Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 57 of 438
Found at i:14755455 original size:25 final size:25
Alignment explanation
Indices: 14755423--14755470 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14755413 ATACATAAAC
* * *
14755423 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
14755448 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
14755471 CATTATAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:14757449 original size:20 final size:22
Alignment explanation
Indices: 14757411--14757450 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
14757401 TTCAAATACG
*
14757411 ATAATATATATATATTTTCCTA
1 ATAATATATATATAATTTCCTA
14757433 ATAATA-AT-TATAATTTCC
1 ATAATATATATATAATTTCC
14757451 ATAAATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATATATATATAATTTCCTA
Found at i:14759573 original size:30 final size:31
Alignment explanation
Indices: 14759533--14759595 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
14759523 CCTTTTCATA
14759533 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
14759564 TTTCA-ATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
14759594 TT
1 TT
14759596 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:14759838 original size:24 final size:24
Alignment explanation
Indices: 14759787--14759929 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
14759777 GCTTTATCAT
*
14759787 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
14759812 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
14759836 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
14759859 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
14759883 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
14759907 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
14759930 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:14759866 original size:47 final size:48
Alignment explanation
Indices: 14759787--14759928 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
14759777 GCTTTATCAT
* *
14759787 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
14759836 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
14759883 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
14759929 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:14759887 original size:71 final size:72
Alignment explanation
Indices: 14759786--14759929 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
14759776 TGCTTTATCA
*
14759786 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
14759851 GCCCTTT
66 GCCCTTT
* * **
14759858 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
14759921 AGCCCTTT
65 AGCCCTTT
14759929 T
1 T
14759930 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:14760001 original size:20 final size:20
Alignment explanation
Indices: 14759978--14760038 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
14759968 TTATGATTAC
14759978 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
14759998 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
14760018 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
14760038 A
1 A
14760039 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:14760113 original size:25 final size:25
Alignment explanation
Indices: 14760081--14760128 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14760071 ATACATAAAC
* * *
14760081 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
14760106 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
14760129 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:14764888 original size:14 final size:14
Alignment explanation
Indices: 14764865--14764928 Score: 64
Period size: 13 Copynumber: 4.8 Consensus size: 14
14764855 CTTCTATTTC
14764865 AAAAAA-AAAAGAA
1 AAAAAAGAAAAGAA
14764878 AAAAAAGAAAAG-A
1 AAAAAAGAAAAGAA
*
14764891 AAAAGAG-AAAGAGA
1 AAAAAAGAAAAGA-A
* *
14764905 AAAAAA-TAAAGAG
1 AAAAAAGAAAAGAA
14764918 AAAAAAGAAAA
1 AAAAAAGAAAA
14764929 AAATGGAGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
12 4 0.10
13 19 0.45
14 19 0.45
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAAAAGAAAAGAA
Found at i:14764929 original size:20 final size:19
Alignment explanation
Indices: 14764866--14764931 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 19
14764856 TTCTATTTCA
*
14764866 AAAAAAAAAGAAAAAAAAG
1 AAAAAAAAAGAGAAAAAAG
14764885 AAAAGAAAAAGAGAAAGAGAA-
1 AAAA-AAAAAGAGAAA-A-AAG
*
14764906 AAAAATAAAGAGAAAAAAG
1 AAAAAAAAAGAGAAAAAAG
14764925 AAAAAAA
1 AAAAAAA
14764932 TGGAGAGGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 2 0.05
19 11 0.28
20 20 0.50
21 5 0.12
22 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAGAGAAAAAAG
Found at i:14764938 original size:21 final size:20
Alignment explanation
Indices: 14764865--14764932 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
14764855 CTTCTATTTC
* *
14764865 AAAAAAAAAAGAAAAAAAAG
1 AAAAAAATAAGAGAAAAAAG
*
14764885 AAAAGAAA-AAGAG-AAAGAG
1 AAAA-AAATAAGAGAAAAAAG
14764904 AAAAAAATAAAGAGAAAAAAG
1 AAAAAAAT-AAGAGAAAAAAG
14764925 AAAAAAAT
1 AAAAAAAT
14764933 GGAGAGGCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 3 0.07
19 9 0.22
20 13 0.32
21 16 0.39
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAAAAATAAGAGAAAAAAG
Found at i:14765950 original size:44 final size:44
Alignment explanation
Indices: 14765795--14765988 Score: 144
Period size: 44 Copynumber: 4.4 Consensus size: 44
14765785 GGGACAATGT
* * *
14765795 AGATCAAAGA-AACAAGATTTGGCATCCCTATGTTTATAGGGAAT
1 AGATCGAAGATAAC-AGATTTGGCATCCCTCTGTTTATAGGGAAC
** * * * * * * ** *
14765839 AGATCGAAGATAGTAGATCTGACATTCCTGTGCTTACAGCAAAGT
1 AGATCGAAGATAACAGATTTGGCATCCCTCTGTTTATAGGGAA-C
* ** *
14765884 AGATTGAAGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAAC
1 AGATCGAAGATAACAG-ATTTGGCATCCCTCTGTTTATAGGGAAC
*
14765927 A-AGTTGAAGATAACAGATTTGGCATCCCTCTGTTTATAGGGAAC
1 AGA-TCGAAGATAACAGATTTGGCATCCCTCTGTTTATAGGGAAC
*
14765971 AGATCGAAGATAGCAGAT
1 AGATCGAAGATAACAGAT
14765989 CTAACCTTCA
Statistics
Matches: 116, Mismatches: 27, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
42 2 0.02
43 12 0.10
44 86 0.74
45 15 0.13
46 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (44 bp):
AGATCGAAGATAACAGATTTGGCATCCCTCTGTTTATAGGGAAC
Found at i:14766188 original size:119 final size:119
Alignment explanation
Indices: 14765980--14766573 Score: 990
Period size: 119 Copynumber: 5.0 Consensus size: 119
14765970 CAGATCGAAG
*
14765980 ATAGCAGATCTAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
14766045 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAG
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
14766099 ATAACAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
14766164 TTACAAGGAACAAATCGAGGACATAGTAGATTTGACTCTCAAACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* ** *
14766218 ATAGCAGATCTAACCTTCAGATGTTTATACAGAAGCAGGCCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
14766283 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * *
14766337 ATAACAGATCTAACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
14766402 TTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * *
14766456 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * * *
14766521 TTACAATGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
14766574 CAAACTCAAG
Statistics
Matches: 443, Mismatches: 32, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 443 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:14766602 original size:83 final size:83
Alignment explanation
Indices: 14766497--14766849 Score: 589
Period size: 83 Copynumber: 4.2 Consensus size: 83
14766487 GAAGCAGATC
*
14766497 CAAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
*
14766562 AATGTTCTCAAACAAACT
66 AATGTTCTCAAACAGACT
14766580 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
14766645 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
14766663 CAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAGGACCTTGCAGACATGACTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
14766728 AATGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
14766746 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTC
14766811 AAATGTTCTCAAACAGACT
65 AAATGTTCTCAAACAGACT
* * * *
14766830 TAAAATGATTTGACATCCTT
1 CAAGATGGTTTGGCATCCTT
14766850 ACAAATCGAA
Statistics
Matches: 256, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
83 180 0.70
84 76 0.30
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (83 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:14767262 original size:18 final size:18
Alignment explanation
Indices: 14767233--14767320 Score: 133
Period size: 18 Copynumber: 4.8 Consensus size: 18
14767223 ATAATCTTCA
14767233 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
14767252 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
14767270 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
14767287 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
14767305 ATGATATACAATCTTA
1 ATGAT-TGCAATCTTA
14767321 AAAGATATGA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
17 16 0.25
18 34 0.53
19 14 0.22
