Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 43 of 335
Found at i:15683154 original size:31 final size:30
Alignment explanation
Indices: 15683118--15683181 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
15683108 ATTTTTTTTA
15683118 ATATTTACATTATAATAT-TATATAATAATAT
1 ATATTTA-ATTATAATATGTATAT-ATAATAT
* * *
15683149 ATATTTAATTTTTATGTGTATATATAATAT
1 ATATTTAATTATAATATGTATATATAATAT
15683179 ATA
1 ATA
15683182 AAATAACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 17 0.59
31 12 0.41
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (30 bp):
ATATTTAATTATAATATGTATATATAATAT
Found at i:15690721 original size:11 final size:12
Alignment explanation
Indices: 15690692--15690724 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
15690682 ATAGGTAGTT
*
15690692 TTAAACATTATA
1 TTAAAAATTATA
15690704 TTAAAAATTATA
1 TTAAAAATTATA
15690716 -TAAAAATTA
1 TTAAAAATTA
15690725 AATCTCAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
TTAAAAATTATA
Found at i:15692481 original size:21 final size:20
Alignment explanation
Indices: 15692451--15692491 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
15692441 ATTCGGGTGG
*
15692451 ATTAACTCTTTTGAGCTTCT
1 ATTAACTCTTATGAGCTTCT
15692471 ATTAAGCTCTTATGAGCTTCT
1 ATTAA-CTCTTATGAGCTTCT
15692492 GTTGGTGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (20 bp):
ATTAACTCTTATGAGCTTCT
Found at i:15698993 original size:18 final size:17
Alignment explanation
Indices: 15698962--15699026 Score: 53
Period size: 18 Copynumber: 3.8 Consensus size: 17
15698952 TAAAAATATG
* *
15698962 AAAAGATAAAAATATTC
1 AAAAAATAATAATATTC
*
15698979 ACAAAAATAATAATAGTC
1 A-AAAAATAATAATATTC
* *
15698997 AAGACA-AA-AATATTC
1 AAAAAATAATAATATTC
15699012 ATAAAAATAATAATA
1 A-AAAAATAATAATA
15699027 GTTATTTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
15 7 0.19
16 5 0.14
17 6 0.17
18 18 0.50
ACGTcount: A:0.65, C:0.08, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAAAATAATAATATTC
Found at i:15699006 original size:33 final size:33
Alignment explanation
Indices: 15698964--15699028 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
15698954 AAAATATGAA
*
15698964 AAGATAAAAATATTCACAAAAATAATAATAGTC
1 AAGACAAAAATATTCACAAAAATAATAATAGTC
*
15698997 AAGACAAAAATATTCATAAAAATAATAATAGT
1 AAGACAAAAATATTCACAAAAATAATAATAGT
15699029 TATTTAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.25
Consensus pattern (33 bp):
AAGACAAAAATATTCACAAAAATAATAATAGTC
Found at i:15703926 original size:46 final size:46
Alignment explanation
Indices: 15703874--15704055 Score: 267
Period size: 46 Copynumber: 4.0 Consensus size: 46
15703864 AGTGTGCTCT
* *
15703874 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
15703920 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
15703966 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
15704012 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
15704056 TCATGTCAAA
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 125 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:15707468 original size:52 final size:48
Alignment explanation
Indices: 15707406--15707598 Score: 196
Period size: 47 Copynumber: 4.0 Consensus size: 48
15707396 GAAATGTGAT
* *
15707406 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
15707458 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
15707505 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * * *
15707551 ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
15707599 ACTATGTGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
46 26 0.21
47 54 0.44
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:15707586 original size:93 final size:97
Alignment explanation
Indices: 15707410--15707617 Score: 228
Period size: 93 Copynumber: 2.1 Consensus size: 97
15707400 TGTGATTTCC
* * *
15707410 GTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTTCCGTATAAGACCATA
1 GTATAAGACCATAGCTGGGATATGGCATC-GAG--ATGTGATATGTGCATCCGTATAAGACCATA
*
15707475 TCCGGGATATGGCATCGG-TGTGATATGTG-CTACT
63 GCCGGGATATGGCATCGGATGTGATATGTGACTA-T
* * * *
15707509 GTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATATGTG-ATCCGTGTAAGACCATGGCT
1 GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCC
* *
15707571 GGGCTATGGCCTCGGTATGTGATATGTGACTAT
66 GGGATATGGCATCGG-ATGTGATATGTGACTAT
**
15707604 GTGCAAGACCATAG
1 GTATAAGACCATAG
15707618 TTTTACTATG
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
93 28 0.30
94 11 0.12
95 23 0.25
96 3 0.03
97 2 0.02
99 26 0.28
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (97 bp):
GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCC
GGGATATGGCATCGGATGTGATATGTGACTAT
Found at i:15711174 original size:15 final size:15
Alignment explanation
Indices: 15711126--15711205 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
15711116 GTATCTTGGG
*
15711126 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
15711141 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
15711156 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
* *
15711171 TTTCTCTATAT-TAGA
1 TTTCTTTAT-TCTGGA
*
15711186 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
15711200 TTTCTT
1 TTTCTT
15711206 CTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 8 0.15
15 44 0.83
16 1 0.02
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:15713652 original size:47 final size:47
Alignment explanation
Indices: 15713521--15713703 Score: 183
Period size: 47 Copynumber: 3.8 Consensus size: 47
15713511 TGGTTGGACC
* * * * * *
15713521 ATGGCAGCA-TGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGCATCAGTGTGATATGTG-CTTCCGTATAAGACCATATCCGGGAT
*
15713568 ATGGCTTCGGAGAAATGTGATATGTGCTTCCGTATAAGACCATATCCGGGAT
1 ATGGCATC--AG---TGTGATATGTGCTTCCGTATAAGACCATATCCGGGAT
* *
15713620 ATGGCATCAGTGTGATATGTGCTAT-TGTATAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCT-TCCGTATAAGACCATATCCGGGAT
* *
15713667 ATGGCATCAGTGTGATATGTG-ATCCGTGTAAGACCAT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCAT
15713704 GGCTGGGCTA
Statistics
Matches: 115, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
45 1 0.01
46 11 0.10
47 60 0.52
48 1 0.01
49 1 0.01
50 2 0.02
52 29 0.25
53 10 0.09
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (47 bp):
ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATATCCGGGAT
Found at i:15716493 original size:33 final size:32
Alignment explanation
Indices: 15716447--15716510 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
15716437 TCCTTCCCAT
** *
15716447 ATTTTTAGGTTAGGTTTCTTTTCTTATCTTTTC
1 ATTTTTAAATTAGGTTT-TTCTCTTATCTTTTC
*
15716480 ATTTTTAAATTAGGTTTTTCTCTTTTCTTTT
1 ATTTTTAAATTAGGTTTTTCTCTTATCTTTT
15716511 TAGAATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.14, C:0.11, G:0.09, T:0.66
Consensus pattern (32 bp):
ATTTTTAAATTAGGTTTTTCTCTTATCTTTTC
Found at i:15717373 original size:40 final size:40
Alignment explanation
Indices: 15717329--15717416 Score: 113
Period size: 41 Copynumber: 2.2 Consensus size: 40
15717319 ACCATTAGTG
*
15717329 GCGTTTTCTTAAAAACGCCGCAAAAGGCAAGGCAATAGCA
1 GCGTTTTCTCAAAAACGCCGCAAAAGGCAAGGCAATAGCA
** * *
15717369 GCGTTTCTCTCGTAAACGCTGCAAAAGGTAAGGCAATAGCA
1 GCGTTT-TCTCAAAAACGCCGCAAAAGGCAAGGCAATAGCA
*
15717410 GCATTTT
1 GCGTTTT
15717417 TACCATAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 7 0.17
41 34 0.83
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.23
Consensus pattern (40 bp):
GCGTTTTCTCAAAAACGCCGCAAAAGGCAAGGCAATAGCA
Found at i:15717426 original size:41 final size:40
Alignment explanation
Indices: 15717341--15717467 Score: 137
Period size: 41 Copynumber: 3.1 Consensus size: 40
15717331 GTTTTCTTAA
* * * *
15717341 AAACGCCGCAAAAGGCAAGGCAATAGCAGCGTTTCTCTCGT
1 AAACGCAGCAAAAGGTAAGGCAATAGCAGCGTTTTTC-CAT
* *
15717382 AAACGCTGCAAAAGGTAAGGCAATAGCAGCATTTTTACCAT
1 AAACGCAGCAAAAGGTAAGGCAATAGCAGCGTTTTT-CCAT
* * * *
15717423 AAACGCAGCAAATGGTAAAGCAACAGCGGCGTTTTTCCCAT
1 AAACGCAGCAAAAGGTAAGGCAATAGCAGCGTTTTT-CCAT
15717464 AAAC
1 AAAC
15717468 ATTACGAATT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 72 0.99
42 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (40 bp):
AAACGCAGCAAAAGGTAAGGCAATAGCAGCGTTTTTCCAT
Found at i:15717601 original size:44 final size:46
Alignment explanation
Indices: 15717527--15717630 Score: 158
Period size: 44 Copynumber: 2.3 Consensus size: 46
15717517 TACAAACTGG
15717527 TTCCCTTTTCTTTCGCAAACGATGCCGTTTTA-TT-TCTCCCCCGA
1 TTCCCTTTTCTTTCGCAAACGATGCCGTTTTATTTCTCTCCCCCGA
* * **
15717571 TTCTCTTTTCTTTCGCAAATGATGTTGTTTTATTTCTCTCCCCCGA
1 TTCCCTTTTCTTTCGCAAACGATGCCGTTTTATTTCTCTCCCCCGA
15717617 TTCCCTTTTCTTTC
1 TTCCCTTTTCTTTC
15717631 TTAGCCTTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
44 28 0.53
45 2 0.04
46 23 0.43
ACGTcount: A:0.12, C:0.31, G:0.10, T:0.48
Consensus pattern (46 bp):
TTCCCTTTTCTTTCGCAAACGATGCCGTTTTATTTCTCTCCCCCGA
Found at i:15719047 original size:44 final size:44
Alignment explanation
Indices: 15718984--15719072 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
15718974 AGTTTCTTAT
15718984 GTGATTAAGATAGCTACATATAGTTATGTTATGTGATTACATCA
1 GTGATTAAGATAGCTACATATAGTTATGTTATGTGATTACATCA
15719028 GTGATTAAGATAGCTACATATAGTTATGTTATGTGATTACATCA
1 GTGATTAAGATAGCTACATATAGTTATGTTATGTGATTACATCA
15719072 G
1 G
15719073 CAAGTTCTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (44 bp):
GTGATTAAGATAGCTACATATAGTTATGTTATGTGATTACATCA
Found at i:15721058 original size:161 final size:161
Alignment explanation
