTTAAAGACCCGCAGGCTTCGTATTGGTACTA
1 TATCCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTG
23748155 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* *
23748194 TATCCGAACTTAAGGTCCGCAGGCTCCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* **
23748233 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTG
* * * * * *
23748273 TATCCGGACTTAAGATCCACAGGCTTCGTACTGGTACTA
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* *
23748312 TATCCAGACTTAAGGTCCGCAGGCTTCGTACTGG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGG
23748346 TACTATAACC
Statistics
Matches: 270, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
39 205 0.76
40 65 0.24
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
Found at i:23748363 original size:157 final size:157
Alignment explanation
Indices: 23747996--23748345 Score: 567
Period size: 157 Copynumber: 2.2 Consensus size: 157
23747986 ATATTTGATG
*
23747996 TATATCCGGACTTAAGGTCCGCAGGCTTTGTACTGGAATTGTATCCGGACTTAAGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTACTGGAATTGTATCCGGACTTAAGGTCCGCAGGC
* ** *
23748061 TTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCATGCTGGAATTGTATCCGGGCTT
66 TCCGTGCTGGAATTGTATCCGGACTTAAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGACTT
* *
23748126 AAAGACCCGCAGGCTTCGTATTGGTAC
131 AAAGACCCACAGGCTTCGTACTGGTAC
* *
23748153 TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGAACTTAAGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTACTGGAATTGTATCCGGACTTAAGGTCCGCAGGC
* *
23748218 TCCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGACT
66 TCCGTGCTGGAATTGTATCCGGACTT-AAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGACT
*
23748283 T-AAGATCCACAGGCTTCGTACTGGTAC
130 TAAAGACCCACAGGCTTCGTACTGGTAC
*
23748310 TATATCCAGACTTAAGGTCCGCAGGCTTCGTACTGG
1 TATATCCGGACTTAAGGTCCGCAGGCTTCGTACTGG
23748346 TACTATAACC
Statistics
Matches: 178, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
157 143 0.80
158 35 0.20
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (157 bp):
TATATCCGGACTTAAGGTCCGCAGGCTTCGTACTGGAATTGTATCCGGACTTAAGGTCCGCAGGC
TCCGTGCTGGAATTGTATCCGGACTTAAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGACTT
AAAGACCCACAGGCTTCGTACTGGTAC
Found at i:23754077 original size:14 final size:14
Alignment explanation
Indices: 23754058--23754085 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23754048 TTTTATTATG
23754058 AGATATTTGAATTC
1 AGATATTTGAATTC
23754072 AGATATTTGAATTC
1 AGATATTTGAATTC
23754086 TTATAATACA
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:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
AGATATTTGAATTC
Found at i:23761074 original size:15 final size:15
Alignment explanation
Indices: 23761054--23761097 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
23761044 ATTTTGTAAA
*
23761054 TTGGATTTCCTTATC
1 TTGGATTTCTTTATC
23761069 TTGGATTTCTTTATC
1 TTGGATTTCTTTATC
23761084 TTGGATTTCTTTAT
1 TTGGATTTCTTTAT
23761098 TCTGGGCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:23770475 original size:40 final size:40
Alignment explanation
Indices: 23770431--23770658 Score: 343
Period size: 40 Copynumber: 5.7 Consensus size: 40
23770421 GCTACTTGCT
*
23770431 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
23770471 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
23770511 CAAATGCCTTCGGGAATTAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
23770551 CAAATACCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* ** * *
23770591 CAAATTCCTTCGGG-CTTAGCCC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
23770630 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
23770659 CATCCGAATA
Statistics
Matches: 169, Mismatches: 16, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
38 2 0.01
39 31 0.18
40 134 0.79
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:23772770 original size:39 final size:40
Alignment explanation
Indices: 23772725--23772949 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
23772715 GCTCCTCGTT
* * * *
23772725 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
23772765 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
23772804 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
23772844 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
23772884 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
23772925 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
23772950 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:23772818 original size:40 final size:38
Alignment explanation
Indices: 23772692--23772949 Score: 200
Period size: 40 Copynumber: 6.5 Consensus size: 38
23772682 AAATCACGTA
* * *
23772692 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
23772731 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
*
23772770 CCTTCGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
23772810 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
* *
23772850 CCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * *
23772890 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
23772930 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
23772950 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 50 0.28
40 116 0.64
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:23772958 original size:41 final size:41
Alignment explanation
Indices: 23772881--23772958 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
23772871 CTTGTATCTC
