Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 42 of 218
Found at i:12995463 original size:25 final size:25
Alignment explanation
Indices: 12995411--12995463 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
12995401 TTAGTGTAGA
* * *
12995411 TTAAAAGATTTGAAGAAATACTTTC
1 TTAAAAGATTTAAAGAAAAAATTTC
12995436 TTAAAA-ATTTAAAGAAAAAATTTAC
1 TTAAAAGATTTAAAGAAAAAATTT-C
12995461 TTA
1 TTA
12995464 TTTAGTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.36
Consensus pattern (25 bp):
TTAAAAGATTTAAAGAAAAAATTTC
Found at i:13001711 original size:16 final size:16
Alignment explanation
Indices: 13001690--13001757 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
13001680 TTTGGTTCGC
13001690 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
13001706 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
13001722 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13001738 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
13001754 TGTA
1 TGTA
13001758 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:13002073 original size:61 final size:61
Alignment explanation
Indices: 13002008--13002318 Score: 245
Period size: 61 Copynumber: 5.2 Consensus size: 61
13001998 TTATAATTAA
*
13002008 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATGATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * *
13002069 AATATATGATACT-ATAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATGAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCA
13002127 -
61 T
*
13002127 ACATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 A-ATATATGATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* ** * * * * ** * *
13002189 AATATATGATACT-ATAAAA--GATAAT--TTAACATAGTTATTAT-TAAATATATTTTAATTAA
1 AATATATGAT-TTAATAAAATTCTTAATAATT-A-ATA-TTCTTATATGAATTTACTCAAATCAT
*
13002248 AATATATGATTTAATAAAATTCTTAATAATTAATATTCTTTTATGAATTTACTCAAATCAT
1 AATATATGATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
13002309 AATATATGAT
1 AATATATGAT
13002319 ACTATAAAAG
Statistics
Matches: 186, Mismatches: 40, Indels: 48
0.68 0.15 0.18
Matches are distributed among these distances:
57 6 0.03
58 8 0.04
59 61 0.33
60 27 0.15
61 70 0.38
62 8 0.04
63 6 0.03
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (61 bp):
AATATATGATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:13002120 original size:15 final size:16
Alignment explanation
Indices: 13002092--13002134 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
13002082 ATAAAATATA
13002092 AATTAACATA-ATTAT
1 AATTAACATATATTAT
*
13002107 TATTAA-ATATATTAT
1 AATTAACATATATTAT
13002122 AATTAACATATAT
1 AATTAACATATAT
13002135 AATTTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 15 0.62
16 6 0.25
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAACATATATTAT
Found at i:13002146 original size:59 final size:56
Alignment explanation
Indices: 13001976--13002267 Score: 137
Period size: 57 Copynumber: 4.9 Consensus size: 56
13001966 ATCATATTTA
* * *
13001976 AACATAATTACTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATT-TAATT-AAATATATAATTTAATAAAA-TATAAAT
* * * * * *
13002035 AA-TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
1 AACATAATTATTATTAAAT-ATATTTAATTAAAT-AT-ATA-AT-TTA--ATAAAATATAAA-T
* *
13002096 AACATAATTATTATTAAATATATTATAATTAACATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATT-TAATTAA-ATATATAATTTAATAAAA-TATAAAT
* * * * * * * *
13002155 AA-TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
1 AACATAATTATTATTAAAT-ATATTTAATTAAAT-AT-ATA-AT-TTA--ATAAAATATAA-AT
* *
13002216 AACATAGTTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAAT
1 AACATAATTATTATTAAATATA-TTTAATT-AAATATATAATTTAATAAAAT
13002268 TCTTAATAAT
Statistics
Matches: 170, Mismatches: 36, Indels: 54
0.65 0.14 0.21
Matches are distributed among these distances:
55 6 0.04
56 12 0.07
57 29 0.17
58 12 0.07
59 21 0.12
60 10 0.06
61 22 0.13
62 11 0.06
63 27 0.16
64 14 0.08
65 6 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (56 bp):
AACATAATTATTATTAAATATATTTAATTAAATATATAATTTAATAAAATATAAAT
Found at i:13002189 original size:120 final size:120
Alignment explanation
Indices: 13001976--13002329 Score: 636
Period size: 120 Copynumber: 3.0 Consensus size: 120
13001966 ATCATATTTA
*
13001976 AACATAATTACTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
13002041 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
*
13002096 AACATAATTATTATTAAATATATTATAATTAACATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
13002161 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
* * *
13002216 AACATAGTTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
13002281 TATTCTTTTATGAATTTACTCAAATCATAATATATGATACTATAAAAGA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA
13002330 AAACTGATCA
Statistics
Matches: 225, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 225 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATT
Found at i:13002254 original size:18 final size:17
Alignment explanation
Indices: 13002231--13002267 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
13002221 AGTTATTATT
13002231 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
13002247 AAATATATGATTTAATA
1 AAATATATGATTTAATA
13002264 AAAT
1 AAAT
13002268 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:13008958 original size:13 final size:13
Alignment explanation
Indices: 13008940--13009005 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
13008930 AGTTCTTCAT
13008940 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
13008953 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
**
13008966 TGC-CGTGAAAAAG
1 TGCTTTTG-AAAAG
** *
13008979 TGCCGTGGAAAAG
1 TGCTTTTGAAAAG
*
13008992 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
13009005 T
1 T
13009006 TTGGTTTAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 2 0.05
13 39 0.93
14 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:13014695 original size:18 final size:19
Alignment explanation
Indices: 13014665--13014702 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
13014655 ATGGAATTTT
13014665 TGATGATATTATTT-ATTA
1 TGATGATATTATTTGATTA
13014683 TGATAGATA-TATTTGATTA
1 TGAT-GATATTATTTGATTA
13014702 T
1 T
13014703 AAAATATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (19 bp):
TGATGATATTATTTGATTA
Found at i:13014999 original size:36 final size:37
Alignment explanation
Indices: 13014937--13015020 Score: 118
Period size: 36 Copynumber: 2.3 Consensus size: 37
13014927 TTCGGAGCCA
13014937 TTGGTGTGTTTCGAAATGGATTAGCTCTGATGAG-TAT
1 TTGGTGTGTTTCGAAATGGATTAGCTCTGATGAGCT-T
* *
13014974 TTGGTGTGTTTC-AGATGGATTAGCTCTTATGAGCTT
1 TTGGTGTGTTTCGAAATGGATTAGCTCTGATGAGCTT
*
13015010 CTGGTGTGTTT
1 TTGGTGTGTTT
13015021 TGGTTGCATT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 30 0.70
37 13 0.30
ACGTcount: A:0.17, C:0.10, G:0.30, T:0.44
Consensus pattern (37 bp):
TTGGTGTGTTTCGAAATGGATTAGCTCTGATGAGCTT
Found at i:13016187 original size:4 final size:4
Alignment explanation
Indices: 13016178--13016379 Score: 404
Period size: 4 Copynumber: 50.5 Consensus size: 4
13016168 ATAGGGACGT
13016178 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
13016226 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
13016274 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
13016322 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
13016370 TGTA TGTA TG
1 TGTA TGTA TG
13016380 AATGGTTTAT
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 198 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:13018702 original size:27 final size:27
Alignment explanation
Indices: 13018672--13018723 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
13018662 AACAGCTCAC
*
13018672 ATTTTATTTCAAATATCTATATCCAAT
1 ATTTCATTTCAAATATCTATATCCAAT
* *
13018699 ATTTCATTTCATATATCTATTTCCA
1 ATTTCATTTCAAATATCTATATCCA
13018724 TATAACCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTCATTTCAAATATCTATATCCAAT
Found at i:13018736 original size:27 final size:26
Alignment explanation
Indices: 13018706--13019165 Score: 144
Period size: 27 Copynumber: 17.3 Consensus size: 26
13018696 AATATTTCAT
13018706 TTCATATATCTATTTCCATATAACCAA
1 TTCATATATCTATTT-CATATAACCAA
* * **
13018733 TTCATATAACCATTTCATAT-TTCAA
1 TTCATATATCTATTTCATATAACCAA
* *
13018758 TTTCCATGTA-CT-TGATTCATATAACCAT
1 -TT-CATATATCTAT--TTCATATAACCAA
*
13018786 TTCATATATCTATTTCCATATAACCGA
1 TTCATATATCTATTT-CATATAACCAA
* *
13018813 TTCATATATCTACTTCCATATAACCGA
1 TTCATATATCTA-TTTCATATAACCAA
* * * * * * *
13018840 TTTATATAACCATTTCATTTATCTATT
1 TTCATATATCTATTTCATATAACCA-A
* * * * *
13018867 TTCATATAACTGA-TTCATTTATCTAC
1 TTCATATATCT-ATTTCATATAACCAA
* * *
13018893 TTCCATATAACTGA-ATCATATAACCAT
1 TT-CATATATCT-ATTTCATATAACCAA
* * *
13018920 TTCATTTATCTATTTCCATATAAACGA
1 TTCATATATCTATTT-CATATAACCAA
* * * * * *
13018947 TTCATATAACCATTTTATATATCTAC
1 TTCATATATCTATTTCATATAACCAA
*** *
13018973 TTCCATATATCCGGTTCATATAACCAT
1 TT-CATATATCTATTTCATATAACCAA
* ***
13019000 TTCATTTATCTATTTCCATATAATTGA
1 TTCATATATCTATTT-CATATAACCAA
* * * * * *
13019027 TTCATATAACCATTTCATTTATCTAT
1 TTCATATATCTATTTCATATAACCAA
* *
13019053 TTCCATATAATCGA-TTCATATAACCAT
1 TT-CATAT-ATCTATTTCATATAACCAA
* * ***
13019080 TTCTTATATTTA-TTCATATAATTGA
1 TTCATATATCTATTTCATATAACCAA
* * * * * *
13019105 TTCATATAACCATTTCATTTATCTAT
1 TTCATATATCTATTTCATATAACCAA
* *
13019131 TTCCATATAATC-AATTCATATAACCAT
1 TT-CATAT-ATCTATTTCATATAACCAA
13019158 TTCATATA
1 TTCATATA
13019166 CTACTCTTCA
Statistics
Matches: 318, Mismatches: 94, Indels: 44
0.70 0.21 0.10
Matches are distributed among these distances:
25 26 0.08
26 76 0.24
27 205 0.64
28 11 0.03
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.44
Consensus pattern (26 bp):
TTCATATATCTATTTCATATAACCAA
Found at i:13018747 original size:40 final size:40
Alignment explanation
Indices: 13018703--13018820 Score: 175
Period size: 40 Copynumber: 3.0 Consensus size: 40
13018693 TCCAATATTT
*
13018703 CATTTCATATATCTATTTCCATATAACCAATTCATATAAC
1 CATTTCATATATCTATTTCCATATAACCGATTCATATAAC
* * * *
13018743 CATTTCATATTTCAATTTCCATGT-ACTTGATTCATATAAC
