Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 50 of 187
Found at i:14970840 original size:43 final size:43
Alignment explanation
Indices: 14970773--14970943 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
14970763 ACATAGGATT
* * *
14970773 TCGATATGTGTTTTCGTGTAAGACCA-GATTTGGGACGTTGGCA
1 TCGATATGTGTTTACGTGTAAGACCACG-TCTGGGACATTGGCA
* *
14970816 TCGACT-TGTGTTTACGTGTAAGACCATGTATGGGACATTGGCA
1 TCGA-TATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCA
* *
14970859 TC-ATATTTGATTT--GTGTAAGACC-CTGTCTGGGACAATGGCA
1 TCGATATGTG-TTTACGTGTAAGACCAC-GTCTGGGACATTGGCA
* * *
14970900 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCA
14970943 T
1 T
14970944 TGTACGAGTC
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
41 29 0.27
42 10 0.09
43 65 0.61
44 3 0.03
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
TCGATATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:14977044 original size:18 final size:18
Alignment explanation
Indices: 14977009--14977043 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14976999 TAAACTGGAC
*
14977009 ATTTATTTGGTTTATTTT
1 ATTTATTTGATTTATTTT
14977027 ATTTATTTGATTT-TTTT
1 ATTTATTTGATTTATTTT
14977044 TTTCATATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
ATTTATTTGATTTATTTT
Found at i:14980020 original size:26 final size:26
Alignment explanation
Indices: 14979984--14980036 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
14979974 CATACTATTC
14979984 TAGGAATGTTACTATTTTTTAGTTTA
1 TAGGAATGTTACTATTTTTTAGTTTA
14980010 TAGGAATGTTACTATTTTTTAGTTTA
1 TAGGAATGTTACTATTTTTTAGTTTA
14980036 T
1 T
14980037 TTAATACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.55
Consensus pattern (26 bp):
TAGGAATGTTACTATTTTTTAGTTTA
Found at i:14981860 original size:27 final size:27
Alignment explanation
Indices: 14981841--14981892 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
14981831 GACTTCTCCG
14981841 CATTTAATGTCTTAGCGGACTACCCTA
1 CATTTAATGTCTTAGCGGACTACCCTA
* *
14981868 CATTTAATGTCTTGGCAGACTACCC
1 CATTTAATGTCTTAGCGGACTACCC
14981893 CATGTCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (27 bp):
CATTTAATGTCTTAGCGGACTACCCTA
Found at i:14981902 original size:27 final size:26
Alignment explanation
Indices: 14981841--14981905 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
14981831 GACTTCTCCG
*
14981841 CATTTAATGTCTTAGCGGACTACCCTA
1 CATTTAATGTCTTAGCAGACTACCC-A
*
14981868 CATTTAATGTCTTGGCAGACTACCC-
1 CATTTAATGTCTTAGCAGACTACCCA
14981893 CATGTCTAATGTC
1 CAT-T-TAATGTC
14981906 CCGACGAGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 3 0.09
26 1 0.03
27 30 0.88
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (26 bp):
CATTTAATGTCTTAGCAGACTACCCA
Found at i:14981996 original size:64 final size:66
Alignment explanation
Indices: 14981919--14982081 Score: 186
Period size: 68 Copynumber: 2.5 Consensus size: 66
14981909 ACGAGCTCCA
** * * * *
14981919 TATGTTGTTATAGCCGAGCTATGGTCTT-GA-TTTATCCCCATGATTAACGTCTTGTTGGATTCT
1 TATGTTGCCATAGCCGAGCTATGGTCTTACATTTTATCCCCATGATTAACGTCTTGGTAGACTCT
*
14981982 T
66 C
* * *
14981983 TATGTTGCCATAGCTGAGCTATAGTCTTACACATTTTCTCCCCATGATTAACGTCTTGGTAGACT
1 TATGTTGCCATAGCCGAGCTATGGTCTT--ACATTTTATCCCCATGATTAACGTCTTGGTAGACT
14982048 CTC
64 CTC
* *
14982051 TATGTTTCCATAGTCGAGCTATGGTCTTACA
1 TATGTTGCCATAGCCGAGCTATGGTCTTACA
14982082 CCTTAAATTT
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
64 24 0.30
66 3 0.04
67 1 0.01
68 53 0.65
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (66 bp):
TATGTTGCCATAGCCGAGCTATGGTCTTACATTTTATCCCCATGATTAACGTCTTGGTAGACTCT
C
Found at i:14982055 original size:68 final size:68
Alignment explanation
Indices: 14981953--14982082 Score: 190
Period size: 68 Copynumber: 1.9 Consensus size: 68
14981943 TCTTGATTTA
* * * *
14981953 TCCCCATGATTAACGTCTTGTTGGATTCTTTATGTTGCCATAG-CTGAGCTATAGTCTTACACAT
1 TCCCCATGATTAACGTCTTGGTAGACTCTCTATGTTGCCATAGTC-GAGCTATAGTCTTACACAT
14982017 TTTC
65 TTTC
* *
14982021 TCCCCATGATTAACGTCTTGGTAGACTCTCTATGTTTCCATAGTCGAGCTATGGTCTTACAC
1 TCCCCATGATTAACGTCTTGGTAGACTCTCTATGTTGCCATAGTCGAGCTATAGTCTTACAC
14982083 CTTAAATTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 54 0.98
69 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (68 bp):
TCCCCATGATTAACGTCTTGGTAGACTCTCTATGTTGCCATAGTCGAGCTATAGTCTTACACATT
TTC
Found at i:14985529 original size:28 final size:30
Alignment explanation
Indices: 14985464--14985536 Score: 105
Period size: 28 Copynumber: 2.5 Consensus size: 30
14985454 TCTTTTTAAT
*
14985464 ATATTTATTTAATTATTTTTTAAGTAAATAG
1 ATATTTA-TTAATTATTTATTAAGTAAATAG
*
14985495 ATATTTATTATTTA-TTATTAAGTAAA-AG
1 ATATTTATTAATTATTTATTAAGTAAATAG
14985523 ATATTTATTAATTA
1 ATATTTATTAATTA
14985537 AATAATTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 15 0.38
29 11 0.28
30 6 0.15
31 7 0.18
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.53
Consensus pattern (30 bp):
ATATTTATTAATTATTTATTAAGTAAATAG
Found at i:14986515 original size:23 final size:23
Alignment explanation
Indices: 14986484--14986594 Score: 159
Period size: 23 Copynumber: 4.8 Consensus size: 23
14986474 AGCTTTGCCA
14986484 ATCAAGCACTTTATGTGTCGTAT
1 ATCAAGCACTTTATGTGTCGTAT
*
14986507 ATCAGGCACTTTATGTGTCGTAT
1 ATCAAGCACTTTATGTGTCGTAT
14986530 ATCAAGCACTTTATGTGTCGTAT
1 ATCAAGCACTTTATGTGTCGTAT
* * *
14986553 ATTAGGCACTTTATGTGTTGTAT
1 ATCAAGCACTTTATGTGTCGTAT
* * *
14986576 TTCAAGCACCTCATGTGTC
1 ATCAAGCACTTTATGTGTC
14986595 ATATCAGGCA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 77 1.00
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (23 bp):
ATCAAGCACTTTATGTGTCGTAT
Found at i:14986537 original size:46 final size:46
Alignment explanation
Indices: 14986484--14986605 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 46
14986474 AGCTTTGCCA
14986484 ATCAAGCACTTTATGTGTCGTATATCAGGCACTTTATGTGTCGTAT
1 ATCAAGCACTTTATGTGTCGTATATCAGGCACTTTATGTGTCGTAT
* *
14986530 ATCAAGCACTTTATGTGTCGTATATTAGGCACTTTATGTGTTGTAT
1 ATCAAGCACTTTATGTGTCGTATATCAGGCACTTTATGTGTCGTAT
* * *
14986576 TTCAAGCACCTCATGTGTC--ATATCAGGCAC
1 ATCAAGCACTTTATGTGTCGTATATCAGGCAC
14986606 CTCTTGTAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
44 10 0.14
46 60 0.86
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (46 bp):
ATCAAGCACTTTATGTGTCGTATATCAGGCACTTTATGTGTCGTAT
Found at i:14994053 original size:31 final size:30
Alignment explanation
Indices: 14994007--14994117 Score: 100
Period size: 31 Copynumber: 3.7 Consensus size: 30
14993997 ACTAGAATTA
*
14994007 ATCT-CATTAATATTAAATTAATAAAATATT
1 ATCTACATAAATATTAAATTAATAAAATA-T
* * **
14994037 ATCTAGATCAATATTAAATTTAATTTAATAT
1 ATCTACATAAATATTAAA-TTAATAAAATAT
* * *
14994068 ATC-ATATTAATAATAAATTAATAAAATACT
1 ATCTACATAAATATTAAATTAATAAAATA-T
*
14994098 ATCTACAGAAATATTAAATT
1 ATCTACATAAATATTAAATT
14994118 TAATTTAATA
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
29 9 0.14
30 19 0.30
31 27 0.42
32 9 0.14
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (30 bp):
ATCTACATAAATATTAAATTAATAAAATAT
Found at i:14994111 original size:61 final size:61
Alignment explanation
Indices: 14994012--14994147 Score: 218
Period size: 61 Copynumber: 2.2 Consensus size: 61
14994002 AATTAATCTC
* * **
14994012 ATTAATATTAAATTAATAAAATATTATCTAGATCAATATTAAATTTAATTTAATATATCAT
1 ATTAATATTAAATTAATAAAATACTATCTACAGAAATATTAAATTTAATTTAATATATCAT
* *
14994073 ATTAATAATAAATTAATAAAATACTATCTACAGAAATATTAAATTTAATTTAATATCTCAT
1 ATTAATATTAAATTAATAAAATACTATCTACAGAAATATTAAATTTAATTTAATATATCAT
14994134 ATTAATATTAAATT
1 ATTAATATTAAATT
14994148 CATTAAAGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (61 bp):
ATTAATATTAAATTAATAAAATACTATCTACAGAAATATTAAATTTAATTTAATATATCAT
Found at i:14996907 original size:26 final size:25
Alignment explanation
Indices: 14996841--14996966 Score: 108
Period size: 26 Copynumber: 4.9 Consensus size: 25
14996831 AATTTTCTTG
* * *
14996841 AAATTTTAACGAGAGTAAAATTGTCA
1 AAATTTT-ACGGGGGTAAAATTGTTA
* *
14996867 AAATTTTACTAGGGGTAAAATCGTTA
1 AAATTTTAC-GGGGGTAAAATTGTTA
* *
14996893 AAATTTTATCGGGGGTATAATTGGTA
1 AAATTTTA-CGGGGGTAAAATTGTTA
* * *
14996919 AAGTTTTACTGGGGTACAATTGTTA
1 AAATTTTACGGGGGTAAAATTGTTA
** *
14996944 AAATTTTACTCGGGTACAATTGT
1 AAATTTTACGGGGGTAAAATTGT
14996967 GGTGAGAAAA
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
25 37 0.45
26 45 0.54
27 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.37
Consensus pattern (25 bp):
AAATTTTACGGGGGTAAAATTGTTA
Found at i:14996939 original size:25 final size:25
Alignment explanation
Indices: 14996859--14996966 Score: 126
Period size: 25 Copynumber: 4.2 Consensus size: 25
14996849 ACGAGAGTAA
* *
14996859 AATTGTCAAAATTTTACTAGGGGTAA
1 AATTGTTAAAATTTTACT-GGGGTAC
* * *
14996885 AATCGTTAAAATTTTATCGGGGGTAT
1 AATTGTTAAAATTTTA-CTGGGGTAC
* *
14996911 AATTGGTAAAGTTTTACTGGGGTAC
1 AATTGTTAAAATTTTACTGGGGTAC
*
14996936 AATTGTTAAAATTTTACTCGGGTAC
1 AATTGTTAAAATTTTACTGGGGTAC
14996961 AATTGT
1 AATTGT
14996967 GGTGAGAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
25 35 0.51
26 33 0.48
27 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.38
Consensus pattern (25 bp):
AATTGTTAAAATTTTACTGGGGTAC
Found at i:15008596 original size:15 final size:15
Alignment explanation
Indices: 15008571--15008613 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15008561 ATCTATTTGT
*
15008571 AATATAATTAATAT-
1 AATAAAATTAATATA
*
15008585 AATAACAATTAATGTA
1 AATAA-AATTAATATA
15008601 AATAAAATTAATA
1 AATAAAATTAATA
15008614 CGATAACCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 15 0.62
16 5 0.21
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (15 bp):
AATAAAATTAATATA
