Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 155 of 210
Found at i:46964634 original size:37 final size:37
Alignment explanation
Indices: 46964564--46964666 Score: 154
Period size: 37 Copynumber: 2.7 Consensus size: 37
46964554 CCATAACCCT
46964564 ATCCCCCTTAACCCTTAAAGCATAACCCTTAACCCCTAA
1 ATCCCCC-TAACCC-TAAAGCATAACCCTTAACCCCTAA
46964603 ATCCCCCTAACACCTAAAGCATAACCC-TAACCCCTAA
1 ATCCCCCTAAC-CCTAAAGCATAACCCTTAACCCCTAA
*
46964640 ATCCCCTTAACTCCTAAAGCATAACCC
1 ATCCCCCTAAC-CCTAAAGCATAACCC
46964667 CTAAACCACA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
37 35 0.57
38 17 0.28
39 9 0.15
ACGTcount: A:0.35, C:0.42, G:0.03, T:0.20
Consensus pattern (37 bp):
ATCCCCCTAACCCTAAAGCATAACCCTTAACCCCTAA
Found at i:46965087 original size:114 final size:114
Alignment explanation
Indices: 46964881--46965148 Score: 421
Period size: 114 Copynumber: 2.4 Consensus size: 114
46964871 TATTTTGAAT
* *
46964881 CCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCACAGAAAACGGCGC
1 CCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCACAGAAAACGACAC
* * *
46964946 CGTTGGGCTTAGTTTTTCTTGCGGCGCTTTCCCAAAAATGCCGTTAAAG
66 CGTTGGGCTTAGTTTTTCTTGCAGCGCTTTCCCAAAAACGCCGCTAAAG
* * * *
46964995 CCCTGAGCATTAGCGGCGCTTTCTGAAAAACGCCGCTAAATCCCCGAAAGCTCAGGAAACGACAT
1 CCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCACAGAAAACGACAC
*
46965060 CGTTGGGCTTAGGTTTTT-TTGCAGCGCTTTCTCAAAAACGCCGCTAAAG
66 CGTTGGGCTTA-GTTTTTCTTGCAGCGCTTTCCCAAAAACGCCGCTAAAG
*
46965109 CCATGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAA
1 CCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAA
46965149 GCCATGAGCA
Statistics
Matches: 141, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
114 135 0.96
115 6 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (114 bp):
CCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCACAGAAAACGACAC
CGTTGGGCTTAGTTTTTCTTGCAGCGCTTTCCCAAAAACGCCGCTAAAG
Found at i:46965128 original size:41 final size:41
Alignment explanation
Indices: 46965083--46965230 Score: 233
Period size: 41 Copynumber: 3.6 Consensus size: 41
46965073 TTTTTTTGCA
*
46965083 GCGCTTTCTCAAAAACGCCGCTAAAGCCATGAGCATTAGCG
1 GCGCTTTCTTAAAAACGCCGCTAAAGCCATGAGCATTAGCG
46965124 GCGCTTTCTTAAAAACGCCGCTAAAGCCATGAGCATTAGCG
1 GCGCTTTCTTAAAAACGCCGCTAAAGCCATGAGCATTAGCG
* * *
46965165 GCGCTTTCTTAAAAACGCCGCTAAAGCCCTGATCATTAGTG
1 GCGCTTTCTTAAAAACGCCGCTAAAGCCATGAGCATTAGCG
* * *
46965206 GCACTTCCTGAAAAACGCCGCTAAA
1 GCGCTTTCTTAAAAACGCCGCTAAA
46965231 TCCCCAAAAA
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (41 bp):
GCGCTTTCTTAAAAACGCCGCTAAAGCCATGAGCATTAGCG
Found at i:46965306 original size:197 final size:196
Alignment explanation
Indices: 46964966--46965345 Score: 562
Period size: 197 Copynumber: 1.9 Consensus size: 196
46964956 AGTTTTTCTT
* * * *
46964966 GCGGCGCTTTCCCAAAAATGCCGTTAAAGCCCTGAGCATTAGCGGCGCTTTCTGAAAAACGCCGC
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTCCTGAAAAACGCCGC
* ** * **
46965031 TAAATCCCCGAAAGCTCAGGAAACGACATCGTTGGGCTTAGGTTTTTTTGCAGCGCTTTCTCAAA
66 TAAATCCCCAAAAGCTCAAAAAACGACATCGTTGGGCTTAGGTTTCTTTGCAGCAATTTCTCAAA
* * *
46965096 AACGCCGCTAAAGCCATGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCATGAGCATT
131 AACGCCACTAAAGCCATGAGCATTAGCGACACTTTCTTAAAAACGCCGCTAAAGCCATGAGCATT
46965161 A
196 A
** * *
46965162 GCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGATCATTAGTGGCACTTCCTGAAAAACGCCGC
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTCCTGAAAAACGCCGC
* * *
46965227 TAAATCCCCAAAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGTTTCTTTGCGGCAATTTCTCAA
66 TAAATCCCC-AAAAGCTCAAAAAACGACATCGTTGGGCTTAGGTTTCTTTGCAGCAATTTCTCAA
*
46965292 AAACGCCACTAAAGCCCTGAGCATTAGCGACACTTTCTTAAAAACGCCGCTAAA
130 AAACGCCACTAAAGCCATGAGCATTAGCGACACTTTCTTAAAAACGCCGCTAAA
46965346 TCCACGAAAG
Statistics
Matches: 162, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
196 66 0.41
197 96 0.59
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (196 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTCCTGAAAAACGCCGC
TAAATCCCCAAAAGCTCAAAAAACGACATCGTTGGGCTTAGGTTTCTTTGCAGCAATTTCTCAAA
AACGCCACTAAAGCCATGAGCATTAGCGACACTTTCTTAAAAACGCCGCTAAAGCCATGAGCATT
A
Found at i:46965490 original size:73 final size:70
Alignment explanation
Indices: 46965324--46965491 Score: 189
Period size: 73 Copynumber: 2.3 Consensus size: 70
46965314 ATTAGCGACA
*
46965324 CTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTTAGGCATCGTTGGGCTTAGGTTTTTTTAGCA
1 CTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTAAGGCATCGTTGGGCTTAGGTTTTTTTAGC-
46965389 TTAGAGCG
65 --AGAGCG
* **
46965397 CGTTCTTAAAAACGTTGCTAAATCCACGAAAGCTCAGAAAACGGCATCGTTGGGCTTAGGTTTTT
1 CTTTCTTAAAAACGCCGCTAAATCCACGAAAGCT-----AA-GGCATCGTTGGGCTTAGGTTTTT
46965462 TT-GC-G-GCG
60 TTAGCAGAGCG
*
46965470 CTTTCTCAAAAACGCCGCTAAA
1 CTTTCTTAAAAACGCCGCTAAA
46965492 GCCCTGAGCA
Statistics
Matches: 81, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
73 52 0.64
74 1 0.01
78 3 0.04
79 25 0.31
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (70 bp):
CTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTAAGGCATCGTTGGGCTTAGGTTTTTTTAGCA
GAGCG
Found at i:46965634 original size:114 final size:112
Alignment explanation
Indices: 46965385--46965714 Score: 507
Period size: 113 Copynumber: 2.9 Consensus size: 112
46965375 AGGTTTTTTT
* ** *
46965385 AGCATTAGAGCGCGTTCTTAAAAACGTTGCTAAATCCACGAAAGCTCAGAAAACGGCATCGTTGG
1 AGCATTAGAGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACAGCATCGTTGG
*
46965450 GCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTG
66 GCTTAGG-TTTTTTGCGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTG
* * * *
46965498 AGCATTAGCAGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACAGCATCGTTA
1 AGCATTAG-AGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACAGCATCGTTG
46965563 GGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTG
65 GGCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTG
* *
46965611 AGCATTAGATGCGCTTTCTTAAAAATGCCGCTAAATCCACGAAAGCTCAGAAAACATCATCGTTG
1 AGCATTAGA-GCGCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACAGCATCGTTG
* *
46965676 GGCTTAGGTTTTTCTGCGGCGCTTTCTTAAAAACACTGC
65 GGCTTAGGTTTTT-TGCGGCGCTTTCTCAAAAACGCTGC
46965715 GAAATCCCCG
Statistics
Matches: 197, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
112 1 0.01
113 117 0.59
114 79 0.40
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (112 bp):
AGCATTAGAGCGCTTTCTTAAAAACGCCGCTAAATCCACGAAAGCTCAGAAAACAGCATCGTTGG
GCTTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTG
Found at i:46968989 original size:16 final size:17
Alignment explanation
Indices: 46968968--46969002 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
46968958 AATTTAAAAG
*
46968968 ATATTTTTATAA-TTAA
1 ATATTTTTAGAATTTAA
46968984 ATATTTTTAGAATTTAA
1 ATATTTTTAGAATTTAA
46969001 AT
1 AT
46969003 GATTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
ATATTTTTAGAATTTAA
Found at i:46971316 original size:34 final size:34
Alignment explanation
Indices: 46971278--46971346 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
46971268 TAAAATCATC
*
46971278 AATTAAGTGAAACAGTGAATCACCATGTATTTTT
1 AATTAAGTGAAACAGTGAACCACCATGTATTTTT
* *
46971312 AATTAGGTGAAATAGTGAACCACCATGTATTTTT
1 AATTAAGTGAAACAGTGAACCACCATGTATTTTT
46971346 A
1 A
46971347 GTTTCTATCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (34 bp):
AATTAAGTGAAACAGTGAACCACCATGTATTTTT
Found at i:46976754 original size:13 final size:13
Alignment explanation
Indices: 46976736--46976762 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46976726 TGAATTGATA
46976736 TGTGTGAAAATTT
1 TGTGTGAAAATTT
46976749 TGTGTGAAAATTT
1 TGTGTGAAAATTT
46976762 T
1 T
46976763 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:46979824 original size:13 final size:13
Alignment explanation
Indices: 46979806--46979830 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46979796 ACAAACGATA
46979806 AAATTTTCACACG
1 AAATTTTCACACG
46979819 AAATTTTCACAC
1 AAATTTTCACAC
46979831 ATATCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:46983162 original size:21 final size:20
Alignment explanation
Indices: 46983137--46983178 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
46983127 TTATAATCAG
*
46983137 AGAGTGTCACATCAAGTTTTA
1 AGAGTGTCAC-TAAAGTTTTA
*
46983158 AGAGTTTCACTAAAGTTTTA
1 AGAGTGTCACTAAAGTTTTA
46983178 A
1 A
46983179 AAAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (20 bp):
AGAGTGTCACTAAAGTTTTA
Found at i:46987817 original size:49 final size:49
Alignment explanation
Indices: 46987710--46987893 Score: 174
Period size: 49 Copynumber: 3.8 Consensus size: 49
46987700 AACTTAGGCT
* * * * * * * * *
46987710 CCCAGTTCACAGTGGTTATACGGTCAC-AGGTTGAAGCATAAATAGAGCG
1 CCCAGTTGACGGTGGTTATGCAGTCACGA-GTTCAAGTATAACTCGAGCC
* *
46987759 CCCAATTGACGGTGGTTATGCAGTCACGAGTTCAGGTATAACTCGAGCC
1 CCCAGTTGACGGTGGTTATGCAGTCACGAGTTCAAGTATAACTCGAGCC
* * * *
46987808 CCCAGTTGACAGTGGTTATGCAATCATGGGTTCAAGTATAACTCG-GCC
1 CCCAGTTGACGGTGGTTATGCAGTCACGAGTTCAAGTATAACTCGAGCC
* * *
46987856 CCCCGATTGACGGTGGTTATGCGGTCGCGAGTTCAAGT
1 CCCAG-TTGACGGTGGTTATGCAGTCACGAGTTCAAGT
46987894 TTCATGCTAC
Statistics
Matches: 109, Mismatches: 24, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
48 7 0.06
49 101 0.93
50 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (49 bp):
CCCAGTTGACGGTGGTTATGCAGTCACGAGTTCAAGTATAACTCGAGCC
Found at i:46988486 original size:49 final size:49
Alignment explanation
Indices: 46988407--46988551 Score: 164
Period size: 49 Copynumber: 3.0 Consensus size: 49
46988397 GTGGCATGAA
* *
46988407 ACTTGAACTCGTGACCACATAATCACCGTCAACTGGGGGCCCGAGTTAT
1 ACTTGAACTCGTGACTACATAACCACCGTCAACTGGGGGCCCGAGTTAT
* * * * * *
46988456 ACTTGAACCCGTGACTGCATAACCATCGTCAACTGGGTGTCCTAGTTAT
1 ACTTGAACTCGTGACTACATAACCACCGTCAACTGGGGGCCCGAGTTAT
* * * * * *
46988505 ACTTCAACTCGTGACTATATAATCACCGTGAATTGGGGGCTCGAGTT
1 ACTTGAACTCGTGACTACATAACCACCGTCAACTGGGGGCCCGAGTT
46988552 GCAATGCAAC
Statistics
Matches: 76, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
49 76 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (49 bp):
ACTTGAACTCGTGACTACATAACCACCGTCAACTGGGGGCCCGAGTTAT
Found at i:46991860 original size:22 final size:23
Alignment explanation
Indices: 46991816--46991866 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
46991806 ATGAATGTTG
*
46991816 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT-ACATATAATTAT
46991840 TTTAAATTTAT-CATATAATTAT
1 TTTAAATTTATACATATAATTAT
46991862 TTTAA
1 TTTAA
46991867 GTTTCCATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 15 0.58
24 11 0.42
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTAAATTTATACATATAATTAT
Found at i:46992545 original size:37 final size:37
Alignment explanation
Indices: 46992483--46992628 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
46992473 TACGTACGAT
* *
46992483 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
46992518 CACTTATCATTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
46992555 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
46992592 CACTTGTCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
46992629 TAAAGCTATC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 91 0.88
