Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 142 of 320
Found at i:46544900 original size:96 final size:96
Alignment explanation
Indices: 46544703--46544953 Score: 416
Period size: 96 Copynumber: 2.6 Consensus size: 96
46544693 CCCTTCGGGA
* * * * * * * *
46544703 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
46544766 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
46544797 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
46544862 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
46544893 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
46544954 GCATGTTCAC
Statistics
Matches: 147, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
94 47 0.32
96 100 0.68
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46544972 original size:143 final size:141
Alignment explanation
Indices: 46544703--46544974 Score: 429
Period size: 143 Copynumber: 1.9 Consensus size: 141
46544693 CCCTTCGGGA
* * * *
46544703 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
46544768 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATC
46544833 GGCCATTAGGC
131 GGCCATTAGGC
* * *
46544844 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
*
46544909 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATGCA-TGTTCACATCCATCAC
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATCCATCAC
46544973 AT
128 AT
46544975 AGAATTCTAA
Statistics
Matches: 119, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
141 10 0.08
142 2 0.02
143 107 0.90
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATC
GGCCATTAGGC
Found at i:46548673 original size:40 final size:40
Alignment explanation
Indices: 46548629--46548878 Score: 360
Period size: 40 Copynumber: 6.2 Consensus size: 40
46548619 TCTTCGAGGT
* * * *
46548629 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
46548669 TTAGCCCGGATACATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
46548709 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
46548749 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
* * *
46548789 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
* * * *
46548829 TTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGAC
1 TTAGCCCGGATAT-ATCAC-TAGCACGAATGCTCCTCGGGAC
46548869 TTAGCCCGGA
1 TTAGCCCGGA
46548879 CATCATTCAA
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
40 179 0.93
41 8 0.04
42 6 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:46549225 original size:29 final size:29
Alignment explanation
Indices: 46549186--46549262 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 29
46549176 CTTAATAATC
*
46549186 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
46549216 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
46549245 AGCCCGCACACTTAGTGC
1 AACCCGCACACTTAGTGC
46549263 TGAAAACCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:46551176 original size:37 final size:37
Alignment explanation
Indices: 46551126--46551204 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
46551116 TTATTACGAA
* *
46551126 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
46551163 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
46551200 GTCTT
1 GTCTT
46551205 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:46551401 original size:47 final size:47
Alignment explanation
Indices: 46551323--46551594 Score: 384
Period size: 47 Copynumber: 5.7 Consensus size: 47
46551313 CCCTTCGGGA
* * * * * * *
46551323 CTTATCACATTTATACACTTTCACATCCATCACGTTGGTCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
46551370 CCTGTCACATATATACACTTTCACATTCATCATATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46551417 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46551464 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46551513 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46551560 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
46551595 AGAATCCTAA
Statistics
Matches: 206, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 158 0.77
49 47 0.23
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46551519 original size:96 final size:96
Alignment explanation
Indices: 46551323--46551573 Score: 380
Period size: 96 Copynumber: 2.6 Consensus size: 96
46551313 CCCTTCGGGA
* * * * * * * * *
46551323 CTTATCACATTTATACACTTTCACATCCATCACGTTGGTCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
46551386 ACTTTCACATTCATCATATTGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
46551417 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
46551482 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
46551513 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
46551574 GCATGTTCAC
Statistics
Matches: 143, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
94 46 0.32
96 97 0.68
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46551592 original size:143 final size:141
Alignment explanation
Indices: 46551323--46551594 Score: 393
Period size: 143 Copynumber: 1.9 Consensus size: 141
46551313 CCCTTCGGGA
* * * * *
46551323 CTTATCACATTTATACACTTTCACATCCATCACGTTGGTCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* * *
46551388 TTTCACATTCATCATATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATC
46551453 GGCCATTAGGC
131 GGCCATTAGGC
* * *
46551464 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
* *
46551529 ACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATGCA-TGTTCACATCCATCAC
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATCCATCAC
46551593 AT
128 AT
46551595 AGAATCCTAA
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
141 10 0.09
142 2 0.02
143 103 0.90
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATCCATCACATC
GGCCATTAGGC
Found at i:46555601 original size:8 final size:8
Alignment explanation
Indices: 46555588--46555612 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46555578 CAACAATAAC
46555588 GGGTTAAT
1 GGGTTAAT
46555596 GGGTTAAT
1 GGGTTAAT
46555604 GGGTTAAT
1 GGGTTAAT
46555612 G
1 G
46555613 ATGAGGGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (8 bp):
GGGTTAAT
Found at i:46556610 original size:24 final size:26
Alignment explanation
Indices: 46556583--46556640 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
46556573 AATTGAAGTG
*
46556583 AAAATAAAAATCAAA-AGAAA-AAGA
1 AAAATAAAAATAAAATAGAAATAAGA
46556607 AAAAT-AAAATAAAATAGAAATAAGA
1 AAAATAAAAATAAAATAGAAATAAGA
46556632 AAAA-AAAAA
1 AAAATAAAAA
46556641 GATTCAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 8 0.27
24 10 0.33
25 12 0.40
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.10
Consensus pattern (26 bp):
AAAATAAAAATAAAATAGAAATAAGA
Found at i:46556625 original size:18 final size:18
Alignment explanation
Indices: 46556583--46556626 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
46556573 AATTGAAGTG
*
46556583 AAAATAAAAATCAAAAGA
1 AAAAGAAAAATCAAAAGA
*
46556601 AAAAGAAAAAT-AAAATA
1 AAAAGAAAAATCAAAAGA
46556618 AAATAGAAA
1 AAA-AGAAA
46556627 TAAGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (18 bp):
AAAAGAAAAATCAAAAGA
Found at i:46561541 original size:13 final size:13
Alignment explanation
Indices: 46561519--46561551 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
46561509 AAGGGTTTGT
46561519 TTAT-TAAACTAA
1 TTATCTAAACTAA
46561531 TTATCTAAACTAA
1 TTATCTAAACTAA
*
46561544 TTAACTAA
1 TTATCTAA
46561552 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:46565984 original size:21 final size:21
Alignment explanation
Indices: 46565953--46566008 Score: 89
Period size: 20 Copynumber: 2.8 Consensus size: 21
46565943 CCCTTGAAAC
46565953 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
46565973 AGGGCAACACG-CCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
46565993 AGGCCAACACGCCCGT
1 AGGGCAACACGCCCGT
46566009 CTGATCACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 24 0.73
21 9 0.27
ACGTcount: A:0.23, C:0.32, G:0.36, T:0.09
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:46567381 original size:94 final size:94
Alignment explanation
Indices: 46567283--46567496 Score: 212
Period size: 94 Copynumber: 2.3 Consensus size: 94
46567273 AAGCTGACGC
* ****** * *
46567283 CATGTCCCAGACAGGTCTTATACTAGCTTGTCCATCGCGAGGTTGATGCATGTCCCAAACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGAAAAAACATCGCGAGGCTAATGCATGTCCCAAACATGTC
46567348 TTACACTAGCTCTCGTCTCAAAGCCGATG
66 TTACACTAGCTCTCGTCTCAAAGCCGATG
* * * * * *
46567377 CATGTCCTAGACATGTCTTACACTGGAAAAAATATCTCGAGGCTAATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGAAAAAACATCGCGAGGCTAATGCATGTCCCAAACATGTC
* * **** * *
46567442 TTACACTAGCTCTCATATTGTGGTCGAAG
66 TTACACTAGCTCTCGTCTCAAAGCCGATG
*
46567471 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACAGGTCTTACACTAG
46567497 CACACATATC
Statistics
Matches: 95, Mismatches: 25, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACAGGTCTTACACTAGAAAAAACATCGCGAGGCTAATGCATGTCCCAAACATGTC
TTACACTAGCTCTCGTCTCAAAGCCGATG
Found at i:46571029 original size:46 final size:46
Alignment explanation
Indices: 46570979--46571151 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
46570969 TGGTTGAGCA
* *
46570979 TCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
46571025 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
46571072 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
46571118 -CCTGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
46571152 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.54
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:46571135 original size:93 final size:93
Alignment explanation
Indices: 46570976--46571146 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
46570966 GGATGGTTGA
*
46570976 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
46571041 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
46571069 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CCTGAGCTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
46571133 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
46571147 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:46584058 original size:25 final size:25
Alignment explanation
Indices: 46584030--46584111 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
46584020 CCATAGCTCA
*
46584030 TATGAGCTTCTCGATTTACAGCTTG
1 TATGAGCTTCTCGATTCACAGCTTG
* *
46584055 TATGAGCTTCCCGATTCACAGCTCG
1 TATGAGCTTCTCGATTCACAGCTTG
* *
46584080 TGA-GAGCATACT-GATTCATAGCTTG
1 T-ATGAGC-TTCTCGATTCACAGCTTG
46584105 TATGAGC
1 TATGAGC
46584112 ATACATGAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
24 1 0.02
25 43 0.91
26 3 0.06
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (25 bp):
TATGAGCTTCTCGATTCACAGCTTG
Found at i:46593991 original size:43 final size:43
Alignment explanation
Indices: 46593833--46593992 Score: 132
Period size: 44 Copynumber: 3.7 Consensus size: 43
46593823 ATAGGATTCT
* *
46593833 GATATTTGATTTCGTGTAAGACCACGTCTGGGAT-GTTGGCATC
1 GATATTTGATTACATGTAAGACCACGTCTGGGATAG-TGGCATC
* * * * * * * *
46593876 GAT-TTGAGATTTACGTGTAAGACTATGTTTAGGACATTGGCATC
1 GATATT-TGA-TTACATGTAAGACCACGTCTGGGATAGTGGCATC