Found at i:15014210 original size:22 final size:22
Alignment explanation
Indices: 15014182--15014225 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
15014172 TATTGTTTTC
*
15014182 TCTTTTTTGTATTTGATTCCTT
1 TCTTTTTTCTATTTGATTCCTT
*
15014204 TCTTTTTTCTATTTGCTTCCTT
1 TCTTTTTTCTATTTGATTCCTT
15014226 GTAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.07, C:0.18, G:0.07, T:0.68
Consensus pattern (22 bp):
TCTTTTTTCTATTTGATTCCTT
Found at i:15015735 original size:3 final size:3
Alignment explanation
Indices: 15015729--15015769 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
15015719 TACTATTATT
15015729 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
15015770 TATTATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:15017944 original size:20 final size:19
Alignment explanation
Indices: 15017906--15017957 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
15017896 CTATTAATGT
15017906 ATTATATATATTTAAAATAA
1 ATTATAT-TATTTAAAATAA
*
15017926 ATTATATTATTTGAGAATAA
1 ATTATATTATTT-AAAATAA
*
15017946 AATATTATTATT
1 ATTA-TATTATT
15017958 AATTAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 5 0.18
20 16 0.57
21 7 0.25
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (19 bp):
ATTATATTATTTAAAATAA
Found at i:15019650 original size:2 final size:2
Alignment explanation
Indices: 15019645--15019697 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
15019635 TAACTGCTTC
* * * *
15019645 TA TA TA TA TA TA TA TA TT TA TT TA TA TA TA TA TA TA TC CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
15019687 TA TA TA CA TA T
1 TA TA TA TA TA T
15019698 TTAACATTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15019767 original size:20 final size:20
Alignment explanation
Indices: 15019726--15019773 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
15019716 TATACGCTTA
* **
15019726 TATATATATATTTTCTTCTT
1 TATATATATATTTTATAATT
*
15019746 TATTTATATATTTTATAATT
1 TATATATATATTTTATAATT
15019766 TATATATA
1 TATATATA
15019774 CATATATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATATATATTTTATAATT
Found at i:15019806 original size:43 final size:42
Alignment explanation
Indices: 15019723--15019816 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 42
15019713 ATATATACGC
*
15019723 TTATATATATATATTTTCTTCTTTATTTATATATTTTATAAT
1 TTATATATACATATTTTCTTCTTTATTTATATATTTTATAAT
*
15019765 TTATATATACATATATTT-TTGTATTATTT-TATAATTTTATAAT
1 TTATATATACATAT-TTTCTTCT-TTATTTATAT-ATTTTATAAT
*
15019808 GTATATATA
1 TTATATATA
15019817 AACACCCATA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
42 19 0.41
43 27 0.59
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (42 bp):
TTATATATACATATTTTCTTCTTTATTTATATATTTTATAAT
Found at i:15025070 original size:6 final size:6
Alignment explanation
Indices: 15025059--15025098 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
15025049 ATACTAGCAG
*
15025059 TGAACC TGAACC TGAACC TGAACC TGAACC TGAACT TGAA
1 TGAACC TGAACC TGAACC TGAACC TGAACC TGAACC TGAA
15025099 ATTGAAAGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (6 bp):
TGAACC
Found at i:15027813 original size:12 final size:12
Alignment explanation
Indices: 15027793--15027827 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
15027783 TGATATCAAA
*
15027793 TTAATTAATAAC
1 TTAAATAATAAC
15027805 TTAAATAATAAC
1 TTAAATAATAAC
15027817 TTAAATAATAA
1 TTAAATAATAA
15027828 TATAGATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (12 bp):
TTAAATAATAAC
Found at i:15030426 original size:2 final size:2
Alignment explanation
Indices: 15030419--15030456 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
15030409 TCATATAATG
* *
15030419 CT CT CT CT CT CT CT CT CT CT CT CT CT CA CT CT AT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15030457 ATGAAGAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.05, C:0.47, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:15030670 original size:4 final size:4
Alignment explanation
Indices: 15030663--15030700 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
15030653 ATATATATAT
15030663 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG AT
15030701 CATTGTCAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:15031631 original size:14 final size:14
Alignment explanation
Indices: 15031612--15031639 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15031602 ACCTTATTCC
15031612 TTTTTCTAGTCACA
1 TTTTTCTAGTCACA
15031626 TTTTTCTAGTCACA
1 TTTTTCTAGTCACA
15031640 CCAAATTTTC
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:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (14 bp):
TTTTTCTAGTCACA
Found at i:15037709 original size:4 final size:4
Alignment explanation
Indices: 15037700--15037745 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
15037690 TTTACAAGCC
*
15037700 TTAT TTAT TTAT TCAT TTAT TTAT TTAT TTA- TTACT TT-T TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTA
15037746 CACTTAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
3 6 0.16
4 29 0.78
5 2 0.05
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:15041627 original size:19 final size:20
Alignment explanation
Indices: 15041586--15041634 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
15041576 TGTCTCTTTT
* *
15041586 TGCATT-CATTTCATTCGTT
1 TGCATTACATTTCATTCATA
15041605 TGCATTACATTTCA-TCATA
1 TGCATTACATTTCATTCATA
15041624 TGCATTA-ATTT
1 TGCATTACATTT
15041635 TCATAAACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 4 0.15
19 16 0.59
20 7 0.26
ACGTcount: A:0.24, C:0.18, G:0.08, T:0.49
Consensus pattern (20 bp):
TGCATTACATTTCATTCATA
Found at i:15049532 original size:51 final size:51
Alignment explanation
Indices: 15049468--15049750 Score: 220
Period size: 51 Copynumber: 5.8 Consensus size: 51
15049458 CATTCTAGCG
* * *
15049468 AATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAAGCTATAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAGTTACA
* * * *
15049519 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAG--AT--G---CG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAGTTACA
* * *
15049563 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAGTTACA
* ** * *
15049613 AATTCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAG--AT--G---CG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAGTTACA
* * * *
15049658 AATCTTATTTCCCTGAAGTT-CTAGTAGAACAGACTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGC-AGTGGAACAGATTAAAGCTATAAGTTACA
* * * * *
15049709 AATCTTATCCCCCTGAAGTAGCAGTGGAGCAAATTGAAGCTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
15049751 CTAATCTTAT
Statistics
Matches: 175, Mismatches: 39, Indels: 36
0.70 0.16 0.14
Matches are distributed among these distances:
44 64 0.37
45 2 0.01
46 2 0.01
47 2 0.01
48 2 0.01
49 3 0.02
50 2 0.01
51 97 0.55
52 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (51 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAGTTACA
Found at i:15049582 original size:44 final size:44
Alignment explanation
Indices: 15049519--15049677 Score: 165
Period size: 44 Copynumber: 3.5 Consensus size: 44
15049509 ATAAGTTACA
*
15049519 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCG
* * * * * *
15049563 AATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGC--G
* *
15049609 TTAAAATTCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGATGCG
1 ----AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCG
*
15049658 AATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTT
15049678 CTAGTAGAAC
Statistics
Matches: 92, Mismatches: 16, Indels: 14
0.75 0.13 0.11
Matches are distributed among these distances:
44 53 0.58
45 2 0.02
46 1 0.01
49 1 0.01
50 2 0.02
51 33 0.36
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATGCG
Found at i:15049590 original size:95 final size:95
Alignment explanation
Indices: 15049465--15049787 Score: 429
Period size: 95 Copynumber: 3.4 Consensus size: 95
15049455 AGTCATTCTA
* *
15049465 GCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAAATTAAAGCTATAAGTTACAAATCTTATCTC
1 GCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTC
15049530 CCTGAAGTTACAGTGGAGCAGATTGAAGAT
66 CCTGAAGTTACAGTGGAGCAGATTGAAGAT
15049560 GCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA-AAATTCTTATCT
1 GCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAA-TCTTATCT
** *
15049624 CCCTGAAGTTGTAGTGGAGTAGATTGAAGAT
65 CCCTGAAGTTACAGTGGAGCAGATTGAAGAT
* * * *
15049655 GCGAATCTTATTTCCCTGAAGTT-CTAGTAGAACAGACTAAAGCTACAAGTTACAAATCTTATCC
1 GCGAATCTTATTTCCCTAAAGTTGC-AGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCT
* *
15049719 CCCTGAAG-TAGCAGTGGAGCAAATTGAAGCT
65 CCCTGAAGTTA-CAGTGGAGCAGATTGAAGAT
* * * * * *
15049750 ACTAATCTTATCTT-CCTAAAATTACAGTAGAGCAGATT
1 GCGAATCTTAT-TTCCCTAAAGTTGCAGTGGAACAGATT
15049788 GAAGTGACAA
Statistics
Matches: 202, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
94 5 0.02
95 191 0.95
96 6 0.03
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (95 bp):
GCGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTC
CCTGAAGTTACAGTGGAGCAGATTGAAGAT
Found at i:15051295 original size:4 final size:4
Alignment explanation
Indices: 15051286--15051327 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
15051276 TTTACAAGCC
*
15051286 TTAT TTAT TTAT TTAT TTAT TCAT TTA- TTACT TT-T TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT TTA
15051328 CACTTAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 6 0.18
4 25 0.76
5 2 0.06
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:15051387 original size:3 final size:3
Alignment explanation
Indices: 15051379--15051417 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