1 CATTTCATATATCTATTTCCATATAAC-CGATTCATATAAC
13018783 CATTTCATATATCTATTTCCATATAACCGATTCATATA
1 CATTTCATATATCTATTTCCATATAACCGATTCATATA
13018821 TCTACTTCCA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.03
40 63 0.94
41 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.42
Consensus pattern (40 bp):
CATTTCATATATCTATTTCCATATAACCGATTCATATAAC
Found at i:13018788 original size:67 final size:68
Alignment explanation
Indices: 13018706--13018954 Score: 204
Period size: 67 Copynumber: 3.7 Consensus size: 68
13018696 AATATTTCAT
* * * * *
13018706 TTCATATATCTATTTCCATATAACCAATT-CATATAACC-ATTTCATATTTCAATTTCCATGT-A
1 TTCATATAACCATTTCCATATAACCAATTCCATATAACCGA-TTCATATATCAACTTCCATATAA
*
13018768 CTTGA
65 C-CGA
* * * *
13018773 TTCATATAACCATTT-CATATATCTATTTCCATATAACCGATTCATATATCTACTTCCATATAAC
1 TTCATATAACCATTTCCATATAACCAATTCCATATAACCGATTCATATATCAACTTCCATATAAC
13018837 CGA
66 CGA
* * * * * * * * *
13018840 TTTATATAACCATTT-CATTTATCTATTTTCATATAACTGATTCATTTATCTACTTCCATATAAC
1 TTCATATAACCATTTCCATATAACCAATTCCATATAACCGATTCATATATCAACTTCCATATAAC
*
13018904 TGA
66 CGA
* * * * * *
13018907 ATCATATAACCATTT-CATTTATCTATTTCCATATAAACGATTCATATA
1 TTCATATAACCATTTCCATATAACCAATTCCATATAACCGATTCATATA
13018955 ACCATTTTAT
Statistics
Matches: 157, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
66 10 0.06
67 144 0.92
68 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (68 bp):
TTCATATAACCATTTCCATATAACCAATTCCATATAACCGATTCATATATCAACTTCCATATAAC
CGA
Found at i:13018847 original size:40 final size:40
Alignment explanation
Indices: 13018803--13018881 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
13018793 ATCTATTTCC
13018803 ATATAACCGA-TTCATATATCTACTTCCATATAACCGATTT
1 ATATAACC-ATTTCATATATCTACTTCCATATAACCGATTT
* * * *
13018843 ATATAACCATTTCATTTATCTATTTTCATATAACTGATT
1 ATATAACCATTTCATATATCTACTTCCATATAACCGATT
13018882 CATTTATCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (40 bp):
ATATAACCATTTCATATATCTACTTCCATATAACCGATTT
Found at i:13018912 original size:40 final size:40
Alignment explanation
Indices: 13018867--13019162 Score: 381
Period size: 40 Copynumber: 7.5 Consensus size: 40
13018857 TTTATCTATT
* *
13018867 TTCATATAACTGA-TTCATTTATCTACTTCCATATAACTGA
1 TTCATATAAC-CATTTCATTTATCTATTTCCATATAACTGA
*
13018907 ATCATATAACCATTTCATTTATCTATTTCCATATAAAC-GA
1 TTCATATAACCATTTCATTTATCTATTTCCATAT-AACTGA
* * * * * *
13018947 TTCATATAACCATTTTATATATCTACTTCCATATATCCGG
1 TTCATATAACCATTTCATTTATCTATTTCCATATAACTGA
*
13018987 TTCATATAACCATTTCATTTATCTATTTCCATATAATTGA
1 TTCATATAACCATTTCATTTATCTATTTCCATATAACTGA
13019027 TTCATATAACCATTTCATTTATCTATTTCCATATAA-TCGA
1 TTCATATAACCATTTCATTTATCTATTTCCATATAACT-GA
* *
13019067 TTCATATAACCATTTC-TTATATTTA-TT-CATATAATTGA
1 TTCATATAACCATTTCATT-TATCTATTTCCATATAACTGA
*
13019105 TTCATATAACCATTTCATTTATCTATTTCCATATAA-TCAA
1 TTCATATAACCATTTCATTTATCTATTTCCATATAACT-GA
13019145 TTCATATAACCATTTCAT
1 TTCATATAACCATTTCAT
13019163 ATACTACTCT
Statistics
Matches: 227, Mismatches: 19, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
38 30 0.13
39 14 0.06
40 180 0.79
41 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.45
Consensus pattern (40 bp):
TTCATATAACCATTTCATTTATCTATTTCCATATAACTGA
Found at i:13018981 original size:67 final size:66
Alignment explanation
Indices: 13018772--13018954 Score: 269
Period size: 67 Copynumber: 2.7 Consensus size: 66
13018762 CATGTACTTG
* *
13018772 ATTCATATAACCATTTCATATATCTATTTCCATATAACCGATTCATATATCTACTTCCATATAAC
1 ATTCATATAACCATTTCATTTATCTATTTCCATATAAACGATTCATATATCTACTTCCATATAA-
*
13018837 CG
65 CT
* * *
13018839 ATTTATATAACCATTTCATTTATCTATTTTCATAT-AACTGATTCATTTATCTACTTCCATATAA
1 ATTCATATAACCATTTCATTTATCTATTTCCATATAAAC-GATTCATATATCTACTTCCATATAA
13018903 CT
65 CT
*
13018905 GAATCATATAACCATTTCATTTATCTATTTCCATATAAACGATTCATATA
1 -ATTCATATAACCATTTCATTTATCTATTTCCATATAAACGATTCATATA
13018955 ACCATTTTAT
Statistics
Matches: 103, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
66 3 0.03
67 97 0.94
68 3 0.03
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (66 bp):
ATTCATATAACCATTTCATTTATCTATTTCCATATAAACGATTCATATATCTACTTCCATATAAC
T
Found at i:13018995 original size:120 final size:117
Alignment explanation
Indices: 13018867--13019162 Score: 427
Period size: 120 Copynumber: 2.5 Consensus size: 117
13018857 TTTATCTATT
* *
13018867 TTCATATAACTGA-TTCATTTATCTACTTCCATATAACTGAATCATATAACCATTTCATTTATCT
1 TTCATATAAC-CATTTCATTTATCTATTTCCATATAA-TGAATCATATAACCATTTCATTTATCT
*
13018931 ATTTCCATATAAACGATTCATATAACCATTT-TATATATCTACTTCCATAT-ATCCGG
64 ATTTCCATATAAACGATTCATATAACCATTTCT-TATATCTA-TT-CATATAAT-CGA
*
13018987 TTCATATAACCATTTCATTTATCTATTTCCATATAATTGATTCATATAACCATTTCATTTATCTA
1 TTCATATAACCATTTCATTTATCTATTTCCATATAA-TGAATCATATAACCATTTCATTTATCTA
* * *
13019052 TTTCCATATAATCGATTCATATAACCATTTCTTATATTTATTCATATAATTGA
65 TTTCCATATAAACGATTCATATAACCATTTCTTATATCTATTCATATAATCGA
*
13019105 TTCATATAACCATTTCATTTATCTATTTCCATATAATCAATTCATATAACCATTTCAT
1 TTCATATAACCATTTCATTTATCTATTTCCATATAATGAA-TCATATAACCATTTCAT
13019163 ATACTACTCT
Statistics
Matches: 162, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
117 2 0.01
118 59 0.36
119 5 0.03
120 95 0.59
121 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.45
Consensus pattern (117 bp):
TTCATATAACCATTTCATTTATCTATTTCCATATAATGAATCATATAACCATTTCATTTATCTAT
TTCCATATAAACGATTCATATAACCATTTCTTATATCTATTCATATAATCGA
Found at i:13022388 original size:16 final size:15
Alignment explanation
Indices: 13022364--13022404 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
13022354 TATTAATTCA
*
13022364 TAATATAATTAAATT
1 TAATTTAATTAAATT
*
13022379 TAATTTTAATTCAATT
1 TAA-TTTAATTAAATT
13022395 TAATTTAATT
1 TAATTTAATT
13022405 TGGGTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTTAATTAAATT
Found at i:13028282 original size:16 final size:17
Alignment explanation
Indices: 13028263--13028300 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
13028253 AATGCTTGTG
13028263 AAAGAAAA-AGAAAAAA
1 AAAGAAAAGAGAAAAAA
*
13028279 AAAGAAAAGTGAAAAAA
1 AAAGAAAAGAGAAAAAA
13028296 AAAGA
1 AAAGA
13028301 GCATATGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (17 bp):
AAAGAAAAGAGAAAAAA
Found at i:13028903 original size:10 final size:10
Alignment explanation
Indices: 13028854--13028905 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
13028844 ATTAACATGT
*
13028854 TTAATTTTAA
1 TTAATTTTGA
13028864 TTAATTTT-A
1 TTAATTTTGA
13028873 TATCAAATTTTGA
1 T-T--AATTTTGA
13028886 TTAATTTTGA
1 TTAATTTTGA
*
13028896 TTATTTTTGA
1 TTAATTTTGA
13028906 CAGATTTGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
9 2 0.05
10 26 0.70
12 7 0.19
13 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.60
Consensus pattern (10 bp):
TTAATTTTGA
Found at i:13030326 original size:17 final size:17
Alignment explanation
Indices: 13030304--13030337 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
13030294 ATTCTAAGTT
13030304 AAGAAATGTAATTAATC
1 AAGAAATGTAATTAATC
13030321 AAGAAATGTAATTAATC
1 AAGAAATGTAATTAATC
13030338 TAACACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
AAGAAATGTAATTAATC
Found at i:13032486 original size:14 final size:15
Alignment explanation
Indices: 13032464--13032501 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
13032454 TTATTATTGT
*
13032464 TTATAATATTTAT-A
1 TTATGATATTTATAA
13032478 TTATGATATTTATAA
1 TTATGATATTTATAA
*
13032493 TTGTGATAT
1 TTATGATAT
13032502 ATATGTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (15 bp):
TTATGATATTTATAA
Found at i:13042229 original size:31 final size:31
Alignment explanation
Indices: 13042194--13042298 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 31
13042184 TTTAATAAAC
*
13042194 TTAATTTAATATTTATCTTCATAGTATTTTA
1 TTAATTTAATATTTATCTTGATAGTATTTTA
* * * * * **
13042225 TTAATATAGTATTAAT-GTGAGA-TATTAAA
1 TTAATTTAATATTTATCTTGATAGTATTTTA
* *
13042254 TTTGATTTAATATTTATCTTGATAGTGTTTTA
1 -TTAATTTAATATTTATCTTGATAGTATTTTA
13042286 TTAATTTAATATT
1 TTAATTTAATATT
13042299 AATATGAGTA
Statistics
Matches: 53, Mismatches: 18, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
29 5 0.09
30 15 0.28
31 29 0.55
32 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (31 bp):
TTAATTTAATATTTATCTTGATAGTATTTTA
Found at i:13049621 original size:23 final size:23
Alignment explanation
Indices: 13049591--13049641 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
13049581 CTACATCCCT
13049591 AATCCCTTAGAACCAAATCGTGA
1 AATCCCTTAGAACCAAATCGTGA
*
13049614 AATCCCTTAGAACCCAATCGTGA
1 AATCCCTTAGAACCAAATCGTGA
13049637 AATCC
1 AATCC
13049642 TTAATATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (23 bp):
AATCCCTTAGAACCAAATCGTGA
Found at i:13050868 original size:16 final size:16
Alignment explanation
Indices: 13050847--13050884 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
13050837 TATGATTAGT
*
13050847 CTATACACCATTCACC
1 CTATACACCATCCACC
*
13050863 CTATACACCATCCACG
1 CTATACACCATCCACC
13050879 CTATAC
1 CTATAC
13050885 CAGCCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.42, G:0.03, T:0.24
Consensus pattern (16 bp):
CTATACACCATCCACC
Found at i:13059584 original size:26 final size:26
Alignment explanation
Indices: 13059555--13059614 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
13059545 ATGTTTTGTC
13059555 TTTGGATTTTTGATGAATTTGAGTAA
1 TTTGGATTTTTGATGAATTTGAGTAA
13059581 TTTGGATTTTTGATGAATTTGAGTAA
1 TTTGGATTTTTGATGAATTTGAGTAA
13059607 TTTGGATT
1 TTTGGATT
13059615 AAATTGTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (26 bp):
TTTGGATTTTTGATGAATTTGAGTAA
Found at i:13060539 original size:36 final size:37
Alignment explanation
Indices: 13060492--13060575 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 37
13060482 ACAATTGAAC
* * * * *
13060492 TTATAAGTGATTCGGCCTATTGATGTATTTGTAATA-
1 TTATAAGTGATTCAGCATAATGATATAGTTGTAATAT
13060528 TTATAAGTGATTCAGCATAATGATATAGTTGTAATAT
1 TTATAAGTGATTCAGCATAATGATATAGTTGTAATAT
*
13060565 TTAAAAGTGAT
1 TTATAAGTGAT
13060576 AATTATATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
36 31 0.76
37 10 0.24
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.42
