Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 94 of 297
Found at i:33880840 original size:31 final size:31
Alignment explanation
Indices: 33880782--33881172 Score: 307
Period size: 31 Copynumber: 12.8 Consensus size: 31
33880772 CCTTTATCAT
** * *
33880782 CAAATCAA-TTCAACAATATATATTCATATA
1 CAAATCAATTTCGGCAATGTATAATCATATA
*
33880812 CGAATCAGA-TTCGGCAATGTATAATCATATA
1 CAAATCA-ATTTCGGCAATGTATAATCATATA
* *
33880843 CAAATCAATTT-GGCAATGGATAACCATATA
1 CAAATCAATTTCGGCAATGTATAATCATATA
** * *
33880873 TGAATCAAGTTCGGGAATGTATAATCATATA
1 CAAATCAATTTCGGCAATGTATAATCATATA
* *
33880904 CAAATTAA-TTCAGCAACT-TAT-ATCCATATA
1 CAAATCAATTTCGGCAA-TGTATAAT-CATATA
* ** * *
33880934 CAATTCAATTTCAACAATTTATAACCATATA
1 CAAATCAATTTCGGCAATGTATAATCATATA
* * *
33880965 CAAATTAATTTCAGCAAAGTATAATCATATA
1 CAAATCAATTTCGGCAATGTATAATCATATA
**
33880996 CAAATCAA-TTCGGCAACT-TATCTTCATATA
1 CAAATCAATTTCGGCAA-TGTATAATCATATA
* *
33881026 CAAATCAATTTCGACAATGTATAACCATATA
1 CAAATCAATTTCGGCAATGTATAATCATATA
* * *
33881057 CAAATAAATTTCAGCAATGTATAATTATATA
1 CAAATCAATTTCGGCAATGTATAATCATATA
* * ** *
33881088 CGAATCAA-TTCGACAACT-TATCTTCATAAA
1 CAAATCAATTTCGGCAA-TGTATAATCATATA
* ** *
33881118 TAAATCAATTTCGATAATGTATAACCATATA
1 CAAATCAATTTCGGCAATGTATAATCATATA
* **
33881149 CAAATAAATTTCAACAATGTATAA
1 CAAATCAATTTCGGCAATGTATAA
33881173 AACAATCAAA
Statistics
Matches: 285, Mismatches: 62, Indels: 27
0.76 0.17 0.07
Matches are distributed among these distances:
29 2 0.01
30 101 0.35
31 181 0.64
32 1 0.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.32
Consensus pattern (31 bp):
CAAATCAATTTCGGCAATGTATAATCATATA
Found at i:33880871 original size:61 final size:62
Alignment explanation
Indices: 33880782--33881172 Score: 318
Period size: 61 Copynumber: 6.4 Consensus size: 62
33880772 CCTTTATCAT
* * ** *
33880782 CAAATCAA-TTCAACAATATATATTCATATACGAATCAGA-TTCGGCAATGTATAATCATATA
1 CAAATCAATTTCAGCAATGTATAACCATATACAAATCA-ATTTCGGCAATGTATAATCATATA
* * ** * *
33880843 CAAATCAATTT-GGCAATGGATAACCATATATGAATCAAGTTCGGGAATGTATAATCATATA
1 CAAATCAATTTCAGCAATGTATAACCATATACAAATCAATTTCGGCAATGTATAATCATATA
* * * ** * *
33880904 CAAATTAA-TTCAGCAACT-TATATCCATATACAATTCAATTTCAACAATTTATAACCATATA
1 CAAATCAATTTCAGCAA-TGTATAACCATATACAAATCAATTTCGGCAATGTATAATCATATA
* * * **
33880965 CAAATTAATTTCAGCAAAGTATAATCATATACAAATCAA-TTCGGCAACT-TATCTTCATATA
1 CAAATCAATTTCAGCAATGTATAACCATATACAAATCAATTTCGGCAA-TGTATAATCATATA
* * *
33881026 CAAATCAATTTC-GACAATGTATAACCATATACAAATAAATTTCAGCAATGTATAATTATATA
1 CAAATCAATTTCAG-CAATGTATAACCATATACAAATCAATTTCGGCAATGTATAATCATATA
* *** * * ** *
33881088 CGAATCAA-TTC-GACAACT-TATCTTCATAAATAAATCAATTTCGATAATGTATAACCATATA
1 CAAATCAATTTCAG-CAA-TGTATAACCATATACAAATCAATTTCGGCAATGTATAATCATATA
* *
33881149 CAAATAAATTTCAACAATGTATAA
1 CAAATCAATTTCAGCAATGTATAA
33881173 AACAATCAAA
Statistics
Matches: 261, Mismatches: 55, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
60 4 0.02
61 195 0.75
62 62 0.24
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.32
Consensus pattern (62 bp):
CAAATCAATTTCAGCAATGTATAACCATATACAAATCAATTTCGGCAATGTATAATCATATA
Found at i:33880987 original size:92 final size:91
Alignment explanation
Indices: 33880782--33881172 Score: 446
Period size: 92 Copynumber: 4.3 Consensus size: 91
33880772 CCTTTATCAT
* * * * * **
33880782 CAAATCAA-TTCAACAATATATATTCATATACGAATCAGATTCGGCAA-TGTATAATCATATACA
1 CAAATAAATTTCAGCAATGTATAATCATATACAAATCA-ATTC-GCAACT-TATCTTCATATACA
* *
33880845 AATCAATTT-GGCAATGGATAACCATATA
63 AATCAATTTCGACAATGTATAACCATATA
** * * * * * * * *
33880873 TGAATCAAGTTCGGGAATGTATAATCATATACAAATTAATTCAGCAACTTATATCCATATACAAT
1 CAAATAAATTTCAGCAATGTATAATCATATACAAATCAATTC-GCAACTTATCTTCATATACAAA
* *
33880938 TCAATTTCAACAATTTATAACCATATA
65 TCAATTTCGACAATGTATAACCATATA
* *
33880965 CAAATTAATTTCAGCAAAGTATAATCATATACAAATCAATTCGGCAACTTATCTTCATATACAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACAAATCAATTC-GCAACTTATCTTCATATACAAA
33881030 TCAATTTCGACAATGTATAACCATATA
65 TCAATTTCGACAATGTATAACCATATA
* * * *
33881057 CAAATAAATTTCAGCAATGTATAATTATATACGAATCAATTCGACAACTTATCTTCATAAATAAA
1 CAAATAAATTTCAGCAATGTATAATCATATACAAATCAATTCG-CAACTTATCTTCATATACAAA
*
33881122 TCAATTTCGATAATGTATAACCATATA
65 TCAATTTCGACAATGTATAACCATATA
*
33881149 CAAATAAATTTCAACAATGTATAA
1 CAAATAAATTTCAGCAATGTATAA
33881173 AACAATCAAA
Statistics
Matches: 257, Mismatches: 39, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
91 35 0.14
92 222 0.86
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.32
Consensus pattern (91 bp):
CAAATAAATTTCAGCAATGTATAATCATATACAAATCAATTCGCAACTTATCTTCATATACAAAT
CAATTTCGACAATGTATAACCATATA
Found at i:33894682 original size:21 final size:21
Alignment explanation
Indices: 33894658--33894701 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
33894648 GTCGTGTTGA
33894658 TATATAAAATCGGTTCTTTTC
1 TATATAAAATCGGTTCTTTTC
*
33894679 TATATAACATCGGTTCTTTTC
1 TATATAAAATCGGTTCTTTTC
33894700 TA
1 TA
33894702 GTTCATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (21 bp):
TATATAAAATCGGTTCTTTTC
Found at i:33899596 original size:26 final size:26
Alignment explanation
Indices: 33899563--33899618 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
33899553 TTTTTACATG
*
33899563 ATAA-AATTAGGGTTAAATTTTAGTT
1 ATAATAATTAGGGTTAAATTTCAGTT
33899588 ATAATAATTAGGGTTAAATTTCAGTT
1 ATAATAATTAGGGTTAAATTTCAGTT
33899614 ATAAT
1 ATAAT
33899619 CCCTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (26 bp):
ATAATAATTAGGGTTAAATTTCAGTT
Found at i:33913166 original size:18 final size:19
Alignment explanation
Indices: 33913143--33913183 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
33913133 TTTGAGAAAC
* *
33913143 TTTTG-AATTTGTATATGT
1 TTTTGAAATTTATATATAT
33913161 TTTTGAAATTTATATATAT
1 TTTTGAAATTTATATATAT
33913180 TTTT
1 TTTT
33913184 TATTTAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (19 bp):
TTTTGAAATTTATATATAT
Found at i:33915668 original size:6 final size:7
Alignment explanation
Indices: 33915651--33915678 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
33915641 ATTATTTTTA
33915651 AAAAAAT
1 AAAAAAT
33915658 AAAAAAT
1 AAAAAAT
33915665 AAAAAAT
1 AAAAAAT
33915672 AAAAAAT
1 AAAAAAT
33915679 TATATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:33917613 original size:14 final size:14
Alignment explanation
Indices: 33917575--33917616 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
33917565 TTTTGGTATT
*
33917575 TTTTA-TTATTTGT
1 TTTTATTTATTTGG
33917588 TTTTATTTTATTTGG
1 TTTTA-TTTATTTGG
33917603 TTTTATTTATTTGG
1 TTTTATTTATTTGG
33917617 GCTCTACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 5 0.19
14 9 0.35
15 12 0.46
ACGTcount: A:0.14, C:0.00, G:0.12, T:0.74
Consensus pattern (14 bp):
TTTTATTTATTTGG
Found at i:33918734 original size:360 final size:357
Alignment explanation
Indices: 33918071--33918796 Score: 1211
Period size: 360 Copynumber: 2.0 Consensus size: 357
33918061 TTTTTCCACC
* * * *
33918071 AAAAAACCACCATTTCCCTCCACTTTCACCAAATCACCACCACGACATCACCAAAACTTCCCTTT
1 AAAACACCACCATTTCCCGCCACTTTCACCAAATCACCACCACAACATCACCAAAACTTCCCTCT
33918136 CTTCCACACCTCACCATCATCGCACCACCGTCGTGCCGCCATCATAGCACTGCACCACCACCGCC
66 CTTCCACACCTCACCATCATCGCACCACCGTCGTGCCGCCATCATAGCACTGCACCACCACCGCC
* * * *
33918201 GTTAGTTACTATTTTCACCGATTTTCATTTTATTTTCATTTCTTTAGTCATAATTGAATTACTAA
131 GTTAGTCACCATTTTCACCGATTTTCATTTTATCTTCATTTCTTTAGTCATAATTGAACTACTAA
**
33918266 TCCTCCTCTCCTAATTTCATAGATTATTTCTATGTTCTAATATATTATTTTATTTTATTTGGATG
196 TCCTCCTCTCCTAATTTCATAGACCATTTCTATGTTCTAATATATTATTTTATTTTATTTGGATG
*
33918331 ATGAACTTCTCCTTAGATAAATCTCCTCCATCAAACAATTATTCTAGCTAATGCTGATCTCTCCA
261 ATGAACTTCTCCTTAGATAAATCTCCTCAATCAAACAATTATTCTAGCTAATGCTGATCTCTCCA
33918396 ACTTAATATTAGTAACATAAGTATCTATAGGG
326 ACTTAATATTAGTAACATAAGTATCTATAGGG
* *
33918428 AAAACACCACCATTTCCCGCCATTTTTACCAAATCACCACCACAACATCACCAAAACTTCCCTCT
1 AAAACACCACCATTTCCCGCCACTTTCACCAAATCACCACCACAACATCACCAAAACTTCCCTCT
* * *
33918493 CTTCCACACCTCACCATCGTTGCACCACCGTCGTGCCGCCATCGTAGCACTGCACCACCACCACC
66 CTTCCACACCTCACCATCATCGCACCACCGTCGTGCCGCCATCATAGCACTG---CACCACCACC
*
33918558 GCCGTTAGTCACCATTTTCACCGATTTTCATTTTCTCTTCATTTCTTTAGTCATAATTGAACTAC
128 GCCGTTAGTCACCATTTTCACCGATTTTCATTTTATCTTCATTTCTTTAGTCATAATTGAACTAC
* * *
33918623 TAATCCTTCTCTCCTAATTTCATAGACCATTTCTATGTTCTAATCTATTATTTTCTTTTATTTGG
193 TAATCCTCCTCTCCTAATTTCATAGACCATTTCTATGTTCTAATATATTATTTTATTTTATTTGG
* * *
33918688 ATGATGAACTTCTCCTTAGATAAATCTCCTCAATCGAACAATTATTCTAGCTATTGTTGATCTCT
258 ATGATGAACTTCTCCTTAGATAAATCTCCTCAATCAAACAATTATTCTAGCTAATGCTGATCTCT
33918753 CCAACTTAATATTAGTAACATAAGTATCTATAGGG
323 CCAACTTAATATTAGTAACATAAGTATCTATAGGG
33918788 AAAAC-CCAC
1 AAAACACCAC
33918797 ATCAATTTCT
Statistics
Matches: 343, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
357 108 0.31
359 4 0.01
360 231 0.67
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.34
Consensus pattern (357 bp):
AAAACACCACCATTTCCCGCCACTTTCACCAAATCACCACCACAACATCACCAAAACTTCCCTCT
CTTCCACACCTCACCATCATCGCACCACCGTCGTGCCGCCATCATAGCACTGCACCACCACCGCC
GTTAGTCACCATTTTCACCGATTTTCATTTTATCTTCATTTCTTTAGTCATAATTGAACTACTAA
TCCTCCTCTCCTAATTTCATAGACCATTTCTATGTTCTAATATATTATTTTATTTTATTTGGATG
ATGAACTTCTCCTTAGATAAATCTCCTCAATCAAACAATTATTCTAGCTAATGCTGATCTCTCCA
ACTTAATATTAGTAACATAAGTATCTATAGGG
Found at i:33919942 original size:13 final size:13
Alignment explanation
Indices: 33919924--33919949 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33919914 CGAAATCTTA
33919924 ATTATAATAATTT
1 ATTATAATAATTT
33919937 ATTATAATAATTT
1 ATTATAATAATTT
33919950 CGATAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:33921232 original size:63 final size:63
Alignment explanation
Indices: 33921133--33921285 Score: 189