15051369 TTTATTAGTC
15051379 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15051418 TGTTTTTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15051546 original size:3 final size:3
Alignment explanation
Indices: 15051540--15051599 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
15051530 CTTTATTTTT
* *
15051540 TTA TTA TGA TT- TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15051587 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
15051600 AGCATTCCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 1 0.02
3 51 0.98
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:15051618 original size:4 final size:4
Alignment explanation
Indices: 15051609--15051636 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
15051599 TAGCATTCCC
15051609 TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT
15051637 ATCATTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:15062313 original size:49 final size:49
Alignment explanation
Indices: 15062256--15062365 Score: 193
Period size: 49 Copynumber: 2.2 Consensus size: 49
15062246 CCCGAATAAG
15062256 AAAAGGCAAAACTACGTCGCTTTGATAAATGATTACCTTTTCTAAAGTT
1 AAAAGGCAAAACTACGTCGCTTTGATAAATGATTACCTTTTCTAAAGTT
* *
15062305 AAAAGGCAAAACTACGTCGTTTTGATAAATGTTTACCTTTTCTAAAGTT
1 AAAAGGCAAAACTACGTCGCTTTGATAAATGATTACCTTTTCTAAAGTT
*
15062354 AAAAGGAAAAAC
1 AAAAGGCAAAAC
15062366 CATTATACTG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 58 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (49 bp):
AAAAGGCAAAACTACGTCGCTTTGATAAATGATTACCTTTTCTAAAGTT
Found at i:15065088 original size:38 final size:38
Alignment explanation
Indices: 15065037--15065128 Score: 184
Period size: 38 Copynumber: 2.4 Consensus size: 38
15065027 GGTACTACTT
15065037 TGGAGTGTAGGGTTGGGTGGGTTAATTATATCTCCACA
1 TGGAGTGTAGGGTTGGGTGGGTTAATTATATCTCCACA
15065075 TGGAGTGTAGGGTTGGGTGGGTTAATTATATCTCCACA
1 TGGAGTGTAGGGTTGGGTGGGTTAATTATATCTCCACA
15065113 TGGAGTGTAGGGTTGG
1 TGGAGTGTAGGGTTGG
15065129 ACGGAGATAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.20, C:0.09, G:0.38, T:0.34
Consensus pattern (38 bp):
TGGAGTGTAGGGTTGGGTGGGTTAATTATATCTCCACA
Found at i:15066087 original size:32 final size:32
Alignment explanation
Indices: 15066046--15066113 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
15066036 TTATGTTCCA
* *
15066046 ATTT-TATTTTAGAGGCCTAGT-TGTGAGGTCC
1 ATTTATATTTTAAAGACCTAGTCT-TGAGGTCC
*
15066077 GTTTATATTTTAAAGACCTAGTCTTGAGGTCC
1 ATTTATATTTTAAAGACCTAGTCTTGAGGTCC
15066109 ATTTA
1 ATTTA
15066114 GGTTTGTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 3 0.10
32 27 0.87
33 1 0.03
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.43
Consensus pattern (32 bp):
ATTTATATTTTAAAGACCTAGTCTTGAGGTCC
Found at i:15066347 original size:43 final size:42
Alignment explanation
Indices: 15066271--15066353 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 42
15066261 TAAGGTTTGT
* *
15066271 TTTTGTTTTAAAGGCCTAATTTTGAGGTCCATTTATTTTTCAG
1 TTTTGTTTTAAAGGCCTAATTATAAGGTCCATTT-TTTTTCAG
*
15066314 TTTTGTTTTAAAGGCCTAGA-TATAAGGTTCATTTTTTTTC
1 TTTTGTTTTAAAGGCCTA-ATTATAAGGTCCATTTTTTTTC
15066354 TTGAATACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 6 0.17
43 29 0.81
44 1 0.03
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.52
Consensus pattern (42 bp):
TTTTGTTTTAAAGGCCTAATTATAAGGTCCATTTTTTTTCAG
Found at i:15068570 original size:107 final size:107
Alignment explanation
Indices: 15068384--15068687 Score: 520
Period size: 107 Copynumber: 2.9 Consensus size: 107
15068374 AAGATGTAAG
* * * *
15068384 AGGATATTTAGCTATTCGGTCCAACGAG-AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
15068448 AATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTAAA
66 AATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTAAA
15068490 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
*
15068555 AATTTCCAAATGCAAAACATTGCCTTATTTTAAAATTTTAAA
66 AATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTAAA
* * *
15068597 AGGATATTTGGTTATTTAGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
*
15068662 AATTTCCAAACACAAAACATTGCCTT
66 AATTTCCAAACGCAAAACATTGCCTT
15068688 GAAATAAAAA
Statistics
Matches: 187, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
106 25 0.13
107 162 0.87
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
AATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTAAA
Found at i:15068925 original size:10 final size:10
Alignment explanation
Indices: 15068910--15068970 Score: 74
Period size: 10 Copynumber: 6.1 Consensus size: 10
15068900 CAACAACAAT
15068910 AATAATAATA
1 AATAATAATA
15068920 AATAATAA-A
1 AATAATAATA
15068929 TAATAATAAT-
1 -AATAATAATA
15068939 AATAATATATA
1 AATAATA-ATA
15068950 GAATAA-AATA
1 -AATAATAATA
15068960 AATAATAATA
1 AATAATAATA
15068970 A
1 A
15068971 TAGAAAACAT
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
9 13 0.29
10 26 0.58
11 1 0.02
12 5 0.11
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (10 bp):
AATAATAATA
Found at i:15068933 original size:23 final size:23
Alignment explanation
Indices: 15068907--15068990 Score: 102
Period size: 23 Copynumber: 3.6 Consensus size: 23
15068897 CAACAACAAC
15068907 AATAATAATAATAAATAATA-AAT
1 AATAATAATAAT-AATAATAGAAT
15068930 AATAATAATAATAATATATAGAAT
1 AATAATAATAATAATA-ATAGAAT
*
15068954 AA-AATAAATAATAATAATAGAAA
1 AATAAT-AATAATAATAATAGAAT
15068977 ACATAA-AATAATAA
1 A-ATAATAATAATAA
15068991 AATCCATGTA
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
22 4 0.07
23 33 0.60
24 16 0.29
25 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.02, T:0.27
Consensus pattern (23 bp):
AATAATAATAATAATAATAGAAT
Found at i:15068977 original size:20 final size:19
Alignment explanation
Indices: 15068907--15068992 Score: 78
Period size: 20 Copynumber: 4.8 Consensus size: 19
15068897 CAACAACAAC
15068907 AATAATAATAATAAATAATA
1 AATAATAATAATAAA-AATA
*
15068927 AATAATAATAATAATAAT-
1 AATAATAATAATAAAAATA
*
15068945 -AT-AT-AGAAT-AAAATA
1 AATAATAATAATAAAAATA
*
15068960 AATAATAATAATAGAAA-A
1 AATAATAATAATAAAAATA
*
15068978 CATAA-AATAATAAAA
1 AATAATAATAATAAAA
15068993 TCCATGTATA
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
14 4 0.07
15 4 0.07
16 4 0.07
17 13 0.24
18 9 0.17
19 6 0.11
20 14 0.26
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.27
Consensus pattern (19 bp):
AATAATAATAATAAAAATA
Found at i:15068990 original size:3 final size:3
Alignment explanation
Indices: 15068907--15068972 Score: 73
Period size: 3 Copynumber: 21.3 Consensus size: 3
15068897 CAACAACAAC
*
15068907 AAT AAT AAT AAT AAAT AAT AAAT AAT AAT AAT AAT AAT -AT ATAG AAT
1 AAT AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT A-AT AAT
15068954 AA- AAT AAAT AAT AAT AAT A
1 AAT AAT -AAT AAT AAT AAT A
15068973 GAAAACATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
2 4 0.07
3 40 0.73
4 11 0.20
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:15070904 original size:132 final size:132
Alignment explanation
Indices: 15070750--15071270 Score: 790
Period size: 132 Copynumber: 3.9 Consensus size: 132
15070740 TTACTTCCCT
* * ** * *
15070750 ACTACCTTGAGAAGATAAGATTCACCATCTATGATCTATTCCACTACTGCTTAGGGAGACGGAAT
1 ACTATCTTGAGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGTGACAGAAT
* * *
15070815 CTGTAATCTTTAACCTACTCCACTACTGCTTAGGGAGATAGGACTAACGGCTTAAATCTGCTTCT
66 CTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCT
15070880 CC
131 CC
* * *
15070882 ACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCTACTACTGCTTAGGGTGACAGAAT
1 ACTATCTTGAGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGTGACAGAAT
* *
15070947 CTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATATGCTTTT
66 CTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCT
15071012 CC
131 CC
*
15071014 ACTATCTTGAGAAGATAAGATTCACTATCTTTGATCTGCTCCACTACTGCTTAGGGTGACAGAAT
1 ACTATCTTGAGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGTGACAGAAT
* * *
15071079 CTGCAGTCTTCAACCTACTCCACTACTACTTAGGGATATAGGACTAATGGCTTAAATCTGCTTCT
66 CTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCT
15071144 CC
131 CC
* * * * * *
15071146 ACTATCTTGGGAAGATAAGATTCACCGTTTTTTATCTGCTCCACTACTGTTTAGGGGGACAGAAT
1 ACTATCTTGAGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGTGACAGAAT
* * **
15071211 CTACAATCTTCGACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTG
66 CTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTG
15071271 ATTCACTGTC
Statistics
Matches: 352, Mismatches: 37, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 352 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (132 bp):
ACTATCTTGAGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGTGACAGAAT
CTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCT
CC
Found at i:15071320 original size:44 final size:44
Alignment explanation
Indices: 15071266--15071513 Score: 277
Period size: 44 Copynumber: 5.6 Consensus size: 44
15071256 GGTGGCTTAA
*
15071266 ATCTGATTCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTTG
1 ATCTGCTTCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTTG
* * * *
15071310 ATCTGCTTCACCGTCAGTACAGGAAGGCAAGATCTGCTATCTTT-
1 ATCTGCTTCACTGTCAGTACAGGAAGGCAAG-GCTGGTGTCTTTG
* *
15071354 AGTCTGCTCCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCG
1 A-TCTGCTTCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTTG
* * * * * *
15071399 ATCTGCTT-GCTGTTAGTACAGGAAGGCAAGATCTGCTATC-TTC
1 ATCTGCTTCACTGTCAGTACAGGAAGGCAAG-GCTGGTGTCTTTG
* * *
15071442 AGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGTTGGTGTCTTTG
1 A-TCTGCTTCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTTG
**
15071487 ATCTGCTTCACTACCAGTACAGGAAGG
1 ATCTGCTTCACTGTCAGTACAGGAAGG
15071514 AATGATCTGC
Statistics
Matches: 167, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
43 22 0.13
44 83 0.50
45 62 0.37
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (44 bp):
ATCTGCTTCACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTTG
Found at i:15071457 original size:88 final size:89
Alignment explanation
Indices: 15071274--15071531 Score: 412
Period size: 88 Copynumber: 2.9 Consensus size: 89
15071264 AAATCTGATT
*
15071274 CACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCACCGTCAGTACAGGAAGGCA
1 CACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGTCAGTACAGGAAGGCA
*
15071339 AGATCTGCTATCTTTAGTCTGCTC
66 AGATCTGCTATCTTCAGTCTGCTC
* * *
15071363 CACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTT-GCTGTTAGTACAGGAAGGCA
1 CACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGTCAGTACAGGAAGGCA
15071427 AGATCTGCTATCTTCAGTCTGCTC
66 AGATCTGCTATCTTCAGTCTGCTC
* * **
15071451 CGCTGTCAGTACAGGAAGGCAAGGTTGGTGTCTTTGATCTGCTTCACTACCAGTACAGGAAGG-A
1 CACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGTCAGTACAGGAAGGCA
15071515 ATGATCTGCTATCTTCA
66 A-GATCTGCTATCTTCA
15071532 CCGATCTGTT
Statistics
Matches: 155, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
88 83 0.54
89 72 0.46
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (89 bp):
CACTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCACTGTCAGTACAGGAAGGCA
AGATCTGCTATCTTCAGTCTGCTC
Found at i:15072830 original size:18 final size:18
Alignment explanation
Indices: 15072807--15072866 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
15072797 CCTTTTCTTG
*
15072807 TTCTTTTCTTCTTATTCT
1 TTCTTTTCTTCTTTTTCT
*
15072825 TTCTTTTTTTCTTTTTTCT
1 TTCTTTTCTTC-TTTTTCT
15072844 TT-TTTTCTT-TTTTTCT
1 TTCTTTTCTTCTTTTTCT
*
15072860 TCCTTTT
1 TTCTTTT
15072867 TTTTAACAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 8 0.22
17 4 0.11
18 16 0.44
19 8 0.22
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (18 bp):
TTCTTTTCTTCTTTTTCT
Found at i:15072841 original size:7 final size:8
Alignment explanation
Indices: 15072807--15072860 Score: 74
Period size: 8 Copynumber: 6.6 Consensus size: 8
15072797 CCTTTTCTTG
*
15072807 TTCTTTTC
1 TTCTTTTT
15072815 TTCTTATTCT
1 TTCTT-TT-T
15072825 TTCTTTTT
1 TTCTTTTT
15072833 TTC-TTTT
1 TTCTTTTT
15072840 TTCTTTTT
1 TTCTTTTT
15072848 TTCTTTTT
1 TTCTTTTT
15072856 TTCTT
1 TTCTT
15072861 CCTTTTTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
7 7 0.17
8 26 0.62
9 4 0.10
10 5 0.12
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (8 bp):
TTCTTTTT
Found at i:15072844 original size:15 final size:15
Alignment explanation
Indices: 15072824--15072856 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
15072814 CTTCTTATTC
15072824 TTTCTTTTTTTCTTT
1 TTTCTTTTTTTCTTT
15072839 TTTCTTTTTTTCTTT
1 TTTCTTTTTTTCTTT
15072854 TTT
1 TTT
15072857 TCTTCCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTCTTTTTTTCTTT
Found at i:15072870 original size:16 final size:15
Alignment explanation
Indices: 15072824--15072870 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
15072814 CTTCTTATTC
15072824 TTTCTT-TTTTTCTTT
1 TTTCTTCTTTTT-TTT
*
15072839 TTTCTTTTTTTCTTTT
1 TTTCTTCTTTT-TTTT
*
15072855 TTTCTTCCTTTTTTT
1 TTTCTTCTTTTTTTT
15072870 T
1 T
15072871 AACAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 11 0.39
16 16 0.57
17 1 0.04
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTCTTCTTTTTTTT
Found at i:15077941 original size:16 final size:16
Alignment explanation
Indices: 15077920--15077954 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
15077910 TTCTAAAATG
*
15077920 AAATGCCATGTAGTCA
1 AAATGCCATGCAGTCA
15077936 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
15077952 AAA
1 AAA
15077955 CAAAACAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (16 bp):
AAATGCCATGCAGTCA
Found at i:15079192 original size:107 final size:107
Alignment explanation
Indices: 15078878--15079181 Score: 520
Period size: 107 Copynumber: 2.9 Consensus size: 107
15078868 AAGATGTAAG
* * * * *
15078878 AGGATATTTAGCTATTCGGTCCAACAAG-AAATCGAAACCCAGCACATTAGGGCACGTTTTCTCA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
15078942 AATTTCCAAATGCAAAACATTGCCTTATTTTAAAATTTTAAA
66 AATTTCCAAATGCAAAACATTGCCTTATTTTAAAATTTTAAA
* *
15078984 AGGATATTTGGCTATTTTGTCGAACGAGAAAATCGAAGCCCAGCACATTAGGGCACGTTTTCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
15079049 AATTTCCAAATGCAAAACATTGCCTTATTTTAAAATTTTAAA
66 AATTTCCAAATGCAAAACATTGCCTTATTTTAAAATTTTAAA
*
15079091 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCCTCG
1 AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
*
15079156 AATTTCCAAACGCAAAACATTGCCTT
66 AATTTCCAAATGCAAAACATTGCCTT
15079182 GAAAAAAAAT
Statistics
Matches: 186, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
106 23 0.12
107 163 0.88
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCG
AATTTCCAAATGCAAAACATTGCCTTATTTTAAAATTTTAAA
Found at i:15079430 original size:8 final size:8
Alignment explanation
Indices: 15079417--15079489 Score: 69
Period size: 8 Copynumber: 8.6 Consensus size: 8
15079407 AGAATAAATA
15079417 AAAATAAT
1 AAAATAAT
15079425 AAAATAAT
1 AAAATAAT
15079433 AATAATATAT
1 AA-AATA-AT
15079443 AAAA-AAT
1 AAAATAAT
15079450 AAAATAA-
1 AAAATAAT
15079457 AAAATAAT
1 AAAATAAT
*
15079465 CATAGAAAACAT
1 -A-A-AATA-AT
15079477 AAAATAAT
1 AAAATAAT
15079485 AAAAT
1 AAAAT
15079490 CTATGTATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
7 13 0.24
8 20 0.36
9 10 0.18
10 6 0.11
11 4 0.07
12 2 0.04
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:15079431 original size:14 final size:14
Alignment explanation
Indices: 15079412--15079464 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
15079402 TAATGAGAAT
15079412 AAATAAAAATAATA
1 AAATAAAAATAATA
*
15079426 AAATAATAATAAT-
1 AAATAAAAATAATA
*
15079439 ATAT-AAAA-AATA
1 AAATAAAAATAATA
15079451 AAATAAAAAATAAT
1 AAAT-AAAAATAAT
15079465 CATAGAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
11 3 0.10
12 6 0.19
13 3 0.10
14 16 0.52
15 3 0.10
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AAATAAAAATAATA
Found at i:15079432 original size:27 final size:25
Alignment explanation
Indices: 15079400--15079486 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 25
15079390 CAACAACAAC
*
15079400 AATAATGAGAATAAATAAAAATAATAA
1 AATAATAAGAATAAAT-AAAA-AATAA
* *
15079427 AATAATAATAATATATAAAAAATAA
1 AATAATAAGAATAAATAAAAAATAA
15079452 AATAA-AA-AATAATCATAGAAAACATAA
1 AATAATAAGAATAA--ATA-AAAA-ATAA
15079479 AATAATAA
1 AATAATAA
15079487 AATCTATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
23 4 0.08
24 2 0.04
25 13 0.25
26 8 0.16
27 22 0.43
28 2 0.04
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.23
Consensus pattern (25 bp):
AATAATAAGAATAAATAAAAAATAA
Found at i:15079435 original size:11 final size:11
Alignment explanation
Indices: 15079419--15079464 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
15079409 AATAAATAAA
15079419 AATAATAAAAT
1 AATAATAAAAT
*
15079430 AATAATAATAT
1 AATAATAAAAT
15079441 -ATAA-AAAAT
1 AATAATAAAAT
15079450 AA-AATAAAA-
1 AATAATAAAAT
15079459 AATAAT
1 AATAAT
15079465 CATAGAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
9 8 0.27
10 12 0.40
11 10 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:15079490 original size:25 final size:26
Alignment explanation
Indices: 15079417--15079490 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
15079407 AGAATAAATA
*
15079417 AAAATAATAAAATAATAATAAT-ATAT
1 AAAA-AATAAAATAATAATAATCATAG
*
15079443 AAAAAATAAAATAAAAAATAATCATAG
1 AAAAAATAAAAT-AATAATAATCATAG
*
15079470 AAAACATAAAATAATAA-AATC
1 AAAAAATAAAATAATAATAATC
15079491 TATGTATATG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 12 0.29
26 16 0.38
27 14 0.33
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.23
Consensus pattern (26 bp):
AAAAAATAAAATAATAATAATCATAG
Found at i:15083001 original size:24 final size:25
Alignment explanation
Indices: 15082964--15083011 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
15082954 AAAATAGTAT
* *
15082964 ATTAAAATTTAAAAAT-TATATTTG
1 ATTAAAAATAAAAAATATATATTTG
15082988 ATTAAAAATAAAAAATATATATTT
1 ATTAAAAATAAAAAATATATATTT
15083012 AATATATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
ATTAAAAATAAAAAATATATATTTG
Found at i:15083372 original size:21 final size:21
Alignment explanation
Indices: 15083347--15083395 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
15083337 GCACACGGCT
15083347 GTGTGACTATGACATACGCCA
1 GTGTGACTATGACATACGCCA
15083368 GTGTGACTATGACATACGCCA
1 GTGTGACTATGACATACGCCA
15083389 GTGTGAC
1 GTGTGAC
15083396 CTAGGAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (21 bp):
GTGTGACTATGACATACGCCA
Found at i:15085730 original size:23 final size:22
Alignment explanation
Indices: 15085704--15085762 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
15085694 TATATGTTCA
15085704 TGAACATGTTCGTTTAATGTT-T
1 TGAACATGTTCGTTTAA-GTTAT
*
15085726 GTGAACATGTTCGATTAAGTTAAT
1 -TGAACATGTTCGTTTAAGTT-AT
15085750 TGAACATGTTCGT
1 TGAACATGTTCGT
15085763 GAAAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 3 0.09
23 28 0.88
24 1 0.03
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.42
Consensus pattern (22 bp):
TGAACATGTTCGTTTAAGTTAT
Found at i:15085771 original size:23 final size:23
Alignment explanation
Indices: 15085727--15085771 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15085717 TTAATGTTTG
* *
15085727 TGAACATGTTCGATTAAGTTAAT
1 TGAACATGTTCGATAAAATTAAT
15085750 TGAACATGTTCG-TGAAAATTAA