*
46593920 G-TATTTGA-TATCATGTAAGACTC-TGTCTGGGATAGTGGCATC
1 GATATTTGATTA-CATGTAAGAC-CACGTCTGGGATAGTGGCATC
*
46593962 GATATTTGATTACATGTAAGGCCACGTCTGG
1 GATATTTGATTACATGTAAGACCACGTCTGG
46593993 ATGTTGGCAT
Statistics
Matches: 91, Mismatches: 17, Indels: 18
0.72 0.13 0.14
Matches are distributed among these distances:
41 2 0.02
42 28 0.31
43 30 0.33
44 31 0.34
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.35
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACGTCTGGGATAGTGGCATC
Found at i:46594001 original size:42 final size:43
Alignment explanation
Indices: 46593833--46594002 Score: 145
Period size: 42 Copynumber: 4.0 Consensus size: 43
46593823 ATAGGATTCT
* *
46593833 GATATTTGATTTCGTGTAAGACCACGTCTGGGATGTTGGCATC
1 GATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCATC
* * * * * * **
46593876 GAT-TTGAGATTTACGTGTAAGACTATGTTTAGGACATTGGCATC
1 GATATT-TGA-TTACATGTAAGACCACGTCTGGGATGTTGGCATC
*
46593920 G-TATTTGA-TATCATGTAAGACTC-TGTCTGGGATAG-TGGCATC
1 GATATTTGATTA-CATGTAAGAC-CACGTCTGGGAT-GTTGGCATC
*
46593962 GATATTTGATTACATGTAAGGCCACGTCT-GGATGTTGGCAT
1 GATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
46594003 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 17, Indels: 21
0.72 0.12 0.15
Matches are distributed among these distances:
41 3 0.03
42 37 0.37
43 28 0.28
44 32 0.32
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.35
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCATC
Found at i:46595331 original size:39 final size:39
Alignment explanation
Indices: 46595287--46595364 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
46595277 TTTGTATGTA
46595287 CTCAGTTTAGTCCCGACCCCTTCATAAAGTATGTTTAAG
1 CTCAGTTTAGTCCCGACCCCTTCATAAAGTATGTTTAAG
46595326 CTCAGTTTAGTCCCGACCCCTTCATAAAGTATGTTTAAG
1 CTCAGTTTAGTCCCGACCCCTTCATAAAGTATGTTTAAG
46595365 GTCTTGTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (39 bp):
CTCAGTTTAGTCCCGACCCCTTCATAAAGTATGTTTAAG
Found at i:46600413 original size:13 final size:13
Alignment explanation
Indices: 46600395--46600419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46600385 AATTGATATC
46600395 TGTGAAAATTTTG
1 TGTGAAAATTTTG
46600408 TGTGAAAATTTT
1 TGTGAAAATTTT
46600420 ATCGTTTGTG
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:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:46602742 original size:19 final size:20
Alignment explanation
Indices: 46602707--46602745 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
46602697 GTGTTATCAT
*
46602707 AATTTCATAGGCATAACTTA
1 AATTTCATAGACATAACTTA
46602727 AATTTC-TAGACATAACTTA
1 AATTTCATAGACATAACTTA
46602746 CACATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (20 bp):
AATTTCATAGACATAACTTA
Found at i:46603356 original size:19 final size:20
Alignment explanation
Indices: 46603317--46603356 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
46603307 TTACAATAAT
* *
46603317 TAAACATAAAGATTCATACA
1 TAAACATAAACATTCAAACA
46603337 TAAACA-AAACATTCAAACA
1 TAAACATAAACATTCAAACA
46603356 T
1 T
46603357 GATATATCGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.23
Consensus pattern (20 bp):
TAAACATAAACATTCAAACA
Found at i:46620026 original size:18 final size:18
Alignment explanation
Indices: 46620005--46620041 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
46619995 TCCATGTAAG
*
46620005 ACCACATCAATATGTGGC
1 ACCACATCAAGATGTGGC
46620023 ACCACATCAAGATGTGGC
1 ACCACATCAAGATGTGGC
46620041 A
1 A
46620042 TTGGCACTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (18 bp):
ACCACATCAAGATGTGGC
Found at i:46620108 original size:47 final size:47
Alignment explanation
Indices: 46620053--46620170 Score: 209
Period size: 47 Copynumber: 2.5 Consensus size: 47
46620043 TGGCACTGAA
46620053 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
*
46620100 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTTGTAAG
1 ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
* *
46620147 ATAAGGATATCATGTAAGACCATG
1 ACAAGGATACCATGTAAGACCATG
46620171 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
ACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAG
Found at i:46620213 original size:54 final size:54
Alignment explanation
Indices: 46620149--46620345 Score: 236
Period size: 54 Copynumber: 3.6 Consensus size: 54
46620139 TTTGTAAGAT
* * * *
46620149 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTTATAAGTTTTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTTTATAAGGC
* * * *
46620203 AAGGAAATCATGTAAGACCATGACAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-TTATAAGGC
* * * *
46620258 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGATGAG-TTCATAAAGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTTTATAAGGC
* *
46620311 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
46620346 ATGGTAAGTT
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 41 0.34
55 41 0.34
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTTTATAAGGC
Found at i:46620278 original size:55 final size:54
Alignment explanation
Indices: 46620149--46620345 Score: 245
Period size: 55 Copynumber: 3.6 Consensus size: 54
46620139 TTTGTAAGAT
* * * * *
46620149 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTTATAAGTTTTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
46620203 AAGGAAATCATGTAAGACCATGACAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
46620258 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTC-ATAAAGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
46620311 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
46620346 ATGGTAAGTT
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 41 0.33
55 43 0.35
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:46622305 original size:40 final size:40
Alignment explanation
Indices: 46622141--46622307 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
46622131 TATTTGGATG
* * * *
46622141 ATAACCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
46622181 AGT-TCCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACT
1 A-TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
46622220 A-AATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
46622260 CTAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
46622300 ATAACCGG
1 ATAACCGG
46622308 TTAAATTCCG
Statistics
Matches: 107, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
39 34 0.32
40 70 0.65
41 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:46630225 original size:39 final size:40
Alignment explanation
Indices: 46630169--46630266 Score: 126
Period size: 39 Copynumber: 2.5 Consensus size: 40
46630159 TGGATGATAA
* **
46630169 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAAAT
* * * *
46630209 CCGGGC-AAGTCTCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAAAT
46630248 CCGGGCTAAGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46630267 AAATTGTGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.65
40 17 0.35
ACGTcount: A:0.22, C:0.26, G:0.31, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAAAT
Found at i:46630274 original size:40 final size:39
Alignment explanation
Indices: 46630169--46630306 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 39
46630159 TGGATGATAA
* * * **
46630169 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGAAT-TGTGCTAGTTACTAAAT
* * *
46630209 CCGGGC-AAGTCTCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGG-AATTGTGCTAGTTACTAAAT
*
46630248 CCGGGCTAAGTCCCGAAGGAAATTGTGCTAGTTACTCCAA-
1 CCGGGCTAAGTCCCGAAGG-AATTGTGCTAGTTACT-AAAT
* *
46630288 CCGGGCTATGTCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
46630307 CATTTGAACG
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 29 0.36
40 49 0.61
41 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGAATTGTGCTAGTTACTAAAT
Found at i:46634349 original size:39 final size:40
Alignment explanation
Indices: 46634293--46634390 Score: 126
Period size: 39 Copynumber: 2.5 Consensus size: 40
46634283 TGGATGATAA
* **
46634293 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAAAT
* * * *
46634333 CCGGGC-AAGTCTCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAAAT
46634372 CCGGGCTAAGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
46634391 AAATTGTGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.65
40 17 0.35
ACGTcount: A:0.22, C:0.26, G:0.31, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATCTGCGCGAGTGACTAAAT
Found at i:46634398 original size:40 final size:39
Alignment explanation
Indices: 46634293--46634430 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 39
46634283 TGGATGATAA
* * * **
46634293 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGAAT-TGTGCTAGTTACTAAAT
* * *
46634333 CCGGGC-AAGTCTCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGG-AATTGTGCTAGTTACTAAAT
*
46634372 CCGGGCTAAGTCCCGAAGGAAATTGTGCTAGTTACTCCAA-
1 CCGGGCTAAGTCCCGAAGG-AATTGTGCTAGTTACT-AAAT
* *
46634412 CCGGGCTATGTCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
46634431 CATTTGAACG
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 29 0.36
40 49 0.61
41 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGAATTGTGCTAGTTACTAAAT
Found at i:46638712 original size:40 final size:40
Alignment explanation
Indices: 46638650--46638833 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
46638640 TATTCGAATG
* *
46638650 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * * *
46638690 ATATCCAGACTAAGATCTGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* *
46638730 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
46638770 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
46638810 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
46638834 CTTGTGCGAG
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 120 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:46639138 original size:22 final size:22
Alignment explanation
Indices: 46639096--46639139 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
46639086 AAAATGTGCA
* *
46639096 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
46639118 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
46639140 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:46641457 original size:26 final size:26
Alignment explanation
Indices: 46641428--46641489 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
46641418 TTGTCCTTAG
*
46641428 TTCACAAAACACAAAATATTCAAAAT
1 TTCACCAAACACAAAATATTCAAAAT
46641454 TTCACCAAACACAAAATATTCAAAAT
1 TTCACCAAACACAAAATATTCAAAAT
46641480 TTCACCAAAC
1 TTCACCAAAC
46641490 TCAAGTATAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.23
Consensus pattern (26 bp):
TTCACCAAACACAAAATATTCAAAAT
Found at i:46642362 original size:45 final size:45
Alignment explanation
Indices: 46642313--46642553 Score: 303
Period size: 45 Copynumber: 5.4 Consensus size: 45
46642303 TTTCAGCCAC
** *
46642313 GGTCTTATTCA-TTTCCATCATGTTGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTCATTTTTGATCATG-TGTCATAGTGTCTTTCAACTAT
* * * *
46642358 GGTCTTATTCATTTTTG-TCATGTTTCTATTGTGTCTTTCAATTGT