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:46992659 original size:46 final size:46
Alignment explanation
Indices: 46992592--46992952 Score: 506
Period size: 46 Copynumber: 7.6 Consensus size: 46
46992582 TAAGTGTAGC
* * * **
46992592 CACTTGTCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
46992638 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
46992684 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
46992736 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
46992782 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
46992828 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
* * ** *
46992874 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
46992926 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
46992953 AGTACTCAAA
Statistics
Matches: 290, Mismatches: 13, Indels: 24
0.89 0.04 0.07
Matches are distributed among these distances:
46 203 0.70
48 1 0.00
49 2 0.01
50 1 0.00
52 83 0.29
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:46992869 original size:190 final size:190
Alignment explanation
Indices: 46992592--46992952 Score: 623
Period size: 190 Copynumber: 1.9 Consensus size: 190
46992582 TAAGTGTAGC
* * * * *
46992592 CACTTGTCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTGTCACT
*
46992657 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
46992722 GTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
131 GTAGCCAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
46992782 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTGTCACT
*
46992847 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
46992912 GTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
131 GTAGCCAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
46992953 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
190 160 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (190 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTGTCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:47003129 original size:5 final size:5
Alignment explanation
Indices: 47003119--47003143 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
47003109 ATTTAAATAA
47003119 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
47003144 ATAAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:47004526 original size:12 final size:12
Alignment explanation
Indices: 47004509--47004535 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47004499 ACAAATATGC
47004509 ATATCTATGTAT
1 ATATCTATGTAT
47004521 ATATCTATGTAT
1 ATATCTATGTAT
47004533 ATA
1 ATA
47004536 AATTATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (12 bp):
ATATCTATGTAT
Found at i:47004721 original size:3 final size:3
Alignment explanation
Indices: 47004713--47004750 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
47004703 NNNNNNNNNN
47004713 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
47004751 AATGACAGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47006315 original size:91 final size:93
Alignment explanation
Indices: 47006160--47006590 Score: 476
Period size: 99 Copynumber: 4.5 Consensus size: 93
47006150 TTGCAATGTC
* * *
47006160 GGGGAAGTGAGACTCGCTGTTGTAGCTTTAATCTATTCCGCTGCATCGCCTGGAAGTAAGATTCG
1 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGAAAGTAAGATTCG
47006225 CCGTTGTGGCTTCGATC-T-AACGCAAT
66 CCGTTGTGGCTTCGATCTTAAACGCAAT
* *
47006251 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATTTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
1 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGAAAGTAAGATTCG
*
47006316 CCGTTGTGGCTTCGATCTTTTAAATTGCAAT
66 CCGTTGTGGCTTCGATC--TTAAA-CGCAAT
* *
47006347 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCTGCTGCATCGCCTGGAAA-TAAGATTC
1 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTATTCCGCTGCATCGCCT-GAAAGTAAGATTC
** *
47006411 GTTGTTGTGGCTTTGATCTTTTAAACTGCAATGT
65 GCCGTTGTGGCTTCGATC--TTAAAC-GCAA--T
* * ** * *
47006445 CGGGGAAGTAAGATTCGCTATTGTAGCTTCAATCTATTCCGTTGCATCGCCTGAAGGTAAGATTC
1 -GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGAAAGTAAGATTC
47006510 GCCGTTGTGGCTTCGATCTTTTAAACTGCAATGT
65 GCCGTTGTGGCTTCGATC--TTAAAC-GCAA--T
** * *
47006544 CGGGGAAGT-ATGA-TCCGCAATTGTAGCTTCAATCTGTTCCACTGCAT
1 -GGGGAAGTGA-GACT-CGCCGTTGTAGCTTCAATCTATTCCGCTGCAT
47006591 TGCCAGGGAG
Statistics
Matches: 300, Mismatches: 27, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
91 77 0.26
94 1 0.00
95 2 0.01
96 88 0.29
97 4 0.01
98 6 0.02
99 122 0.41
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (93 bp):
GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGAAAGTAAGATTCG
CCGTTGTGGCTTCGATCTTAAACGCAAT
Found at i:47006375 original size:47 final size:48
Alignment explanation
Indices: 47006246--47006380 Score: 132
Period size: 49 Copynumber: 2.8 Consensus size: 48
47006236 TCGATCTAAC
***
47006246 GCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAAT-TTGTTCCGCT
1 GCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTTGTTAAACT
* * * * * * *
47006293 GC-ATCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTT-TTAAATT
1 GCAAT-G--GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTTGTTAAACT
47006342 GCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCT
1 GCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCT
47006381 GTTCTGCTGC
Statistics
Matches: 67, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
46 2 0.03
47 30 0.45
49 31 0.46
50 4 0.06
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (48 bp):
GCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTTGTTAAACT
Found at i:47006506 original size:99 final size:99
Alignment explanation
Indices: 47006251--47006641 Score: 468
Period size: 99 Copynumber: 4.0 Consensus size: 99
47006241 CTAACGCAAT
* * * *
47006251 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATTTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
1 GGGGAAGTAAGACTCGCCATTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAGGTAAGATTCG
*
47006316 CCGTTGTGGCTTCGATCTTTTAAATTGCAA--T-
66 CCGTTGTGGCTTCGATCTTTTAAACTGCAATGTC
* * * *
47006347 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCTGCTGCATCGCCTGGAA-ATAAGATTC
1 GGGGAAGTAAGACTCGCCATTGTAGCTTCAATCTGTTCCGCTGCATCGCCT-GAAGGTAAGATTC
** *
47006411 GTTGTTGTGGCTTTGATCTTTTAAACTGCAATGTC
65 GCCGTTGTGGCTTCGATCTTTTAAACTGCAATGTC
* * * *
47006446 GGGGAAGTAAGATTCGCTATTGTAGCTTCAATCTATTCCGTTGCATCGCCTGAAGGTAAGATTCG
1 GGGGAAGTAAGACTCGCCATTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAGGTAAGATTCG
47006511 CCGTTGTGGCTTCGATCTTTTAAACTGCAATGTC
66 CCGTTGTGGCTTCGATCTTTTAAACTGCAATGTC
* * * * * * *
47006545 GGGGAAGTATGA-TCCGCAATTGTAGCTTCAATCTGTTCCACTGCATTGCCAGGGAGGTGAGATT
1 GGGGAAGTAAGACT-CGCCATTGTAGCTTCAATCTGTTCCGCTGCATCGCC-TGAAGGTAAGATT
** * * *
47006609 CGTTGTTGTAGCTTCAATCTTTTAAATTGCAAT
64 CGCCGTTGTGGCTTCGATCTTTTAAACTGCAAT
47006642 CTATGGTTAC
Statistics
Matches: 256, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
96 84 0.33
97 3 0.01
98 5 0.02
99 126 0.49
100 38 0.15
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (99 bp):
GGGGAAGTAAGACTCGCCATTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAGGTAAGATTCG
CCGTTGTGGCTTCGATCTTTTAAACTGCAATGTC
Found at i:47020554 original size:29 final size:29
Alignment explanation
Indices: 47020498--47020558 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
47020488 CATATTCTAT
* *
47020498 TATGAAAAGTTACAAAATGATCACCCAAC
1 TATGAAAAGTCACAAAATGACCACCCAAC
* * *
47020527 TATGAAAAGTCATAAAATGGCCATCCAAC
1 TATGAAAAGTCACAAAATGACCACCCAAC
47020556 TAT
1 TAT
47020559 TCAATTTTGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (29 bp):
TATGAAAAGTCACAAAATGACCACCCAAC
Found at i:47021353 original size:17 final size:18
Alignment explanation
Indices: 47021331--47021368 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
47021321 ATGCATCAAA
*
47021331 TTTTCTC-CATCAATTCT
1 TTTTCTCTCATAAATTCT
47021348 TTTTCTCTCATAAATTCT
1 TTTTCTCTCATAAATTCT
47021366 TTT
1 TTT
47021369 CTAGTTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTCTCTCATAAATTCT
Found at i:47026770 original size:2 final size:2
Alignment explanation
Indices: 47026763--47026805 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
47026753 GGTAGCATTA
47026763 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47026805 A
1 A
47026806 GTAAACCTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47034180 original size:13 final size:13
Alignment explanation
Indices: 47034162--47034197 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
47034152 TTTAAAACCC
*
47034162 TAAATATTTTTAT
1 TAAATATTTATAT
47034175 TAAATATTTATAT
1 TAAATATTTATAT
47034188 TAAATATTTA
1 TAAATATTTA
47034198 CAGAGTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAATATTTATAT
Found at i:47037619 original size:23 final size:23
Alignment explanation
Indices: 47037587--47037637 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
47037577 TTTTGTAAAT
47037587 TAAAT-CACCAAGGTTAAAATTG
1 TAAATGCACCAAGGTTAAAATTG
47037609 TAAATGCACCAAGGTTAAAATTG
1 TAAATGCACCAAGGTTAAAATTG
47037632 TAAATG
1 TAAATG
47037638 ATGTAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (23 bp):
TAAATGCACCAAGGTTAAAATTG
Found at i:47039292 original size:43 final size:43
Alignment explanation
Indices: 47039222--47039366 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
47039212 ATTGATTTGA
* * *
47039222 GATTTACGTGTAA-ACCATGTCTGGGACATTGGCGTCGTATAT
1 GATTTACGTGTAAGACCATGTCTAGGACACTGGCATCGTATAT
* * *
47039264 GATTAACGTGTAAGACCATGCCTAGGACACTGGCATCATATAT
1 GATTTACGTGTAAGACCATGTCTAGGACACTGGCATCGTATAT
* * * *
47039307 GATTTACGTGTAAGATTC-TGTCTAGGACAGTGACATCGATATTT
1 GATTTACGTGTAAGA-CCATGTCTAGGACACTGGCATCG-TATAT
47039351 GA-TTACGTGTAAGACC
1 GATTTACGTGTAAGACC
47039367 TCGTTTGGGA
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 13 0.15
43 66 0.77
44 7 0.08
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTAGGACACTGGCATCGTATAT
Found at i:47045391 original size:31 final size:30
Alignment explanation
Indices: 47045335--47045405 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
47045325 AAATATGGAC
*
47045335 TTAAATT-TAAAAATTTTAAAAATAGAGAG
1 TTAAATTCTAAAAATTTAAAAAATAGAGAG
*
47045364 ATTAAATTCTTAAAA-TTAAAAATATAGAGAG
1 -TTAAATTCTAAAAATTTAAAAA-ATAGAGAG
47045395 -TAAATTCTAAA
1 TTAAATTCTAAA
47045406 TTTTGGCAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 10 0.28
30 13 0.36
31 13 0.36
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (30 bp):
TTAAATTCTAAAAATTTAAAAAATAGAGAG
Found at i:47052849 original size:21 final size:20
Alignment explanation
Indices: 47052821--47052861 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
47052811 ATTATTATTA
47052821 AATAAATTTTAT-AATTTTTT
1 AATAAATTTT-TGAATTTTTT
47052841 AATATAATTTTTGAATTTTTT
1 AATA-AATTTTTGAATTTTTT
47052862 TAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
AATAAATTTTTGAATTTTTT
Found at i:47069570 original size:155 final size:154
Alignment explanation
Indices: 47069224--47069852 Score: 693
Period size: 155 Copynumber: 4.1 Consensus size: 154
47069214 GGATGTTCCA
* * * **
47069224 AAAATTGTATAGGAAGATCATTTACAAGTTTAATTATGTAATGTTATTTAATATTTCAAGA-T-T
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTT-TTTAATAAGTCAAGATTAT
* * * *