Indices: 15720720--15721043 Score: 488
Period size: 160 Copynumber: 2.0 Consensus size: 161
15720710 CAAGTGTTTA
* * ** *
15720720 TTGCCAATGATGTTTTAACATTTCATTATCTTTTTACTTTTAAATTGATGATATTAATTGTGGTA
1 TTGCCAATGATTTTTTAACACTTCATTATCTTTGAACTTTTAAATTGATGATATTAATTGAGGTA
* *
15720785 ATGGGAAAATCCATTCATACATACCAACTATGGTGTGGGGCAGCTTATGCTTACAATTTTGTTGC
66 ATGGGAAAATCCATTCATACATACCAACTATGGTGGGGGGCAGCTAATGCTTACAATTTTGTTGC
* * *
15720850 CAATTTATTGGCTGACATTGTAAGCTTCCAT
131 CAACTTATTGGCTGACACTGTAAACTTCCAT
* * *
15720881 TTGCCAATAATTTTTTAACACTTCATTATGTTTGAACTTTTAAATTGATGATATTAATTGAGGTG
1 TTGCCAATGATTTTTTAACACTTCATTATCTTTGAACTTTTAAATTGATGATATTAATTGAGGTA
* *
15720946 ATGGGAAAAT-CGTTCATACATACCAACTATGGTGGGGGGTAGCTAATGCTTACAATTTTGTTGC
66 ATGGGAAAATCCATTCATACATACCAACTATGGTGGGGGGCAGCTAATGCTTACAATTTTGTTGC
* *
15721010 CAGCTTATTGGCTGACACTGTAAACTTCCTT
131 CAACTTATTGGCTGACACTGTAAACTTCCAT
15721041 TTG
1 TTG
15721044 TTGGCTGATT
Statistics
Matches: 146, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
160 79 0.54
161 67 0.46
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (161 bp):
TTGCCAATGATTTTTTAACACTTCATTATCTTTGAACTTTTAAATTGATGATATTAATTGAGGTA
ATGGGAAAATCCATTCATACATACCAACTATGGTGGGGGGCAGCTAATGCTTACAATTTTGTTGC
CAACTTATTGGCTGACACTGTAAACTTCCAT
Found at i:15721277 original size:14 final size:14
Alignment explanation
Indices: 15721258--15721298 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
15721248 TTTCCTTTCC
15721258 TTTTATATTTTTAT
1 TTTTATATTTTTAT
*
15721272 TTTTATTTTTTTAT
1 TTTTATATTTTTAT
*
15721286 TTTTATAATTTTA
1 TTTTATATTTTTA
15721299 AATTATTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATATTTTTAT
Found at i:15721358 original size:23 final size:23
Alignment explanation
Indices: 15721332--15721380 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
15721322 AATACTATGT
15721332 TAAATTATATTTT-TACATTTTTA
1 TAAATTATATTTTATA-ATTTTTA
*
15721355 TAAATTTTATTTTATAATTTTTA
1 TAAATTATATTTTATAATTTTTA
15721378 TAA
1 TAA
15721381 TTTTAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TAAATTATATTTTATAATTTTTA
Found at i:15721391 original size:23 final size:23
Alignment explanation
Indices: 15721348--15721391 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15721338 ATATTTTTAC
*
15721348 ATTTTTATAAATTTTATTTTATA
1 ATTTTTATAAATTTTAATTTATA
15721371 ATTTTTAT-AATTTTAAATTTA
1 ATTTTTATAAATTTT-AATTTA
15721392 GCTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTTTATAAATTTTAATTTATA
Found at i:15726128 original size:53 final size:53
Alignment explanation
Indices: 15725989--15726139 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
15725979 ACAAGTGTGC
* * **
15725989 CCGTTTAAGACCATAGCTGGGCTATGGCATCCGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
15726042 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
15726095 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
15726140 ACCGTGTAAG
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:15729556 original size:52 final size:48
Alignment explanation
Indices: 15729462--15729668 Score: 168
Period size: 47 Copynumber: 4.2 Consensus size: 48
15729452 CCATGGCAGC
* * * ** *
15729462 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGCCTATGGCTTCGGAG
1 ATGTGATATGTG-CTTCCGTATAAGACCATATCTGGGATATGGCATC-G-G
*
15729513 AAATGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 --ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * * * *
15729563 -TGTGATATGTGCTACTGCATAAGACCATATATGGGATATGGCATCAG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
* * ** * * *
15729610 -TGTGATATGTG-ATCCGTGTAAGACCATGGCTAGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
15729656 TATGTGATATGTG
1 -ATGTGATATGTG
15729669 ACTATGTGCA
Statistics
Matches: 127, Mismatches: 25, Indels: 9
0.79 0.16 0.06
Matches are distributed among these distances:
46 23 0.18
47 52 0.41
48 11 0.09
50 1 0.01
51 1 0.01
52 28 0.22
53 11 0.09
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (48 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATCGG
Found at i:15731120 original size:40 final size:40
Alignment explanation
Indices: 15731065--15731143 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
15731055 TTTATGAGAA
15731065 GTTAAATTTTTTTGTGAAACAGGGCCAGAGCGATTTCTGT
1 GTTAAATTTTTTTGTGAAACAGGGCCAGAGCGATTTCTGT
*
15731105 GTTAAATTTTTTTGTGAAACAGGGCCAGAGCTATTTCTG
1 GTTAAATTTTTTTGTGAAACAGGGCCAGAGCGATTTCTG
15731144 GATCCCCTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (40 bp):
GTTAAATTTTTTTGTGAAACAGGGCCAGAGCGATTTCTGT
Found at i:15732122 original size:23 final size:23
Alignment explanation
Indices: 15732091--15732138 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
15732081 TCTTTTCATG
15732091 AATGATTAGGGCAAATTGTATGC
1 AATGATTAGGGCAAATTGTATGC
*
15732114 AATGGTTAGGGCAAATTGTATGC
1 AATGATTAGGGCAAATTGTATGC
15732137 AA
1 AA
15732139 CTGAAGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.29
Consensus pattern (23 bp):
AATGATTAGGGCAAATTGTATGC
Found at i:15735051 original size:17 final size:17
Alignment explanation
Indices: 15735029--15735064 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15735019 CGTCAGGCAG
15735029 GAAACCTGGGCCGACAA
1 GAAACCTGGGCCGACAA
15735046 GAAACCTGGGCCGACAA
1 GAAACCTGGGCCGACAA
15735063 GA
1 GA
15735065 GACCGTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.28, G:0.31, T:0.06
Consensus pattern (17 bp):
GAAACCTGGGCCGACAA
Found at i:15737126 original size:17 final size:17
Alignment explanation
Indices: 15737106--15737140 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15737096 TTATATACTT
*
15737106 AATATAATATTATATAA
1 AATATAATATAATATAA
*
15737123 AATATATTATAATATAA
1 AATATAATATAATATAA
15737140 A
1 A
15737141 TAAGAGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATATAATATAATATAA
Found at i:15741073 original size:2 final size:2
Alignment explanation
Indices: 15741066--15741098 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15741056 ATCACCTTTT
15741066 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15741099 GGAAAATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15741786 original size:21 final size:21
Alignment explanation
Indices: 15741762--15741801 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15741752 ATTTTCACTG
15741762 ATTAAAATTT-TATATATAGGC
1 ATTAAAATTTATAT-TATAGGC
*
15741783 ATTAATATTTATATTATAG
1 ATTAAAATTTATATTATAG
15741802 TATTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (21 bp):
ATTAAAATTTATATTATAGGC
Found at i:15741806 original size:20 final size:21
Alignment explanation
Indices: 15741770--15741821 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 21
15741760 TGATTAAAAT
15741770 TTTATATATAGGCATTA-ATA
1 TTTATATATAGGCATTATATA
*
15741790 TTTATATTATA-GTATTATATA
1 TTTATA-TATAGGCATTATATA
15741811 TTACTATATAT
1 TT--TATATAT
15741822 TTAATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 11 0.41
21 9 0.33
22 3 0.11
23 4 0.15
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (21 bp):
TTTATATATAGGCATTATATA
Found at i:15745007 original size:42 final size:42
Alignment explanation
Indices: 15744960--15745058 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 42
15744950 GAAGTCCAAA
** *
15744960 GGTTGAACAGAAGCTCATGGGAGCAAAACAGAAACCCATAAG
1 GGTTGAACAGAAGCTCATAAGAACAAAACAGAAACCCATAAG
* ** *
15745002 GGTTGAAC-GAAAGCTCGTAAGAACTGAACGGAAACCCATAAG
1 GGTTGAACAG-AAGCTCATAAGAACAAAACAGAAACCCATAAG
**
15745044 GGTCAAACAGAAGCT
1 GGTTGAACAGAAGCT
15745059 TAAAAGAGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.13
Consensus pattern (42 bp):
GGTTGAACAGAAGCTCATAAGAACAAAACAGAAACCCATAAG
Found at i:15745081 original size:21 final size:21
Alignment explanation
Indices: 15745048--15745092 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
15745038 CATAAGGGTC
* *
15745048 AAACAGAAGCTTAAAAGAGTT
1 AAACAAAAACTTAAAAGAGTT
* *
15745069 AAACAAAAACTTATATGAGTT
1 AAACAAAAACTTAAAAGAGTT
15745090 AAA
1 AAA
15745093 TAGAAACCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.09, G:0.13, T:0.22
Consensus pattern (21 bp):
AAACAAAAACTTAAAAGAGTT
Found at i:15748700 original size:25 final size:25
Alignment explanation
Indices: 15748672--15748723 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
15748662 TTTGGCTTGA
**
15748672 CATTTACTAAGCAATATTGAATATT
1 CATTTACTAAGCAATATCAAATATT
* *
15748697 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
15748722 CA
1 CA
15748724 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:15749967 original size:11 final size:11
Alignment explanation
Indices: 15749951--15749975 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15749941 TTCAGCTGAT
15749951 GAAAATGAAGA
1 GAAAATGAAGA
15749962 GAAAATGAAGA
1 GAAAATGAAGA
15749973 GAA
1 GAA
15749976 TTCTAAATAT
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:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:15752968 original size:39 final size:41
Alignment explanation
Indices: 15752877--15752972 Score: 106
Period size: 45 Copynumber: 2.3 Consensus size: 41
15752867 CTGTTACCGC
* * *
15752877 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAACATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGT---ACA-TGA
15752922 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGT-CA-GA
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTACATGA
*
15752961 TATTGTTACCGT
1 TACTGTTACCGT
15752973 ACTGTTACTG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
39 12 0.26
41 2 0.04
45 33 0.70