Period size: 63 Copynumber: 2.4 Consensus size: 63
33921123 AGTTTTACTA
* * * *
33921133 CAATATTGAATGGCTTGGCCACAACATCATTAAGTGGCTTGTCCACAATGTGCAGTTTGTCAG
1 CAATATTGAGTGGCTTGGCCACAACGTCATTAAGTGGCTTGACCACAATGTGCAGCTTGTCAG
* * * * * * * * *
33921196 CGATATTGAGCGGCTTGGGCACAACGTTATTGAGTGGTTTGACCATAATGTGTAGCTTGTCTG
1 CAATATTGAGTGGCTTGGCCACAACGTCATTAAGTGGCTTGACCACAATGTGCAGCTTGTCAG
33921259 CAATATTGAGTGGCTTGGCCACAACGT
1 CAATATTGAGTGGCTTGGCCACAACGT
33921286 GGAGTGTTAT
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 74 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (63 bp):
CAATATTGAGTGGCTTGGCCACAACGTCATTAAGTGGCTTGACCACAATGTGCAGCTTGTCAG
Found at i:33924214 original size:37 final size:37
Alignment explanation
Indices: 33924130--33924215 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
33924120 AGTGATATTC
* * *
33924130 ACTGATTATACTGAATGGGCTCAAATGAGAAATATCT
1 ACTGATTATACTGAACGGGCTCAAAAGAGAAATATAT
* * ** *
33924167 AATGAATATACTGAACGTTCTCAAAAGAGAAATGTAT
1 ACTGATTATACTGAACGGGCTCAAAAGAGAAATATAT
33924204 ACTGATTATACT
1 ACTGATTATACT
33924216 AAAAATTGCT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (37 bp):
ACTGATTATACTGAACGGGCTCAAAAGAGAAATATAT
Found at i:33924289 original size:112 final size:112
Alignment explanation
Indices: 33924048--33924279 Score: 293
Period size: 112 Copynumber: 2.1 Consensus size: 112
33924038 ACAAGCGAGC
* * * * * * * * * * *
33924048 AATATCTATTGAATCTACTAAACGTGCTTAAAATAGCAATGTTTATTGATTATACTGAAAGTTGC
1 AATATCTAATGAATATACTGAACGTTCTCAAAAGAGAAATGTATACTGATTATACTAAAAATTGC
* * * * *
33924113 TCAAACTAGTGATATTCACTGATTATACTGAATGGGCTCAAATGAGA
66 TCAAACAAGCGATATCCACTGATTATACTAAATGGACTCAAATGAGA
33924160 AATATCTAATGAATATACTGAACGTTCTCAAAAGAGAAATGTATACTGATTATACTAAAAATTGC
1 AATATCTAATGAATATACTGAACGTTCTCAAAAGAGAAATGTATACTGATTATACTAAAAATTGC
* *
33924225 TCAAACAAGCGATATCCACTGATTATATTAAATGGACTCAAATGAGT
66 TCAAACAAGCGATATCCACTGATTATACTAAATGGACTCAAATGAGA
*
33924272 GATATCTA
1 AATATCTA
33924280 CTAATTATAC
Statistics
Matches: 101, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
112 101 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (112 bp):
AATATCTAATGAATATACTGAACGTTCTCAAAAGAGAAATGTATACTGATTATACTAAAAATTGC
TCAAACAAGCGATATCCACTGATTATACTAAATGGACTCAAATGAGA
Found at i:33932881 original size:16 final size:17
Alignment explanation
Indices: 33932844--33932884 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
33932834 TTTTTAATCT
33932844 TTTCTTTCTTTCTTTCAG
1 TTTCTTT-TTTCTTTCAG
33932862 --TCTTTTTT-TTTCAG
1 TTTCTTTTTTCTTTCAG
33932876 TTTCTTTTT
1 TTTCTTTTT
33932885 CAATCTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 6 0.29
15 3 0.14
16 12 0.57
ACGTcount: A:0.05, C:0.17, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTCTTTTTTCTTTCAG
Found at i:33944430 original size:15 final size:16
Alignment explanation
Indices: 33944410--33944450 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
33944400 TTGTAAATCG
33944410 TCTTTTCTTTCC-CTT
1 TCTTTTCTTTCCTCTT
*
33944425 TCTTTTTCTCTCCTCTT
1 TC-TTTTCTTTCCTCTT
33944442 T-TTTTCTTT
1 TCTTTTCTTT
33944451 TTCTTCTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 9 0.41
17 4 0.18
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TCTTTTCTTTCCTCTT
Found at i:33963772 original size:19 final size:20
Alignment explanation
Indices: 33963735--33963772 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
33963725 CAGATAAATA
* *
33963735 ATGCAAGACATTAATTAAAG
1 ATGCAAGACATAAACTAAAG
33963755 ATGCAA-ACATAAACTAAA
1 ATGCAAGACATAAACTAAA
33963773 CTAAAACTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.55, C:0.13, G:0.11, T:0.21
Consensus pattern (20 bp):
ATGCAAGACATAAACTAAAG
Found at i:33972026 original size:30 final size:30
Alignment explanation
Indices: 33971990--33972051 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
33971980 TGAATTATTT
*
33971990 TTAAAAATTTAAT-TGCTCTTTTTGTAATTA
1 TTAAAAATTTAATGT-CTCTTTTTGTAAATA
*
33972020 TTAAAAATTTGATGTCTCTTTTTGTAAATA
1 TTAAAAATTTAATGTCTCTTTTTGTAAATA
33972050 TT
1 TT
33972052 TTCAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.53
Consensus pattern (30 bp):
TTAAAAATTTAATGTCTCTTTTTGTAAATA
Found at i:33976924 original size:17 final size:18
Alignment explanation
Indices: 33976891--33976924 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33976881 GTGTTTGTCT
*
33976891 TGAAAACATTGTTTGTTG
1 TGAAAACATTATTTGTTG
33976909 TGAAAAC-TTATTTGTT
1 TGAAAACATTATTTGTT
33976925 TCCGTTAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (18 bp):
TGAAAACATTATTTGTTG
Found at i:33977481 original size:27 final size:27
Alignment explanation
Indices: 33977451--33977510 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 27
33977441 AGCTGCCAGT
33977451 ACAGT-ATATGTGGCAGAGCCACCAGA-A
1 ACAGTAAT-TGTGGCAGAGCCACCA-ATA
33977478 ACAGTAATTGTGGCAGAGCCACCAATA
1 ACAGTAATTGTGGCAGAGCCACCAATA
33977505 ACAGTA
1 ACAGTA
33977511 CTTCTTCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 1 0.03
27 28 0.90
28 2 0.06
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
ACAGTAATTGTGGCAGAGCCACCAATA
Found at i:33987674 original size:13 final size:13
Alignment explanation
Indices: 33987639--33987674 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
33987629 ATGCAAACGT
*
33987639 CAAAATTTCCTAA
1 CAAAATTTCTTAA
33987652 CAAAATTTCTTAA
1 CAAAATTTCTTAA
33987665 CAAAATTTCT
1 CAAAATTTCT
33987675 ATACGACCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.36
Consensus pattern (13 bp):
CAAAATTTCTTAA
Found at i:33991150 original size:50 final size:50
Alignment explanation
Indices: 33991094--33991193 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
33991084 TGATATATTT
33991094 TTTGGATAGTGTGATAGATCTACGACGAGCTTCCAAACTAATCGAGCTTC
1 TTTGGATAGTGTGATAGATCTACGACGAGCTTCCAAACTAATCGAGCTTC
* *
33991144 TTTGGATAGTGTGATAGATCTTCGATGAGCTTCCAAACTAATCGAGCTTC
1 TTTGGATAGTGTGATAGATCTACGACGAGCTTCCAAACTAATCGAGCTTC
33991194 CGGTTATCTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (50 bp):
TTTGGATAGTGTGATAGATCTACGACGAGCTTCCAAACTAATCGAGCTTC
Found at i:33991950 original size:11 final size:11
Alignment explanation
Indices: 33991934--33991958 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33991924 TGTCAAAAAA
33991934 ATTATTTTAAT
1 ATTATTTTAAT
33991945 ATTATTTTAAT
1 ATTATTTTAAT
33991956 ATT
1 ATT
33991959 TACAGCATGT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTAAT
Found at i:34000996 original size:15 final size:14
Alignment explanation
Indices: 34000962--34000992 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
34000952 TAGATTTTGT
34000962 TGATTTTTGAGTCA
1 TGATTTTTGAGTCA
34000976 TGATTTTTGAGTCA
1 TGATTTTTGAGTCA
34000990 TGA
1 TGA
34000993 ATTTAGCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (14 bp):
TGATTTTTGAGTCA
Found at i:34012133 original size:36 final size:36
Alignment explanation
Indices: 34012093--34012167 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
34012083 TTCTTTGGCA
*
34012093 TGGTTTAATATGGTCATTTTGGTATTTCGAATTTAG
1 TGGTTTAATATGGTCATTTTGGTATTTCAAATTTAG
34012129 TGGTTTAATATGGTCATTTTGGTATTTCAAATTTAG
1 TGGTTTAATATGGTCATTTTGGTATTTCAAATTTAG
34012165 TGG
1 TGG
34012168 ACATATATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (36 bp):
TGGTTTAATATGGTCATTTTGGTATTTCAAATTTAG
Found at i:34012176 original size:36 final size:36
Alignment explanation
Indices: 34012098--34012177 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
34012088 TGGCATGGTT
* **
34012098 TAATATGGTCATTTTGGTATTTCGAATTTAGTGGTT
1 TAATATGGTCATTTTGGTATTTCAAATTTAGTGGCA
34012134 TAATATGGTCATTTTGGTATTTCAAATTTAGTGGACA
1 TAATATGGTCATTTTGGTATTTCAAATTTAGTGG-CA
34012171 T-ATATGG
1 TAATATGG
34012178 CTAATGGTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
36 39 0.98
37 1 0.03
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.46
Consensus pattern (36 bp):
TAATATGGTCATTTTGGTATTTCAAATTTAGTGGCA
Found at i:34018145 original size:39 final size:38
Alignment explanation
Indices: 34018091--34018313 Score: 270
Period size: 39 Copynumber: 5.7 Consensus size: 38
34018081 TAGAAAACTG
*
34018091 TTGTACTTCGGTACCCCTGAAT-GCACTTACGTGAACCTA
1 TTGTACTTCGGTACCCCTG-ATCGCACTTACGTG-CCCTA
* *
34018130 TTGTACTTCGGTACCCCTGATCGCACTTACATGCCCCA
1 TTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCTA
* * *
34018168 GTTGTACTTCGATACCCCTGATCGCACTTAAGTGCCCTTG
1 -TTGTACTTCGGTACCCCTGATCGCACTTACGTGCCC-TA
*
34018208 TTGTACTTCGGT-CCCTCTGATCACACTTACGTGCCCCTA
1 TTGTACTTCGGTACCC-CTGATCGCACTTACGTG-CCCTA
* *
34018247 TTGTACTTCAGTACCCCTGATCGCACTTACGTGCCCTTG
1 TTGTACTTCGGTACCCCTGATCGCACTTACGTGCCC-TA
* *
34018286 TTGTACTTCGCTACCCTTGATCGCACTT
1 TTGTACTTCGGTACCCCTGATCGCACTT
34018314 TCGTTTCGTG
Statistics
Matches: 159, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
38 11 0.07
39 142 0.89
40 6 0.04
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (38 bp):
TTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCTA
Found at i:34018219 original size:78 final size:79
Alignment explanation
Indices: 34018090--34018313 Score: 298
Period size: 78 Copynumber: 2.9 Consensus size: 79
34018080 GTAGAAAACT
* * *
34018090 GTTGTACTTCGGTACCCCTGAAT-GCACTTACGTGAACC-TATTGTACTTCGGTACCCCTGATCG
1 GTTGTACTTCGATACCCCTG-ATCGCACTTACGTG-CCCTTGTTGTACTTCGGTACCCCTGATCG
34018153 CACTTACATGCCCC-A
64 CACTTACATGCCCCTA
* *
34018168 GTTGTACTTCGATACCCCTGATCGCACTTAAGTGCCCTTGTTGTACTTCGGT-CCCTCTGATCAC
1 GTTGTACTTCGATACCCCTGATCGCACTTACGTGCCCTTGTTGTACTTCGGTACCC-CTGATCGC
*
34018232 ACTTACGTGCCCCTA
65 ACTTACATGCCCCTA
* *
34018247 -TTGTACTTC-AGTACCCCTGATCGCACTTACGTGCCCTTGTTGTACTTCGCTACCCTTGATCGC
1 GTTGTACTTCGA-TACCCCTGATCGCACTTACGTGCCCTTGTTGTACTTCGGTACCCCTGATCGC
34018310 ACTT
65 ACTT
34018314 TCGTTTCGTG
Statistics
