Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168293.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_52, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 159655
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
File 3 of 3
Found at i:132499 original size:17 final size:17
Alignment explanation
Indices: 132465--132511 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
132455 AACTATTAAT
* *
132465 ATAAATTTATAATTTATA
1 ATAAA-TTATTATATATA
132483 ATAAATTATTATATATA
1 ATAAATTATTATATATA
132500 AT-AATTATTATA
1 ATAAATTATTATA
132512 ATTAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 10 0.37
17 12 0.44
18 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATAAATTATTATATATA
Found at i:132515 original size:22 final size:20
Alignment explanation
Indices: 132471--132535 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 20
132461 TAATATAAAT
132471 TTATAATT-TA-TAATAA-A
1 TTATAATTATATTAATAATA
*
132488 TTATTA-TATA-TAATAATTA
1 TTATAATTATATTAATAA-TA
*
132507 TTATAATTA-ATTAATCATA
1 TTATAATTATATTAATAATA
*
132526 TTATACTTAT
1 TTATAATTAT
132536 TATTTAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
16 1 0.03
17 13 0.34
19 17 0.45
20 7 0.18
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATAATTATATTAATAATA
Found at i:132689 original size:30 final size:30
Alignment explanation
Indices: 132655--132717 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
132645 ATATACAAAT
132655 TATAATCTATTCAATAAATAATTAT-ATTAA
1 TATAATCTATTCAAT-AATAATTATAATTAA
* * * *
132685 TATAATTTATTTAATTATTATTATAATTAA
1 TATAATCTATTCAATAATAATTATAATTAA
132715 TAT
1 TAT
132718 TATTAATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (30 bp):
TATAATCTATTCAATAATAATTATAATTAA
Found at i:132830 original size:13 final size:15
Alignment explanation
Indices: 132812--132857 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
132802 TAAATTTAAA
132812 ATTAATA-AATTA-T
1 ATTAATATAATTATT
132825 ATTAATATTAATTATT
1 ATTAATA-TAATTATT
* *
132841 ATTAACATAATAATT
1 ATTAATATAATTATT
132856 AT
1 AT
132858 CATTATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 7 0.25
15 14 0.50
16 7 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAATATAATTATT
Found at i:132851 original size:21 final size:22
Alignment explanation
Indices: 132827--132879 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
132817 TAAATTATAT
132827 TAATATTAATTATTATT-AACA
1 TAATATTAATTATTATTAAACA
*
132848 TAATAATT-ATCATTATTAAACA
1 TAAT-ATTAATTATTATTAAACA
132870 -AAT-TTAATTA
1 TAATATTAATTA
132880 AAAATATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.07
20 3 0.11
21 15 0.56
22 7 0.26
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATATTAATTATTATTAAACA
Found at i:133223 original size:19 final size:18
Alignment explanation
Indices: 133196--133265 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 18
133186 AGTTTTAAAT
*
133196 TATTTTAATATAATTATTA
1 TATTATAATAT-ATTATTA
133215 TATTAT-A-ATATTATT-
1 TATTATAATATATTATTA
133230 T-TTATAATATATTATTAA
1 TATTATAATATATTATT-A
* *
133248 TAGTATTATA-ATTATTA
1 TATTATAATATATTATTA
133265 T
1 T
133266 TAACAAATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
14 4 0.09
15 2 0.05
16 14 0.33
17 4 0.09
18 8 0.19
19 11 0.26
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (18 bp):
TATTATAATATATTATTA
Found at i:133229 original size:16 final size:15
Alignment explanation
Indices: 133208--133256 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