* * *
23772881 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
23772922 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
23772959 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:23780362 original size:39 final size:40
Alignment explanation
Indices: 23780317--23780541 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
23780307 GCTCCTCGTT
* * * *
23780317 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
23780357 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
23780396 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
23780436 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
23780476 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
23780517 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
23780542 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:23780410 original size:40 final size:38
Alignment explanation
Indices: 23780284--23780541 Score: 200
Period size: 40 Copynumber: 6.5 Consensus size: 38
23780274 AAATCACATA
* * *
23780284 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
23780323 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
*
23780362 CCTTCGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
23780402 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
* *
23780442 CCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * *
23780482 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
23780522 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
23780542 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 50 0.28
40 116 0.64
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:23780550 original size:41 final size:41
Alignment explanation
Indices: 23780473--23780550 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
23780463 CTTGTATCTC
* * *
23780473 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
23780514 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
23780551 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:23789332 original size:40 final size:40
Alignment explanation
Indices: 23789288--23789515 Score: 352
Period size: 40 Copynumber: 5.7 Consensus size: 40
23789278 GCTACTTGCT
** *
23789288 CAAATGCCTTCGGGACTTAGCCTAGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
23789328 CAAATGCCTTTGGGACTTAGCCCGATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
23789368 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
23789408 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
23789448 CAAATGCCTTCGGG-CTTAGCCTGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
23789487 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
23789516 CATCCGAATA
Statistics
Matches: 172, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.19
40 137 0.80
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:23797937 original size:6 final size:6
Alignment explanation
Indices: 23797926--23797953 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
23797916 GTAAACCATA
23797926 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
23797954 AAAGTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:23799665 original size:14 final size:14
Alignment explanation
Indices: 23799633--23799675 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
23799623 AAAATGTACT
23799633 ATATAATTAAA-TA
1 ATATAATTAAATTA
23799646 ATATAAATTAAATTA
1 ATAT-AATTAAATTA
*
23799661 A-ATAATTTAATTA
1 ATATAATTAAATTA
23799674 AT
1 AT
23799676 TGTTTACCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.54
14 9 0.35
15 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATAATTAAATTA
Found at i:23804758 original size:27 final size:26
Alignment explanation
Indices: 23804710--23804761 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
23804700 GCGACGCTGC
*
23804710 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
23804736 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
23804762 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:23812122 original size:27 final size:26
Alignment explanation
Indices: 23812074--23812125 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
23812064 GCGGCACTGC
*
23812074 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
23812100 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
23812126 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:23825621 original size:72 final size:72
Alignment explanation
Indices: 23825527--23825660 Score: 187
Period size: 72 Copynumber: 1.9 Consensus size: 72
23825517 TGTTAACCCA
* ** * *
23825527 CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCATAC
1 CACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCATAC
23825592 AAATCCG
66 AAATCCG
* * **
23825599 CACACATAGTGCCATACAAATTCACACACATAGTGCCATTCAAATTCGTGCACATAGTGCCA
1 CACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
23825661 AAGTCATTTC
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 53 1.00
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (72 bp):
CACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCATAC
AAATCCG
Found at i:23825644 original size:24 final size:24
Alignment explanation
Indices: 23825496--23825660 Score: 138
Period size: 24 Copynumber: 6.9 Consensus size: 24
23825486 TCAAGCAAGG
*
23825496 AAATTCACACCCATAGTGCCATGT-
1 AAATTCACACACATAGTGCCAT-TC
* **
23825520 TAACCCACACACATAGTGCC-TT-
1 AAATTCACACACATAGTGCCATTC
* * *
23825542 AGTAATTCACATACATATTGACATTC
1 A--AATTCACACACATAGTGCCATTC