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (41 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTACATGA
Found at i:15756322 original size:16 final size:17
Alignment explanation
Indices: 15756301--15756335 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
15756291 TAATGTCTAT
15756301 GAAAATTA-TTAATTGA
1 GAAAATTACTTAATTGA
15756317 GAAAATTAGCTTAATTGA
1 GAAAATTA-CTTAATTGA
15756335 G
1 G
15756336 GGGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (17 bp):
GAAAATTACTTAATTGA
Found at i:15761990 original size:15 final size:15
Alignment explanation
Indices: 15761972--15762021 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
15761962 AATATATTTT
15761972 TTATTTTATTTTTAA
1 TTATTTTATTTTTAA
15761987 TTATTTTAAATTTTTAA
1 TTATTTT--ATTTTTAA
*
15762004 -TATAATTATTTTT-A
1 TTAT-TTTATTTTTAA
15762018 TTAT
1 TTAT
15762022 ATTGTTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
16 3 0.10
17 10 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTTTATTTTTAA
Found at i:15762089 original size:22 final size:21
Alignment explanation
Indices: 15762053--15762134 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 21
15762043 TTAAGAATTA
* *
15762053 TTTTAGTA-TTATTTTTATTT
1 TTTTAATATTTATTTTTATGT
15762073 GTTTTAATATTTATTTTTATGT
1 -TTTTAATATTTATTTTTATGT
*
15762095 TTTTAAATATATTTGATTTATTATAT
1 TTTT--A-ATATTT-ATTT-TTATGT
15762121 TTTTAAT-TTT-TTTT
1 TTTTAATATTTATTTT
15762135 ATTTAATGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 14
0.75 0.04 0.20
Matches are distributed among these distances:
19 1 0.02
20 3 0.06
21 11 0.21
22 14 0.27
23 3 0.06
24 7 0.13
25 4 0.08
26 9 0.17
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTAATATTTATTTTTATGT
Found at i:15762107 original size:20 final size:22
Alignment explanation
Indices: 15762053--15762108 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
15762043 TTAAGAATTA
* *
15762053 TTTTAGTAT-TATTTTTATTTG
1 TTTTAATATATATTTTTATGTG
*
15762074 TTTTAATATTTATTTTTATGT-
1 TTTTAATATATATTTTTATGTG
15762095 TTTTAA-ATATATTT
1 TTTTAATATATATTT
15762109 GATTTATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 14 0.45
22 10 0.32
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTAATATATATTTTTATGTG
Found at i:15762125 original size:26 final size:24
Alignment explanation
Indices: 15762079--15762126 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
15762069 ATTTGTTTTA
*
15762079 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
15762103 ATATTTGATTTATTATATTTTTAA
1 ATATTT-ATTT-TTATATTTTTAA
15762127 TTTTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 4 0.19
26 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:15762138 original size:25 final size:26
Alignment explanation
Indices: 15762082--15762139 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
15762072 TGTTTTAATA
*
15762082 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* * *
15762107 TTGATTTATTATATTTTT-AATTTTT
1 TTTATTTATTATATTTTTAAATATAT
15762132 TTTATTTA
1 TTTATTTA
15762140 ATGAAATAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 18 0.67
26 9 0.33
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:15770714 original size:46 final size:46
Alignment explanation
Indices: 15770654--15770913 Score: 396
Period size: 46 Copynumber: 5.7 Consensus size: 46
15770644 TTTGACATGA
* * * * * *
15770654 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGT
***
15770700 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
*
15770746 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
* *
15770792 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
15770838 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
15770884 TGCCATGGTATCTTTCAACCATGGTCTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
15770914 CATGGTATCT
Statistics
Matches: 199, Mismatches: 14, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 195 0.98
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
Found at i:15770902 original size:138 final size:138
Alignment explanation
Indices: 15770654--15771414 Score: 589
Period size: 138 Copynumber: 5.3 Consensus size: 138
15770644 TTTGACATGA
* * * * * *
15770654 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGCTGCCATGGTATCTTTCAAC
***
15770719 CATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
66 CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
15770784 TATCAGGT
131 TATCAGGT
*
15770792 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGGTATCTTTCAA
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGCTGCCATGGTATCTTTCAA
15770856 CCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTAC-CATGGT
65 CCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT--T
* **
15770920 ATC-TTTCAACCAT
128 -TCATATC-A-GGT
* * * * * ** * * * * *
15770933 TGTCTTA-CA-CATTTCATATCA-AGT-TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 TGCCATAGTATC-TTTCA-ACCATGGTCTTACA---CAT-TTTCTATCA-GG-C-TGC-CA--TG
* *** ** * * * * * *
15770994 ATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTATTCA--TT-TCAT-ATCA-CGTTGCCA
54 GTATCTTTCAACCATGG--TCTTAC-A-CAT-TTCATA-TCACGTTGCCATGGT-ATC-TT-TCA
*
15771054 TGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
110 ---A---------CCATGGTCTTACACATTTCATATCAGGT
* * *
15771095 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGGCATCTTTTAA
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGCTGCCATGGTATCTTTCAA
***
15771159 CCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
15771224 ATATCAAGT
130 ATATCAGGT
* *
15771233 TGTCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGGTATCTTTCAA
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGCTGCCATGGTATCTTTCAA
*
15771297 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
15771362 ATATCAGGC
130 ATATCAGGT
*
15771371 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAG
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
15771415 AGAGCACACT
Statistics
Matches: 488, Mismatches: 83, Indels: 104
0.72 0.12 0.15
Matches are distributed among these distances:
137 7 0.01
138 306 0.63
139 8 0.02
140 11 0.02
141 8 0.02
142 1 0.00
143 3 0.01
144 6 0.01
145 1 0.00
146 2 0.00
147 2 0.00
148 3 0.01
149 16 0.03
150 7 0.01
151 13 0.03
152 13 0.03
153 7 0.01
154 14 0.03
155 3 0.01
156 2 0.00
157 2 0.00
158 1 0.00
159 6 0.01
160 3 0.01
161 1 0.00
162 8 0.02
163 11 0.02
164 8 0.02
165 12 0.02
166 3 0.01
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (138 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGCTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
TATCAGGT
Found at i:15770905 original size:16 final size:16
Alignment explanation
Indices: 15770886--15770932 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
15770876 TATCACGTTG
15770886 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
15770902 CCATGG--TC-TT--A
1 CCATGGTATCTTTCAA
15770913 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
15770929 CCAT
1 CCAT
15770933 TGTCTTACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
11 7 0.27
13 4 0.15
14 4 0.15
16 11 0.42
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (16 bp):
CCATGGTATCTTTCAA
Found at i:15770919 original size:27 final size:27
Alignment explanation
Indices: 15770886--15770940 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
15770876 TATCACGTTG
15770886 CCATGGTATCTTTCAACCATGGTCTTA
1 CCATGGTATCTTTCAACCATGGTCTTA
*
15770913 CCATGGTATCTTTCAACCATTGTCTTA
1 CCATGGTATCTTTCAACCATGGTCTTA
15770940 C
1 C
15770941 ACATTTCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (27 bp):
CCATGGTATCTTTCAACCATGGTCTTA
Found at i:15770922 original size:73 final size:73
Alignment explanation
Indices: 15770840--15770986 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
15770830 TATCAGGCTG
*
15770840 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCA
15770905 TGGTCTTA
66 TGGTCTTA
*
15770913 CCATGGTATCTTTCAACCATTGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCA
15770978 TGGTCTTA
66 TGGTCTTA
15770986 C
1 C
15770987 ACATTTCATA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (73 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCA
TGGTCTTA
Found at i:15770938 original size:119 final size:119
Alignment explanation
Indices: 15770794--15771031 Score: 431
Period size: 119 Copynumber: 2.0 Consensus size: 119
15770784 TATCAGGTTG
*
15770794 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGCTGCCATGGTATCTTTCAACCA
*
15770859 TGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
66 TGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTA
* *
15770913 CCATGGTATCTTTCAACCATTGTCTTACACATTTCATATCAAGTTGCCATGGTATCTTTCAACCA
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGCTGCCATGGTATCTTTCAACCA
*
15770978 TGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTA
66 TGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTA
15771032 TTCATTTCAT
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 114 1.00
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.37
Consensus pattern (119 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGCTGCCATGGTATCTTTCAACCA
TGGTCTTACACATTTCATATCACGCTGCCATGGTATCTTTCAACCATGGTCTTA
Found at i:15770966 original size:46 final size:46
Alignment explanation
Indices: 15770913--15771414 Score: 851
Period size: 46 Copynumber: 10.9 Consensus size: 46
15770903 CATGGTCTTA
* *
15770913 CCATGGTATCTTTCAACCATTGTCTTACACATTTCATATCAAGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
*
15770959 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
