Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 84 of 105
Found at i:14729577 original size:2 final size:2
Alignment explanation
Indices: 14729570--14729599 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14729560 TATTACGACA
*
14729570 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14729600 GAAAGCTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14733356 original size:21 final size:21
Alignment explanation
Indices: 14733330--14733370 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14733320 TAGGGTTTGA
*
14733330 GATTTTGAATTTTAAGATTTC
1 GATTTTGAAGTTTAAGATTTC
*
14733351 GATTTTGGAGTTTAAGATTT
1 GATTTTGAAGTTTAAGATTT
14733371 GAGGTTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (21 bp):
GATTTTGAAGTTTAAGATTTC
Found at i:14733486 original size:14 final size:15
Alignment explanation
Indices: 14733448--14733502 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
14733438 GGTTTGGAGG
* *
14733448 ATTTAAGGTTTAGAA
1 ATTTAGGGTTTCGAA
*
14733463 ATTTAAGGTTTC-AA
1 ATTTAGGGTTTCGAA
*
14733477 TTTTAGGGTTTCGAA
1 ATTTAGGGTTTCGAA
14733492 ATTTAGGGTTT
1 ATTTAGGGTTT
14733503 GGATTTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 12 0.34
15 23 0.66
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (15 bp):
ATTTAGGGTTTCGAA
Found at i:14733508 original size:29 final size:29
Alignment explanation
Indices: 14733449--14733527 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
14733439 GTTTGGAGGA
14733449 TTTAAGGTTTAGAAATTTAAGGTTTCAAT
1 TTTAAGGTTTAGAAATTTAAGGTTTCAAT
* * * **
14733478 TTTAGGGTTTCGAAATTTAGGGTTTGGAT
1 TTTAAGGTTTAGAAATTTAAGGTTTCAAT
* *
14733507 TTTAATGTTTAAAAATCTTAA
1 TTTAAGGTTTAGAAAT-TTAA
14733528 AAGTATGAAC
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 36 0.92
30 3 0.08
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.46
Consensus pattern (29 bp):
TTTAAGGTTTAGAAATTTAAGGTTTCAAT
Found at i:14733654 original size:3 final size:3
Alignment explanation
Indices: 14733648--14733707 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
14733638 TGAAAATTTT
14733648 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14733696 TTA TTA TT- TTA T
1 TTA TTA TTA TTA T
14733708 AATTCCCCAA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14734548 original size:18 final size:18
Alignment explanation
Indices: 14734527--14734561 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14734517 TAAAAATGCT
*
14734527 TAAAAAATAATTATAATC
1 TAAAAAATAATGATAATC
14734545 TAAAAAATAATGATAAT
1 TAAAAAATAATGATAAT
14734562 AAGAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAAAAATAATGATAATC
Found at i:14734790 original size:76 final size:80
Alignment explanation
Indices: 14734667--14734827 Score: 276
Period size: 76 Copynumber: 2.0 Consensus size: 80
14734657 ATTATAAAAA
14734667 AATTAATTAAAAAAATAATAAATTGATAATAATAATAATAATAAATTTTCATTAAAAAAAGTAT-
1 AATTAATTAAAAAAATAATAAATTGATAATAATAATAATAATAAATTTTCATTAAAAAAAGTATA
*
14734731 AAATTTTTTTTAA-T
66 AAAGTTTTTTTAATT
14734745 AATTAATT-AAAAAATAATAAATTGATAAT-ATAATAATAATAAATTTTCATTAAAAAAAGTATA
1 AATTAATTAAAAAAATAATAAATTGATAATAATAATAATAATAAATTTTCATTAAAAAAAGTAT-
14734808 AAAAGTTTTTTTAATT
65 AAAAGTTTTTTTAATT
14734824 AATT
1 AATT
14734828 TTCAAAAGTC
Statistics
Matches: 79, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
76 33 0.42
77 21 0.27
78 20 0.25
79 5 0.06
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (80 bp):
AATTAATTAAAAAAATAATAAATTGATAATAATAATAATAATAAATTTTCATTAAAAAAAGTATA
AAAGTTTTTTTAATT
Found at i:14734944 original size:14 final size:14
Alignment explanation
Indices: 14734914--14734966 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
14734904 TAAAATTTTT
*
14734914 AAATCCTAAAATCC
1 AAATCCTAAAATTC
*
14734928 AAATCCTAAATTTC
1 AAATCCTAAAATTC
* *
14734942 AAAACTCTAAAATTG
1 AAATC-CTAAAATTC
*
14734957 AAACCCTAAA
1 AAATCCTAAA
14734967 TTTCTAAACC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.25
Consensus pattern (14 bp):
AAATCCTAAAATTC
Found at i:14734951 original size:29 final size:28
Alignment explanation
Indices: 14734918--14734984 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 28
14734908 ATTTTTAAAT
*
14734918 CCTAAAATCCAAATCCTAAATTTCAAAA
1 CCTAAAATCCAAACCCTAAATTTCAAAA
** *
14734946 CTCTAAAATTGAAACCCTAAATTTCTAAA
1 C-CTAAAATCCAAACCCTAAATTTCAAAA
*
14734975 CCTTAAATCC
1 CCTAAAATCC
14734985 TCCAAACCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
28 7 0.23
29 24 0.77
ACGTcount: A:0.45, C:0.25, G:0.01, T:0.28
Consensus pattern (28 bp):
CCTAAAATCCAAACCCTAAATTTCAAAA
Found at i:14735057 original size:22 final size:22
Alignment explanation
Indices: 14735032--14735094 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
14735022 TCAAACTTCC
14735032 AAATCCCAAACCTAAAATCCCA
1 AAATCCCAAACCTAAAATCCCA
**
14735054 AAAT-TGAAACCCTAAAAT-CCA
1 AAATCCCAAA-CCTAAAATCCCA
*
14735075 AAATCCCCAACCCTAAAATC
1 AAAT-CCCAAACCTAAAATC
14735095 TAAAACCTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 10 0.31
22 20 0.62
23 2 0.06
ACGTcount: A:0.49, C:0.33, G:0.02, T:0.16
Consensus pattern (22 bp):
AAATCCCAAACCTAAAATCCCA
Found at i:14735120 original size:15 final size:16
Alignment explanation
Indices: 14735102--14735132 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14735092 ATCTAAAACC
14735102 TAAAAA-CTCAAATTT
1 TAAAAATCTCAAATTT
14735117 TAAAAATCTCAAATTT
1 TAAAAATCTCAAATTT
14735133 GGCACACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAAATCTCAAATTT
Found at i:14736878 original size:19 final size:19
Alignment explanation
Indices: 14736854--14736894 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
14736844 CTTATCCAAC
14736854 AAGCAAAAAAAAAAAAAAA
1 AAGCAAAAAAAAAAAAAAA
*
14736873 AAGCAAAAAAACAAAAAAA
1 AAGCAAAAAAAAAAAAAAA
14736892 AAG
1 AAG
14736895 AGTTTTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (19 bp):
AAGCAAAAAAAAAAAAAAA
Found at i:14741664 original size:7 final size:7
Alignment explanation
Indices: 14741652--14741678 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14741642 GGGTATCACC
14741652 AAAAAAT
1 AAAAAAT
14741659 AAAAAAT
1 AAAAAAT
14741666 AAAAAAT
1 AAAAAAT
14741673 AAAAAA
1 AAAAAA
14741679 AAAGATCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:14743977 original size:133 final size:133
Alignment explanation
Indices: 14743779--14744027 Score: 295
Period size: 133 Copynumber: 1.9 Consensus size: 133
14743769 GCATGATTAC
* * * **
14743779 TAAGACTTTCGAGCATAATCTTTAAGACTTCCAGGCATAATTTTGATTCGCAATATTGTGTCGAT
1 TAAGACTTTCGAGCATAATCTTTAAGACATCCAGGCATAATTTTGATTCACAATATTATCCCGAT
* * *
14743844 CGATTCTTTATTTTTTGACTTGCAATGTTATCCCGATCAATTCTGTAAGACTTCTAAGCATAATA
66 CGATTCATTACTTTTTAACTTGCAATGTTATCCCGATCAATTCTGTAAGACTTCTAAGCATAATA
14743909 TTT
131 TTT
* * * * *
14743912 TAAGACCTTTGGA-CATAATCTTTAATACAT-CTGAGCATAATTTTGATTTACAGTATTATCCCG
1 TAAGA-CTTTCGAGCATAATCTTTAAGACATCCAG-GCATAATTTTGATTCACAATATTATCCCG
** ** * *
14743975 ATCGATTCATTACTTTTTAACTTGCGGTGTTATCTTGGTCAATTGTGTAAGAC
64 ATCGATTCATTACTTTTTAACTTGCAATGTTATCCCGATCAATTCTGTAAGAC
14744028 CTCCGGATAT
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
132 2 0.02
133 87 0.92
134 6 0.06
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (133 bp):
TAAGACTTTCGAGCATAATCTTTAAGACATCCAGGCATAATTTTGATTCACAATATTATCCCGAT
CGATTCATTACTTTTTAACTTGCAATGTTATCCCGATCAATTCTGTAAGACTTCTAAGCATAATA
TTT
Found at i:14744443 original size:131 final size:132
Alignment explanation
Indices: 14744204--14744468 Score: 306
Period size: 131 Copynumber: 2.0 Consensus size: 132
14744194 ATTCTATAAA
* * * * * *
14744204 ACCTCCGGGTATGATTTTTAAGACCTCCGAGCATAATTTCGATTCGCTGTGTCATCCCGATTGAT
1 ACCTCCGGGTATAATCTTTAAGACCTCAGAGCATAATTTCGATTCGATGTGTCATCCCAATCGAT
* * * **
14744269 TCTTTATTTTTTGACTTACGGTGTTGTCTCAGTTGATTCTGTAAGACCTTAGG-CATGAT-TTCT
66 TATTTATTTTTTGACTTACGATGTTGTCCCAGTCAATTCTGTAAGACCTTAGGACATGATCTT-T
14744332 AAG
130 AAG
* * * *
14744335 ACCTTCGGGTATAATCTTTAAGACCTCTAG-GTATAATTTTGATTC-ATAGTGTTATCCCAATCG
1 ACCTCCGGGTATAATCTTTAAGACCTC-AGAGCATAATTTCGATTCGAT-GTGTCATCCCAATCG
* *
14744398 ATTATTTATTTTTTGACTTATGATGTTGTCCC-GATCAATTCTGTAAGACCTTCGGACATGATCT
64 ATTATTTATTTTTTGACTTACGATGTTGTCCCAG-TCAATTCTGTAAGACCTTAGGACATGATCT
14744462 TTAAG
128 TTAAG
14744467 AC
1 AC
14744469 ATTTGGGCAT
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
130 2 0.02
131 95 0.85
132 13 0.12
133 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (132 bp):