1 TGAACATGTTCGAT-AAAATTAA
15085772 ACAAACGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (23 bp):
TGAACATGTTCGATAAAATTAAT
Found at i:15089872 original size:24 final size:24
Alignment explanation
Indices: 15089809--15089860 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15089799 TTTCTAGATG
* * *
15089809 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
15089833 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
15089857 ATTT
1 ATTT
15089861 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:15093738 original size:18 final size:18
Alignment explanation
Indices: 15093715--15093750 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
15093705 CACTGAAGCT
*
15093715 AGTACATGGTGATTACTG
1 AGTACATGGCGATTACTG
15093733 AGTACATGGCGATTACTG
1 AGTACATGGCGATTACTG
15093751 CTCTTTGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (18 bp):
AGTACATGGCGATTACTG
Found at i:15094075 original size:24 final size:24
Alignment explanation
Indices: 15094012--15094063 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15094002 TTTCTAGAAG
* * *
15094012 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
15094036 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
15094060 ATTT
1 ATTT
15094064 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:15095117 original size:10 final size:10
Alignment explanation
Indices: 15095102--15095197 Score: 50
Period size: 10 Copynumber: 10.4 Consensus size: 10
15095092 GAAAAAAATT
15095102 ATAATTTTTA
1 ATAATTTTTA
15095112 ATAA-TTTT-
1 ATAATTTTTA
15095120 AT-ATTTTT-
1 ATAATTTTTA
15095128 AT-ATTTTTA
1 ATAATTTTTA
* **
15095137 TTAAAATTTA
1 ATAATTTTTA
15095147 ATAATTTTCTA
1 ATAATTTT-TA
15095158 A-AA--TTT-
1 ATAATTTTTA
*
15095164 ATTATTTTT-
1 ATAATTTTTA
*
15095173 ATAATTTTTTT
1 ATAA-TTTTTA
*
15095184 CTAATTTTTA
1 ATAATTTTTA
15095194 ATAA
1 ATAA
15095198 AAGTAGGGGC
Statistics
Matches: 66, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
6 1 0.02
7 3 0.05
8 16 0.24
9 11 0.17
10 29 0.44
11 6 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:15095135 original size:16 final size:18
Alignment explanation
Indices: 15095100--15095181 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 18
15095090 TAGAAAAAAA
15095100 TTATAATTTTTAATAATT
1 TTATAATTTTTAATAATT
*
15095118 TTAT-ATTTTT-ATATTT
1 TTATAATTTTTAATAATT
**
15095134 TTATTAAAATTTAATAATT
1 TTA-TAATTTTTAATAATT
* ** * *
15095153 TTCTAAAATTTATTATTT
1 TTATAATTTTTAATAATT
15095171 TTATAATTTTT
1 TTATAATTTTT
15095182 TTCTAATTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
16 8 0.16
17 7 0.14
18 29 0.57
19 7 0.14
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATAATTTTTAATAATT
Found at i:15095404 original size:94 final size:93
Alignment explanation
Indices: 15095196--15095419 Score: 232
Period size: 95 Copynumber: 2.5 Consensus size: 93
15095186 AATTTTTAAT
* * *
15095196 AAAAGTAGGGGCTTAATTAC----TTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAA
1 AAAAGCAGGGGCTTAATTACTTTTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATTTTGAA
* * *
15095257 AGTTCTAGTATCCAATTGAGTGAAAAAA
66 AGTTCAAGTATCCAATTAAGTAAAAAAA
* * * * * *
15095285 AAAGGCAAGGGTTTAATTGCCTTTTTTTTTTGAAGAAGTTTGAGGGCCTTTTTTTATGCATTTTG
1 AAAAGCAGGGGCTTAATT-ACTTTTTTTTTTGAAAAAGTTTGAGGGCC-TTTTTGATGCATTTTG
*
15095350 AAAGTTCAAGT-GCTCAATTAAGTAAAAAAA
64 AAAGTTCAAGTATC-CAATTAAGTAAAAAAA
15095380 GAAAAG-AGGGGCTTAATTAC---TTTTTTTGAAAAAGTTTGAG
1 -AAAAGCAGGGGCTTAATTACTTTTTTTTTTGAAAAAGTTTGAG
15095420 AATTTTTAAC
Statistics
Matches: 109, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
89 14 0.13
90 1 0.01
91 19 0.17
94 22 0.20
95 49 0.45
96 4 0.04
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (93 bp):
AAAAGCAGGGGCTTAATTACTTTTTTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATTTTGAA
AGTTCAAGTATCCAATTAAGTAAAAAAA
Found at i:15095835 original size:22 final size:22
Alignment explanation
Indices: 15095801--15095842 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15095791 TTGGAAATTT
*
15095801 AAAAAAATCTAAAAATTATAAA
1 AAAAAAATCTAAAAAATATAAA
15095823 AAAAGAAAT-TAAAAAATATA
1 AAAA-AAATCTAAAAAATATA
15095843 GAAATATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAAAAATCTAAAAAATATAAA
Found at i:15099021 original size:25 final size:25
Alignment explanation
Indices: 15098956--15099026 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
15098946 ATATTTTCTT
* *
15098956 AAAATTTTACGATGGGCAAAATCGTC
1 AAAATTTTACCAAGGG-AAAATCGTC
* *
15098982 AAAATTTTACCAAGGTAAAATTGTC
1 AAAATTTTACCAAGGGAAAATCGTC
* *
15099007 AAAATTTTGCTAAGGGAAAA
1 AAAATTTTACCAAGGGAAAA
15099027 ATAAGGATGA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 25 0.66
26 13 0.34
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (25 bp):
AAAATTTTACCAAGGGAAAATCGTC
Found at i:15101878 original size:127 final size:127
Alignment explanation
Indices: 15101648--15101896 Score: 345
Period size: 127 Copynumber: 2.0 Consensus size: 127
15101638 ATGAAGTGTA
* * *
15101648 TTTTCTGGGTTTTGCTACTGGGATAAACGGCTATAAGTTATGGTGCCTAGAAACGAGTAAGATCA
1 TTTTCTGGGTTTTGCTACTGAGATAAAAGACTATAAGTTATGGTGCCTAGAAACGAGTAAGATCA
* * * * *
15101713 TCGTCGGTAGAGATGTTACATTTGATGAAACATCGATGATTTTGTCAAAAAGGGGTTCGTAT
66 TCATCAGTAGAGATGTTACATTTGATGAAACATCGATGACTCTATCAAAAAGGGGTTCGTAT
* * * *
15101775 TTTTCTGGTTTTTGCTATTTAGATAAAAGACTATAAGTTATGGTGCCTAGAAATGAGTAAGATCA
1 TTTTCTGGGTTTTGCTACTGAGATAAAAGACTATAAGTTATGGTGCCTAGAAACGAGTAAGATCA
* * ** *
15101840 TCATTAGTAGAGATTTTATGTTTGATGAAACATTGATGACTCTATCAAAAAGGGGTT
66 TCATCAGTAGAGATGTTACATTTGATGAAACATCGATGACTCTATCAAAAAGGGGTT
15101897 TACTAGGTCA
Statistics
Matches: 105, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
127 105 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (127 bp):
TTTTCTGGGTTTTGCTACTGAGATAAAAGACTATAAGTTATGGTGCCTAGAAACGAGTAAGATCA
TCATCAGTAGAGATGTTACATTTGATGAAACATCGATGACTCTATCAAAAAGGGGTTCGTAT
Found at i:15105001 original size:29 final size:30
Alignment explanation
Indices: 15104968--15105025 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
15104958 ACGACGTGAC
15104968 AAATTGTTATA-TCAAATATAATT-TATTTT
1 AAATT-TTATATTCAAATATAATTATATTTT
* *
15104997 AAATTTTATATTTACATATAATTATATTT
1 AAATTTTATATTCAAATATAATTATATTT
15105026 ATATATATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.20
29 15 0.60
30 5 0.20
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (30 bp):
AAATTTTATATTCAAATATAATTATATTTT
Found at i:15105023 original size:16 final size:16
Alignment explanation
Indices: 15105002--15105032 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15104992 ATTTTAAATT
15105002 TTATATTTACATATAA
1 TTATATTTACATATAA
*
15105018 TTATATTTATATATA
1 TTATATTTACATATA
15105033 TCCAAAATCA
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:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATATTTACATATAA
Found at i:15108957 original size:9 final size:9
Alignment explanation
Indices: 15108943--15108973 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15108933 GTTAAACGAA
15108943 TCGAGTTAT
1 TCGAGTTAT
*
15108952 TCGAGTTAA
1 TCGAGTTAT
15108961 TCGAGTTAT
1 TCGAGTTAT
15108970 TCGA
1 TCGA
15108974 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:15121161 original size:2 final size:2
Alignment explanation
Indices: 15121154--15121182 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15121144 TTAATCCTCC
15121154 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15121183 TCATTAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15121732 original size:27 final size:27
Alignment explanation
Indices: 15121693--15121749 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
15121683 CAAAGTATGA
* *
15121693 AAATTTTTGGTATTGATTTTGTTATAT
1 AAATTTTTAGTATTGATTTGGTTATAT
15121720 AAATTTTTAGTATTGATTTGGTTATAT
1 AAATTTTTAGTATTGATTTGGTTATAT
15121747 AAA
1 AAA
15121750 ACAATTGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (27 bp):
AAATTTTTAGTATTGATTTGGTTATAT
Found at i:15121759 original size:27 final size:27
Alignment explanation
Indices: 15121702--15121759 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
15121692 AAAATTTTTG
* ***
15121702 GTATTGATTTTGTTATATAAATTTTTA
1 GTATTGATTTGGTTATATAAACAATTA
15121729 GTATTGATTTGGTTATATAAAACAATT-
1 GTATTGATTTGGTTATAT-AAACAATTA
15121756 GTAT
1 GTAT
15121760 AGATCAGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.52
Consensus pattern (27 bp):
GTATTGATTTGGTTATATAAACAATTA
Found at i:15122661 original size:21 final size:19
Alignment explanation
Indices: 15122622--15122662 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
15122612 TTATATATTA
*
15122622 AAAATGAATTGTGACATTG
1 AAAATGAATTGTGAAATTG
15122641 AAAATGAATTATGTGAAATTG
1 AAAATGAA-T-TGTGAAATTG
15122662 A
1 A
15122663 TATGTTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.46, C:0.02, G:0.20, T:0.32
Consensus pattern (19 bp):
AAAATGAATTGTGAAATTG
Found at i:15124106 original size:2 final size:2
Alignment explanation
Indices: 15124094--15124131 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
15124084 TTTGGAAAAG
*
15124094 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15124132 CACAATTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:15127970 original size:35 final size:35
Alignment explanation
Indices: 15127924--15127994 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
15127914 GTAGACCAGG
*
15127924 TGACACTCTTGTCTCTAAAGGAGACAAATTTAGTC
1 TGACACTCTTGTCGCTAAAGGAGACAAATTTAGTC
15127959 TGACACTCTTGTCGCTAAAGGAGACAAATTTAGTC
1 TGACACTCTTGTCGCTAAAGGAGACAAATTTAGTC
15127994 T
1 T
15127995 TACTCAATGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (35 bp):
TGACACTCTTGTCGCTAAAGGAGACAAATTTAGTC