47069287 -ACTGAATTTCAACCCTTCCAAGAAAAATTATGAAATTTGCTCATTGCCAAATAG-TTAGGGTTT
65 AATTGAATTTCAACCCTTCCAAG-AAAATTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTTT
* *
47069350 ACCCTAATTTGTATAGCTATGTGGTG
129 ACCCTAATTTGTATAACTATGTTGTG
* * * *
47069376 GAAGTTGTATAGGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATAAGTCAAGATCATA
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATAAGTCAAGATTATA
* *
47069441 ATTGAATTTCAACCCTTCCAAGAAAGCTTATGGAATTTTCCCATTGCCAAATAGTTTAGAGTTTA
66 ATTGAATTTCAACCCTTCCAAGAAA-ATTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTTTA
* **
47069506 CCCTTATTTGTATAACTACATTGTG
130 CCCTAATTTGTATAACTATGTTGTG
* **
47069531 GAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTCATTAA-ACATGTCAAGATTA
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATA-A-GTCAAGATTA
* * * *
47069595 TAATTGAA-TTCTGACCCTT--AAAAAAAGTTATGGAATTTTCCCATTGCTAAATAGTTTAGGAT
64 TAATTGAATTTC-AACCCTTCCAAGAAAA-TTATGGAATTTTCCCATTGCCAAATAGTTTAGGGT
* * * *
47069657 TTACTC-AATTTTTATAGCTATGTTATG
127 TTACCCTAATTTGTATAACTATGTTGTG
* ** * * *
47069684 AAAATTGTATATGAAGTAAATTTACAAGTTTGATTATGTAATATAATTTAATACG-CTAAGATTA
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGT-TTTTAATAAGTC-AAGATTA
* * * ** *
47069748 TAATTGAATTTCGACCCTTCTAAGAAAATTTATAGAATTCACCCATGGCCAAATAGTTTAGGGTT
64 TAATTGAATTTCAACCCTTCCAAGAAAA-TTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTT
* *
47069813 TACCCTAATTTGTATAATTGTGTTGTG
128 TACCCTAATTTGTATAACTATGTTGTG
47069840 AAAATTGTATAAG
1 AAAATTGTATAAG
47069853 TTTGATTAAA
Statistics
Matches: 402, Mismatches: 59, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
151 13 0.03
152 42 0.10
153 81 0.20
154 95 0.24
155 120 0.30
156 51 0.13
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (154 bp):
AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATAAGTCAAGATTATA
ATTGAATTTCAACCCTTCCAAGAAAATTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTTTAC
CCTAATTTGTATAACTATGTTGTG
Found at i:47069817 original size:309 final size:306
Alignment explanation
Indices: 47069224--47069852 Score: 764
Period size: 309 Copynumber: 2.0 Consensus size: 306
47069214 GGATGTTCCA
* * * * *
47069224 AAAATTGTATAGGAAGATCATTTACAAGTTTAATTATGTAATGTTATTTAATATTTCAAGATTAC
1 AAAATTGTATAAGAAGATCATTTACAAGTTTAATTATGTAATGTCATTAAACATGTCAAGATTAC
* *
47069289 TGAATTTCAACCCTTCCAAGAAAAATTATGAAATTTGCTCATTGCCAAATAGTTAGGGTTTACCC
66 TGAATTTCAACCCTT-CAAGAAAAATTATGAAATTTGCCCATTGCCAAATAGTTAGGATTTACCC
* * * ** *
47069354 TAATTTGTATAGCTATGTGGTGGAAGTTGTATAGGAAGTTCATTTACAAGTTTGATTATGTAATG
130 TAATTTGTATAGCTATGTGATGAAAATTGTATAGGAAGTAAATTTACAAGTTTGATTATGTAATA
* * * **
47069419 TTTTTAATAAGTCAAGATCATAATTGAATTTCAACCCTTCCAAGAAAGCTTATGGAATTTTCCCA
195 TATTTAATAAGTCAAGATCATAATTGAATTTCAACCCTTCCAAGAAAACTTATAGAATTCACCCA
* *
47069484 TTGCCAAATAGTTTAGAGTTTACCCTTATTTGTATAACTACATTGTG
260 TGGCCAAATAGTTTAGAGTTTACCCTAATTTGTATAACTACATTGTG
* * *
47069531 GAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTCATTAAACATGTCAAGATTAT
1 AAAATTGTATAAGAAGATCATTTACAAGTTTAATTATGTAATGTCATTAAACATGTCAAGA-T-T
* * * * *
47069596 AATTGAA-TTCTGACCCTT-AA-AAAAAGTTATGGAATTTTCCCATTGCTAAATAGTTTAGGATT
64 -ACTGAATTTC-AACCCTTCAAGAAAAA-TTATGAAATTTGCCCATTGCCAAATAG-TTAGGATT
* * * *
47069658 TACTC-AATTTTTATAGCTATGTTATGAAAATTGTATATGAAGTAAATTTACAAGTTTGATTATG
125 TACCCTAATTTGTATAGCTATGTGATGAAAATTGTATAGGAAGTAAATTTACAAGTTTGATTATG
* * * * *
47069722 TAATATAATTTAATACG-CTAAGATTATAATTGAATTTCGACCCTTCTAAGAAAATTTATAGAAT
190 TAATAT-ATTTAATAAGTC-AAGATCATAATTGAATTTCAACCCTTCCAAGAAAACTTATAGAAT
* * ***
47069786 TCACCCATGGCCAAATAGTTTAGGGTTTACCCTAATTTGTATAATTGTGTTGTG
253 TCACCCATGGCCAAATAGTTTAGAGTTTACCCTAATTTGTATAACTACATTGTG
47069840 AAAATTGTATAAG
1 AAAATTGTATAAG
47069853 TTTGATTAAA
Statistics
Matches: 271, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
307 58 0.21
308 83 0.31
309 119 0.44
310 11 0.04
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (306 bp):
AAAATTGTATAAGAAGATCATTTACAAGTTTAATTATGTAATGTCATTAAACATGTCAAGATTAC
TGAATTTCAACCCTTCAAGAAAAATTATGAAATTTGCCCATTGCCAAATAGTTAGGATTTACCCT
AATTTGTATAGCTATGTGATGAAAATTGTATAGGAAGTAAATTTACAAGTTTGATTATGTAATAT
ATTTAATAAGTCAAGATCATAATTGAATTTCAACCCTTCCAAGAAAACTTATAGAATTCACCCAT
GGCCAAATAGTTTAGAGTTTACCCTAATTTGTATAACTACATTGTG
Found at i:47070446 original size:13 final size:13
Alignment explanation
Indices: 47070428--47070473 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
47070418 GACCTCCTTG
47070428 AATTAAATTATTA
1 AATTAAATTATTA
47070441 AATTAAA--ATT-
1 AATTAAATTATTA
47070451 AATTAAAATTATTA
1 AATT-AAATTATTA
47070465 AA-TAAATTA
1 AATTAAATTA
47070474 AATTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
10 4 0.14
11 6 0.21
12 6 0.21
13 11 0.38
14 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AATTAAATTATTA
Found at i:47070454 original size:23 final size:22
Alignment explanation
Indices: 47070428--47070480 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 22
47070418 GACCTCCTTG
47070428 AATTAAATTATTAAATTAAAATT-
1 AATTAAATTATTAAA-T-AAATTA
47070451 AATTAAAATTATTAAATAAATTA
1 AATT-AAATTATTAAATAAATTA
47070474 AATTAAA
1 AATTAAA
47070481 ATTAAAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.29
23 9 0.32
24 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTAAATTATTAAATAAATTA
Found at i:47070456 original size:10 final size:9
Alignment explanation
Indices: 47070428--47070479 Score: 51
Period size: 8 Copynumber: 6.2 Consensus size: 9
47070418 GACCTCCTTG
47070428 AATTAAATT
1 AATTAAATT
47070437 -ATTAAATT
1 AATTAAATT
47070445 -A--AAATT
1 AATTAAATT
47070451 AATTAAAATT
1 AATT-AAATT
*
47070461 -ATTAAATA
1 AATTAAATT
47070469 AATTAAATT
1 AATTAAATT
47070478 AA
1 AA
47070480 AATTAAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
6 5 0.14
7 1 0.03
8 13 0.36
9 12 0.33
10 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:47070467 original size:18 final size:18
Alignment explanation
Indices: 47070429--47070475 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
47070419 ACCTCCTTGA
47070429 ATTAAATT-ATT-AAATT
1 ATTAAATTAATTAAAATT
47070445 A--AAATTAATTAAAATT
1 ATTAAATTAATTAAAATT
*
47070461 ATTAAATAAATTAAA
1 ATTAAATTAATTAAA
47070476 TTAAAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 3 0.12
16 7 0.27
18 11 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATTAAAATT
Found at i:47070481 original size:23 final size:24
Alignment explanation
Indices: 47070428--47070484 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
47070418 GACCTCCTTG
47070428 AATT-AAATTATTAAATTAAAATT
1 AATTAAAATTATTAAATTAAAATT
47070451 AATTAAAATTATTAAA-T-AAATT
1 AATTAAAATTATTAAATTAAAATT
47070473 AAATTAAAATTA
1 -AATTAAAATTA
47070485 AAGAATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 5 0.16
23 16 0.50
24 11 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTAAAATTATTAAATTAAAATT
Found at i:47072733 original size:20 final size:21
Alignment explanation
Indices: 47072695--47072733 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
47072685 CCAGGTCAAA
*
47072695 AAGTATCGATACCTTTTGGCC
1 AAGTATCGATACATTTTGGCC
47072716 AAGTATCGATA-ATTTTGG
1 AAGTATCGATACATTTTGG
47072734 AATTATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (21 bp):
AAGTATCGATACATTTTGGCC
Found at i:47074238 original size:29 final size:29
Alignment explanation
Indices: 47074204--47074261 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
47074194 TAACATTATT
* *
47074204 TTATATTTATATAT-TACATATATAAATAA
1 TTATATATATATATCTA-ATATAAAAATAA
*
47074233 TTATATATATTTATCTAATATAAAAATAA
1 TTATATATATATATCTAATATAAAAATAA
47074262 ATTGATCTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
TTATATATATATATCTAATATAAAAATAA
Found at i:47083152 original size:2 final size:2
Alignment explanation
Indices: 47083145--47083177 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
47083135 TAGTTAATTT
47083145 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
47083178 GTTCCATTTA
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:47089182 original size:20 final size:20
Alignment explanation
Indices: 47089157--47089196 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47089147 CGTAAAATGA
*
47089157 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
47089177 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
47089197 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:47089186 original size:34 final size:35
Alignment explanation
Indices: 47089142--47089208 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
47089132 CAGTAAAATA
* *
47089142 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
*
47089176 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
47089209 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:47090534 original size:12 final size:12
Alignment explanation
Indices: 47090519--47090565 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
47090509 AAACAGCAAA
47090519 AACAACAAAAAT
1 AACAACAAAAAT
*
47090531 AACAGCAAAAAGT
1 AACAACAAAAA-T
*
47090544 -GCAACAAAAAT
1 AACAACAAAAAT
*
47090555 AACAGCAAAAA
1 AACAACAAAAA
47090566 CAACTCCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 1 0.04
12 26 0.93
13 1 0.04
ACGTcount: A:0.68, C:0.17, G:0.09, T:0.06
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:47090553 original size:24 final size:21
Alignment explanation
Indices: 47090510--47090569 Score: 93
Period size: 24 Copynumber: 2.7 Consensus size: 21
47090500 TAATAGTACA
47090510 AACAGCAAAAACAACAAAAAT
1 AACAGCAAAAACAACAAAAAT
47090531 AACAGCAAAAAGTGCAACAAAAAT
1 AACAGCAAAAA---CAACAAAAAT
47090555 AACAGCAAAAACAAC
1 AACAGCAAAAACAAC
47090570 TCCAAAACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
21 15 0.42
24 21 0.58
ACGTcount: A:0.67, C:0.20, G:0.08, T:0.05
Consensus pattern (21 bp):
AACAGCAAAAACAACAAAAAT
Found at i:47093775 original size:24 final size:24
Alignment explanation
Indices: 47093746--47093794 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
47093736 AAGATAATTT
47093746 TATAAAGAACCGAACATAGACTAA
1 TATAAAGAACCGAACATAGACTAA
47093770 TATAAAGAACCGAACATAGACTAA
1 TATAAAGAACCGAACATAGACTAA
47093794 T
1 T
47093795 GGGTTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.18
Consensus pattern (24 bp):
TATAAAGAACCGAACATAGACTAA
Found at i:47109096 original size:19 final size:19
Alignment explanation
Indices: 47109072--47109137 Score: 87
Period size: 19 Copynumber: 3.5 Consensus size: 19
47109062 AAGCTCTTAT
*
47109072 GAGCTTCTGTTCAACTTTC
1 GAGCTTCTGTTCAGCTTTC
* *
47109091 GAGCTTCTGTTTAGCTTTT
1 GAGCTTCTGTTCAGCTTTC
*
47109110 GAGCTTATGTTCAGCTTTC
1 GAGCTTCTGTTCAGCTTTC
*
47109129 AAGCTTCTG
1 GAGCTTCTG
47109138 GTGGCGTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (19 bp):
GAGCTTCTGTTCAGCTTTC
Found at i:47113905 original size:7 final size:7
Alignment explanation
Indices: 47113893--47113919 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
47113883 GCCTCAATAA
47113893 TTCAAAT
1 TTCAAAT
47113900 TTCAAAT
1 TTCAAAT
47113907 TTCAAAT
1 TTCAAAT
47113914 TTCAAA
1 TTCAAA
47113920 AATAGATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TTCAAAT
Found at i:47115853 original size:13 final size:13
Alignment explanation
Indices: 47115820--47115853 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
47115810 CAATTCAAAC
*
47115820 TAAAAAAAACAAT