ACCTCCGGGTATAATCTTTAAGACCTCAGAGCATAATTTCGATTCGATGTGTCATCCCAATCGAT
TATTTATTTTTTGACTTACGATGTTGTCCCAGTCAATTCTGTAAGACCTTAGGACATGATCTTTA
AG
Found at i:14744555 original size:241 final size:243
Alignment explanation
Indices: 14744125--14744597 Score: 594
Period size: 241 Copynumber: 2.0 Consensus size: 243
14744115 ATCTTCGGGC
* * * * **
14744125 ATAATTTTGATTCACGGTGTTATCCCGATCGATTTTTTTATTTTTTGACTTGTAATATTATCTTG
1 ATAATTTTGATTCACAGTGTTATCCCAATCGATTTATTTATTTTTTGACTTATAATATTATCCCG
* ** * * *
14744190 ATCGATTCTATAAAACCTCCGGGTATGATTTTTAAGACCTCCGAGCATAATTTCGATTCGCTGTG
66 ATCAATTCTATAAAACCTCCGGACATGATCTTTAAGACATCCGAGCATAATTTCGATTCACTGTG
* * *
14744255 TCATCCCGATTGATTCTTTATTTTTTGACTTACGGTGTTGTCTCAGTTGATTCTGTAAGACCT-T
131 TCATCCCGATCGATTCTTTATTTTTTGACTTACGGTGTTGTCCCAGTTGATTATGTAAGACCTCT
* *
14744319 AGGCATGATTTCTAAGACCTTCGGGTATAATCTTTAAGACCTCTAGGT
196 AGGCATGATTTCTAAGACCTTCGAGCATAATCTTTAAGACCTCTAGGT
* * * *
14744367 ATAATTTTGATTCATAGTGTTATCCCAATCGA-TTATTTATTTTTTGACTTATGATGTTGTCCCG
1 ATAATTTTGATTCACAGTGTTATCCCAATCGATTTATTTATTTTTTGACTTATAATATTATCCCG
* * * ** * *
14744431 ATCAATTCTGTAAGACCTTCGGACATGATCTTTAAGACATTTGGGCATAATTTTGATTCAC-GAT
66 ATCAATTCTATAAAACCTCCGGACATGATCTTTAAGACATCCGAGCATAATTTCGATTCACTG-T
* **
14744495 GTTATCCCGATCGATTCTTTATTTTTTGACTTGTGGTGTTGTCCC-GATTGATTATGTAAGACCT
130 GTCATCCCGATCGATTCTTTATTTTTTGACTTACGGTGTTGTCCCAG-TTGATTATGTAAGACCT
* * *
14744559 CTGGGTATGATTTCTAAGACCTTTGAGCATAATCTTTAA
194 CTAGGCATGATTTCTAAGACCTTCGAGCATAATCTTTAA
14744598 ATTTTTTGGG
Statistics
Matches: 194, Mismatches: 34, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
240 2 0.01
241 130 0.67
242 62 0.32
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (243 bp):
ATAATTTTGATTCACAGTGTTATCCCAATCGATTTATTTATTTTTTGACTTATAATATTATCCCG
ATCAATTCTATAAAACCTCCGGACATGATCTTTAAGACATCCGAGCATAATTTCGATTCACTGTG
TCATCCCGATCGATTCTTTATTTTTTGACTTACGGTGTTGTCCCAGTTGATTATGTAAGACCTCT
AGGCATGATTTCTAAGACCTTCGAGCATAATCTTTAAGACCTCTAGGT
Found at i:14744569 original size:110 final size:110
Alignment explanation
Indices: 14744331--14744591 Score: 330
Period size: 110 Copynumber: 2.4 Consensus size: 110
14744321 GCATGATTTC
* * * * *
14744331 TAAGACCTTCGGGTATAATCTTTAAGACCTCTAGGTATAATTTTGATTCATAGTGTTATCCCAAT
1 TAAGACCTTCGGGTATGATCTTTAAGACCTTTGGGCATAATTTTGATTCAGAGTGTTATCCCAAT
*
14744396 CGATTATTTATTTTTTGACTTATGATGTTGTCCCGATCAATTCTG
66 CGATTATTTATTTTTTGACTTATGATGTTGTCCCGATCAATTATG
** * *
14744441 TAAGACCTTCGGACATGATCTTTAAGACATTTGGGCATAATTTTGATTCACGA-TGTTATCCCGA
1 TAAGACCTTCGGGTATGATCTTTAAGACCTTTGGGCATAATTTTGATTCA-GAGTGTTATCCCAA
* * * **
14744505 TCGATTCTTTATTTTTTGACTTGTGGTGTTGTCCCGATTGATTATG
65 TCGATTATTTATTTTTTGACTTATGATGTTGTCCCGATCAATTATG
*
14744551 TAAGACC-TCTGGGTATGAT-TTCTAAGACCTTTGAGCATAAT
1 TAAGACCTTC-GGGTATGATCTT-TAAGACCTTTGGGCATAAT
14744592 CTTTAAATTT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
109 4 0.03
110 124 0.96
111 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (110 bp):
TAAGACCTTCGGGTATGATCTTTAAGACCTTTGGGCATAATTTTGATTCAGAGTGTTATCCCAAT
CGATTATTTATTTTTTGACTTATGATGTTGTCCCGATCAATTATG
Found at i:14744631 original size:241 final size:241
Alignment explanation
Indices: 14744122--14744649 Score: 587
Period size: 241 Copynumber: 2.2 Consensus size: 241
14744112 AAGATCTTCG
* *** *
14744122 GGCATAATTTTGATTCACGGTGTTATCCCGATCGATTTTTTTATTTTTTGACTTGTAATATTATC
1 GGCATAATTTCGATTCATAATGTTATCCCGATCGA-TTTTTTATTTTTTGACTTATAATATTATC
** * ** * * *
14744187 TTGATCGATTCTATAAAACCTCCGGGTATGATTTTTAAGACCTCCGAGCATAATTTCGATTCGCT
65 CCGATCAATTCTATAAAACCTCCGGACATGATCTTTAAGACATCCGAGCATAATTTCGATTCACT
* * *
14744252 GTGTCATCCCGATTGATTCTTTATTTTTTGACTTACGGTGTTGTCTCAGTTGATTCTGTAAGACC
130 GTGTCATCCCGATCGATTCTTTATTTTTTGACTTACGGTGTTGTCCCAGTTGATTATGTAAGACC
* *
14744317 TTAGGCATGATTTCTAAGACCTTCGGGTATAATCTTTAAGACCTCTA
195 TTAGGCATGATTTCTAAGACCTTCGAGCATAATCTTTAAGACCTCTA
* * * * * * * *
14744364 GGTATAATTTTGATTCATAGTGTTATCCCAATCGATTATTTATTTTTTGACTTATGATGTTGTCC
1 GGCATAATTTCGATTCATAATGTTATCCCGATCGATTTTTTATTTTTTGACTTATAATATTATCC
* * * ** * *
14744429 CGATCAATTCTGTAAGACCTTCGGACATGATCTTTAAGACATTTGGGCATAATTTTGATTCAC-G
66 CGATCAATTCTATAAAACCTCCGGACATGATCTTTAAGACATCCGAGCATAATTTCGATTCACTG
* **
14744493 ATGTTATCCCGATCGATTCTTTATTTTTTGACTTGTGGTGTTGTCCC-GATTGATTATGTAAGAC
131 -TGTCATCCCGATCGATTCTTTATTTTTTGACTTACGGTGTTGTCCCAG-TTGATTATGTAAGAC
* * * ** * *
14744557 CTCTGGGTATGATTTCTAAGACCTTTGAGCATAATCTTTAA-ATTTTTTG
194 CT-TAGGCATGATTTCTAAGACCTTCGAGCATAATCTTTAAGA-CCTCTA
*
14744606 GGCATAATTTCGATT-GTAATGTTATCCCGATCGATTTTTTATTT
1 GGCATAATTTCGATTCATAATGTTATCCCGATCGATTTTTTATTT
14744650 CTTAACTTGC
Statistics
Matches: 237, Mismatches: 45, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
240 2 0.01
241 156 0.66
242 79 0.33
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.43
Consensus pattern (241 bp):
GGCATAATTTCGATTCATAATGTTATCCCGATCGATTTTTTATTTTTTGACTTATAATATTATCC
CGATCAATTCTATAAAACCTCCGGACATGATCTTTAAGACATCCGAGCATAATTTCGATTCACTG
TGTCATCCCGATCGATTCTTTATTTTTTGACTTACGGTGTTGTCCCAGTTGATTATGTAAGACCT
TAGGCATGATTTCTAAGACCTTCGAGCATAATCTTTAAGACCTCTA
Found at i:14744767 original size:37 final size:36
Alignment explanation
Indices: 14744625--14744968 Score: 194
Period size: 37 Copynumber: 9.4 Consensus size: 36
14744615 TCGATTGTAA
* *
14744625 TGTTATCCCGATCGATTTTTTATTTCTTAACTTGCAG
1 TGTTATCCCGATCGATTCTTTATTT-TTGACTTGCAG
* * * * ** *
14744662 TGTTGT-CCTAGTCGATTCTTTAATTTCGACTCACGG
1 TGTTATCCCGA-TCGATTCTTTATTTTTGACTTGCAG
** * * **
14744698 TGTTATCGTGATCGATTCTTTATCTCTCGACTTGTGG
1 TGTTATCCCGATCGATTCTTTAT-TTTTGACTTGCAG
*
14744735 TGTTATCCCGATCGATTCTTTACTTTTTGACTTGCAA
1 TGTTATCCCGATCGATTCTTTA-TTTTTGACTTGCAG
* * * *
14744772 TATTGTCCC-ATTCGATTCTTTATTTCTTAACTTGTAG
1 TGTTATCCCGA-TCGATTCTTTATTT-TTGACTTGCAG
* * * * ***
14744809 TGTTAT-CCTAGTCGATTCTTGAATTTTGATTTATGG
1 TGTTATCCCGA-TCGATTCTTTATTTTTGACTTGCAG
* *
14744845 TTTTATCTCGATCGATTCTTTATCTTTTGACTTGCAG
1 TGTTATCCCGATCGATTCTTTAT-TTTTGACTTGCAG
* * *
14744882 TATTATCCCAATCGATTCTTTATTTCTCGACTTG-AG
1 TGTTATCCCGATCGATTCTTTATTT-TTGACTTGCAG
* ** * *
14744918 ATGTTGTTTC-AGTCGATTCTTTATTTTTTGATTTACAG
1 -TGTTATCCCGA-TCGATTCTTTA-TTTTTGACTTGCAG
**
14744956 TGTCGTCCCGATC
1 TGTTATCCCGATC
14744969 ATTTTCTTTA
Statistics
Matches: 230, Mismatches: 62, Indels: 30
0.71 0.19 0.09
Matches are distributed among these distances:
36 58 0.25
37 165 0.72
38 7 0.03
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.48
Consensus pattern (36 bp):
TGTTATCCCGATCGATTCTTTATTTTTGACTTGCAG
Found at i:14744932 original size:110 final size:111
Alignment explanation
Indices: 14744732--14744952 Score: 288
Period size: 110 Copynumber: 2.0 Consensus size: 111
14744722 TCTCGACTTG
* *
14744732 TGGTGTTATCCCGATCGATTCTTTACTTTTTGACTTGCAATATTGTCCCATTCGATTCTTTATTT
1 TGGTGTTATCCCGATCGATTCTTTACTTTTTGACTTGCAATATTATCCCAATCGATTCTTTATTT
*
14744797 CTTAACTTGTAGTGTTATCCTAGTCGATTCTTGA-ATTTTGATTTA
66 CTCAACTTGTAGTGTTATCCTAGTCGATTCTTGATATTTTGATTTA
* * *
14744842 TGGTTTTATCTCGATCGATTCTTTA-TCTTTTGACTTGCAGTATTATCCCAATCGATTCTTTATT
1 TGGTGTTATCCCGATCGATTCTTTACT-TTTTGACTTGCAATATTATCCCAATCGATTCTTTATT
* * * * *
14744906 TCTCGACTTG-AGATGTTGT-TTCAGTCGATTCTTTATTTTTTGATTTA
65 TCTCAACTTGTAG-TGTTATCCT-AGTCGATTCTTGATATTTTGATTTA
14744953 CAGTGTCGTC
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
109 4 0.04
110 82 0.85
111 10 0.10
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (111 bp):
TGGTGTTATCCCGATCGATTCTTTACTTTTTGACTTGCAATATTATCCCAATCGATTCTTTATTT
CTCAACTTGTAGTGTTATCCTAGTCGATTCTTGATATTTTGATTTA
Found at i:14744958 original size:147 final size:147
Alignment explanation
Indices: 14744636--14744943 Score: 388
Period size: 147 Copynumber: 2.1 Consensus size: 147
14744626 GTTATCCCGA
* * *
14744636 TCGATTTTTTATTTCTTAACTTGCAGTGTTGTCCTAGTCGATTCTTTAATTTCGACTCACGGTGT
1 TCGATTCTTTATTTCTTAACTTGCAGTGTTATCCTAGTCGATTCTTGAATTTCGACTCACGGTGT
** * * *
14744701 TATCGTGATCGATTCTTTATCTCTCGACTTGTGGTGTTATCCCGATCGATTCTTTACTTTTTGAC
66 TATCGTGATCGATTCTTTATCTCTCGACTTGCAGTATTATCCCAATCGATTCTTTACTTTTCGAC
*
14744766 TTGCAATATTGTCCCAT
131 TTGCAATATTGTCCCAG
* * * * * *
14744783 TCGATTCTTTATTTCTTAACTTGTAGTGTTATCCTAGTCGATTCTTGAATTTTGATTTATGGTTT
1 TCGATTCTTTATTTCTTAACTTGCAGTGTTATCCTAGTCGATTCTTGAATTTCGACTCACGGTGT
* *
14744848 TATC-TCGATCGATTCTTTATCTTTTGACTTGCAGTATTATCCCAATCGATTCTTTA-TTTCTCG
66 TATCGT-GATCGATTCTTTATCTCTCGACTTGCAGTATTATCCCAATCGATTCTTTACTTT-TCG