Consensus pattern (37 bp):
TTATAAGTGATTCAGCATAATGATATAGTTGTAATAT
Found at i:13070538 original size:124 final size:123
Alignment explanation
Indices: 13070343--13070637 Score: 509
Period size: 124 Copynumber: 2.4 Consensus size: 123
13070333 TAATTTCGAG
*
13070343 TTTATTTTTCTGAGCAAATAGTATAAAATCGCTTTTAGCATGATGCTATTTGAGAAGAATTTGTG
1 TTTAATTTTCTGAGCAAATAGTATAAAATCGCTTTTAGCATGATGCTATTTGAGAAGAATTTGTG
13070408 AAATCGCGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAG-AATAATTTTTT
13070467 TTTAATTTTCTGAGCAAATAGTATAAAATCGCTTTTAGCATGATGCTATTTGAGAAGAATTTGTG
1 TTTAATTTTCTGAGCAAATAGTATAAAATCGCTTTTAGCATGATGCTATTTGAGAAGAATTTGTG
**
13070532 AAATCGCGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAATTTTTTTTT
66 AAATCGCGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAATAATTTTTT
* * * *
13070590 TTTGACTTTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCT
1 TTT-AATTTTCTGAGCAAATAGTATAAAATCGCTTTTAGCATGATGCT
13070638 TTGTGAAATC
Statistics
Matches: 163, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
123 12 0.07
124 151 0.93
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (123 bp):
TTTAATTTTCTGAGCAAATAGTATAAAATCGCTTTTAGCATGATGCTATTTGAGAAGAATTTGTG
AAATCGCGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAATAATTTTTT
Found at i:13073902 original size:22 final size:22
Alignment explanation
Indices: 13073871--13073999 Score: 109
Period size: 22 Copynumber: 5.5 Consensus size: 22
13073861 AAATATGGAT
*
13073871 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAAGAAA
*
13073893 TTAAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTTGGAAAGAAA
* *
13073915 TTGAGAGGAA-ATT-GAAATTAAA
1 TTGAGA-GAATTTTGGAAA-GAAA
*
13073937 TATGGATATAAGAGAATTTTGGAAGGAAA
1 T-T-G-----AGAGAATTTTGGAAAGAAA
13073966 TTGAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTTGGAAAGAAA
13073988 TTGAGAGGAATT
1 TTGAGA-GAATT
13074000 GAGAGGAAAT
Statistics
Matches: 86, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
21 4 0.05
22 55 0.64
23 9 0.10
24 1 0.01
27 1 0.01
28 4 0.05
29 9 0.10
30 3 0.03
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.28
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAAGAAA
Found at i:13073924 original size:73 final size:73
Alignment explanation
Indices: 13073847--13074001 Score: 267
Period size: 73 Copynumber: 2.1 Consensus size: 73
13073837 ATTTTAAAAA
* *
13073847 AGGAAATTGAAATCAAATATGGATTTGAGAGAATTTTGGAAGGAAATTAAGAGAATTTTGGAAAG
1 AGGAAATTGAAATCAAATATGGATATAAGAGAATTTTGGAAGGAAATTAAGAGAATTTTGGAAAG
13073912 AAATTGAG
66 AAATTGAG
* *
13073920 AGGAAATTGAAATTAAATATGGATATAAGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAAG
1 AGGAAATTGAAATCAAATATGGATATAAGAGAATTTTGGAAGGAAATTAAGAGAATTTTGGAAAG
13073985 AAATTGAG
66 AAATTGAG
13073993 AGG-AATTGA
1 AGGAAATTGA
13074002 GAGGAAATAT
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
72 6 0.08
73 72 0.92
ACGTcount: A:0.46, C:0.01, G:0.26, T:0.27
Consensus pattern (73 bp):
AGGAAATTGAAATCAAATATGGATATAAGAGAATTTTGGAAGGAAATTAAGAGAATTTTGGAAAG
AAATTGAG
Found at i:13074016 original size:12 final size:11
Alignment explanation
Indices: 13073984--13074016 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
13073974 ATTTTGGAAA
13073984 GAAATTGAGAG
1 GAAATTGAGAG
13073995 G-AATTGAGAG
1 GAAATTGAGAG
13074005 GAAATATGAGAG
1 GAAAT-TGAGAG
13074017 AGGATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.18
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:13075262 original size:32 final size:32
Alignment explanation
Indices: 13075221--13075285 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 32
13075211 GACACCTATG
13075221 TTTCCTATTTTGTTTCAAT-TCTTTACCATATA
1 TTTCCTATTTTGTTTCAATATC-TTACCATATA
13075253 TTTCCTATTTTGTTTCAATATCTTACCATATA
1 TTTCCTATTTTGTTTCAATATCTTACCATATA
13075285 T
1 T
13075286 GTATGTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.23, C:0.18, G:0.03, T:0.55
Consensus pattern (32 bp):
TTTCCTATTTTGTTTCAATATCTTACCATATA
Found at i:13077387 original size:34 final size:35
Alignment explanation
Indices: 13077327--13077396 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
13077317 AAGGAAGGAA
* *
13077327 TTGATATATCTGTTTGCAGTTTTTGTATTTCATGT
1 TTGATATATCTGTTTGCAGTTGTTGTATTGCATGT
*
13077362 TTGAT-TATCTGTTTGTA-TTAGTTGTATTGCATGT
1 TTGATATATCTGTTTGCAGTT-GTTGTATTGCATGT
13077396 T
1 T
13077397 AGAAGGGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 2 0.06
34 24 0.77
35 5 0.16
ACGTcount: A:0.17, C:0.07, G:0.19, T:0.57
Consensus pattern (35 bp):
TTGATATATCTGTTTGCAGTTGTTGTATTGCATGT
Found at i:13080384 original size:174 final size:175
Alignment explanation
Indices: 13080034--13080518 Score: 742
Period size: 174 Copynumber: 2.8 Consensus size: 175
13080024 TACAAGACAG
* *
13080034 CTAAAACAAAGTAATAAATCAACAAAGAAACTGAATTTGAACAAATTTTGTTGCTCAGGTAACCG
1 CTAAAACAACGTAATAAATCAACAAAGAAATTGAATTTGAACAAATTTTGTTGCTCAGGTAACCG
* * *
13080099 CTCAGATTGACATGGTTGTCGATGTTTCATTAAATTTTCATAAATTCTAATATAATCATCACAGC
66 CTCAGATCGACATAGTTGTCGATGTTTCACTAAATTTTCATAAATTCTAATATAATCATCACAGC
13080164 AACAAAACCACAGATTCACATACAATAAAATGTATCATAAGACGA
131 AACAAAACCACAGATTCACATACAATAAAATGTATCATAAGACGA
*
13080209 CTAAAGA-AACGTAATAAATCAACAAGGAAATTGAATTTGAACAAATTTTGTTGCTCAGGTAACC
1 CTAAA-ACAACGTAATAAATCAACAAAGAAATTGAATTTGAACAAATTTTGTTGCTCAGGTAACC
*
13080273 ACTCAGATCGACATAGTTGTCGATGTTTCA-TAAATTTTCATAAATTCTAATATAATCATCACAG
65 GCTCAGATCGACATAGTTGTCGATGTTTCACTAAATTTTCATAAATTCTAATATAATCATCACAG
** * **
13080337 CAACAAAACTGCAGATTCACATACAATAAGAT-TAATTGTAAGACGA
130 CAACAAAACCACAGATTCACATACAATAAAATGT-ATCATAAGACGA
* * * *
13080383 CTAAAACAATGTGATAAATCAACAAAGAGATAGAATTTGAACAAATTTTGTTGCTCAGGTAACCG
1 CTAAAACAACGTAATAAATCAACAAAGAAATTGAATTTGAACAAATTTTGTTGCTCAGGTAACCG
* * * * *
13080448 CTCAGACCGACATAGTTGCCGATGATTCACAAAATTTTCATAAATTTTAATATAATCATCACAGC
66 CTCAGATCGACATAGTTGTCGATGTTTCACTAAATTTTCATAAATTCTAATATAATCATCACAGC
13080513 AACAAA
131 AACAAA
13080519 TATGCAAATT
Statistics
Matches: 284, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
173 2 0.01
174 156 0.55
175 125 0.44
176 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (175 bp):
CTAAAACAACGTAATAAATCAACAAAGAAATTGAATTTGAACAAATTTTGTTGCTCAGGTAACCG
CTCAGATCGACATAGTTGTCGATGTTTCACTAAATTTTCATAAATTCTAATATAATCATCACAGC
AACAAAACCACAGATTCACATACAATAAAATGTATCATAAGACGA
Found at i:13087059 original size:6 final size:6
Alignment explanation
Indices: 13087048--13087081 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
13087038 CATATTTAAT
13087048 TATTTA TATTTA TATTTA TATTTA TATTTA TATT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATT
13087082 AATAAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:13087464 original size:17 final size:18
Alignment explanation
Indices: 13087442--13087481 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
13087432 AGCAAGTTTA
13087442 TATAAGATATTA-ATTAT
1 TATAAGATATTACATTAT
*
13087459 TATAAGATTTTACATTAT
1 TATAAGATATTACATTAT
13087477 TATAA
1 TATAA
13087482 AATAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (18 bp):
TATAAGATATTACATTAT
Found at i:13094844 original size:30 final size:30
Alignment explanation
Indices: 13094810--13094880 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
13094800 TTGGTGCAAT
13094810 TATATAAATATAATTTTAATTTTAAT-TCAA
1 TATATAAATATAATTTTAATTTT-ATCTCAA
* *
13094840 TATATAGATGA-AATTTTGATTTTATCTCAA
1 TATATAAAT-ATAATTTTAATTTTATCTCAA
*
13094870 T-TATACATATA
1 TATATAAATATA
13094881 CCTACAAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
28 1 0.03
29 9 0.26
30 24 0.69
31 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (30 bp):
TATATAAATATAATTTTAATTTTATCTCAA
Found at i:13095207 original size:28 final size:27
Alignment explanation
Indices: 13095158--13095251 Score: 77
Period size: 26 Copynumber: 3.5 Consensus size: 27
13095148 TTCATATAAG
* *
13095158 AATAATTA-TATTGAATTTTATTAAAT
1 AATAATTATTATTAAATTATATTAAAT
** * *
13095184 TCTATATTTTTATTAAATTATATTTAAT
1 AATA-ATTATTATTAAATTATATTAAAT
**
13095212 AATAATTATT-TTAAATTATATTTTAT
1 AATAATTATTATTAAATTATATTAAAT
13095238 AAT-ATTATATATTA
1 AATAATTAT-TATTA
13095252 TGATTTTAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
25 5 0.09
26 21 0.39
27 11 0.20
28 17 0.31
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
AATAATTATTATTAAATTATATTAAAT
Found at i:13095225 original size:26 final size:25
Alignment explanation
Indices: 13095187--13095245 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
13095177 ATTAAATTCT
*
13095187 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
13095213 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
13095239 ATATTAT
1 ATATTAT
13095246 ATATTATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:13095251 original size:22 final size:24
Alignment explanation
Indices: 13095226--13095272 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
13095216 ATTATTTTAA
13095226 ATTAT-ATTTTA-TAATATT-ATAT
1 ATTATGATTTTAGTAA-ATTCATAT
13095248 ATTATGATTTTAGTAAATTCATAT
1 ATTATGATTTTAGTAAATTCATAT
13095272 A
1 A
13095273 AGAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
ATTATGATTTTAGTAAATTCATAT
Found at i:13095254 original size:117 final size:119
Alignment explanation
Indices: 13095110--13095346 Score: 381
Period size: 120 Copynumber: 2.0 Consensus size: 119
13095100 TAGATTATAT
* *
13095110 ATTATTTTTATAGTATTATATAATATGATTTTAATAAATTCATATAAGAATAATT-ATA-T-TGA
1 ATTATTTTTATAATATTATATAATATGATTTTAATAAATTCATATAAGAATAATTAATACTAAGA
* *
13095172 ATTTTATTAAATTCTATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
* * *
13095226 ATTATATTTTATAATATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
1 ATTAT-TTTTATAATATTATATAATATGATTTTAATAAATTCATATAAGAATAATTAATACTAAG
13095291 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
65 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
13095346 A
1 A
13095347 ATATGATTAA
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
116 5 0.05
117 46 0.42
118 3 0.03
119 1 0.01
120 55 0.50
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (119 bp):
ATTATTTTTATAATATTATATAATATGATTTTAATAAATTCATATAAGAATAATTAATACTAAGA