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:14767264 original size:35 final size:35
Alignment explanation
Indices: 14767225--14767320 Score: 133
Period size: 35 Copynumber: 2.7 Consensus size: 35
14767215 ATGGAAATAT
*
14767225 AATCTTCA-ATGATATGCAATCTTAGATATGATTGC
1 AATCTT-AGATGATATACAATCTTAGATATGATTGC
14767260 AATCTTAGAT-ATGATACAATCTTAGATATGATTGC
1 AATCTTAGATGAT-ATACAATCTTAGATATGATTGC
14767295 AATCTTAGATATGATATACAATCTTA
1 AATCTTAG--ATGATATACAATCTTA
14767321 AAAGATATGA
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
34 3 0.05
35 37 0.67
37 13 0.24
38 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (35 bp):
AATCTTAGATGATATACAATCTTAGATATGATTGC
Found at i:14767682 original size:7 final size:7
Alignment explanation
Indices: 14767665--14767771 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
14767655 AAATTTGTAA
14767665 ATTAT-T
1 ATTATAT
14767671 ATTATAT
1 ATTATAT
14767678 ATTATAT
1 ATTATAT
14767685 -TT-TA-
1 ATTATAT
14767689 ACTTATAT
1 A-TTATAT
14767697 ATCTTATAT
1 A--TTATAT
*
14767706 ATTTATTT
1 A-TTATAT
14767714 ATT-TAT
1 ATTATAT
*
14767720 ATTATAC
1 ATTATAT
14767727 ATTAT-T
1 ATTATAT
* *
14767733 -TTAAAA
1 ATTATAT
*
14767739 ACTTACAT
1 A-TTATAT
*
14767747 -TTTTAT
1 ATTATAT
14767753 ATTATAT
1 ATTATAT
*
14767760 ATTATAA
1 ATTATAT
14767767 ATTAT
1 ATTAT
14767772 TTCATTTATT
Statistics
Matches: 77, Mismatches: 13, Indels: 21
0.69 0.12 0.19
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 35 0.45
8 11 0.14
9 8 0.10
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTATAT
Found at i:14767715 original size:21 final size:21
Alignment explanation
Indices: 14767673--14767807 Score: 65
Period size: 21 Copynumber: 6.7 Consensus size: 21
14767663 AAATTATTAT
*
14767673 TATATATTATAT-TTTAACTTA
1 TATATATTATATATTT-ATTTA
*
14767694 TATATCTTATATATTTATTTA
1 TATATATTATATATTTATTTA
* *
14767715 TTTATATTATACA-TTATTT-
1 TATATATTATATATTTATTTA
* * * * *
14767734 TAAAAACTTACATTTTTATAT-
1 TATATA-TTATATATTTATTTA
*
14767755 TATATATTATA-AATTATTTCA
1 TATATATTATATATTTATTT-A
14767776 T-T-TATTAT-TA-TT-TTTA
1 TATATATTATATATTTATTTA
*
14767792 TATACTATCATATATT
1 TATA-TATTATATATT
14767808 ATCTATTTTA
Statistics
Matches: 84, Mismatches: 19, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
16 2 0.02
17 4 0.05
18 2 0.02
19 20 0.24
20 17 0.20
21 36 0.43
22 3 0.04
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATATTATATATTTATTTA
Found at i:14768116 original size:3 final size:3
Alignment explanation
Indices: 14768108--14768142 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
14768098 TATGTTACTA
*
14768108 TAT TAT TAT TAT TAT TAT TAT TTT TAT ATAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
14768143 GTATTTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:14769528 original size:26 final size:26
Alignment explanation
Indices: 14769499--14769551 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
14769489 TTTACAGTTT
14769499 TACCCCTAGTAGATAAATT-ACCGAAA
1 TACCCCTAG-AGATAAATTGACCGAAA
* *
14769525 TACCCCTAGAGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
14769551 T
1 T
14769552 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:14777593 original size:27 final size:28
Alignment explanation
Indices: 14777548--14777624 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 28
14777538 AGGTTGCCAG
*
14777548 ATAT-TGTGACGAAGTCACCAGATACAA
1 ATATATGTGACGAAGCCACCAGATACAA
* * * *
14777575 ATAT-TGTGGCTAGGCCACCAGA-ACAG
1 ATATATGTGACGAAGCCACCAGATACAA
14777601 ATATATGTGACGAAGCCACCAGAT
1 ATATATGTGACGAAGCCACCAGAT
14777625 TGCAGCGAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
26 7 0.17
27 33 0.82
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (28 bp):
ATATATGTGACGAAGCCACCAGATACAA
Found at i:14778538 original size:27 final size:27
Alignment explanation
Indices: 14778342--14778541 Score: 213
Period size: 27 Copynumber: 7.4 Consensus size: 27
14778332 AGGGCAAAAT
* * * *
14778342 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCTTACAGGGGTATTTC
*
14778369 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCTTACAGGGGTATTTC
* * *
14778396 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCTTACAGGGGTATTTC
* * *
14778423 AGTAATTTTATCC-TATAGGGGTATTTC
1 GGTAATTCTA-CCTTACAGGGGTATTTC
** *
14778450 AATAATTCTACGTTACAGGGGTATTTC
1 GGTAATTCTACCTTACAGGGGTATTTC
** * *
14778477 AATAATTCTACGTTATAGGGGTATTTC
1 GGTAATTCTACCTTACAGGGGTATTTC
*
14778504 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCTTACAGGGGTATTTC
14778531 GGTAATTCTAC
1 GGTAATTCTAC
14778542 AACTTATCCA
Statistics
Matches: 148, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 145 0.98
28 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTAATTCTACCTTACAGGGGTATTTC
Found at i:14780004 original size:49 final size:49
Alignment explanation
Indices: 14779901--14780065 Score: 155
Period size: 49 Copynumber: 3.5 Consensus size: 49
14779891 CATACAAGCT
* * * * *
14779901 AGTGTAAGACCTGTCTGGGACATGGCGTCTGC-TTG-TTG-TG--TGTC
1 AGTGTAAGACCTGTCTGGGACATAGCATCAGCATTGATAGATGAAAGTC
* * * *
14779945 AGTGTAAGACCTATTTGGGACATGGCATCCA-CATTGATAGATGAGAG-C
1 AGTGTAAGACCTGTCTGGGACATAGCAT-CAGCATTGATAGATGAAAGTC
* * *
14779993 TAGTGTAAGACCTGTCTGGGACACAGCATCAGCTTTGATATATGAAAGTC
1 -AGTGTAAGACCTGTCTGGGACATAGCATCAGCATTGATAGATGAAAGTC
14780043 AGTGTAAGACCTGTCTGGGACAT
1 AGTGTAAGACCTGTCTGGGACAT
14780066 CGTCTCGGCA
Statistics
Matches: 98, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
44 26 0.27
45 4 0.04
46 2 0.02
47 2 0.02
48 3 0.03
49 60 0.61
50 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATAGCATCAGCATTGATAGATGAAAGTC
Found at i:14781617 original size:17 final size:17
Alignment explanation
Indices: 14781591--14781638 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
14781581 TTTTACTTGC
*
14781591 AATTTAATTTAATTTTT
1 AATTTTATTTAATTTTT
14781608 -ATTCTTATTTAATTTTT
1 AATT-TTATTTAATTTTT
14781625 AATTTTA-TTAATTT
1 AATTTTATTTAATTT
14781639 ACTTTTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 10 0.36
17 15 0.54
18 3 0.11
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
AATTTTATTTAATTTTT
Found at i:14807143 original size:27 final size:28
Alignment explanation
Indices: 14807112--14807211 Score: 103
Period size: 27 Copynumber: 3.5 Consensus size: 28
14807102 ATAGTGAGTC
* *
14807112 CGCACACTTAGTGATATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
14807139 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
14807167 CGCACACTTAGTGCTATACAAATTTTAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
14807198 CGCACACTTAGTGC
1 CGCACACTTAGTGC
14807212 CAATCTTGTC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
27 20 0.34
28 19 0.32
29 2 0.03
31 18 0.31
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:14807254 original size:42 final size:42
Alignment explanation
Indices: 14807190--14807296 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
14807180 CTATACAAAT
*
14807190 TTTAAACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
14807232 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
14807274 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
14807297 GAAATCAACA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.30
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:14815199 original size:28 final size:27
Alignment explanation
Indices: 14815133--14815202 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
14815123 ATAGTGAGTC
* *
14815133 CGCACACTTAGTGATATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAACT
* * *
14815160 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AACT
14815188 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14815203 GTACAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAACT
Found at i:14818200 original size:25 final size:25
Alignment explanation
Indices: 14818104--14818188 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
14818094 TTGCGGATAC
*
14818104 TTCACAGCTCATGAGAGCATACTGA
1 TTCACAGCTCATGAGAGCATACCGA
* * *
14818129 TTTATAGCTCGTGAGAGCATACCGA
1 TTCACAGCTCATGAGAGCATACCGA
* *
14818154 -TCTACAGCACA-AATGAGCATACCGA
1 TTC-ACAGCTCATGA-GAGCATACCGA
14818179 TTCACAGCTC
1 TTCACAGCTC
14818189 GTATGAGCAT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
24 2 0.04
25 43 0.91
26 2 0.04
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.24
Consensus pattern (25 bp):
TTCACAGCTCATGAGAGCATACCGA
Found at i:14823193 original size:18 final size:19
Alignment explanation
Indices: 14823150--14823194 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
14823140 AGTTCTCTCC
14823150 AAAATGAAAATGAGAATAA
1 AAAATGAAAATGAGAATAA
* *
14823169 GAAATGAAAATGA-ATTAA
1 AAAATGAAAATGAGAATAA
14823187 AAAATGAA
1 AAAATGAA
14823195 TTTATGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.18
Consensus pattern (19 bp):
AAAATGAAAATGAGAATAA
Found at i:14827856 original size:16 final size:16
Alignment explanation
Indices: 14827835--14827865 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14827825 TTTTTAATTT
*
14827835 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
14827851 ATATTAAGATAATTA
1 ATATTAAGATAATTA
14827866 TTAGGATTAT