1 GGTCTTATTCATTTTTGATCATGTGTC-ATAGTGTCTTTCAACTAT
* *
46642403 GGTCTTATTCATTTTCGA-CATGATGTCATAATGTCTTTCAACTAT
1 GGTCTTATTCATTTTTGATCATG-TGTCATAGTGTCTTTCAACTAT
*
46642448 GGTCTTATTCATTTTTGAT-ATAGTGTCATAATGTCTTTCAACTAT
1 GGTCTTATTCATTTTTGATCAT-GTGTCATAGTGTCTTTCAACTAT
*
46642493 GGTCTTACTCATTTTTGAT-ATAGTGTCATAGTGTCTTTCAACTAT
1 GGTCTTATTCATTTTTGATCAT-GTGTCATAGTGTCTTTCAACTAT
46642538 GGTCTTATTCATTTTT
1 GGTCTTATTCATTTTT
46642554 CAAGCCAATG
Statistics
Matches: 173, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
44 2 0.01
45 164 0.95
46 7 0.04
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.49
Consensus pattern (45 bp):
GGTCTTATTCATTTTTGATCATGTGTCATAGTGTCTTTCAACTAT
Found at i:46645008 original size:18 final size:19
Alignment explanation
Indices: 46644975--46645011 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
46644965 CCTCACAGAG
*
46644975 TTTGATTATGTTTCACAAA
1 TTTGATTATCTTTCACAAA
46644994 TTTGATT-TCTTTCACAAA
1 TTTGATTATCTTTCACAAA
46645012 AGCAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.49
Consensus pattern (19 bp):
TTTGATTATCTTTCACAAA
Found at i:46666790 original size:20 final size:20
Alignment explanation
Indices: 46666761--46666799 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
46666751 GAAGTAATTA
46666761 AGTCAACGGTGTAGCAATCG
1 AGTCAACGGTGTAGCAATCG
*
46666781 AGTCAGCGGTGTAGCAATC
1 AGTCAACGGTGTAGCAATC
46666800 ATCTAGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.21
Consensus pattern (20 bp):
AGTCAACGGTGTAGCAATCG
Found at i:46671273 original size:20 final size:20
Alignment explanation
Indices: 46671247--46671298 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
46671237 GAGGCAAAGC
46671247 ACACGCCCGTGTGCTTAGGG
1 ACACGCCCGTGTGCTTAGGG
* * *
46671267 GCACGCCGGTGTGCTTCGGG
1 ACACGCCCGTGTGCTTAGGG
46671287 ACACGCCCGTGT
1 ACACGCCCGTGT
46671299 CCCTCACCCG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.12, C:0.33, G:0.37, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTAGGG
Found at i:46676916 original size:15 final size:15
Alignment explanation
Indices: 46676896--46676929 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
46676886 GTAATTAAAC
46676896 AAAATAAAAATAATG
1 AAAATAAAAATAATG
* *
46676911 AAAATAAAACTAATT
1 AAAATAAAAATAATG
46676926 AAAA
1 AAAA
46676930 GTTACAACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAATAAAAATAATG
Found at i:46678447 original size:133 final size:133
Alignment explanation
Indices: 46678171--46678627 Score: 361
Period size: 133 Copynumber: 3.4 Consensus size: 133
46678161 GTGAAATTCC
* * * * *
46678171 AAAGAGATATTCGATTGTTTTGAACAAATGAGAGATTGCAACCCAGCGCGATAGGGCACGACT-C
1 AAAGGGATATTCGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCC
* * * *
46678235 TCGAATTGCCAAACATCGAACATAGCCTTTGTTTTAAAGGGTTTTCTTAAAAGACATGAGTGAAA
66 T-GAATTGTCAAACATCCAACATAGCCTTTGTTTTAAAGGATTTTCTTAAAAGACATGAATGAAA
46678300 ACCT
130 ACCT
* * ** *
46678304 AAAGGAATATTCGATCGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCC
1 AAAGGGATATTCGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCC
* * * * * * *
46678369 TGAATTGTCAAACA-CCAAGTATTG-CTTTCGTTTTAGAGGATTTTTTTAGAAGACCTGAATG-G
66 TGAATTGTCAAACATCCAA-CATAGCCTTT-GTTTTAAAGGATTTTCTTAAAAGACATGAATGAA
*
46678431 AATCT
129 AACCT
* * * * * *
46678436 CGAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACAC-ATTAGGGTACGATT
1 -AAAGGGATATTCGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGA-TAGGGCACGATT
* * * * * *** * * *
46678500 CCGCGAATTGTCAAATATCAAACTTTGCCTCCATTTTAAA-GAATTT-TTAAAAGGCATGAGTGA
64 CC-TGAATTGTCAAACATCCAACATAGCCTTTGTTTTAAAGGATTTTCTTAAAAGACATGAATGA
***
46678563 AAGTTT
128 AAACCT
* * * * * * * *
46678569 GAAGGGATATTCGATTATTTCGAGCAAACGCGATATTGCAACCCAACACGTTAGGGCAC
1 AAAGGGATATTCGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCAC
46678628 TATTTCGCGA
Statistics
Matches: 258, Mismatches: 56, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
132 76 0.29
133 154 0.60
134 23 0.09
135 5 0.02
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (133 bp):
AAAGGGATATTCGATTGTTTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGGCACGATTCC
TGAATTGTCAAACATCCAACATAGCCTTTGTTTTAAAGGATTTTCTTAAAAGACATGAATGAAAA
CCT
Found at i:46678607 original size:132 final size:132
Alignment explanation
Indices: 46678437--46678682 Score: 350
Period size: 132 Copynumber: 1.9 Consensus size: 132
46678427 ATGGAATCTC
* * *
46678437 GAAGGGATATTTGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACATTAGGGTACGATTCC
1 GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACATTAGGGCACGATTCC
* *
46678502 GCGAATTGTCAAATATCAAA-CTTTGCCTCCATTTTAAAGAATTTTTAAAAGGCATGAGTGAAAG
66 GCGAATTGGCAAATATCAAATC-TCGCCTCCATTTTAAAGAATTTTTAAAAGGCATGAGTGAAAG
46678566 TTT
130 TTT
* * * * *
46678569 GAAGGGATATTCGATTATTTCGAGCAAACGCGATATTGCAACCCAACACGTTAGGGCACTATTTC
1 GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACATTAGGGCACGATTCC
* * * *
46678634 GCGAATTGGCAAATATCGAATCTCGTCTTCGTTTTAAAGAATTTTTAAA
66 GCGAATTGGCAAATATCAAATCTCGCCTCCATTTTAAAGAATTTTTAAA
46678683 TGTATACTCA
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
132 98 0.99
133 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (132 bp):
GAAGGGATATTCGATTATTTCGAGCAAACGAGAAATTGCAACCCAACACATTAGGGCACGATTCC
GCGAATTGGCAAATATCAAATCTCGCCTCCATTTTAAAGAATTTTTAAAAGGCATGAGTGAAAGT
TT
Found at i:46682247 original size:44 final size:44
Alignment explanation
Indices: 46681566--46682240 Score: 848
Period size: 44 Copynumber: 15.3 Consensus size: 44
46681556 CTGACAATAT
* * * **
46681566 AGAGACACCAAATCTGCTATCTTCAATCTGCTTTCCGCCAATAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
* * **
46681610 AGAGACGCCAAATTTGCTATCTTCGATCTGCTCTCTGCCAATAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
* * * * **
46681654 AGAGACACCAAATCTGCTATCCTCGATCTGC-CATCTGACAATAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTC-TCCGCCGCTAC
* * * **
46681698 AAAGACGCCAAATCTGCTATCTTCGATATGCTCTTCGCCAATAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
* ** **
46681742 AGAGACGCCAAATCTGCTATCTTCGATCTACTCTCCATCAATAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
*
46681786 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGTCGCTAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
*
46681830 AGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
* *
46681874 AGAGACGCCAAATCTGTTATCTTCGATTTGCTCTCCGCCGCTAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
* * * * *
46681918 AAAGATGCCAAATCTGTTATCTTCGATCTGTTCTCCGTCGCTAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
* ***
46681962 AGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTATCGCTAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
* * * * *
46682006 AGAGATGCCAAATCTGTTATTTTCAATCTGCTCTCTGCCGCTAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
* * * *
46682050 AGAGACGCCAAATCTGTTATCTTTGATCTACTCTCCACCGCTAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
* *
46682094 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTTCGCTGCTAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
**
46682138 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTACCGCTAC
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
* *
46682182 AGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTAT
1 AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
*
46682226 AGAGATGCCAAATCT
1 AGAGACGCCAAATCT
46682241 ATTATCTGCT
Statistics
Matches: 563, Mismatches: 66, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
43 1 0.00
44 561 1.00
45 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.29
Consensus pattern (44 bp):
AGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCGCTAC
Found at i:46686527 original size:27 final size:27
Alignment explanation
Indices: 46686487--46686617 Score: 153
Period size: 27 Copynumber: 4.9 Consensus size: 27
46686477 AGGAAGCGTC
*
46686487 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
46686514 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
46686540 CCTGGTAGCTGTGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
46686568 CTCGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
46686595 CTGGTGGCTTTGCCACAA-TATCT
1 CTGGTGGCTCTGCCACAATTATCT
46686618 ATATCAGGTG
Statistics
Matches: 89, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
26 10 0.11
27 75 0.84
28 4 0.04
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:46686566 original size:54 final size:54
Alignment explanation
Indices: 46686484--46686617 Score: 216
Period size: 54 Copynumber: 2.5 Consensus size: 54
46686474 TGGAGGAAGC
*
46686484 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTCGTGGCTCTGCCACATATATCT
* *
46686538 GTCCTGGTAGCTGTGCCACAATTATCTGATCTCGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTCGTGGCTCTGCCACATATATCT
* *
46686592 GTTCTGGTGGCTTTGCCACAA-TATCT
1 GTCCTGGTGGCTATGCCACAATTATCT
46686618 ATATCAGGTG
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
53 5 0.07
54 69 0.93
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTCGTGGCTCTGCCACATATATCT
Found at i:46687988 original size:24 final size:22
Alignment explanation
Indices: 46687931--46687987 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
46687921 GTGTCAAAGA
*
46687931 CACACGTGTGTGTCCCTATGTC
1 CACACGGGTGTGTCCCTATGTC
*
46687953 CACACGGGTGTGTCCTTATGTC
1 CACACGGGTGTGTCCCTATGTC
*
46687975 CACACGGGCGTGT
1 CACACGGGTGTGT
46687988 GACCCTGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.14, C:0.30, G:0.28, T:0.28
Consensus pattern (22 bp):
CACACGGGTGTGTCCCTATGTC
Found at i:46689577 original size:20 final size:21
Alignment explanation
Indices: 46689546--46689584 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
46689536 TTTATGGTTT
46689546 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTTGGGTAAAAA
*
46689567 TAAAT-ATTTTTGGTTAAA
1 TAAATAATTTTTGGGTAAA
46689585 TTGGAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
TAAATAATTTTTGGGTAAAAA
Found at i:46691184 original size:75 final size:75
Alignment explanation
Indices: 46691051--46691450 Score: 536
Period size: 75 Copynumber: 5.3 Consensus size: 75
46691041 TTATCATTGT
* * * *
46691051 TTTATCCAACTAGAGCTAGGCTTACAATTATTATCGTCAGCT-TATCCAACTATAACTGGGTGCA
1 TTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTCAG-TATATCCGACTAGAACTGGGTGCA
*
46691115 AATATTGATGG
65 AATATTGTTGG
* * * * * *
46691126 TTTATCCAACTAGAGTTGGGCTCACAATTATTATCGTTATTATACCCGATTAGCACTGGGTGCAA
1 TTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTCAGTATATCCGACTAGAACTGGGTGCAA
46691191 ATATTGTTGG
66 ATATTGTTGG
* * *
46691201 TTTATCCAACTAGAGCTGGGCTCATAATTATTATCGTCGGTATATCCGACTAGCACTGGGTGCAA
1 TTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTCAGTATATCCGACTAGAACTGGGTGCAA
46691266 ATATTGTTGG
66 ATATTGTTGG
* * * *
46691276 TTTATCCAACTAGAGATGGGCTCACAATTATTATCATTAGTATATCCGACTAGAATTGGGTGCAA
1 TTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTCAGTATATCCGACTAGAACTGGGTGCAA
*
46691341 ATATTGTTAG
66 ATATTGTTGG
* * *
46691351 TTTATCCAACTAGAGCTGGGCTCACAATTATTA-CAGTCGGTATATCCGACTGGTACTGGGTGCA
1 TTTATCCAACTAGAGCTGGGCTCACAATTATTATC-GTCAGTATATCCGACTAGAACTGGGTGCA