1 TAAAAAATACAAT
*
47115833 TAAAAAATACAGT
1 TAAAAAATACAAT
47115846 TAAAAAAT
1 TAAAAAAT
47115854 CATATTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (13 bp):
TAAAAAATACAAT
Found at i:47115961 original size:20 final size:18
Alignment explanation
Indices: 47115936--47115977 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
47115926 ATAATTTCTC
*
47115936 ATAATTTCTTTATTTTTTAT
1 ATAATTT-TTAATTTTTT-T
47115956 ATAATTTTTAATTTTTTT
1 ATAATTTTTAATTTTTTT
47115974 ATAA
1 ATAA
47115978 AATTTTCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
ATAATTTTTAATTTTTTT
Found at i:47117894 original size:23 final size:23
Alignment explanation
Indices: 47117867--47117919 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
47117857 CTTCGATGGC
* *
47117867 CTTCTTCGAGTGTTCTTTTCA-AT
1 CTTCTTCGAGTGCTCTCTT-AGAT
*
47117890 CTTCTTTGAGTGCTCTCTTAGAT
1 CTTCTTCGAGTGCTCTCTTAGAT
47117913 CTTCTTC
1 CTTCTTC
47117920 TAATTGATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.11, C:0.25, G:0.13, T:0.51
Consensus pattern (23 bp):
CTTCTTCGAGTGCTCTCTTAGAT
Found at i:47128071 original size:25 final size:27
Alignment explanation
Indices: 47128017--47128076 Score: 90
Period size: 25 Copynumber: 2.3 Consensus size: 27
47128007 ATTTTCTCAA
*
47128017 AATTTTA-CCAAGGTTAAAATCGTCAT
1 AATTTTATCCAAGGGTAAAATCGTCAT
47128043 AATTTTATCC-AGGGTAAAA-CGTCAT
1 AATTTTATCCAAGGGTAAAATCGTCAT
47128068 AATTTTATC
1 AATTTTATC
47128077 GTAGGTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 15 0.47
26 15 0.47
27 2 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (27 bp):
AATTTTATCCAAGGGTAAAATCGTCAT
Found at i:47133814 original size:42 final size:43
Alignment explanation
Indices: 47133707--47133822 Score: 137
Period size: 42 Copynumber: 2.7 Consensus size: 43
47133697 CTCGTACAAT
* * * *
47133707 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAATTAACCAT
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAATTAACCAC
* * *
47133750 GCCACTGTCCCAGACAGGGTCTTACACGTAATC-A-TATACGAC
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAATTA-ACCAC
*
47133792 GCCAATGTCCCAGACATCGTCTTACACGTAA
1 GCCAATGTCCCAGACATGGTCTTACACGTAA
47133823 ATCTCAAATC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.03
42 32 0.52
43 28 0.45
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGTAATCAATTAACCAC
Found at i:47135700 original size:14 final size:14
Alignment explanation
Indices: 47135681--47135716 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
47135671 GTTTGTTTAC
47135681 ATGTAAAAGGTTTT
1 ATGTAAAAGGTTTT
47135695 ATGTAAAAGGTTTT
1 ATGTAAAAGGTTTT
*
47135709 ATGGAAAA
1 ATGTAAAA
47135717 TATTTTCTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (14 bp):
ATGTAAAAGGTTTT
Found at i:47135987 original size:13 final size:14
Alignment explanation
Indices: 47135964--47135995 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
47135954 AATATTTAAA
47135964 AATATTAAAATATT
1 AATATTAAAATATT
47135978 AATA-TAAAATATT
1 AATATTAAAATATT
47135991 -ATATT
1 AATATT
47135996 TTTAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 10 0.59
14 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AATATTAAAATATT
Found at i:47136149 original size:16 final size:17
Alignment explanation
Indices: 47136113--47136149 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
47136103 AATTTTATTT
*
47136113 TAATAGTAAGTTTTAAA
1 TAATAATAAGTTTTAAA
47136130 -AATAATAA-TTTTAAA
1 TAATAATAAGTTTTAAA
47136145 TAATA
1 TAATA
47136150 TTATTATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TAATAATAAGTTTTAAA
Found at i:47137307 original size:21 final size:21
Alignment explanation
Indices: 47137250--47137316 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
47137240 TCACAAAAGT
* * * *
47137250 GTGTCTCTCAACCACTCGGTA
1 GTGTCTTTCAGCCACACGGTC
47137271 GTGTCTTTCAGCCACACGGTC
1 GTGTCTTTCAGCCACACGGTC
*
47137292 GTGTCTCTT-AGTCACACGGTC
1 GTGTCT-TTCAGCCACACGGTC
47137313 GTGT
1 GTGT
47137317 GAACTTGACC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
21 38 0.95
22 2 0.05
ACGTcount: A:0.15, C:0.30, G:0.24, T:0.31
Consensus pattern (21 bp):
GTGTCTTTCAGCCACACGGTC
Found at i:47139332 original size:4 final size:4
Alignment explanation
Indices: 47139323--47139347 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
47139313 GGTAAATTGG
47139323 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
47139348 GTCTAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:47140333 original size:42 final size:42
Alignment explanation
Indices: 47140271--47140357 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
47140261 TGCAGATTCT
* * *
47140271 CCACAGTTCATGTGAGCAGCATCGTGTAGCTAACATCTCGAC
1 CCACAGCTCATGTGAACAGCATCATGTAGCTAACATCTCGAC
* *
47140313 CCACAGCTCATGTTAACAGCATCATGTAGCTAACATCTCGGC
1 CCACAGCTCATGTGAACAGCATCATGTAGCTAACATCTCGAC
47140355 CCA
1 CCA
47140358 TTTCACAGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (42 bp):
CCACAGCTCATGTGAACAGCATCATGTAGCTAACATCTCGAC
Found at i:47141521 original size:53 final size:53
Alignment explanation
Indices: 47141428--47141531 Score: 122
Period size: 53 Copynumber: 2.0 Consensus size: 53
47141418 AAGTGAAAGA
* *
47141428 TGAACCACACAGTCACAGAGAGTTACATGGCCTGGCGACACGG-CTGTGTGACC
1 TGAACCACACAGTCACAGAGAGTTACACGACCTGGCGACACGGTC-GTGTGACC
* * * *
47141481 TGAACCACAC-GATCACAGAGGGTTACACGACTTTGTGACACGGTCGTGTGA
1 TGAACCACACAG-TCACAGAGAGTTACACGACCTGGCGACACGGTCGTGTGA
47141532 ACCTATTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
52 1 0.02
53 41 0.95
54 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.28, T:0.19
Consensus pattern (53 bp):
TGAACCACACAGTCACAGAGAGTTACACGACCTGGCGACACGGTCGTGTGACC
Found at i:47147486 original size:27 final size:27
Alignment explanation
Indices: 47147428--47147494 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
47147418 GGACCACCCC
*
47147428 GTGTTTAATGTTCCAACAGACTATCCT
1 GTGTTTAATGTCCCAACAGACTATCCT
* * * * *
47147455 ATGTTTAATGTCCCATCGGGCTATCTT
1 GTGTTTAATGTCCCAACAGACTATCCT
*
47147482 GTGTTTATTGTCC
1 GTGTTTAATGTCC
47147495 TGTTAGACTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (27 bp):
GTGTTTAATGTCCCAACAGACTATCCT
Found at i:47147773 original size:45 final size:44
Alignment explanation
Indices: 47147705--47147833 Score: 159
Period size: 45 Copynumber: 2.9 Consensus size: 44
47147695 CTATCACCTA
* *
47147705 ATGTCATAGCATATTTCATCTATGGTCTTACTCATTTCTATCATG
1 ATGTCATAGCATCTTTCAACTATGGTCTTACTCATTT-TATCATG
* * * *
47147750 ATGTCATAACATCTTTTAGCTATGGTCTTACTCATCTTTGTCATG
1 ATGTCATAGCATCTTTCAACTATGGTCTTACTCAT-TTTATCATG
* * *
47147795 ACGTCATAGTATCTTTCAACTATGGTTTTACTCATTTTA
1 ATGTCATAGCATCTTTCAACTATGGTCTTACTCATTTTA
47147834 GGCGTATAGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
44 3 0.04
45 66 0.93
46 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (44 bp):
ATGTCATAGCATCTTTCAACTATGGTCTTACTCATTTTATCATG
Found at i:47150102 original size:18 final size:18
Alignment explanation
Indices: 47150058--47150094 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
47150048 TGATTTTAAG
47150058 CCATCAAAACTCCTTGCT
1 CCATCAAAACTCCTTGCT
47150076 CCATCAAAACTCCTTGCT
1 CCATCAAAACTCCTTGCT
47150094 C
1 C
47150095 TTTCAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.41, G:0.05, T:0.27
Consensus pattern (18 bp):
CCATCAAAACTCCTTGCT
Found at i:47150838 original size:22 final size:22
Alignment explanation
Indices: 47150791--47150835 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
47150781 ATGCAATCTT
*
47150791 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
47150813 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
47150836 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:47151561 original size:22 final size:21
Alignment explanation
Indices: 47151536--47151577 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
47151526 ATAATTCACA
47151536 TACATATATATTTTCTTATATG
1 TACATATAT-TTTTCTTATATG
*
47151558 TACATATATTTTTTTTATAT
1 TACATATATTTTTCTTATAT
47151578 TTTATCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (21 bp):
TACATATATTTTTCTTATATG
Found at i:47151607 original size:16 final size:15
Alignment explanation
Indices: 47151540--47151613 Score: 55
Period size: 16 Copynumber: 4.7 Consensus size: 15
47151530 TTCACATACA
47151540 TATATATTTTCTTATAT
1 TATATATTTTCTT-T-T
*
47151557 GTACATATATTT-TTTT
1 -TATATAT-TTTCTTTT
47151573 TATAT-TTTATCATTTT
1 TATATATTT-TC-TTTT
47151589 TATATATTTTCTTTGT
1 TATATATTTTCTTT-T
47151605 TAT-TATTTT
1 TATATATTTT
47151614 TGCTTTACTT
Statistics
Matches: 48, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
13 2 0.04
14 2 0.04
15 13 0.27
16 16 0.33
17 4 0.08
18 8 0.17
19 3 0.06
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (15 bp):
TATATATTTTCTTTT
Found at i:47155257 original size:11 final size:10
Alignment explanation
Indices: 47155243--47155286 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 10
47155233 AAAATATTTA
47155243 AAAAAAAAAG
1 AAAAAAAAAG
47155253 TAAAAAAAAAG
1 -AAAAAAAAAG
47155264 AGAAAAGAAAAG
1 A-AAAA-AAAAG
47155276 AAAAGAAAAAG
1 AAAA-AAAAAG
47155287 GAGAGGCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.03
11 22 0.73
12 7 0.23
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:47156649 original size:88 final size:88
Alignment explanation
Indices: 47156531--47156716 Score: 255
Period size: 88 Copynumber: 2.1 Consensus size: 88
47156521 GGTGAAACTT
* * *
47156531 CAGCCTTATCTCCCTGAGTAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTG
1 CAGCCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTACTG
* * *
47156596 GCAGTGAAGTAGATCGAAGATAC
66 GCAGCGAAGCAGATCGAAGACAC
* * * ** *
47156619 CAGCCTTGTCTCTCTGAGCAGCAGTAGAGTAGGTTGAAGTTGGCAGATCTTGTCTTCCTGTACTG
1 CAGCCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTACTG
47156684 GCAGCGAAGCAGATCGAAGACAC
66 GCAGCGAAGCAGATCGAAGACAC
*
47156707 CAGTCTTATC
1 CAGCCTTATC
47156717 ACCTTGACAT
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 84 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (88 bp):
CAGCCTTATCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATAGCAGATCTTGTCTTCCTGTACTG
GCAGCGAAGCAGATCGAAGACAC
Found at i:47157044 original size:101 final size:101
Alignment explanation
Indices: 47156920--47157113 Score: 293
Period size: 101 Copynumber: 1.9 Consensus size: 101
47156910 GAACCACAAC
* * * *
47156920 GGCGAATCTTACTCTCCTGGCGGTGTAGTGGAACAGATTGAAGCCACGATGGCGGATCTTG-TTT
1 GGCGAATCTTACTCTCCTAGCGGTGCAGTGGAACAGATTGAAGCCACGACGGCGAAT-TTGATTT
*
47156984 CCCCGACATTGCAATTAAAAAGATTGAAGCCATAAAT
65 CCCCGACATTGCAATTAAAAAGACTGAAGCCATAAAT
*
47157021 GGCGAATCTTACT-TCCTTAGCGGTGCAGTGGAACAGATTGAAGCTACGACGGCGAATTTGATTT
1 GGCGAATCTTACTCTCC-TAGCGGTGCAGTGGAACAGATTGAAGCCACGACGGCGAATTTGATTT
*
47157085 CCCCGACATTGTAATTAAAAAGACTGAAG
65 CCCCGACATTGCAATTAAAAAGACTGAAG
47157114 ATGACAAATC
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
100 6 0.07
101 78 0.93
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (101 bp):
GGCGAATCTTACTCTCCTAGCGGTGCAGTGGAACAGATTGAAGCCACGACGGCGAATTTGATTTC
CCCGACATTGCAATTAAAAAGACTGAAGCCATAAAT
Found at i:47157059 original size:51 final size:49
Alignment explanation
Indices: 47156896--47157064 Score: 142
Period size: 50 Copynumber: 3.4 Consensus size: 49
47156886 TTTGGCATTA
* * *