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:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:14827894 original size:28 final size:27
Alignment explanation
Indices: 14827831--14827895 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
14827821 ACTCTTTTTA
14827831 ATTTATATTAGGATAATTAAATATTAAG
1 ATTT-TATTAGGATAATTAAATATTAAG
* * * *
14827859 ATAATTATTAGGATTATTAAAATTTTAGG
1 AT-TTTATTAGGATAATT-AAATATTAAG
14827888 ATTTTATT
1 ATTTTATT
14827896 TTAATTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.48
Consensus pattern (27 bp):
ATTTTATTAGGATAATTAAATATTAAG
Found at i:14827910 original size:10 final size:10
Alignment explanation
Indices: 14827891--14827922 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
14827881 TTTTAGGATT
14827891 TTAT-TTTAA
1 TTATCTTTAA
14827900 TTATCTTTAA
1 TTATCTTTAA
14827910 TTATCTTTAA
1 TTATCTTTAA
14827920 TTA
1 TTA
14827923 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:14828670 original size:17 final size:19
Alignment explanation
Indices: 14828634--14828671 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
14828624 TTATTTTTCC
14828634 TTATTTCAATTTCTGCAAT
1 TTATTTCAATTTCTGCAAT
14828653 TTATTT-AATTTC-GCAAT
1 TTATTTCAATTTCTGCAAT
14828670 TT
1 TT
14828672 CAATTCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (19 bp):
TTATTTCAATTTCTGCAAT
Found at i:14829819 original size:17 final size:17
Alignment explanation
Indices: 14829794--14829838 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
14829784 ACATAGATAA
14829794 AATTAATATAATAAT-TT
1 AATTAATATAA-AATATT
*
14829811 AATTCATATAAAATATT
1 AATTAATATAAAATATT
14829828 AATTGAATATA
1 AATT-AATATA
14829839 GTTTACTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 16 0.67
18 5 0.21
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
AATTAATATAAAATATT
Found at i:14833157 original size:3 final size:3
Alignment explanation
Indices: 14833149--14833237 Score: 75
Period size: 3 Copynumber: 31.0 Consensus size: 3
14833139 ATTTCTAATT
*
14833149 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TT- TTA TTA TT- TTA TTTC
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA
* *
14833194 TTA TT- TTA TTA TAA TT- TT- TTA TTT TTAA TTA TT- TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
14833235 TTA
1 TTA
14833238 ATAAAATTCT
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
2 14 0.20
3 50 0.70
4 7 0.10
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:14833167 original size:15 final size:14
Alignment explanation
Indices: 14833146--14833237 Score: 92
Period size: 12 Copynumber: 7.1 Consensus size: 14
14833136 TTTATTTCTA
14833146 ATTTTATTATTATT
1 ATTTTATTATTATT
14833160 A--TTATTATTATT
1 ATTTTATTATTATT
14833172 A-TTTATT-TTATT
1 ATTTTATTATTATT
*
14833184 ATTTTA-T-TTCTT
1 ATTTTATTATTATT
*
14833196 ATTTTATTATAATT
1 ATTTTATTATTATT
*
14833210 -TTTTATTTTTAATT
1 ATTTTATTATT-ATT
14833224 ATTTTATTA-TATT
1 ATTTTATTATTATT
14833237 A
1 A
14833238 ATAAAATTCT
Statistics
Matches: 66, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
12 29 0.44
13 22 0.33
14 8 0.12
15 7 0.11
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTTATTATTATT
Found at i:14833191 original size:38 final size:40
Alignment explanation
Indices: 14833146--14833237 Score: 120
Period size: 38 Copynumber: 2.4 Consensus size: 40
14833136 TTTATTTCTA
*
14833146 ATTTTATTATTATTATTATTATTATTATTTA-TTTT-ATT
1 ATTTTATTATTATTATTATTATAATTATTTATTTTTAATT
* *
14833184 ATTTTATTTCTTATT-TTATTATAATTTTTTATTTTTAATT
1 ATTTTA-TTATTATTATTATTATAATTATTTATTTTTAATT
14833224 ATTTTATTA-TATTA
1 ATTTTATTATTATTA
14833238 ATAAAATTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
38 24 0.52
39 13 0.28
40 9 0.20
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (40 bp):
ATTTTATTATTATTATTATTATAATTATTTATTTTTAATT
Found at i:14834466 original size:4 final size:4
Alignment explanation
Indices: 14834459--14834491 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
14834449 ATGTACATAC
*
14834459 ATAA ATAA ATTA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
14834492 AAGTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:14834515 original size:3 final size:3
Alignment explanation
Indices: 14834509--14834556 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
14834499 AAAATTTAAA
14834509 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14834557 CTATATATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14835146 original size:16 final size:16
Alignment explanation
Indices: 14835125--14835155 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14835115 TATTTTATTT
*
14835125 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
14835141 ATATTAAGATAATTA
1 ATATTAAGATAATTA
14835156 TTAGGATTAT
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:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:14835184 original size:28 final size:27
Alignment explanation
Indices: 14835121--14835185 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
14835111 ACTCTATTTT
14835121 ATTTATATTAGGATAATTAAATATTAAG
1 ATTT-TATTAGGATAATTAAATATTAAG
* * * *
14835149 ATAATTATTAGGATTATTTAAATTTTAGG
1 AT-TTTATTAGGA-TAATTAAATATTAAG
14835178 ATTTTATT
1 ATTTTATT
14835186 TTAATTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTTATTAGGATAATTAAATATTAAG
Found at i:14835959 original size:17 final size:19
Alignment explanation
Indices: 14835924--14835961 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
14835914 TTATTTTTTC
14835924 TTATTTCAATTTCTGCAAT
1 TTATTTCAATTTCTGCAAT
14835943 TTATTT-AATTT-TGCAAT
1 TTATTTCAATTTCTGCAAT
14835960 TT
1 TT
14835962 CAATTCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 5 0.26
19 6 0.32
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (19 bp):
TTATTTCAATTTCTGCAAT
Found at i:14836360 original size:13 final size:13
Alignment explanation
Indices: 14836342--14836367 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14836332 TATCAAATTA
14836342 AATTAAATTTAAT
1 AATTAAATTTAAT
14836355 AATTAAATTTAAT
1 AATTAAATTTAAT
14836368 TCATGTGACA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTAAATTTAAT
Found at i:14847201 original size:17 final size:17
Alignment explanation
Indices: 14847179--14847217 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
14847169 ATTTTTAGGA
14847179 GTGACATGGGTGGTGGT
1 GTGACATGGGTGGTGGT
*
14847196 GTGACATGGGTGGTTGT
1 GTGACATGGGTGGTGGT
14847213 GTGAC
1 GTGAC
14847218 TACTTGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.13, C:0.08, G:0.49, T:0.31
Consensus pattern (17 bp):
GTGACATGGGTGGTGGT
Found at i:14851454 original size:39 final size:38
Alignment explanation
Indices: 14851387--14851462 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
14851377 ACCAGATTGG
*
14851387 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGCAA-AGTTGA
* * *
14851426 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAGTTG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGCAAAGTTG
14851463 GTACCCAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 5 0.16
39 24 0.75
40 3 0.09
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGCAAAGTTGA
Found at i:14852659 original size:18 final size:18
Alignment explanation
Indices: 14852638--14852673 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14852628 ATAATAACTC
14852638 TAATAAAAATCTATTTAA
1 TAATAAAAATCTATTTAA
* *
14852656 TAATAAATATTTATTTAA
1 TAATAAAAATCTATTTAA
14852674 CAATTGTACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATAAAAATCTATTTAA
Found at i:14852706 original size:2 final size:2
Alignment explanation
Indices: 14852699--14852724 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14852689 TCTTTTCTTT
14852699 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
14852725 ATAACTTAAT
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:14852738 original size:11 final size:12
Alignment explanation
Indices: 14852719--14852752 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
14852709 TATATATATA
14852719 TATATAATAACT
1 TATATAATAACT
14852731 TA-ATAATATACT
1 TATATAATA-ACT
14852743 TATATAATAA
1 TATATAATAA
14852753 ATAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:14853152 original size:3 final size:3
Alignment explanation
Indices: 14853144--14853226 Score: 73
Period size: 3 Copynumber: 28.0 Consensus size: 3
14853134 ATCTTTAACT
* *
14853144 TAA TAA TAA TACC TAT TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * **
14853191 TAG T-T TAA T-A TAA -AA CCA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14853227 CAATTATAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
2 5 0.08
3 57 0.86
4 4 0.06
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:14860863 original size:18 final size:19
Alignment explanation
Indices: 14860825--14860865 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
14860815 TTGGTTCATG
14860825 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
14860844 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
14860862 TTTC
1 TTTC
14860866 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:14862254 original size:18 final size:18
Alignment explanation