*
46691415 AATATCGTT-G
65 AATATTGTTGG
* *
46691425 TTAATCCAACAAGAGCTGGGCTCACA
1 TTTATCCAACTAGAGCTGGGCTCACA
46691451 TTCAATACCG
Statistics
Matches: 287, Mismatches: 36, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
74 27 0.09
75 260 0.91
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTCAGTATATCCGACTAGAACTGGGTGCAA
ATATTGTTGG
Found at i:46691363 original size:35 final size:35
Alignment explanation
Indices: 46691092--46691370 Score: 161
Period size: 35 Copynumber: 7.5 Consensus size: 35
46691082 TATCGTCAGC
* *
46691092 TTATCCAACTATAACTGGGTGCAAATATTGATGGT
1 TTATCCAACTAGAACTGGGTGCAAATATTGTTGGT
** * * *
46691127 TTATCCAACTAGAGTTGGGCT-CACAATTATTATCGTT
1 TTATCCAACTAGAACTGGG-TGCA-AA-TATTGTTGGT
* * *
46691164 ATTATACCCGATTAGCACTGGGTGCAAATATTGTTGGT
1 -TTAT--CCAACTAGAACTGGGTGCAAATATTGTTGGT
* *
46691202 TTATCCAACTAGAGCTGGGCT-CATAATTATTATCGTCGGT
1 TTATCCAACTAGAACTGGG-TGCA-AA-TA-T-T-GTTGGT
* * *
46691242 ATATCCGACTAGCACTGGGTGCAAATATTGTTGGT
1 TTATCCAACTAGAACTGGGTGCAAATATTGTTGGT
* *
46691277 TTATCCAACTAGAGA-TGGGCT-CACAATTATTATCATTAGT
1 TTATCCAACTAGA-ACTGGG-TGCA-AA-TA-T-T-GTTGGT
* * * *
46691317 ATATCCGACTAGAATTGGGTGCAAATATTGTTAGT
1 TTATCCAACTAGAACTGGGTGCAAATATTGTTGGT
*
46691352 TTATCCAACTAGAGCTGGG
1 TTATCCAACTAGAACTGGG
46691371 CTCACAATTA
Statistics
Matches: 184, Mismatches: 37, Indels: 46
0.69 0.14 0.17
Matches are distributed among these distances:
35 72 0.39
36 12 0.07
37 16 0.09
38 17 0.09
39 12 0.07
40 55 0.30
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (35 bp):
TTATCCAACTAGAACTGGGTGCAAATATTGTTGGT
Found at i:46693094 original size:27 final size:27
Alignment explanation
Indices: 46693064--46693239 Score: 183
Period size: 27 Copynumber: 6.5 Consensus size: 27
46693054 ATTGAGTCCA
* *
46693064 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAATCAACTCG
*
46693091 CACACTTAGTGCTACATAATCAAATCG
1 CACACTTAGTGCTACATAATCAACTCG
*
46693118 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAATC-AACTCG
** ** * *
46693146 CACACTTAGTGCCGCATGGTCAATTTG
1 CACACTTAGTGCTACATAATCAACTCG
* **
46693173 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAATCAACTCG
* * *
46693200 CACACTTAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCTACATAATCAACTCG
46693227 CACACTTAGTGCT
1 CACACTTAGTGCT
46693240 GTACAATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (27 bp):
CACACTTAGTGCTACATAATCAACTCG
Found at i:46701227 original size:27 final size:27
Alignment explanation
Indices: 46701197--46701372 Score: 210
Period size: 27 Copynumber: 6.5 Consensus size: 27
46701187 ATTGAGTCCA
* * * *
46701197 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAGTCAAATCG
*
46701224 CACACTTAGTGCTACATAATCAAATCG
1 CACACTTAGTGCTACATAGTCAAATCG
46701251 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATAGTCAAA-TCG
** * *
46701279 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAGTCAAATCG
* **
46701306 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAGTCAAATCG
*
46701333 CACACTTAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCTACATAGTCAAATCG
46701360 CACACTTAGTGCT
1 CACACTTAGTGCT
46701373 GTACAATTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCTACATAGTCAAATCG
Found at i:46701307 original size:82 final size:81
Alignment explanation
Indices: 46701216--46701371 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
46701206 TGCTATATAA
*
46701216 TCAACTCGCACACTTAGTGC-TACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
46701280 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
46701298 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
46701363 ACTTAGTGC
66 ACTTAGTGC
46701372 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:46708778 original size:27 final size:27
Alignment explanation
Indices: 46708748--46708866 Score: 159
Period size: 27 Copynumber: 4.4 Consensus size: 27
46708738 TGGATAAGTT
* *
46708748 GTAGAATTACCAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
46708775 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
46708802 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
46708829 GTAGAATTACTC-ATATACCCTTGTGGG
1 GTAGAATTAC-CGAAATACCCCTGTAGG
*
46708856 GTAAAATTACC
1 GTAGAATTACC
46708867 TTTTTGCCCC
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
26 1 0.01
27 83 0.98
28 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:46709607 original size:67 final size:68
Alignment explanation
Indices: 46709498--46709637 Score: 201
Period size: 67 Copynumber: 2.1 Consensus size: 68
46709488 GAGGAAGCGT
* * * *
46709498 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCGC-ACATATATGTTCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACAACATATATGTTCTGGTGACCTAGCCACA
46709562 ATA
66 ATA
* * *
46709565 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATATATGTTCTGGTGGCCTAGCCAC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACA-ACATATATGTTCTGGTGACCTAGCCAC
46709630 AATA
65 AATA
46709634 TCTG
1 TCTG
46709638 TATCTGGTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
67 34 0.53
69 30 0.47
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.29
Consensus pattern (68 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACAACATATATGTTCTGGTGACCTAGCCACA
ATA
Found at i:46716275 original size:27 final size:27
Alignment explanation
Indices: 46716244--46716362 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
46716234 TGGATAAGTT
* * *
46716244 GTAGAATTACCAAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
46716271 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
46716298 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * * *
46716325 GTAAAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
46716352 GTAAAATTACC
1 GTAGAATTACC
46716363 ATTTTGCCCC
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:46717049 original size:27 final size:27
Alignment explanation
Indices: 46717009--46717092 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
46716999 AGCAGCCTCG
46717009 CTGTAATCTGGTGGCCTCGCCACATATAT
1 CTGT-ATCTGGTGGCCTCGCCACA-ATAT
*
46717038 CTGT-TCTGGTGGCCTAGCCACAATAT
1 CTGTATCTGGTGGCCTCGCCACAATAT
* * *
46717064 CTGTATCTGGTGACTTCGTCACAATAT
1 CTGTATCTGGTGGCCTCGCCACAATAT
46717091 CT
1 CT
46717093 AGCAGCCTCG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 8 0.16
27 37 0.76
29 4 0.08
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.33
Consensus pattern (27 bp):
CTGTATCTGGTGGCCTCGCCACAATAT
Found at i:46719256 original size:75 final size:75
Alignment explanation
Indices: 46719163--46719563 Score: 577
Period size: 75 Copynumber: 5.3 Consensus size: 75
46719153 CGTAATTACC
* * * * *
46719163 GTTGGTTTATCCAACTAGAGCTGGGCTCAGAATTATTATTGTCGGTATATCCAACTAGAACTAGG
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTCGGTATATCCGACTAGCACTGGG
46719228 TGCAAATATT
66 TGCAAATATT
* * * *
46719238 GTTGGTTTATCCAACTAGAGTTAGGCTCACAATTATTATCATCGGTATATCCGACTAGCATTGGG
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTCGGTATATCCGACTAGCACTGGG
46719303 TGCAAATATT
66 TGCAAATATT
* * * * * *
46719313 GTTGGTTTATCCAACTAGAGTTGGGCTCATAATTATTATTGTCGGTATATCTGACTAGCACTAGA
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTCGGTATATCCGACTAGCACTGGG
*
46719378 TGCAAAAATT
66 TGCAAATATT
* * *
46719388 GTTGGTTTATCCAACTAGAGCTGGGTTCACAATTATTATCATCGGTATATTCGACTAGCACTGGG
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTCGGTATATCCGACTAGCACTGGG
*
46719453 TGAAAATATT
66 TGCAAATATT
* * *
46719463 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATAGTCAGTATATCCGACTAGAACTGGG
1 GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTCGGTATATCCGACTAGCACTGGG
*
46719528 TGCAAATATC
66 TGCAAATATT
*
46719538 GTTGGTTTATCCAACTAGAGTTGGGC
1 GTTGGTTTATCCAACTAGAGCTGGGC
46719564 AAACATTCAA
Statistics
Matches: 288, Mismatches: 38, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 288 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (75 bp):
GTTGGTTTATCCAACTAGAGCTGGGCTCACAATTATTATCGTCGGTATATCCGACTAGCACTGGG
TGCAAATATT
Found at i:46724930 original size:48 final size:48
Alignment explanation
Indices: 46724871--46725085 Score: 194
Period size: 48 Copynumber: 4.6 Consensus size: 48
46724861 CTCATGAAAA
* * *
46724871 ACCATGTCTGGGACATGGCTTTGGCATCGATATGTAATTTCATGTAAG
1 ACCATGTCTGGGACATGACATTGGCATCGATATGTAATTCCATGTAAG
* * *
46724919 ACCATAG-CTGGG-C-T---ATCGACATCGATATGTGA-TCCTATGTAAG
1 ACCAT-GTCTGGGACATGACATTGGCATCGATATGTAATTCC-ATGTAAG
** ** *
46724962 ACCATGTCTGGGACATGACATTGGCATCGACCTACAA-TCTTATGTAAG
1 ACCATGTCTGGGACATGACATTGGCATCGATATGTAATTC-CATGTAAG
* *
46725010 ATCATGTCTGGGACATGACATTGGCATCGATATGTGATTCCATGTAAG
1 ACCATGTCTGGGACATGACATTGGCATCGATATGTAATTCCATGTAAG
* * * *
46725058 ACCATATCTGGGATATGGCATTAGCATC
1 ACCATGTCTGGGACATGACATTGGCATC
46725086 CTACCATGTG
Statistics
Matches: 132, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
42 3 0.02
43 31 0.23
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 91 0.69
49 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (48 bp):
ACCATGTCTGGGACATGACATTGGCATCGATATGTAATTCCATGTAAG
Found at i:46729279 original size:26 final size:26
Alignment explanation
Indices: 46729249--46729329 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
46729239 TCGATCACCT
46729249 GTGTAGTACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTACTAC
*
46729275 GTGTA-T-C-AGATGGTG-AGG-TCACT-T
1 GTGTAGTACTA-A--GTGCAGGCT-ACTAC
*
46729299 GTGTAGCACTAAGTGCAGGCTACTAC
1 GTGTAGTACTAAGTGCAGGCTACTAC
46729325 GTGTA
1 GTGTA
46729330 CCGGATTGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 20
0.65 0.05 0.31
Matches are distributed among these distances:
23 1 0.02
24 11 0.26
25 13 0.31
26 16 0.38
27 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (26 bp):
GTGTAGTACTAAGTGCAGGCTACTAC
Found at i:46729312 original size:50 final size:49
Alignment explanation
Indices: 46729143--46729384 Score: 207
Period size: 50 Copynumber: 4.9 Consensus size: 49
46729133 ATTGTGAGTA
* * * * *
46729143 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTAGGT
* * * * * * * * *
46729193 CGCATGTGTAGTACTAAGAGTAGGCTACTATGCGTACTTA-ATGACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG--GTAGGT
*
46729244 CACCTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGT-AGGT
* * * * * *
46729294 CACTTGTGTAGCACTAAGTGCAGGCTACTACGTGTACCGGATTGTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAGGT
* * * *
46729343 CGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTATCAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
46729385 AGCTTCGGCT
Statistics
Matches: 152, Mismatches: 35, Indels: 11
0.77 0.18 0.06
Matches are distributed among these distances:
49 40 0.26
50 75 0.49
51 37 0.24
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (49 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAGGT
Found at i:46736657 original size:50 final size:50
Alignment explanation
Indices: 46736597--46736822 Score: 192
Period size: 50 Copynumber: 4.5 Consensus size: 50
46736587 TGAGTACACG
* * *
46736597 TGTGTGGTACTAAGTGCAGGCTTA-TACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGC-TACTACGTGTACCAGACTGTTAAGTCACA