Matches: 130, Mismatches: 10, Indels: 12
0.86 0.07 0.08
Matches are distributed among these distances:
77 8 0.06
78 118 0.91
79 4 0.03
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (79 bp):
GTTGTACTTCGATACCCCTGATCGCACTTACGTGCCCTTGTTGTACTTCGGTACCCCTGATCGCA
CTTACATGCCCCTA
Found at i:34018295 original size:117 final size:117
Alignment explanation
Indices: 34018089--34018313 Score: 337
Period size: 117 Copynumber: 1.9 Consensus size: 117
34018079 AGTAGAAAAC
* *
34018089 TGTTGTACTTCGGTACCCCTGAATGCACTTACGTGAACCTATTGTACTTCGGTACCCCTGATCGC
1 TGTTGTACTTCGGTACCCCTGAATACACTTACGTGAACCTATTGTACTTCAGTACCCCTGATCGC
34018154 ACTTACATGCCCCAGTTGTACTTCGATACCCCTGATCGCACTTAAGTGCCCT
66 ACTTACATGCCCCAGTTGTACTTCGATACCCCTGATCGCACTTAAGTGCCCT
**
34018206 TGTTGTACTTCGGT-CCCTCTG-ATCACACTTACGTGCCCCTATTGTACTTCAGTACCCCTGATC
1 TGTTGTACTTCGGTACCC-CTGAAT-ACACTTACGTGAACCTATTGTACTTCAGTACCCCTGATC
* ** * *
34018269 GCACTTACGTGCCCTTGTTGTACTTCGCTACCCTTGATCGCACTT
64 GCACTTACATGCCCCAGTTGTACTTCGATACCCCTGATCGCACTT
34018314 TCGTTTCGTG
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
116 5 0.05
117 92 0.95
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.33
Consensus pattern (117 bp):
TGTTGTACTTCGGTACCCCTGAATACACTTACGTGAACCTATTGTACTTCAGTACCCCTGATCGC
ACTTACATGCCCCAGTTGTACTTCGATACCCCTGATCGCACTTAAGTGCCCT
Found at i:34019311 original size:18 final size:17
Alignment explanation
Indices: 34019280--34019313 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34019270 GTGAGTTACA
34019280 TGGGCATGGACATGTGC
1 TGGGCATGGACATGTGC
*
34019297 TGGGACATGGTCATGTG
1 TGGG-CATGGACATGTG
34019314 TCCCTACTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.18, C:0.15, G:0.41, T:0.26
Consensus pattern (17 bp):
TGGGCATGGACATGTGC
Found at i:34022772 original size:70 final size:70
Alignment explanation
Indices: 34022687--34022899 Score: 257
Period size: 70 Copynumber: 3.0 Consensus size: 70
34022677 AGATCATTGG
* * * *
34022687 TGTGCCTAGCACTAGTCGAACGATTTGACAAATTATTACGCCCAGCGCTAGTAGGATAACCGACG
1 TGTGCCCATCACTAGTCGAACGAGTTGACAAATTATTACGCCCAGCGCTAGTAGGATAACTGACG
*
34022752 ATACT
66 ATAGT
* * * *
34022757 TGTGCCCATCACTAGTCGAATGAGTTGACAAATTATTACGCCCAGTGCTACTCA-GATAACTGGC
1 TGTGCCCATCACTAGTCGAACGAGTTGACAAATTATTACGCCCAGCGCTAGT-AGGATAACTGAC
*
34022821 AATAGT
65 GATAGT
* * * * * * *
34022827 TATGTCCATCACTAGTCAAACAAGTTAACAAATTATTGCGCCCAGCGCTAGTCGGATAACTGACG
1 TGTGCCCATCACTAGTCGAACGAGTTGACAAATTATTACGCCCAGCGCTAGTAGGATAACTGACG
34022892 ATAGT
66 ATAGT
34022897 TGT
1 TGT
34022900 CATCCGCAAT
Statistics
Matches: 118, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
70 117 0.99
71 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (70 bp):
TGTGCCCATCACTAGTCGAACGAGTTGACAAATTATTACGCCCAGCGCTAGTAGGATAACTGACG
ATAGT
Found at i:34030191 original size:42 final size:43
Alignment explanation
Indices: 34030143--34030234 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 43
34030133 AATATTATTA
**
34030143 TTTAATATTTACGCTTCAATTATAATATTATATTGAATTTTAG
1 TTTAATATTTACGAGTCAATTATAATATTATATTGAATTTTAG
* *
34030186 -TTAATATTTATGAGTCAATTATAATATTATATTGAATTTTTG
1 TTTAATATTTACGAGTCAATTATAATATTATATTGAATTTTAG
34030228 TTTAATA
1 TTTAATA
34030235 ATTTTTGCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 38 0.86
43 6 0.14
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (43 bp):
TTTAATATTTACGAGTCAATTATAATATTATATTGAATTTTAG
Found at i:34035869 original size:15 final size:16
Alignment explanation
Indices: 34035819--34035891 Score: 51
Period size: 15 Copynumber: 4.6 Consensus size: 16
34035809 TATTCTTTTT
34035819 CTTTCTCTTTTCTCTCA
1 CTTTCT-TTTTCTCTCA
** *
34035836 CACTCTCTTT-TCTCA
1 CTTTCTTTTTCTCTCA
*
34035851 ATTTCTTTTTCTCTCA
1 CTTTCTTTTTCTCTCA
* *
34035867 -TTTTTTTCTTCTTTCA
1 CTTTCTTT-TTCTCTCA
*
34035883 GTTTCTTTT
1 CTTTCTTTT
34035892 ATTTTTCTCT
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
15 17 0.40
16 16 0.37
17 10 0.23
ACGTcount: A:0.08, C:0.27, G:0.01, T:0.63
Consensus pattern (16 bp):
CTTTCTTTTTCTCTCA
Found at i:34035878 original size:16 final size:17
Alignment explanation
Indices: 34035841--34035890 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 17
34035831 TCTCACACTC
*
34035841 TCTTTTCTCAATTTCTT
1 TCTTCTCTCAATTTCTT
*
34035858 T-TTCTCTC-ATTTTTT
1 TCTTCTCTCAATTTCTT
* *
34035873 TCTTCTTTCAGTTTCTT
1 TCTTCTCTCAATTTCTT
34035890 T
1 T
34035891 TATTTTTCTC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
15 7 0.27
16 12 0.46
17 7 0.27
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.68
Consensus pattern (17 bp):
TCTTCTCTCAATTTCTT
Found at i:34035899 original size:21 final size:21
Alignment explanation
Indices: 34035867--34035909 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
34035857 TTTTCTCTCA
*
34035867 TTTTTTTCTTCTTTCAGTTTC
1 TTTTTTTCTTCTCTCAGTTTC
*
34035888 TTTTATTT-TTCTCTCATTTTC
1 TTTT-TTTCTTCTCTCAGTTTC
34035909 T
1 T
34035910 CTCATTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTTTTCTTCTCTCAGTTTC
Found at i:34049190 original size:22 final size:22
Alignment explanation
Indices: 34049162--34049209 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
34049152 CCACTACCAA
*
34049162 ACCATCATACCACTACCTTAGC
1 ACCATCATACCACAACCTTAGC
* *
34049184 ACCATCATACTACAACCTTTGC
1 ACCATCATACCACAACCTTAGC
34049206 ACCA
1 ACCA
34049210 CCTTGAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.40, G:0.04, T:0.23
Consensus pattern (22 bp):
ACCATCATACCACAACCTTAGC
Found at i:34049551 original size:18 final size:19
Alignment explanation
Indices: 34049528--34049563 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34049518 TCCTCCAATG
34049528 ATTAGATTCTCAA-AATCC
1 ATTAGATTCTCAACAATCC
*
34049546 ATTAGATTGTCAACAATC
1 ATTAGATTCTCAACAATC
34049564 ATAGCAGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (19 bp):
ATTAGATTCTCAACAATCC
Found at i:34051877 original size:29 final size:29
Alignment explanation
Indices: 34051845--34051902 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
34051835 AGCCGAAGCT
*
34051845 ATCCCGTTTCATA-TTCGATGGTCATCACC
1 ATCCCGTTTCACAGTT-GATGGTCATCACC
* *
34051874 ATCCCTTTTCACAGTTGATGGTCGTCACC
1 ATCCCGTTTCACAGTTGATGGTCATCACC
34051903 CTCTATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (29 bp):
ATCCCGTTTCACAGTTGATGGTCATCACC
Found at i:34051891 original size:87 final size:87
Alignment explanation
Indices: 34051772--34051943 Score: 227
Period size: 87 Copynumber: 2.0 Consensus size: 87
34051762 TTTCCATTAA
* * * * * * *
34051772 TCGATTGTCGTCACCATCCCTTTTCATAGTTGATGGTTGTTACCATCCCTTTTCGCAATAGATAG
1 TCGATGGTCATCACCATCCCTTTTCACAGTTGATGGTCGTCACCATCCATTTTCACAATAGATAG
34051837 CCGAAGCTATCCCGTTTCATAT
66 CCGAAGCTATCCCGTTTCATAT
* * * *
34051859 TCGATGGTCATCACCATCCCTTTTCACAGTTGATGGTCGTCACCCTCTATTTTCATAATCGATAG
1 TCGATGGTCATCACCATCCCTTTTCACAGTTGATGGTCGTCACCATCCATTTTCACAATAGATAG
* *
34051924 CCGAAGCTATCTCTTTTCAT
66 CCGAAGCTATCCCGTTTCAT
34051944 TGGTCGATGA
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (87 bp):
TCGATGGTCATCACCATCCCTTTTCACAGTTGATGGTCGTCACCATCCATTTTCACAATAGATAG
CCGAAGCTATCCCGTTTCATAT
Found at i:34058901 original size:23 final size:23
Alignment explanation
Indices: 34058870--34058991 Score: 181
Period size: 23 Copynumber: 5.3 Consensus size: 23
34058860 ATAAGTGCCA
* *
34058870 CACTAATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
34058893 CACTGATATGTAGTCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
34058916 CACTAAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
34058939 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
34058962 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
34058985 CACTGAT
1 CACTGAT
34058992 CAATAACACT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 87 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:34058937 original size:46 final size:46
Alignment explanation
Indices: 34058870--34058991 Score: 208
Period size: 46 Copynumber: 2.7 Consensus size: 46
34058860 ATAAGTGCCA
* *
34058870 CACTAATATGTAGCCAAAGCTACCACTGATATGTAGTCGTAGCTAC
1 CACTAATATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
*
34058916 CACTAAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTAATATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
*
34058962 CACTGATATGTAGCCGAAGCTACCACTGAT
1 CACTAATATGTAGCCGAAGCTACCACTGAT
34058992 CAATAACACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (46 bp):
CACTAATATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
Found at i:34063314 original size:12 final size:12
Alignment explanation
Indices: 34063297--34063336 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
34063287 TCACACGCCC
34063297 GTGTGCTAGGCT
1 GTGTGCTAGGCT
34063309 GTGTGCTAGGCT
1 GTGTGCTAGGCT
* *
34063321 ATGTGCTAGGAT
1 GTGTGCTAGGCT
34063333 GTGT
1 GTGT
34063337 AACAACCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.40, T:0.35
Consensus pattern (12 bp):
GTGTGCTAGGCT
Found at i:34063973 original size:25 final size:25
Alignment explanation
Indices: 34063922--34063973 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
34063912 TCATAATGTC
*
34063922 ACCAAAGTGCCAAATCACAAGCCAA
1 ACCAAAGTGCCAAATCACAAGCAAA
34063947 ACCAAA-TGGCCATAATCACAA-CAAA
1 ACCAAAGT-GCCA-AATCACAAGCAAA
34063972 AC
1 AC
34063974 ATATAGGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 1 0.04
25 15 0.62
26 8 0.33
ACGTcount: A:0.50, C:0.31, G:0.10, T:0.10
Consensus pattern (25 bp):
ACCAAAGTGCCAAATCACAAGCAAA
Found at i:34066740 original size:40 final size:40
Alignment explanation
Indices: 34066696--34067026 Score: 464
Period size: 40 Copynumber: 8.3 Consensus size: 40
34066686 TGAGGTTTAA
* *
34066696 CCCGGATATATCACTAGCACGATTGCTCTTTGGAACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
* * *