Indices: 14862233--14862268 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14862223 AATAATAACT
14862233 ATAATAAAAATCTATTTA
1 ATAATAAAAATCTATTTA
* *
14862251 ATAATAAATATTTATTTA
1 ATAATAAAAATCTATTTA
14862269 CCACTTGTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATAAAAATCTATTTA
Found at i:14862341 original size:11 final size:12
Alignment explanation
Indices: 14862322--14862355 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
14862312 TATATATATA
14862322 TATATAATAACT
1 TATATAATAACT
14862334 TA-ATAATATACT
1 TATATAATA-ACT
14862346 TATATAATAA
1 TATATAATAA
14862356 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:14862755 original size:3 final size:3
Alignment explanation
Indices: 14862747--14862795 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
14862737 ATCTTTATCT
* * *
14862747 TAA TAA TAA TACC TAT TAAA TAA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
14862794 TA
1 TA
14862796 GTTTAGTATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
3 35 0.90
4 4 0.10
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14865684 original size:27 final size:26
Alignment explanation
Indices: 14865649--14865761 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
14865639 AGCATGGCTG
* *
14865649 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
14865675 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
14865703 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
14865730 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
14865757 CCAGA
1 CCAGA
14865762 CGCTTCCTTC
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 16 0.21
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:14865714 original size:54 final size:54
Alignment explanation
Indices: 14865649--14865761 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
14865639 AGCATGGCTG
*
14865649 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAACCA
* * * * *
14865703 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
14865757 CCAGA
1 CCAGA
14865762 CGCTTCCTTC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAACCA
Found at i:14867211 original size:24 final size:24
Alignment explanation
Indices: 14867179--14867252 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
14867169 ACACAGTTCA
14867179 CCCTAATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
*
14867203 CCCTAATCAGCACCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* *
14867227 CCCTTATCAGCTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
14867251 CC
1 CC
14867253 AGACAGACTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.24, C:0.42, G:0.04, T:0.30
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:14872406 original size:27 final size:27
Alignment explanation
Indices: 14872352--14872462 Score: 95
Period size: 27 Copynumber: 4.1 Consensus size: 27
14872342 AGCATGGCTG
* * **
14872352 CCAGA-ACTGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAACCA
14872378 CC-GATACAGATAATCGTGGCAGAACCA
1 CCAGATACAGATAAT-GTGGCAGAACCA
* *
14872405 CCAGA-ACAAATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAACCA
* *
14872432 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAACCA
14872459 CCAG
1 CCAG
14872463 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.03
26 11 0.15
27 54 0.76
28 4 0.06
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAACCA
Found at i:14873925 original size:24 final size:23
Alignment explanation
Indices: 14873893--14873961 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 23
14873883 GTTCACCCTA
14873893 ATCAGCTCCTAAATCCTCTCCTT
1 ATCAGCTCCTAAATCCTCTCCTT
14873916 GATCAGCTCCTAAATCCTCTCTCTT
1 -ATCAGCTCCTAAATCCTCTC-CTT
*
14873941 ATCAGCTCCTAAATCTTCTCC
1 ATCAGCTCCTAAATCCTCTCC
14873962 AGATAGACTT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
23 1 0.02
24 39 0.91
25 3 0.07
ACGTcount: A:0.22, C:0.38, G:0.06, T:0.35
Consensus pattern (23 bp):
ATCAGCTCCTAAATCCTCTCCTT
Found at i:14876387 original size:17 final size:16
Alignment explanation
Indices: 14876365--14876396 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
14876355 CTCTTCTCTT
14876365 TCTCTCTTGTTTTCTCC
1 TCTCTCTT-TTTTCTCC
14876382 TCTCTCTTTTTTCTC
1 TCTCTCTTTTTTCTC
14876397 TGAAAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.34, G:0.03, T:0.62
Consensus pattern (16 bp):
TCTCTCTTTTTTCTCC
Found at i:14876852 original size:18 final size:18
Alignment explanation
Indices: 14876818--14876852 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14876808 AACCCAAAAC
*
14876818 AGTCCAAAATGTCCAAAT
1 AGTCCAAAATGTACAAAT
*
14876836 AGTCCAAAATTTACAAA
1 AGTCCAAAATGTACAAA
14876853 ACTCTTAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.20, G:0.09, T:0.23
Consensus pattern (18 bp):
AGTCCAAAATGTACAAAT
Found at i:14891103 original size:28 final size:28
Alignment explanation
Indices: 14891071--14891125 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
14891061 GTAGATCACG
*
14891071 AAATTACCCTTAAAGAGCAAAATTACCA
1 AAATTACCCCTAAAGAGCAAAATTACCA
14891099 AAATTACCCCTAAAGAGCAAAATTACC
1 AAATTACCCCTAAAGAGCAAAATTACC
14891126 GATATACCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (28 bp):
AAATTACCCCTAAAGAGCAAAATTACCA
Found at i:14893280 original size:26 final size:26
Alignment explanation
Indices: 14893244--14893327 Score: 123
Period size: 26 Copynumber: 3.2 Consensus size: 26
14893234 CACATGGGCA
14893244 GAGACACGGCCGTGTGTCTCAGCCGT
1 GAGACACGGCCGTGTGTCTCAGCCGT
* *
14893270 GAGACACGGCCATGTGTCTTAGCCGT
1 GAGACACGGCCGTGTGTCTCAGCCGT
* *
14893296 AAGACACGGCCGTGTGTCTCAGTCGT
1 GAGACACGGCCGTGTGTCTCAGCCGT
*
14893322 GTGACA
1 GAGACA
14893328 GGCACGGCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.19, C:0.27, G:0.32, T:0.21
Consensus pattern (26 bp):
GAGACACGGCCGTGTGTCTCAGCCGT
Found at i:14898761 original size:31 final size:31
Alignment explanation
Indices: 14898698--14898811 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
14898688 TCAATCTCAG
*
14898698 CATAT-ACTGGGCCGAAGCCTTTACA-TATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14898727 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14898758 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
*
14898789 CATATCATTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
14898812 ACTGTAACAA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
29 5 0.06
30 19 0.23
31 57 0.70
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATTATT
Found at i:14899046 original size:25 final size:23
Alignment explanation
Indices: 14899018--14899077 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 23
14899008 CTGGAGGCCT
14899018 AGCCTCTTTTAATAATTAGGGCAAA
1 AGCCTCTTTTAA-AATTA-GGCAAA
*
14899043 AGCCATCTTTGATAAACTTAGGCAAA
1 AGCC-TCTTT--TAAAATTAGGCAAA
14899069 AGCC-CTTTT
1 AGCCTCTTTT
14899078 CGGTAAACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
22 1 0.03
24 4 0.13
25 4 0.13
26 15 0.48
27 4 0.13
28 3 0.10
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (23 bp):
AGCCTCTTTTAAAATTAGGCAAA
Found at i:14899084 original size:26 final size:26
Alignment explanation
Indices: 14899037--14899108 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
14899027 TAATAATTAG
* * *
14899037 GGCAAAAGCCATCTTT-GATAAACTTA
1 GGCAAAAGCCCT-TTTCGGTAAACTGA
*
14899063 GGCAAAAGCCCTTTTCGGTAAACTGG
1 GGCAAAAGCCCTTTTCGGTAAACTGA
14899089 GGC-AAAGCCCTTTTCGGTAA
1 GGCAAAAGCCCTTTTCGGTAA
14899109 CTAGGGCATA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
25 20 0.49
26 21 0.51
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (26 bp):
GGCAAAAGCCCTTTTCGGTAAACTGA
Found at i:14899115 original size:24 final size:25
Alignment explanation
Indices: 14899067--14899126 Score: 95
Period size: 24 Copynumber: 2.4 Consensus size: 25
14899057 AACTTAGGCA
*
14899067 AAAGCCCTTTTCGGTAAACTGGGGC
1 AAAGCCCTTTTCGGTAAACTAGGGC
14899092 AAAGCCCTTTTCGGT-AACTAGGGC
1 AAAGCCCTTTTCGGTAAACTAGGGC
*
14899116 ATAGCCCTTTT
1 AAAGCCCTTTT
14899127 GCACTTCCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
24 18 0.55
25 15 0.45
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAGCCCTTTTCGGTAAACTAGGGC
Found at i:14906887 original size:31 final size:31
Alignment explanation
Indices: 14906844--14906929 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
14906834 TCAATCTCAG
*
14906844 CATAT-ACTGGGCCAAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
14906874 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
14906905 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
14906930 TGTAACAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:14907185 original size:26 final size:25
Alignment explanation
Indices: 14907134--14907232 Score: 96
Period size: 25 Copynumber: 3.9 Consensus size: 25
14907124 CTGGAGGCCT
*
14907134 AGCCTCTTTTAAT-AACTGGGGTAAA
1 AGCC-CTTTTAATAAACTGGGGCAAA
* *
14907159 AGCCCCTTTTGATAAACTAGGGCAAA
1 AG-CCCTTTTAATAAACTGGGGCAAA
*
14907185 AGCCCTTTTCAGTAAACTGGGGC-AA
1 AGCCCTTTT-AATAAACTGGGGCAAA
*
14907210 AGCCCTTTTCAGT-AACTGGGGCA
1 AGCCCTTTT-AATAAACTGGGGCA
14907233 TAGTCCTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
24 9 0.14
25 31 0.48
26 24 0.38
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:14914075 original size:17 final size:18