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
Found at i:13095553 original size:44 final size:46
Alignment explanation
Indices: 13095490--13095578 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 46
13095480 ACCTCTATTC
*
13095490 CATTCAACCAAACACAAGAA-TACC-ATCACGCATCTATTCCATTT
1 CATTCAACCAAACAAAAGAATTACCTATCACGCATCTATTCCATTT
* *
13095534 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATT
1 CATTCAACCAAACAAAAGAATTACCTATCACGCATCTATTCCATT
13095579 ATACCTCTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 19 0.47
45 4 0.10
46 17 0.43
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.27
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATCACGCATCTATTCCATTT
Found at i:13095904 original size:21 final size:18
Alignment explanation
Indices: 13095878--13095927 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
13095868 CGTATTTCTC
13095878 AAATTCAATTGCAATACCTAA
1 AAATTCAATTG-AAT-CC-AA
13095899 AAATTCGAATTGAATCCAA
1 AAATTC-AATTGAATCCAA
*
13095918 CAATTCAATT
1 AAATTCAATT
13095928 AAAAACATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.15
19 7 0.26
20 2 0.07
21 9 0.33
22 5 0.19
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (18 bp):
AAATTCAATTGAATCCAA
Found at i:13104491 original size:15 final size:14
Alignment explanation
Indices: 13104473--13104528 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
13104463 ATTAATTTAA
13104473 TATTATTATTACCAT
1 TATTATTATTACC-T
13104488 TATTATT-TTACCCT
1 TATTATTATTA-CCT
13104502 TATTATTTATATA-CT
1 TATTA-TTAT-TACCT
13104517 TATTATTATTAC
1 TATTATTATTAC
13104529 TATATTGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
13 2 0.06
14 13 0.36
15 18 0.50
16 1 0.03
17 2 0.06
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATTATTACCT
Found at i:13104498 original size:14 final size:14
Alignment explanation
Indices: 13104473--13104509 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13104463 ATTAATTTAA
13104473 TATTATTATTACCAT
1 TATTATT-TTACCAT
*
13104488 TATTATTTTACCCT
1 TATTATTTTACCAT
13104502 TATTATTT
1 TATTATTT
13104510 ATATACTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.27, C:0.14, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTTTACCAT
Found at i:13105923 original size:21 final size:21
Alignment explanation
Indices: 13105892--13105963 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
13105882 TTTCTTTGAA
*
13105892 CCTCAGCTTCTCTCGCTGCTG
1 CCTCTGCTTCTCTCGCTGCTG
* *
13105913 CCTTTGCTTCTCTCGATGCTG
1 CCTCTGCTTCTCTCGCTGCTG
* *
13105934 CATCTGCTTC-CTTTGCTGCTG
1 CCTCTGCTTCTC-TCGCTGCTG
13105955 CCTCTGCTT
1 CCTCTGCTT
13105964 TAAGTTGTAG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 1 0.02
21 41 0.98
ACGTcount: A:0.04, C:0.38, G:0.18, T:0.40
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCTG
Found at i:13111522 original size:9 final size:9
Alignment explanation
Indices: 13111505--13111779 Score: 205
Period size: 9 Copynumber: 32.8 Consensus size: 9
13111495 TATGTTTTAG
*
13111505 GTAAATTAT
1 GTAAGTTAT
13111514 GTAAGTTAT
1 GTAAGTTAT
13111523 GT-A-TTAT
1 GTAAGTTAT
*
13111530 ATAAGTTAT
1 GTAAGTTAT
13111539 GTAAGTTAT
1 GTAAGTTAT
13111548 GT-A-TTAT
1 GTAAGTTAT
*
13111555 GTAAGCTAT
1 GTAAGTTAT
*
13111564 GTAAGTTGT
1 GTAAGTTAT
13111573 GT-A-TTAT
1 GTAAGTTAT
*
13111580 GTATGTTAT
1 GTAAGTTAT
*
13111589 GTATA-ATAT
1 GTA-AGTTAT
13111598 -TAA-TTAT
1 GTAAGTTAT
*
13111605 GTAAGTTGT
1 GTAAGTTAT
*
13111614 GT-A-TAAT
1 GTAAGTTAT
13111621 GTAAGTTAT
1 GTAAGTTAT
**
13111630 GTAAGAAAT
1 GTAAGTTAT
13111639 GT-A-TTAT
1 GTAAGTTAT
*
13111646 GTAAGTTGT
1 GTAAGTTAT
*
13111655 GT-A-TAAT
1 GTAAGTTAT
*
13111662 GTTAGTTAT
1 GTAAGTTAT
**
13111671 CAAAGTTAT
1 GTAAGTTAT
13111680 GT-A-TTAT
1 GTAAGTTAT
13111687 GTAAGTTAT
1 GTAAGTTAT
13111696 GTAAGTTAT
1 GTAAGTTAT
*
13111705 TTAAGTTAT
1 GTAAGTTAT
*
13111714 GTAAGTTGT
1 GTAAGTTAT
13111723 GT-A-TTAT
1 GTAAGTTAT
13111730 GTAAGTTAT
1 GTAAGTTAT
13111739 GTAAGTTAT
1 GTAAGTTAT
* *
13111748 GTAGGCTAT
1 GTAAGTTAT
*
13111757 -CAA-TTAT
1 GTAAGTTAT
13111764 GTAAGTTAT
1 GTAAGTTAT
*
13111773 GCAAGTT
1 GTAAGTT
13111780 TATATATAAG
Statistics
Matches: 206, Mismatches: 39, Indels: 42
0.72 0.14 0.15
Matches are distributed among these distances:
7 46 0.22
8 23 0.11
9 137 0.67
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:13111524 original size:25 final size:25
Alignment explanation
Indices: 13111494--13111750 Score: 183
Period size: 25 Copynumber: 10.3 Consensus size: 25
13111484 TGATATATAT
* * *
13111494 TTATGTTTTAGGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
13111519 TTATGTATTATATAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
13111544 TTATGTATTATGTAAGCTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
13111569 TTGTGTATTATGTATGTTATGTATA-
1 TTATGTATTATGTAAGTTATGTA-AG
* *
13111594 ATAT-TAATTATGTAAGTTGTGT-A-
1 TTATGT-ATTATGTAAGTTATGTAAG
* **
13111617 TAATGTAAGTTATGTAAGAAATGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
* * *
13111642 TTATGTAAGTTGTGT-A-TAATGTTAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
**
13111667 TTATCAAAGTTATGT-A-TTATGTAAG
1 TTAT-GTA-TTATGTAAGTTATGTAAG
*
13111692 TTATGTAAGTTATTTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
13111719 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
13111744 TTATGTA
1 TTATGTA
13111751 GGCTATCAAT
Statistics
Matches: 190, Mismatches: 32, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
23 8 0.04
24 6 0.03
25 159 0.84
26 3 0.02
27 14 0.07
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:13111548 original size:34 final size:34
Alignment explanation
Indices: 13111505--13111779 Score: 205
Period size: 34 Copynumber: 8.2 Consensus size: 34
13111495 TATGTTTTAG
* *
13111505 GTAAATTATGTAAGTTATGTATTATATAAGTTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
* *
13111539 GTAAGTTATGT-A-TTATGTAAGCTATGTAAGTTGT
1 GTAAGTTATGTAAGTTATGT-A-TTATGTAAGTTAT
*
13111573 GT-A-TTATGTATGTTATGTATAATAT-TAA-TTAT
1 GTAAGTTATGTAAGTTATGTAT--TATGTAAGTTAT
* * **
13111605 GTAAGTTGTGT-A-TAATGTAAGTTATGTAAGAAAT
1 GTAAGTTATGTAAGTTATGT-A-TTATGTAAGTTAT
* * *
13111639 GT-A-TTATGTAAGTTGTGTATAATGTTAGTTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
**
13111671 CAAAGTTATGT-A-TTATGTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGT-A-TTATGTAAGTTAT
* *
13111705 TTAAGTTATGTAAGTTGTGTATTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
* * **
13111739 GTAAGTTATGTAGGCTATCAATTATGTAAGTTAT
1 GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
*
13111773 GCAAGTT
1 GTAAGTT
13111780 TATATATAAG
Statistics
Matches: 187, Mismatches: 34, Indels: 40
0.72 0.13 0.15
Matches are distributed among these distances:
32 44 0.24
33 18 0.10
34 118 0.63
35 2 0.01
36 5 0.03
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (34 bp):
GTAAGTTATGTAAGTTATGTATTATGTAAGTTAT
Found at i:13111554 original size:41 final size:41
Alignment explanation
Indices: 13111509--13111750 Score: 209
Period size: 41 Copynumber: 5.6 Consensus size: 41
13111499 TTTTAGGTAA
*
13111509 ATTATGTAAGTTATGTATTATATAAGTTATGTAAGTTATGT
1 ATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGT
* *
13111550 ATTATGTAAGCTATGTAAGTTGTGTATTATGTATGTTATGTATA-ATAT-T
1 ATTATGTAAG---T-T-A----TGTATTATGTAAGTTATGTA-AGTTATGT
* * **
13111599 AATTATGTAAGTTGTGTATAATGTAAGTTATGTAAGAAATGT
1 -ATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGT
* * * **
13111641 ATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGT
1 ATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGT
* *
13111682 ATTATGTAAGTTATGTAAGTTATTTAAGTTATGTAAGTTGTGT
1 ATTATGTAAGTTATGT-A-TTATGTAAGTTATGTAAGTTATGT
13111725 ATTATGTAAGTTATGTAAGTTATGTA
1 ATTATGTAAGTTATGT-A-TTATGTA
13111751 GGCTATCAAT
Statistics
Matches: 166, Mismatches: 20, Indels: 28
0.78 0.09 0.13
Matches are distributed among these distances:
40 1 0.01
41 82 0.49
42 2 0.01
43 43 0.26
44 1 0.01
45 1 0.01
46 2 0.01
47 1 0.01
49 1 0.01
50 31 0.19
51 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (41 bp):
ATTATGTAAGTTATGTATTATGTAAGTTATGTAAGTTATGT
Found at i:13111792 original size:12 final size:12
Alignment explanation
Indices: 13111775--13111803 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
13111765 TAAGTTATGC
13111775 AAGTTTATATAT
1 AAGTTTATATAT
13111787 AAGTTTATATAT
1 AAGTTTATATAT
13111799 AAGTT
1 AAGTT
13111804 CTGTAAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (12 bp):
AAGTTTATATAT
Found at i:13112090 original size:22 final size:18
Alignment explanation
Indices: 13112037--13112086 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
13112027 GTATATAAAT
*
13112037 TTTAAATAATGTAATATA
1 TTTAAGTAATGTAATATA
13112055 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
13112073 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
13112087 GTAAGTAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:13112160 original size:17 final size:17
Alignment explanation
Indices: 13112138--13112190 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
13112128 ATTTAAGTAA
13112138 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
* *
13112155 ATTTTAGTTATGTAATAT
1 ATTTTAG-TAAGTAATGT
*
13112173 ATTTCAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
13112190 A
1 A
13112191 ATGTATACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:13114660 original size:22 final size:21
Alignment explanation
Indices: 13114626--13114667 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13114616 CTAACATCCC
*
13114626 TAAACCCCTAACCCCTAAATCT
1 TAAACCCC-AAACCCTAAATCT
*
13114648 TAAATCCCAAACCCTAAATC
1 TAAACCCCAAACCCTAAATC
13114668 CATACAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCCCAAACCCTAAATCT
Found at i:13115768 original size:42 final size:42
Alignment explanation
Indices: 13115712--13115887 Score: 180
Period size: 42 Copynumber: 4.2 Consensus size: 42
13115702 TTAAAAATTA
* * *
13115712 CCGCTAAAAACCACGAGCATTACCGACGC-TATACCAAAAACG
1 CCGCTAAAAACCACGAGCAATAGCGACGCTTA-ACCATAAACG
* * *
13115754 CCGCTAAAAACCACGAGCAATAGCGGCGCATAATCATAAACG
1 CCGCTAAAAACCACGAGCAATAGCGACGCTTAACCATAAACG
* * * * *
13115796 CTGCT-AAAACCCCGAGCATTAGCGGCGCTTAATCATAAACG