* ** ** *
46736647 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * * * *
46736698 TATGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* ** * * *
46736748 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
46736797 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
46736823 TGAGTATCAT
Statistics
Matches: 142, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 34 0.24
50 66 0.46
51 33 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:46741491 original size:22 final size:22
Alignment explanation
Indices: 46741449--46741492 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
46741439 AATTATTTAC
* *
46741449 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
46741471 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
46741493 ACGCATTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:46741780 original size:40 final size:41
Alignment explanation
Indices: 46741735--46741900 Score: 250
Period size: 40 Copynumber: 4.1 Consensus size: 41
46741725 AGATTTAGCT
* * *
46741735 GGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGGCC
1 GGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCC
46741775 GGATATAGTCAA-TAGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCC
* *
46741815 GGATATAGT-AAATAGCACAAATGCCTTTGGGACTTAGCCC
1 GGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCC
*
46741855 GGATATAGTC-ACTAGCACAAAAGCCTTCGGGACTTAGCCC
1 GGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCC
46741895 GGATAT
1 GGATAT
46741901 CATTCGAATA
Statistics
Matches: 116, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
39 2 0.02
40 111 0.96
41 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (41 bp):
GGATATAGTCAACTAGCACAAATGCCTTCGGGACTTAGCCC
Found at i:46744551 original size:27 final size:26
Alignment explanation
Indices: 46744516--46744627 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
46744506 AGCATGGCTG
* *
46744516 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
46744542 CCAGATACAGATAGTCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
46744570 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
46744597 CCGGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
46744624 CCAG
1 CCAG
46744628 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.69
28 16 0.22
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:46744607 original size:54 final size:54
Alignment explanation
Indices: 46744516--46744627 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
46744506 AGCATGGCTG
* * *
46744516 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAGTCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * * *
46744570 CCAGAACAGAAATATGTGGCAGAGCCACCGGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
46744624 CCAG
1 CCAG
46744628 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:46746611 original size:40 final size:40
Alignment explanation
Indices: 46746513--46746815 Score: 378
Period size: 40 Copynumber: 7.6 Consensus size: 40
46746503 TCCTCGTTCA
* * * * * *
46746513 AATGACTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
46746552 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
46746592 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
46746632 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
46746672 AATGCCTTCGGGACTTAACTCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
46746712 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
46746752 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
46746792 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
46746816 CAGCATTCAA
Statistics
Matches: 237, Mismatches: 23, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
39 36 0.15
40 193 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:46766489 original size:28 final size:28
Alignment explanation
Indices: 46766449--46766506 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
46766439 TTTGCAAGGC
*
46766449 ACTACGTGTTTGTGCCCTAAACGATCAT
1 ACTACGTATTTGTGCCCTAAACGATCAT
46766477 ACTACGTATTTGTGCCCTAAACGATCAT
1 ACTACGTATTTGTGCCCTAAACGATCAT
46766505 AC
1 AC
46766507 CTGTCTTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (28 bp):
ACTACGTATTTGTGCCCTAAACGATCAT
Found at i:46775466 original size:43 final size:43
Alignment explanation
Indices: 46775386--46775467 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
46775376 GCTGGTATTA
* ** *
46775386 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGACGGTGATGTG
46775429 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGACGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGACGGTGA
46775468 AATGATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.13, C:0.24, G:0.34, T:0.28
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGACGGTGATGTG
Found at i:46777883 original size:17 final size:17
Alignment explanation
Indices: 46777854--46777889 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
46777844 CACAAGCTTC
46777854 GATATGACAAAAAGTAA
1 GATATGACAAAAAGTAA
46777871 GATATCGACAAAAAGTAA
1 GATAT-GACAAAAAGTAA
46777889 G
1 G
46777890 TATAGAAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.56, C:0.08, G:0.19, T:0.17
Consensus pattern (17 bp):
GATATGACAAAAAGTAA
Found at i:46781426 original size:39 final size:40
Alignment explanation
Indices: 46781269--46781498 Score: 270
Period size: 40 Copynumber: 5.8 Consensus size: 40
46781259 GGATATAGCT
* * * *
46781269 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATT-TAGTA
* *
46781309 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATTTAGTA
46781349 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATTTAGTA
* **
46781389 ACTCGCACAAATGCCTTC-GGAATTAGCCTTGATTTAGTA
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATTTAGTA
* ** *
46781428 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATTTAGTA
* * *
46781467 ACTAGCGCAGATGCCTTC-GAGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCAG-GACTTAGCCCGG
46781499 TTATCATCCA
Statistics
Matches: 168, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 65 0.39
40 100 0.60
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATTTAGTA
Found at i:46789394 original size:40 final size:40
Alignment explanation
Indices: 46789348--46789513 Score: 189
Period size: 39 Copynumber: 4.2 Consensus size: 40
46789338 TCGGATTTAA
* *
46789348 CCGGTTATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGTTATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46789388 CCGGTTAGAGTAACTCGCACAATTGCCTTCGGGA-TTAGC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
46789427 CCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTT-GC
1 CCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * * *
46789466 CCGG-AACTAGTCACTAGCGCAGATGCCTTCGGGACTTAGC
1 CCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
46789506 CCGGTTAT
1 CCGGTTAT
46789514 CATCCAAATA
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
39 66 0.62
40 40 0.37
41 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:46796415 original size:40 final size:40
Alignment explanation
Indices: 46796368--46796550 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
46796358 ACTCGCACAG
* *
46796368 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
46796408 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAG-ACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
46796447 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * * *
46796487 ACCTTCGGATCTTAGTCCAGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
46796527 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
46796551 CATTCGAATA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.27
40 86 0.71
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:46796455 original size:79 final size:80
Alignment explanation
Indices: 46796368--46796550 Score: 237
Period size: 79 Copynumber: 2.3 Consensus size: 80
46796358 ACTCGCACAG
* * * *
46796368 GCCTTCGGGTCTTAGCCCGGATATGGTC-ACTAGCATAAATGCCTTCGGGA-CTTAGCCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAATACCTTC-GGATCTTAGCCCAGATA
* *
46796431 TAGTCGCTAG-ACAAAT
64 TAGTCACTAGCACAAAA
* *
46796447 GCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATACCTTCGGATCTTAGTCCAGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATACCTTCGGATCTTAGCCCAGATATA
*
46796512 GTCACTAGCATAAAA
66 GTCACTAGCACAAAA
*
46796527 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
46796551 CATTCGAATA
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 4 0.04
79 60 0.66
80 27 0.30
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATACCTTCGGATCTTAGCCCAGATATA
GTCACTAGCACAAAA
Found at i:46799015 original size:33 final size:32
Alignment explanation
Indices: 46798973--46799036 Score: 119
Period size: 33 Copynumber: 2.0 Consensus size: 32
46798963 TAAATGCATA
46798973 TAGGCATATTACTTAACATGCAAATTGGGTTAC
1 TAGGCATATTACTTAACATGCAAA-TGGGTTAC
46799006 TAGGCATATTACTTAACATGCAAATGGGTTA
1 TAGGCATATTACTTAACATGCAAATGGGTTA
46799037 TACTTGATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 7 0.23
33 24 0.77
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (32 bp):
TAGGCATATTACTTAACATGCAAATGGGTTAC
Found at i:46816595 original size:29 final size:29
Alignment explanation
Indices: 46816532--46816599 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
46816522 TAATCAACCG
*
46816532 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46816561 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46816590 CGCACACTTA
1 CGCACACTTA
46816600 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46816768 original size:29 final size:29
Alignment explanation
Indices: 46816705--46816772 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
46816695 TAATCAACCG
46816705 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46816734 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46816763 CGCACACTTA
1 CGCACACTTA
46816773 CCTTTCCGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46816940 original size:29 final size:29
Alignment explanation
Indices: 46816877--46816944 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
46816867 TAATCAACCG
46816877 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46816906 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46816935 CGCACACTTA
1 CGCACACTTA
46816945 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46817114 original size:29 final size:29
Alignment explanation
Indices: 46817051--46817118 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
46817041 TAATCAACCG
46817051 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46817080 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46817109 CGCACACTTA
1 CGCACACTTA
46817119 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46817259 original size:29 final size:30
Alignment explanation
Indices: 46817220--46817298 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
46817210 CTTAATAATC
46817220 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
46817250 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
46817279 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