34066736 CCCGGACATATTACCAGCACGAATGCTCTTCGGAACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
34066776 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
* *
34066816 CCCGGATATATCACTAGCACGAATGCTCTTTGGAATTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
* *
34066856 CTCGGATATATCACTAGCACGAATGCTCTTCGAAACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
* * ** * * *
34066896 CCTGGACATATTTCCAGTACGAATGCTCTTCAGAACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
*
34066936 CCCAGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
* * * * *
34066976 CCCGGACATATTACCAGTACGAATGCTCTTCGGGACTTAG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
34067016 CCCGGATATAT
1 CCCGGATATAT
34067027 ATAACGCACA
Statistics
Matches: 253, Mismatches: 38, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 253 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (40 bp):
CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
Found at i:34066835 original size:80 final size:80
Alignment explanation
Indices: 34066696--34067026 Score: 518
Period size: 80 Copynumber: 4.1 Consensus size: 80
34066686 TGAGGTTTAA
* *
34066696 CCCGGATATATCACTAGCACGATTGCTCTTTGGAACTTAGCCCGGACATATTACCAGCACGAATG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGACATATTACCAGCACGAATG
34066761 CTCTTCGGAACTTAG
66 CTCTTCGGAACTTAG
* * *
34066776 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGACATATTACCAGCACGAATG
* *
34066841 CTCTTTGGAATTTAG
66 CTCTTCGGAACTTAG
* * * * *
34066856 CTCGGATATATCACTAGCACGAATGCTCTTCGAAACTTAGCCTGGACATATTTCCAGTACGAATG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGACATATTACCAGCACGAATG
*
34066921 CTCTTCAGAACTTAG
66 CTCTTCGGAACTTAG
* *
34066936 CCCAGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGACATATTACCAGTACGAATG
1 CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGACATATTACCAGCACGAATG
*
34067001 CTCTTCGGGACTTAG
66 CTCTTCGGAACTTAG
34067016 CCCGGATATAT
1 CCCGGATATAT
34067027 ATAACGCACA
Statistics
Matches: 225, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 225 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (80 bp):
CCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGACATATTACCAGCACGAATG
CTCTTCGGAACTTAG
Found at i:34068470 original size:31 final size:31
Alignment explanation
Indices: 34068435--34068495 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
34068425 TTTGTAATTC
*
34068435 ATTTACCTTATCAAATATCTAATAAAACACT
1 ATTTACCTCATCAAATATCTAATAAAACACT
34068466 ATTTACCTCATCAAATATCTAATAAAACAC
1 ATTTACCTCATCAAATATCTAATAAAACAC
34068496 ACCTTCCGCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (31 bp):
ATTTACCTCATCAAATATCTAATAAAACACT
Found at i:34068603 original size:46 final size:46
Alignment explanation
Indices: 34068550--34068671 Score: 172
Period size: 46 Copynumber: 2.7 Consensus size: 46
34068540 CCTACATCTC
* *
34068550 TCACATTAGCCATTTGGCTTTACCACATATCCATCTCATACACGTT
1 TCACATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATT
* *
34068596 TCACATTAGCCATTCGGCTTTACCTCATATCTATCTCATACACATT
1 TCACATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATT
* * * *
34068642 TCGCATTAGCCAATCGACCTTACCACATAT
1 TCACATTAGCCATTCGGCTTTACCACATAT
34068672 ATACATGTTC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
TCACATTAGCCATTCGGCTTTACCACATATCCATCTCATACACATT
Found at i:34068813 original size:47 final size:47
Alignment explanation
Indices: 34068645--34068814 Score: 225
Period size: 47 Copynumber: 3.6 Consensus size: 47
34068635 ACACATTTCG
* * * * **
34068645 CATTAGCCAATCGACCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCA
* *
34068692 CATTGGCCATTC-AGCCTTATCTCATATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGA-CCTTATCACACATACGCATGTTCACATTCATCA
* *
34068739 CATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCA
1 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCA
*
34068786 CATTGGCCATTCGACCTTATCAGACATAC
1 CATTGGCCATTCGACCTTATCACACATAC
34068815 ATTGGCCATT
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
46 1 0.01
47 108 0.99
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATTCATCA
Found at i:34068823 original size:75 final size:75
Alignment explanation
Indices: 34068738--34068889 Score: 277
Period size: 75 Copynumber: 2.0 Consensus size: 75
34068728 CACATTCATC
34068738 ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCACATTGGCCATTCGACCT
1 ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCACATTGGCCATTCGACCT
*
34068803 TATCAGACAT
66 TATCACACAT
* *
34068813 ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTGATCACATTGGCCATTCGGCCT
1 ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCACATTGGCCATTCGACCT
34068878 TATCACACAT
66 TATCACACAT
34068888 AC
1 AC
34068890 GCGTGTTCAC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (75 bp):
ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCACATTGGCCATTCGACCT
TATCACACAT
Found at i:34068825 original size:28 final size:28
Alignment explanation
Indices: 34068785--34068842 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
34068775 CACATTCATC
*
34068785 ACATTGGCCATTCGACCTTATCAGACAT
1 ACATTGGCCATTCGACCTTATCACACAT
*
34068813 ACATTGGCCATTCGGCCTTATCACACAT
1 ACATTGGCCATTCGACCTTATCACACAT
34068841 AC
1 AC
34068843 GCGTGTTCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.28
Consensus pattern (28 bp):
ACATTGGCCATTCGACCTTATCACACAT
Found at i:34068899 original size:169 final size:169
Alignment explanation
Indices: 34068677--34068983 Score: 533
Period size: 169 Copynumber: 1.8 Consensus size: 169
34068667 CATATATACA
* *
34068677 TGTTCACATTCATCACATTGGCCATTCAGCCTTATCTCATATACGCATGTTCACATTCATCACAT
1 TGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCACAT
*
34068742 TGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCACATTGGCCATTCGACCTTATC
66 TGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTTATC
*
34068807 AGACATACATTGGCCATTCGGCCTTATCACACATACGCG
131 ACACATACATTGGCCATTCGGCCTTATCACACATACGCG
* * *
34068846 TGTTCACATTGATCACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATCACAT
1 TGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCACAT
* *
34068911 TGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATC
66 TGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTTATC
34068976 ACACATAC
131 ACACATAC
34068984 GCGTGTTCAC
Statistics
Matches: 129, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
169 129 1.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.31
Consensus pattern (169 bp):
TGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATTCATCACAT
TGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTTATC
ACACATACATTGGCCATTCGGCCTTATCACACATACGCG
Found at i:34068918 original size:94 final size:94
Alignment explanation
Indices: 34068813--34069051 Score: 397
Period size: 94 Copynumber: 2.5 Consensus size: 94
34068803 TATCAGACAT
* *
34068813 ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTGATCACATTGGCCATTCGGCCT
1 ACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCT
34068878 TATCACACATACGCGTGTTCACATTCATC
66 TATCACACATACGCGTGTTCACATTCATC
*
34068907 ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCT
1 ACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCT
34068972 TATCACACATACGCGTGTTCACATTCATC
66 TATCACACATACGCGTGTTCACATTCATC
* * ** **
34069001 ACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 ACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
34069052 AAAATCCTAA
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 137 1.00
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (94 bp):
ACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCT
TATCACACATACGCGTGTTCACATTCATC
Found at i:34068931 original size:22 final size:22
Alignment explanation
Indices: 34068904--34068978 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
34068894 GTTCACATTC
34068904 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
34068926 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
34068950 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
34068973 ATCACA
1 ATCACA
34068979 CATACGCGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.30
23 11 0.28
24 11 0.28
25 6 0.15
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:34069051 original size:47 final size:47
Alignment explanation
Indices: 34068813--34069022 Score: 393
Period size: 47 Copynumber: 4.5 Consensus size: 47
34068803 TATCAGACAT
*
34068813 ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTGATC
1 ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATC
34068860 ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATC
1 ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATC
* *
34068907 ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
1 ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATC
34068954 ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATC
1 ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATC
34069001 ACATTGGCCATTCGGCCTTATC
1 ACATTGGCCATTCGGCCTTATC
34069023 TCATATATAC
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 158 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.30
Consensus pattern (47 bp):
ACATTGGCCATTCGGCCTTATCACACATACGCGTGTTCACATTCATC
Found at i:34073879 original size:27 final size:27
Alignment explanation
Indices: 34073849--34074026 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34073839 ATATTGAGTC
* * * *
34073849 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34073876 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34073903 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34073931 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34073958 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34073985 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34074012 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34074027 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34073988 original size:82 final size:81