Alignment explanation
Indices: 14914053--14914087 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14914043 GCGCAACACC
14914053 TTTTTTA-TATTAAAATA
1 TTTTTTATTATTAAAATA
*
14914070 TTTTTTATTTTTAAAATA
1 TTTTTTATTATTAAAATA
14914088 AAATATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTTATTATTAAAATA
Found at i:14914089 original size:23 final size:22
Alignment explanation
Indices: 14914054--14914102 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
14914044 CGCAACACCT
* * *
14914054 TTTTTATATTAAAATATTTTTTA
1 TTTTTAAAATAAAATA-TTATTA
14914077 TTTTTAAAATAAAATATTATTA
1 TTTTTAAAATAAAATATTATTA
14914099 TTTT
1 TTTT
14914103 ATTTTTATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTTAAAATAAAATATTATTA
Found at i:14920510 original size:28 final size:28
Alignment explanation
Indices: 14920462--14920530 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
14920452 ATTTAAACCC
*
14920462 TAGGGGT-ATATCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
*
14920489 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
14920517 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
14920531 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:14922997 original size:23 final size:23
Alignment explanation
Indices: 14922967--14923014 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
14922957 ATGAGAAGGC
*
14922967 AATATCCGAATCTGTTTTCTAGT
1 AATATCCGAATCTATTTTCTAGT
*
14922990 AATATCCGAATCTATTTTCTGGT
1 AATATCCGAATCTATTTTCTAGT
14923013 AA
1 AA
14923015 GACTTTCGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (23 bp):
AATATCCGAATCTATTTTCTAGT
Found at i:14925999 original size:60 final size:60
Alignment explanation
Indices: 14925906--14926024 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
14925896 TATTTTTTAA
* *
14925906 TAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTACAAATTGTTGTGTTTG
14925966 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTACAAATTGTTGTGTTT
1 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTACAAATTGTTGTGTTT
14926025 AGTTTAGTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTACAAATTGTTGTGTTTG
Found at i:14926369 original size:50 final size:50
Alignment explanation
Indices: 14926314--14926468 Score: 126
Period size: 50 Copynumber: 3.1 Consensus size: 50
14926304 AAAAAAATTA
14926314 TAGTTATTTTGTTTGTAATTTATGATTAGGTTGTATAAATTGTTAGTGTT
1 TAGTTATTTTGTTTGTAATTTATGATTAGGTTGTATAAATTGTTAGTGTT
* * ** * *
14926364 TAGTTA-TGTGTTTTGTGATTT-T--TTA-GTAATGTAT-TTTTTTTAAAAAT-TT
1 TAGTTATTTTG-TTTGTAATTTATGATTAGGT--TGTATAAATTGTT---AGTGTT
* *
14926413 ATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTT
1 -TAGTTATTTTGTTTGTAATTTATGATTAGGTTGTATAAATTGTTAGTGTT
14926464 TAGTT
1 TAGTT
14926469 TAGTGTTTTG
Statistics
Matches: 77, Mismatches: 14, Indels: 28
0.65 0.12 0.24
Matches are distributed among these distances:
46 2 0.03
47 7 0.09
48 5 0.06
49 6 0.08
50 38 0.49
51 6 0.08
52 4 0.05
53 7 0.09
54 2 0.03
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (50 bp):
TAGTTATTTTGTTTGTAATTTATGATTAGGTTGTATAAATTGTTAGTGTT
Found at i:14926451 original size:100 final size:101
Alignment explanation
Indices: 14926216--14926486 Score: 417
Period size: 100 Copynumber: 2.7 Consensus size: 101
14926206 TTATAGTTAT
* * *
14926216 TTATTTTGTTAATAATTTATGGGATTAGG-TTACAAATTGTTAGTGTTTAG-TATAGGGTTTTGT
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTTATAAATTGTTAGTGTTTAGTTATAGTGTTTTGT
14926279 GATTTTTTAGTAATGTAATTTTTTTAAAAAAATTATAG
64 GATTTTTTAGTAATGTAATTTTTTTAAAAAAATTATAG
*
14926317 TTATTTTGTTTGTAATTTATGATTAGGTTGTATAAATTGTTAGTGTTTAGTTAT-GTGTTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTT-TATAAATTGTTAGTGTTTAGTTATAGTGTTTTGTG
* *
14926381 ATTTTTTAGTAATGT-ATTTTTTTTAAAAATTTATAG
65 ATTTTTTAGTAATGTAATTTTTTTAAAAAAATTATAG
14926417 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTT-TAGTGTTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTT-TATAAATTGTTAGTGTTTAGTTATAGTGTTTTGTG
14926481 ATTTTT
65 ATTTTT
14926487 AATGTAAATT
Statistics
Matches: 158, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
99 8 0.05
100 86 0.54
101 61 0.39
102 3 0.02
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (101 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTTATAAATTGTTAGTGTTTAGTTATAGTGTTTTGTGA
TTTTTTAGTAATGTAATTTTTTTAAAAAAATTATAG
Found at i:14926513 original size:15 final size:16
Alignment explanation
Indices: 14926486--14926515 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14926476 TTGTGATTTT
14926486 TAATGTAAATTTTATA
1 TAATGTAAATTTTATA
14926502 TAATGT-AATTTTAT
1 TAATGTAAATTTTAT
14926516 TTGATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TAATGTAAATTTTATA
Found at i:14926523 original size:100 final size:95
Alignment explanation
Indices: 14926216--14926498 Score: 331
Period size: 101 Copynumber: 2.9 Consensus size: 95
14926206 TTATAGTTAT
* * * *
14926216 TTATTTTGTTAATAATTTATGGGATTAGG-TTACAAATTGTTAGTGTTTAGTATAGGGTTTTGTG
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTG
*
14926280 ATTTTTTAGTAATGT-AATTTTTTTAAAAAAATTATAG
64 A--TTTT--TAATGTAAATTTTTTT--AAAAATTTTAG
*
14926317 TTATTTTGTTTGTAATTTATGATTAGGTTGTATAAATTGTTAGTGTTTAG-TTATGTGTTTTGTG
1 TTATTTTGTTAGTAATTTATGATTAGGTT-TATAAATTGTTAGTGTTTAGTTTA-GTGTTTTGTG
*
14926381 ATTTTTTAGTAATGT-ATTTTTTTTAAAAATTTATAG
64 A--TTTT--TAATGTAAATTTTTTTAAAAATTT-TAG
14926417 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAGGTT-TATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
14926482 TTTTTAATGTAAATTTT
65 TTTTTAATGTAAATTTT
14926499 ATATAATGTA
Statistics
Matches: 166, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
96 6 0.04
97 5 0.03
98 4 0.02
99 14 0.08
100 65 0.39
101 72 0.43
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.55
Consensus pattern (95 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
TTTTAATGTAAATTTTTTTAAAAATTTTAG
Found at i:14928011 original size:27 final size:27
Alignment explanation
Indices: 14927981--14928180 Score: 251
Period size: 27 Copynumber: 7.4 Consensus size: 27
14927971 ATTATTGAAA
** *
14927981 TACCCTCGATTTGTAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
14928008 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
14928035 CACCCTCGATTTACAAAATTACAATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
14928062 GACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
14928089 TACCCTCGATTTACAAAATTA-CAGTTT
1 TACCCTCGATTTACAAAATTACCA-TTT
14928116 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
14928143 TACCCTC-AGTTTACAAAATTATCGTTT
1 TACCCTCGA-TTTACAAAATTACCATTT
14928170 TACCCTCGATT
1 TACCCTCGATT
14928181 GTGAAATTAC
Statistics
Matches: 153, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.02
27 147 0.96
28 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:14928098 original size:81 final size:81
Alignment explanation
Indices: 14927982--14928180 Score: 283
Period size: 81 Copynumber: 2.5 Consensus size: 81
14927972 TTATTGAAAT
* * * *
14927982 ACCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTT
1 ACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACAGTTTCACCCTCGATTT
14928047 ACAAAATTACAATTTG
66 ACAAAATTACAATTTG
*
14928063 ACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACAGTTTTACCCTCGATTT
1 ACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACAGTTTCACCCTCGATTT
* *
14928128 ACAAAATTACCATTTT
66 ACAAAATTACAATTTG
* * * *
14928144 ACCCTC-AGTTTACAAAATTATCGTTTTACCCTCGATT
1 ACCCTCGA-TTTATAGAATTACCATTTTACCCTCGATT
14928181 GTGAAATTAC
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.01
81 105 0.99
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (81 bp):
ACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACAGTTTCACCCTCGATTT
ACAAAATTACAATTTG
Found at i:14928349 original size:81 final size:81
Alignment explanation
Indices: 14928184--14928361 Score: 234
Period size: 81 Copynumber: 2.2 Consensus size: 81
14928174 CTCGATTGTG
* * *
14928184 AAATTACTGAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACAGAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAA
**
14928249 ATACCCCTAGTTTGTA
66 ATACCCCTAGTTTACA
* * * *
14928265 AAATTACCGAAATACCACTAGTTTGTCAAATTATCGAAATA-CCCTCAATTTGTAAAATTACCAA
1 AAATTACAGAAATACCACTAGTTTGTAAAATTACCAAAATACCCCT-AATTTGTAAAATTACCAA
14928329 AATACCCCT-GATTTACA
65 AATACCCCTAG-TTTACA
*
14928346 AAATTATAGAAATACC
1 AAATTACAGAAATACC
14928362 CTTGACTTTC
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 5 0.06
81 80 0.94
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
AAATTACAGAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAA
ATACCCCTAGTTTACA
Found at i:14928350 original size:54 final size:54
Alignment explanation
Indices: 14928184--14928445 Score: 221
Period size: 54 Copynumber: 4.8 Consensus size: 54
14928174 CTCGATTGTG
**
14928184 AAATTA-CTGAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTATC-GAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTACA
* * * * *
14928238 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTAGTTTGTC-
1 AAATTATCGAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTT-ACA