* **
14744911 ACTTG-AGATGTTGTTTCAG
129 ACTTGCA-ATATTGTCCCAG
14744930 TCGATTCTTTATTT
1 TCGATTCTTTATTT
14744944 TTTGATTTAC
Statistics
Matches: 138, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
146 5 0.04
147 133 0.96
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (147 bp):
TCGATTCTTTATTTCTTAACTTGCAGTGTTATCCTAGTCGATTCTTGAATTTCGACTCACGGTGT
TATCGTGATCGATTCTTTATCTCTCGACTTGCAGTATTATCCCAATCGATTCTTTACTTTTCGAC
TTGCAATATTGTCCCAG
Found at i:14746422 original size:13 final size:14
Alignment explanation
Indices: 14746389--14746427 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
14746379 TTTTCATTTT
14746389 TTTTATTTTTTATA
1 TTTTATTTTTTATA
*
14746403 TTATTATTTTTTA-G
1 TT-TTATTTTTTATA
14746417 TTTTATTTTTT
1 TTTTATTTTTT
14746428 TAATAGTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 9 0.39
14 4 0.17
15 10 0.43
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (14 bp):
TTTTATTTTTTATA
Found at i:14746549 original size:20 final size:18
Alignment explanation
Indices: 14746524--14746571 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
14746514 TAATAACAAA
*
14746524 AAAAAATACTAAAAATGCTT
1 AAAAAATAATAAAAAT-C-T
*
14746544 AAAAAATAATAATAATCT
1 AAAAAATAATAAAAATCT
14746562 AAAAAATAAT
1 AAAAAATAAT
14746572 GATAATAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
19 1 0.04
20 14 0.54
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAAATAATAAAAATCT
Found at i:14746564 original size:18 final size:20
Alignment explanation
Indices: 14746524--14746577 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 20
14746514 TAATAACAAA
* *
14746524 AAAAAATACTAAAAATGCTT
1 AAAAAATAATAATAATGCTT
14746544 AAAAAATAATAATAAT-C-T
1 AAAAAATAATAATAATGCTT
*
14746562 AAAAAATAATGATAAT
1 AAAAAATAATAATAAT
14746578 AAGAATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 16 0.52
19 1 0.03
20 14 0.45
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.26
Consensus pattern (20 bp):
AAAAAATAATAATAATGCTT
Found at i:14746685 original size:12 final size:12
Alignment explanation
Indices: 14746668--14746703 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
14746658 TTAGATGTTG
*
14746668 AAAAATTATAAA
1 AAAAATAATAAA
*
14746680 AAAAATAATTAA
1 AAAAATAATAAA
14746692 AAAAATAATAAA
1 AAAAATAATAAA
14746704 TTTTCATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAATAATAAA
Found at i:14746712 original size:22 final size:23
Alignment explanation
Indices: 14746687--14746731 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
14746677 AAAAAAAATA
*
14746687 ATTAAAAAA-ATAATAAATTTTC
1 ATTAAAAAAGATAAAAAATTTTC
14746709 ATTAAAAAAGTATAAAAAATTTT
1 ATTAAAAAAG-ATAAAAAATTTT
14746732 TTTAATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
24 11 0.55
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATTAAAAAAGATAAAAAATTTTC
Found at i:14746837 original size:18 final size:19
Alignment explanation
Indices: 14746793--14746841 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
14746783 CTAGATATTA
14746793 GAGATTTTTAAAGATGTTT
1 GAGATTTTTAAAGATGTTT
*
14746812 GAGATTTTTAGAGATGTTT
1 GAGATTTTTAAAGATGTTT
*
14746831 GTG-TTTTTAAA
1 GAGATTTTTAAA
14746842 ATTTTTAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (19 bp):
GAGATTTTTAAAGATGTTT
Found at i:14746985 original size:43 final size:43
Alignment explanation
Indices: 14746937--14747027 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
14746927 TAGGCACCTA
* *
14746937 AAACCTCAAA-CTTCCAAATCTCAAACCCTAAAA-CTAAAACCCC
1 AAACCTCAAACCTT-AAAATC-CAAACCCTAAAATCCAAAACCCC
* *
14746980 AAACCTCAAACCTTAAAATCGAAACCCTAAAATCCAAAATCCC
1 AAACCTCAAACCTTAAAATCCAAACCCTAAAATCCAAAACCCC
14747023 AAACC
1 AAACC
14747028 CTAAAATCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 11 0.26
43 28 0.67
44 3 0.07
ACGTcount: A:0.48, C:0.35, G:0.01, T:0.15
Consensus pattern (43 bp):
AAACCTCAAACCTTAAAATCCAAACCCTAAAATCCAAAACCCC
Found at i:14747028 original size:22 final size:21
Alignment explanation
Indices: 14746952--14747040 Score: 83
Period size: 22 Copynumber: 4.1 Consensus size: 21
14746942 TCAAACTTCC
* *
14746952 AAATCTCAAACCCTAAAACTA
1 AAATCCCAAACCCTAAAACCA
* *
14746973 AAACCCCAAA-CCTCAAACCTTA
1 AAATCCCAAACCCTAAAACC--A
*
14746995 AAAT-CGAAACCCTAAAATCCA
1 AAATCCCAAACCCTAAAA-CCA
14747016 AAATCCCAAACCCTAAAATCCA
1 AAATCCCAAACCCTAAAA-CCA
14747038 AAA
1 AAA
14747041 CCTAAAAATC
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
20 7 0.13
21 17 0.31
22 29 0.53
23 2 0.04
ACGTcount: A:0.52, C:0.33, G:0.01, T:0.15
Consensus pattern (21 bp):
AAATCCCAAACCCTAAAACCA
Found at i:14747044 original size:14 final size:15
Alignment explanation
Indices: 14747015--14747047 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
14747005 CCTAAAATCC
*
14747015 AAAATCCCAAACCCT
1 AAAATCCCAAAACCT
14747030 AAAAT-CCAAAACCT
1 AAAATCCCAAAACCT
14747044 AAAA
1 AAAA
14747048 ATCTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.58, C:0.30, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAATCCCAAAACCT
Found at i:14747053 original size:22 final size:22
Alignment explanation
Indices: 14747005--14747056 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
14746995 AAATCGAAAC
* *
14747005 CCTAAAATCCAAAATCCCAAAC
1 CCTAAAATCCAAAATCCAAAAA
14747027 CCTAAAATCCAAAA-CCTAAAAA
1 CCTAAAATCCAAAATCC-AAAAA
*
14747049 TCTAAAAT
1 CCTAAAAT
14747057 TTTAAAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (22 bp):
CCTAAAATCCAAAATCCAAAAA
Found at i:14749511 original size:29 final size:31
Alignment explanation
Indices: 14749444--14749512 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 31
14749434 AAAATAATTT
*
14749444 TTTAAATATCACATTAAATAATAAATTTATAA
1 TTTAAATATCACATTAAATAAT-AATTTAAAA
* *
14749476 TTTAAATATCATATTAAA-AAT-TTTTAAAA
1 TTTAAATATCACATTAAATAATAATTTAAAA
14749505 TTTAAATA
1 TTTAAATA
14749513 CTATATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 14 0.41
31 3 0.09
32 17 0.50
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTAAATATCACATTAAATAATAATTTAAAA
Found at i:14750430 original size:30 final size:31
Alignment explanation
Indices: 14750395--14750455 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
14750385 ATTCTTCCAT
14750395 AGAATAACT-ATTCACAGAATAACTATTTAA
1 AGAATAACTCATTCACAGAATAACTATTTAA
* *
14750425 AGAATAACTCATTCACGGAATAATTATTTAA
1 AGAATAACTCATTCACAGAATAACTATTTAA
14750456 GGAGCAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (31 bp):
AGAATAACTCATTCACAGAATAACTATTTAA
Found at i:14750447 original size:16 final size:15
Alignment explanation
Indices: 14750395--14750452 Score: 71
Period size: 15 Copynumber: 3.8 Consensus size: 15
14750385 ATTCTTCCAT
14750395 AGAATAACTATTCAC
1 AGAATAACTATTCAC
* *
14750410 AGAATAACTATTTAA
1 AGAATAACTATTCAC
14750425 AGAATAACTCATTCAC
1 AGAATAACT-ATTCAC
* *
14750441 GGAATAATTATT
1 AGAATAACTATT
14750453 TAAGGAGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
15 25 0.69
16 11 0.31
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.31
Consensus pattern (15 bp):
AGAATAACTATTCAC
Found at i:14750570 original size:15 final size:15
Alignment explanation
Indices: 14750550--14750585 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14750540 CTGAAAATTT
14750550 TTTCACAAAAAGTTG
1 TTTCACAAAAAGTTG
*
14750565 TTTCACCAAAAGTTG
1 TTTCACAAAAAGTTG
*
14750580 TGTCAC
1 TTTCAC
14750586 TAAGAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (15 bp):
TTTCACAAAAAGTTG
Found at i:14751733 original size:34 final size:34
Alignment explanation
Indices: 14751695--14751770 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
14751685 TAAAATACCT
* *
14751695 CTAAATTTAGCAACGTTCATAGTAGAAAATGTCA
1 CTAAATTTAGCAACATTCATAGTAGAAAACGTCA
* * *
14751729 CTAAATTTAGCAATATTTATAGTAGAAAGCGTCA
1 CTAAATTTAGCAACATTCATAGTAGAAAACGTCA
*
14751763 CTATATTT
1 CTAAATTT
14751771 TAGTGTTTAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (34 bp):
CTAAATTTAGCAACATTCATAGTAGAAAACGTCA
Found at i:14751835 original size:16 final size:17
Alignment explanation
Indices: 14751809--14751841 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14751799 CGCCGTCAAA
14751809 TTAAGAAATTTACTTTT
1 TTAAGAAATTTACTTTT
*
14751826 TTAA-AAATTTTCTTTT
1 TTAAGAAATTTACTTTT
14751842 AATATTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (17 bp):
TTAAGAAATTTACTTTT
Found at i:14753754 original size:13 final size:14