Alignment explanation
Indices: 34073870--34074025 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34073860 TGCTATATAA
* *
34073870 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34073935 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34073952 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34074016 CACTTAGTGC
65 CACTTAGTGC
34074026 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34076515 original size:41 final size:43
Alignment explanation
Indices: 34076422--34076546 Score: 150
Period size: 42 Copynumber: 2.9 Consensus size: 43
34076412 CAATGCCAAC
* *
34076422 GTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCATT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCATT
34076465 GTCCCAGACA-GGTCTTACACGAAATCAAATAT-GATGCCGA-T
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCC-ATT
* * *
34076506 GTCCTAGACATGGTCGTACACGTAAATCTCAA-ATCGATGCC
1 GTCCCAGACATGGTCTTACACG-AAATC-AAATATCGATGCC
34076547 CTATGCCATG
Statistics
Matches: 72, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
41 16 0.22
42 31 0.43
43 17 0.24
44 8 0.11
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCATT
Found at i:34077919 original size:45 final size:45
Alignment explanation
Indices: 34077855--34077943 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
34077845 AAAACATTTA
*
34077855 TCACATATATCACAAACTCAAACCACAACTTAATGAGTTCAGATG
1 TCACATATATCACAAACTCAAACCACAACTCAATGAGTTCAGATG
** * *
34077900 TCACATATATCATGAACTCAGACCACAACTCAATGAGTTTAGAT
1 TCACATATATCACAAACTCAAACCACAACTCAATGAGTTCAGAT
34077944 TACATAATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (45 bp):
TCACATATATCACAAACTCAAACCACAACTCAATGAGTTCAGATG
Found at i:34079431 original size:30 final size:30
Alignment explanation
Indices: 34079395--34079454 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
34079385 AGGGCCTATG
*
34079395 AGTTTTAGGGGTATTTTAAGAATTTTAACT
1 AGTTTTAGGAGTATTTTAAGAATTTTAACT
*
34079425 AGTTTTAGGAGTATTTTAGGAATTTTAACT
1 AGTTTTAGGAGTATTTTAAGAATTTTAACT
34079455 CTAGAGTGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (30 bp):
AGTTTTAGGAGTATTTTAAGAATTTTAACT
Found at i:34079609 original size:30 final size:30
Alignment explanation
Indices: 34079573--34079632 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
34079563 CATTCCCAAG
34079573 TTTGTTTTCACGATAGGTTTTCTCTAAACA
1 TTTGTTTTCACGATAGGTTTTCTCTAAACA
34079603 TTTGTTTTCACGATAGGTTTTCTCTAAACA
1 TTTGTTTTCACGATAGGTTTTCTCTAAACA
34079633 CCACACTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (30 bp):
TTTGTTTTCACGATAGGTTTTCTCTAAACA
Found at i:34082705 original size:40 final size:40
Alignment explanation
Indices: 34082650--34082959 Score: 453
Period size: 40 Copynumber: 7.8 Consensus size: 40
34082640 GGATATAGCT
* *
34082650 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-T-TAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTA-A-TA
* * *
34082690 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
34082730 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
34082770 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
34082810 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
* *
34082850 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
* *** * *
34082890 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAACCAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
* *
34082930 ACTAGCGCAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
34082960 AGTTATCATC
Statistics
Matches: 252, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
40 249 0.99
41 1 0.00
42 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
Found at i:34086091 original size:48 final size:48
Alignment explanation
Indices: 34086020--34086117 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
34086010 TGTTATGAGC
34086020 ATAACATGAAGTCACATGAATGTATATTAAGTCATTACTCTTGGTCTA
1 ATAACATGAAGTCACATGAATGTATATTAAGTCATTACTCTTGGTCTA
*
34086068 ATAACATGAAGTCACATGAATGTATATTAAGTCATTACTGTTGGTCTA
1 ATAACATGAAGTCACATGAATGTATATTAAGTCATTACTCTTGGTCTA
34086116 AT
1 AT
34086118 CCAGTCAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (48 bp):
ATAACATGAAGTCACATGAATGTATATTAAGTCATTACTCTTGGTCTA
Found at i:34092491 original size:49 final size:51
Alignment explanation
Indices: 34092419--34092558 Score: 205
Period size: 49 Copynumber: 2.8 Consensus size: 51
34092409 AGCCGAAGCT
34092419 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATA
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGATCACAATA
* * * *
34092468 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGATCACAATA
*
34092519 TTC-GAGTACGCATAGTAGCCTGCACTTAGTACTACACATG
1 ATCTG-GTACGCATAGTAGCCTGCACTTAGTACTACACATG
34092559 CAACCTCACA
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
49 41 0.51
50 2 0.02
51 38 0.47
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (51 bp):
ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGATCACAATA
Found at i:34094056 original size:39 final size:39
Alignment explanation
Indices: 34094012--34094171 Score: 302
Period size: 39 Copynumber: 4.1 Consensus size: 39
34094002 AATTATATTA
*
34094012 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
34094051 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
34094090 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
34094129 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
34094168 CCAG
1 CCAG
34094172 TGTCTTGCTT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 119 1.00
ACGTcount: A:0.23, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:34099630 original size:49 final size:49
Alignment explanation
Indices: 34099574--34099672 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
34099564 AATTGGGACA
*
34099574 ATACAATTCTGTTTGATCGGTTTTAAATTGAATTGAAATTTTATAGCCC
1 ATACAATTCTATTTGATCGGTTTTAAATTGAATTGAAATTTTATAGCCC
34099623 ATACAATTCTATTTGATCGGTTTTAAATTGAATTGAAATTTTATAGCCC
1 ATACAATTCTATTTGATCGGTTTTAAATTGAATTGAAATTTTATAGCCC
34099672 A
1 A
34099673 AACTTTTTGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.42
Consensus pattern (49 bp):
ATACAATTCTATTTGATCGGTTTTAAATTGAATTGAAATTTTATAGCCC
Found at i:34104460 original size:16 final size:16
Alignment explanation
Indices: 34104439--34104471 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34104429 TTTTTATCAC
34104439 TCAATTTACG-CCTTTT
1 TCAATTTA-GTCCTTTT
34104455 TCAATTTAGTCCTTTT
1 TCAATTTAGTCCTTTT
34104471 T
1 T
34104472 AGGTGTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.55
Consensus pattern (16 bp):
TCAATTTAGTCCTTTT
Found at i:34105578 original size:12 final size:12
Alignment explanation
Indices: 34105548--34105580 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
34105538 TATATATTTT
34105548 AAAATT-ATATA
1 AAAATTAATATA
34105559 AAAA-TAATATA
1 AAAATTAATATA
34105570 AAAATTAATAT
1 AAAATTAATAT
34105581 GGACGGGTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:34105602 original size:5 final size:5
Alignment explanation
Indices: 34105584--34105621 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
34105574 TTAATATGGA
* *
34105584 CGGGT CCGGT CGGGC CGGG- CGGGT CGGGT CGGGT CGGG
1 CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT CGGG
34105622 CTTGGGGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.00, C:0.26, G:0.61, T:0.13
Consensus pattern (5 bp):
CGGGT
Found at i:34105608 original size:19 final size:19
Alignment explanation
Indices: 34105584--34105622 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
34105574 TTAATATGGA
34105584 CGGGTCCGGTCGGGCCGGG
1 CGGGTCCGGTCGGGCCGGG
* *
34105603 CGGGTCGGGTCGGGTCGGG
1 CGGGTCCGGTCGGGCCGGG
34105622 C
1 C
34105623 TTGGGGGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.59, T:0.13
Consensus pattern (19 bp):
CGGGTCCGGTCGGGCCGGG
Found at i:34105610 original size:14 final size:15
Alignment explanation
Indices: 34105584--34105621 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
34105574 TTAATATGGA
*
34105584 CGGGTCCGGTCGGGC
1 CGGGTCGGGTCGGGC
*
34105599 CGGG-CGGGTCGGGT
1 CGGGTCGGGTCGGGC
34105613 CGGGTCGGG
1 CGGGTCGGG
34105622 CTTGGGGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.00, C:0.26, G:0.61, T:0.13
Consensus pattern (15 bp):
CGGGTCGGGTCGGGC
Found at i:34119494 original size:17 final size:16
Alignment explanation
Indices: 34119463--34119511 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
34119453 GGAACACTTA
34119463 ATTTTTATTACTTTATCC
1 ATTTTTATT--TTTATCC
**
34119481 ATTTTTTATTTTTATTT
1 A-TTTTTATTTTTATCC
34119498 ATTTTTATTTTTAT
1 ATTTTTATTTTTAT
34119512 TCTTACTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 13 0.46
17 6 0.21
18 1 0.04
19 8 0.29
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTTTATTTTTATCC
Found at i:34119526 original size:22 final size:22
Alignment explanation
Indices: 34119483--34119526 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34119473 CTTTATCCAT
* *
34119483 TTTTTATTTTTATTTATTTTTA
1 TTTTTATTCTTATTTATATTTA
34119505 TTTTTATTCTTACTTTA-ATTTA
1 TTTTTATTCTTA-TTTATATTTA
34119527 CTAACTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (22 bp):
TTTTTATTCTTATTTATATTTA
Found at i:34126685 original size:6 final size:6
Alignment explanation
Indices: 34126670--34126723 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
34126660 ATTAAGTCCA
* * * * *
34126670 TTTATC TTTATG TTTATT TTTATT TTTATT TTTATC TTTCTC TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
34126718 TTTATT
1 TTTATT
34126724 GTTCTTATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:34126697 original size:18 final size:18