*
14928292 AAATTATCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACA
1 AAATTATCGAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAG-TTTACA
* * * * * ** *
14928346 AAATTATAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACA
1 AAATTATCGAAATACCCCT-AGTTTGT-AAAATTACCA-AAATACCCCTAGTTTACA
* * * * *
14928402 AAATTA-CTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCC
1 AAATTATC-GAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
14928446 TTGTAGGGTG
Statistics
Matches: 169, Mismatches: 28, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
53 6 0.04
54 109 0.64
55 15 0.09
56 38 0.22
57 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AAATTATCGAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTACA
Found at i:14928351 original size:27 final size:27
Alignment explanation
Indices: 14928179--14928337 Score: 221
Period size: 27 Copynumber: 5.9 Consensus size: 27
14928169 TTACCCTCGA
* **
14928179 TTGTGAAATTACTGAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
14928206 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
14928233 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* *
14928260 TTGTAAAATTACCGAAATACCACTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * * *
14928287 TTGTCAAATTATCGAAATA-CCCTCAAT
1 TTGTAAAATTACCAAAATACCCCT-AGT
14928314 TTGTAAAATTACCAAAATACCCCT
1 TTGTAAAATTACCAAAATACCCCT
14928338 GATTTACAAA
Statistics
Matches: 118, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
26 3 0.03
27 111 0.94
28 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:14928425 original size:27 final size:27
Alignment explanation
Indices: 14928184--14928418 Score: 160
Period size: 27 Copynumber: 8.6 Consensus size: 27
14928174 CTCGATTGTG
*
14928184 AAATTACTGAAATACCCCTAGTTTGTA
1 AAATTACTGAAATACCCCTAGTTTGCA
** *
14928211 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACTGAAATACCCCTAGTTTGCA
** *
14928238 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACTGAAATACCCCTAGTTTGCA
* *
14928265 AAATTACCGAAATACCACTAGTTTGTC-
1 AAATTACTGAAATACCCCTAGTTTG-CA
* *
14928292 AAATTA-TCGAAATA-CCCTCAATTTGTA
1 AAATTACT-GAAATACCCCT-AGTTTGCA
** *
14928319 AAATTACCAAAATACCCCT-GATTTACA
1 AAATTACTGAAATACCCCTAG-TTTGCA
* *
14928346 AAATTA-TAGAAATACCCTTGACTTT-CTAA
1 AAATTACT-GAAATACCCCT-AGTTTGC--A
** * *
14928375 AAATTA-TAGAAATACCATTGGTTTACA
1 AAATTACT-GAAATACCCCTAGTTTGCA
14928402 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
14928419 TTGGTTTGTA
Statistics
Matches: 172, Mismatches: 22, Indels: 28
0.77 0.10 0.13
Matches are distributed among these distances:
26 3 0.02
27 138 0.80
28 11 0.06
29 20 0.12
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCCTAGTTTGCA
Found at i:14929396 original size:25 final size:25
Alignment explanation
Indices: 14929368--14929421 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
14929358 GCTCTGCCTT
14929368 AGTTTACC-GAAAAGGGCTTTACCCC
1 AGTTTACCAG-AAAGGGCTTTACCCC
* *
14929393 AGTTTATCAGAAAGGGCTTTGCCCC
1 AGTTTACCAGAAAGGGCTTTACCCC
14929418 AGTT
1 AGTT
14929422 ATTAAAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (25 bp):
AGTTTACCAGAAAGGGCTTTACCCC
Found at i:14929635 original size:42 final size:42
Alignment explanation
Indices: 14929569--14929660 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
14929559 TAGTCTCCCC
* ** *
14929569 AAATAGGCTTGCATACATTTATTGACATTGCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
14929611 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
14929653 AAATGGGC
1 AAATGGGC
14929661 CTAAGGGTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:14929722 original size:31 final size:31
Alignment explanation
Indices: 14929684--14929806 Score: 194
Period size: 31 Copynumber: 4.0 Consensus size: 31
14929674 CGTTTACAGT
14929684 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
14929715 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
14929746 AAAGGCTTCGACCCAGGGATCTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
14929777 AAAGGCCTCGGCCCAGTGATATGA-TTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
14929807 TTTATGGAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
30 6 0.07
31 77 0.93
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:14935549 original size:27 final size:27
Alignment explanation
Indices: 14935519--14935578 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
14935509 TGTAGGCCCC
*
14935519 ACCAGTCGCGCCTGT-ACGATAGGCTCA
1 ACCAGTCGCGCCTGTCA-AATAGGCTCA
*
14935546 ACCAGTCGCGCCTGTCAAATAGGCTCC
1 ACCAGTCGCGCCTGTCAAATAGGCTCA
14935573 ACCAGT
1 ACCAGT
14935579 TACGCTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.18
Consensus pattern (27 bp):
ACCAGTCGCGCCTGTCAAATAGGCTCA
Found at i:14938792 original size:9 final size:9
Alignment explanation
Indices: 14938773--14938803 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
14938763 TTATGTGTTC
14938773 TTTATTTTTA
1 TTTA-TTTTA
14938783 TTTATTTTA
1 TTTATTTTA
14938792 TTTATTTTA
1 TTTATTTTA
14938801 TTT
1 TTT
14938804 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 17 0.81
10 4 0.19
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:14943247 original size:5 final size:5
Alignment explanation
Indices: 14943227--14943259 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
14943217 TTATGTGTTC
14943227 TTTAT TTT-T ATTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTT
14943260 TTTCACAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 1 0.04
5 24 0.92
6 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:14951974 original size:20 final size:20
Alignment explanation
Indices: 14951941--14951993 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
14951931 GGAAGAATAA
14951941 AGAAATGAAAAAAAA-AAAG
1 AGAAATGAAAAAAAACAAAG
*
14951960 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAAAAAAAACAAAG
14951981 A-AAA-GAAAAAAAA
1 AGAAATGAAAAAAAA
14951994 AGTGTTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 12 0.40
21 5 0.17
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (20 bp):
AGAAATGAAAAAAAACAAAG
Found at i:14958782 original size:20 final size:20
Alignment explanation
Indices: 14958749--14958801 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
14958739 GGAAGAATAA
14958749 AGAAATGAAAAAAAA-AAAG
1 AGAAATGAAAAAAAACAAAG
*
14958768 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAAAAAAAACAAAG
14958789 A-AAA-GAAAAAAAA
1 AGAAATGAAAAAAAA
14958802 GTGTTCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 12 0.40
21 5 0.17
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (20 bp):
AGAAATGAAAAAAAACAAAG
Found at i:14961269 original size:27 final size:27
Alignment explanation
Indices: 14961238--14961338 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
14961228 CAATATCTCA
** *
14961238 GCAAAGCTGCCAGTAACAGTATATGTT
1 GCAAAGCCACCAGTAACAGTATATGTG
*
14961265 GCAAAGCCACCAGTATCAGTATATGTG
1 GCAAAGCCACCAGTAACAGTATATGTG
*
14961292 GCAAAGCCACCGGTAACAGTA-ATTGTG
1 GCAAAGCCACCAGTAACAGTATA-TGTG
* *
14961319 GCAGAGCCACTAGT-ACAGTA
1 GCAAAGCCACCAGTAACAGTA
14961339 CTTCCTCCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.11
27 57 0.89
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTATATGTG
Found at i:14964753 original size:41 final size:40
Alignment explanation
Indices: 14964698--14964856 Score: 205
Period size: 41 Copynumber: 4.0 Consensus size: 40
14964688 AAATAGGGTG
* * *
14964698 TTATTCAGGTTTTGTGCCTAGCAGGCTTAGTGTCGGTGTA
1 TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGTA
*
14964738 TTAATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGGTGTA
1 TT-ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGTA
* *
14964779 TTGATTCAGGCTTTGTGCCTAGCAGACTTAGTGCCAATG--
1 TT-ATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGTA
* * *
14964818 TTATTTAGGCTTAGTGCCTAGCAGGCTTAGTGTCAGTGT
1 TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGT
14964857 TACTCAAGCT
Statistics
Matches: 106, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
38 31 0.29
39 2 0.02
40 2 0.02
41 71 0.67
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (40 bp):
TTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCAGTGTA
Found at i:14964868 original size:38 final size:39
Alignment explanation
Indices: 14964695--14964894 Score: 174
Period size: 41 Copynumber: 5.1 Consensus size: 39
14964685 TTCAAATAGG
* * *
14964695 GTGTT-ATTCAGGTTTTGTGCCTAGCAGGCTTAGTGTCG
1 GTGTTAATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCA
* * *
14964733 GTGTATTAATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCG
1 GTG--TTAATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCA
* * * *
14964774 GTGTATTGATTCAGGCTTTGTGCCTAGCAGACTTAGTGCCA
1 GTG--TTAATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCA
* *
14964815 ATGTT-ATTTAGGCTTAGTGCCTAGCAGGCTTAGTGTCA
1 GTGTTAATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCA
* * ** *
14964853 GTGTT-ACTCAAGCTTAAAGCCTAGTAGGCTT-GATGTCA
1 GTGTTAATTCAGGCTTAGTGCCTAGCAGGCTTAG-TGTCA
14964891 GTGT
1 GTGT
14964895 AGTAAATGTT
Statistics
Matches: 141, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.01
38 65 0.46
39 2 0.01
40 2 0.01