** *
15771005 CCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
15771051 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
*
15771097 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
* * *** *
15771143 CCATGGCATCTTTTAACCATGGTCTTGTTCATTTCATATCACGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
*
15771189 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
* *
15771235 TCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
15771281 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
*
15771327 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
15771373 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
15771415 AGAGCACACT
Statistics
Matches: 426, Mismatches: 30, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 426 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (46 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTG
Found at i:15774216 original size:29 final size:30
Alignment explanation
Indices: 15774169--15774236 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
15774159 TGGCCCAAGA
* * *
15774169 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
15774199 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
15774229 GCAAATAT
1 GTAAATAT
15774237 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:15778898 original size:9 final size:9
Alignment explanation
Indices: 15778881--15778918 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
15778871 TATTTTGTCA
15778881 TTATTATTT
1 TTATTATTT
*
15778890 TTATCATTT
1 TTATTATTT
15778899 TTATTATTT
1 TTATTATTT
15778908 ATT-TTATTT
1 -TTATTATTT
15778917 TT
1 TT
15778919 CTTTGATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTATTT
Found at i:15781804 original size:3 final size:3
Alignment explanation
Indices: 15781791--15781876 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
15781781 GAGGGCATAT
15781791 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
15781835 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15781877 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:15781815 original size:12 final size:12
Alignment explanation
Indices: 15781791--15781873 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
15781781 GAGGGCATAT
15781791 ATAATAT-AATA
1 ATAATATAAATA
15781802 ATAATATAAATA
1 ATAATATAAATA
15781814 ATAATATATACATGA
1 ATAATATA-A-AT-A
15781829 GA-AATA-ATAATA
1 -ATAATATA-AATA
15781841 ATAATATAAATA
1 ATAATATAAATA
* *
15781853 ATAGTAAAAATA
1 ATAATATAAATA
*
15781865 ATAAAATAA
1 ATAATATAA
15781874 TAAAACAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.13
12 37 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:15781835 original size:21 final size:18
Alignment explanation
Indices: 15781796--15781876 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
15781786 CATATATAAT
*
15781796 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
15781814 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
15781835 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
15781853 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
15781870 ATAATAA
1 ATAATAA
15781877 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:15781864 original size:27 final size:27
Alignment explanation
Indices: 15781791--15781877 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
15781781 GAGGGCATAT
* *
15781791 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
15781817 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
15781841 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
15781868 A-AATAATAAA
1 ATAAT-ATAAA
15781878 ACAAAGCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 7 0.15
27 15 0.31
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:15782228 original size:23 final size:23
Alignment explanation
Indices: 15782198--15782249 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
15782188 TAACCTTCTT
15782198 TCCAAAAAAACAAAAAAAACACC
1 TCCAAAAAAACAAAAAAAACACC
* *
15782221 TCC-AAAAAACAAAAAAACCTCC
1 TCCAAAAAAACAAAAAAAACACC
15782243 TCCAAAA
1 TCCAAAA
15782250 CAAAGAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.08
Consensus pattern (23 bp):
TCCAAAAAAACAAAAAAAACACC
Found at i:15782272 original size:23 final size:20
Alignment explanation
Indices: 15782204--15782272 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 20
15782194 TCTTTCCAAA
* *
15782204 AAAACAAAAAAAACACCTCC
1 AAAACAAAAAAACCTCCTCC
15782224 AAAAAACAAAAAAACCTCCTCC
1 --AAAACAAAAAAACCTCCTCC
*
15782246 AAAACAAAGAACAATCCTTCTCC
1 AAAACAAA-AA-AA-CCTCCTCC
15782269 AAAA
1 AAAA
15782273 AACCAAAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.20
21 2 0.05
22 20 0.49
23 11 0.27
ACGTcount: A:0.59, C:0.29, G:0.01, T:0.10
Consensus pattern (20 bp):
AAAACAAAAAAACCTCCTCC
Found at i:15782439 original size:4 final size:4
Alignment explanation
Indices: 15782430--15782456 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15782420 GGCCAAGGTT
15782430 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
15782457 TTTGTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:15782808 original size:44 final size:44
Alignment explanation
Indices: 15782738--15783718 Score: 683
Period size: 44 Copynumber: 22.3 Consensus size: 44
15782728 CAATATCCGT
* * * * * * *
15782738 TATCTTTGATCTGCTTCACTGTAAGCACAAGAATGTCAGATTTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAGATCTGA
* * *
15782783 TATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGA
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAGATCTGA
* * * *
15782827 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-CATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAGAT-CTGA
* * * * * *
15782870 AATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAGATCTGA
* ** *
15782915 TATCTTCGATTTGTTCCCTATAAGCACAGGGATACCAAATCTGA
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAGATCTGA
* * * *
15782959 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-TATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAGAT-CTGA
* * * * * *
15783002 AATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAGATCTGA
* * *
15783047 TATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGA
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAGATCTGA
* * * * *
15783091 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCATA-CTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAGATCTGA
* * * * * * *
15783134 AATCTTTGATCTGCTTCACTGTAAGCATAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAGATCTGA
* * * *
15783179 TATCTTCGATTTGTTCCCTATAAGCACA-GGATGCCAAATCTGC
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAGATCTGA
* *
15783222 TATTTTC-AACTTGTTCCCTATAAGCACAGGGATGTC--ATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAGAT-CTGA
* * * * *
15783265 AATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAGATCTGA
* * *
15783310 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGC
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAGATCTGA
* * * * *
15783354 TGTTTTC-AACTTGTTCCCTACAAGCACAGGGATG-C-CATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAGAT-CTGA
* * * * * * *
15783397 AATCTTCGATCTGCTT-CATCGTAAGCACAGTGATGCCAAATCTGC
1 TATCTTCGATCTG-TTCCCT-ATAAGCACAGGGATGTCAGATCTGA
* * * *
15783442 TATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGT
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAGATCTGA
* * * *
15783486 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-CATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAGAT-CTGA
* * * * * *
15783529 AATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAGATCTGA
* * * *
15783574 TATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGC
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAGATCTGA
* * * *
15783618 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-C-CATGCTGA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGTCAGAT-CTGA
* * * * *
15783661 AATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGTCAGATCTGA
*
15783706 TATCTTCGGTCTG
1 TATCTTCGATCTG
15783719 CTCCTCTGCA
Statistics
Matches: 726, Mismatches: 167, Indels: 86
0.74 0.17 0.09
Matches are distributed among these distances:
42 13 0.02
43 114 0.16
44 474 0.65
45 113 0.16
46 12 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (44 bp):
TATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAGATCTGA
Found at i:15782976 original size:132 final size:132
Alignment explanation
Indices: 15782739--15783713 Score: 1704
Period size: 132 Copynumber: 7.4 Consensus size: 132
15782729 AATATCCGTT
* * **
15782739 ATCTTTGATCTGCTTCACTGTAAGCACAAGAATGTCAGATTTGCTATCTTCGATCCGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
15782804 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
15782869 AA
131 AA
15782871 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* *
15782936 AAGCACAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCTATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
15783001 AA
131 AA
15783003 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
*
15783068 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATACTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
15783133 AA
131 AA
*
15783135 ATCTTTGATCTGCTTCACTGTAAGCATAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* * *
15783200 AAGCACA-GGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGTCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
15783264 AA
131 AA
* *
15783266 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* *