Alignment explanation
Indices: 34126670--34126723 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
34126660 ATTAAGTCCA
*
34126670 TTTATCTTTATGTTTATT
1 TTTATCTTTATTTTTATT
* *
34126688 TTTATTTTTATTTTTATC
1 TTTATCTTTATTTTTATT
*
34126706 TTTCTCTTTATTTTTATT
1 TTTATCTTTATTTTTATT
34126724 GTTCTTATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTATCTTTATTTTTATT
Found at i:34138864 original size:40 final size:40
Alignment explanation
Indices: 34138820--34139081 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
34138810 GCTCCTCGTT
* *
34138820 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
34138860 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
34138900 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
34138939 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
34138978 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
34139017 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
34139058 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34139082 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:34141575 original size:18 final size:18
Alignment explanation
Indices: 34141529--34141582 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
34141519 TGTAATAAGG
34141529 TTTTCATTATGTTATTATTA
1 TTTTCATTA--TTATTATTA
* **
34141549 CTTGAATTATTATTATTA
1 TTTTCATTATTATTATTA
*
34141567 TTTTCATTATAATTAT
1 TTTTCATTATTATTAT
34141583 GAGAAGTTGA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 21 0.78
20 6 0.22
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.61
Consensus pattern (18 bp):
TTTTCATTATTATTATTA
Found at i:34144686 original size:16 final size:16
Alignment explanation
Indices: 34144659--34144701 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
34144649 ATGAATCGGC
*
34144659 AAAAGCCAAAATGCCG
1 AAAAGCCGAAATGCCG
* *
34144675 AAAAGTCGAAATGTCG
1 AAAAGCCGAAATGCCG
34144691 AAAAGCCGAAA
1 AAAAGCCGAAA
34144702 GTTTTGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.51, C:0.19, G:0.21, T:0.09
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:34144965 original size:29 final size:28
Alignment explanation
Indices: 34144910--34145024 Score: 140
Period size: 29 Copynumber: 4.0 Consensus size: 28
34144900 GTGAGCATGA
* * *
34144910 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
34144938 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
34144967 ATATATAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
34144996 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
34145024 A
1 A
34145025 GATATAGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
28 27 0.36
29 49 0.64
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:34145032 original size:57 final size:58
Alignment explanation
Indices: 34144923--34145033 Score: 170
Period size: 57 Copynumber: 1.9 Consensus size: 58
34144913 TGAATGTGAC
* *
34144923 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATATAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATATAGGTGATT
* * *
34144981 TGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATATAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATATAGGT
34145034 ATGTGAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 24 0.50
58 24 0.50
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGATTTGGGCCTAATGGGCCAGATATAGGTGATT
Found at i:34148024 original size:30 final size:30
Alignment explanation
Indices: 34147988--34148045 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
34147978 AGACCATTTT
*
34147988 CCACACGGGCTGAG-CACACGCCCTTGTGAC
1 CCACACGGGCT-AGCCACACGCCCATGTGAC
34148018 CCACACGGGCTAGCCACACGCCCATGTG
1 CCACACGGGCTAGCCACACGCCCATGTG
34148046 GTAGCCCGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.21, C:0.41, G:0.26, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTAGCCACACGCCCATGTGAC
Found at i:34150897 original size:84 final size:84
Alignment explanation
Indices: 34150742--34150940 Score: 194
Period size: 84 Copynumber: 2.4 Consensus size: 84
34150732 ATTTGTTTCA
* * ** *
34150742 GGATTTATTCCCACCATTTAACAAGATTTTTTTCGATTTTATTTTGTTTTCAAATTATAATTAAA
1 GGATTTATTCCCACCATTTAACAAGATTTTATTCGATTTTATTTTGTTTCCAAAGAAAAATTAAA
*
34150807 TTAAATAAAATCTATTTTG
66 TCAAATAAAATCTATTTTG
* * * *
34150826 GGATTTATTCTCGCCGTTTTACAAGATTTTATTCGATATTT-TTTTGTTTCCAAAGAAAAACTT-
1 GGATTTATTCCCACCATTTAACAAGATTTTATTCGAT-TTTATTTTGTTTCCAAAGAAAAA-TTA
*
34150889 AATCAAAT--AAT-TATGTTTCA
64 AATCAAATAAAATCTAT-TTT-G
* **
34150909 GAATTTATTTTCACCATTTAAC-AGATTTTATT
1 GGATTTATTCCCACCATTTAACAAGATTTTATT
34150941 TTCATTTAAT
Statistics
Matches: 95, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
81 3 0.03
82 16 0.17
83 17 0.18
84 54 0.57
85 5 0.05
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (84 bp):
GGATTTATTCCCACCATTTAACAAGATTTTATTCGATTTTATTTTGTTTCCAAAGAAAAATTAAA
TCAAATAAAATCTATTTTG
Found at i:34153909 original size:24 final size:25
Alignment explanation
Indices: 34153882--34153941 Score: 104
Period size: 24 Copynumber: 2.4 Consensus size: 25
34153872 AGCCCTCTCG
*
34153882 AGCATCCTGATGTATAGTTCTTG-C
1 AGCATCCTGATGTATAGTTCTTGTA
34153906 AGCATCCTGATGTATAGTTCTTGTA
1 AGCATCCTGATGTATAGTTCTTGTA
34153931 AGCATCCTGAT
1 AGCATCCTGAT
34153942 CAGGTAGTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 23 0.68
25 11 0.32
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (25 bp):
AGCATCCTGATGTATAGTTCTTGTA
Found at i:34165501 original size:22 final size:22
Alignment explanation
Indices: 34165475--34165535 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
34165465 AATTTTAAAA
34165475 TTAAAAAATATAAAAA-TATTTT
1 TTAAAAAATATAAAAATTA-TTT
*
34165497 TTAAAAAATTATTAAAATTATTT
1 TTAAAAAA-TATAAAAATTATTT
* *
34165520 TTAAAAATTTTAAAAA
1 TTAAAAAATATAAAAA
34165536 ATAATTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 14 0.42
23 17 0.52
24 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAAAAAATATAAAAATTATTT
Found at i:34165536 original size:23 final size:22
Alignment explanation
Indices: 34165475--34165537 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
34165465 AATTTTAAAA
* *
34165475 TTAAAAAATATAAAAATATTTTT
1 TTAAAAATTTTAAAAA-ATTTTT
*
34165498 TAAAAAATTATT--AAAATTATTT
1 TTAAAAATT-TTAAAAAATT-TTT
34165520 TTAAAAATTTTAAAAAAT
1 TTAAAAATTTTAAAAAAT
34165538 AATTAAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
21 5 0.16
22 14 0.44
23 12 0.38
24 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAAAAATTTTAAAAAATTTTT
Found at i:34166295 original size:21 final size:21
Alignment explanation
Indices: 34166269--34166314 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
34166259 GAGTTCTTTT
34166269 TGCAATCAAAAGCTAAAATTA
1 TGCAATCAAAAGCTAAAATTA
34166290 TGCAATCAAAAGCTAAAATTA
1 TGCAATCAAAAGCTAAAATTA
34166311 TGCA
1 TGCA
34166315 TGGAGTAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (21 bp):
TGCAATCAAAAGCTAAAATTA
Found at i:34169609 original size:17 final size:17
Alignment explanation
Indices: 34169583--34169630 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
34169573 GTGAATCATG
* *
34169583 TCCACCAGGCGATATTG
1 TCCACTAGGCGATATTA
*
34169600 TCCTCTAGGCGATATTA
1 TCCACTAGGCGATATTA
*
34169617 TCCACTAGACGATA
1 TCCACTAGGCGATA
34169631 CTGTTTGCCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (17 bp):
TCCACTAGGCGATATTA
Found at i:34181598 original size:27 final size:27
Alignment explanation
Indices: 34181566--34181619 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
34181556 ATATTTGAAA
*
34181566 AAGGGTTATTAAGCTTATTTGGCGTAT
1 AAGGGTTATGAAGCTTATTTGGCGTAT
34181593 AAGGGTTATGAAGCTTATTTGGCGTAT
1 AAGGGTTATGAAGCTTATTTGGCGTAT
34181620 GAGTTGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.07, G:0.28, T:0.39
Consensus pattern (27 bp):
AAGGGTTATGAAGCTTATTTGGCGTAT
Found at i:34193683 original size:24 final size:24
Alignment explanation
Indices: 34193656--34193725 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 24
34193646 GTGAGAAAAA
34193656 ATTTTAAAGTTTGGCAAAAAGGGC
1 ATTTTAAAGTTTGGCAAAAAGGGC
34193680 ATTTT--A--TTGAG-AAAAA----
1 ATTTTAAAGTTTG-GCAAAAAGGGC
34193696 ATTTTAAAGTTTGGCAAAAAGGGC
1 ATTTTAAAGTTTGGCAAAAAGGGC
34193720 ATTTTA
1 ATTTTA
34193726 GTTATTTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 20
0.64 0.00 0.36
Matches are distributed among these distances:
16 5 0.14
18 1 0.03
19 1 0.03
20 16 0.44
21 1 0.03
22 1 0.03
24 11 0.31
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (24 bp):
ATTTTAAAGTTTGGCAAAAAGGGC
Found at i:34193691 original size:40 final size:40
Alignment explanation
Indices: 34193647--34193725 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
34193637 ATGGACATGG
34193647 TGAGAAAAAATTTTAAAGTTTGGCAAAAAGGGCATTTTAT
1 TGAGAAAAAATTTTAAAGTTTGGCAAAAAGGGCATTTTAT
34193687 TGAGAAAAAATTTTAAAGTTTGGCAAAAAGGGCATTTTA
1 TGAGAAAAAATTTTAAAGTTTGGCAAAAAGGGCATTTTA
34193726 GTTATTTGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (40 bp):
TGAGAAAAAATTTTAAAGTTTGGCAAAAAGGGCATTTTAT
Found at i:34196859 original size:17 final size:17
Alignment explanation
Indices: 34196834--34196870 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
34196824 TGAAAATTTC
34196834 TTTCAAAAAGTTTGACA
1 TTTCAAAAAGTTTGACA
* *
34196851 TTTCGAAAATTTTGACA
1 TTTCAAAAAGTTTGACA
34196868 TTT
1 TTT
34196871 GGGTACTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (17 bp):
TTTCAAAAAGTTTGACA
Found at i:34197928 original size:27 final size:27
Alignment explanation
Indices: 34197887--34197941 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
34197877 TGTCATGTGA
* *
34197887 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
34197914 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