Alignment explanation
Indices: 14753736--14753764 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14753726 ACATTTATTT
14753736 AAAAACA-TCACTA
1 AAAAACAGTCACTA
14753749 AAAAACAGTCACTA
1 AAAAACAGTCACTA
14753763 AA
1 AA
14753765 TCTTCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.62, C:0.21, G:0.03, T:0.14
Consensus pattern (14 bp):
AAAAACAGTCACTA
Found at i:14758485 original size:2 final size:2
Alignment explanation
Indices: 14758478--14758522 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
14758468 CTAGACTAGG
* * *
14758478 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT TT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14758520 AT A
1 AT A
14758523 CAACTTACTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14766260 original size:3 final size:3
Alignment explanation
Indices: 14766252--14766288 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14766242 TTTATGTAAG
14766252 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
14766289 TATTATTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:14767854 original size:18 final size:17
Alignment explanation
Indices: 14767814--14767864 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 17
14767804 ATTAATATGG
14767814 ATAAAA-TT-AAATATA
1 ATAAAATTTAAAATATA
14767829 A-AAAATTTAAAATATA
1 ATAAAATTTAAAATATA
*
14767845 ATACAAATTTGAAATA-A
1 ATA-AAATTTAAAATATA
14767862 ATA
1 ATA
14767865 GATATTATCT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 4 0.13
15 3 0.10
16 8 0.26
17 5 0.16
18 11 0.35
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
ATAAAATTTAAAATATA
Found at i:14769400 original size:64 final size:64
Alignment explanation
Indices: 14769299--14769426 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
14769289 AATTAATTAA
*
14769299 AATTTATTAAAAAGATAATTTTTGGGTTTGCGAAAAATAATCTGAGTTCAAGAGTTGGTTATAT
1 AATTTATTAAAAAGATAATTTTTGGATTTGCGAAAAATAATCTGAGTTCAAGAGTTGGTTATAT
14769363 AATTTATTAAAAAGATAATTTTTGGATTTGCGAAAAATAATCTGAGTTCAAGAGTTGGTTATAT
1 AATTTATTAAAAAGATAATTTTTGGATTTGCGAAAAATAATCTGAGTTCAAGAGTTGGTTATAT
14769427 GAGGGGAATG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (64 bp):
AATTTATTAAAAAGATAATTTTTGGATTTGCGAAAAATAATCTGAGTTCAAGAGTTGGTTATAT
Found at i:14769751 original size:17 final size:19
Alignment explanation
Indices: 14769715--14769750 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
14769705 AATCTTATCC
14769715 TCAATAGTTATATTTATTT
1 TCAATAGTTATATTTATTT
14769734 TCAAT-GTT-TATTT-TTT
1 TCAATAGTTATATTTATTT
14769750 T
1 T
14769751 TGAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.24
17 5 0.29
18 3 0.18
19 5 0.29
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (19 bp):
TCAATAGTTATATTTATTT
Found at i:14777282 original size:21 final size:21
Alignment explanation
Indices: 14777258--14777297 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14777248 ATTGACTACA
*
14777258 ATACATTAAAAAATGAAACTG
1 ATACATGAAAAAATGAAACTG
* *
14777279 ATACGTGAAGAAATGAAAC
1 ATACATGAAAAAATGAAAC
14777298 ACTTTAATGA
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:0.55, C:0.10, G:0.15, T:0.20
Consensus pattern (21 bp):
ATACATGAAAAAATGAAACTG
Found at i:14779902 original size:17 final size:18
Alignment explanation
Indices: 14779876--14779913 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
14779866 TTTCAAAATT
*
14779876 AAAGATAAGA-AGAGAAA
1 AAAGAAAAGAGAGAGAAA
*
14779893 AAAGAAAAGAGATAGAAA
1 AAAGAAAAGAGAGAGAAA
14779911 AAA
1 AAA
14779914 ATTCTACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (18 bp):
AAAGAAAAGAGAGAGAAA
Found at i:14787675 original size:30 final size:30
Alignment explanation
Indices: 14787638--14787703 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
14787628 TCAATCGAAA
14787638 ATTTAATTGGATAAAAATAAATATTTAAAG
1 ATTTAATTGGATAAAAATAAATATTTAAAG
* * * *
14787668 GTTTAATTTGATAAAAATAGATATTTATAG
1 ATTTAATTGGATAAAAATAAATATTTAAAG
14787698 ATTTAA
1 ATTTAA
14787704 CTAATTTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (30 bp):
ATTTAATTGGATAAAAATAAATATTTAAAG
Found at i:14791248 original size:17 final size:19
Alignment explanation
Indices: 14791215--14791250 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
14791205 CTCGATAAAT
14791215 GTCCAAACTTCAAATTTAA
1 GTCCAAACTTCAAATTTAA
14791234 GTCCAAA-TT-AAATTTAA
1 GTCCAAACTTCAAATTTAA
14791251 AGCCCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 2 0.12
19 7 0.41
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (19 bp):
GTCCAAACTTCAAATTTAA
Found at i:14794388 original size:16 final size:15
Alignment explanation
Indices: 14794367--14794411 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
14794357 TTTTTCTTCT
14794367 AAAAAAAAGCAAAAA
1 AAAAAAAAGCAAAAA
*
14794382 CAAAAAAAAGTAAAAA
1 -AAAAAAAAGCAAAAA
14794398 AAAAAGAAA-CAAAA
1 AAAAA-AAAGCAAAA
14794412 TGGAAAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.84, C:0.07, G:0.07, T:0.02
Consensus pattern (15 bp):
AAAAAAAAGCAAAAA
Found at i:14800740 original size:22 final size:22
Alignment explanation
Indices: 14800715--14800764 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
14800705 ACAAGATTTA
14800715 TAAGACCTATAGGCATAATCTC
1 TAAGACCTATAGGCATAATCTC
* *
14800737 TAAGACCTCTAGGCATAATTTC
1 TAAGACCTATAGGCATAATCTC
14800759 TAAGAC
1 TAAGAC
14800765 TTTCGAGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (22 bp):
TAAGACCTATAGGCATAATCTC
Found at i:14801115 original size:5 final size:5
Alignment explanation
Indices: 14801102--14801170 Score: 51
Period size: 5 Copynumber: 14.8 Consensus size: 5
14801092 AAAAAAATCA
* * * *
14801102 AAAATC AAAAC AAAA- AAAA- AAAA- AAATC AAGAC AAAA- AAAA- AAGAG
1 AAAA-C AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
14801148 AAAAC AAAAC AAAAC AAAA- AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAA
14801171 TTTTGAATCA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
4 22 0.41
5 28 0.52
6 4 0.07
ACGTcount: A:0.83, C:0.10, G:0.04, T:0.03
Consensus pattern (5 bp):
AAAAC
Found at i:14801119 original size:22 final size:22
Alignment explanation
Indices: 14801090--14801170 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 22
14801080 TTCATTAATT
*
14801090 AAAAAAAAATCAAAAATCAAAAC
1 AAAAAAAAA-AAAAAATCAAAAC
*
14801113 AAAAAAAAAAAAAAATCAAGAC
1 AAAAAAAAAAAAAAATCAAAAC
14801135 AAAAAAAAAAGAGAAAA-CAAAAC
1 AAAAAAAAAA-A-AAAATCAAAAC
*
14801158 AAAACAAAAAAAA
1 AAAAAAAAAAAAA
14801171 TTTTGAATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.04
22 22 0.42
23 24 0.46
24 4 0.08
ACGTcount: A:0.83, C:0.10, G:0.04, T:0.04
Consensus pattern (22 bp):
AAAAAAAAAAAAAAATCAAAAC
Found at i:14801591 original size:22 final size:23
Alignment explanation
Indices: 14801563--14801608 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
14801553 TATTTATTGA
14801563 ATTAATTAAAAAATG-AAAAAAT
1 ATTAATTAAAAAATGTAAAAAAT
* *
14801585 ATTAATTAAGAAATGTAAGAAAT
1 ATTAATTAAAAAATGTAAAAAAT
14801608 A
1 A
14801609 AAAATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (23 bp):
ATTAATTAAAAAATGTAAAAAAT
Found at i:14803322 original size:2 final size:2
Alignment explanation
Indices: 14803315--14803345 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14803305 CCCATATCAT
14803315 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 T
14803346 TGGTGTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14807663 original size:19 final size:21
Alignment explanation
Indices: 14807622--14807664 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 21
14807612 TTAAAAAAAC
14807622 AATTAGATTCATATATTTTTT
1 AATTAGATTCATATATTTTTT
14807643 AATT-GATT-ATAT-TTTTATT
1 AATTAGATTCATATATTTT-TT
14807662 AAT
1 AAT
14807665 ATAAATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 4 0.19
21 4 0.19
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (21 bp):
AATTAGATTCATATATTTTTT
Found at i:14808420 original size:2 final size:2
Alignment explanation
Indices: 14808413--14808440 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14808403 ATTCACGTTA
14808413 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14808441 GTTGGCTCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:14808576 original size:19 final size:19
Alignment explanation
Indices: 14808538--14808577 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14808528 TTATTTTAGC
* **
14808538 TATTTTTTTAATAATTTTA
1 TATTTTATTAATAAAATTA