15783331 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTACAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
15783396 AA
131 AA
* * * **
15783398 ATCTTCGATCTGCTTCA-TCGTAAGCACAGTG-ATGCCAAATCTGCTATCTTCGATCCGTTCCCT
1 ATCTTTGATCTGCTTCACT-GTAAGCACAG-GAATGTCAGATCTGCTATCTTCGATTTGTTCCCT
*
15783461 ATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
64 ATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
15783526 TGAA
129 TGAA
15783530 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
*
15783595 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
15783660 AA
131 AA
*
15783662 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
15783714 GTCTGCTCCT
Statistics
Matches: 806, Mismatches: 32, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
131 126 0.16
132 678 0.84
133 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (132 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
AA
Found at i:15783849 original size:67 final size:68
Alignment explanation
Indices: 15783766--15783962 Score: 285
Period size: 67 Copynumber: 2.9 Consensus size: 68
15783756 TCTTCTTCCA
* * * *
15783766 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAG-CTCTCCAATGCCATTTCTGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
*
15783830 -TT
66 CCT
* *
15783832 GCTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGA
1 -CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
15783897 TCCT
65 TCCT
*
15783901 CTGAAACTTCAAGGAGATCTGC-GTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
15783963 AATTTGTAAT
Statistics
Matches: 118, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
66 6 0.05
67 65 0.55
68 46 0.39
69 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
CCT
Found at i:15784131 original size:86 final size:87
Alignment explanation
Indices: 15784033--15784914 Score: 611
Period size: 86 Copynumber: 10.2 Consensus size: 87
15784023 CTATTTCCTA
* * *
15784033 ACTGCTTAAGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGGTTA-GGGGTTAAGATTT
1 ACTGCTT-AGGGGTTAAGATCTGTAAATTCGACCTGTTACCCTACTGCTTAGGGGGTTAAGATCT
15784097 GTAAATCTTCAGCCTGTTACCCT
65 GTAAATCTTCAGCCTGTTACCCT
* * * * *
15784120 ACTGCTTAGGGGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAA-AGC-
1 ACTGCTTAGGGG-TTAAGATCTGTAAATTCGACCTGTTACCCTACTGCTTAGGGGGTTAAGATCT
** * * * * *
15784183 CCATATTTTTA-TCTGTTTCCCT
65 GTAAATCTTCAGCCTGTTACCCT
* *
15784205 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCAGTTACCCTACTGCTTAGGGGTTTAAG-
1 ACTGCTTA-GGGGTTAAGATCTGTAAA--TTCGA-CCTGTTACCCTACTGCTTAGGGGGTTAAGA
* * *
15784268 GCTTGTAAA--TTCGGCTTGTTACCCT
62 TC-TGTAAATCTTCAGCCTGTTACCCT
** * ** * * *
15784293 ACTGCTTAGGGGTTAAAGCCCAT-CATCTTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATC
1 ACTGCTTAGGGGTT-AAGATC-TGTAAATTCGACCTGTTACCCTACTGCTTAGGGGGTTAAGATC
15784357 TGTAAATCTTCAGCCTGTTACCCT
64 TGTAAATCTTCAGCCTGTTACCCT
* * * * *
15784381 ACTGCTTAGAGGGTTAAG-GCTTGTAAATTTGGCTTGTTACCCTACTGCTTA-GGGGTTAA-AGG
1 ACTGCTTAG-GGGTTAAGATC-TGTAAATTCGACCTGTTACCCTACTGCTTAGGGGGTTAAGA-T
** * * *
15784443 CCAT-CATCTTC-GATCTGTTTCCCT
63 CTGTAAATCTTCAG-CCTGTTACCCT
** * * * *
15784467 ACTGCTTAGGGGGTTAAGATCT-TCATCTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATC
1 ACTGCTTA-GGGGTTAAGATCTGT-AAATTCGACCTGTTACCCTACTGCTTAGGGGGTTAAGATC
* * *
15784531 TG-CAA--TTCGGTCTGTTACCCT
64 TGTAAATCTTCAGCCTGTTACCCT
* * * * * *
15784552 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGA
1 ACTGCTTAGGGG-TTAAGA-TC-T-GTAAATTCGACCTGTTACCCTACTGCTTAGGGGGTTAAGA
15784615 TCTGTAAATCTTCAGCCTGTTACCCT
62 TCTGTAAATCTTCAGCCTGTTACCCT
* * * * * *
15784641 ACTGCTTAGGGGTTAAGCT-TGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAA-AGC-C
1 ACTGCTTAGGGGTTAAGATCTGTAAATTCGACCTGTTACCCTACTGCTTAGGGGGTTAAGATCTG
* * * *
15784703 CATCATCTTC-GATCTGTTTCCCT
66 TA-AATCTTCAG-CCTGTTACCCT
** * * * *
15784726 ACTGCTTAGGGGGTTAAGATCT-TATCTTCGATCTGTTTCCCTACTGCTTAGGGAGATAAGATCT
1 ACTGCTTA-GGGGTTAAGATCTGTAAATTCGACCTGTTACCCTACTGCTTAGGGGGTTAAGATCT
* * *
15784790 G-CAA--TTCGGTCTGTTACCCT
65 GTAAATCTTCAGCCTGTTACCCT
* * * * * *
15784810 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTCGATCTGTT-TCCTACTGCTTAGGGGGTTAAGA
1 ACTGCTTAGGGG-TTAAGA-TC-T-GTAAATTCGACCTGTTACCCTACTGCTTAGGGGGTTAAGA
15784872 TCTGTAAATCTTCAGCCTGTTACCCT
62 TCTGTAAATCTTCAGCCTGTTACCCT
15784898 ACTGCTTAGGGGTTAAG
1 ACTGCTTAGGGGTTAAG
15784915 GCTTGTGAAT
Statistics
Matches: 621, Mismatches: 122, Indels: 104
0.73 0.14 0.12
Matches are distributed among these distances:
83 4 0.01
84 33 0.05
85 108 0.17
86 223 0.36
87 113 0.18
88 107 0.17
89 33 0.05
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (87 bp):
ACTGCTTAGGGGTTAAGATCTGTAAATTCGACCTGTTACCCTACTGCTTAGGGGGTTAAGATCTG
TAAATCTTCAGCCTGTTACCCT
Found at i:15784167 original size:43 final size:42
Alignment explanation
Indices: 15784033--15784914 Score: 434
Period size: 43 Copynumber: 20.4 Consensus size: 42
15784023 CTATTTCCTA
* *
15784033 ACTGCTTAAGGGGTTAAGATCTGTAAATTCAACCTGTTACCCT
1 ACTGCTT-AGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCT
* * *
15784076 ACTGGTTAGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGTTAAGATCTGTAAA--TTCAGCTTGTTACCCT
* * *
15784120 ACTGCTTAGGGGTTTAAGGTTTGTAAATTCGGCTTGTTACCCT
1 ACTGCTTAGGGG-TTAAGATCTGTAAATTCAGCTTGTTACCCT
* ** ** * * *
15784163 ACTGCTTAGGGGGTTAA-AGCCCATATTTTTATC-TGTTTCCCT
1 ACTGCTTA-GGGGTTAAGA-TCTGTAAATTCAGCTTGTTACCCT
**
15784205 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCT
1 ACTGCTTA-GGGGTTAAGATCTGTAAA--TTCAGCTTGTTACCCT
* *
15784250 ACTGCTTAGGGGTTTAAG-GCTTGTAAATTCGGCTTGTTACCCT
1 ACTGCTTAGGGG-TTAAGATC-TGTAAATTCAGCTTGTTACCCT
* * * *
15784293 ACTGCTTAGGGGTTAAAGCCCATCATCT---TTGATC-TGTTTCCCT
1 ACTGCTTAGGGGTT-AAG---ATC-TGTAAATTCAGCTTGTTACCCT
*
15784336 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTA-GGGGTTAAGATCTGTAAA--TTCAGCTTGTTACCCT
* **
15784381 ACTGCTTAGAGGGTTAAG-GCTTGTAAATTTGGCTTGTTACCCT
1 ACTGCTTAG-GGGTTAAGATC-TGTAAATTCAGCTTGTTACCCT
** * ** * *
15784424 ACTGCTTAGGGGTTAAAGGCCAT-CATCTTC-GATCTGTTTCCCT
1 ACTGCTTAGGGGTT-AAGATC-TGTAAATTCAGCT-TGTTACCCT
** * *
15784467 ACTGCTTAGGGGGTTAAGATCT-TCATCTTC-GATCTGTTTCCCT
1 ACTGCTTA-GGGGTTAAGATCTGT-AAATTCAGCT-TGTTACCCT
* * *
15784510 ACTGCTTAGGGAGATAAGATCTG-CAATTC-GGTCTGTTACCCT
1 ACTGCTTAGGG-GTTAAGATCTGTAAATTCAGCT-TGTTACCCT
* * * * * *
15784552 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTC-GATCTGTTTCCCT
1 ACTGCTTAGGGG-TTAAGA-TC-T-GTAAATTCAGCT-TGTTACCCT
*
15784596 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTA-GGGGTTAAGATCTGTAAA--TTCAGCTTGTTACCCT
* **
15784641 ACTGCTTAGGGGTTAAGCT-TGTAAATTTGGCTTGTTACCCT
1 ACTGCTTAGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCT
** * ** * *
15784682 ACTGCTTAGGGGGTTAAAGCCCAT-CATCTTC-GATCTGTTTCCCT
1 ACTGCTTA-GGGGTT-AAGATC-TGTAAATTCAGCT-TGTTACCCT
** * *
15784726 ACTGCTTAGGGGGTTAAGATCT-TATCTTC-GATCTGTTTCCCT
1 ACTGCTTA-GGGGTTAAGATCTGTAAATTCAGCT-TGTTACCCT
* * *
15784768 ACTGCTTAGGGAGATAAGATCTG-CAATTC-GGTCTGTTACCCT
1 ACTGCTTAGGG-GTTAAGATCTGTAAATTCAGCT-TGTTACCCT
* * * * * *
15784810 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTC-GATCTGTT-TCCT
1 ACTGCTTAGGGG-TTAAGA-TC-T-GTAAATTCAGCT-TGTTACCCT
*
15784853 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTA-GGGGTTAAGATCTGTAAA--TTCAGCTTGTTACCCT
15784898 ACTGCTTAGGGGTTAAG
1 ACTGCTTAGGGGTTAAG
15784915 GCTTGTGAAT
Statistics
Matches: 666, Mismatches: 111, Indels: 123
0.74 0.12 0.14
Matches are distributed among these distances:
39 2 0.00
40 5 0.01
41 29 0.04
42 160 0.24
43 203 0.30
44 156 0.23
45 107 0.16
46 1 0.00
47 3 0.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (42 bp):
ACTGCTTAGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCT
Found at i:15784218 original size:130 final size:130
Alignment explanation
Indices: 15784066--15784926 Score: 1164
Period size: 131 Copynumber: 6.6 Consensus size: 130
15784056 TAAATTCAAC
* * *
15784066 CTGTTACCCTACTGGTTA-GGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* **
15784130 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT-AT-TTTT
66 GG-TTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTCG
15784193 AT
129 AT
*
15784195 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
15784260 GGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTTGA
66 GG-TTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTCGA
15784325 T
130 T
15784326 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGA
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAG-
* *
15784391 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGTTAAAGGCCATCATCTTCGA
65 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTCGA
15784456 T
130 T
* * *
15784457 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
* * * * * * * *
15784519 GGAGATAA-GATCTG-CAATTCGG-TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCT
65 GG-GTTAAGGCT-TGTAAATTCGGCT-TGTTACCCTACTGCTTAGGGGTTAAAG-CCCATCATCT
15784581 TCGAT
126 TCGAT
15784586 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
15784651 GGTTAA-GCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGA
66 GGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTCGA
15784715 T
130 T
* *
15784716 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T--ATCTTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
* * * * * * * *
15784777 GGAGATAA-GATCTG-CAATTCGG-TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCT
65 GG-GTTAAGGCT-TGTAAATTCGGCT-TGTTACCCTACTGCTTAGGGGTTAAAG-CCCATCATCT