47156896 CAGTGGAATAGATTGAA-CCACAACGGCGAATCTTACTCTCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAATGGCGAATCTTACT-TCCTAGCGGTG
* * * ** ** **
47156945 TAGTGGAACAGATTGAAGCCACGATGGCGGATCTTGTTTCCCCGACATTG
1 CAGTGGAACAGATTGAAGCCACAATGGCGAATCTTACTTCCTAG-CGGTG
* ** * *
47156995 CAATTAAAAAGATTGAAGCCATAAATGGCGAATCTTACTTCCTTAGCGGTG
1 CAGTGGAACAGATTGAAGCCA-CAATGGCGAATCTTACTTCC-TAGCGGTG
47157046 CAGTGGAACAGATTGAAGC
1 CAGTGGAACAGATTGAAGC
47157065 TACGACGGCG
Statistics
Matches: 87, Mismatches: 29, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
49 19 0.22
50 34 0.39
51 33 0.38
52 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (49 bp):
CAGTGGAACAGATTGAAGCCACAATGGCGAATCTTACTTCCTAGCGGTG
Found at i:47157190 original size:44 final size:44
Alignment explanation
Indices: 47157120--47157446 Score: 248
Period size: 44 Copynumber: 7.5 Consensus size: 44
47157110 GAAGATGACA
47157120 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * **
47157164 AATCCTATCTCCCTGAAGTTGTAGTGGAGC-GAATTAAAATC-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAGCCAAT
* * * *
47157207 AGATCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-T--AG-CATCT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * * *
47157248 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
* * * * *
47157291 AAGTCTTATCTTCCTGAAGTTGTAGT-GAGGCAGACTGAAGGTGGC-A-
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGA-TTAA--AGCCAAT
* *
47157337 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCTAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * *
47157381 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAATCCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* *
47157425 AATCTTATCTCTCTGAATTTGC
1 AATCTTATCTCCCTGAAGTTGC
47157447 TGTAGAGTAG
Statistics
Matches: 221, Mismatches: 42, Indels: 40
0.73 0.14 0.13
Matches are distributed among these distances:
39 1 0.00
40 21 0.10
41 9 0.04
42 3 0.01
43 16 0.07
44 138 0.62
45 26 0.12
46 5 0.02
48 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:47157298 original size:84 final size:88
Alignment explanation
Indices: 47157164--47157367 Score: 201
Period size: 84 Copynumber: 2.4 Consensus size: 88
47157154 TAAAGCCAAT
* * * *
47157164 AATCCTATCTCCCTGAAGTTGTAGTGGAGC-GAATTAAAATCATAGATCTTATC-TCTCTAAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAACTAAAAGCATAGATCTTATCTTC-CTAAAGT
*
47157227 TGCAGAGA-GCAGA-T-AGCAT-CT
65 TGCAGAGAGGCAGACTAAG-ATGCA
* *
47157248 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ACTAAGTAAGCA-AG-TCTTATCTTCCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAACTAA--AAGCATAGATCTTATCTTCCTAAAG
* * *
47157310 TTGTAGTGAGGCAGACTGAAGGTGGCA
64 TTGCAGAGAGGCAGACT-AAGAT-GCA
47157337 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA
47157368 AATTAAAGCT
Statistics
Matches: 99, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
84 50 0.51
85 10 0.10
86 5 0.05
87 1 0.01
88 2 0.02
89 31 0.31
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAACTAAAAGCATAGATCTTATCTTCCTAAAGTT
GCAGAGAGGCAGACTAAGATGCA
Found at i:47157635 original size:174 final size:172
Alignment explanation
Indices: 47157293--47157638 Score: 380
Period size: 174 Copynumber: 2.0 Consensus size: 172
47157283 AAGTAAGCAA
* *** * *
47157293 GTCTTATCTTCCTGAAGTTGTAGTGAGGCAGACTGAAGGTGGCAAATCTTATCTCCCTGAAGTTG
1 GTCTTATCTTCCTGAAGTTGTAGTGAGGCAGACTCAAGAAAGCAAATCTTATCCCCCTGAAATTG
* * *
47157358 CAGTGGAGCAAATTAAAGCTAATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAATCCA
66 CAGTGGAGCAAACTAAA-CTAAAAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAATCCA
* * **
47157423 CAAATCTTATCTCTCTGAATTTGCTGTAGAGTAGATCACATCGG
130 CAAATCTTATCTCGCTGAATTTGC-GCAGAACAGATCACATCGG
*
47157467 GTCTTATC-TCCTTGAAGTTGTAGTG-GAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTGAAAT
1 GTCTTATCTTCC-TGAAGTTGTAGTGAG-GCAGACTCAAGAAAGCAAATCTTATCCCCCTGAAAT
* *
47157530 TGCAGTGG-GCCAGACTAAA-TAAACAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGA
64 TGCAGTGGAG-CAAACTAAACT-AA-AAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTA-A
* ***
47157593 AT-GATGGATCTTATCTCGCTGAGATTGTG-GCAGAACAGATCACATC
125 ATCCACAAATCTTATCTCGCTGA-ATT-TGCGCAGAACAGATCACATC
47157639 AAATTCATCT
Statistics
Matches: 144, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
172 1 0.01
173 7 0.05
174 128 0.89
175 6 0.04
176 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (172 bp):
GTCTTATCTTCCTGAAGTTGTAGTGAGGCAGACTCAAGAAAGCAAATCTTATCCCCCTGAAATTG
CAGTGGAGCAAACTAAACTAAAAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAATCCAC
AAATCTTATCTCGCTGAATTTGCGCAGAACAGATCACATCGG
Found at i:47157721 original size:44 final size:44
Alignment explanation
Indices: 47157668--47157981 Score: 490
Period size: 44 Copynumber: 7.1 Consensus size: 44
47157658 AGCAGATCAA
*
47157668 GTTGAAGATTGTAAGTCCTATCTCCCTAGTCAGCAGTGGAATAG
1 GTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
*
47157712 GTTAAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
1 GTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
* *
47157756 GTTGAAGATTGTGAGTCCTATCTCCCTGGTCAACAGTGGAATAG
1 GTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
*
47157800 GTTGAATATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
1 GTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
*
47157844 GTTGAAGATTATGAA-TCCTATCTCCCTGGTCAGCAGTGGAATAG
1 GTTGAAGATTGT-AAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
* *
47157888 GTTGAAGATGGTGAA-TCCTATCTCCCTGGTCAGTAGTGGAATAG
1 GTTGAAGATTGT-AAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
* *
47157932 ATTGAAGATTGTGAA-TCCTATCTCCCTGGTCAACAGTGGAATAG
1 GTTGAAGATTGT-AAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
47157976 GTTGAA
1 GTTGAA
47157982 AATTACATAT
Statistics
Matches: 251, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
44 249 0.99
45 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (44 bp):
GTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
Found at i:47158036 original size:88 final size:88
Alignment explanation
Indices: 47157683--47158379 Score: 337
Period size: 88 Copynumber: 7.9 Consensus size: 88
47157673 AGATTGTAAG
* ** * *
47157683 TCCTATCTCCCTAGTCAGCAGTGGAATAGGTT-AAAGATTGTA-AGTCCTATCTCCCT-GGTCAG
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAA-ATTACATA-TCTTATCTCCCTAAG-CAG
* * * * * *
47157745 CAGTGGAATAGGTTGAAGATTGTGAG
63 TAGTGGAGTAGATTGAAGATAGCGAA
* * ** * * *
47157771 TCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAATATTGTA-AGTCCTATCTCCCT-GGTCAGC
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTACATA-TCTTATCTCCCTAAG-CAGT
* * *
47157834 AGTGGAATAGGTTGAAGATTA-TGAA
64 AGTGGAGTAGATTGAAGA-TAGCGAA
* * * *
47157859 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATGGT-GA-ATCCTATCTCCCT-GGTCAG
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAAT--TACATATCTTATCTCCCTAAG-CAG
* * *
47157921 TAGTGGAATAGATTGAAGATTGTGAA
63 TAGTGGAGTAGATTGAAGATAGCGAA
* *
47157947 TCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAAATTACATATCTTATCTCCCTAAGCAGTAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTACATATCTTATCTCCCTAAGCAGTAG
* * *
47158012 TGGAGCAGATCGAAGACAGCGAA
66 TGGAGTAGATTGAAGATAGCGAA
* * * * ** * * * *
47158035 TCTTATCTTCCCAAGGT-AGTAG-GGAAGCAAATT-TAAGTCAC-TAGCCTTATCTCCCTAAGCA
1 TCCTATC-TCCC-TGGTCAGCAGTGGAA-TAGGTTGAAAATTACATA-TCTTATCTCCCTAAGCA
* *
47158096 GTAGTGGAGTA-AGTTGAAGATTG-TAGA
62 GTAGTGGAGTAGA-TTGAAGATAGCGA-A
* *
47158123 -CCTTATCTCTCTGAG-CAGCAGTGGAGTAGGTTGAAAATTACATATCTTATCTCCCTAAGCAGT
1 TCC-TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAAATTACATATCTTATCTCCCTAAGCAGT
* * ** *
47158186 AGTGGAGCAGATCGAAGACGGCAAA
64 AGTGGAGTAGATTGAAGATAGCGAA
* ** * * ** * *** * *
47158211 TCTTATCTTACCAAGGT-AGTAG-GGAAGCAAATT-TAAGCCAC-TAGCCTTATCTCCCTGAGCA
1 TCCTATC-T-CCCTGGTCAGCAGTGGAA-TAGGTTGAAAATTACATA-TCTTATCTCCCTAAGCA
* * * *
47158272 GCAGTGGAGTA-AGTTGGAGATTG-TAGA
62 GTAGTGGAGTAGA-TTGAAGATAGCGA-A
* * *
47158299 -CCTTACCTCCCTGAG-CAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 TCC-TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAAATTACATATCTTATCTCCCTAAGCAGT
*
47158362 AGTGGAGCAGATTGAAGA
64 AGTGGAGTAGATTGAAGA
47158380 CGACGAATCT
Statistics
Matches: 474, Mismatches: 98, Indels: 74
0.73 0.15 0.11
Matches are distributed among these distances:
86 5 0.01
87 32 0.07
88 399 0.84
89 32 0.07
90 6 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (88 bp):
TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTACATATCTTATCTCCCTAAGCAGTAG
TGGAGTAGATTGAAGATAGCGAA
Found at i:47158036 original size:132 final size:132
Alignment explanation
Indices: 47157669--47158042 Score: 389
Period size: 132 Copynumber: 2.8 Consensus size: 132
47157659 GCAGATCAAG
* * *
47157669 TTGAAGATTGTAAGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTT-AAAGATTGT-AAGTCCTA
1 TTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAA-ATTATCAA-TCCTA
* * * * * ** * *
47157732 TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAACAGTGGAA
64 TCTCCCTAGTCAGCAATGGAACAGATCGAAGACAGCGAATCCTATCTCCCTGGTCAACAGTGGAA
*
47157797 TAGG
129 TAGA
* * * *
47157801 TTGAATATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTATGAATCCTATC
1 TTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAAATTATCAATCCTATC
* * * * * ** * **
47157866 TCCCTGGTCAGCAGTGGAATAGGTTGAAGATGGTGAATCCTATCTCCCTGGTCAGTAGTGGAATA
66 TCCCTAGTCAGCAATGGAACAGATCGAAGACAGCGAATCCTATCTCCCTGGTCAACAGTGGAATA
47157931 GA
131 GA
*
47157933 TTGAAGATTGTGAA-TCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAAATTA-CATATCTTA
1 TTGAAGATTGT-AAGTCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAAATTATCA-ATCCTA
* * *
47157996 TCTCCCTAAG-CAGTAATGGAGCAGATCGAAGACAGCGAATCTTATCT
64 TCTCCCT-AGTCAGCAATGGAACAGATCGAAGACAGCGAATCCTATCT
47158043 TCCCAAGGTA
Statistics
Matches: 212, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
131 1 0.00
132 204 0.96
133 7 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (132 bp):
TTGAAGATTGTAAGTCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAAATTATCAATCCTATC
TCCCTAGTCAGCAATGGAACAGATCGAAGACAGCGAATCCTATCTCCCTGGTCAACAGTGGAATA
GA
Found at i:47158127 original size:44 final size:44
Alignment explanation
Indices: 47158079--47158368 Score: 196
Period size: 44 Copynumber: 6.6 Consensus size: 44
47158069 AAGTCACTAG
*
47158079 CCTTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGTAGA
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGA
* * * * * * *
47158123 CCTTATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAAATTACATA
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGA
* * * ** *
47158167 TCTTATCTCCCTAAGCAGTAGTGGAG-CAGATCGAAGACGGCAAA
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAAG-TTGAAGATTGCAGA
* * * * * * *
47158211 TCTTATCTTACC-AAGGTAGTAG-GGAAGCAAATTTAAGCCACT--AG-
1 CCTTATC-TCCCTAA-GCAGTAGTGG-AGTAAGTTGAAG--ATTGCAGA
* * * *
47158255 CCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGGAGATTGTAGA
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGA
* * * * * *
47158299 CCTTACCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGA
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGA
*
47158343 TCTTATCTCCCTAAGCAGTAGTGGAG
1 CCTTATCTCCCTAAGCAGTAGTGGAG
47158369 CAGATTGAAG
Statistics