133198 TTTTAATATA
133208 ATTATTATATTATAAT
1 ATTATTAT-TTATAAT
133224 ATTATT-TTTATAAT
1 ATTATTATTTATAAT
* *
133238 A-TATTATTAATAGT
1 ATTATTATTTATAAT
133252 ATTAT
1 ATTAT
133257 AATTATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 4 0.14
14 15 0.52
15 4 0.14
16 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
ATTATTATTTATAAT
Found at i:133432 original size:6 final size:6
Alignment explanation
Indices: 133413--133457 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
133403 TGTTATAAAT
*
133413 TATTAA AATT-A TATTAA TATTAA TA-TAA T-TTAA GTATTAA TATTA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA -TATTAA TATTA
133458 TTGATTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
5 11 0.33
6 18 0.55
7 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (6 bp):
TATTAA
Found at i:133433 original size:17 final size:17
Alignment explanation
Indices: 133413--133459 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
133403 TGTTATAAAT
*
133413 TATTAAAATTATATTAA-
1 TATTAATATTAT-TTAAG
*
133430 TATTAATATAATTTAAG
1 TATTAATATTATTTAAG
133447 TATTAATATTATT
1 TATTAATATTATT
133460 GATTAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TATTAATATTATTTAAG
Found at i:133526 original size:25 final size:25
Alignment explanation
Indices: 133421--133508 Score: 76
Period size: 25 Copynumber: 3.5 Consensus size: 25
133411 ATTATTAAAA
* *
133421 TTATATTAATATTAATATAATTTAAGTA
1 TTATATTAA-ATTAAT-TAATATAA-TC
*
133449 TTAATATT--ATTGATTAA-ATAA-C
1 TT-ATATTAAATTAATTAATATAATC
133471 TTGATATTAAATTAATTAATATAATC
1 TT-ATATTAAATTAATTAATATAATC
133497 TTATATTAAATT
1 TTATATTAAATT
133509 GATAATACTA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
22 7 0.14
24 11 0.22
25 17 0.34
26 8 0.16
28 2 0.04
29 5 0.10
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (25 bp):
TTATATTAAATTAATTAATATAATC
Found at i:133557 original size:30 final size:30
Alignment explanation
Indices: 133498--133568 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 30
133488 AATATAATCT
* *
133498 TATATTAAATTGATAATACTATTGTTATAA
1 TATATTAAATTGATAATACTACTGATATAA
133528 TATATTAAATTGTTATAATA-TACT-ATATAA
1 TATATTAAATTG--ATAATACTACTGATATAA
133558 TAATATTAAAT
1 T-ATATTAAAT
133569 AATAATATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
30 18 0.50
31 12 0.33
32 6 0.17
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (30 bp):
TATATTAAATTGATAATACTACTGATATAA
Found at i:133584 original size:13 final size:13
Alignment explanation
Indices: 133554--133578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
133544 AATATACTAT
133554 ATAATAATATTAA
1 ATAATAATATTAA
133567 ATAATAATATTA
1 ATAATAATATTA
133579 TTTAATGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATAATATTAA
Found at i:133656 original size:26 final size:25
Alignment explanation
Indices: 133617--133763 Score: 79
Period size: 26 Copynumber: 5.6 Consensus size: 25
133607 CATCTCTATT
*
133617 TAAATATTAAATTATTTAATTAATA
1 TAAATATTAAATTATATAATTAATA
*
133642 TAAATATTACTATTATATAATTAATA
1 TAAATATTA-AATTATATAATTAATA
* * * *
133668 GT-TATTTTAATAATTATTTAAATT-ATT
1 -TAAATATT-A-AATTATAT-AATTAATA
*
133695 TAAATTATTTAATTATAT-ATT-ATA
1 TAAA-TATTAAATTATATAATTAATA
133719 TAATAGTTATTAAATTAGTATAAATTAAT-
1 TAA-A--TATTAAATTA-TAT-AATTAATA
133748 TAATATATTATAATTA
1 TAA-ATATTA-AATTA
133764 ATTAATAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 23
0.72 0.11 0.17