15784839 TCGAT
126 TCGAT
15784844 CTGTTT-CCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
15784908 GGTTAAGGCTTGTGAATTC
66 GGTTAAGGCTTGTAAATTC
15784927 ACTGATTCTA
Statistics
Matches: 655, Mismatches: 51, Indels: 51
0.87 0.07 0.07
Matches are distributed among these distances:
126 1 0.00
127 62 0.09
128 82 0.13
129 116 0.18
130 193 0.29
131 197 0.30
132 4 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (130 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGTTAAAGCCCATCATCTTCGAT
Found at i:15785083 original size:66 final size:66
Alignment explanation
Indices: 15784977--15785103 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
15784967 TCTATGCTTA
*
15784977 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
15785042 G
66 G
*
15785043 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
15785104 TATATGAATG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:15786286 original size:8 final size:8
Alignment explanation
Indices: 15786250--15786278 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
15786240 AGAATTTTTT
15786250 TTTTTGTG
1 TTTTTGTG
15786258 TTTTTGTG
1 TTTTTGTG
15786266 TTTTTGTG
1 TTTTTGTG
15786274 TTTTT
1 TTTTT
15786279 TTTTTTTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (8 bp):
TTTTTGTG
Found at i:15786313 original size:5 final size:6
Alignment explanation
Indices: 15786284--15786318 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
15786274 TTTTTTTTTT
15786284 TTTGCC TTTGCC TTTGCC TTTGCC -TTGCC TTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
15786319 ATATAACGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.00, C:0.34, G:0.17, T:0.49
Consensus pattern (6 bp):
TTTGCC
Found at i:15789123 original size:19 final size:20
Alignment explanation
Indices: 15789099--15789145 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
15789089 AGTGAAAGTT
15789099 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
15789118 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
15789138 -AATGCAAA
1 TAATGCAAA
15789146 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:15792613 original size:19 final size:20
Alignment explanation
Indices: 15792589--15792635 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
15792579 AGTGAAAGTT
15792589 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
15792608 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
15792628 -AATGCAAA
1 TAATGCAAA
15792636 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:15795455 original size:3 final size:3
Alignment explanation
Indices: 15795442--15795524 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
15795432 GAGGGCATAT
15795442 ATA AT- ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
15795486 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15795525 AACAAAGCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:15795464 original size:12 final size:12
Alignment explanation
Indices: 15795440--15795521 Score: 69
Period size: 12 Copynumber: 6.5 Consensus size: 12
15795430 GAGAGGGCAT
15795440 ATATAATATAATA
1 ATATAA-ATAATA
15795453 ATATAAATAATA
1 ATATAAATAATA
15795465 ATATATACATGAGA-A
1 ATATA-A-AT-A-ATA
15795480 ATA-ATAATAATA
1 ATATA-AATAATA
15795492 ATATAAATAATA
1 ATATAAATAATA
* *
15795504 GTAAAAATAATA
1 ATATAAATAATA
*
15795516 AAATAA
1 ATATAA
15795522 TAAAACAAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
11 1 0.02
12 36 0.62
13 10 0.17
14 5 0.09
15 5 0.09
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:15795483 original size:21 final size:18
Alignment explanation
Indices: 15795442--15795524 Score: 73
Period size: 18 Copynumber: 4.6 Consensus size: 18
15795432 GAGGGCATAT
*
15795442 ATAAT-ATAATAATATAA
1 ATAATAATAATAATAGAA
15795459 ATAATAATATATACATGAGAA
1 ATAATAATA-ATA-AT-AGAA
*
15795480 ATAATAATAATAATATAA
1 ATAATAATAATAATAGAA
* *
15795498 ATAATAGTAAAAATA-ATA
1 ATAATAATAATAATAGA-A
15795516 A-AATAATAA
1 ATAATAATAA
15795525 AACAAAGCTC
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
17 13 0.23
18 21 0.38
19 5 0.09
20 5 0.09
21 12 0.21
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAATAGAA
Found at i:15795512 original size:27 final size:27
Alignment explanation
Indices: 15795440--15795525 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
15795430 GAGAGGGCAT
* *
15795440 ATATAATATAATAATATAAATAATAAT-
1 ATATAA-ATAATAGTAAAAATAATAATA
* *
15795467 ATATACAT--GAG-AAATAATAATAATA
1 ATATAAATAATAGTAAA-AATAATAATA
15795492 ATATAAATAATAGTAAAAATAATAA-A
1 ATATAAATAATAGTAAAAATAATAATA
15795518 ATAATAAA
1 AT-ATAAA
15795526 ACAAAGCTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 7 0.15
26 5 0.11
27 20 0.43
28 3 0.06
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATATAAATAATAGTAAAAATAATAATA
Found at i:15795884 original size:19 final size:20
Alignment explanation
Indices: 15795844--15795885 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
15795834 TAACCTTCTT
*
15795844 TCCAAAAAAACAAAAACACC
1 TCCAAAAAAAAAAAAACACC
15795864 TCCAAAAAAAAAAAAAC-CC
1 TCCAAAAAAAAAAAAACACC
15795883 TCC
1 TCC
15795886 TGCAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.07
Consensus pattern (20 bp):
TCCAAAAAAAAAAAAACACC
Found at i:15796079 original size:4 final size:4
Alignment explanation
Indices: 15796070--15796096 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15796060 GGCCAAGGTT
15796070 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
15796097 TTTGTGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:15796991 original size:20 final size:22
Alignment explanation
Indices: 15796952--15797000 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
15796942 GTTTTCCAAT
15796952 ATATTATTAAATTAATTTTAAA
1 ATATTATTAAATTAATTTTAAA
*
15796974 ATATTA-TAATTTAA-TTTAAA
1 ATATTATTAAATTAATTTTAAA
15796994 ATTATTA
1 A-TATTA
15797001 ATTTAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 7 0.28
21 12 0.48
22 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTATTAAATTAATTTTAAA
Found at i:15797335 original size:3 final size:3
Alignment explanation
Indices: 15797327--15797362 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
15797317 TTAGAATTAT
15797327 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15797363 TGAAGAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15797906 original size:21 final size:21
Alignment explanation
Indices: 15797881--15797920 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15797871 CCACTACATT
* *
15797881 TTTTTATAATTATTTTTTTTA
1 TTTTTATAAATATTATTTTTA
*
15797902 TTTTTTTAAATATTATTTT
1 TTTTTATAAATATTATTTT
15797921 ATTGGTGGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTATAAATATTATTTTTA
Found at i:15798104 original size:16 final size:17
Alignment explanation
Indices: 15798079--15798116 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
15798069 AAATAAAAAT
15798079 AAAA-TTACATT-ATAA
1 AAAATTTACATTAATAA
15798094 AAAATTTACATTAATAA
1 AAAATTTACATTAATAA
15798111 AAAATT
1 AAAATT
15798117 ACAAAACACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 7 0.33
17 10 0.48
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTTACATTAATAA
Found at i:15798118 original size:16 final size:15
Alignment explanation
Indices: 15798079--15798119 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 15
15798069 AAATAAAAAT
15798079 AAAATTACATTATAA
1 AAAATTACATTATAA
15798094 AAAATTTACATTAATAA
1 AAAA-TTACATT-ATAA
15798111 AAAATTACA
1 AAAATTACA
15798120 AAACACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.17
16 12 0.50
17 8 0.33
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAATTACATTATAA
Found at i:15798609 original size:17 final size:19
Alignment explanation
Indices: 15798579--15798615 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
15798569 TTAGTAGTTA
15798579 TATTATAAACAAATAATTT
1 TATTATAAACAAATAATTT
*
15798598 TATTA-AAA-AAATTATTT
1 TATTATAAACAAATAATTT
15798615 T
1 T
15798616 CTCCTTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTATAAACAAATAATTT
Found at i:15800212 original size:28 final size:28
Alignment explanation
Indices: 15800181--15800240 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
15800171 TCCCATATTA
15800181 ATGGAGTATAGGAAAAGTCTCATAACTT
1 ATGGAGTATAGGAAAAGTCTCATAACTT
* ** * *
15800209 ATGGGGTATAGGAAGGGTTTTATAACTT
1 ATGGAGTATAGGAAAAGTCTCATAACTT
15800237 ATGG
1 ATGG
15800241 GGTTGATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (28 bp):
ATGGAGTATAGGAAAAGTCTCATAACTT
Found at i:15805629 original size:28 final size:28
Alignment explanation
Indices: 15805598--15805660 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
15805588 TCCCATACTA
*
15805598 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTAGAGGAAAAGTCTCATAACTT
** * *
15805626 ATGGGGTAGAGGAAGGGTTTTATAACTT
1 ATGGGGTAGAGGAAAAGTCTCATAACTT
15805654 ATGGGGT
1 ATGGGGT
15805661 TGATAATGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.30, C:0.06, G:0.33, T:0.30
Consensus pattern (28 bp):
ATGGGGTAGAGGAAAAGTCTCATAACTT
Found at i:15807532 original size:20 final size:20
Alignment explanation
Indices: 15807488--15807526 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15807478 ATATATCAAC
*
15807488 GTTATAAAAACTATTTAAAA
1 GTTATAAAAACTATTAAAAA
15807508 GTTATAAAAACT-TTAAAAA
1 GTTATAAAAACTATTAAAAA
15807527 TTTTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
GTTATAAAAACTATTAAAAA
Found at i:15809461 original size:30 final size:30
Alignment explanation
Indices: 15809427--15809488 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