Matches: 186, Mismatches: 48, Indels: 24
0.72 0.19 0.09
Matches are distributed among these distances:
41 2 0.01
43 19 0.10
44 146 0.78
45 16 0.09
46 1 0.01
47 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
CCTTATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGCAGA
Found at i:47158377 original size:44 final size:44
Alignment explanation
Indices: 47157977--47158377 Score: 169
Period size: 44 Copynumber: 9.1 Consensus size: 44
47157967 GTGGAATAGG
* *
47157977 TTGAAAATTACATATCTTATCTCCCTAAGCAGTAATGGAGCAGA
1 TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * * * *
47158021 TCGAAGA-CAGC-GAATCTTATCTTCCC-AAGGTAGTAG-GGAAGCAAA
1 TTGAAAATTA-CAG-ATCTTATC-TCCCTAA-GCAGTAGTGG-AGCAGA
* * * * *
47158066 TT-TAAGTCACTAG-CCTTATCTCCCTAAGCAGTAGTGGAGTA-A
1 TTGAAAATTAC-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* ** * * * * * *
47158108 GTTGAAGATTGTAGACCTTATCTCTCTGAGCAGCAGTGGAGTAGG
1 -TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
47158153 TTGAAAATTACATATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * *** * * * *
47158197 TCGAAGACGGCAAATCTTATCTTACC-AAGGTAGTAG-GGAAGCAAA
1 TTGAAAATTACAGATCTTATC-TCCCTAA-GCAGTAGTGG-AGCAGA
* *** * * * *
47158242 TT-TAAGCCACTAG-CCTTATCTCCCTGAGCAGCAGTGGAGTA-A
1 TTGAAAATTAC-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * ** * * * * * *
47158284 GTTGGAGATTGTAGACCTTACCTCCCTGAGCAGCAGTGGAGTAGG
1 -TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
47158329 TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
47158373 TTGAA
1 TTGAA
47158378 GACGACGAAT
Statistics
Matches: 258, Mismatches: 75, Indels: 48
0.68 0.20 0.13
Matches are distributed among these distances:
42 2 0.01
43 33 0.13
44 189 0.73
45 33 0.13
46 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
Found at i:47158436 original size:88 final size:88
Alignment explanation
Indices: 47157992--47158456 Score: 282
Period size: 88 Copynumber: 5.3 Consensus size: 88
47157982 AATTACATAT
* *
47157992 CTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGAC-AGCGAATCTTATCTTCCCAAGGTAGTA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGA-CGAATCTTATCTTCCCAAGGTAGTA
* *
47158056 GGGAAGCAAATTTAAGTCACTAGC
65 GGGAATCAAATTTAAGCCACTAGC
* * * *
47158080 CTTATCTCCCTAAGCAGTAGTGGAGTA-AGTTGAAGATTGTA-G-ACCTTATCTCTCTGAGCAGC
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGA-TTGAAGA-CG-ACGAATCTTATCT-TC---CCA--
* * * * *
47158142 AGTGGAGTA-GG-TTGAAAATT-A--CA-TA-T
57 AG-GTAGTAGGGAATCAAATTTAAGCCACTAGC
* * * *
47158168 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTACCAAGGTAGTAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAATCTTATCTTCCCAAGGTAGTAG
*
47158233 GGAAGCAAATTTAAGCCACTAGC
66 GGAATCAAATTTAAGCCACTAGC
* * * * * * * * *
47158256 CTTATCTCCCTGAGCAGCAGTGGAGTA-AGTTGGAGATTGTA-G-ACCTTA-CCTCCC-TGAGCA
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGA-TTGAAGA-CG-ACGAATCTTATCTTCCCAAG-GTA
* * ** * *** *
47158316 GCAGTGGAGT-AGGTTGAAAATTAC-AGAT
62 GTAG-GGAATCAAATT-TAAGCCACTAG-C
47158344 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAATCTTATCTTCCCAAGGTAGTAG
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAATCTTATCTTCCCAAGGTAGTAG
47158409 GGAATCAAATTTAAGCCACTAGC
66 GGAATCAAATTTAAGCCACTAGC
* * * *
47158432 CTTATCTTCTTGAGCAGCAGTGGAG
1 CTTATCTCCCTAAGCAGTAGTGGAG
47158457 TAGGTTAAAA
Statistics
Matches: 271, Mismatches: 71, Indels: 70
0.66 0.17 0.17
Matches are distributed among these distances:
81 5 0.02
82 4 0.01
83 5 0.02
84 3 0.01
86 4 0.01
87 22 0.08
88 184 0.68
89 23 0.08
90 3 0.01
91 1 0.00
92 3 0.01
93 5 0.02
94 4 0.01
95 5 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (88 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAATCTTATCTTCCCAAGGTAGTAG
GGAATCAAATTTAAGCCACTAGC
Found at i:47158545 original size:176 final size:176
Alignment explanation
Indices: 47157906--47158486 Score: 832
Period size: 176 Copynumber: 3.3 Consensus size: 176
47157896 TGGTGAATCC
* * *
47157906 TATCTCCCTG-GTCAGTAGTGGAAT-AGATTGAAGATTGT-GAATCC-TATCTCCCTG-GTCAAC
1 TATCTCCCTGAG-CAGCAGTGGAGTAAG-TTGAAGATTGTAG-A-CCTTATCTCCCTGAG-CAGC
* * *
47157966 AGTGGAATAGGTTGAAAATTACATATCTTATCTCCCTAAGCAGTAATGGAGCAGATCGAAGAC-A
61 AGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
*
47158030 GCGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGTCACTAGCCT
126 -CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCT
* * *
47158082 TATCTCCCTAAGCAGTAGTGGAGTAAGTTGAAGATTGTAGACCTTATCTCTCTGAGCAGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAGTGG
* * *
47158147 AGTAGGTTGAAAATTACATATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAAT
66 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAAT
*
47158212 CTTATCTTACCAAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCT
131 CTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCT
* *
47158258 TATCTCCCTGAGCAGCAGTGGAGTAAGTTGGAGATTGTAGACCTTACCTCCCTGAGCAGCAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAGTGG
*
47158323 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGAAT
66 AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAAT
*
47158388 CTTATCTTCCCAAGGTAGTAGGGAATCAAATTTAAGCCACTAGCCT
131 CTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCT
* * * * * * **
47158434 TATCTTCTTGAGCAGCAGTGGAGTAGGTTAAAAATTATAGATTTTATCTCCCT
1 TATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGACCTTATCTCCCT
47158487 AAGTTACAGT
Statistics
Matches: 368, Mismatches: 31, Indels: 12
0.90 0.08 0.03
Matches are distributed among these distances:
175 2 0.01
176 361 0.98
177 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (176 bp):
TATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGACCTTATCTCCCTGAGCAGCAGTGG
AGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAAT
CTTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCACTAGCCT
Found at i:47158571 original size:44 final size:45
Alignment explanation
Indices: 47158464--47158593 Score: 140
Period size: 44 Copynumber: 3.0 Consensus size: 45
47158454 GAGTAGGTTA
* * * *
47158464 AAAATTATAGATTTTATCTCCCT-AAGTTACAGTAGAGCAGATTG
1 AAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
** * * * *
47158508 AAGCTAGTA-ATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATT-
1 AAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
*
47158551 AAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 AAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
47158594 CGTATCAGGT
Statistics
Matches: 67, Mismatches: 17, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
43 16 0.24
44 51 0.76
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (45 bp):
AAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTG
Found at i:47159419 original size:23 final size:23
Alignment explanation
Indices: 47159375--47159419 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
47159365 TCTTATTTTG
* *
47159375 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
47159398 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
47159420 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:47159611 original size:23 final size:23
Alignment explanation
Indices: 47159566--47159612 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
47159556 TTTTAGTTTT
* *
47159566 TTTTATTATTATTAAATTAATTA
1 TTTTAATATTATTAAACTAATTA
47159589 TTTTAATATTATTAATACT-ATTA
1 TTTTAATATTATTAA-ACTAATTA
47159612 T
1 T
47159613 GTGGCATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAATATTATTAAACTAATTA
Found at i:47159780 original size:36 final size:36
Alignment explanation
Indices: 47159705--47159780 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
47159695 CATACATACA
*
47159705 TTTTATAATATATACATATACGTACACATTTTTTAAT
1 TTTTATAATATATACATATACG-ACACATTTTATAAT
* *
47159742 TTTTATAA-ATATATATATAC-ACATACTTTTATATAT
1 TTTTATAATATATACATATACGACACA-TTTTATA-AT
47159778 TTT
1 TTT
47159781 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 4 0.12
35 6 0.18
36 16 0.47
37 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (36 bp):
TTTTATAATATATACATATACGACACATTTTATAAT
Found at i:47159892 original size:25 final size:23
Alignment explanation
Indices: 47159858--47159913 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
47159848 TATTTTTTAT
47159858 TTTTTATAATTCACATACATATATA
1 TTTTTATAA-T-ACATACATATATA
* **
47159883 TTTTTCTAATATGTACATATATA
1 TTTTTATAATACATACATATATA
47159906 TTTTTATA
1 TTTTTATA
47159914 TTTTATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 18 0.67
24 1 0.04
25 8 0.30
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.54
Consensus pattern (23 bp):
TTTTTATAATACATACATATATA
Found at i:47161636 original size:24 final size:24
Alignment explanation
Indices: 47161581--47161638 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
47161571 GGGTTTCAAT
* *
47161581 TTTGGGTTTTAGATTCAATTTTGG
1 TTTGGGATTTAGATTCAATTTTGA
*
47161605 TTTGGGGATTT-GATTTCAGTTTTGA
1 TTT-GGGATTTAGA-TTCAATTTTGA
47161630 TTTGGGATT
1 TTTGGGATT
47161639 GCGATTTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.16, C:0.03, G:0.28, T:0.53
Consensus pattern (24 bp):
TTTGGGATTTAGATTCAATTTTGA
Found at i:47161644 original size:25 final size:25
Alignment explanation
Indices: 47161594--47161645 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
47161584 GGGTTTTAGA
* *
47161594 TTCAATTTTGGTTTGGGGATTTGAT
1 TTCAATTTTGATTTGGGGATTCGAT
*
47161619 TTCAGTTTTGATTT-GGGATTGCGAT
1 TTCAATTTTGATTTGGGGATT-CGAT
47161644 TT
1 TT
47161646 TGGTTTGGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.15, C:0.06, G:0.27, T:0.52
Consensus pattern (25 bp):
TTCAATTTTGATTTGGGGATTCGAT
Found at i:47164636 original size:25 final size:26
Alignment explanation
Indices: 47164595--47164644 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
47164585 ACTTGTTGAA
*
47164595 AGTTTTAAGTTTGGGGTTTCAATTTT
1 AGTTTTAAGTTTAGGGTTTCAATTTT
*
47164621 AGTTTT-AGTTTAGGGTTTTAATTT
1 AGTTTTAAGTTTAGGGTTTCAATTT
47164645 GGGGTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.20, C:0.02, G:0.22, T:0.56
Consensus pattern (26 bp):
AGTTTTAAGTTTAGGGTTTCAATTTT
Found at i:47164651 original size:26 final size:25
Alignment explanation
Indices: 47164595--47164654 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
47164585 ACTTGTTGAA
* *
47164595 AGTTTTAAGTTTGGGGTTTCAATTTT
1 AGTTTT-AGTTTAGGGTTTCAATTTG
*
47164621 AGTTTTAGTTTAGGGTTTTAATTTGG
1 AGTTTTAGTTTAGGGTTTCAATTT-G
*
47164647 GGTTTTAG
1 AGTTTTAG
47164655 ATTCAATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.53
Consensus pattern (25 bp):
AGTTTTAGTTTAGGGTTTCAATTTG
Found at i:47164683 original size:63 final size:60
Alignment explanation
Indices: 47164603--47164718 Score: 151
Period size: 63 Copynumber: 1.9 Consensus size: 60
47164593 AAAGTTTTAA
* * * *
47164603 GTTTGGGGTTTCAATTTTAGTTTTAGTTTAGGGTTTTAATTTGGGGTTTTAGATTCAATTATG
1 GTTTGGGGTTTCAATTTTAATTTCAATTTA--GTTTCAATTTGGGGTTTT-GATTCAATTATG
**
47164666 GTTTGGGGTTTTGATTTTAATTTCAATTTAGTTTCAATTTGGGGTTTTGATTC
1 GTTTGGGGTTTCAATTTTAATTTCAATTTAGTTTCAATTTGGGGTTTTGATTC
47164719 CAAGAAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 5 0.11
61 17 0.36
63 25 0.53
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.53
Consensus pattern (60 bp):
GTTTGGGGTTTCAATTTTAATTTCAATTTAGTTTCAATTTGGGGTTTTGATTCAATTATG