1 CCGCTAAAAACCACGAGCAATAGCGACGCTTAACCATAAACG
* *
13115837 CCGCTAAATACC-CAGAGCAATAGC-AGCGCTTGACCATAAACG
1 CCGCTAAAAACCAC-GAGCAATAGCGA-CGCTTAACCATAAACG
13115879 CCGCTAAAA
1 CCGCTAAAA
13115888 CCCTAATCAT
Statistics
Matches: 114, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
41 38 0.33
42 74 0.65
43 2 0.02
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.14
Consensus pattern (42 bp):
CCGCTAAAAACCACGAGCAATAGCGACGCTTAACCATAAACG
Found at i:13115805 original size:83 final size:83
Alignment explanation
Indices: 13115712--13115921 Score: 219
Period size: 83 Copynumber: 2.5 Consensus size: 83
13115702 TTAAAAATTA
13115712 CCGCTAAAAACCACGAGCATTACCGACGC-TATACCAAAAACGCCGCTAAAAA-CCACGAGCAAT
1 CCGCT-AAAACCACGAGCATTACCGACGCTTA-ACCAAAAACGCCGCTAAAAACCCA-GAGCAAT
* *
13115775 AGCGGCGCATAATCATAAACG
63 AGCAGCGCATAACCATAAACG
* * * * * * *
13115796 CTGCTAAAACCCCGAGCATTAGCGGCGCTTAATCATAAACGCCGCTAAATACCCAGAGCAATAGC
1 CCGCTAAAACCACGAGCATTACCGACGCTTAACCAAAAACGCCGCTAAAAACCCAGAGCAATAGC
* *
13115861 AGCGCTTGACCATAAACG
66 AGCGCATAACCATAAACG
* * * * *
13115879 CCGCTAAAACC-CTAATCATTAGCGGCGCTTAATCAAAAACGCC
1 CCGCTAAAACCAC-GAGCATTACCGACGCTTAACCAAAAACGCC
13115922 ACCAAAACCC
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
82 1 0.01
83 98 0.91
84 9 0.08
ACGTcount: A:0.37, C:0.31, G:0.17, T:0.15
Consensus pattern (83 bp):
CCGCTAAAACCACGAGCATTACCGACGCTTAACCAAAAACGCCGCTAAAAACCCAGAGCAATAGC
AGCGCATAACCATAAACG
Found at i:13115819 original size:41 final size:41
Alignment explanation
Indices: 13115651--13115968 Score: 264
Period size: 41 Copynumber: 7.7 Consensus size: 41
13115641 CAAGTCTTTT
** * * *
13115651 GCGGCGCTTTTTCAAAAACGCTGCTAAAA-TCCGAACATTA
1 GCGGCGCTTAATCAAAAACGCCGCTAAAACCCCGAGCATTA
* * ** *
13115691 GCGGCGCTAAATTAAAAATTACCGCTAAAAACCACGAGCATTA
1 GCGGCGCTTAATCAAAAA-CGCCGCT-AAAACCCCGAGCATTA
* * * * *
13115734 CCGACGC-TATACCAAAAACGCCGCTAAAAACCACGAGCAATA
1 GCGGCGCTTA-ATCAAAAACGCCGCT-AAAACCCCGAGCATTA
* * *
13115776 GCGGCGCATAATCATAAACGCTGCTAAAACCCCGAGCATTA
1 GCGGCGCTTAATCAAAAACGCCGCTAAAACCCCGAGCATTA
* * *
13115817 GCGGCGCTTAATCATAAACGCCGCTAAATACCCAGAGCAATA
1 GCGGCGCTTAATCAAAAACGCCGCTAAA-ACCCCGAGCATTA
* * * * ** *
13115859 GCAGCGCTTGACCATAAACGCCGCTAAAACCCTAATCATTA
1 GCGGCGCTTAATCAAAAACGCCGCTAAAACCCCGAGCATTA
* *
13115900 GCGGCGCTTAATCAAAAACGCCACCAAAACCCCGAGCATTA
1 GCGGCGCTTAATCAAAAACGCCGCTAAAACCCCGAGCATTA
* * *
13115941 GCGGCG-ATATTCCAAAAACGCCACTAAA
1 GCGGCGCTTAAT-CAAAAACGCCGCTAAA
13115969 GCCCACAAAA
Statistics
Matches: 223, Mismatches: 48, Indels: 13
0.79 0.17 0.05
Matches are distributed among these distances:
40 17 0.08
41 106 0.48
42 79 0.35
43 21 0.09
ACGTcount: A:0.37, C:0.29, G:0.17, T:0.17
Consensus pattern (41 bp):
GCGGCGCTTAATCAAAAACGCCGCTAAAACCCCGAGCATTA
Found at i:13117367 original size:31 final size:29
Alignment explanation
Indices: 13117332--13117389 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
13117322 AATAGTATTT
*
13117332 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
13117363 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
13117390 GTAGATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:13130827 original size:13 final size:13
Alignment explanation
Indices: 13130800--13130836 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
13130790 CGAAAAAGTG
*
13130800 CAAAAAA-AAATA
1 CAAAAAATAAAAA
13130812 CAAAAAATAAAAA
1 CAAAAAATAAAAA
13130825 C-AAAAATAAAAA
1 CAAAAAATAAAAA
13130837 ATATATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
CAAAAAATAAAAA
Found at i:13133111 original size:39 final size:39
Alignment explanation
Indices: 13133068--13133208 Score: 183
Period size: 39 Copynumber: 3.6 Consensus size: 39
13133058 TATATTCACT
* * * * * *
13133068 TTTAAGCATGTATCACATTACACATTTAATCACATAGCA
1 TTTAAGCATATATCAAAATACTCATATAATCACATAACA
* *
13133107 TTTAAACATATATCAAAATACTCGTATAATCACATAACA
1 TTTAAGCATATATCAAAATACTCATATAATCACATAACA
**
13133146 TTTAAGCATATATCAAAATACTCATATAATCACATAATT
1 TTTAAGCATATATCAAAATACTCATATAATCACATAACA
*
13133185 TTTAAGCATATATCACAATACTCA
1 TTTAAGCATATATCAAAATACTCA
13133209 AAAACATGTT
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.33
Consensus pattern (39 bp):
TTTAAGCATATATCAAAATACTCATATAATCACATAACA
Found at i:13136647 original size:14 final size:14
Alignment explanation
Indices: 13136628--13136654 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13136618 TAGGCAATAC
13136628 TTAATCTCTATCAT
1 TTAATCTCTATCAT
13136642 TTAATCTCTATCA
1 TTAATCTCTATCA
13136655 CATTCAGCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAATCTCTATCAT
Found at i:13138664 original size:12 final size:12
Alignment explanation
Indices: 13138649--13138684 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
13138639 ATCGTAATAT
13138649 AATTACTAATTA
1 AATTACTAATTA
*
13138661 AATTATTAATTA
1 AATTACTAATTA
13138673 AATTACTAATTA
1 AATTACTAATTA
13138685 GATCTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (12 bp):
AATTACTAATTA
Found at i:13143252 original size:10 final size:10
Alignment explanation
Indices: 13143220--13143271 Score: 61
Period size: 11 Copynumber: 5.1 Consensus size: 10
13143210 TCAATTAAAG
13143220 AAATTAT-TA
1 AAATTATATA
*
13143229 AAATTTTATAA
1 AAATTATAT-A
*
13143240 AAATTAAATA
1 AAATTATATA
13143250 AAATTATTATA
1 AAATTA-TATA
13143261 AAATTATATA
1 AAATTATATA
13143271 A
1 A
13143272 TTTGGTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 6 0.17
10 13 0.36
11 17 0.47
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTATATA
Found at i:13143253 original size:21 final size:21
Alignment explanation
Indices: 13143227--13143271 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
13143217 AAGAAATTAT
13143227 TAAAATT-TTATAAAAATTAAA
1 TAAAATTATTAT-AAAATTAAA
*
13143248 TAAAATTATTATAAAATTATA
1 TAAAATTATTATAAAATTAAA
13143269 TAA
1 TAA
13143272 TTTGGTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATTATTATAAAATTAAA
Found at i:13143268 original size:30 final size:29
Alignment explanation
Indices: 13143212--13143268 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
13143202 TCTAGTTTTC
* *
13143212 AATTAAAGAAATTATTAAAATTTTATAAA
1 AATTAAAAAAATTATTAAAATATTATAAA
13143241 AATTAAATAAAATTATTATAAA-ATTATA
1 AATTAAA-AAAATTATTA-AAATATTATA
13143269 TAATTTGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.29
30 14 0.58
31 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (29 bp):
AATTAAAAAAATTATTAAAATATTATAAA
Found at i:13146326 original size:23 final size:22
Alignment explanation
Indices: 13146263--13146342 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 22
13146253 TTATGATATA
**
13146263 AAATATTTTTATAAATATTTAT
1 AAATATTAATATAAATATTTAT
* **
13146285 AAATTTTAATATATTTA-TTATT
1 AAATATTAATATAAATATTTA-T
13146307 AGAATATTAATATAAATATTTAAT
1 A-AATATTAATATAAATATTT-AT
*
13146331 AATATTTTAATA
1 AA-ATATTAATA
13146343 ATATTACTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
21 3 0.07
22 14 0.32
23 14 0.32
24 12 0.27
25 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
AAATATTAATATAAATATTTAT
Found at i:13146332 original size:11 final size:11
Alignment explanation
Indices: 13146263--13146347 Score: 52
Period size: 12 Copynumber: 7.6 Consensus size: 11
13146253 TTATGATATA
*
13146263 AAATATTTTTAT
1 AAATA-TTTAAT
13146275 AAATATTT-AT
1 AAATATTTAAT
13146285 AAAT-TTTAAT
1 AAATATTTAAT
* * *
13146295 ATATTTATTATT
1 AAATAT-TTAAT
*
13146307 AGAATATTAATAT
1 A-AATATTTA-AT
13146320 AAATATTTAAT
1 AAATATTTAAT
13146331 -AATATTTTAAT
1 AAATA-TTTAAT
13146342 -AATATT
1 AAATATT
13146348 ACTCAAAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
9 3 0.05
10 17 0.28
11 16 0.27
12 19 0.32
13 5 0.08
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (11 bp):
AAATATTTAAT
Found at i:13146510 original size:24 final size:24
Alignment explanation
Indices: 13146457--13146513 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
13146447 ATATTGTTAA
* *
13146457 ATATAAATAATTAATATTGAACGTT
1 ATATAAA-AAATAATATTGAACATT
* *
13146482 GTATAAAAAATAATATTGAGCATT
1 ATATAAAAAATAATATTGAACATT
13146506 ATATAAAA
1 ATATAAAA
13146514 TATTTTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.35
Consensus pattern (24 bp):
ATATAAAAAATAATATTGAACATT
Found at i:13158705 original size:15 final size:15
Alignment explanation
Indices: 13158685--13158714 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13158675 GTGGGAGCCC
13158685 CATTTCCCATTAAAA
1 CATTTCCCATTAAAA
13158700 CATTTCCCATTAAAA
1 CATTTCCCATTAAAA
13158715 GAGAAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
CATTTCCCATTAAAA
Found at i:13163172 original size:51 final size:51
Alignment explanation
Indices: 13163115--13163219 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
13163105 AAATTTCTAT
13163115 AATTATTTATAATAGAGGGTTGTTGAAGGATGAAATTGAAATGAGTTTAAA
1 AATTATTTATAATAGAGGGTTGTTGAAGGATGAAATTGAAATGAGTTTAAA
13163166 AATTATTTATAATAGAGGGTTGTTGAAGGATGAAATTGAAATGAGTTTAAA
1 AATTATTTATAATAGAGGGTTGTTGAAGGATGAAATTGAAATGAGTTTAAA
13163217 AAT
1 AAT
13163220 CGGAGCTCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (51 bp):
AATTATTTATAATAGAGGGTTGTTGAAGGATGAAATTGAAATGAGTTTAAA
Found at i:13168021 original size:46 final size:46
Alignment explanation
Indices: 13167848--13168139 Score: 452
Period size: 46 Copynumber: 6.5 Consensus size: 46
13167838 TACGTATGAT
* * *
13167848 CACTTATCAC-TTGTC-CCTGATCATATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
13167891 CACTTATCACTTTGTCGCTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
13167937 CACTTATAAC-TTGTTC-C-TGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTG-TCACTTGATCAGATAAGTGTAGCTAAAGCTAC
13167981 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
**
13168027 CACTTATCACTTTGTCACTTGATCTTATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
13168073 CACTTATCACTTTGTCACTTGGTCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
13168119 CACTTATCACTCTGTCACTTG
1 CACTTATCACTTTGTCACTTG
13168140 TCACTGATCA
Statistics
Matches: 231, Mismatches: 11, Indels: 11
0.91 0.04 0.04
Matches are distributed among these distances:
43 10 0.04
44 43 0.19
45 27 0.12
46 151 0.65