41 71 0.50
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.35
Consensus pattern (39 bp):
GTGTTAATTCAGGCTTAGTGCCTAGCAGGCTTAGTGTCA
Found at i:14983635 original size:7 final size:7
Alignment explanation
Indices: 14983620--14983650 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
14983610 ACCTCATTTG
14983620 ATCCCTC
1 ATCCCTC
*
14983627 ATCCATC
1 ATCCCTC
14983634 ATCCCTC
1 ATCCCTC
14983641 ATCCCTC
1 ATCCCTC
14983648 ATC
1 ATC
14983651 ATTCTCTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.19, C:0.52, G:0.00, T:0.29
Consensus pattern (7 bp):
ATCCCTC
Found at i:14990803 original size:48 final size:48
Alignment explanation
Indices: 14990741--14990921 Score: 247
Period size: 48 Copynumber: 3.8 Consensus size: 48
14990731 TTATGTGTGC
*
14990741 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAAA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGA
* * *** *
14990789 GCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCTCAATATGCGA
1 GCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGCATTGTTATGAGA
*
14990837 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGA
* * *
14990885 GCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
14990922 CCGATATATG
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
47 3 0.03
48 107 0.95
49 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGA
Found at i:14990875 original size:96 final size:98
Alignment explanation
Indices: 14990744--14990952 Score: 334
Period size: 96 Copynumber: 2.2 Consensus size: 98
14990734 TGTGTGCGCT
14990744 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAAAGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAAAGCTAGTGTAAGACCATGTCT
*
14990809 AGGACATGGCATCGGC-CTC-A-ATATGCGAGCC
66 AGGACATGGCATCGGCAC-CGATATATGAGAGCC
*
14990840 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAAAGCTAGTGTAAGACCATGTCT
* *
14990905 GGGACATGGCATTGGCACCGATATATGAGAGCC
66 AGGACATGGCATCGGCACCGATATATGAGAGCC
* *
14990938 AGCGTAAGACGATGT
1 AGTGTAAGACCATGT
14990953 CCGAAACATC
Statistics
Matches: 104, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
96 79 0.76
97 2 0.02
98 23 0.22
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (98 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAAAGCTAGTGTAAGACCATGTCT
AGGACATGGCATCGGCACCGATATATGAGAGCC
Found at i:14997413 original size:48 final size:48
Alignment explanation
Indices: 14997349--14997678 Score: 340
Period size: 48 Copynumber: 6.9 Consensus size: 48
14997339 GGTTATGTGT
* *
14997349 GAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATGA
* * * * *** **
14997397 GAGCTAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCAATATTC
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATGA
* *
14997445 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATGA
* * * ** *
14997493 GAGCTAGTGTAAGACCATGTCTGGGA-ATGGCATCGGCCTTAATATGCC
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATG-A
* * *
14997541 G-GCCAGTGTAAGACCATGTTTGGAACATGGCATGGGCATTGTTATGT
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATGA
* * ** *
14997588 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACCGATGTATAA
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTG-T-TATGA
** * *
14997638 GAGCCAACGTAAGACCATATCTGGAACATGGCATCGACATT
1 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATT
14997679 TTACCCTTTT
Statistics
Matches: 227, Mismatches: 50, Indels: 8
0.80 0.18 0.03
Matches are distributed among these distances:
47 39 0.17
48 151 0.67
49 1 0.00
50 36 0.16
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATGA
Found at i:14997518 original size:96 final size:97
Alignment explanation
Indices: 14997349--14997622 Score: 455
Period size: 95 Copynumber: 2.9 Consensus size: 97
14997339 GGTTATGTGT
* *
14997349 GAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGGCATTGTTATGAGAGCTAGTATAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
*
14997414 TGTCTGGGACATGGCATCGGCCTCAATAT-TC
66 TGTCTGGGACATGGCATCGGCCTCAATATGCC
*
14997445 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
*
14997510 TGTCTGGGA-ATGGCATCGGCCTTAATATGCC
66 TGTCTGGGACATGGCATCGGCCTCAATATGCC
* * *
14997541 G-GCCAGTGTAAGACCATGTTTGGAACATGGCATGGGCATTGTTATGTGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
14997605 TGTCTGGGACATGGCATC
66 TGTCTGGGACATGGCATC
14997623 AGCACCGATG
Statistics
Matches: 167, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
95 86 0.51
96 81 0.49
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (97 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCA
TGTCTGGGACATGGCATCGGCCTCAATATGCC
Found at i:15003377 original size:31 final size:31
Alignment explanation
Indices: 15003339--15003417 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
15003329 TTTAACAGTT
*
15003339 ACTGGGCCGAAGCCTTTTTATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
15003370 ACTGGGCCAAAGCCTTTTCATAAATTATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
15003401 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
15003418 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:15003488 original size:42 final size:42
Alignment explanation
Indices: 15003441--15003532 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
15003431 TGGCCCTTAG
* *
15003441 GCCCATTTCAATATCACATGTAATATCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
15003483 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
15003525 GCCCATTT
1 GCCCATTT
15003533 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:15003711 original size:26 final size:26
Alignment explanation
Indices: 15003682--15003772 Score: 128
Period size: 26 Copynumber: 3.5 Consensus size: 26
15003672 TTAATAACTA
15003682 GGGCATAAGCCCTTTTCGGTAAATTG
1 GGGCATAAGCCCTTTTCGGTAAATTG
** *
15003708 GGGCATAAGCCCTTTTTCAATAAACTG
1 GGGCATAAGCCC-TTTTCGGTAAATTG
* *
15003735 GGGTATAAGCCCTTTTCGGTACATTG
1 GGGCATAAGCCCTTTTCGGTAAATTG
15003761 GGGCATAAGCCC
1 GGGCATAAGCCC
15003773 ATTTGCACTT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 33 0.60
27 22 0.40
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (26 bp):
GGGCATAAGCCCTTTTCGGTAAATTG
Found at i:15003831 original size:16 final size:16
Alignment explanation
Indices: 15003810--15003840 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15003800 ACCCAACCCA
*
15003810 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
15003826 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
15003841 CCCATATTTG
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:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:15004650 original size:27 final size:27
Alignment explanation
Indices: 15004610--15004661 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
15004600 TACAGGGGTA
15004610 TTACGGTCACTTTAACCTA-TAGGGGCT
1 TTACGGTCACTTT-ACCTATTAGGGGCT
**
15004637 TTACGGTCTTTTTACCTATTAGGGG
1 TTACGGTCACTTTACCTATTAGGGG
15004662 TATTTTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (27 bp):
TTACGGTCACTTTACCTATTAGGGGCT
Found at i:15004736 original size:27 final size:27
Alignment explanation
Indices: 15004706--15004803 Score: 79
Period size: 27 Copynumber: 3.6 Consensus size: 27
15004696 GTAAATCTAC
15004706 AAACCAAGGGTATTTCAGAAATTTTGT
1 AAACCAAGGGTATTTCAGAAATTTTGT
* * * * **
15004733 AAACAAATGGTATTTCTATAATTTTTAA
1 AAACCAAGGGTATTTC-AGAAATTTTGT
* * *
15004761 AAAGTCAAGGGTATTTCTGTAATTTTGT
1 AAA-CCAAGGGTATTTCAGAAATTTTGT
* *
15004789 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
15004804 TGGTAATTTT
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
27 25 0.47
28 18 0.34
29 10 0.19
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGAAATTTTGT
Found at i:15004809 original size:27 final size:27
Alignment explanation
Indices: 15004755--15004981 Score: 158
Period size: 27 Copynumber: 8.4 Consensus size: 27
15004745 TTTCTATAAT
* *
15004755 TTTTAAAAAGTCAAGGGTATTTCT-GTAA
1 TTTTATAAA-TCAGGGGTATTT-TGGTAA
*
15004783 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTATAAATCAGGGGTATTTTGGTAA
* *
15004810 TTTTATAAAT-TGAGGGTATTTCGGTAA
1 TTTTATAAATCAG-GGGTATTTTGGTAA
* * *
15004837 TTTCACAAA-CTAGTGGTATTTTGGTAA
1 TTTTATAAATC-AGGGGTATTTTGGTAA
*
15004864 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTATAAATC-AGGGGTATTTTGGTAA
* * * *
15004891 TTTTCTAAACCAAGGGTATTTTAGTAA
1 TTTTATAAATCAGGGGTATTTTGGTAA
* ****
15004918 TTTTGTAAATC-GAGGGTAAAACGGTAA
1 TTTTATAAATCAG-GGGTATTTTGGTAA
* * * *
15004945 TTCTGTAAATCAAGGGTACTTTGGTAA
1 TTTTATAAATCAGGGGTATTTTGGTAA
*
15004972 TTTTACAAAT
1 TTTTATAAAT
15004982 TGAGGACATT
Statistics
Matches: 158, Mismatches: 34, Indels: 15
0.76 0.16 0.07
Matches are distributed among these distances:
26 2 0.01
27 147 0.93
28 9 0.06
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTTATAAATCAGGGGTATTTTGGTAA
Found at i:15005007 original size:54 final size:54
Alignment explanation
Indices: 15004683--15004986 Score: 229
Period size: 54 Copynumber: 5.6 Consensus size: 54
15004673 TTTCATCCTA
* * * *** * *
15004683 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGAAATTTTGTAAA-
1 CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTGTAAAT
* * * ** *