Found at i:15134508 original size:21 final size:21
Alignment explanation
Indices: 15134462--15134508 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
15134452 CAACTCCACT
*
15134462 TCAATCCTATTATTGATCTAA
1 TCAATCCTATTATTCATCTAA
* *
15134483 ACAATCCTTTTATATCATC-AA
1 TCAATCCTATTAT-TCATCTAA
15134504 TCAAT
1 TCAAT
15134509 ACCAAATACT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.40
Consensus pattern (21 bp):
TCAATCCTATTATTCATCTAA
Found at i:15136732 original size:16 final size:17
Alignment explanation
Indices: 15136711--15136742 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15136701 AAATATGCAA
15136711 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
15136727 TCACATAACTTCATAT
1 TCACATAACTTCATAT
15136743 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:15137052 original size:43 final size:42
Alignment explanation
Indices: 15136903--15137057 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 42
15136893 GGCTCGTACA
*
15136903 ATGCCAACGTCCCAGACGTGGTCTTACATGTA-ATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATA-CACA-ATCG
**
15136946 ATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAT-CA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTATACACAAT-CG
*** * ***
15136987 ATATTAATGTCCCAGGTATGGTCTTACACGTATACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAA-TCG
15137030 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
15137058 GGAAAATACA
Statistics
Matches: 84, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
40 2 0.02
41 24 0.29
42 7 0.08
43 49 0.58
44 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTATACACAATCG
Found at i:15139423 original size:23 final size:25
Alignment explanation
Indices: 15139387--15139434 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
15139377 ATTGGTTATA
15139387 CTCTAATTGTTTT-CTCTTCTCATCT
1 CTCTAATTGTTTTCCT-TTCTCATCT
15139412 CTCT-ATTG-TTTCCTTTCTCATCT
1 CTCTAATTGTTTTCCTTTCTCATCT
15139435 ACCTTTCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 12 0.55
24 6 0.27
25 4 0.18
ACGTcount: A:0.10, C:0.29, G:0.04, T:0.56
Consensus pattern (25 bp):
CTCTAATTGTTTTCCTTTCTCATCT
Found at i:15141805 original size:2 final size:2
Alignment explanation
Indices: 15141798--15141828 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15141788 TATATTCGTA
15141798 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
15141829 AAAGGAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15145872 original size:2 final size:2
Alignment explanation
Indices: 15145865--15145897 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15145855 CTGGAATTTT
15145865 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15145898 CTAATAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15148106 original size:26 final size:27
Alignment explanation
Indices: 15148046--15148106 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
15148036 TTCCTCATTT
*
15148046 TTGGTACTTAAACTTTTTTGTCACAAA
1 TTGGTACCTAAACTTTTTTGTCACAAA
* * * *
15148073 TTAG-ACCTATACTTTTTT-TCCCAAG
1 TTGGTACCTAAACTTTTTTGTCACAAA
15148098 TTGGTACCT
1 TTGGTACCT
15148107 CCGTTAGTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
25 8 0.30
26 16 0.59
27 3 0.11
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (27 bp):
TTGGTACCTAAACTTTTTTGTCACAAA
Found at i:15148342 original size:16 final size:15
Alignment explanation
Indices: 15148321--15148356 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
15148311 TTAAAAAGTA
15148321 ATTTTTAATTTGTTTT
1 ATTTTTAATTT-TTTT
15148337 ATTTTTAATTTTTTT
1 ATTTTTAATTTTTTT
*
15148352 CTTTT
1 ATTTT
15148357 ATATTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (15 bp):
ATTTTTAATTTTTTT
Found at i:15153165 original size:23 final size:23
Alignment explanation
Indices: 15153135--15153309 Score: 271
Period size: 23 Copynumber: 7.7 Consensus size: 23
15153125 TTAAGTTTAG
15153135 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
*
15153158 GGTTAGGGTTTTCAACTTAAATA
1 GGTTAGGGTTTTCAACTTAATTA
* *
15153181 GGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
15153204 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
*
15153227 GGTTAGGGTTTTCAACTTAAATA
1 GGTTAGGGTTTTCAACTTAATTA
* * * *
15153250 -GTTAGAGTTTTTAATTTAAATA
1 GGTTAGGGTTTTCAACTTAATTA
15153272 GGTTAGGGTTTTCAACTTAATTA
1 GGTTAGGGTTTTCAACTTAATTA
15153295 GGTTAGGGTTTTCAA
1 GGTTAGGGTTTTCAA
15153310 TTTTTATCAC
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
22 19 0.14
23 118 0.86
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (23 bp):
GGTTAGGGTTTTCAACTTAATTA
Found at i:15153291 original size:68 final size:69
Alignment explanation
Indices: 15153135--15153309 Score: 325
Period size: 68 Copynumber: 2.6 Consensus size: 69
15153125 TTAAGTTTAG
*
15153135 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAAATAGGTTAGGGTTTTTAATTTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAAATAGGTTAGAGTTTTTAATTTA
*
15153200 ATTA
66 AATA
15153204 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAAATA-GTTAGAGTTTTTAATTTA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAAATAGGTTAGAGTTTTTAATTTA
15153268 AATA
66 AATA
15153272 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAA
1 GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAA
15153310 TTTTTATCAC
Statistics
Matches: 104, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
68 58 0.56
69 46 0.44
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (69 bp):
GGTTAGGGTTTTCAACTTAATTAGGTTAGGGTTTTCAACTTAAATAGGTTAGAGTTTTTAATTTA
AATA
Found at i:15153346 original size:25 final size:25
Alignment explanation
Indices: 15153311--15153570 Score: 208
Period size: 25 Copynumber: 10.7 Consensus size: 25
15153301 GGTTTTCAAT
*
15153311 TTTTATCACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
15153336 TTTTATTACATCATATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
15153361 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * * * **
15153384 --AAATAAC-TCAAAAAAATTTAAA
1 TTTTATTACATCAAATAAACTTCTA
15153406 TTTTTATTACATC-AATAAAACTTCTA
1 -TTTTATTACATCAAAT-AAACTTCTA
*
15153432 TTTTATTACATCATATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
15153457 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
15153482 TTTTATTACATCAAGT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
15153505 --AAATAAC-TCAAA-AATA-TTCAAA
1 TTTTATTACATCAAATAA-ACTTC-TA
*
15153527 TTTTTATTACATCAAATAAATTTCTA
1 -TTTTATTACATCAAATAAACTTCTA
15153553 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
15153571 TATCAAAATA
Statistics
Matches: 188, Mismatches: 26, Indels: 42
0.73 0.10 0.16
Matches are distributed among these distances:
20 12 0.06
21 13 0.07
22 3 0.02
23 4 0.02
24 8 0.04
25 126 0.67
26 17 0.09
27 5 0.03
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:15153528 original size:121 final size:121
Alignment explanation
Indices: 15153311--15153570 Score: 441
Period size: 121 Copynumber: 2.1 Consensus size: 121
15153301 GGTTTTCAAT
* *
15153311 TTTTATCACATCAAATAAACTTCTATTTTATTACATCATATAAACTTCTATTTTATTACATCAAA
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAA
*
15153376 TAATATCAAAATAACTCAAAAAAATTTAAATTTTTATTACATC-AATAAAACTTCTA
66 TAATATCAAAATAACTCAAAAAAATTCAAATTTTTATTACATCAAAT-AAACTTCTA
* *
15153432 TTTTATTACATCATATAAACTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAG
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAA
* *
15153497 TAATATCAAAATAACTCAAAAATATTCAAATTTTTATTACATCAAATAAATTTCTA
66 TAATATCAAAATAACTCAAAAAAATTCAAATTTTTATTACATCAAATAAACTTCTA
15153553 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
15153571 TATCAAAATA
Statistics
Matches: 130, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
121 127 0.98
122 3 0.02
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (121 bp):
TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAAACTTCTATTTTATTACATCAAA
TAATATCAAAATAACTCAAAAAAATTCAAATTTTTATTACATCAAATAAACTTCTA
Found at i:15153633 original size:25 final size:25
Alignment explanation
Indices: 15153599--15153646 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
15153589 AATTTTAATT
*
15153599 TTTTTTTACATCAATA-AAACTTCTA
1 TTTTATTACATCAA-ACAAACTTCTA
15153624 TTTTATTACATCAAACAAACTTC
1 TTTTATTACATCAAACAAACTTC
15153647 AAAATATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTTATTACATCAAACAAACTTCTA
Found at i:15153659 original size:71 final size:71
Alignment explanation
Indices: 15153457--15153638 Score: 287
Period size: 71 Copynumber: 2.6 Consensus size: 71
15153447 TAAACTTCTA
*
15153457 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAGTAATATCAAAATAACTC-AAAAATA
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAAT-
15153521 TTCAAAT
65 TTCAAAT
*
15153528 TTTTATTACATCAAATAAATTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
1 TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
* *
15153593 TTAATT
66 TCAAAT
*
15153599 TTTTTTTACATC-AATAAAACTTCTATTTTATTACATCAAA
1 TTTTATTACATCAAAT-AAACTTCTATTTTATTACATCAAA
15153639 CAAACTTCAA
Statistics
Matches: 103, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
70 3 0.03
71 94 0.91
72 6 0.06
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.42
Consensus pattern (71 bp):
TTTTATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCAAAAAATT
TCAAAT
Found at i:15155962 original size:51 final size:51
Alignment explanation
Indices: 15155903--15156026 Score: 178
Period size: 51 Copynumber: 2.4 Consensus size: 51
15155893 TATTTTAAAA
* * *
15155903 AAGGAAATTGAGAGCAAATTGAAATTAAATATGGCTTTGA-GAGATTTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTT-ATGAGAATTTTGG
* * *