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:13174293 original size:43 final size:43
Alignment explanation
Indices: 13174240--13174465 Score: 228
Period size: 43 Copynumber: 5.3 Consensus size: 43
13174230 TTACAGAAAT
** **
13174240 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTACAAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACAAC
*
13174283 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGC--ATACCAAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTA-CAAC
*
13174325 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCT-CTAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTT-TACAAC
* * ** * * *
13174368 AAACGCTGCTGAAAGTA-ATGTTCTTTAGCGGCGTTTTTTTCCAC
1 AAACGCCGCT-AAAGAACATGACCTTTAGCGGCG-CTTTTACAAC
* * *
13174412 AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTTATAA-
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACAAC
*
13174454 AAACGCCACTAA
1 AAACGCCGCTAA
13174466 TTTTGGGATT
Statistics
Matches: 150, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.01
42 48 0.32
43 66 0.44
44 33 0.22
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACAAC
Found at i:13174394 original size:85 final size:85
Alignment explanation
Indices: 13174240--13174465 Score: 235
Period size: 85 Copynumber: 2.6 Consensus size: 85
13174230 TTACAGAAAT
** **
13174240 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTACAACAAACGCCGCTAAAGAACATGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCCGCTAAAGAACATGAC
13174305 CTTTAGCGGCG-CATACCAAC
66 CTTTAGCGGCGTCATACC-AC
* * *
13174325 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCT-CTACAAACGCTGCTGAAAGTA-ATG
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTT-TACAACAAACGCCGCT-AAAGAACATG
** ** *
13174388 TTCTTTAGCGGCGTTTTTTTCCAC
64 ACCTTTAGCGGCG--TCATACCAC
* * * *
13174412 AAACGCCGCTATAGAACATGACTTTTAGCGGCGCTTTTATAA-AAACGCCACTAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCCGCTAA
13174466 TTTTGGGATT
Statistics
Matches: 117, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
85 61 0.52
86 15 0.13
87 38 0.32
88 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCCGCTAAAGAACATGAC
CTTTAGCGGCGTCATACCAC
Found at i:13174880 original size:21 final size:21
Alignment explanation
Indices: 13174833--13174883 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
13174823 TTCTTTTGAA
* * *
13174833 CCTCTACTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTACAG
*
13174854 CCTCTGCTTCCCTCGCTACCG
1 CCTCTGCTTCCCTCGCTACAG
13174875 CCTCTGCTT
1 CCTCTGCTT
13174884 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.06, C:0.47, G:0.14, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTACAG
Found at i:13174936 original size:87 final size:87
Alignment explanation
Indices: 13174768--13174927 Score: 257
Period size: 87 Copynumber: 1.8 Consensus size: 87
13174758 TTCTGCTCTA
* * *
13174768 CTCTGCTTCTCTCGATGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCTTTTGAA
1 CTCTGCTTCCCTCGATACCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
* *
13174833 CCTCTACTTCTCTCGCTGCAGC
66 CCTCAACTTCGCTCGCTGCAGC
* *
13174855 CTCTGCTTCCCTCGCTACCGCCTCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
1 CTCTGCTTCCCTCGATACCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
13174920 CCTCAACT
66 CCTCAACT
13174928 GTGGTCGCTT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.14, C:0.30, G:0.16, T:0.39
Consensus pattern (87 bp):
CTCTGCTTCCCTCGATACCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTCCTTTGAA
CCTCAACTTCGCTCGCTGCAGC
Found at i:13180339 original size:9 final size:9
Alignment explanation
Indices: 13180322--13180735 Score: 136
Period size: 9 Copynumber: 48.4 Consensus size: 9
13180312 TAAATATAAT
*
13180322 TAAGCTATG
1 TAAGTTATG
13180331 TAAGTTATG
1 TAAGTTATG
13180340 TAAGTTATG
1 TAAGTTATG
*
13180349 T-A-TTAAG
1 TAAGTTATG
13180356 TAAGTTAT-
1 TAAGTTATG
*
13180364 TTA-TTATG
1 TAAGTTATG
* *
13180372 AAAATTATG
1 TAAGTTATG
13180381 TAAGTTATG
1 TAAGTTATG
13180390 T-A-TTATG
1 TAAGTTATG
*
13180397 -AATATTATG
1 TAA-GTTATG
* *
13180406 TAAGCTGTG
1 TAAGTTATG
13180415 -AA-TTATG
1 TAAGTTATG
**
13180422 TAAGTGCTG
1 TAAGTTATG
13180431 T-A-TTATG
1 TAAGTTATG
13180438 ATCAA-TTATG
1 -T-AAGTTATG
*
13180448 GAAGTTATG
1 TAAGTTATG
13180457 T-A-TTATG
1 TAAGTTATG
* *
13180464 AAAATTATG
1 TAAGTTATG
* *
13180473 TAAGCTGTG
1 TAAGTTATG
*
13180482 T-ACTGTA--
1 TAAGT-TATG
13180489 TAAGTTATG
1 TAAGTTATG
13180498 TAAGTTATG
1 TAAGTTATG
* *
13180507 AAAATTATG
1 TAAGTTATG
13180516 TAAGTTATG
1 TAAGTTATG
*
13180525 TAAGTT-TT
1 TAAGTTATG
*
13180533 TTA-TTATG
1 TAAGTTATG
* * *
13180541 AAAATTAAG
1 TAAGTTATG
*
13180550 TAACTTATG
1 TAAGTTATG
13180559 T-A-TTATG
1 TAAGTTATG
* *
13180566 AAAATTATG
1 TAAGTTATG
*
13180575 TAAGTTCA-A
1 TAAGTT-ATG
13180584 T-A-TTATG
1 TAAGTTATG
13180591 TAAGTTATG
1 TAAGTTATG
*
13180600 T-A-CTATG
1 TAAGTTATG
* *
13180607 AAAATTATG
1 TAAGTTATG
13180616 TAAGTTATG
1 TAAGTTATG
* *
13180625 TATGTTGTG
1 TAAGTTATG
*
13180634 T-ATTATATG
1 TAAGT-TATG
13180643 TAAGTTATG
1 TAAGTTATG
*
13180652 TATGTGTATAATG
1 TA--AGT-T-ATG
*
13180665 AAAGTTATG
1 TAAGTTATG
*
13180674 TAAGTTGTG
1 TAAGTTATG
*
13180683 T-A-TAATG
1 TAAGTTATG
*
13180690 AAAGTTATG
1 TAAGTTATG
* *
13180699 TAATTTAAG
1 TAAGTTATG
*
13180708 T-A-TAAT-
1 TAAGTTATG
*
13180714 TAAGCTATG
1 TAAGTTATG
13180723 TAAGTTATG
1 TAAGTTATG
13180732 TAAG
1 TAAG
13180736 ATGTGATAGT
Statistics
Matches: 290, Mismatches: 74, Indels: 82
0.65 0.17 0.18
Matches are distributed among these distances:
6 2 0.01
7 49 0.17
8 36 0.12
9 182 0.63
10 12 0.04
11 4 0.01
12 1 0.00
13 4 0.01
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:13180378 original size:25 final size:25
Alignment explanation
Indices: 13180327--13180409 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
13180317 ATAATTAAGC
*
13180327 TATGTAAGTTATGTAAGTTATG--TAT
1 TATGTAAGTTATGT-A-TTATGAAAAT
* *
13180352 TAAGTAAGTTATTTATTATGAAAAT
1 TATGTAAGTTATGTATTATGAAAAT
*
13180377 TATGTAAGTTATGTATTATGAATAT
1 TATGTAAGTTATGTATTATGAAAAT
13180402 TATGTAAG
1 TATGTAAG
13180410 CTGTGAATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.10
24 1 0.02
25 44 0.88
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (25 bp):
TATGTAAGTTATGTATTATGAAAAT
Found at i:13180394 original size:16 final size:16
Alignment explanation
Indices: 13180335--13180654 Score: 107
Period size: 16 Copynumber: 19.1 Consensus size: 16
13180325 GCTATGTAAG
13180335 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
13180351 TTAAGTAAGTTATTTA
1 TTATGTAAGTTATGTA
* *
13180367 TTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
13180384 GTTATGT-A-TTATGAATA
1 -TTATGTAAGTTATG--TA
* * *
13180401 TTATGTAAGCTGTGAA
1 TTATGTAAGTTATGTA
**
13180417 TTATGTAAGTGCTGTA
1 TTATGTAAGTTATGTA
*
13180433 TTATGATCAA-TTATGGAA
1 TTATG-T-AAGTTAT-GTA
*
13180451 GTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
* *
13180468 TTATGTAAGCTGTGTA
1 TTATGTAAGTTATGTA
* * *
13180484 CTGTATAAGTTATGTAA
1 TTATGTAAGTTATGT-A
* *
13180501 GTTATGAAAATTATGTAA
1 -TTATGTAAGTTATGT-A
* *
13180519 GTTATGTAAGTTTTTTA
1 -TTATGTAAGTTATGTA
* * *
13180536 TTATGAAAATTAAGTAA
1 TTATGTAAGTTATGT-A
*
13180553 CTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
*
13180570 TTATGTAAGTTCA-ATA
1 TTATGTAAGTT-ATGTA
13180586 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* * *
13180602 CTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
* *
13180619 GTTATGTATGTTGTGTA
1 -TTATGTAAGTTATGTA
13180636 TTATATGTAAGTTATGTA
1 -T-TATGTAAGTTATGTA
13180654 T
1 T
13180655 GTGTATAATG
Statistics
Matches: 221, Mismatches: 56, Indels: 53
0.67 0.17 0.16
Matches are distributed among these distances:
15 2 0.01
16 122 0.55
17 20 0.09
18 71 0.32
19 6 0.03
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:13180419 original size:25 final size:25
Alignment explanation
Indices: 13180366--13180421 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
13180356 TAAGTTATTT
* *
13180366 ATTATGAAAATTATGTAAGTTATGT
1 ATTATGAAAATTATGTAAGCTATGA
* *
13180391 ATTATGAATATTATGTAAGCTGTGA
1 ATTATGAAAATTATGTAAGCTATGA
13180416 ATTATG
1 ATTATG
13180422 TAAGTGCTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.43
Consensus pattern (25 bp):
ATTATGAAAATTATGTAAGCTATGA
Found at i:13180483 original size:25 final size:25
Alignment explanation
Indices: 13180417--13180701 Score: 181
Period size: 25 Copynumber: 11.3 Consensus size: 25
13180407 AAGCTGTGAA
13180417 TTATGTAAG-TGCTGTATTATGATCAA-
1 TTATGTAAGTTG-TGTATTATGA--AAG
* * *
13180443 TTATGGAAGTTATGTATTATGAAAA
1 TTATGTAAGTTGTGTATTATGAAAG
*
13180468 TTATGTAAGCTGTGTACTGTAT--AAG
1 TTATGTAAGTTGTGTA-T-TATGAAAG
* * *
13180493 TTATGTAAGTTATGAAAATTATGTAAG
1 TTATGTAAGTTGTG--TATTATGAAAG
* * *
13180520 TTATGTAAGTTTTTTATTATGAAAA
1 TTATGTAAGTTGTGTATTATGAAAG
* * * *
13180545 TTAAGTAACTTATGTATTATGAAAA
1 TTATGTAAGTTGTGTATTATGAAAG
*** *
13180570 TTATGTAAGTTCAATATTATGTAAG
1 TTATGTAAGTTGTGTATTATGAAAG
* *** *
13180595 TTATGT-ACTATGAAAATTATGTAAG
1 TTATGTAAGT-TGTGTATTATGAAAG
* *
13180620 TTATGTATGTTGTGTATTATATGTAAG
1 TTATGTAAGTTGTGTA-T-TATGAAAG
*
13180647 TTATGT-A--TGTGTATAATGAAAG
1 TTATGTAAGTTGTGTATTATGAAAG
*
13180669 TTATGTAAGTTGTGTATAATGAAAG
1 TTATGTAAGTTGTGTATTATGAAAG
13180694 TTATGTAA
1 TTATGTAA
13180702 TTTAAGTATA
Statistics
Matches: 208, Mismatches: 36, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
22 12 0.06
23 2 0.01
24 10 0.05
25 128 0.62
26 22 0.11
27 34 0.16
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (25 bp):
TTATGTAAGTTGTGTATTATGAAAG
Found at i:13180599 original size:41 final size:41
Alignment explanation
Indices: 13180544--13180621 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
13180534 TATTATGAAA
*
13180544 ATTAAGTAACTTATGTATTATGAAAATTATGTAAGTTCAAT
1 ATTAAGTAACTTATGTACTATGAAAATTATGTAAGTTCAAT
* *
13180585 ATTATGTAAGTTATGTACTATGAAAATTATGTAAGTT
1 ATTAAGTAACTTATGTACTATGAAAATTATGTAAGTT
13180622 ATGTATGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (41 bp):
ATTAAGTAACTTATGTACTATGAAAATTATGTAAGTTCAAT
Found at i:13180710 original size:25 final size:25
Alignment explanation