15004736 CAAATGGTATTTCT-ATAATTTTTAAAAAGTCAAGGGTATTTCTGTAATTTTGTAAAT
1 C-AAGGGTATTT-TGGTAA-TTTTACAAA-TTGAGGGTATTTCGGTAATTTTGTAAAT
* * ***
15004793 CAGGGGTATTTTGGTAATTTTATAAATTGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTGTAAAT
* * * * *
15004846 CTAGTGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTCTAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTTGTAAAT
* ** * *** *
15004901 CAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTGTAAAT
*
15004955 CAAGGGTACTTTGGTAATTTTACAAATTGAGG
1 CAAGGGTATTTTGGTAATTTTACAAATTGAGG
15004987 ACATTTTAGT
Statistics
Matches: 196, Mismatches: 45, Indels: 19
0.75 0.17 0.07
Matches are distributed among these distances:
53 4 0.02
54 136 0.69
55 20 0.10
56 35 0.18
57 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTGTAAAT
Found at i:15009498 original size:21 final size:21
Alignment explanation
Indices: 15009473--15009522 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
15009463 ATTGTTGAGA
**
15009473 AGGAAGTTATTGCTGCAGAAG
1 AGGAAGTTATTGCTAAAGAAG
* *
15009494 AGGAATTTGTTGCTAAAGAAG
1 AGGAAGTTATTGCTAAAGAAG
*
15009515 AAGAAGTT
1 AGGAAGTT
15009523 GCTGAAAATG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.30, T:0.26
Consensus pattern (21 bp):
AGGAAGTTATTGCTAAAGAAG
Found at i:15009993 original size:17 final size:17
Alignment explanation
Indices: 15009971--15010003 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15009961 GTAAGTACAC
*
15009971 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
15009988 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
15010004 CATGTTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:15010149 original size:29 final size:30
Alignment explanation
Indices: 15010117--15010175 Score: 111
Period size: 29 Copynumber: 2.0 Consensus size: 30
15010107 GCAAGGTTTA
15010117 ATTATAGTTAATGAAAATTGTT-AAAAATT
1 ATTATAGTTAATGAAAATTGTTCAAAAATT
15010146 ATTATAGTTAATGAAAATTGTTCAAAAATT
1 ATTATAGTTAATGAAAATTGTTCAAAAATT
15010176 TTTGTTACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (30 bp):
ATTATAGTTAATGAAAATTGTTCAAAAATT
Found at i:15012662 original size:21 final size:23
Alignment explanation
Indices: 15012621--15012669 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
15012611 TTATGTATGA
15012621 AACACATTGACTAGTTATATACG
1 AACACATTGACTAGTTATATACG
*
15012644 AACATATTGACTAGTTATATACG
1 AACACATTGACTAGTTATATACG
15012667 AAC
1 AAC
15012670 TTAAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (23 bp):
AACACATTGACTAGTTATATACG
Found at i:15013322 original size:99 final size:94
Alignment explanation
Indices: 15013115--15013337 Score: 236
Period size: 92 Copynumber: 2.3 Consensus size: 94
15013105 ATTGGTGTGA
* * ** ** * **
15013115 GCCAGTGTAAGACCATGTCCAGGACATAGCATCGGCATTGAGATG--AGTGCTAGTGTAAGACAT
1 GCCAGTGTAAAACCATGTCCGGGACATAGCATTAGCACGGATATGCAAAAGCTAGTGTAAGACAT
*
15013178 GTCTGGGACATGCATCGGCTACGAGATGT
66 GTCTGGGACATGCATCGGCTACAAGATGT
* * *
15013207 GTCAGTGTAAAACCATGTCTGGGACATGGCATTAGCACGGATATGCAAAAGCTAGTGTAAGACCA
1 GCCAGTGTAAAACCATGTCCGGGACATAGCATTAGCACGGATATGCAAAAGCTAGTGTAAGA-CA
*
15013272 TGTTTGGGACATGGCATCGGCCT-CAATGATGAT
65 TGTCTGGGACAT-GCATCGG-CTACAA-GATG-T
*
15013305 AGCCAGTGTAAGACCATGTCCGGGACATAGCAT
1 -GCCAGTGTAAAACCATGTCCGGGACATAGCAT
15013338 CGGTAACTTA
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
92 35 0.33
94 13 0.12
95 13 0.12
96 9 0.09
97 6 0.06
98 1 0.01
99 28 0.27
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
GCCAGTGTAAAACCATGTCCGGGACATAGCATTAGCACGGATATGCAAAAGCTAGTGTAAGACAT
GTCTGGGACATGCATCGGCTACAAGATGT
Found at i:15020817 original size:46 final size:48
Alignment explanation
Indices: 15020727--15020999 Score: 217
Period size: 46 Copynumber: 5.8 Consensus size: 48
15020717 GTTGGTGTGA
* * **
15020727 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAAGACGAGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGAGT
* * *
15020775 GCTAGTGTAAGA-CATTTCTGGGACAT-GCATCGGCCTCGAGACGTA-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACG-AGT
** *
15020821 GCCCCTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGA--TGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGACGAGT
* * * * * * *
15020865 GTCAGTGTCAGACCATGTCTGGGATATGGCATCAGCAC-GGATTTACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGA--GACGAGT
* *
15020915 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGA-T
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GACGAGT
*
15020963 AGCCAGTGTAAGACCATGT-TCAGGACATGGCATCGGC
1 -GCCAGTGTAAGACCATGTCT-GGGACATGGCATCGGC
15021000 AACTTACCCT
Statistics
Matches: 177, Mismatches: 34, Indels: 27
0.74 0.14 0.11
Matches are distributed among these distances:
44 8 0.05
45 15 0.08
46 56 0.32
47 13 0.07
48 14 0.08
49 37 0.21
50 34 0.19
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGAGT
Found at i:15027596 original size:28 final size:28
Alignment explanation
Indices: 15027527--15027627 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
15027517 GACAAGATTG
* * * *
15027527 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
15027557 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
15027585 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
15027614 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
15027628 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:15034756 original size:28 final size:28
Alignment explanation
Indices: 15034687--15034787 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
15034677 GACAAGATTG
* * * *
15034687 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
15034717 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
15034745 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
15034774 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
15034788 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:15044449 original size:29 final size:29
Alignment explanation
Indices: 15044328--15044460 Score: 108
Period size: 29 Copynumber: 4.6 Consensus size: 29
15044318 TACTCGATTT
* *
15044328 CGCACACTTAGTGCCATGCA-ATTT-AAGCC
1 CGCACACTTAGTGCCAT--ATATTTCCAGCA
* *** * *
15044357 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** * *
15044386 CGCACACCCAGTGCCGTATTTTTTCCAGCA
1 CGCACACTTAGTGCCATA-TATTTCCAGCA
*
15044416 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
15044445 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
15044461 ATCTCGTCAC
Statistics
Matches: 82, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
27 1 0.01
28 2 0.02
29 59 0.72
30 20 0.24
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:15049849 original size:29 final size:29
Alignment explanation
Indices: 15049815--15049888 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
15049805 TAATCAGCCG
*
15049815 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
15049844 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
*
15049873 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
15049889 ATCTCTCAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:15051879 original size:26 final size:26
Alignment explanation
Indices: 15051849--15051912 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
15051839 ATTAAGAATG
15051849 TTATTAAATTAT-ATTTAATAATAATTA
1 TTATTAAATTATGA-TTAA-AATAATTA
* * *
15051876 -TATTAAAATATGATTAAATTATTTA
1 TTATTAAATTATGATTAAAATAATTA
15051901 TTATTAAATTAT
1 TTATTAAATTAT
15051913 TTAAAAATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 6 0.19
26 24 0.77
27 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TTATTAAATTATGATTAAAATAATTA
Found at i:15053412 original size:91 final size:91
Alignment explanation
Indices: 15053257--15053428 Score: 335
Period size: 91 Copynumber: 1.9 Consensus size: 91
15053247 GTTACCACCT
15053257 CAAAATCCAAGGTTTGAGTCTTGGTTATTACATCCTCTTCCCAATTTATAAGGCTTTCTTTGTAT
1 CAAAATCCAAGGTTTGAGTCTTGGTTATTACATCCTCTTCCCAATTTATAAGGCTTTCTTTGTAT
15053322 GGGTGTAATGAAATTGGCTTTGATAA
66 GGGTGTAATGAAATTGGCTTTGATAA
*
15053348 CAAAATTCAAGGTTTGAGTCTTGGTTATTACATCCTCTTCCCAATTTATAAGGCTTTCTTTGTAT
1 CAAAATCCAAGGTTTGAGTCTTGGTTATTACATCCTCTTCCCAATTTATAAGGCTTTCTTTGTAT
15053413 GGGTGTAATGAAATTG
66 GGGTGTAATGAAATTG
15053429 ACTGTAGCAC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 80 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (91 bp):
CAAAATCCAAGGTTTGAGTCTTGGTTATTACATCCTCTTCCCAATTTATAAGGCTTTCTTTGTAT
GGGTGTAATGAAATTGGCTTTGATAA
Found at i:15062085 original size:54 final size:53
Alignment explanation
Indices: 15061980--15062115 Score: 157
Period size: 54 Copynumber: 2.6 Consensus size: 53
15061970 GACACACGAT
* * * * * * *
15061980 CGTGTCGCCAGGCCGTTTAACTCACTGTGCCCGTGTAGCTTAGGGTGACACGG
1 CGTGTCGCCAGGCCATGTAACTCTCTGTGCCCGTATAGCTCAAGGTCACACGG
* *
15062033 CTGTGTCGCCAGGCCATGTAACTTTCTGTGCCCGTATGGCTCAAGGTCACACGG
1 C-GTGTCGCCAGGCCATGTAACTCTCTGTGCCCGTATAGCTCAAGGTCACACGG
* *
15062087 C-TGTCACTAGGCCATGTAACTCTCTGTGC
1 CGTGTCGCCAGGCCATGTAACTCTCTGTGC
15062116 TTGTGTGGAC
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
52 25 0.36
53 1 0.01
54 44 0.63
ACGTcount: A:0.16, C:0.29, G:0.28, T:0.26
Consensus pattern (53 bp):
CGTGTCGCCAGGCCATGTAACTCTCTGTGCCCGTATAGCTCAAGGTCACACGG
Done.