15155954 AATGAAATTGAGAGGAAATTGAAATTGAATATGGATTTATGAGAATTTTGG
1 AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
15156005 AAGGAAATTGAGAGAAAATTGA
1 AAGGAAATTGAGAGAAAATTGA
15156027 GAGGAAATTG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 1 0.02
51 64 0.98
ACGTcount: A:0.43, C:0.02, G:0.26, T:0.30
Consensus pattern (51 bp):
AAGGAAATTGAGAGAAAATTGAAATTAAATATGGATTTATGAGAATTTTGG
Found at i:15156025 original size:11 final size:11
Alignment explanation
Indices: 15156009--15156053 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
15155999 TTTTGGAAGG
15156009 AAATTGAGAGA
1 AAATTGAGAGA
*
15156020 AAATTGAGAGG
1 AAATTGAGAGA
*
15156031 AAATTGAGAGG
1 AAATTGAGAGA
15156042 AAATATGAGAGA
1 AAAT-TGAGAGA
15156054 GGATTTGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 25 0.81
12 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.31, T:0.18
Consensus pattern (11 bp):
AAATTGAGAGA
Found at i:15156050 original size:23 final size:22
Alignment explanation
Indices: 15156006--15156052 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
15155996 GAATTTTGGA
15156006 AGGAAATTGAGAGAAAATTGAG
1 AGGAAATTGAGAGAAAATTGAG
*
15156028 AGGAAATTGAGAGGAAATATGAG
1 AGGAAATTGAGAGAAAAT-TGAG
15156051 AG
1 AG
15156053 AGGATTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (22 bp):
AGGAAATTGAGAGAAAATTGAG
Found at i:15160391 original size:15 final size:14
Alignment explanation
Indices: 15160367--15160397 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
15160357 AACAAGGAAA
15160367 ATATAAATATATTC
1 ATATAAATATATTC
15160381 ATATAAAATATATTC
1 ATAT-AAATATATTC
15160396 AT
1 AT
15160398 GCATTTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATAAATATATTC
Found at i:15160424 original size:52 final size:51
Alignment explanation
Indices: 15160330--15160429 Score: 121
Period size: 51 Copynumber: 1.9 Consensus size: 51
15160320 ACTTATATAT
* *
15160330 ATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATAAATATATTC
1 ATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATATATTC
* * * *
15160381 ATATAAAATATATTCATGCATTTA-CAAAAAAATGAAATATATAAGTATA
1 ATATAAAATACA-TAATGCATTTATCAAAAAAAGGAAA-ATATAAATATA
15160430 ATATAAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 21 0.51
52 20 0.49
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (51 bp):
ATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATATATTC
Found at i:15161183 original size:22 final size:22
Alignment explanation
Indices: 15161153--15161228 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
15161143 GGGTATCTAC
*
15161153 AAATTATATCTCTAAGATTACA
1 AAATCATATCTCTAAGATTACA
15161175 AAATCATATCTTCTAAGATTAC-
1 AAATCATATC-TCTAAGATTACA
* *
15161197 ATATCATA--TCTAAGATTGCA
1 AAATCATATCTCTAAGATTACA
*
15161217 TATATCATATCT
1 -AAATCATATCT
15161229 AAGATTGCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 10 0.22
21 8 0.17
22 16 0.35
23 12 0.26
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (22 bp):
AAATCATATCTCTAAGATTACA
Found at i:15161193 original size:23 final size:22
Alignment explanation
Indices: 15161150--15161207 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
15161140 AAAGGGTATC
*
15161150 TACAAATTATATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
15161171 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
15161194 TACATATCATATCT
1 TACAAATCATATCT
15161208 AAGATTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:15161210 original size:19 final size:19
Alignment explanation
Indices: 15161163--15161279 Score: 126
Period size: 19 Copynumber: 5.8 Consensus size: 19
15161153 AAATTATATC
*
15161163 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
15161183 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
15161205 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
15161226 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
**
15161245 TCTAAGATTGTATATCATA
1 TCTAAGATTACATATCATA
*
15161264 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
15161280 CTCGAAGATT
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
19 50 0.58
21 18 0.21
22 7 0.08
23 11 0.13
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:15161223 original size:21 final size:20
Alignment explanation
Indices: 15161186--15161279 Score: 142
Period size: 19 Copynumber: 4.8 Consensus size: 20
15161176 AATCATATCT
*
15161186 TCTAAGATTAC-ATATCATA
1 TCTAAGATTGCTATATCATA
15161205 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC-TATATCATA
15161226 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCTATATCATA
15161245 TCTAAGATTG-TATATCATA
1 TCTAAGATTGCTATATCATA
15161264 TCTAAGATTGC-ATATC
1 TCTAAGATTGCTATATC
15161280 CTCGAAGATT
Statistics
Matches: 70, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
TCTAAGATTGCTATATCATA
Found at i:15161234 original size:40 final size:38
Alignment explanation
Indices: 15161186--15161279 Score: 161
Period size: 40 Copynumber: 2.4 Consensus size: 38
15161176 AATCATATCT
*
15161186 TCTAAGATTACATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTG--TATATCATA
15161226 TCTAAGATTGCATATCATATCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGTATATCATA
15161264 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
15161280 CTCGAAGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
38 25 0.47
40 28 0.53
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTGTATATCATA
Found at i:15167643 original size:112 final size:112
Alignment explanation
Indices: 15167365--15167937 Score: 537
Period size: 114 Copynumber: 5.0 Consensus size: 112
15167355 CAAAACAGGC
* *
15167365 TTTAGCGGCGTTTTTGAGAA-AGCGCCGC-AAAAAACCTAATCCCAACGACGCCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTG-GAATAGCGCCGCAAAAAAACCTAAGCCCAACGACACCG-TTTCTGAGC
* * ** * * *
15167428 TTTCGAGTGA-TTAGTGGCGTTTTTAATTACGCGCCGCTAATGCTTAGGGC
64 TTTCG-GGGATTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC-CAGGGA
* * * * * * *
15167478 TTTAACGGCGTTTTTGAAAAATCGCCGCAAGAAAACCTAAGCACAACGCCACCGTTTCTGAGCTT
1 TTTAGCGGCGTTTTTGGAATAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTCTGAGC-T
* *
15167543 TTCGGGGATTTAGCGGTGTTTCTAAAGAAGCGCCGCTAATG-CAGGGA
65 TTCGGGGATTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCCAGGGA
* * *
15167590 TTTAGCGGCGTTTTTGGAATAGCGCCGCAAAAAAAACTAAGCCCGACGACACCGTTGTCTGTGCT
1 TTTAGCGGCGTTTTTGGAATAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTT-TCTGAGCT
* * * * *
15167655 TTCAGGGATTTAGCGGCATTTTTTTAA-AAGCGCCGCTAATGCTCAGCGC
65 TTCGGGGATTTAGCGGC-GTTTTTAAAGAAGCGCCGCTAATGC-CAGGGA
* ** * * * * * *
15167704 TTTAGCGACGTTTTTAAAAGAGCTCCGCAAGAAAACCTAAGCCCAATGACACCATTTCTTAGCTT
1 TTTAGCGGCGTTTTTGGAATAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTCTGAGC-T
* * * *
15167769 TTCGGGGATTTAGCGGCATTTTTAAGGATGCGTCGCTAATGCTCAGGGA
65 TTCGGGGATTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC-CAGGGA
* ** * *** *
15167818 TTTAGCGGCGTTTTAGGTGTAGCGCCGCAAAAAAAAAACTAAGCCCAACGATGTCGTTTTCTGTG
1 TTTAGCGGCGTTTTTGGAATAGCGCCGC--AAAAAAACCTAAGCCCAACGACACCG-TTTCTGAG
*
15167883 CTTTCGGGGATTTAGCGGCGTTTTT-AGGAAAGCGCCGCTAATGCTCAGGGA
63 CTTTCGGGGATTTAGCGGCGTTTTTAAAG-AAGCGCCGCTAATGC-CAGGGA
15167934 TTTA
1 TTTA
15167938 AAATAATTTA
Statistics
Matches: 372, Mismatches: 74, Indels: 25
0.79 0.16 0.05
Matches are distributed among these distances:
112 83 0.22
113 57 0.15
114 156 0.42
115 3 0.01
116 66 0.18
117 7 0.02
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (112 bp):
TTTAGCGGCGTTTTTGGAATAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCCAGGGA
Found at i:15167770 original size:226 final size:226
Alignment explanation
Indices: 15167365--15167930 Score: 678
Period size: 226 Copynumber: 2.5 Consensus size: 226
15167355 CAAAACAGGC
* * *
15167365 TTTAGCGGCGTTTTTGAGAA-AGCGCCGC-AAAAAACCTAATCCCAACGACGCCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTG-GAATAGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGTGC
* * * * * * *
15167428 TTTCGAGTGA-TTAGTGGC-GTTTTTAATTACGCGCCGCTAATGCTTAGGGCTTTAACGGCGTTT
65 TTTC-AGGGATTTAGCGGCTTTTTTTAA--AAGCGCCGCTAATGCTCAGCGCTTTAACGACGTTT
* * *
15167491 TTGAAAAATCGCCGCAAGAAAACCTAAGCACAACGCCACCGTTTCTGAGCTTTTCGGGGATTTAG
127 TTGAAAAAGCGCCGCAAGAAAACCTAAGCACAACGACACCATTTCTGAGCTTTTCGGGGATTTAG
**
15167556 CGGTGTTTCTAAAGAAGCGCCGCTAATG-CAGGGA
192 CGGCATTTCTAAAGAAGCGCCGCTAATGCCAGGGA
* * *
15167590 TTTAGCGGCGTTTTTGGAATAGCGCCGCAAAAAAAACTAAGCCCGACGACACCGTTGTCTGTGCT
1 TTTAGCGGCGTTTTTGGAATAGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGTGCT
*
15167655 TTCAGGGATTTAGCGGCATTTTTTTAAAAGCGCCGCTAATGCTCAGCGCTTTAGCGACGTTTTT-
66 TTCAGGGATTTAGCGGC-TTTTTTTAAAAGCGCCGCTAATGCTCAGCGCTTTAACGACGTTTTTG
* * * *
15167719 AAAAGAGCTCCGCAAGAAAACCTAAGCCCAATGACACCATTTCTTAGCTTTTCGGGGATTTAGCG
130 AAAA-AGCGCCGCAAGAAAACCTAAGCACAACGACACCATTTCTGAGCTTTTCGGGGATTTAGCG
* * * *
15167784 GCATTTTTAAGGATGCGTCGCTAATGCTCAGGGA
194 GCATTTCTAAAGAAGCGCCGCTAATGC-CAGGGA
* ** * *
15167818 TTTAGCGGCGTTTTAGGTGTAGCGCCGCAAAAAAAAAACTAAGCCCAACGATGTCGTTTTCTGTG
1 TTTAGCGGCGTTTTTGGAATAGCGCCGC--AAAAAAAACTAAGCCCAACGACGCCGTTTTCTGTG
* *
15167883 CTTTCGGGGATTTAGCGGC-GTTTTTAGGAAAGCGCCGCTAATGCTCAG
64 CTTTCAGGGATTTAGCGGCTTTTTTTA--AAAGCGCCGCTAATGCTCAG
15167931 GGATTTAAAA
Statistics
Matches: 292, Mismatches: 37, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
224 3 0.01
225 32 0.11
226 145 0.50
228 44 0.15
230 68 0.23
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (226 bp):
TTTAGCGGCGTTTTTGGAATAGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCTGTGCT
TTCAGGGATTTAGCGGCTTTTTTTAAAAGCGCCGCTAATGCTCAGCGCTTTAACGACGTTTTTGA
AAAAGCGCCGCAAGAAAACCTAAGCACAACGACACCATTTCTGAGCTTTTCGGGGATTTAGCGGC
ATTTCTAAAGAAGCGCCGCTAATGCCAGGGA