Matches are distributed among these distances:
24 8 0.08
25 10 0.11
26 36 0.38
27 19 0.20
28 12 0.13
29 8 0.08
30 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (25 bp):
TAAATATTAAATTATATAATTAATA
Found at i:133699 original size:53 final size:55
Alignment explanation
Indices: 133626--133729 Score: 128
Period size: 53 Copynumber: 1.9 Consensus size: 55
133616 TTAAATATTA
133626 AATTATTTAATTAATATAAA-TA-TTACTATTATATA-AT-TAATAGTTATTTTAAT
1 AATTATTTAATTAATATAAATTATTTA--ATTATATATATATAATAGTTATTTTAAT
*
133679 AATTATTTAAATT-ATTTAAATTATTTAATTATATATTATATAATAGTTATT
1 AATTATTT-AATTAATATAAATTATTTAATTATATA-TATATAATAGTTATT
133730 AAATTAGTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
53 22 0.50
54 6 0.14
55 5 0.11
56 11 0.25
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (55 bp):
AATTATTTAATTAATATAAATTATTTAATTATATATATATAATAGTTATTTTAAT
Found at i:133710 original size:8 final size:9
Alignment explanation
Indices: 133679--133710 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
133669 TTATTTTAAT
133679 AATTATTTA
1 AATTATTTA
133688 AATTATTTA
1 AATTATTTA
133697 AATTATTT-
1 AATTATTTA
133705 AATTAT
1 AATTAT
133711 ATATTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTATTTA
Found at i:133757 original size:22 final size:20
Alignment explanation
Indices: 133627--133770 Score: 66
Period size: 22 Copynumber: 7.0 Consensus size: 20
133617 TAAATATTAA
*
133627 ATTATTTAATTAATATAA-AT
1 ATTATATAATTAAT-TAATAT
*
133647 ATTACTATTATATAATTAATAGTT
1 ATTA-TATAAT-TAATTAATA--T
* *
133671 ATTTTAATAATTATTTAA-ATT
1 ATTAT-ATAATTAATTAATA-T
* *
133692 ATTTAAATTATTTAATT-ATAT
1 A-TTATA-TAATTAATTAATAT
* * *
133713 ATTATATAA-TAGTTATTAA
1 ATTATATAATTAATTAATAT
133732 ATTAGTATAAATTAATTAATAT
1 ATTA-TAT-AATTAATTAATAT
133754 A-T-TATAATTAATTAATA
1 ATTATATAATTAATTAATA
133771 ATACTAATTT
Statistics
Matches: 94, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
18 16 0.17
19 11 0.12
20 11 0.12
21 17 0.18
22 24 0.26
23 7 0.07
24 8 0.09
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.51
Consensus pattern (20 bp):
ATTATATAATTAATTAATAT
Found at i:134975 original size:59 final size:59
Alignment explanation
Indices: 134796--135179 Score: 419
Period size: 59 Copynumber: 6.5 Consensus size: 59
134786 TGTACAGGGA
** * * **
134796 AAAATTGATACTTTCAACTTTT-CTC-CCAAAA---TTTTGGAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAA-TTTATTTTTAAGG
* *
134851 AAAATTAATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTGAAAATTTATTTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTA--TTTTTAAGG
*
134912 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGG
***** *
134971 AAAATTGATACTTTCAACTTTTCCTCAAAACTTTTTTTTTTGAAAATTTATTCTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGG
* *
135030 AAAATTGATACTTTCAATTTTTCCTC--AAAACCCTTTTTTTTTGAAAATTTA-TTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACC---TTTTTTGAAAATTTATTTTTAAGG
* * *
135089 AAAAATTGATACTTTCAGCTTTTCCTC--AAAACCCTTTTTTTTTAAAAATTTATTTTTAAGG
1 -AAAATTGATACTTTCAACTTTTCCTCAAAAAAACC---TTTTTTGAAAATTTATTTTTAAGG
*
135150 AAAATTGATACTTTCAACTTTTTCTCAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAA
135180 GTATTTTTTT
Statistics
Matches: 286, Mismatches: 29, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
55 21 0.07
56 3 0.01
57 6 0.02
59 96 0.34
60 96 0.34
61 62 0.22
62 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGG
Found at i:135000 original size:120 final size:116