15809417 AAATTTTATT
15809427 CTATCCTAAAAATTTAATGTGACTTTGTCC
1 CTATCCTAAAAATTTAATGTGACTTTGTCC
* *
15809457 CTATCCTAAAAATTTATTGTGAGTTTGTCC
1 CTATCCTAAAAATTTAATGTGACTTTGTCC
15809487 CT
1 CT
15809489 GTCTGCAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.42
Consensus pattern (30 bp):
CTATCCTAAAAATTTAATGTGACTTTGTCC
Found at i:15812674 original size:40 final size:39
Alignment explanation
Indices: 15812581--15812682 Score: 98
Period size: 40 Copynumber: 2.6 Consensus size: 39
15812571 TGATTTTTTT
* * * *
15812581 TAGAAATCATAAAATTATAAGAAAATTATAAAAAAGTAG
1 TAGAAATTATAAAATGATAAAAAAATTATAAAAAAGTAC
* **
15812620 T-GAACATTATTAAAATGATAAAAAAACTTATATAAATTTAC
1 TAGAA-ATTA-TAAAATGATAAAAAAA-TTATAAAAAAGTAC
*
15812661 TAGAAATTATAAAATGGTAAAA
1 TAGAAATTATAAAATGATAAAA
15812683 GATATATTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
38 3 0.06
39 4 0.08
40 26 0.51
41 15 0.29
42 3 0.06
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (39 bp):
TAGAAATTATAAAATGATAAAAAAATTATAAAAAAGTAC
Found at i:15813545 original size:3 final size:3
Alignment explanation
Indices: 15813537--15813570 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15813527 AAAAACTGAA
15813537 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
15813571 GACAGGCGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:15815390 original size:45 final size:45
Alignment explanation
Indices: 15815326--15815414 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
15815316 TTATCACTCC
*
15815326 AAATTTTAGGTTGTCTTTCGCCTAATCAAATAGGTCTAACCCTGA
1 AAATTTTAGGTTGTCTTTCGCCTAATCAAATAGGGCTAACCCTGA
15815371 AAATTTTAGGTTGTCTTTCGCCTAATCAAATAGGGCTAACCCTG
1 AAATTTTAGGTTGTCTTTCGCCTAATCAAATAGGGCTAACCCTG
15815415 CATAGTTTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (45 bp):
AAATTTTAGGTTGTCTTTCGCCTAATCAAATAGGGCTAACCCTGA
Found at i:15820045 original size:118 final size:118
Alignment explanation
Indices: 15819885--15820115 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
15819875 TATTTCCGGT
15819885 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
15819950 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
15820003 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
15820068 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
15820116 ATGGAAAACA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:15820920 original size:43 final size:42
Alignment explanation
Indices: 15820873--15820963 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 42
15820863 TGAAAAGGGG
* * * *
15820873 TGTTTGGCTGCAG-GTTTTGGGGATTCTAAGGCTGGAATAGGAC
1 TGTTTGGCTGCAGAGATAT-GGCATTCT-AGGCTGGAATAGAAC
*
15820916 TGTTTGGCTGCAGAGATATGGCATTCTGGGCTGGAATAGAAC
1 TGTTTGGCTGCAGAGATATGGCATTCTAGGCTGGAATAGAAC
15820958 TGTTTG
1 TGTTTG
15820964 ACAGCATGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 19 0.45
43 20 0.48
44 3 0.07
ACGTcount: A:0.20, C:0.12, G:0.35, T:0.33
Consensus pattern (42 bp):
TGTTTGGCTGCAGAGATATGGCATTCTAGGCTGGAATAGAAC
Found at i:15821088 original size:6 final size:6
Alignment explanation
Indices: 15821072--15821146 Score: 79
Period size: 6 Copynumber: 12.7 Consensus size: 6
15821062 ATATTTAACT
15821072 AAAAT- AAAATA AAAATA AAAGA-A AATAATA AATAATA AAAGA-A AAAAT-
1 AAAATA AAAATA AAAATA AAA-ATA AA-AATA AA-AATA AAA-ATA AAAATA
15821120 -AAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
15821147 GAAAGATTGG
Statistics
Matches: 62, Mismatches: 0, Indels: 15
0.81 0.00 0.19
Matches are distributed among these distances:
4 4 0.06
5 6 0.10
6 39 0.63
7 13 0.21
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:15821096 original size:16 final size:15
Alignment explanation
Indices: 15821071--15821140 Score: 79
Period size: 16 Copynumber: 4.4 Consensus size: 15
15821061 AATATTTAAC
15821071 TAAAATAAAATAAAAA
1 TAAAA-AAAATAAAAA
15821087 TAAAAGAAAATAATAAA
1 TAAAA-AAAATAA-AAA
*
15821104 TAATAAAAGA-AAAAA
1 TAA-AAAAAATAAAAA
15821119 TAAATAAAAATAAAAA
1 TAAA-AAAAATAAAAA
15821135 TAAAAA
1 TAAAAA
15821141 TAAAAAGAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
14 1 0.02
15 12 0.26
16 23 0.49
17 9 0.19
18 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (15 bp):
TAAAAAAAATAAAAA
Found at i:15821121 original size:22 final size:21
Alignment explanation
Indices: 15821079--15821143 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
15821069 ACTAAAATAA
15821079 AATAAAAATAAAAG--AAAAT
1 AATAAAAATAAAAGAAAAAAT
15821098 AATAAATAATAAAAGAAAAAAT
1 AATAAA-AATAAAAGAAAAAAT
15821120 AAATAAAAATAAAA-ATAAAAAT
1 -AATAAAAATAAAAGA-AAAAAT
15821142 AA
1 AA
15821144 AAAGAAAGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.15
20 8 0.20
21 3 0.07
22 18 0.44
23 6 0.15
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (21 bp):
AATAAAAATAAAAGAAAAAAT
Found at i:15832895 original size:30 final size:30
Alignment explanation
Indices: 15832861--15832917 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15832851 TAAAATTTGT
15832861 AAAT-GTTGGTGCAATAAAATTAATTTTCTA
1 AAATGGTT-GTGCAATAAAATTAATTTTCTA
*
15832891 AAATGGTTGTGCAATAAAATTATTTTT
1 AAATGGTTGTGCAATAAAATTAATTTT
15832918 TAGTAATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (30 bp):
AAATGGTTGTGCAATAAAATTAATTTTCTA
Found at i:15833294 original size:21 final size:20
Alignment explanation
Indices: 15833269--15833321 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
15833259 CAAAATTAGC
15833269 AGAAGGAA-AAAGAGAGAAAGA
1 AGAAGGAAGAAAG-GA-AAAGA
15833290 AGAAGGGAAGAAAGGAAAAGA
1 AGAA-GGAAGAAAGGAAAAGA
15833311 AGAA-GAAGAAA
1 AGAAGGAAGAAA
15833322 AATAAGGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.23
21 13 0.43
22 6 0.20
23 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
AGAAGGAAGAAAGGAAAAGA
Found at i:15836611 original size:33 final size:33
Alignment explanation
Indices: 15836579--15836823 Score: 222
Period size: 33 Copynumber: 7.4 Consensus size: 33
15836569 TGGAAGAGTA
* * **
15836579 GAGTATGGTGGTAGATACAAGCCGGAAGGAGTA
1 GAGTATGGTGGTGGATACGAGCCGGAAGGAGCG
* * * *
15836612 GAGAAT-GTCGATGGATATGAGCCGGAAGGAACG
1 GAGTATGGT-GGTGGATACGAGCCGGAAGGAGCG
* * * * *
15836645 GAGTACGGTGGTGGGTATGAGCCAGAAGGAACG
1 GAGTATGGTGGTGGATACGAGCCGGAAGGAGCG
* ** *
15836678 GAGTACGGTGGTGGATACGAGCTAGAAAGAGCG
1 GAGTATGGTGGTGGATACGAGCCGGAAGGAGCG
* **
15836711 GAGTACGGTGGTGGATACGAGCTAGAAGGAGCG
1 GAGTATGGTGGTGGATACGAGCCGGAAGGAGCG
** **
15836744 GAGTATGGTGGTGGATACGAGTTGGAAGGAGTA
1 GAGTATGGTGGTGGATACGAGCCGGAAGGAGCG
* *
15836777 GAGTATTGTGGTGGATACGAGCCGGAATGAGCG
1 GAGTATGGTGGTGGATACGAGCCGGAAGGAGCG
* *
15836810 GAGTACGATGGTGG
1 GAGTATGGTGGTGG
15836824 GCTGAAGATA
Statistics
Matches: 177, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
32 2 0.01
33 173 0.98
34 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.43, T:0.18
Consensus pattern (33 bp):
GAGTATGGTGGTGGATACGAGCCGGAAGGAGCG
Found at i:15839508 original size:3 final size:3
Alignment explanation
Indices: 15839489--15839523 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
15839479 CTAACCTTTT
*
15839489 TTC TTT TTC TTC TTTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC T
15839524 CTTTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:15846324 original size:3 final size:3
Alignment explanation
Indices: 15846308--15846341 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
15846298 TCATCACCCA
* *
15846308 CAT CAT CCT TAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
15846342 CAAATTTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:15853805 original size:31 final size:32
Alignment explanation
Indices: 15853754--15853814 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
15853744 ATTCAAATCT
* *
15853754 TTTTCAAAATGTTGATTGTCAAATTTAACTTG
1 TTTTCAAAAAGTTGAATGTCAAATTTAACTTG
15853786 TTTT-AAAAAGTTGAATGTCAAATTTAACT
1 TTTTCAAAAAGTTGAATGTCAAATTTAACT
15853815 AAAAAATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 23 0.85
32 4 0.15
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (32 bp):
TTTTCAAAAAGTTGAATGTCAAATTTAACTTG
Found at i:15856317 original size:46 final size:44
Alignment explanation
Indices: 15856213--15856320 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
15856203 TGTCTTTGAC
** * * *
15856213 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
15856257 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
15856303 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
15856321 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:15862262 original size:46 final size:44
Alignment explanation
Indices: 15862158--15862265 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
15862148 TGTCTTTGAC
** * * *
15862158 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
15862202 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
15862248 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
15862266 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:15866329 original size:35 final size:35
Alignment explanation
Indices: 15866285--15866450 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
15866275 TTCTCATTGA
** *
15866285 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
15866320 AATGCCATACCTACATTT-TTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
15866359 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
15866394 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
15866429 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
15866451 CTTTTCCATG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.10