Indices: 13180657--13180729 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 25
13180647 TTATGTATGT
**
13180657 GTATAATGAAAGTTATGTAAGTTGT
1 GTATAATGAAAGTTATGTAAGTTAA
*
13180682 GTATAATGAAAGTTATGTAATTTAA
1 GTATAATGAAAGTTATGTAAGTTAA
* *
13180707 GTATAAT-TAAGCTATGTAAGTTA
1 GTATAATGAAAGTTATGTAAGTTA
13180730 TGTAAGATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 13 0.31
25 29 0.69
ACGTcount: A:0.40, C:0.01, G:0.19, T:0.40
Consensus pattern (25 bp):
GTATAATGAAAGTTATGTAAGTTAA
Found at i:13180723 original size:49 final size:49
Alignment explanation
Indices: 13180613--13180733 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 49
13180603 TATGAAAATT
* *
13180613 ATGTAAGTTATGTATGTTGTGTATTATATGTAAGTTATGTATGTGTATA
1 ATGTAAGTTATGTAAGTTGTGTATTATATGAAAGTTATGTATGTGTATA
* *
13180662 ATGAAAGTTATGTAAGTTGTGTA-TA-ATGAAAGTTATGTAATTTAAGTATA
1 ATGTAAGTTATGTAAGTTGTGTATTATATGAAAGTTATGT-ATGT--GTATA
* *
13180712 AT-TAAGCTATGTAAGTTATGTA
1 ATGTAAGTTATGTAAGTTGTGTA
13180734 AGATGTGATA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
47 12 0.19
48 5 0.08
49 38 0.61
50 7 0.11
ACGTcount: A:0.35, C:0.01, G:0.21, T:0.44
Consensus pattern (49 bp):
ATGTAAGTTATGTAAGTTGTGTATTATATGAAAGTTATGTATGTGTATA
Found at i:13181544 original size:21 final size:21
Alignment explanation
Indices: 13181520--13181592 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
13181510 AGATGTTTAT
13181520 ATAAATACGCTGAAAATATAA
1 ATAAATACGCTGAAAATATAA
*** *
13181541 ATAAATAATAT-AATATCAATAA
1 ATAAATACGCTGAAAAT--ATAA
13181563 TATTAAATACGCTGAAAATATAA
1 -A-TAAATACGCTGAAAATATAA
13181586 ATAAATA
1 ATAAATA
13181593 GTCCCAAAGC
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
20 4 0.10
21 14 0.36
22 5 0.13
23 5 0.13
24 7 0.18
25 4 0.10
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (21 bp):
ATAAATACGCTGAAAATATAA
Found at i:13182046 original size:29 final size:29
Alignment explanation
Indices: 13182004--13182059 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
13181994 GTCAAAATGT
13182004 TTAACATTCAAAAC-ATAGCTTAACATTGC
1 TTAACATTCAAAACTAT-GCTTAACATTGC
13182033 TTAACATTCAAAACTATGCTTAACATT
1 TTAACATTCAAAACTATGCTTAACATT
13182060 CAAAATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (29 bp):
TTAACATTCAAAACTATGCTTAACATTGC
Found at i:13182074 original size:16 final size:18
Alignment explanation
Indices: 13182025--13182064 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 18
13182015 AACATAGCTT
13182025 AACATTGCTTAACATTCAA
1 AACA-TGCTTAACATTCAA
13182044 AACTATGCTTAACATTCAA
1 AAC-ATGCTTAACATTCAA
13182063 AA
1 AA
13182065 TGTTTAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (18 bp):
AACATGCTTAACATTCAA
Found at i:13187104 original size:94 final size:94
Alignment explanation
Indices: 13186944--13187123 Score: 310
Period size: 94 Copynumber: 1.9 Consensus size: 94
13186934 CTCAAACTCC
*
13186944 AAAACCCTAAATCCAAAACACTAAACCTATATCATAAACCCTAAACTCAAAACTCTAATCACAAA
1 AAAACCCTAAATCCAAAACACTAAACCTACATCATAAACCCTAAACTCAAAACTCTAATCACAAA
13187009 ATAATAAACATTATATAATGATTAACCTT
66 ATAATAAACATTATATAATGATTAACCTT
*
13187038 AAAACCCTAAA-CCAAAAACACTAAACCTACATCGTAAACCCTAAACTCAAAACTCTAATC-CAA
1 AAAACCCTAAATCC-AAAACACTAAACCTACATCATAAACCCTAAACTCAAAACTCTAATCAC-A
13187101 AAATAATAAACATTATATAATGA
64 AAATAATAAACATTATATAATGA
13187124 ATCCTCATAC
Statistics
Matches: 82, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
93 3 0.04
94 79 0.96
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.22
Consensus pattern (94 bp):
AAAACCCTAAATCCAAAACACTAAACCTACATCATAAACCCTAAACTCAAAACTCTAATCACAAA
ATAATAAACATTATATAATGATTAACCTT
Found at i:13189298 original size:4 final size:4
Alignment explanation
Indices: 13189289--13189399 Score: 120
Period size: 4 Copynumber: 28.5 Consensus size: 4
13189279 GGTTAAGGAA
* * * * * *
13189289 GTAT GTAT GTAT GTAT G--T GTGT GTAT GTGT GTGT GTAT GTGT ATGT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
13189335 GTGT GTGT GTAT GTAT GTAT GTAT GTAT GTAT GCAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
13189383 GTAT GTAT GTAT G-AT GT
1 GTAT GTAT GTAT GTAT GT
13189400 TTATCTTATA
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
2 2 0.02
3 3 0.03
4 90 0.95
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:13189311 original size:2 final size:2
Alignment explanation
Indices: 13189304--13189344 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
13189294 TATGTATGTA
* * *
13189304 TG TG TG TG TA TG TG TG TG TG TA TG TG TA TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
13189345 ATGTATGTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.07, C:0.00, G:0.41, T:0.51
Consensus pattern (2 bp):
TG
Found at i:13189315 original size:10 final size:10
Alignment explanation
Indices: 13189300--13189348 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
13189290 TATGTATGTA
13189300 TGTATGTGTG
1 TGTATGTGTG
13189310 TGTATGTGTGTG
1 TGTA--TGTGTG
*
13189322 TGTATGTGTA
1 TGTATGTGTG
*
13189332 TGTGTGTGTG
1 TGTATGTGTG
13189342 TGTATGT
1 TGTATGT
13189349 ATGTATGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 23 0.70
12 10 0.30
ACGTcount: A:0.10, C:0.00, G:0.39, T:0.51
Consensus pattern (10 bp):
TGTATGTGTG
Found at i:13208455 original size:40 final size:40
Alignment explanation
Indices: 13208400--13208479 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
13208390 ACTCCTATAC
13208400 ACATAACTTCAGAAGTTAGTAAGTGTATCAACGAAACATA
1 ACATAACTTCAGAAGTTAGTAAGTGTATCAACGAAACATA
13208440 ACATAACTTCAGAAGTTAGTAAGTGTATCAACGAAACATA
1 ACATAACTTCAGAAGTTAGTAAGTGTATCAACGAAACATA
13208480 TAATTCCTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (40 bp):
ACATAACTTCAGAAGTTAGTAAGTGTATCAACGAAACATA
Found at i:13211036 original size:17 final size:17
Alignment explanation
Indices: 13211011--13211046 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13211001 TAGAATTAGG
* *
13211011 TTGAGAAAATTATTTAA
1 TTGAAAAAATTAATTAA
13211028 TTGAAAAAATTAATTAA
1 TTGAAAAAATTAATTAA
13211045 TT
1 TT
13211047 TAAATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (17 bp):
TTGAAAAAATTAATTAA
Found at i:13212727 original size:53 final size:52
Alignment explanation
Indices: 13212658--13212759 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 52
13212648 GATCGTAAAG
* *
13212658 GACCATATCGTTTAAGATCATAACTGGTGGGTTATGACATCATATAGGAAGAA
1 GACCATATCATGTAAGATCATAACTGGTGGGTTATGACATCATAT-GGAAGAA
*
13212711 GACCATATCATGTAAGATCGTAACTGGTGGGTTATGACATCATATGGAA
1 GACCATATCATGTAAGATCATAACTGGTGGGTTATGACATCATATGGAA
13212760 AAATTTAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 4 0.09
53 42 0.91
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (52 bp):
GACCATATCATGTAAGATCATAACTGGTGGGTTATGACATCATATGGAAGAA
Found at i:13217998 original size:14 final size:14
Alignment explanation
Indices: 13217979--13218018 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
13217969 TTGATTGCCA
13217979 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
13217993 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
13218007 GGAAAATGTTTT
1 GTAAAATGTTTT
13218019 ACTTTTCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:13229284 original size:14 final size:14
Alignment explanation
Indices: 13229265--13229292 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13229255 CTGACACACT
13229265 TTATTCACTGATAA
1 TTATTCACTGATAA
13229279 TTATTCACTGATAA
1 TTATTCACTGATAA
13229293 GGCAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TTATTCACTGATAA
Found at i:13236321 original size:27 final size:27
Alignment explanation
Indices: 13236281--13236333 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
13236271 GAAGAATATA
*
13236281 GGGGGTATGTTGATGATGATGAAGGTG
1 GGGGGTATGGTGATGATGATGAAGGTG
*
13236308 GGGGGTTTGGTGATGATGATGAAGGT
1 GGGGGTATGGTGATGATGATGAAGGT
13236334 AACAGAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.49, T:0.30
Consensus pattern (27 bp):
GGGGGTATGGTGATGATGATGAAGGTG
Found at i:13238482 original size:29 final size:29
Alignment explanation
Indices: 13238419--13238486 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
13238409 TAATCAACCG
13238419 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
13238448 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
13238477 CGCACACTTA
1 CGCACACTTA
13238487 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:13238598 original size:174 final size:174
Alignment explanation
Indices: 13238308--13238635 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
13238298 AACTCAAGGT
* *
13238308 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
13238373 GAAAATATATATTGGGTTCGCACACATAGTGCTTAGTAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
13238438 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
13238482 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAATTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
13238547 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
13238612 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
13238636 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:13238627 original size:29 final size:30
Alignment explanation
Indices: 13238588--13238666 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
13238578 CTTAATAATC
13238588 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
13238618 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
13238647 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
13238667 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:13246577 original size:29 final size:29
Alignment explanation
Indices: 13246514--13246581 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
13246504 TAATCAACCA
13246514 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
13246543 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
13246572 CGCACACTTA
1 CGCACACTTA
13246582 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:13246722 original size:29 final size:30
Alignment explanation
Indices: 13246683--13246761 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
13246673 CTTAATAATC
13246683 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