14808557 TATTTTATTAATAAAATTA
1 TATTTTATTAATAAAATTA
14808576 TA
1 TA
14808578 AATTAATGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTTATTAATAAAATTA
Found at i:14808623 original size:12 final size:12
Alignment explanation
Indices: 14808606--14808635 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
14808596 TTTTAAATTA
14808606 TAATTAAATATT
1 TAATTAAATATT
14808618 TAATTAAATATT
1 TAATTAAATATT
14808630 TGAATT
1 T-AATT
14808636 TTAAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
TAATTAAATATT
Found at i:14808665 original size:14 final size:14
Alignment explanation
Indices: 14808607--14808669 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
14808597 TTTAAATTAT
14808607 AATTA-AATATTT-
1 AATTATAATATTTG
14808619 AATTA-AATATTTG
1 AATTATAATATTTG
* * *
14808632 AATTTTAAAAATTTT
1 AATTAT-AATATTTG
*
14808647 TATTATAATATTTG
1 AATTATAATATTTG
14808661 AATTATAAT
1 AATTATAAT
14808670 TTTAACCTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 12 0.30
13 4 0.10
14 14 0.35
15 10 0.25
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
AATTATAATATTTG
Found at i:14808774 original size:29 final size:29
Alignment explanation
Indices: 14808737--14808798 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
14808727 AATTAAAAAA
* *
14808737 TTTATAATTCATGTATCATATTAAATATT
1 TTTAAAATTCAAGTATCATATTAAATATT
* *
14808766 TTTAAAATTTAAGTATTATATTAAATATT
1 TTTAAAATTCAAGTATCATATTAAATATT
14808795 TTTA
1 TTTA
14808799 TTATATGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (29 bp):
TTTAAAATTCAAGTATCATATTAAATATT
Found at i:14809380 original size:15 final size:16
Alignment explanation
Indices: 14809360--14809393 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
14809350 TTAGTTTAAA
*
14809360 AATATAAAA-ATTTAT
1 AATATAAAATAATTAT
14809375 AATATAAAATAATTAT
1 AATATAAAATAATTAT
14809391 AAT
1 AAT
14809394 TTTTAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:14810399 original size:22 final size:23
Alignment explanation
Indices: 14810356--14810407 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
14810346 CTCTGTATCC
**
14810356 TATTTTTTTAATGTCTCAAAATTA
1 TATTTTTTTAACATCT-AAAATTA
* *
14810380 TATTTTTTTAACATCTAAATTTT
1 TATTTTTTTAACATCTAAAATTA
14810403 TATTT
1 TATTT
14810408 GTTATATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTTTTTTAACATCTAAAATTA
Found at i:14811728 original size:15 final size:15
Alignment explanation
Indices: 14811705--14811734 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14811695 GCCCATATCG
14811705 AACAACAACAGCAGC
1 AACAACAACAGCAGC
*
14811720 AACAGCAACAGCAGC
1 AACAACAACAGCAGC
14811735 TTGCTTCTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.17, T:0.00
Consensus pattern (15 bp):
AACAACAACAGCAGC
Found at i:14812858 original size:3 final size:3
Alignment explanation
Indices: 14812850--14812876 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14812840 TGGAGTTTTA
14812850 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
14812877 ACGTGTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:14817513 original size:9 final size:9
Alignment explanation
Indices: 14817501--14817531 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
14817491 TTAGGTAATT
14817501 TTTTTTTAA
1 TTTTTTTAA
14817510 -TTTTTTAA
1 TTTTTTTAA
14817518 TTTTTTTAA
1 TTTTTTTAA
14817527 TTTTT
1 TTTTT
14817532 AAAATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:14817515 original size:8 final size:8
Alignment explanation
Indices: 14817502--14817531 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
14817492 TAGGTAATTT
14817502 TTTTTTAA
1 TTTTTTAA
14817510 TTTTTTAA
1 TTTTTTAA
14817518 TTTTTTTAA
1 -TTTTTTAA
14817527 TTTTT
1 TTTTT
14817532 AAAATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTAA
Found at i:14817723 original size:17 final size:17
Alignment explanation
Indices: 14817671--14817738 Score: 66
Period size: 17 Copynumber: 3.8 Consensus size: 17
14817661 GAAAAATAAT
*
14817671 AATAATAAATGATAATAAA
1 AATAA-AAATAATAA-AAA
*
14817690 AATATAAATATATAAAACA
1 AATAAAAATA-ATAAAA-A
14817709 AA-AAAAATAATAAAAA
1 AATAAAAATAATAAAAA
*
14817725 AATAAAAAGAATAA
1 AATAAAAATAATAA
14817739 TGATAAAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 3 0.07
17 16 0.38
18 12 0.29
19 11 0.26
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.21
Consensus pattern (17 bp):
AATAAAAATAATAAAAA
Found at i:14817746 original size:20 final size:20
Alignment explanation
Indices: 14817662--14817746 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 20
14817652 AGAAGATATG
* *
14817662 AAAAATAATAATAATAAATGAT
1 AAAAAAAATAATAATAAA--AC
14817684 AATAAAAATATAAATATATAAAAC
1 AA-AAAAA-AT-AATA-ATAAAAC
* *
14817708 AAAAAAAATAATAAAAAAAT
1 AAAAAAAATAATAATAAAAC
* *
14817728 AAAAAGAATAATGATAAAA
1 AAAAAAAATAATAATAAAA
14817747 GTATTAAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
20 21 0.40
21 4 0.08
22 4 0.08
23 9 0.17
24 5 0.10
25 4 0.08
26 5 0.10
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (20 bp):
AAAAAAAATAATAATAAAAC
Found at i:14819156 original size:10 final size:10
Alignment explanation
Indices: 14819139--14819173 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
14819129 ATTATTTGAT
*
14819139 ATAAATTTTA
1 ATAAATTTAA
*
14819149 ATATATTTAA
1 ATAAATTTAA
14819159 ATAAATTTAA
1 ATAAATTTAA
14819169 ATAAA
1 ATAAA
14819174 AAATAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATAAATTTAA
Found at i:14819164 original size:20 final size:22
Alignment explanation
Indices: 14819116--14819171 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 22
14819106 AATTTAAATT
*
14819116 TAAATTTTTATATATTATTTGATA
1 TAAA-TTTTA-ATATTATTTGAAA
14819140 TAAATTTTAATA-TATTT-AAA
1 TAAATTTTAATATTATTTGAAA
*
14819160 TAAATTTAAATA
1 TAAATTTTAATA
14819172 AAAAATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 13 0.43
21 5 0.17
22 3 0.10
23 5 0.17
24 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAAATTTTAATATTATTTGAAA
Found at i:14820327 original size:2 final size:2
Alignment explanation
Indices: 14820320--14820351 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14820310 TTTTGTACCA
*
14820320 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14820352 TGAACAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14829052 original size:48 final size:46
Alignment explanation
Indices: 14828987--14829099 Score: 113
Period size: 45 Copynumber: 2.4 Consensus size: 46
14828977 TTTATCCTTA
** *
14828987 TATTTTTTAGAAAAACACTCCAACAATTATTCTTTTTAATAGA-TATTC
1 TATTTTTTAGGGAAACACT-C-ACAATTATTATTTTTAATA-ATTATTC
*** * *
14829035 TATTTTTTAGGGAAACACT-TTTATTATTATTTTTTATAATTCTTC
1 TATTTTTTAGGGAAACACTCACAATTATTATTTTTAATAATTATTC
14829080 TATTTTTTAGGGAAACACTC
1 TATTTTTTAGGGAAACACTC
14829100 TCATTGATTG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
44 1 0.02
45 37 0.67
48 17 0.31
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (46 bp):
TATTTTTTAGGGAAACACTCACAATTATTATTTTTAATAATTATTC
Found at i:14829135 original size:49 final size:45
Alignment explanation
Indices: 14829034--14829136 Score: 125
Period size: 49 Copynumber: 2.2 Consensus size: 45
14829024 AATAGATATT
* * *
14829034 CTATTTTTTAGGGAAACACTTTTATTATTATTTTTTATAATTCTT
1 CTATTTTTTAGGGAAACACTTTTATTACTATTTTTGATAATTCTA
*
14829079 CTATTTTTTAGGGAAACACTCTCATTGATTGCTATTTTTGATAATTCTA
1 CTATTTTTTAGGGAAACACT-T--TT-ATTACTATTTTTGATAATTCTA
*
14829128 CTCTTTTTT
1 CTATTTTTT
14829137 TTTAAGAAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 20 0.41
46 1 0.02
48 2 0.04
49 26 0.53
ACGTcount: A:0.24, C:0.13, G:0.09, T:0.54
Consensus pattern (45 bp):
CTATTTTTTAGGGAAACACTTTTATTACTATTTTTGATAATTCTA
Found at i:14831865 original size:223 final size:223
Alignment explanation
Indices: 14831452--14831876 Score: 474
Period size: 223 Copynumber: 1.9 Consensus size: 223
14831442 TTTAAAAATT
* * *
14831452 TTATTTTTTTAATCATTATTTTTTTGGAAGAAAAGAGAAAAGTTTACTATATTGAAATTTTATTT
1 TTATTTTTTTAATCATTAGTTTTTTGAAAGAAAAGAGAAAAGTTTACTATATTGAAAATTTATTT
* * * *
14831517 ATAAATATTTCAATACACTGTTAGTATTTAAAAAAAAAATTCTGCCTAGAGATTTTTTTAAAGTA
66 ATAAATATCTCAATACACTGATAGTATTTAAAAAAAAAATTCTGCCTAAAGA-TTTTTTAAAGCA
* * ** * * * *
14831582 TTACTACTCGAAATATTATAAAATCTCATTATTAGGTAAAAATTTATTTTCCTTATTTTTTATTA
130 TTACTACTCGAAATATTATAAAATCTCATCATCAAATAAAAAATTATCTTCCTCATTTTTTAATA
14831647 TT-TATTATTCATAATTTATAATTTATAG
195 TTATATTATTCATAATTTATAATTTATAG