* * *
23825568 AAATCCGCACACATAGTGCCATAC
1 AAATTCACACACATAGTGCCATTC
* * *
23825592 AAATCCGCACACATAGTGCCATAC
1 AAATTCACACACATAGTGCCATTC
23825616 AAATTCACACACATAGTGCCATTC
1 AAATTCACACACATAGTGCCATTC
***
23825640 AAATTCGTGCACATAGTGCCA
1 AAATTCACACACATAGTGCCA
23825661 AAGTCATTTC
Statistics
Matches: 115, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 110 0.96
25 2 0.02
26 1 0.01
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.24
Consensus pattern (24 bp):
AAATTCACACACATAGTGCCATTC
Found at i:23826701 original size:19 final size:19
Alignment explanation
Indices: 23826677--23826725 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
23826667 ACTCTCTCTC
*
23826677 TCTTTTCTTATTTTATTCA
1 TCTTTTCTTATTTAATTCA
*
23826696 TCTTTTCCTA-TTAATTCA
1 TCTTTTCTTATTTAATTCA
23826714 T-TTTT-TTATTTA
1 TCTTTTCTTATTTA
23826726 GATTATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 2 0.08
17 7 0.27
18 8 0.31
19 9 0.35
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTTTCTTATTTAATTCA
Found at i:23835986 original size:40 final size:39
Alignment explanation
Indices: 23835922--23836132 Score: 246
Period size: 40 Copynumber: 5.3 Consensus size: 39
23835912 TCTTCGGAAT
* *
23835922 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
23835961 TTAGCCCGGATATATCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* **
23836000 TTAGCCCGGATAAAATCACTAGCACACTTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
23836040 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
23836080 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
23836120 TTAGCCCGGATAT
1 TTAGCCCGGATAT
23836133 CATTCAAATG
Statistics
Matches: 144, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
39 40 0.28
40 101 0.70
41 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:23836048 original size:79 final size:80
Alignment explanation
Indices: 23835922--23836132 Score: 327
Period size: 79 Copynumber: 2.7 Consensus size: 80
23835912 TCTTCGGAAT
* * * * *
23835922 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
23835986 AAATGCCTTC-GGTC
66 AAATGCCTTCGGGTC
* * *
23836000 TTAGCCCGGATAAAATCACTAGCACACTTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
23836065 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
23836080 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
23836133 CATTCAAATG
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
78 4 0.03
79 62 0.52
80 53 0.45
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:23843169 original size:40 final size:39
Alignment explanation
Indices: 23843105--23843315 Score: 255
Period size: 40 Copynumber: 5.3 Consensus size: 39
23843095 TCTTCGGAAT
* *
23843105 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
23843144 TTAGCCCGGATATATCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
23843183 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
23843223 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
23843263 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
23843303 TTAGCCCGGATAT
1 TTAGCCCGGATAT
23843316 CATTCAAATG
Statistics
Matches: 146, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
39 41 0.28
40 102 0.70
41 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:23843231 original size:79 final size:80
Alignment explanation
Indices: 23843105--23843315 Score: 336
Period size: 79 Copynumber: 2.7 Consensus size: 80
23843095 TCTTCGGAAT
* * * * *
23843105 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
23843169 AAATGCCTTC-GGTC
66 AAATGCCTTCGGGTC
* *
23843183 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
23843248 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
23843263 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
23843316 CATTCAAATG
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
78 4 0.03
79 63 0.52
80 54 0.45
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:23845138 original size:40 final size:40
Alignment explanation
Indices: 23845074--23845323 Score: 292
Period size: 40 Copynumber: 6.3 Consensus size: 40
23845064 TCTTCGGAAT
* * *
23845074 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
23845113 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
** *
23845152 TTAGCCCGGATAAAATCACTAGCACACTTGCCTTCGGGCC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
23845192 TTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
23845232 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* * *
23845272 TTAGCCTGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
23845312 TTAGCCCGGATA
1 TTAGCCCGGATA
23845324 TCATTCAAAG
Statistics
Matches: 178, Mismatches: 27, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
39 39 0.22
40 136 0.76
41 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:23856712 original size:13 final size:13
Alignment explanation
Indices: 23856694--23856718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23856684 TGTGGGTGCA
23856694 CACGGTCGTGTCG
1 CACGGTCGTGTCG
23856707 CACGGTCGTGTC
1 CACGGTCGTGTC
23856719 TAGCGTTGTT
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:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CACGGTCGTGTCG
Found at i:23859811 original size:19 final size:19
Alignment explanation
Indices: 23859789--23859825 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23859779 CTGACAAGAG
23859789 AAATAAAAAGTAAATTAAT
1 AAATAAAAAGTAAATTAAT
* *
23859808 AAATAATAATTAAATTAA