13246713 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
13246742 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
13246762 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:13251751 original size:19 final size:19
Alignment explanation
Indices: 13251729--13251765 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13251719 TTGATATGAT
13251729 ATTAATCTATTAGAAAGAC
1 ATTAATCTATTAGAAAGAC
*
13251748 ATTAATCTATTGGAAAGA
1 ATTAATCTATTAGAAAGA
13251766 AATAATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (19 bp):
ATTAATCTATTAGAAAGAC
Found at i:13255223 original size:13 final size:14
Alignment explanation
Indices: 13255204--13255235 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
13255194 AAGAAACCAA
13255204 AGGAAAATTAAAAG
1 AGGAAAATTAAAAG
13255218 -GGAAAATTAAAAG
1 AGGAAAATTAAAAG
13255231 AGGAA
1 AGGAA
13255236 CTTTTTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (14 bp):
AGGAAAATTAAAAG
Found at i:13265854 original size:22 final size:22
Alignment explanation
Indices: 13265828--13265874 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
13265818 AGCTTATTTG
13265828 TATTTTTAATTAATATATTTTT
1 TATTTTTAATTAATATATTTTT
13265850 TATTTTTAATTAATATATTTTT
1 TATTTTTAATTAATATATTTTT
13265872 TAT
1 TAT
13265875 CAAGTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TATTTTTAATTAATATATTTTT
Found at i:13265870 original size:21 final size:21
Alignment explanation
Indices: 13265822--13265871 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 21
13265812 CTTCCAAGCT
*
13265822 TATTTGTATTTTTAATTAATA
1 TATTTTTATTTTTAATTAATA
13265843 TATTTTTTATTTTTAATTAATA
1 TA-TTTTTATTTTTAATTAATA
13265865 TATTTTT
1 TATTTTT
13265872 TATCAAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
TATTTTTATTTTTAATTAATA
Found at i:13266406 original size:16 final size:16
Alignment explanation
Indices: 13266385--13266431 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
13266375 AAAAAATTAT
13266385 TTTAAAAATAAAAAAA
1 TTTAAAAATAAAAAAA
*
13266401 TTTAAAAA-AATTTAAAA
1 TTTAAAAATAA--AAAAA
*
13266418 TTAAAAAATAAAAA
1 TTTAAAAATAAAAA
13266432 TAAAAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
15 2 0.08
16 10 0.40
17 11 0.44
18 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TTTAAAAATAAAAAAA
Found at i:13266408 original size:10 final size:10
Alignment explanation
Indices: 13266393--13266417 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13266383 ATTTTAAAAA
13266393 TAAAAAAATT
1 TAAAAAAATT
13266403 TAAAAAAATT
1 TAAAAAAATT
13266413 TAAAA
1 TAAAA
13266418 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAAAAATT
Found at i:13268513 original size:26 final size:26
Alignment explanation
Indices: 13268484--13268533 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
13268474 AATAAACAAT
*
13268484 TAATAGAATCAATTGATCAAATCAAC
1 TAATAGAATCAATCGATCAAATCAAC
*
13268510 TAATAGAATCAATCGGTCAAATCA
1 TAATAGAATCAATCGATCAAATCA
13268534 GCCACTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (26 bp):
TAATAGAATCAATCGATCAAATCAAC
Found at i:13289551 original size:46 final size:46
Alignment explanation
Indices: 13289484--13289576 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
13289474 GGACGTAAGT
13289484 AAGGATAACAACAACAGCCAAATACTCAAAGATGATCATAGGTCGG
1 AAGGATAACAACAACAGCCAAATACTCAAAGATGATCATAGGTCGG
13289530 AAGGATAACAACAACAGCCAAATACTCAAAGATGATCATAGGTCGG
1 AAGGATAACAACAACAGCCAAATACTCAAAGATGATCATAGGTCGG
13289576 A
1 A
13289577 TCACTTCCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.15
Consensus pattern (46 bp):
AAGGATAACAACAACAGCCAAATACTCAAAGATGATCATAGGTCGG
Found at i:13291230 original size:45 final size:45
Alignment explanation
Indices: 13291166--13291258 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
13291156 CCAATTTCTC
* *
13291166 ACTTTGCATGCTAGCACTCCAATTTTGACCACCATTTCGGTTTTG
1 ACTTTGCATGCCAGCACTCCAATTTTGACCACCATTTCGATTTTG
**
13291211 ACTTTGCATGCCATTACTCCAATTTTGACCACCATTTCGATTTTG
1 ACTTTGCATGCCAGCACTCCAATTTTGACCACCATTTCGATTTTG
13291256 ACT
1 ACT
13291259 CGCATAGTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.39
Consensus pattern (45 bp):
ACTTTGCATGCCAGCACTCCAATTTTGACCACCATTTCGATTTTG
Found at i:13295221 original size:81 final size:81
Alignment explanation
Indices: 13295117--13295275 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
13295107 TATAAGATCG
* * * *
13295117 AAGTTCAGAGAAAAATCAAGTTATTAGGCAGGGAGTGCTGGTCTAGTCTGGAACCAGACCAACCT
1 AAGTTCAGAGAAAAATCAAGTTATTAGGCAAGGAGTGCTGGTATAGTCTGGAACCAGAACAACCA
*
13295182 ACAGGCGCAACAGCAC
66 ACAGACGCAACAGCAC
** * **
13295198 AAGTTCAGAGAAAAATCCTGTTATTTGGCAAGGAGTGCTGGTATTTTCTGGAACCAGAACAACCA
1 AAGTTCAGAGAAAAATCAAGTTATTAGGCAAGGAGTGCTGGTATAGTCTGGAACCAGAACAACCA
13295263 ACAGACGCAACAG
66 ACAGACGCAACAG
13295276 GAAAAGTTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (81 bp):
AAGTTCAGAGAAAAATCAAGTTATTAGGCAAGGAGTGCTGGTATAGTCTGGAACCAGAACAACCA
ACAGACGCAACAGCAC
Found at i:13298849 original size:41 final size:41
Alignment explanation
Indices: 13298799--13299097 Score: 472
Period size: 41 Copynumber: 7.3 Consensus size: 41
13298789 AATTCATCAT
*
13298799 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * * *
13298840 GTTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
13298881 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
13298922 ATTCAGATCACCGGCGCTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
13298963 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
13299004 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* *
13299045 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
13299086 ATTCATATCACC
1 ATTCAGATCACC
13299098 AATTCCAAAC
Statistics
Matches: 236, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 236 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:13299023 original size:123 final size:123
Alignment explanation
Indices: 13298799--13299097 Score: 544
Period size: 123 Copynumber: 2.4 Consensus size: 123
13298789 AATTCATCAT
* *
13298799 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGGTTCAGATCACCGGCGCTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCT
13298864 GCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
66 GCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
13298922 ATTCAGATCACCGGCGCTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCT
13298987 GCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
66 GCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
13299045 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCACC
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC
13299098 AATTCCAAAC
Statistics
Matches: 169, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 169 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (123 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCT
GCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:13305292 original size:41 final size:41
Alignment explanation
Indices: 13305242--13305540 Score: 481
Period size: 41 Copynumber: 7.3 Consensus size: 41
13305232 AATTCATCAT
*
13305242 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
13305283 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
13305324 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
13305365 ATTCAGATCACCGGCGCTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
13305406 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
13305447 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* *
13305488 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
13305529 ATTCATATCACC
1 ATTCAGATCACC
13305541 AATTCCAAAC
Statistics
Matches: 238, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 238 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:13305466 original size:123 final size:123
Alignment explanation
Indices: 13305242--13305540 Score: 553
Period size: 123 Copynumber: 2.4 Consensus size: 123
13305232 AATTCATCAT
*
13305242 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCT
13305307 GCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
66 GCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
13305365 ATTCAGATCACCGGCGCTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCT
13305430 GCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
66 GCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
13305488 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCATATCACC
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACC
13305541 AATTCCAAAC
Statistics
Matches: 170, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 170 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (123 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCT
GCTAGGTTTATAACCTGATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:13307806 original size:44 final size:45
Alignment explanation
Indices: 13307721--13307809 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 45
13307711 ATAAAATAAA
13307721 AGTCTTAAGCAATAGTGGTTAAATTAGCTGGACGTTGAAAATATT
1 AGTCTTAAGCAATAGTGGTTAAATTAGCTGGACGTTGAAAATATT
* *
13307766 AGTCTTAAGCAATAGTGGTT-TATTAGCTGGCCGTTGAAAATATT
1 AGTCTTAAGCAATAGTGGTTAAATTAGCTGGACGTTGAAAATATT
13307810 GAAATGATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 22 0.52
45 20 0.48
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (45 bp):
AGTCTTAAGCAATAGTGGTTAAATTAGCTGGACGTTGAAAATATT
Found at i:13312439 original size:21 final size:22
Alignment explanation
Indices: 13312400--13312450 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
13312390 TATATGAAAA
* * *
13312400 TTAAAAAATAACTCTTAATTTT
1 TTAAAAAATAACACATAATTAT
13312422 TTAAAAAATAA-ACATAATTAT
1 TTAAAAAATAACACATAATTAT
*
13312443 CTAAAAAA
1 TTAAAAAA
13312451 GAATGTTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (22 bp):
TTAAAAAATAACACATAATTAT
Found at i:13313600 original size:9 final size:9
Alignment explanation
Indices: 13313586--13313611 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13313576 AAATAGTTCA
13313586 AGTTATTCG
1 AGTTATTCG
13313595 AGTTATTCG
1 AGTTATTCG
13313604 AGTTATTC
1 AGTTATTC
13313612 AGATAAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (9 bp):
AGTTATTCG
Done.