** * * *
14831675 TTATTTTTTTAATTTTTAGTTTTTTGAATAGAGAAA-AGAAAATTTTTATTGTATT-AAAATTT-
1 TTATTTTTTTAATCATTAGTTTTTTGAA-AGA-AAAGAGAAAA-GTTTACTATATTGAAAATTTA
**
14831737 TTTATAAATA-CTCAAATACTTTGATAGTATTTAAAAAAAAAATCTTCT-CATCTAAAGA-TTTT
63 TTTATAAATATCTC-AATACACTGATAGTATTTAAAAAAAAAA--TTCTGC--CTAAAGATTTTT
*
14831799 TAAAGGCATTATTACTCGAAATACTT-TAAAATCTCATCATCAAATAAAAAATT-TCTT-CTCAT
123 TAAA-GCATTACTACTCGAAATA-TTATAAAATCTCATCATCAAATAAAAAATTATCTTCCTCAT
14831861 TTTTTAATATTATATT
186 TTTTTAATATTATATT
14831877 TTTTAGTTAT
Statistics
Matches: 168, Mismatches: 23, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
222 2 0.01
223 73 0.43
224 31 0.18
225 54 0.32
226 8 0.05
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.47
Consensus pattern (223 bp):
TTATTTTTTTAATCATTAGTTTTTTGAAAGAAAAGAGAAAAGTTTACTATATTGAAAATTTATTT
ATAAATATCTCAATACACTGATAGTATTTAAAAAAAAAATTCTGCCTAAAGATTTTTTAAAGCAT
TACTACTCGAAATATTATAAAATCTCATCATCAAATAAAAAATTATCTTCCTCATTTTTTAATAT
TATATTATTCATAATTTATAATTTATAG
Found at i:14831898 original size:12 final size:12
Alignment explanation
Indices: 14831868--14831905 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14831858 CATTTTTTAA
*
14831868 TATTATATTTTT
1 TATTTTATTTTT
*
14831880 TA-GTTATTTTT
1 TATTTTATTTTT
14831891 TATTTTATTTTT
1 TATTTTATTTTT
14831903 TAT
1 TAT
14831906 AAAGTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (12 bp):
TATTTTATTTTT
Found at i:14832655 original size:8 final size:7
Alignment explanation
Indices: 14832628--14832652 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14832618 GGCCAAAACC
14832628 TTTTATT
1 TTTTATT
14832635 TTTTATT
1 TTTTATT
14832642 TTTTATT
1 TTTTATT
14832649 TTTT
1 TTTT
14832653 TATGTTAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:14833137 original size:26 final size:26
Alignment explanation
Indices: 14833088--14833137 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
14833078 CGCTTTCTTT
**
14833088 TTTTTATTATTTTAATTATTATTATA
1 TTTTTATTATTTTAATTAAAATTATA
14833114 TTTTTATTAATTTTAA-TAAAATTA
1 TTTTTATT-ATTTTAATTAAAATTA
14833138 AACATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TTTTTATTATTTTAATTAAAATTATA
Found at i:14835664 original size:6 final size:6
Alignment explanation
Indices: 14835653--14835681 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
14835643 AAACAAATCC
14835653 TATAAA TATAAA TATAAA TATAAA TATAA
1 TATAAA TATAAA TATAAA TATAAA TATAA
14835682 TATGTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
TATAAA
Found at i:14838948 original size:27 final size:27
Alignment explanation
Indices: 14838890--14838948 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
14838880 TTAATTAAAC
* *
14838890 AAAAATACAAACAAAAGAGAAAAAAAA
1 AAAAATACAAACAAAACAAAAAAAAAA
* *
14838917 TAAAATACAAA-AAACCAAAAAAAAAA
1 AAAAATACAAACAAAACAAAAAAAAAA
14838943 GAAAAA
1 -AAAAA
14838949 ACCAAAATGG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.81, C:0.08, G:0.05, T:0.05
Consensus pattern (27 bp):
AAAAATACAAACAAAACAAAAAAAAAA
Found at i:14839022 original size:10 final size:10
Alignment explanation
Indices: 14838998--14839029 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
14838988 CCACTATCGC
14838998 CCCTTGTTC-
1 CCCTTGTTCA
14839007 CCCTTGTTCA
1 CCCTTGTTCA
14839017 CCCTTGTTCA
1 CCCTTGTTCA
14839027 CCC
1 CCC
14839030 CTATTTAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.06, C:0.47, G:0.09, T:0.38
Consensus pattern (10 bp):
CCCTTGTTCA
Found at i:14840052 original size:11 final size:11
Alignment explanation
Indices: 14840036--14840065 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14840026 TATATAGTAA
14840036 AATTTTGTGAT
1 AATTTTGTGAT
14840047 AATTTTGTGAT
1 AATTTTGTGAT
*
14840058 AATCTTGT
1 AATTTTGT
14840066 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.03, G:0.17, T:0.53
Consensus pattern (11 bp):
AATTTTGTGAT
Found at i:14840532 original size:17 final size:17
Alignment explanation
Indices: 14840487--14840533 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
14840477 TTCTTTTCTC
14840487 TAAAAATTT-TAAATAA
1 TAAAAATTTATAAATAA
**
14840503 TAAAAATCAATAAATCAA
1 TAAAAATTTATAAAT-AA
14840521 T-AAAATTTATAAA
1 TAAAAATTTATAAA
14840534 AAAAGGGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 7 0.28
17 15 0.60
18 3 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAATTTATAAATAA
Found at i:14840784 original size:14 final size:15
Alignment explanation
Indices: 14840765--14840798 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14840755 TTTCTCAAAC
14840765 AAAATT-TGAATAAT
1 AAAATTGTGAATAAT
*
14840779 AAAATTGTTAATAAT
1 AAAATTGTGAATAAT
14840794 AAAAT
1 AAAAT
14840799 AATAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
AAAATTGTGAATAAT
Found at i:14845090 original size:19 final size:19
Alignment explanation
Indices: 14845052--14845108 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
14845042 TGAAATATGT
**
14845052 AAGAAAAAG-AAAAAGTGA
1 AAGAAAAAGAAAAAAAAGA
14845070 AAGCAAAAA-AAAAAAAAGA
1 AAG-AAAAAGAAAAAAAAGA
14845089 AAGAAAAAGGAAAAAAAAGA
1 AAGAAAAA-GAAAAAAAAGA
14845109 TGATTGGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 8 0.24
19 15 0.45
20 10 0.30
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (19 bp):
AAGAAAAAGAAAAAAAAGA
Found at i:14846854 original size:99 final size:98
Alignment explanation
Indices: 14846717--14847029 Score: 303
Period size: 99 Copynumber: 3.2 Consensus size: 98
14846707 GTTTGCATTA
* * * *
14846717 CATCTTCTCGA---TGATATCCTAGTA-TCAAGGTTTCAATTGCATTTTATCGATGGTGATATTC
1 CATCTTCTCGATGGTGATATCCAAGTACT-AAAGTTTGAATTGCATTTT-TCGATAGTGATATTC
* *
14846778 GAGTTTCCTTCGGTGGTGATATCCAAAGTCATTTG
64 GAGTTTCCTTCGATGGCGATATCCAAAGTCATTTG
* * * *
14846813 CATCTTCTCGATGGTGATATCCAAGTGCTGAAGCTTT-AATTGCATTTTCTCGATATTAATATTC
1 CATCTTCTCGATGGTGATATCCAAGTACTAAAG-TTTGAATTGCATTTT-TCGATAGTGATATTC
* * * *
14846877 AAGTTTCCTTCGATGGCAATACCCGAAGTCATTTG
64 GAGTTTCCTTCGATGGCGATATCCAAAGTCATTTG
* * * * * * ** * *
14846912 TATATTCTCAATGGTGACATCCGAGTATTAAAGTTTGAATTGCATTTTTTTATAGTGGTATTTGA
1 CATCTTCTCGATGGTGATATCCAAGTACTAAAGTTTGAATTGCATTTTTCGATAGTGATATTCGA
* ** *
14846977 GTTTCCTTCAATAACGATATCCAAAGTTATTTG
66 GTTTCCTTCGATGGCGATATCCAAAGTCATTTG
14847010 CATCTTCTCGATGGTGATAT
1 CATCTTCTCGATGGTGATAT
14847030 TTGAGCATTA
Statistics
Matches: 171, Mismatches: 40, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
96 11 0.06
98 55 0.32
99 101 0.59
100 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (98 bp):
CATCTTCTCGATGGTGATATCCAAGTACTAAAGTTTGAATTGCATTTTTCGATAGTGATATTCGA
GTTTCCTTCGATGGCGATATCCAAAGTCATTTG
Found at i:14847095 original size:42 final size:41
Alignment explanation
Indices: 14847049--14847194 Score: 156
Period size: 42 Copynumber: 3.5 Consensus size: 41
14847039 AAAAAATCAT
* * *
14847049 TTACATTTTCTCGATGGTGATATTCGAGTATCAAGGTTTGAG
1 TTACATTTTCTCG-TGGTGATATCCAAGTATCAAGGTTTGAA
* * *
14847091 TTACATCTTCTCTGTGGTGATATCCAAGT-GCTAAGATTTGAA
1 TTACATTTTCTC-GTGGTGATATCCAAGTATC-AAGGTTTGAA
*
14847133 TTACATCTTT-TC--GGTGATATCCAAGTATCAAGGTTTCAA
1 TTACAT-TTTCTCGTGGTGATATCCAAGTATCAAGGTTTGAA
14847172 TTACATTTTCTCGATGGTGATAT
1 TTACATTTTCTCG-TGGTGATAT
14847195 TCGAGTTTTC
Statistics
Matches: 86, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
38 3 0.03
39 30 0.35
40 1 0.01
41 1 0.01
42 48 0.56
43 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (41 bp):
TTACATTTTCTCGTGGTGATATCCAAGTATCAAGGTTTGAA
Found at i:14847174 original size:39 final size:42
Alignment explanation
Indices: 14847064--14847183 Score: 131
Period size: 39 Copynumber: 2.9 Consensus size: 42
14847054 TTTTCTCGAT
* * * *
14847064 GGTGATATTCGAGTATCAAGGTTTGAGTTACATCTTCTCTGT
1 GGTGATATCCAAGTATCAAGGTTTGAATTACATCTTCTCTGC
* *
14847106 GGTGATATCCAAGT-GCTAAGATTTGAATTACATCTT-T-T-C
1 GGTGATATCCAAGTATC-AAGGTTTGAATTACATCTTCTCTGC
* *
14847145 GGTGATATCCAAGTATCAAGGTTTCAATTACATTTTCTC
1 GGTGATATCCAAGTATCAAGGTTTGAATTACATCTTCTC
14847184 GATGGTGATA
Statistics
Matches: 64, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
39 30 0.47
40 3 0.05
41 2 0.03
42 29 0.45
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (42 bp):
GGTGATATCCAAGTATCAAGGTTTGAATTACATCTTCTCTGC
Found at i:14847287 original size:99 final size:99
Alignment explanation
Indices: 14847167--14847493 Score: 361
Period size: 99 Copynumber: 3.3 Consensus size: 99
14847157 GTATCAAGGT
* * * **
14847167 TTCAATTACATTTTCTCGATGGTGATATTCGAGTTTTC-TTCGGTGGTGATATCCGAAGTCATTT