Found at i:15168225 original size:15 final size:15
Alignment explanation
Indices: 15168205--15168237 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
15168195 AGGGGTTAGG
15168205 GGGATTT-AGGTGTTA
1 GGGATTTGAGGT-TTA
15168220 GGGATTTGAGGTTTA
1 GGGATTTGAGGTTTA
15168235 GGG
1 GGG
15168238 TTTCAACGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.36
Consensus pattern (15 bp):
GGGATTTGAGGTTTA
Found at i:15168566 original size:38 final size:39
Alignment explanation
Indices: 15168515--15168600 Score: 113
Period size: 38 Copynumber: 2.2 Consensus size: 39
15168505 AATAAAATTT
* *
15168515 TTAGGGGTTATGCTTTAGGGGTT-AGGGAGATTTAAGGG-
1 TTAGGGTTTATGCTTTAAGGGTTAAGGGAGATTT-AGGGA
*
15168553 TTAGGGTTTATGCTTTAAGGGTTAAGGGGGATTTAGGGA
1 TTAGGGTTTATGCTTTAAGGGTTAAGGGAGATTTAGGGA
15168592 TTATGGGTT
1 TTA-GGGTT
15168601 AGGGATTTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
38 25 0.60
39 12 0.29
40 5 0.12
ACGTcount: A:0.21, C:0.02, G:0.40, T:0.37
Consensus pattern (39 bp):
TTAGGGTTTATGCTTTAAGGGTTAAGGGAGATTTAGGGA
Found at i:15168614 original size:21 final size:22
Alignment explanation
Indices: 15168580--15168622 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
15168570 AGGGTTAAGG
15168580 GGGATTTAGGGA-TTATGGGTTA
1 GGGATTTAGGGATTTA-GGGTTA
15168602 GGGATTT-GGGATTTAGGGTTA
1 GGGATTTAGGGATTTAGGGTTA
15168623 TTAATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (22 bp):
GGGATTTAGGGATTTAGGGTTA
Found at i:15170886 original size:30 final size:31
Alignment explanation
Indices: 15170837--15170909 Score: 112
Period size: 30 Copynumber: 2.4 Consensus size: 31
15170827 TTGGATTTTA
15170837 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
* *
15170868 TTTGGTTTTT-CTGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
*
15170898 ATTGATTTTTGC
1 ATTGGTTTTTGC
15170910 TGTTAAATGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 27 0.73
31 10 0.27
ACGTcount: A:0.16, C:0.15, G:0.21, T:0.48
Consensus pattern (31 bp):
ATTGGTTTTTGCAGCTAAGATGGTACCTTCT
Found at i:15171754 original size:13 final size:13
Alignment explanation
Indices: 15171722--15171755 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
15171712 TCTTAATAAT
15171722 AATATTA-TATTA
1 AATATTATTATTA
15171734 AA-ATTATTATTA
1 AATATTATTATTA
15171746 AATATTATTA
1 AATATTATTA
15171756 ATAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 9 0.45
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTATTATTA
Found at i:15171853 original size:6 final size:6
Alignment explanation
Indices: 15171842--15171871 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
15171832 AATTAAATTA
15171842 TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT
15171872 AAAATATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:15171896 original size:26 final size:25
Alignment explanation
Indices: 15171867--15171915 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
15171857 ATTTTTATTT
*
15171867 TTATTAAAATATATTTAACAATAATC
1 TTATTAAAATATA-ATAACAATAATC
*
15171893 TTATTAAAATTTAATAACAATAA
1 TTATTAAAATATAATAACAATAA
15171916 CCTGACACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (25 bp):
TTATTAAAATATAATAACAATAATC
Found at i:15171962 original size:9 final size:9
Alignment explanation
Indices: 15171931--15172184 Score: 210
Period size: 9 Copynumber: 29.4 Consensus size: 9
15171921 CACTTGTACA
*
15171931 TTACAAAAC
1 TTACATAAC
*
15171940 TTACATAGC
1 TTACATAAC
*
15171949 CTACATAAC
1 TTACATAAC
15171958 TTACATAA-
1 TTACATAAC
*
15171966 -TACAAAAC
1 TTACATAAC
15171974 TTACATAAC
1 TTACATAAC
15171983 TTACATAA-
1 TTACATAAC
*
15171991 -TACAAAAC
1 TTACATAAC
*
15171999 TCACATAAC
1 TTACATAAC
* *
15172008 TTAAATATC
1 TTACATAAC
*
15172017 TTACACAAC
1 TTACATAAC
15172026 TTACATAAC
1 TTACATAAC
*
15172035 CTACATAA-
1 TTACATAAC
**
15172043 TATATTTAAC
1 T-TACATAAC
15172053 TTACATAAC
1 TTACATAAC
15172062 TTACATAA-
1 TTACATAAC
15172070 -TACATAAC
1 TTACATAAC
* *
15172078 ATACATTAC
1 TTACATAAC
**
15172087 TTTGATAAC
1 TTACATAAC
15172096 TTACATAAC
1 TTACATAAC
15172105 TTACATAA-
1 TTACATAAC
*
15172113 -TACACAAC
1 TTACATAAC
*
15172121 TTACATAGC
1 TTACATAAC
*
15172130 TTACTTAA-
1 TTACATAAC
15172138 -TACATAAC
1 TTACATAAC
15172146 TTACATAAC
1 TTACATAAC
15172155 TT--ATACAC
1 TTACATA-AC
*
15172163 GTACATAAC
1 TTACATAAC
*
15172172 TTACATAAT
1 TTACATAAC
15172181 TTAC
1 TTAC
15172185 TTAATACATA
Statistics
Matches: 191, Mismatches: 39, Indels: 30
0.73 0.15 0.12
Matches are distributed among these distances:
7 34 0.18
8 3 0.02
9 150 0.79
10 4 0.02
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:15171970 original size:34 final size:34
Alignment explanation
Indices: 15171932--15172157 Score: 174
Period size: 34 Copynumber: 6.6 Consensus size: 34
15171922 ACTTGTACAT
* *
15171932 TACAAAACTTACATAGCCTACATAACTTACATAA
1 TACAAAACTTACATAACTTACATAACTTACATAA
*
15171966 TACAAAACTTACATAACTTACATAA--TACAAAA
1 TACAAAACTTACATAACTTACATAACTTACATAA
* * * *
15171998 CTCACATAACTTAAATATCTTACACAACTTACATAA
1 -T-ACAAAACTTACATAACTTACATAACTTACATAA
* **
15172034 CCTACATAA-TATATTTAACTTACATAACTTACATAA
1 --TACAAAACT-TACATAACTTACATAACTTACATAA
* * * **
15172070 TACATAACATACATTACTTTGATAACTTACATAA
1 TACAAAACTTACATAACTTACATAACTTACATAA
* * * *
15172104 CTTACATAA--TACACAACTTACATAGCTTACTTAA
1 --TACAAAACTTACATAACTTACATAACTTACATAA
*
15172138 TACATAACTTACATAACTTA
1 TACAAAACTTACATAACTTA
15172158 TACACGTACA
Statistics
Matches: 156, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
32 13 0.08
33 1 0.01
34 99 0.63
35 1 0.01
36 40 0.26
37 2 0.01
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.31
Consensus pattern (34 bp):
TACAAAACTTACATAACTTACATAACTTACATAA
Found at i:15171974 original size:16 final size:16
Alignment explanation
Indices: 15171932--15171981 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
15171922 ACTTGTACAT
*
15171932 TACAAAACTTACATAGCC
1 TACAAAACTTACATA--A
*
15171950 TACATAACTTACATAA
1 TACAAAACTTACATAA
15171966 TACAAAACTTACATAA
1 TACAAAACTTACATAA
15171982 CTTACATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 15 0.52
18 14 0.48
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (16 bp):
TACAAAACTTACATAA
Found at i:15172072 original size:79 final size:77
Alignment explanation
Indices: 15171950--15172112 Score: 211
Period size: 79 Copynumber: 2.1 Consensus size: 77
15171940 TTACATAGCC
*
15171950 TACATAACTTACATAATACAAAACTTACATAACTTACATAATACAAAAC-TCACATAACTTAAAT
1 TACATAACCTACATAATACAAAACTTACATAACTTACATAATACAAAACAT-ACATAACTTAAAT
*
15172014 ATCTTACACAACT
65 AACTTACACAACT
* * * * **
15172027 TACATAACCTACATAATATATTTAACTTACATAACTTACATAATACATAACATACATTACTTTGA
1 TACATAACCTACATAATACA--AAACTTACATAACTTACATAATACAAAACATACATAACTTAAA
*
15172092 TAACTTACATAACT
64 TAACTTACACAACT
15172106 TACATAA
1 TACATAA
15172113 TACACAACTT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
77 18 0.24
79 55 0.74
80 1 0.01
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (77 bp):
TACATAACCTACATAATACAAAACTTACATAACTTACATAATACAAAACATACATAACTTAAATA
ACTTACACAACT
Found at i:15172127 original size:25 final size:25
Alignment explanation
Indices: 15171950--15172180 Score: 81
Period size: 25 Copynumber: 9.0 Consensus size: 25
15171940 TTACATAGCC
*
15171950 TACATAACTTACATAA--TACAAAA
1 TACATAACTTACATAACTTACATAA
*
15171973 CTTACATAACTTACATAA--TACAAAA
1 --TACATAACTTACATAACTTACATAA
* * *
15171998 CTCACATAACTTAAATATCTTACACAA
1 -T-ACATAACTTACATAACTTACATAA
* **
15172025 CTTACATAACCTACATAA-TATATTTAA
1 --TACATAACTTACATAACT-TACATAA
15172052 CTTACATAACTTACATAA--TACATAACA
1 --TACATAACTTACATAACTTACAT-A-A
* **
15172079 TACATTACTTTGATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
15172104 CTTACATAA--TACACAACTTACATAGCT
1 --TACATAACTTACATAACTTACATA--A
*
15172131 TACTTAA--TACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
15172154 CT-TATACACGTACATAACTTACATAA
1 -TACATA-ACTTACATAACTTACATAA
15172180 T
1 T
15172181 TTACTTAATA
Statistics
Matches: 162, Mismatches: 27, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
23 2 0.01
24 3 0.02
25 86 0.53
26 19 0.12
27 51 0.31
28 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:15177709 original size:21 final size:20
Alignment explanation
Indices: 15177684--15177754 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 20
15177674 CTACAACTTA
*
15177684 AAGCAGAGGCGACAACGACGG
1 AAGCAGAGGCGACAGCGA-GG
*
15177705 AAGCAGCGGCTG-CAGCGAGGG
1 AAGCAGAGGC-GACAGCGA-GG
*
15177726 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCGACAGCGAG-G
15177747 AAGCAGAG
1 AAGCAGAG
15177755 CAGAGCAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
20 1 0.02
21 40 0.95
22 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.41, T:0.03
Consensus pattern (20 bp):
AAGCAGAGGCGACAGCGAGG
Found at i:15178186 original size:85 final size:84
Alignment explanation
Indices: 15178094--15178275 Score: 267
Period size: 84 Copynumber: 2.2 Consensus size: 84
15178084 AAGAACATGA
* *
15178094 CGCTTAGAAAAAAACGCCGCTAAAGATAATGTTCTTT-AGCGGCGCTTAGAAAAAAAACGCAGCT
1 CGCTTAGAAAAAAACGCCACTAAAGACAATGTTCTTTCA-CGGCGCTTAG-AAAAAAACGCAGCT
* *
15178158 AAAGGCAATGTTCTTTAGTGG
64 AAAGACAATGTTCTTTAGAGG
* * *
15178179 CGCTTAGAAAGAAACGCCACTAAAGACCATGTTCTTTCACGGCGCTTAGAAAAAAACGCCGCTAA
1 CGCTTAGAAAAAAACGCCACTAAAGACAATGTTCTTTCACGGCGCTTAGAAAAAAACGCAGCTAA
*
15178244 AGACCATGTTCTTTAGAGG
66 AGACAATGTTCTTTAGAGG
15178263 CGCTTAGAAAAAA
1 CGCTTAGAAAAAA
15178276 CGCTGCAAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
84 43 0.49
85 43 0.49
86 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (84 bp):
CGCTTAGAAAAAAACGCCACTAAAGACAATGTTCTTTCACGGCGCTTAGAAAAAAACGCAGCTAA
AGACAATGTTCTTTAGAGG
Done.