35 75 0.65
38 2 0.02
39 18 0.16
40 9 0.08
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:15866375 original size:74 final size:73
Alignment explanation
Indices: 15866280--15866450 Score: 217
Period size: 74 Copynumber: 2.4 Consensus size: 73
15866270 TGGTTTTCTC
** * * **
15866280 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTT-TTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
15866343 TCAGTATGG
65 TCAGTATGG
*
15866352 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
15866417 CTCAGTATGG
64 CTCAGTATGG
15866427 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
15866451 CTTTTCCATG
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
72 1 0.01
73 9 0.10
74 44 0.50
75 13 0.15
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:15870630 original size:18 final size:18
Alignment explanation
Indices: 15870579--15870632 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
15870569 TTTTTAATAG
*
15870579 TTTTTATAACTTTTGATATT
1 TTTTTATAA-TTTT-TTATT
**
15870599 TTTAAATAATTTTTTATT
1 TTTTTATAATTTTTTATT
15870617 TTTTTATAATTTTTTA
1 TTTTTATAATTTTTTA
15870633 AAAACTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 18 0.62
19 4 0.14
20 7 0.24
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTATAATTTTTTATT
Found at i:15870632 original size:10 final size:10
Alignment explanation
Indices: 15870579--15870632 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
15870569 TTTTTAATAG
*
15870579 TTTTTATAAC
1 TTTTTATAAT
*
15870589 TTTTGAT-AT
1 TTTTTATAAT
*
15870598 TTTTAAATAAT
1 TTTT-TATAAT
15870609 TTTTTAT--T
1 TTTTTATAAT
15870617 TTTTTATAAT
1 TTTTTATAAT
15870627 TTTTTA
1 TTTTTA
15870633 AAAACTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 8 0.22
9 5 0.14
10 17 0.47
11 6 0.17
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:15872589 original size:8 final size:8
Alignment explanation
Indices: 15872576--15872602 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15872566 AGCCCCTTAA
15872576 AAAATTTT
1 AAAATTTT
15872584 AAAATTTT
1 AAAATTTT
15872592 AAAATTTT
1 AAAATTTT
15872600 AAA
1 AAA
15872603 TTAGTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:15872682 original size:25 final size:25
Alignment explanation
Indices: 15872652--15872700 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15872642 ATAAAATTCT
* *
15872652 GATTTAATCTTTTAAAAATTATAAA
1 GATTTAAGCTATTAAAAATTATAAA
*
15872677 GATTTAGGCTATTAAAAATTATAA
1 GATTTAAGCTATTAAAAATTATAA
15872701 TTTTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (25 bp):
GATTTAAGCTATTAAAAATTATAAA
Found at i:15885611 original size:3 final size:3
Alignment explanation
Indices: 15885605--15885635 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15885595 TACTCTTTTT
15885605 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15885636 ATTCTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15886582 original size:26 final size:26
Alignment explanation
Indices: 15886552--15886603 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
15886542 CCGTTTGACA
15886552 TTGAAACAAATCATAGGAAACCGGTT
1 TTGAAACAAATCATAGGAAACCGGTT
15886578 TTGAAACAAATCATAGGAAACCGGTT
1 TTGAAACAAATCATAGGAAACCGGTT
15886604 AGGCTTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (26 bp):
TTGAAACAAATCATAGGAAACCGGTT
Found at i:15888561 original size:16 final size:15
Alignment explanation
Indices: 15888522--15888570 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
15888512 TCAATTTGAT
*
15888522 TTATTTTTAAATTTA
1 TTATTTTTATATTTA
*
15888537 TAATATTTTATATTATA
1 TTAT-TTTTATATT-TA
15888554 TTATTTTTATATATTA
1 TTATTTTTATAT-TTA
15888570 T
1 T
15888571 ATAATCTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.11
16 19 0.68
17 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATTTTTATATTTA
Found at i:15888977 original size:25 final size:25
Alignment explanation
Indices: 15888943--15888998 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
15888933 TTTTTTATGA
*
15888943 TAAATAATTACGTAGAATATTAATT
1 TAAATGATTACGTAGAATATTAATT
15888968 TAAATGATTACGTAGAATATTAATT
1 TAAATGATTACGTAGAATATTAATT
15888993 TAAATG
1 TAAATG
15888999 GTTCATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (25 bp):
TAAATGATTACGTAGAATATTAATT
Found at i:15889104 original size:30 final size:30
Alignment explanation
Indices: 15889063--15889121 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
15889053 TAGAATTTTT
* * *
15889063 TCTTAACAATAATTTTAAAAAATTAAAAAA
1 TCTTAAAAATAAATATAAAAAATTAAAAAA
*
15889093 TCTTAAAAATAAATATAAAATATTAAAAA
1 TCTTAAAAATAAATATAAAAAATTAAAAA
15889122 TTATGTTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (30 bp):
TCTTAAAAATAAATATAAAAAATTAAAAAA
Found at i:15889223 original size:19 final size:19
Alignment explanation
Indices: 15889175--15889224 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
15889165 TTTTAACATA
15889175 ATTTTTAATAATTTATATTT
1 ATTTTTAA-AATTTATATTT
*
15889195 ATTTTT-AAATTTTTAATTT
1 ATTTTTAAAATTTAT-ATTT
15889214 -TTTTTAAAATT
1 ATTTTTAAAATT
15889225 GTTGTTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 11 0.41
19 10 0.37
20 6 0.22
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTTAAAATTTATATTT
Found at i:15903465 original size:15 final size:16
Alignment explanation
Indices: 15903445--15903478 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
15903435 AATTCTTTAA
15903445 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
15903460 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
15903476 AAA
1 AAA
15903479 ATTTTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:15906866 original size:25 final size:25
Alignment explanation
Indices: 15906829--15906878 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
15906819 TTGTCTTTCT
15906829 TTTTATTCTTTTATTATT-TCATTTA
1 TTTTATTCTTTTATT-TTATCATTTA
15906854 TTTTACTTC-TTTATTTTATCATTTA
1 TTTTA-TTCTTTTATTTTATCATTTA
15906879 ACTAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 2 0.09
25 18 0.78
26 3 0.13
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTATTCTTTTATTTTATCATTTA
Found at i:15907115 original size:24 final size:24
Alignment explanation
Indices: 15907059--15907116 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
15907049 AGTAAATACA
*
15907059 TAATTATAATACAAATGTATATATT
1 TAATT-TATTACAAATGTATATATT
15907084 T-ATATTATTACAAATGTCAT-TATT
1 TAAT-TTATTACAAATGT-ATATATT
15907108 TAATTTATT
1 TAATTTATT
15907117 TTTCATACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.50
Consensus pattern (24 bp):
TAATTTATTACAAATGTATATATT
Found at i:15908091 original size:14 final size:15
Alignment explanation
Indices: 15908072--15908100 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15908062 AAAGATTAAA
15908072 AAATATG-AAAATTT
1 AAATATGTAAAATTT
15908086 AAATATGTAAAATTT
1 AAATATGTAAAATTT
15908101 GATGCCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
AAATATGTAAAATTT
Found at i:15917343 original size:23 final size:23
Alignment explanation
Indices: 15917317--15917361 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
15917307 TATATACTAA
*
15917317 ATATATATATTTTATTTTTAATC
1 ATATATACATTTTATTTTTAATC
*
15917340 ATATTTACATTTTATTTTTAAT
1 ATATATACATTTTATTTTTAAT
15917362 TTTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATATACATTTTATTTTTAATC
Found at i:15918622 original size:15 final size:15
Alignment explanation
Indices: 15918584--15918625 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
15918574 TATCGTACGT
15918584 ATTGAATTTTAATCA
1 ATTGAATTTTAATCA
* *
15918599 ATT-ATATTTTTATTA
1 ATTGA-ATTTTAATCA
15918614 ATTGAATTTTAA
1 ATTGAATTTTAA
15918626 GGAGAATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (15 bp):
ATTGAATTTTAATCA
Found at i:15920784 original size:21 final size:21
Alignment explanation
Indices: 15920766--15920822 Score: 89
Period size: 20 Copynumber: 2.8 Consensus size: 21
15920756 TTATTGGAAT
15920766 TTAAAATAAATAATATGGATA
1 TTAAAATAAATAATATGGATA
15920787 TT-AAATAAATAATATGGATA
1 TTAAAATAAATAATATGGATA
* *
15920807 TTAAAAGAAAGAATAT
1 TTAAAATAAATAATAT
15920823 AATACCGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 20 0.61
21 13 0.39
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (21 bp):
TTAAAATAAATAATATGGATA
Found at i:15926476 original size:5 final size:5
Alignment explanation
Indices: 15926466--15926491 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15926456 TTCAAAGTAT
15926466 GGAGA GGAGA GGAGA GGAGA GGAGA G
1 GGAGA GGAGA GGAGA GGAGA GGAGA G
15926492 TGTTATGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (5 bp):
GGAGA
Found at i:15930968 original size:32 final size:32
Alignment explanation
Indices: 15930931--15931007 Score: 154
Period size: 32 Copynumber: 2.4 Consensus size: 32
15930921 GTATATAAAT
15930931 TATTATTTTTAAAATATTCTACTATTTATTTA
1 TATTATTTTTAAAATATTCTACTATTTATTTA
15930963 TATTATTTTTAAAATATTCTACTATTTATTTA
1 TATTATTTTTAAAATATTCTACTATTTATTTA
15930995 TATTATTTTTAAA
1 TATTATTTTTAAA
15931008 TAGACATATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (32 bp):
TATTATTTTTAAAATATTCTACTATTTATTTA
Found at i:15931864 original size:20 final size:20
Alignment explanation
Indices: 15931821--15931858 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15931811 CTTATTATTA
15931821 TTTTCTGTTTTTTCTTTTTC
1 TTTTCTGTTTTTTCTTTTTC
* *
15931841 TTTTCTTTTTTTTGTTTT
1 TTTTCTGTTTTTTCTTTT
15931859 GTTTTTAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (20 bp):
TTTTCTGTTTTTTCTTTTTC
Done.