46817299 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:46817292 original size:174 final size:174
Alignment explanation
Indices: 46816421--46817267 Score: 1565
Period size: 174 Copynumber: 4.9 Consensus size: 174
46816411 AACTCAAGGT
* * *
46816421 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTGTA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
46816486 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
46816551 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
46816595 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAA-GTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
46816659 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
46816724 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
46816768 ACTTACC-TTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
46816832 GAAAA-ATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
46816896 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
46816940 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
46817005 GAATATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
46817070 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
46817114 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGCTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
46817179 AAAAATATATATTGGATTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
46817244 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
46817268 TGTACAATTT
Statistics
Matches: 656, Mismatches: 14, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
172 151 0.23
173 206 0.31
174 299 0.46
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:46824073 original size:29 final size:29
Alignment explanation
Indices: 46824010--46824077 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
46824000 TAATCAACCG
*
46824010 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46824039 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46824068 CGCACACTTA
1 CGCACACTTA
46824078 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46824189 original size:174 final size:174
Alignment explanation
Indices: 46823899--46824921 Score: 1904
Period size: 174 Copynumber: 5.9 Consensus size: 174
46823889 AACTCAAGGT
* *
46823899 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
46823964 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
46824029 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
46824073 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
46824138 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
46824203 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
46824247 ACTTACCTTTTCGGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
46824312 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGTGCACACTTAGTGCCGTGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
46824377 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
46824421 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCATTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
46824486 GAAAATATATATTGGGTTCGCAGACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
46824551 ACTTTAAACTCACACACTTAGTGCCATGCATTTGAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
46824595 ACTTACCTATTCCGCTGTCCAAAATCGACTCGGTAAAGTCACACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
46824660 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
46824725 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
46824769 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
46824834 G-AAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
46824898 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
46824922 TGTACAATTT
Statistics
Matches: 825, Mismatches: 24, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
173 85 0.10
174 740 0.90
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:46824247 original size:29 final size:29
Alignment explanation
Indices: 46824184--46824251 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
46824174 TAATCAACCG
46824184 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46824213 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46824242 CGCACACTTA
1 CGCACACTTA
46824252 CCTTTTCGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46824421 original size:29 final size:29
Alignment explanation
Indices: 46824359--46824425 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
46824349 AATCAACCGT
*
46824359 GCACACTTAGTGCCGTGCACTTTAAACTC
1 GCACACTTAGTGCCATGCACTTTAAACTC
* **
46824388 ACACACTTAGTGCCATGCA-TTTCAAGTTC
1 GCACACTTAGTGCCATGCACTTT-AAACTC
46824417 GCACACTTA
1 GCACACTTA
46824426 CCTTTTCCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCACTTTAAACTC
Found at i:46824595 original size:29 final size:29
Alignment explanation
Indices: 46824532--46824599 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
46824522 TAATCAACCG
46824532 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46824561 CACACACTTAGTGCCATGCA-TTTGAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46824590 CGCACACTTA
1 CGCACACTTA
46824600 CCTATTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46824769 original size:29 final size:29
Alignment explanation
Indices: 46824706--46824773 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
46824696 TAATCAACCG
46824706 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
46824735 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
46824764 CGCACACTTA
1 CGCACACTTA
46824774 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:46824913 original size:29 final size:30
Alignment explanation
Indices: 46824874--46824952 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
46824864 CTTAATAATC
46824874 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
46824904 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
46824933 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
46824953 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:46829929 original size:6 final size:6
Alignment explanation
Indices: 46829920--46829974 Score: 76
Period size: 6 Copynumber: 9.2 Consensus size: 6
46829910 AATAAAATTG
* *
46829920 AAATGA AAATAA AAATAA AAATAA AAATAA AAATAA GAATAA ATAA-AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA A-AATAA
46829968 AAATAA A
1 AAATAA A
46829975 TAGGAGGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
5 2 0.05
6 40 0.91
7 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:46829941 original size:18 final size:17
Alignment explanation
Indices: 46829900--46829974 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 17
46829890 TATGTCTTTC
*
46829900 AAAATAAAATAATAAAATT
1 AAAAT-AAA-AATAAAAAT
* *
46829919 GAAATGAAAATAAAAAT
1 AAAATAAAAATAAAAAT
46829936 AAAAATAAAAATAAAAAT
1 -AAAATAAAAATAAAAAT
46829954 AAGAATAAATAA-AAAAAT
1 AA-AATAAA-AATAAAAAT
46829972 AAA
1 AAA
46829975 TAGGAGGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
17 11 0.23
18 31 0.65
19 6 0.12
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
AAAATAAAAATAAAAAT
Found at i:46831357 original size:13 final size:13
Alignment explanation
Indices: 46831334--46831368 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
46831324 CAAATATAGA
46831334 AAATT-CTAAATC
1 AAATTCCTAAATC
46831346 AAATTCCTAAATC
1 AAATTCCTAAATC
46831359 AAATTCCTAA
1 AAATTCCTAA
46831369 CTTATCTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATTCCTAAATC
Found at i:46837240 original size:11 final size:11
Alignment explanation
Indices: 46837224--46837248 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46837214 AAAATTATAA
46837224 AAACTAATATT
1 AAACTAATATT
46837235 AAACTAATATT
1 AAACTAATATT
46837246 AAA
1 AAA
46837249 GGAAAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (11 bp):
AAACTAATATT
Found at i:46837301 original size:6 final size:6
Alignment explanation
Indices: 46837281--46837321 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
46837271 TAAATAAGAT
* *
46837281 AAATAA AGATAA AAATGA AAATAA AAATAA TAAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA -AAATAA AAAT
46837322 TTTTTAAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:46839770 original size:48 final size:48
Alignment explanation
Indices: 46839710--46839834 Score: 223
Period size: 48 Copynumber: 2.6 Consensus size: 48
46839700 CAATGCCATA
*
46839710 TCCCAGATATGGTCTTACATGGGACCACATGATGATGCCAATGTCGTG
1 TCCCAGACATGGTCTTACATGGGACCACATGATGATGCCAATGTCGTG
*
46839758 TCCCAGACATGGTCTTACAGGGGACCACATGATGATGCCAATGTCGTG
1 TCCCAGACATGGTCTTACATGGGACCACATGATGATGCCAATGTCGTG
*
46839806 TCCCAGACATGGTCTTACATGGGATCACA
1 TCCCAGACATGGTCTTACATGGGACCACA
46839835 CATACCGAAG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (48 bp):
TCCCAGACATGGTCTTACATGGGACCACATGATGATGCCAATGTCGTG
Found at i:46839956 original size:48 final size:48
Alignment explanation
Indices: 46839884--46839975 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
46839874 TCTCATTATG
46839884 ATGCCAATGCCATGTCCCAAACATGGTCGTACATGAGATCACATAACA
1 ATGCCAATGCCATGTCCCAAACATGGTCGTACATGAGATCACATAACA
* * * *
46839932 ATGCCAAAT-CCATGTCCTAGACATGGTCTTACATGGGATCACAT
1 ATGCC-AATGCCATGTCCCAAACATGGTCGTACATGAGATCACAT
46839976 GTCACTGTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 36 0.92
49 3 0.08
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (48 bp):
ATGCCAATGCCATGTCCCAAACATGGTCGTACATGAGATCACATAACA
Found at i:46842151 original size:21 final size:21
Alignment explanation
Indices: 46842109--46842151 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
46842099 ACCACATGTA
*
46842109 TTCATAAAATTTTATAAATTT
1 TTCATAAAATTTTACAAATTT
* *
46842130 TTCATCAAATTTTACAACTTT
1 TTCATAAAATTTTACAAATTT
46842151 T
1 T
46842152 CATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
TTCATAAAATTTTACAAATTT
Found at i:46850379 original size:20 final size:20
Alignment explanation
Indices: 46850350--46850390 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
46850340 CGGGTTTATA
46850350 ATCGACACGAAGCCCACAAT
1 ATCGACACGAAGCCCACAAT
*
46850370 ATCGATACGAAGCCCACAAT
1 ATCGACACGAAGCCCACAAT
46850390 A
1 A
46850391 ACGGCACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.32, G:0.15, T:0.12
Consensus pattern (20 bp):
ATCGACACGAAGCCCACAAT
Found at i:46850490 original size:98 final size:98
Alignment explanation
Indices: 46850328--46850533 Score: 358
Period size: 98 Copynumber: 2.1 Consensus size: 98
46850318 CGTGGCACAA
*
46850328 AGCCATCGATAACGGGTTTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAAC
1 AGCCATCGATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAAC
*
46850393 GGCACACAGCCTTCAGTAACATGATCGGCACTC
66 GGCACACAGCCTTCAGTAACATGACCGGCACTC
* * *
46850426 AGCCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAAC
1 AGCCATCGATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAAC
*
46850491 GGCACACAGCCTTCGGTAACATGACCGGCACTC
66 GGCACACAGCCTTCAGTAACATGACCGGCACTC
46850524 AGCCATCGAT
1 AGCCATCGAT
46850534 CGGTCAACAG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 101 1.00
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.17