1 AAATAAAAAGTAAATTAA
23859826 ATTAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (19 bp):
AAATAAAAAGTAAATTAAT
Found at i:23865188 original size:50 final size:50
Alignment explanation
Indices: 23865110--23865304 Score: 266
Period size: 50 Copynumber: 3.9 Consensus size: 50
23865100 TGATGCTAGG
* *
23865110 GAGATATGAAAGCTAGTGTAAGAACATGTCTGGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
*
23865160 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC-C
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC
* * * * * *
23865210 GATAGATGAGAGCCATTGTAAGACCATGTCTGGGATATGGCATCAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * *
23865260 GATATACGAGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
23865305 ACTTTGATGG
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 124 0.98
51 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:23878541 original size:25 final size:26
Alignment explanation
Indices: 23878513--23878566 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
23878503 TTTATCTTTG
*
23878513 TTTATCTTC-TTTAAGTACT-TTTTAT
1 TTTATCTTCTTTTAA-TACTATTTCAT
23878538 TTTATCTTCTTTTAATACTATTTCAT
1 TTTATCTTCTTTTAATACTATTTCAT
23878564 TTT
1 TTT
23878567 TAGGTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.20, C:0.13, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTATCTTCTTTTAATACTATTTCAT
Found at i:23882726 original size:14 final size:15
Alignment explanation
Indices: 23882701--23882729 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23882691 ATATTTATAA
23882701 CTCCGTACAGAATGG
1 CTCCGTACAGAATGG
23882716 CTCCG-ACAGAATGG
1 CTCCGTACAGAATGG
23882730 AAAGAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (15 bp):
CTCCGTACAGAATGG
Found at i:23884378 original size:27 final size:27
Alignment explanation
Indices: 23884348--23884525 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
23884338 ATATTGAGCC
* *
23884348 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
23884375 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
23884402 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
23884430 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
23884457 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
23884484 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
23884511 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23884526 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:23884460 original size:55 final size:54
Alignment explanation
Indices: 23884348--23884525 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
23884338 ATATTGAGCC
* * *
23884348 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
23884402 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
23884457 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
23884511 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23884526 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:23892384 original size:27 final size:27
Alignment explanation
Indices: 23892354--23892531 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
23892344 ATATTGAGCC
* *
23892354 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
23892381 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
23892408 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
23892436 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
23892463 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
23892490 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
23892517 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23892532 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:23892466 original size:55 final size:54
Alignment explanation
Indices: 23892354--23892531 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
23892344 ATATTGAGCC
* * *
23892354 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
23892408 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
23892463 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
23892517 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
23892532 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:23895538 original size:20 final size:20
Alignment explanation
Indices: 23895513--23895552 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
23895503 TTAGCTTGTC
*
23895513 AACAAGTCAAAGTCAAACAT
1 AACAAGTCAAAGCCAAACAT
23895533 AACAAGTCAAAGCCAAACAT
1 AACAAGTCAAAGCCAAACAT
23895553 CAAATGCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.23, G:0.10, T:0.12
Consensus pattern (20 bp):
AACAAGTCAAAGCCAAACAT
Found at i:23897043 original size:17 final size:19
Alignment explanation
Indices: 23897021--23897055 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
23897011 TTTAACTTAA
23897021 GGTTAA-AAAGG-TAATTC
1 GGTTAATAAAGGTTAATTC
23897038 GGTTAATAAAGGTTAATT
1 GGTTAATAAAGGTTAATT
23897056 ATAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (19 bp):
GGTTAATAAAGGTTAATTC
Found at i:23900355 original size:48 final size:48
Alignment explanation
Indices: 23900296--23900566 Score: 219
Period size: 48 Copynumber: 5.6 Consensus size: 48
23900286 TATGTGTGCT
* * *
23900296 AGTGTAAGACCATGTCAGGGATATGACATTGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCC
* * * ** *
23900344 AGTTTAAGACCATGTCTGGGACATGGCA-TCGACATTGTTATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCA-CATTATGAGAGCC
* * * * * *
23900392 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCAATATGCGATCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCC
* * ** * *
23900440 AGTGTAAGACCATGT-TCGGAACATGGCATCGG-CATTGTTAT-ATGTGTC
1 AGTGTAAGACCATGTCT-GGGACATGGCATTGGCCA-CATTATGA-GAGCC
**
23900488 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACCGATATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCA-C-AT-TATGAGAGCC
* *
23900538 AGGGTAAGACCATGTCCGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
23900567 CAGCATTTTA
Statistics
Matches: 174, Mismatches: 40, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
47 6 0.03
48 130 0.75
49 4 0.02
50 33 0.19
51 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCC
Found at i:23900464 original size:96 final size:95
Alignment explanation
Indices: 23900293--23900567 Score: 322
Period size: 96 Copynumber: 2.8 Consensus size: 95
23900283 TGATATGTGT
* * * * * *
23900293 GCTAGTGTAAGACCATGTCAGGGATATGACATTGGCCACATTATGAGAGCCAGTTTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-CAATATGAGAGCCAGTGTAAGACCATG
23900358 -TCTGGGACATGGCATCGACATTGTTATGA-GA
65 TTC-GGGACATGGCATCGACATTGTTAT-ATGA
* * *
23900389 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCAATATGCGATCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-CAATATGAGAGCCAGTGTAAGACCATG
* * *
23900454 TTCGGAACATGGCATCGGCATTGTTATATGT
65 TTCGGGACATGGCATCGACATTGTTATATGA
* *
23900485 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGATATATGAGAGCCAGGGTAAGACC
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CC-A-ATATGAGAGCCAGTGTAAGACC
*
23900549 ATGTCCGGGACATGGCATC
62 ATGTTCGGGACATGGCATC
23900568 AGCATTTTAC
Statistics
Matches: 153, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
95 2 0.01
96 111 0.73
97 4 0.03
98 36 0.24
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (95 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCCAATATGAGAGCCAGTGTAAGACCATGT
TCGGGACATGGCATCGACATTGTTATATGA
Found at i:23905875 original size:21 final size:21
Alignment explanation
Indices: 23905825--23905875 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
23905815 TTTGCTTCTC
23905825 TGTTTCTATTTCATTTCTTTTA
1 TGTTT-TATTTCATTTCTTTTA
*
23905847 T-TTATTATTTTATTTAC-TTTA
1 TGTT-TTATTTCATTT-CTTTTA
23905868 TGTTTTAT
1 TGTTTTAT
23905876 ATAATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.71
Consensus pattern (21 bp):
TGTTTTATTTCATTTCTTTTA
Found at i:23908035 original size:116 final size:116
Alignment explanation
Indices: 23907831--23908065 Score: 416
Period size: 116 Copynumber: 2.0 Consensus size: 116
23907821 AGTTTCAAAA
* * *
23907831 CTCGAAACCCAATTCCGTAATTTTTTCTTGGAACTAGACTCATATATATATTTACTAATTATTTT
1 CTCGAAACCCAATTCCGTAAATTTTTCCTGAAACTAGACTCATATATATATTTACTAATTATTTT
23907896 CTAGAATTTTTGGTCAAGCCAATTAGAACAGTTTATTAGTTAAAATCTCCC
66 CTAGAATTTTTGGTCAAGCCAATTAGAACAGTTTATTAGTTAAAATCTCCC
* *
23907947 CTCGAAACCTAATTCCGTAAATTTTTCCTGAAACTAGACTCATATATATATTTACTAATTGTTTT
1 CTCGAAACCCAATTCCGTAAATTTTTCCTGAAACTAGACTCATATATATATTTACTAATTATTTT
*
23908012 CTAGAATTTTTGGTCAAGCCAATTAGTACAGTTTATTAGTTAAAATCTCCC
66 CTAGAATTTTTGGTCAAGCCAATTAGAACAGTTTATTAGTTAAAATCTCCC
23908063 CTC
1 CTC
23908066 TTTCAGGGTT
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 113 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (116 bp):
CTCGAAACCCAATTCCGTAAATTTTTCCTGAAACTAGACTCATATATATATTTACTAATTATTTT
CTAGAATTTTTGGTCAAGCCAATTAGAACAGTTTATTAGTTAAAATCTCCC
Found at i:23909154 original size:46 final size:46
Alignment explanation
Indices: 23909087--23909252 Score: 187
Period size: 46 Copynumber: 3.6 Consensus size: 46
23909077 TGTAACCCGC
23909087 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCAT
*
23909133 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG-G-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGC-A--T
* *** * *
23909179 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGTA-CATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCG-AGCATTCGCAT
*
23909226 CCATAAGTGAACTCGAACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
23909253 TGATTTCGGA
Statistics
Matches: 99, Mismatches: 13, Indels: 16
0.77 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 58 0.59
47 30 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCAT
Found at i:23909206 original size:93 final size:93
Alignment explanation
Indices: 23909095--23909266 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
23909085 GCCCATAAGT
*
23909095 GAACTCGGACTCAACTCAACGAGCTCG-AGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGTA-CATTCGCATCCATAAGTGAACTCGAACTCAACTCA
23909159 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
23909188 GAACTCGGACTCAACTCAACGAGTTTGTACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGTACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
* **
23909253 TGATTTCGGATGCC
66 CGAGCTCGGATGCC
23909267 CAAATATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGTACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:23911693 original size:30 final size:30
Alignment explanation
Indices: 23911650--23911738 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
23911640 CAAATATAAC
23911650 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
23911679 GAGAAACCCAGAATAAAGAAAT-CTAGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
23911709 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
23911739 CGATACTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.21
30 35 0.73
31 3 0.06
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Done.