Found at i:47165357 original size:704 final size:701
Alignment explanation
Indices: 47164051--47165357 Score: 1839
Period size: 704 Copynumber: 1.9 Consensus size: 701
47164041 ACCTCTCGAG
* *
47164051 TAACAAGTATGATAATTCTACAATTTTGTAATATATACAAATATACAAATTCAACATTTTTTAAA
1 TAACAAGTATGATAAATCTACAATTTTGTAATATATA-AAATATAAAAATTCAACATTTTTTAAA
* * * *
47164116 ATTAATTAAATATGATGTTTAACTTAATAAAACAAAATTTTGCTAATAATAATATTAAAATGAAA
65 ATTAATTAAATATGATGTTTAACTTAATAAAACAAAATGTGGCCAACAATAATATTAAAATGAAA
*
47164181 TAAAAAAAAATTGCATTCTACATTTTAGAATTTCCATGACTTTTTGACTCATTTTGAGCCATCAA
130 TAAAAAAAAATTGCATTCTACATTTTAGAATTTCCATGACTTTTTGACTCATTTTAAGCCATCAA
* *
47164246 AACTCTTTGCTTTTCAAAAATTTGATGGTTTTAAGAATGATAATTTAAAGTTCAAATGTAATTCA
195 AACTCTTTGCTTTTAAAAAATTTGATGGTTTTAAGAATGATAATTTAAAATTCAAATGTAATTCA
* * *
47164311 AAAACAATAAATTTTGTTTGACCAAAAAGAGTAACCAAAAGCCTAAGATGTTAGGGCTCAAAATA
260 AAAACAATAAATTTTGGTTCACCAAAAAGAGTAACCAAAAGCCTAAGATGTTAGGGCTCAAAACA
*
47164376 TTGAAAATCGTCACAACTTGCCCAAACTTTTTAAGTTTTTTGTTTCAAGTAAGCTTTTTTAGGAG
325 TTGAAAATCGTCACAACTTGCCCAAACTTTCTAAGTTTTTTGTTT-AAGT-A-CTTTTTTAGGAG
* * *
47164441 CCTAGTTCTTTTAACACATAAGTCAATTTATGTAGAAAACATACCGATGAGAAGATCACATTTCA
387 CCTAGTTCTTTTAACACAGAAGTCAATTTATCTAGAAAACATACCAATGAGAAGATCACATTTCA
* *
47164506 TACAATAGAAATCATCTAAATTTTGAATAGAATGAGCAAAAATAGATTGTTTTAAAAATCCTTAC
452 TACAATAGAAATCATCTAAATTTTGAATAGAATGAGCAAAAATAGATTATTTTAAAAATCCTTAA
** *
47164571 ATTGAGTTACCCAAACTTGTTGAAAGTTTTAAGTTTGGGGTTTCAATTTTAGTTTTAGTTTAGGG
517 ATTGAGTTACCCAAACTTGTTGAAAGCCTTAACTTTGGGGTTTCAATTTTAGTTTTAGTTTAGGG
47164636 TTTTAATTTGGGGTTTTAGATTCAATTATGGTTTGGGGTTTTGATTTTAATTTCAATTTAGTTTC
582 TTTTAATTTGGGGTTTTAGATTCAATTATGGTTTGGGGTTTTGATTTTAATTTCAATTTAGTTTC
47164701 AATTTGGGGTTTTGATTCCAAGAAATTTTGGTTGTGCAATAACCTATCAAGTAAC
647 AATTTGGGGTTTTGATTCCAAGAAATTTTGGTTGTGCAATAACCTATCAAGTAAC
47164756 TAACAAGTATTG-TAAATCTACAATTTTGTAATATAT-AAATATAAAAATTCAACAAAATTTTTT
1 TAACAAGTA-TGATAAATCTACAATTTTGTAATATATAAAATATAAAAATTCAAC---ATTTTTT
* * **
47164819 GAAAATTAATTAAATATGATGTTTAACTTAATAAAATATAATGTGGCCAACAATAATATTGTAAT
62 -AAAATTAATTAAATATGATGTTTAACTTAATAAAACAAAATGTGGCCAACAATAATATTAAAAT
* * * * *
47164884 GAAATAAAAAAAAATTGTATTCTACA-TTTAGGAGTTTGCTTGACTTTTTGGA-TTATTTTAAGC
126 GAAATAAAAAAAAATTGCATTCTACATTTTA-GAATTTCCATGACTTTTT-GACTCATTTTAAGC
* *
47164947 CATCAAAACTCTTTGTTCTTTAAAAAATTTGATGTTTTTAAGAAT-ATGAATTTAAAATTCAAAT
189 CATCAAAACTCTTTGCT-TTTAAAAAATTTGATGGTTTTAAGAATGAT-AATTTAAAATTCAAAT
* * *
47165011 GTAATTCTAAAATAATAAATTTTGGTTCACCAAAAAGAGTAACCAAAAGCCTCAA-AT-TTTGGA
252 GTAATTCAAAAACAATAAATTTTGGTTCACCAAAAAGAGTAACCAAAAGCCT-AAGATGTTAGG-
* * * *
47165074 GCTCAAGACATTGAAAATCGTTACAACTTGCCCAAACTTTCTAAGTTTTTT-TTT-TGT-TTTGT
315 GCTCAAAACATTGAAAATCGTCACAACTTGCCCAAACTTTCTAAGTTTTTTGTTTAAGTACTT-T
* * * * * * *
47165136 TTTGGGAGCTTTGTTCTTTTAACATAGAATTCAATTTTTCTAGAAAAGCATGCCAATG-GAAAGA
379 TTTAGGAGCCTAGTTCTTTTAACACAGAAGTCAATTTATCTAGAAAA-CATACCAATGAG-AAGA
* * * **
47165200 TCACATTTCATACAATATAAATCATTTAAATTTAT-ACTAGAATGAGCATTAATAGATTATTTTA
442 TCACATTTCATACAATAGAAATCATCTAAATTT-TGAATAGAATGAGCAAAAATAGATTATTTTA
*** *
47165264 AAAATCCTTAAATTGAGTTACCCAAA-TCTGTTGAAAGCCTTAACTTTGGGGTTTTGGTTTTTGT
506 AAAATCCTTAAATTGAGTTACCCAAACT-TGTTGAAAGCCTTAACTTTGGGGTTTCAATTTTAGT
*
47165328 TTTAGTTTAGGGTTTTGATTTGGGGTTTTA
570 TTTAGTTTAGGGTTTTAATTTGGGGTTTTA
47165358 TATTTGGTTT
Statistics
Matches: 530, Mismatches: 56, Indels: 33
0.86 0.09 0.05
Matches are distributed among these distances:
702 2 0.00
703 58 0.11
704 151 0.28
705 35 0.07
706 13 0.02
707 130 0.25
708 139 0.26
709 2 0.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (701 bp):
TAACAAGTATGATAAATCTACAATTTTGTAATATATAAAATATAAAAATTCAACATTTTTTAAAA
TTAATTAAATATGATGTTTAACTTAATAAAACAAAATGTGGCCAACAATAATATTAAAATGAAAT
AAAAAAAAATTGCATTCTACATTTTAGAATTTCCATGACTTTTTGACTCATTTTAAGCCATCAAA
ACTCTTTGCTTTTAAAAAATTTGATGGTTTTAAGAATGATAATTTAAAATTCAAATGTAATTCAA
AAACAATAAATTTTGGTTCACCAAAAAGAGTAACCAAAAGCCTAAGATGTTAGGGCTCAAAACAT
TGAAAATCGTCACAACTTGCCCAAACTTTCTAAGTTTTTTGTTTAAGTACTTTTTTAGGAGCCTA
GTTCTTTTAACACAGAAGTCAATTTATCTAGAAAACATACCAATGAGAAGATCACATTTCATACA
ATAGAAATCATCTAAATTTTGAATAGAATGAGCAAAAATAGATTATTTTAAAAATCCTTAAATTG
AGTTACCCAAACTTGTTGAAAGCCTTAACTTTGGGGTTTCAATTTTAGTTTTAGTTTAGGGTTTT
AATTTGGGGTTTTAGATTCAATTATGGTTTGGGGTTTTGATTTTAATTTCAATTTAGTTTCAATT
TGGGGTTTTGATTCCAAGAAATTTTGGTTGTGCAATAACCTATCAAGTAAC
Found at i:47165429 original size:12 final size:13
Alignment explanation
Indices: 47165402--47165435 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
47165392 TCAATTTTGG
47165402 TTTGGGGTTACAA
1 TTTGGGGTTACAA
*
47165415 TTTTGGGTT-CAA
1 TTTGGGGTTACAA
47165427 TTTGGGGTT
1 TTTGGGGTT
47165436 TTGATTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.15, C:0.06, G:0.32, T:0.47
Consensus pattern (13 bp):
TTTGGGGTTACAA
Found at i:47166477 original size:16 final size:16
Alignment explanation
Indices: 47166456--47166491 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
47166446 TTTGGTTCGC
47166456 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47166472 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47166488 TGTA
1 TGTA
47166492 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:47166825 original size:125 final size:125
Alignment explanation
Indices: 47166673--47166898 Score: 389
Period size: 125 Copynumber: 1.8 Consensus size: 125
47166663 TTTAATAAGG
* * * *
47166673 TTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACCCATTTTAA
1 TTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAA
*
47166738 TTAAAATATATAATTTCATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAATTAA
66 TTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAATTAA
* *
47166798 TTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAA
1 TTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAA
47166863 TTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 TTAAAATATATAATTTAATAAAATTCTTAATAATTA
47166899 ATATTCTTAT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 94 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (125 bp):
TTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACACATTATAA
TTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAATTAA
Found at i:47166869 original size:16 final size:16
Alignment explanation
Indices: 47166832--47166873 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47166822 TTAATCATAT
*
47166832 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
47166848 TT-AAATATATTATAA
1 TTAAAATATATTATAA
47166863 TTAAAATATAT
1 TTAAAATATAT
47166874 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:47166880 original size:14 final size:15
Alignment explanation
Indices: 47166841--47166882 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47166831 TTTAAACATA
*
47166841 ATTATTATTAAATAT
1 ATTATAATTAAATAT
47166856 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
47166870 A-TATAATTTAATA
1 ATTATAATTAAATA
47166883 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:47166931 original size:125 final size:124
Alignment explanation
Indices: 47166675--47167007 Score: 331
Period size: 125 Copynumber: 2.7 Consensus size: 124
47166665 TAATAAGGTT
* * ***
47166675 ATTATTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACCCATTTTAATT
1 ATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATT
* * * * ** * *
47166740 AAAATATATAATTTCATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAATTAATT
66 AAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGAATT-GTAATAAATC
*
47166800 ATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATT
1 ATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATT
* ** *
47166865 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATT-TACTCAAATC
66 AAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATGAATTGTAAT-AAATC
* * * * * * *
47166926 A-TAATAT--ATGATACTATAAATGAA--A-ATTTGAA-ATAATTAATATTAAATATATTTTATT
1 ATTAATATCAATAATA-AATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAAT
*
47166984 TAAAATATATGATTTAATAAAATT
65 TAAAATATATAATTTAATAAAATT
47167008 TAAAATAATT
Statistics
Matches: 177, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
120 46 0.26
121 6 0.03
122 1 0.01
123 5 0.03
124 7 0.04
125 102 0.58
126 4 0.02
127 6 0.03
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (124 bp):
ATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATT
AAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGAATTGTAATAAATC
Found at i:47167094 original size:24 final size:25
Alignment explanation
Indices: 47167048--47167095 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
47167038 TATGAATTTG
47167048 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
47167074 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
47167096 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:47167099 original size:92 final size:92
Alignment explanation
Indices: 47167003--47167231 Score: 227
Period size: 92 Copynumber: 2.5 Consensus size: 92
47166993 TGATTTAATA
* * *
47167003 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
47167065 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
47167095 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* * *
47167160 ATTAAATATAATTTAA-CAGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
47167185 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
47167232 CTAAAATCAA
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 80 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:47170309 original size:18 final size:19
Alignment explanation
Indices: 47170263--47170309 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 19
47170253 GAAATTATAA
47170263 ATAATTGTTGGTGTATGTGT
1 ATAATTGTTGGTGTA-GTGT
47170283 ATTTAATTGTTGGTGTA-TGT
1 A--TAATTGTTGGTGTAGTGT
47170303 ATAATTG
1 ATAATTG
47170310 AACCTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.24
20 5 0.20
22 14 0.56
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (19 bp):
ATAATTGTTGGTGTAGTGT
Found at i:47186977 original size:27 final size:27
Alignment explanation
Indices: 47186947--47187004 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
47186937 TAGGTCTGGT
*
47186947 GAGTAGGTATGCGCCAGTAGGCTTAGC
1 GAGTAGGTATGCGCCAGAAGGCTTAGC
* * * * *
47186974 GAGTTGGTGTTCGCCGGAAGGCTTGGC
1 GAGTAGGTATGCGCCAGAAGGCTTAGC
47187001 GAGT
1 GAGT
47187005 TGATGTACAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.41, T:0.24
Consensus pattern (27 bp):
GAGTAGGTATGCGCCAGAAGGCTTAGC
Found at i:47188133 original size:23 final size:23
Alignment explanation
Indices: 47188103--47188150 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
47188093 CATTTTGAGA
* *
47188103 CGTTATAAGGATATACGTTTATC
1 CGTTATAAGGAGATACGCTTATC
*
47188126 CGTTATAAGGAGATTCGCTTATC
1 CGTTATAAGGAGATACGCTTATC
47188149 CG
1 CG
47188151 CTTTATGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (23 bp):
CGTTATAAGGAGATACGCTTATC
Found at i:47188759 original size:25 final size:25
Alignment explanation
Indices: 47188725--47188777 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
47188715 AAAAGATTTA
47188725 GAATGTACGAGCTATGCAGGGGTGC
1 GAATGTACGAGCTATGCAGGGGTGC
47188750 GAATGTACGAGCTATGCAGGGGTGC
1 GAATGTACGAGCTATGCAGGGGTGC
47188775 GAA
1 GAA
47188778 CCCTAATGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.40, T:0.19