1 TTCAATTGCATTTTTTCGATGGTGATATTCGAG-TTTCATTCGGTGGCGATATTTGAAGTCATTT
*
14847231 GCATATTCTCAATGGTGATATTC-GAGTGTTAAAGC
65 GCATATTCTCGATGGTGATA-TCGGAGTGTTAAAGC
* *
14847266 TTCAATTGCATTTTTTTGATGGTGATATTCGAGTTTCATTCGGTGGCGATATTTGAAATCATTTG
1 TTCAATTGCATTTTTTCGATGGTGATATTCGAGTTTCATTCGGTGGCGATATTTGAAGTCATTTG
* **
14847331 CATATTCTCGGTGGTGATATCGGAGTGTTAAAAAA
66 CATATTCTCGATGGTGATATCGGAGTGTT-AAAGC
* * * * * ** * * *
14847366 ATCATTTGCATTTTTTCGATGATGATATTTGAGTTTCTTTCAATGACGATATTTGAAGTTATTTA
1 TTCAATTGCATTTTTTCGATGGTGATATTCGAGTTTCATTCGGTGGCGATATTTGAAGTCATTTG
* * * *
14847431 CATATTCTCGATAGTAATATCTGAGTGTTAAGGC
66 CATATTCTCGATGGTGATATCGGAGTGTTAAAGC
* * *
14847465 TTGAATTGCATTTTTTTGGTGGTGATATT
1 TTCAATTGCATTTTTTCGATGGTGATATT
14847494 GGAATGTTAA
Statistics
Matches: 189, Mismatches: 36, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
98 6 0.03
99 102 0.54
100 81 0.43
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (99 bp):
TTCAATTGCATTTTTTCGATGGTGATATTCGAGTTTCATTCGGTGGCGATATTTGAAGTCATTTG
CATATTCTCGATGGTGATATCGGAGTGTTAAAGC
Found at i:14847435 original size:100 final size:99
Alignment explanation
Indices: 14847168--14847461 Score: 295
Period size: 100 Copynumber: 2.9 Consensus size: 99
14847158 TATCAAGGTT
* * * ** ** **
14847168 TCAATTACATTTTCTCGATGGTGATATTCGAGTTTTC-TTCGGTGGTGATATCCGAAGTCATTTG
1 TCAATTGCATTTTTTCGATGATGATATTCGAG-TTTCATTCAATGACGATATTTGAAGTCATTTG
* ***
14847232 CATATTCTCAATGGTGATATTCGAGTGTT-AAAGCT
65 CATATTCTCGATGGTGATA-TCGAGTGTTAAAAAAA
* * ** * *
14847267 TCAATTGCATTTTTTTGATGGTGATATTCGAGTTTCATTCGGTGGCGATATTTGAAATCATTTGC
1 TCAATTGCATTTTTTCGATGATGATATTCGAGTTTCATTCAATGACGATATTTGAAGTCATTTGC
*
14847332 ATATTCTCGGTGGTGATATCGGAGTGTTAAAAAAA
66 ATATTCTCGATGGTGATATC-GAGTGTTAAAAAAA
* * * * *
14847367 TCATTTGCATTTTTTCGATGATGATATTTGAGTTTCTTTCAATGACGATATTTGAAGTTATTTAC
1 TCAATTGCATTTTTTCGATGATGATATTCGAGTTTCATTCAATGACGATATTTGAAGTCATTTGC
* *
14847432 ATATTCTCGATAGTAATATCTGAGTGTTAA
66 ATATTCTCGATGGTGATATC-GAGTGTTAA
14847462 GGCTTGAATT
Statistics
Matches: 165, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
98 6 0.04
99 76 0.46
100 83 0.50
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (99 bp):
TCAATTGCATTTTTTCGATGATGATATTCGAGTTTCATTCAATGACGATATTTGAAGTCATTTGC
ATATTCTCGATGGTGATATCGAGTGTTAAAAAAA
Found at i:14847544 original size:42 final size:43
Alignment explanation
Indices: 14847454--14847545 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 43
14847444 GTAATATCTG
* * * **
14847454 AGTGTTAAGGCTTGAATTGCATTTTTTTGGTGGTGATATTGGA
1 AGTGTTAAGGCTTGAATTGCATTTCTTCGGTAGTGATATTCCA
14847497 A-TGTTAAGGCTTGAATTGCATTTCTTCGGTAGTGATA-TCCA
1 AGTGTTAAGGCTTGAATTGCATTTCTTCGGTAGTGATATTCCA
14847538 AGTGTTAA
1 AGTGTTAA
14847546 AAATCATTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.07
42 39 0.91
43 1 0.02
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (43 bp):
AGTGTTAAGGCTTGAATTGCATTTCTTCGGTAGTGATATTCCA
Found at i:14848210 original size:17 final size:17
Alignment explanation
Indices: 14848172--14848210 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
14848162 TTAATTAAAC
14848172 AAAAATACAAAAATATA
1 AAAAATACAAAAATATA
*
14848189 CAAAATACAAAAA-ATA
1 AAAAATACAAAAATATA
14848205 GAAAAA
1 -AAAAA
14848211 AAAACACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.13
Consensus pattern (17 bp):
AAAAATACAAAAATATA
Found at i:14848589 original size:14 final size:14
Alignment explanation
Indices: 14848553--14848593 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
14848543 ACAAATAAAA
14848553 AGAAAAAAAAAGTC
1 AGAAAAAAAAAGTC
*
14848567 AGTAAAAAAAAGTC
1 AGAAAAAAAAAGTC
*
14848581 AAAATAAAAAAAG
1 AGAA-AAAAAAAG
14848594 AGGATTTGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.73, C:0.05, G:0.12, T:0.10
Consensus pattern (14 bp):
AGAAAAAAAAAGTC
Found at i:14849173 original size:21 final size:20
Alignment explanation
Indices: 14849135--14849188 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
14849125 GGTTCAGTTG
*
14849135 ATTTTTTTTAATTT-TTTTT
1 ATTTTTTTAAATTTATTTTT
14849154 ATTTTTTTAAATATTATTTTT
1 ATTTTTTTAAAT-TTATTTTT
* *
14849175 GTTATTTTAAATTT
1 ATTTTTTTAAATTT
14849189 TATTATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.37
20 4 0.13
21 15 0.50
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
ATTTTTTTAAATTTATTTTT
Found at i:14849191 original size:21 final size:21
Alignment explanation
Indices: 14849149--14849202 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
14849139 TTTTTAATTT
*
14849149 TTTTTATTTTTTTAAATATTA
1 TTTTTATTATTTTAAATATTA
* *
14849170 TTTTTGTTATTTTAAATTTTA
1 TTTTTATTATTTTAAATATTA
* *
14849191 TTATTAATATTT
1 TTTTTATTATTT
14849203 ATGCATGTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTTATTATTTTAAATATTA
Found at i:14849772 original size:17 final size:17
Alignment explanation
Indices: 14849728--14849773 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
14849718 TCTTTTCTCC
14849728 AAAAATTT-TAAATAAT
1 AAAAATTTATAAATAAT
**
14849744 AAAAATCAATAAATCAAT
1 AAAAATTTATAAAT-AAT
14849762 -AAAATTTATAAA
1 AAAAATTTATAAA
14849774 AAAAAAGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 6 0.25
17 15 0.62
18 3 0.12
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAATTTATAAATAAT
Found at i:14853878 original size:3 final size:3
Alignment explanation
Indices: 14853812--14853861 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
14853802 TTTTAAATCT
14853812 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14853860 TT
1 TT
14853862 TATTTCATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14867466 original size:13 final size:13
Alignment explanation
Indices: 14867448--14867472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14867438 GCAATGTAAT
14867448 ATGATGCAAATAC
1 ATGATGCAAATAC
14867461 ATGATGCAAATA
1 ATGATGCAAATA
14867473 TAAATTGAAA
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:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGATGCAAATAC
Found at i:14867607 original size:3 final size:3
Alignment explanation
Indices: 14867601--14867640 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
14867591 TTTATTCATC
*
14867601 ATT ATT AGTT ATT ATT ATT ATT TTT ATT ATT ATT ATT ATT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14867641 TATTGTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:14870459 original size:24 final size:22
Alignment explanation
Indices: 14870412--14870460 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
14870402 CACAGCTCAA
*
14870412 GAAAAAGAAAAGGAAAAAAGGT
1 GAAAAAGAAAAGAAAAAAAGGT
*
14870434 GAAAAAGAAGAATGAAAAAAATGT
1 GAAAAAGAA-AA-GAAAAAAAGGT
14870458 GAA
1 GAA
14870461 CTTTTGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.39
23 2 0.09
24 12 0.52
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.08
Consensus pattern (22 bp):
GAAAAAGAAAAGAAAAAAAGGT
Found at i:14883075 original size:2 final size:2
Alignment explanation
Indices: 14883068--14883099 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14883058 AATACATTAA
*
14883068 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14883100 TGATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14904490 original size:16 final size:17
Alignment explanation
Indices: 14904455--14904493 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
14904445 CAATAAAATA
14904455 ATGATAAACTAATAATTT
1 ATGATAAAC-AATAATTT
*
14904473 ATGATAAA-AATGATTT
1 ATGATAAACAATAATTT
14904489 ATGAT
1 ATGAT
14904494 GATTTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (17 bp):
ATGATAAACAATAATTT
Found at i:14906688 original size:19 final size:19
Alignment explanation
Indices: 14906641--14906681 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
14906631 CTTTTATTAT
* *
14906641 TTTTTATTTTATTTTTTGG
1 TTTTTATTTTATGTTTTAG
14906660 TTTTTATTTTA-GTTTTAG
1 TTTTTATTTTATGTTTTAG
14906678 TTTT
1 TTTT
14906682 AGTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (19 bp):
TTTTTATTTTATGTTTTAG
Found at i:14907203 original size:26 final size:27
Alignment explanation
Indices: 14907173--14907239 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
14907163 ATCTTTTTGA
14907173 AATTTTT-GAGATTTT-GATTTGGGTTG
1 AATTTTTAG-GATTTTGGATTTGGGTTG
14907199 AATTTTTAGGATTTTGGATTTGGGTTG
1 AATTTTTAGGATTTTGGATTTGGGTTG
*
14907226 AATTCTCTAGGATT
1 AATT-TTTAGGATT