Consensus pattern (98 bp):
AGCCATCGATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAAC
GGCACACAGCCTTCAGTAACATGACCGGCACTC
Found at i:46850613 original size:27 final size:27
Alignment explanation
Indices: 46850539--46850605 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
46850529 TCGATCGGTC
* *
46850539 AACAGATATTT-TGACAAAGTCACTAG
1 AACAGATATTTGTGACAAAGCCACCAG
*
46850565 ATACAGATA-TTGTGACAGAGCCACCAG
1 A-ACAGATATTTGTGACAAAGCCACCAG
46850592 AACAGATATTTGTG
1 AACAGATATTTGTG
46850606 GCATAGCCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.29
27 25 0.71
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (27 bp):
AACAGATATTTGTGACAAAGCCACCAG
Found at i:46851790 original size:20 final size:20
Alignment explanation
Indices: 46851761--46851801 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
46851751 CGGGTCTATA
46851761 ATCGACACGAAGCCCACAAT
1 ATCGACACGAAGCCCACAAT
*
46851781 ATCGATACGAAGCCCACAAT
1 ATCGACACGAAGCCCACAAT
46851801 A
1 A
46851802 ACGGCACACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.32, G:0.15, T:0.12
Consensus pattern (20 bp):
ATCGACACGAAGCCCACAAT
Found at i:46851901 original size:98 final size:98
Alignment explanation
Indices: 46851747--46851940 Score: 334
Period size: 98 Copynumber: 2.0 Consensus size: 98
46851737 AAAGCCACCA
46851747 ATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAACGGCACACA
1 ATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAACGGCACACA
* * *
46851812 GCCTTCTGTAAAATGATCGGCACTCAGCCATTG
66 GCCTTCGGTAAAATAACCGGCACTCAGCCATTG
* *
46851845 ATAACGGGTCTATAATCGGCACGAAGCCTACAATATCGATACGAAGCCCACAATAACGGCACACA
1 ATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAACGGCACACA
*
46851910 GCCTTCGGTAACATAACCGGCACTCAGCCAT
66 GCCTTCGGTAAAATAACCGGCACTCAGCCAT
46851941 CAATCAGTCA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.18
Consensus pattern (98 bp):
ATAACGGGTCTATAATCGACACGAAGCCCACAATATCGATACGAAGCCCACAATAACGGCACACA
GCCTTCGGTAAAATAACCGGCACTCAGCCATTG
Found at i:46851989 original size:27 final size:26
Alignment explanation
Indices: 46851950--46852028 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 26
46851940 TCAATCAGTC
* * *
46851950 AACAGATATTGTGAGAAAGTCACTAG
1 AACAGATATTGTGACAAAGCCACCAG
*
46851976 ATACAGATATTGTGACAGAGCCACCAG
1 A-ACAGATATTGTGACAAAGCCACCAG
* *
46852003 AACAGATATTTGTGGCATAGCCACCA
1 AACAGATA-TTGTGACAAAGCCACCA
46852029 AAACGCTTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 8 0.18
27 37 0.82
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
AACAGATATTGTGACAAAGCCACCAG
Found at i:46852231 original size:27 final size:27
Alignment explanation
Indices: 46852202--46852531 Score: 426
Period size: 27 Copynumber: 12.2 Consensus size: 27
46852192 GGGTAAAATG
* * * * *
46852202 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
46852229 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
46852256 GTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
46852283 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
46852310 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
46852337 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
46852364 GTATTTCTACCTTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
46852391 GTAATTCTACCCTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
46852418 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * **
46852445 GTATTTCTACCCTACAAGTGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
46852472 GTAATTCTACCCTATAGTGTTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
46852499 GTAATTCTACCTTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
46852526 GTAATT
1 GTAATT
46852532 TTACAAATCG
Statistics
Matches: 262, Mismatches: 41, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 262 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:46852545 original size:27 final size:27
Alignment explanation
Indices: 46852515--46852774 Score: 246
Period size: 27 Copynumber: 9.7 Consensus size: 27
46852505 CTACCTTACA
46852515 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
46852542 AGGGTATTTCAGTAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
*
46852569 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
46852596 AAGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
46852622 ATGGTATTTCAATAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
46852649 GGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* * *
46852676 AGCGTATTTTAGTAATTTTA-TAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
** * *
46852702 ACAGTATTTCGGTAATTTTATAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
* * *
46852729 GGGGTACTTT-GGTAATTTTACAACT-G
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* *
46852755 GGGGTATTTTAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
46852775 GTAAACTAAA
Statistics
Matches: 193, Mismatches: 30, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.02
26 64 0.33
27 119 0.62
28 7 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:46852577 original size:81 final size:80
Alignment explanation
Indices: 46852202--46852641 Score: 336
Period size: 81 Copynumber: 5.5 Consensus size: 80
46852192 GGGTAAAATG
** * * * * *
46852202 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
1 GTAATTTTACCATACAAGGGTATTTCAGTAATTTTACACTAGA-GGGTATTTCAGTAATTCTACC
*
46852267 TTACAGGGGTATTTTA
65 TTACAGGGGTATTTCA
* * * * * *
46852283 GTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
1 GTAATTTTACCATACAAGGGTATTTCAGTAATTTTACACTAGA-GGGTATTTCAGTAATTCTACC
* *
46852348 CTACAGGGGTATTTCG
65 TTACAGGGGTATTTCA
* * * * * *
46852364 GT-ATTTCTACCTTACAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTAC
1 GTAATTT-TACCATACAAGGGTATTTCAGTAATTTTACACTAGA-GGGTATTTCAGTAATTCTAC
46852428 CTTACAGGGGTATTTCA
64 CTTACAGGGGTATTTCA
* * ** * * * * *
46852445 GT-ATTTCTACCCTACAAGTGTATTTTGGTAATTCTACCCTATAGTGTTATTTTAGTAATTCTAC
1 GTAATTT-TACCATACAAGGGTATTTCAGTAATTTTACACTAGAG-GGTATTTCAGTAATTCTAC
*
46852509 CTTACAAGGGTATTTCA
64 CTTACAGGGGTATTTCA
* * * * *
46852526 GTAATTTTA-CAAATCGAGGGTATTTCAGTAATTTTGCAAACT-GAGGGTATTTCGGTAATTTTA
1 GTAATTTTACCATA-CAAGGGTATTTCAGTAATTTT--ACACTAGAGGGTATTTCAGTAATTCTA
** *
46852589 -CAAATC-GAAGGTATTTCA
63 CCTTA-CAG-GGGTATTTCA
* * * *
46852607 GTAATTTTACAAT-CGATGGTATTTCAATAATTTTA
1 GTAATTTTACCATACAAGGGTATTTCAGTAATTTTA
46852642 TAAATCGGGG
Statistics
Matches: 307, Mismatches: 43, Indels: 21
0.83 0.12 0.06
Matches are distributed among these distances:
78 1 0.00
80 27 0.09
81 269 0.88
82 7 0.02
83 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (80 bp):
GTAATTTTACCATACAAGGGTATTTCAGTAATTTTACACTAGAGGGTATTTCAGTAATTCTACCT
TACAGGGGTATTTCA
Found at i:46852663 original size:80 final size:79
Alignment explanation
Indices: 46852517--46852774 Score: 322
Period size: 80 Copynumber: 3.2 Consensus size: 79
46852507 ACCTTACAAG
* ** *
46852517 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAACTGAGGGTA-TTTCGG
1 GGTATTTCAGTAATTTTAC-AATCGACGGTATTTCAGTAATTTTATAAACTGGGGGTACTTT-GG
46852581 TAATTTTACAAATCGAA
64 TAATTTTACAAATCG-A
* *
46852598 GGTATTTCAGTAATTTTACAATCGATGGTATTTCAATAATTTTATAAA-TCGGGGGTACTTTGGT
1 GGTATTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTATAAACT-GGGGGTACTTTGGT
*
46852662 AATTTTACAAGTCGA
65 AATTTTACAAATCGA
* * * *
46852677 GCGTATTTTAGTAATTTTATAATCGACAGTATTTCGGTAATTTTATAAACTGGGGGTACTTTGGT
1 G-GTATTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTATAAACTGGGGGTACTTTGGT
* * *
46852742 AATTTTACAACTGGG
65 AATTTTACAAATCGA
*
46852757 GGTATTTTAGTAATTTTA
1 GGTATTTCAGTAATTTTA
46852775 GTAAACTAAA
Statistics
Matches: 158, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
79 20 0.13
80 115 0.73
81 23 0.15
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (79 bp):
GGTATTTCAGTAATTTTACAATCGACGGTATTTCAGTAATTTTATAAACTGGGGGTACTTTGGTA
ATTTTACAAATCGA
Found at i:46855345 original size:79 final size:79
Alignment explanation
Indices: 46855243--46855460 Score: 248
Period size: 79 Copynumber: 2.7 Consensus size: 79
46855233 GCTCCTCGTT
*
46855243 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACT-CG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCCG
46855307 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* *
46855323 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTT-AGTCC
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACTCC
*
46855385 GGATTTAGTATCTCGCA
63 GGATTTAGTAACTCGCA
* * * * *
46855402 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTA
46855461 GCCCGGACAT
Statistics
Matches: 118, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
78 8 0.07
79 62 0.53
80 35 0.30
81 12 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCCGGA
TTTAGTAACTCGCA
Found at i:46855428 original size:119 final size:120
Alignment explanation
Indices: 46855243--46855467 Score: 284
Period size: 119 Copynumber: 1.9 Consensus size: 120
46855233 GCTCCTCGTT
46855243 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCGG
* *
46855308 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
46855362 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTT-AG
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAAC
* *
46855422 TCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
62 T-CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
46855468 CATCATTCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
118 10 0.11
119 61 0.66
120 21 0.23
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACTCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:46855467 original size:40 final size:39
Alignment explanation
Indices: 46855243--46855467 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 39
46855233 GCTCCTCGTT
* *
46855243 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
* * * *
46855283 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ATTCGCA
46855323 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAT-TCGCA
* *
46855362 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAT-TCGCA
* * *
46855402 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-A-TTCGCA
46855443 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46855468 CATCATTCAA
Statistics
Matches: 161, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
38 3 0.02
39 29 0.18
40 116 0.72
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTATTCGCA
Found at i:46858140 original size:27 final size:27
Alignment explanation
Indices: 46858092--46858172 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
46858082 AGCATGGCTG
* * *
46858092 CCAGAA-CTGATATTGTGACAGAGTCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
46858118 CCA-AATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGGCAGAGCCA
* *
46858145 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
46858172 C
1 C
46858173 TTAACAGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 39 0.83
28 3 0.06
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGGCAGAGCCA
Found at i:46858376 original size:98 final size:98
Alignment explanation
Indices: 46858202--46858432 Score: 338
Period size: 98 Copynumber: 2.4 Consensus size: 98