Consensus pattern (25 bp):
GAATGTACGAGCTATGCAGGGGTGC
Found at i:47190401 original size:17 final size:17
Alignment explanation
Indices: 47190379--47190411 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47190369 AGGTTAAGTG
47190379 TTAAAATGTT-ATAAATT
1 TTAAAAT-TTAATAAATT
47190396 TTAAAATTTAATAAAT
1 TTAAAATTTAATAAAT
47190412 AAAATAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAAATTTAATAAATT
Found at i:47191209 original size:16 final size:15
Alignment explanation
Indices: 47191165--47191212 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
47191155 TTAGTCTTGC
47191165 AATACTCAATTCATG
1 AATACTCAATTCATG
*
47191180 AATACATCATTTCAT-
1 AATAC-TCAATTCATG
47191195 ACCATACTCAATTCATG
1 A--ATACTCAATTCATG
47191212 A
1 A
47191213 GTATATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (15 bp):
AATACTCAATTCATG
Found at i:47194820 original size:3 final size:3
Alignment explanation
Indices: 47194812--47194888 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
47194802 GCTTTGCTAT
47194812 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
47194860 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
47194889 TTTTTCTCTC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:47195527 original size:22 final size:22
Alignment explanation
Indices: 47195499--47195651 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
47195489 TGTTGATAGT
*
47195499 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
47195521 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
47195543 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
47195565 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
47195587 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
47195609 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
47195631 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
47195652 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:47202921 original size:60 final size:60
Alignment explanation
Indices: 47202849--47202982 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 60
47202839 AAAAAAATAC
* ** * *
47202849 TTATT-AATTTTTTAGAGTTAGGACTAAATTGACAGA-TTTTGTAAATATTGAGGGCCAAAT
1 TTATTGAA-TTTTTAGAATTACAACTAAAATGACA-ATTTTTGTAAACATTGAGGGCCAAAT
* **
47202909 TTATTGAATTTTTAGAATTACAACTAAAATGACAATTTTTTGTCAACATTGAGGGTTAAAT
1 TTATTGAATTTTTAGAATTACAACTAAAATGACAA-TTTTTGTAAACATTGAGGGCCAAAT
*
47202970 TTGTTGAATTTTT
1 TTATTGAATTTTT
47202983 TTATATTTAG
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
59 1 0.02
60 27 0.44
61 34 0.55
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (60 bp):
TTATTGAATTTTTAGAATTACAACTAAAATGACAATTTTTGTAAACATTGAGGGCCAAAT
Found at i:47204450 original size:20 final size:19
Alignment explanation
Indices: 47204422--47204463 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
47204412 AAGAAGTACT
*
47204422 AAAATTTATAAAAAAATTCA
1 AAAAATTATAAAAAAATT-A
47204442 AAAAATTATAAAAAAATTA
1 AAAAATTATAAAAAAATTA
47204461 AAA
1 AAA
47204464 TTTAATACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAATTATAAAAAAATTA
Found at i:47208668 original size:270 final size:270
Alignment explanation
Indices: 47208187--47208727 Score: 1010
Period size: 270 Copynumber: 2.0 Consensus size: 270
47208177 AAGCAAGGGG
47208187 TGCTCAATTCCACTCTGTATAAGTTAACAATAAGGGATAATACTCTCGAGGCTATGGTGTCGACC
1 TGCTCAATTCCACTCTGTATAAGTTAACAATAAGGGATAATACTCTCGAGGCTATGGTGTCGACC
47208252 CTGAAGGAACATATTAAGGAGCTCAAAGTGGAGCTTGTTATCTATAAAGTTGCTTTGGGTAATGC
66 CTGAAGGAACATATTAAGGAGCTCAAAGTGGAGCTTGTTATCTATAAAGTTGCTTTGGGTAATGC
47208317 GGTGCTGGCTGCGAAACCTAAGCAGTGGTTGATGTCCCTAAGCTAAAAGAATTTAATGTGACGAG
131 GGTGCTGGCTGCGAAACCTAAGCAGTGGTTGATGTCCCTAAGCTAAAAGAATTTAATGTGACGAG
* *
47208382 GTTCGTAAAGGATGTAGACAACTTCTTGTGGAGAATGGAGTAATATTTTCGTGTCAAAGGCATCA
196 GTCCGTAAAGGATGTAGACAACTTCTTGTGGAGAATGGAGCAATATTTTCGTGTCAAAGGCATCA
47208447 CAGATGATGT
261 CAGATGATGT
* * * *
47208457 TGCTCAATTCCACTGTGTATAAGTTGACAATAAGGGATAATGCTCTCGAGGTTATGGTGTCGACC
1 TGCTCAATTCCACTCTGTATAAGTTAACAATAAGGGATAATACTCTCGAGGCTATGGTGTCGACC
47208522 CTGAAGGAACATATTAAGGAGCTCAAAGTGGAGCTTGTTATCTATAAAGTTGCTTTGGGTAATGC
66 CTGAAGGAACATATTAAGGAGCTCAAAGTGGAGCTTGTTATCTATAAAGTTGCTTTGGGTAATGC
47208587 GGTGCTGGCTGCGAAACCTAAGCAGTGGTTGATGTCCCTAAGCTAAAAGAATTTAATGTGACGAG
131 GGTGCTGGCTGCGAAACCTAAGCAGTGGTTGATGTCCCTAAGCTAAAAGAATTTAATGTGACGAG
*
47208652 GTCCGTAAAGGATGTAGACAACTTCTTGTGGAGAATGGAGCAATATTTTTGTGTCAAAGGCATCA
196 GTCCGTAAAGGATGTAGACAACTTCTTGTGGAGAATGGAGCAATATTTTCGTGTCAAAGGCATCA
*
47208717 CGGATGATGT
261 CAGATGATGT
47208727 T
1 T
47208728 ACTAAGGTAA
Statistics
Matches: 263, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
270 263 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (270 bp):
TGCTCAATTCCACTCTGTATAAGTTAACAATAAGGGATAATACTCTCGAGGCTATGGTGTCGACC
CTGAAGGAACATATTAAGGAGCTCAAAGTGGAGCTTGTTATCTATAAAGTTGCTTTGGGTAATGC
GGTGCTGGCTGCGAAACCTAAGCAGTGGTTGATGTCCCTAAGCTAAAAGAATTTAATGTGACGAG
GTCCGTAAAGGATGTAGACAACTTCTTGTGGAGAATGGAGCAATATTTTCGTGTCAAAGGCATCA
CAGATGATGT
Found at i:47211940 original size:37 final size:37
Alignment explanation
Indices: 47211875--47211949 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
47211865 GTTATAACCC
* *
47211875 ATTTTATAATATGTAAATTAAGTCAAAAATAATT-TAA
1 ATTTTATAATATATAAATTAAGT-AAAAAAAATTATAA
*
47211912 ATTTTATAATATATAATATTTA-TAAAAAAAATTATAA
1 ATTTTATAATATATAA-ATTAAGTAAAAAAAATTATAA
47211949 A
1 A
47211950 GTGTTCAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 9 0.27
37 20 0.61
38 4 0.12
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (37 bp):
ATTTTATAATATATAAATTAAGTAAAAAAAATTATAA
Found at i:47212870 original size:27 final size:27
Alignment explanation
Indices: 47212830--47212885 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
47212820 TACTACTCAA
47212830 AATCTTGAGAAAGAAAAGTAATGGAGT
1 AATCTTGAGAAAGAAAAGTAATGGAGT
*
47212857 AATCTTGAGTAAGAAAAGTAATGGAGT
1 AATCTTGAGAAAGAAAAGTAATGGAGT
47212884 AA
1 AA
47212886 GTTCAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.48, C:0.04, G:0.25, T:0.23
Consensus pattern (27 bp):
AATCTTGAGAAAGAAAAGTAATGGAGT
Found at i:47217136 original size:39 final size:41
Alignment explanation
Indices: 47217073--47217162 Score: 112
Period size: 39 Copynumber: 2.2 Consensus size: 41
47217063 AAAAATTATA
* * * * *
47217073 TTTAATACAATAAAATATTTATTATATTTAT-TTA-TGTTC
1 TTTAATATAATAAAACATTCATTATACTTATGGTAGTGTTC
*
47217112 TTTAATATAATAAAACATTCATTATACTTATGGTAGTGTTT
1 TTTAATATAATAAAACATTCATTATACTTATGGTAGTGTTC
47217153 TTTAATATAA
1 TTTAATATAA
47217163 ATAATTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 27 0.63
40 2 0.05
41 14 0.33
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (41 bp):
TTTAATATAATAAAACATTCATTATACTTATGGTAGTGTTC
Found at i:47219194 original size:16 final size:16
Alignment explanation
Indices: 47219173--47219205 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47219163 TATAATCATT
47219173 TTAAATTACTAG-TATA
1 TTAAATTA-TAGATATA
47219189 TTAAATTATAGATATA
1 TTAAATTATAGATATA
47219205 T
1 T
47219206 ATTAGTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
TTAAATTATAGATATA
Found at i:47219576 original size:11 final size:11
Alignment explanation
Indices: 47219562--47219591 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
47219552 CTCAACTTTC
47219562 TCTCAATTTAT
1 TCTCAATTTAT
47219573 TCTCAATTTAT
1 TCTCAATTTAT
47219584 TCTCAATT
1 TCTCAATT
47219592 CTCTCTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.53
Consensus pattern (11 bp):
TCTCAATTTAT
Found at i:47233053 original size:16 final size:16
Alignment explanation
Indices: 47233032--47233065 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47233022 CCAATATCCA
* *
47233032 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
47233048 ATTATCACATTTACAC
1 ATTATCACATTTACAC
47233064 AT
1 AT
47233066 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:47238843 original size:20 final size:20
Alignment explanation
Indices: 47238827--47238874 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
47238817 ATATAAATAT
*
47238827 TATAAAAAAATTTTAAAGAA
1 TATAAAAAAATGTTAAAGAA
*
47238847 TATATAAAAATGTTAAA-AA
1 TATAAAAAAATGTTAAAGAA
47238866 TA-AAAAAAA
1 TATAAAAAAA
47238875 GTTTCCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 6 0.24
19 4 0.16
20 15 0.60
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (20 bp):
TATAAAAAAATGTTAAAGAA
Found at i:47241518 original size:28 final size:26
Alignment explanation
Indices: 47241477--47241530 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
47241467 TTTCACATTT
*
47241477 AATATTTATATTTACATAAAATGTTTAA
1 AATATTTATATTTA-A-AAAATATTTAA
* *
47241505 AATATTTGTGTTTAAAAAATATTTAA
1 AATATTTATATTTAAAAAATATTTAA
47241531 TGTGTACTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 10 0.43
27 1 0.04
28 12 0.52
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (26 bp):
AATATTTATATTTAAAAAATATTTAA
Found at i:47242585 original size:96 final size:95
Alignment explanation
Indices: 47242403--47242661 Score: 387
Period size: 96 Copynumber: 2.7 Consensus size: 95
47242393 TAAATAAGGG
* * * *
47242403 ATTAAGGTTTAGGGTTTCTTAATTAAATTAATTATAAATTTTT-CAAAATTAGATTAGGGTTTCA
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTAT-AATTTTTAAAAAATTAGATTAGGGTTT-A
* * *
47242467 -TGTTTATGGTTTTTAAGAAAAAATCAATTAA
64 GTGTTAAGGGTTTTTAAGAAAAAATCAAATAA
47242498 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAATTTTTAAAAAAATTAGATTAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAATTTTT-AAAAAATTAGATTAGGGTTTAG
*
47242563 TGTTAAGGGTTTTTAAGGAAAAATCAAATAA
65 TGTTAAGGGTTTTTAAGAAAAAATCAAATAA
* *
47242594 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGT
1 ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAATTTTTAAAAAATTAGATTAGGGTTTAGT
47242659 GTT
66 GTT
47242662 TGTTAATTTA
Statistics
Matches: 151, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
94 7 0.05
95 59 0.39
96 85 0.56
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (95 bp):
ATTAGGGTTTAGGGTTACTTAAGTAAATTAATTATAATTTTTAAAAAATTAGATTAGGGTTTAGT
GTTAAGGGTTTTTAAGAAAAAATCAAATAA
Found at i:47242931 original size:126 final size:125
Alignment explanation
Indices: 47242675--47242964 Score: 454
Period size: 126 Copynumber: 2.3 Consensus size: 125
47242665 TAATTTAAAA
* * * *
47242675 AAGCTCCCACGTGGACACTTTTTTGCTACAGTAGTTACTGAAAAAATAATTTTGAGAAGACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTT
* * *
47242740 CTGAGGAAAAGTGGCAAAAACGCTTTAAGTAAGATGCATTGTCAGCAAAAGTACTGAAAG
66 CTGAGCAAAAGTGGCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGCACTGAAAG
*
47242800 AAGCTCCTACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTT
* * * *
47242865 TTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGCACTGAAAG
66 CTGAGCAAA-AGTGGCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGCACTGAAAG
*
47242926 AAGCTCCCACGTGGAAGCTCTTTTGCTACAGTAGTTCCT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCT
47242965 ATTTGGCATG
Statistics
Matches: 150, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
125 67 0.45
126 83 0.55
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (125 bp):
AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTT
CTGAGCAAAAGTGGCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGCACTGAAAG
Done.