14907240 CTAGAATTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 13 0.35
27 16 0.43
28 8 0.22
ACGTcount: A:0.21, C:0.03, G:0.25, T:0.51
Consensus pattern (27 bp):
AATTTTTAGGATTTTGGATTTGGGTTG
Found at i:14907287 original size:19 final size:20
Alignment explanation
Indices: 14907252--14907293 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
14907242 AGAATTTGGA
*
14907252 TTTGATTTTTGGGTTCT-AG
1 TTTGATTTTTGGATTCTAAG
*
14907271 TTTGATTTTTTGATTCTAAG
1 TTTGATTTTTGGATTCTAAG
14907291 TTT
1 TTT
14907294 TTTTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.14, C:0.05, G:0.19, T:0.62
Consensus pattern (20 bp):
TTTGATTTTTGGATTCTAAG
Found at i:14907940 original size:20 final size:20
Alignment explanation
Indices: 14907915--14907984 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
14907905 CTTTGGTATG
14907915 ATTTTTT-TAGTTTATTTTGC
1 ATTTTTTATA-TTTATTTTGC
14907935 ATTTTTTATATTTATTTT-C
1 ATTTTTTATATTTATTTTGC
*
14907954 ATGATTTTCAATATTTA-TTTGC
1 AT--TTTT-TATATTTATTTTGC
14907976 ATATTTTTA
1 AT-TTTTTA
14907985 ATGATATTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
19 3 0.07
20 16 0.37
21 14 0.33
22 10 0.23
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.66
Consensus pattern (20 bp):
ATTTTTTATATTTATTTTGC
Found at i:14907960 original size:22 final size:22
Alignment explanation
Indices: 14907912--14907983 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
14907902 AAACTTTGGT
14907912 ATGATTTTTT-TAGTTTA-TTT-
1 ATGATTTTTTATA-TTTATTTTC
14907932 -TGCATTTTTTATATTTATTTTC
1 ATG-ATTTTTTATATTTATTTTC
** *
14907954 ATGATTTTCAATATTTATTTGC
1 ATGATTTTTTATATTTATTTTC
14907976 AT-ATTTTT
1 ATGATTTTT
14907984 AATGATATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 2 0.05
20 11 0.26
21 10 0.23
22 18 0.42
23 2 0.05
ACGTcount: A:0.22, C:0.06, G:0.07, T:0.65
Consensus pattern (22 bp):
ATGATTTTTTATATTTATTTTC
Found at i:14908052 original size:25 final size:24
Alignment explanation
Indices: 14908024--14908075 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
14908014 TTTTTGTATA
*
14908024 ATTTTTATTATAAT-ATTTTGGCATG
1 ATTTTTA-T-TAATGATATTGGCATG
14908049 ATTTTTATTAATGATATTGGCATG
1 ATTTTTATTAATGATATTGGCATG
14908073 ATT
1 ATT
14908076 ACATGTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 4 0.16
24 14 0.56
25 7 0.28
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.54
Consensus pattern (24 bp):
ATTTTTATTAATGATATTGGCATG
Found at i:14908123 original size:13 final size:13
Alignment explanation
Indices: 14908088--14908151 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
14908078 ATGTTTTAAT
*
14908088 TATGATATTATTA
1 TATGATATTTTTA
*
14908101 TATGATATTTTTC
1 TATGATATTTTTA
*
14908114 TATGATATTTTGA
1 TATGATATTTTTA
*
14908127 TA-GTATTTTTTTA
1 TATG-ATATTTTTA
*
14908140 TTATAATATTTT
1 -TATGATATTTT
14908152 GTAAGTAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
12 1 0.03
13 31 0.77
14 8 0.20
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.61
Consensus pattern (13 bp):
TATGATATTTTTA
Found at i:14909948 original size:12 final size:12
Alignment explanation
Indices: 14909931--14909960 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14909921 TCCTTCTTAT
14909931 TGCATTCATTCA
1 TGCATTCATTCA
14909943 TGCATTCATTCA
1 TGCATTCATTCA
*
14909955 TTCATT
1 TGCATT
14909961 TTCATACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (12 bp):
TGCATTCATTCA
Found at i:14913206 original size:21 final size:20
Alignment explanation
Indices: 14913175--14913217 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
14913165 TTTATCCTAG
*
14913175 AACTTCAAACCTAAACCCAA
1 AACTTCAAACCCAAACCCAA
*
14913195 AACTTCCAAACCCAAACCTAA
1 AACTT-CAAACCCAAACCCAA
14913216 AA
1 AA
14913218 AATTCAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.51, C:0.35, G:0.00, T:0.14
Consensus pattern (20 bp):
AACTTCAAACCCAAACCCAA
Found at i:14913225 original size:21 final size:20
Alignment explanation
Indices: 14913178--14913226 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
14913168 ATCCTAGAAC
* * *
14913178 TTCAAACCTAAACCCAAAAC
1 TTCAAACCCAAACCAAAAAA
14913198 TTCCAAACCCAAACCTAAAAAA
1 TT-CAAACCCAAACC-AAAAAA
14913220 TTCAAAC
1 TTCAAAC
14913227 TTTCAATCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 16 0.67
22 6 0.25
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (20 bp):
TTCAAACCCAAACCAAAAAA
Found at i:14913283 original size:30 final size:29
Alignment explanation
Indices: 14913223--14913294 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
14913213 TAAAAAATTC
* * * *
14913223 AAACTTTCAATCCTAGAACTTTGAACCTAG
1 AAAC-TTCAAACCTAGAACCTTAAAACTAG
14913253 AAACTTCAAACCTAGAATCCTTAAAACTAG
1 AAACTTCAAACCTAGAA-CCTTAAAACTAG
*
14913283 AAATTTCAAACC
1 AAACTTCAAACC
14913295 CAAAGATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 12 0.33
30 24 0.67
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (29 bp):
AAACTTCAAACCTAGAACCTTAAAACTAG
Found at i:14913638 original size:3 final size:3
Alignment explanation
Indices: 14913632--14913670 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
14913622 TGTTATTGTT
* *
14913632 GTA GTA GTT GTA GTA GTA GCA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
14913671 ATAATAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.33, T:0.33
Consensus pattern (3 bp):
GTA
Found at i:14914717 original size:3 final size:3
Alignment explanation
Indices: 14914709--14914733 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14914699 TCACAAAATA
14914709 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
14914734 TTTTCTTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14914994 original size:22 final size:22
Alignment explanation
Indices: 14914969--14915032 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
14914959 GAGAAATTCA
* *
14914969 TAAAAACCCTAAATCTTAAAAT
1 TAAAAACCCTAAACCCTAAAAT
*
14914991 TAAAAACCCTGAACCCTAAAAT
1 TAAAAACCCTAAACCCTAAAAT
*
14915013 TAAAAACCCTAAACCATAAA
1 TAAAAACCCTAAACCCTAAA
14915033 CCAAAACTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.55, C:0.23, G:0.02, T:0.20
Consensus pattern (22 bp):
TAAAAACCCTAAACCCTAAAAT
Found at i:14915072 original size:19 final size:19
Alignment explanation
Indices: 14915044--14915094 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
14915034 CAAAACTTTC
*
14915044 AAACCATAAATCTAACCCT
1 AAACCCTAAATCTAACCCT
*
14915063 AAACCCTAAA-CAAACCCT
1 AAACCCTAAATCTAACCCT
* *
14915081 AAATCCTCAATCTA
1 AAACCCTAAATCTA
14915095 CCCAAAACTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (19 bp):
AAACCCTAAATCTAACCCT
Found at i:14915532 original size:16 final size:17
Alignment explanation
Indices: 14915498--14915531 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14915488 TTGTAACATC
*
14915498 ATTTTTTTTCTGCAAAA
1 ATTTTTTTTATGCAAAA
*
14915515 ATTTTTTTTATGGAAAA
1 ATTTTTTTTATGCAAAA
14915532 TGTTATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (17 bp):
ATTTTTTTTATGCAAAA
Found at i:14916088 original size:3 final size:3
Alignment explanation
Indices: 14916082--14916118 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14916072 TAATAAAAAT
14916082 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14916119 ATTTTTCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14918062 original size:16 final size:17
Alignment explanation
Indices: 14918041--14918072 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14918031 TATTATCATT
14918041 ATTTTT-ATTTTTTTTA
1 ATTTTTAATTTTTTTTA
14918057 ATTTTTAATTTTTTTT
1 ATTTTTAATTTTTTTT
14918073 GCCAAGTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (17 bp):
ATTTTTAATTTTTTTTA
Found at i:14918116 original size:12 final size:12
Alignment explanation
Indices: 14918099--14918124 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14918089 TTTTTGTTAT
14918099 TTATTAGTATTA
1 TTATTAGTATTA
14918111 TTATTAGTATTA
1 TTATTAGTATTA
14918123 TT
1 TT
14918125 TTATTTAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (12 bp):
TTATTAGTATTA
Found at i:14918496 original size:20 final size:20
Alignment explanation
Indices: 14918471--14918515 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
14918461 AAGAAATTTT
*
14918471 TTTTTTATG-TTTTTTCTTCA
1 TTTTTTATGCTTTTTT-TTAA
14918491 TTTTTTATGCTTTTTTTTAA
1 TTTTTTATGCTTTTTTTTAA
14918511 TTTTT
1 TTTTT
14918516 CTTTCTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTTATGCTTTTTTTTAA
Done.