46858192 AAAGCCATCA
* * *
46858202 ATAATGGGTCTATAATCAGTACGAAGCCCACAATACTGATACGAAGCCCACAATAATGGCACACA
1 ATAACGGGTCTATAATCAGCACGAAGCCTACAATACTGATACGAAGCCCACAATAATGGCACACA
* ** *
46858267 GCCTTTGGTAACATGATCGGGACTCAACCATTG
66 ACCTTCAGTAACATGATCGGCACTCAACCATTG
* *
46858300 ATAACGGGTCTATAATCGGCACGAAGCCTACAATA-TCGATACGAAGCCCACAGTAATGGCACAC
1 ATAACGGGTCTATAATCAGCACGAAGCCTACAATACT-GATACGAAGCCCACAATAATGGCACAC
*
46858364 AACCTTCAGTAACATGATCGGCACTCAGCCATTG
65 AACCTTCAGTAACATGATCGGCACTCAACCATTG
* *
46858398 ATAGCGGGTCTATAATTAGCACGAAGCCTACAATA
1 ATAACGGGTCTATAATCAGCACGAAGCCTACAATA
46858433 ACGGCACACA
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
97 1 0.01
98 118 0.99
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (98 bp):
ATAACGGGTCTATAATCAGCACGAAGCCTACAATACTGATACGAAGCCCACAATAATGGCACACA
ACCTTCAGTAACATGATCGGCACTCAACCATTG
Found at i:46858548 original size:27 final size:26
Alignment explanation
Indices: 46858483--46858565 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 26
46858473 TCGATCAATC
* *
46858483 AACAGATATTGTGACA-AGGTCACCAG
1 AACAGATATTGTGGCAGA-GCCACCAG
*
46858509 ATACAGATATTGTGGCAGAGCCACTAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
46858536 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
46858563 AAC
1 AAC
46858566 GCTTCCTCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
26 8 0.16
27 40 0.82
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:46858766 original size:27 final size:27
Alignment explanation
Indices: 46858736--46859063 Score: 334
Period size: 27 Copynumber: 12.2 Consensus size: 27
46858726 GGTAAAATGG
* * * * *
46858736 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCAA
*
46858763 TAATTCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAA
* * **
46858790 TAATTCTACCCTACAAGGATATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAA
*
46858817 TAATTCTACCTTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAA
* *
46858844 TAATTCTACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAA
**
46858871 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAA
** * * *
46858898 TTTTTCTACCCTAGAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAA
* * * *
46858925 TAATTTTACCCTATAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAA
* **
46858952 TAATTCTACCCTATA-GGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAA
* *
46858978 TATTTCTACCCTACAAGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAA
* * * *
46859005 TAATTCTACCCTATAGTGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAA
* *
46859032 TAATTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAA
46859059 TAATT
1 TAATT
46859064 TTACAAATCG
Statistics
Matches: 251, Mismatches: 49, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 22 0.09
27 229 0.91
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAA
Found at i:46858794 original size:54 final size:55
Alignment explanation
Indices: 46858736--46859063 Score: 375
Period size: 54 Copynumber: 6.1 Consensus size: 55
46858726 GGTAAAATGG
* * * *
46858736 TAATTTTACCCCACAAGGGTATCTCGA-TAATTCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
* *
46858790 TAATTCTACCCTACAAGGATATTTCG-GTAATTCTACCTTACAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
* * **
46858844 TAATTCTACCCTACAGGGGTATTT-TAGTAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
** * * * * *
46858898 TTTTTCTACCCTAGAAGGGTATTTC-AGTAATTTTACCCTATAGGGGTATTTTAG
1 TAATTCTACCCTACAAGGGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
* * *
46858952 TAATTCTACCCTA-TAGGGTATTTCG-GTATTTCTACCCTACAAGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
* * * *
46859005 TAATTCTACCCTA-TAGTGGTATTT-TAGTAATTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAAG-GGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
46859059 TAATT
1 TAATT
46859064 TTACAAATCG
Statistics
Matches: 236, Mismatches: 32, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
53 48 0.20
54 188 0.80
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (55 bp):
TAATTCTACCCTACAAGGGTATTTCGAGTAATTCTACCCTACAGGGGTATTTCAA
Found at i:46858875 original size:81 final size:81
Alignment explanation
Indices: 46858734--46859090 Score: 475
Period size: 81 Copynumber: 4.4 Consensus size: 81
46858724 GGGGTAAAAT
* * * * * *
46858734 GGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCAATAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTTAGTAATTCTAC
*
46858799 CCTACAAGGATATTTC
66 CCTACAAGGGTATTTC
* * *
46858815 GGTAATTCTACCTTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTTAGTAATTCTAC
*
46858880 CCTACAGGGGTATTTC
66 CCTACAAGGGTATTTC
** * * *
46858896 GGTTTTTCTACCCTAGAAGGGTATTTCAGTAATTTTACCCTATAGGGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTTAGTAATTCTAC
*
46858961 CCTA-TAGGGTATTTC
66 CCTACAAGGGTATTTC
* *
46858976 GGTATTTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGTGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTTAGTAATTCTAC
46859041 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * ** *
46859057 AGTAATTTTA-CAAATCGAGGGTATTTCAATAATT
1 GGTAATTCTACCCTA-CAAGGGTATTTCAATAATT
46859091 TTGCAAACTG
Statistics
Matches: 241, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
80 75 0.31
81 166 0.69
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTTTAGTAATTCTAC
CCTACAAGGGTATTTC
Found at i:46859080 original size:54 final size:52
Alignment explanation
Indices: 46858763--46859144 Score: 248
Period size: 54 Copynumber: 7.1 Consensus size: 52
46858753 GGTATCTCGA
* * * ** * *
46858763 TAATTCTACCCTATAGGGGTATTTCAATAATTCTACCCTACAAGGATATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACAAT-C-AGGGTATTTCAG
* * * ** *
46858817 TAATTCTACCTTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACAAT-CA-GGGTATTTCAG
* * ** * **
46858871 TAATTCTACCCTACAGGGGTATTTCGGTTTTTCTACCCTAGAAGGGTATTTCAG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTA--CAATCAGGGTATTTCAG
* * * * * *
46858925 TAATTTTACCCTATAGGGGTATTTTAGTAATTCTACCCTAT-AGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTA--CAATCAGGGTATTTCAG
* * * *
46858978 TATTTCTACCCTACAAGGGTATTTCAATAATTCTACCCTAT-AGTGGTATTTTAG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTA--CAATCAG-GGTATTTCAG
* *
46859032 TAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTAC-AATC-AGGGTATTTCAG
** ** * * *
46859086 TAATT-TTGCAAACTGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAG
1 TAATTCTACCCTAC-AAGGGTATTTCAGTAATTCTAC-AATC-AGGGTATTTCAG
46859140 TAATT
1 TAATT
46859145 TTACAATCGA
Statistics
Matches: 276, Mismatches: 44, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
52 1 0.00
53 55 0.20
54 216 0.78
55 3 0.01
56 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (52 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACAATCAGGGTATTTCAG
Found at i:46859107 original size:81 final size:79
Alignment explanation
Indices: 46858734--46859173 Score: 318
Period size: 81 Copynumber: 5.5 Consensus size: 79
46858724 GGGGTAAAAT
* * * * * * * *
46858734 GGTAATTTTACCCCA-CAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCAATAATTCTA
1 GGTAATTTTA--CCATCGAGGGTATTTCAATAATTTTACACTAGA-GGGTATTTTAGTAATTCTA
*
46858798 CCCTACAAGGATATTTC
63 CCCTACAAGGGTATTTC
* * * * *
46858815 GGTAATTCTACCTTAC-AGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTAGTAATTCTA
1 GGTAATTTTACCAT-CGA-GGGTATTTCAATAATTTTACACTAGA-GGGTATTTTAGTAATTCTA
*
46858879 CCCTACAGGGGTATTTC
63 CCCTACAAGGGTATTTC
* * * * * *
46858896 GGT-TTTTCTACCCTAGAAGGGTATTTCAGTAATTTTACCCTATAGGGGTATTTTAGTAATTCTA
1 GGTAATTT-TACCATCG-AGGGTATTTCAATAATTTTACACTAGA-GGGTATTTTAGTAATTCTA
*
46858960 CCCTA-TAGGGTATTTC
63 CCCTACAAGGGTATTTC
* * * * *
46858976 GGT-ATTTCTACCCTACAAGGGTATTTCAATAATTCTACCCTATAGTGGTATTTTAGTAATTCTA
1 GGTAATTT-TACCAT-CGAGGGTATTTCAATAATTTTACACTAGAG-GGTATTTTAGTAATTCTA
46859040 CCCTACAAGGGTATTTC
63 CCCTACAAGGGTATTTC
* * * ** *
46859057 AGTAATTTTACAAATCGAGGGTATTTCAATAATTTTGCAAACT-GAGGGTATTTCGGTAATTTTA
1 GGTAATTTTAC-CATCGAGGGTATTTCAATAATTTT--ACACTAGAGGGTATTTTAGTAATTCTA
** *
46859121 -CAAATCGAGGGTATTTC
63 CCCTA-CAAGGGTATTTC
* * * **
46859138 AGTAATTTTACAATCGATGGTATTTCTGTAATTTTA
1 GGTAATTTTACCATCGAGGGTATTTCAATAATTTTA
46859174 TAAATCAGGG
Statistics
Matches: 304, Mismatches: 41, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.00
79 3 0.01
80 96 0.32
81 193 0.63
82 8 0.03
83 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (79 bp):
GGTAATTTTACCATCGAGGGTATTTCAATAATTTTACACTAGAGGGTATTTTAGTAATTCTACCC
TACAAGGGTATTTC
Found at i:46859159 original size:26 final size:27
Alignment explanation
Indices: 46859047--46859226 Score: 208
Period size: 27 Copynumber: 6.7 Consensus size: 27
46859037 CTACCCTACA
46859047 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
46859074 AGGGTATTTCAATAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
*
46859101 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
46859128 AGGGTATTTCAGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
46859154 ATGGTATTTCTGTAATTTTATAAATC-
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
46859180 AGGGGTACTTT-GGTAATTTTACAACT-G
1 A-GGGTA-TTTCAGTAATTTTACAAATCG
* *
46859207 GGGGTATTTTAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
46859227 GTAAACTAAA
Statistics
Matches: 131, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
25 3 0.02
26 39 0.30
27 85 0.65
28 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:46859186 original size:53 final size:54
Alignment explanation
Indices: 46859047--46859226 Score: 224
Period size: 53 Copynumber: 3.4 Consensus size: 54
46859037 CTACCCTACA
* *
46859047 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTGCAAACTG
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTG
* *
46859101 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAATC-G
1 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTG
* * * *
46859154 ATGGTATTTCTGTAATTTTATAAATC-AGGGGTACTTT-GGTAATTTTAC-AACTG
1 AGGGTATTTCAGTAATTTTACAAATCGA-GGGTA-TTTCAGTAATTTTACAAACTG
* *
46859207 GGGGTATTTTAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
46859227 GTAAACTAAA
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
52 3 0.03
53 56 0.51
54 51 0.46
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTG
Found at i:46860963 original size:21 final size:22
Alignment explanation
Indices: 46860923--46860964 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
46860913 GGGCTCACAC
*
46860923 GCCCGTGTGGTCCAAGGGACAT
1 GCCCGTGTGATCCAAGGGACAT
*
46860945 GCCCGTGTGAT-CGAGGGACA
1 GCCCGTGTGATCCAAGGGACA
46860965 CGCCTGCGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.19, C:0.26, G:0.38, T:0.17
Consensus pattern (22 bp):
GCCCGTGTGATCCAAGGGACAT
Found at i:46862883 original size:20 final size:20
Alignment explanation
Indices: 46862841--46862885 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
46862831 AGCACATGTA
* **
46862841 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACAT
*
46862861 TTCATCAAATTTTACAACAT
1 TTCATAAAATTTTACAACAT
46862881 TTCAT
1 TTCAT
46862886 TTTAGTCCCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTTACAACAT
Done.