34197941 A
1 A
34197942 GTTGTATGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:34198307 original size:51 final size:52
Alignment explanation
Indices: 34198189--34198433 Score: 272
Period size: 51 Copynumber: 4.9 Consensus size: 52
34198179 TATTGTGAGG
* * * * *
34198189 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CGGATAA-TT-GG
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAGATAACTTCGA
* *
34198238 TCTCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACTC-GATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAGATAACTTCGA
* *
34198289 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGGAC-CCGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAGATAACTTCGA
* * * ** * *
34198340 TCACGTGTGTAGTACTAAGTGTAAGCTACTACGTGTA-TCAGAT-GGTTAGG
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAGATAACTTCGA
* *
34198390 TCATGTGTGTAGTACTAAGTGTAGGCTACTATACGTAC-CAGATA
1 TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAGATA
34198434 GCCTTGTCTA
Statistics
Matches: 166, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
49 38 0.23
50 44 0.27
51 84 0.51
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (52 bp):
TCACGTGTGTAGTACTAAGTGTAGGCTACTATGCGTACTCAGATAACTTCGA
Found at i:34205376 original size:42 final size:42
Alignment explanation
Indices: 34205313--34205430 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
34205303 TAGGGTTAGT
*
34205313 TGAGATTACGTGTAAGACCATATCTGGGATATGACATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGATATGACATCGATA
* * * *
34205355 TGAGATTTCATGTAAGGCCATAGCT-GGACTATTGCCATCGATA
1 TGAGATTACATGTAAGACCATATCTGGGA-TA-TGACATCGATA
**
34205398 TGAGATCCCATGTAAGACCATATCTGGGATATG
1 TGAGATTACATGTAAGACCATATCTGGGATATG
34205431 GCATTGGTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
41 3 0.05
42 25 0.39
43 33 0.52
44 3 0.05
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATCTGGGATATGACATCGATA
Found at i:34207135 original size:20 final size:20
Alignment explanation
Indices: 34207110--34207151 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
34207100 GCCGATAAAA
34207110 GAAAGTTTATTGAGAAAAGT
1 GAAAGTTTATTGAGAAAAGT
34207130 GAAAGTTTATTGAGAAAAGT
1 GAAAGTTTATTGAGAAAAGT
34207150 GA
1 GA
34207152 TTTTGTGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (20 bp):
GAAAGTTTATTGAGAAAAGT
Found at i:34215646 original size:13 final size:13
Alignment explanation
Indices: 34215628--34215652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34215618 AGGCTATGTG
34215628 AGGGACACGAGCC
1 AGGGACACGAGCC
34215641 AGGGACACGAGC
1 AGGGACACGAGC
34215653 GTGTGCTCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.40, T:0.00
Consensus pattern (13 bp):
AGGGACACGAGCC
Found at i:34216762 original size:20 final size:20
Alignment explanation
Indices: 34216733--34216771 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34216723 TGATTGGTTG
* *
34216733 TGATTGAATTGTATTTGAAT
1 TGATTAAATTGTATGTGAAT
34216753 TGATTAAATTGTATGTGAA
1 TGATTAAATTGTATGTGAA
34216772 ATATATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
TGATTAAATTGTATGTGAAT
Found at i:34230710 original size:90 final size:90
Alignment explanation
Indices: 34230550--34230727 Score: 218
Period size: 90 Copynumber: 2.0 Consensus size: 90
34230540 AGTAAGATGC
* * * * * *
34230550 CAACGCCATATCCCATATATGGTCTTACATGGGAATACAAGTCGATGCCAATGCCATGTCCTAGA
1 CAACGCCATATCCCAGATATGGTCTTACATGAGAACACAAGCCGATGCCAATGCCATATCCCAGA
*
34230615 CATGGTCTTACATGGGATCTCATAT
66 CATGGTCTTACACGGGATCTCATAT
*
34230640 CAACGCCATATCCTC-GATATGGTCTTACATGATAACACATA-CCGATG-CAGATGCCATATCCC
1 CAACGCCATATCC-CAGATATGGTCTTACATGAGAACACA-AGCCGATGCCA-ATGCCATATCCC
* *
34230702 AGATATGGTCTTATACGGGATCTCAT
63 AGACATGGTCTTACACGGGATCTCAT
34230728 CACCCCAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
89 2 0.03
90 71 0.95
91 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (90 bp):
CAACGCCATATCCCAGATATGGTCTTACATGAGAACACAAGCCGATGCCAATGCCATATCCCAGA
CATGGTCTTACACGGGATCTCATAT
Found at i:34234423 original size:159 final size:159
Alignment explanation
Indices: 34234134--34234451 Score: 636
Period size: 159 Copynumber: 2.0 Consensus size: 159
34234124 ATCGAGATTC
34234134 CAAGAAATTCAACGGGGTTAAAATGAGAAATGAGAATGGAATTTCTTGAATCGATGAGCTCATCT
1 CAAGAAATTCAACGGGGTTAAAATGAGAAATGAGAATGGAATTTCTTGAATCGATGAGCTCATCT
34234199 AAAATTAATGCTATAAGGTATTGACATGAGACTAACTTAATGATCGAATGTATGTGATAGGGAAA
66 AAAATTAATGCTATAAGGTATTGACATGAGACTAACTTAATGATCGAATGTATGTGATAGGGAAA
34234264 TTATATTATACTTGTTGGAGTGAATATCT
131 TTATATTATACTTGTTGGAGTGAATATCT
34234293 CAAGAAATTCAACGGGGTTAAAATGAGAAATGAGAATGGAATTTCTTGAATCGATGAGCTCATCT
1 CAAGAAATTCAACGGGGTTAAAATGAGAAATGAGAATGGAATTTCTTGAATCGATGAGCTCATCT
34234358 AAAATTAATGCTATAAGGTATTGACATGAGACTAACTTAATGATCGAATGTATGTGATAGGGAAA
66 AAAATTAATGCTATAAGGTATTGACATGAGACTAACTTAATGATCGAATGTATGTGATAGGGAAA
34234423 TTATATTATACTTGTTGGAGTGAATATCT
131 TTATATTATACTTGTTGGAGTGAATATCT
34234452 AATATGGTTG
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 159 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.31
Consensus pattern (159 bp):
CAAGAAATTCAACGGGGTTAAAATGAGAAATGAGAATGGAATTTCTTGAATCGATGAGCTCATCT
AAAATTAATGCTATAAGGTATTGACATGAGACTAACTTAATGATCGAATGTATGTGATAGGGAAA
TTATATTATACTTGTTGGAGTGAATATCT
Found at i:34240318 original size:48 final size:48
Alignment explanation
Indices: 34240262--34240360 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
34240252 GACCATTAGC
*
34240262 CTACCGGTTGGTGTTGCCATCCGAATTGGAAAAGATTCACGATGTATT
1 CTACCGGTTGGCGTTGCCATCCGAATTGGAAAAGATTCACGATGTATT
34240310 CTACCGGTTGGCGTTGCCATCCGAATTGGAAAAGATTCACGATGTATT
1 CTACCGGTTGGCGTTGCCATCCGAATTGGAAAAGATTCACGATGTATT
34240358 CTA
1 CTA
34240361 TGTATCCATG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (48 bp):
CTACCGGTTGGCGTTGCCATCCGAATTGGAAAAGATTCACGATGTATT
Found at i:34242639 original size:13 final size:13
Alignment explanation
Indices: 34242621--34242655 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
34242611 TTCATTTTGT
34242621 ATATGGC-CATGAG
1 ATATGGCTC-TGAG
34242634 ATATGGCTCTGAG
1 ATATGGCTCTGAG
34242647 ATATGGCTC
1 ATATGGCTC
34242656 ATATTGATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 20 0.95
14 1 0.05
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (13 bp):
ATATGGCTCTGAG
Found at i:34253741 original size:50 final size:50
Alignment explanation
Indices: 34253666--34253764 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
34253656 CCACAACCTT
34253666 ATACTACTACTGAACCACTTTAGAAATTTTATTTTCTTCTTCTCTTCTTA
1 ATACTACTACTGAACCACTTTAGAAATTTTATTTTCTTCTTCTCTTCTTA
*
34253716 ATACTACTACTGAACCACTTTAGAAATTTTCTTTTCTTCTTCTCTTCTT
1 ATACTACTACTGAACCACTTTAGAAATTTTATTTTCTTCTTCTCTTCTT
34253765 CTTTTTCTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.24, C:0.23, G:0.04, T:0.48
Consensus pattern (50 bp):
ATACTACTACTGAACCACTTTAGAAATTTTATTTTCTTCTTCTCTTCTTA
Found at i:34254425 original size:28 final size:30
Alignment explanation
Indices: 34254370--34254434 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 30
34254360 AATTTAGAAT
* *
34254370 TTAG-TTTTTATATTTTTATTTTTAAAAAA
1 TTAGATTTTTATATTTTCATATTTAAAAAA
* *
34254399 TTA-ATTTTT-TATTTTCATATTTCAAAAT
1 TTAGATTTTTATATTTTCATATTTAAAAAA
34254427 TTAGATTT
1 TTAGATTT
34254435 AATTATTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (30 bp):
TTAGATTTTTATATTTTCATATTTAAAAAA
Found at i:34254599 original size:31 final size:31
Alignment explanation
Indices: 34254564--34254639 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
34254554 AAATTTTGTT
* * *
34254564 ATTTTAGTTACTCTTATTAAATAAGTTGTCA
1 ATTTTAGTCACTCTCATTAAATAAGTTATCA
* * * *
34254595 ATTTTAATCACTCTCGTTAGATAAGTTATTA
1 ATTTTAGTCACTCTCATTAAATAAGTTATCA
34254626 ATTTTAGTCACTCT
1 ATTTTAGTCACTCT
34254640 ACCGTTAAGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.47
Consensus pattern (31 bp):
ATTTTAGTCACTCTCATTAAATAAGTTATCA
Found at i:34255426 original size:18 final size:18
Alignment explanation
Indices: 34255399--34255449 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 18
34255389 TGAGTATCTC
34255399 ATATATTTTTATAAATTTTA
1 ATATA-TTTT-TAAATTTTA
*
34255419 ATA-ATTTTT-AATTTTT
1 ATATATTTTTAAATTTTA
34255435 ATATATTTTTAAATT
1 ATATATTTTTAAATT
34255450 CAAATTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 9 0.32
17 7 0.25
18 8 0.29
19 1 0.04
20 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATATTTTTAAATTTTA
Found at i:34262397 original size:30 final size:30
Alignment explanation
Indices: 34262363--34262419 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
34262353 TTTTCAGGCA
* *
34262363 TAGGGGTAAAATGGTTATTTTGCCAAATTC
1 TAGGGGCAAAATGGTCATTTTGCCAAATTC
34262393 TAGGGGCAAAATGGTCATTTTGCCAAA
1 TAGGGGCAAAATGGTCATTTTGCCAAA
34262420 GATGTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCCAAATTC
Found at i:34273899 original size:22 final size:22
Alignment explanation
Indices: 34273858--34273900 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
34273848 GACTATGCGA
*
34273858 TCTGAGCTCATGAGTTATGTGG
1 TCTGAGCTCATGAGTAATGTGG
34273880 TCTGAGCTCATGA-TAAATGTG
1 TCTGAGCTCATGAGT-AATGTG
34273901 ACACATGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (22 bp):
TCTGAGCTCATGAGTAATGTGG
Found at i:34292707 original size:21 final size:20
Alignment explanation
Indices: 34292657--34292697 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
34292647 CTTAGAGGTA
*
34292657 AGAGGTCCCTTTTTCTTCTG
1 AGAGGTACCTTTTTCTTCTG
34292677 AGAGGTACCTTTTTCTTCTG
1 AGAGGTACCTTTTTCTTCTG
34292697 A
1 A
34292698 ACGATGACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.44
Consensus pattern (20 bp):
AGAGGTACCTTTTTCTTCTG
Found at i:34308145 original size:18 final size:15
Alignment explanation
Indices: 34308103--34308142 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
34308093 GTTTTCAGAA
34308103 TACTCTACCAACAAC
1 TACTCTACCAACAAC
34308118 TACTCTACCAACAAC
1 TACTCTACCAACAAC
34308133 TACTCTACCA
1 TACTCTACCA
34308143 CCATCTCGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.23
Consensus pattern (15 bp):
TACTCTACCAACAAC
Found at i:34310644 original size:39 final size:40
Alignment explanation
Indices: 34310549--34310810 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
34310539 TTGAATGATG
*
34310549 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
34310587 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
34310628 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
34310667 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
34310706 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
34310745 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
34310784 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
34310811 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:34314777 original size:50 final size:50
Alignment explanation
Indices: 34314702--34314803 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
34314692 GATCATGCTA
34314702 CTCAAGATTTTTTTCAGGAAATTGTACATAAGGACATGATAGAACTATGT
1 CTCAAGATTTTTTTCAGGAAATTGTACATAAGGACATGATAGAACTATGT
34314752 CTCAAGATTTTTTTCAGGAAATTGTACATAAGGACATGATAGAACTATGT
1 CTCAAGATTTTTTTCAGGAAATTGTACATAAGGACATGATAGAACTATGT
34314802 CT
1 CT
34314804 AGCCCAAGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (50 bp):
CTCAAGATTTTTTTCAGGAAATTGTACATAAGGACATGATAGAACTATGT
Found at i:34316370 original size:40 final size:40
Alignment explanation
Indices: 34316326--34316513 Score: 304
Period size: 40 Copynumber: 4.7 Consensus size: 40
34316316 GCAAACACAT
* * * *
34316326 TTGCCTTTGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
34316366 TTGCCTTCGGGTCTTAACCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
34316406 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
34316446 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
34316486 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
34316514 TCCAGTGCTC
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:34323192 original size:23 final size:23
Alignment explanation
Indices: 34323166--34323220 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
34323156 GGGACCACAA
34323166 AACCGATATGAGTTATGAAAAAG
1 AACCGATATGAGTTATGAAAAAG
34323189 AACCGATATGAGTTATGAAAAAG
1 AACCGATATGAGTTATGAAAAAG
34323212 AACCGATAT
1 AACCGATAT
34323221 AATTAGCCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (23 bp):
AACCGATATGAGTTATGAAAAAG
Found at i:34325127 original size:39 final size:40
Alignment explanation
Indices: 34325032--34325254 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
34325022 TTGAATGATG
*
34325032 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
34325070 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
34325111 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
34325150 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
34325189 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
34325228 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
34325255 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:34325218 original size:79 final size:81
Alignment explanation
Indices: 34325032--34325254 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
34325022 TTGAATGATG
* * *
34325032 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
34325094 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
34325111 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
34325172 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
34325189 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
34325253 TG
66 TG
34325255 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:34325276 original size:79 final size:79
Alignment explanation
Indices: 34325032--34325287 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
34325022 TTGAATGATG
* * * *
34325032 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
34325093 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
34325111 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
34325175 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
34325189 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
34325252 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
34325269 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
34325288 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:34328015 original size:118 final size:118
Alignment explanation
Indices: 34327807--34328041 Score: 416
Period size: 118 Copynumber: 2.0 Consensus size: 118
34327797 GTTACAGGGA
34327807 TCGACTACACTGACCTTTGCACATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGAT
1 TCGACTACACTGACCTTTGCACATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGAT
* * *
34327872 GTCGTTTGTTTCTATAGAACCTAGACTCAGATAGGAATCTATACATATATGGC
66 GCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGC
* *
34327925 TCGACTACCCTGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGAT
1 TCGACTACACTGACCTTTGCACATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGAT
*
34327990 GCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATCCATATATGG
66 GCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATGG
34328042 TATGACTCCT
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 111 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (118 bp):
TCGACTACACTGACCTTTGCACATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGAT
GCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGC
Found at i:34329055 original size:40 final size:39
Alignment explanation
Indices: 34329011--34329153 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 39
34329001 GCTCCTCGTT
*
34329011 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGTTATAGTAATTCGCA
* *
34329051 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGG-TTATAGTAATTCGCA
*
34329091 CAAATGCCTTCGGGCTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGTTA-TAGTAAT-TCGCA
34329130 CAAATGCCTTCGGGCTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGG
34329154 AATTAGTATC
Statistics
Matches: 93, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.01
39 42 0.45
40 48 0.52
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGTTATAGTAATTCGCA
Found at i:34329113 original size:79 final size:79
Alignment explanation
Indices: 34329011--34329161 Score: 218
Period size: 79 Copynumber: 1.9 Consensus size: 79
34329001 GCTCCTCGTT
*
34329011 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACATAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTCGGG-CTTAACCC
*
34329074 GGATTTAGTAACTCGCA
63 GGAATTAGTAACTCGCA
* *
34329091 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAACCCGGA
34329155 ATTAGTA
66 ATTAGTA
34329162 TCAAATGCCT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
78 18 0.28
79 32 0.49
80 15 0.23
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGGCTTAACCCGGA
ATTAGTAACTCGCA
Found at i:34329227 original size:39 final size:40
Alignment explanation
Indices: 34329011--34329227 Score: 221
Period size: 39 Copynumber: 5.7 Consensus size: 40
34329001 GCTCCTCGTT
* *
34329011 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGT-ATTCGCA
* *
34329051 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGT-ATTCGCA
34329091 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAT-TCGCA
34329130 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-T----
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTATTCGCA
* *
34329163 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGT-A-TTCGCA
34329204 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34329228 CAACATTCAA
Statistics
Matches: 155, Mismatches: 8, Indels: 29
0.81 0.04 0.15
Matches are distributed among these distances:
32 2 0.01
33 11 0.07
34 12 0.08
35 4 0.03
37 2 0.01
38 1 0.01
39 68 0.44
40 54 0.35
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTATTCGCA
Found at i:34329279 original size:65 final size:65
Alignment explanation
Indices: 34329175--34329303 Score: 258
Period size: 65 Copynumber: 2.0 Consensus size: 65
34329165 AATGCCTTCG
34329175 GATCTTAGTCCGGATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCCGGACAACATTCAAAA
1 GATCTTAGTCCGGATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCCGGACAACATTCAAAA
34329240 GATCTTAGTCCGGATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCCGGACAACATTCAAA
1 GATCTTAGTCCGGATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCCGGACAACATTCAAA
34329304 TAACCATGCA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (65 bp):
GATCTTAGTCCGGATATTGTCACTTAGCACAAGCCTTCGGGACTTAGCCCGGACAACATTCAAAA
Found at i:34331590 original size:100 final size:100
Alignment explanation
Indices: 34331417--34331614 Score: 387
Period size: 100 Copynumber: 2.0 Consensus size: 100
34331407 ACGATCTGTC
*
34331417 GCTGCTTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCGGCATCCTTAATCAAATCAACTCT
1 GCTGCTTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCGGCATCCTTAATCAAATCAACTCC
34331482 GAAAATTTTACTTTCACCGAGCTCGGTCCAAAATG
66 GAAAATTTTACTTTCACCGAGCTCGGTCCAAAATG
34331517 GCTGCTTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCGGCATCCTTAATCAAATCAACTCC
1 GCTGCTTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCGGCATCCTTAATCAAATCAACTCC
34331582 GAAAATTTTACTTTCACCGAGCTCGGTCCAAAA
66 GAAAATTTTACTTTCACCGAGCTCGGTCCAAAA
34331615 CAATGGTGTA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (100 bp):
GCTGCTTTCAGACTTTCACGGATTACCTTTACTTTCTGTTCGGCATCCTTAATCAAATCAACTCC
GAAAATTTTACTTTCACCGAGCTCGGTCCAAAATG
Done.