Alignment explanation
Indices: 134796--135179 Score: 463
Period size: 120 Copynumber: 3.3 Consensus size: 116
134786 TGTACAGGGA
** * ** *
134796 AAAATTGATACTTTCAACTTTT-CTCCCAAAA---TTTTGGAAAACTTTAATTTCGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAAA-TTT-ATTTTAAGAAAAATT
* * ***
134857 AATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTGAAAATTTATTTTTTTAAGG
64 GATACTTTCAACTTTTCCTCAAAACATTTTTTTTTGAAAATTTA--TTTTTAAGG
134912 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAAACCTTTTTTGAAAATTTA-TTTTAAGAAAAATT
* *
134977 GATACTTTCAACTTTTCCTCAAAACTTTTTTTTTTGAAAATTTATTCTTAAGG
64 GATACTTTCAACTTTTCCTCAAAACATTTTTTTTTGAAAATTTATTTTTAAGG
* *
135030 AAAATTGATACTTTCAATTTTTCCTC-AAAACCCTTTTTTTTTGAAAATTTATTTTAAGGAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAACC---TTTTTTGAAAATTTATTTTAA-GAAAAA
* * *
135094 TTGATACTTTCAGCTTTTCCTCAAAACCCTTTTTTTTTAAAAATTTATTTTTAAGG
62 TTGATACTTTCAACTTTTCCTCAAAA-CATTTTTTTTTGAAAATTTATTTTTAAGG
*
135150 AAAATTGATACTTTCAACTTTTTCTCAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAA
135180 GTATTTTTTT
Statistics
Matches: 235, Mismatches: 21, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
116 28 0.12
117 3 0.01
118 43 0.18
119 47 0.20
120 102 0.43
121 12 0.05
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTGAAAATTTATTTTAAGAAAAATTGA
TACTTTCAACTTTTCCTCAAAACATTTTTTTTTGAAAATTTATTTTTAAGG
Found at i:135076 original size:60 final size:59
Alignment explanation
Indices: 134848--135179 Score: 450
Period size: 59 Copynumber: 5.6 Consensus size: 59
134838 TTTAATTTCG
* *****
134848 AGGAAAATTAATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTGAAAATTTATTTTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCTCAAAACCTTTTTTTTTGAAAATTTA--TTTTTA
*****
134909 AGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTGAAAATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCTCAAAACCTTTTTTTTTGAAAATTTATTTTTA
* * *
134968 AGAAAAATTGATACTTTCAACTTTTCCTCAAAACTTTTTTTTTTGAAAATTTATTCTTA
1 AGGAAAATTGATACTTTCAACTTTTCCTCAAAACCTTTTTTTTTGAAAATTTATTTTTA
*
135027 AGGAAAATTGATACTTTCAATTTTTCCTCAAAACCCTTTTTTTTTGAAAATTTA-TTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCTCAAAA-CCTTTTTTTTTGAAAATTTATTTTTA
* *
135086 AGGAAAAATTGATACTTTCAGCTTTTCCTCAAAACCCTTTTTTTTTAAAAATTTATTTTTA
1 AGG-AAAATTGATACTTTCAACTTTTCCTCAAAA-CCTTTTTTTTTGAAAATTTATTTTTA
*
135147 AGGAAAATTGATACTTTCAACTTTTTCTCAAAA
1 AGGAAAATTGATACTTTCAACTTTTCCTCAAAA
135180 GTATTTTTTT
Statistics
Matches: 250, Mismatches: 18, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
59 96 0.38
60 95 0.38
61 59 0.24
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.45
Consensus pattern (59 bp):
AGGAAAATTGATACTTTCAACTTTTCCTCAAAACCTTTTTTTTTGAAAATTTATTTTTA
Found at i:135193 original size:60 final size:60
Alignment explanation
Indices: 134848--135191 Score: 453
Period size: 60 Copynumber: 5.8 Consensus size: 60
134838 TTTAATTTCG
* ***
134848 AGGAAAATTAATACTTTCAACTTTTCCTCAAAA-AAAACTTTTTTGAAAATTTATTTTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCTCAAAACAATTTTTTTTTGAAAATTTA--TTTTTA
***
134909 AGGAAAATTGATACTTTCAACTTTTCCTCAAAA-AAACCTTTTTTGAAAATTTATTTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCTCAAAACAATTTTTTTTTGAAAATTTATTTTTA
* * *
134968 AGAAAAATTGATACTTTCAACTTTTCCTCAAAAC-TTTTTTTTTTGAAAATTTATTCTTA
1 AGGAAAATTGATACTTTCAACTTTTCCTCAAAACAATTTTTTTTTGAAAATTTATTTTTA
* **
135027 AGGAAAATTGATACTTTCAATTTTTCCTCAAAACCCTTTTTTTTTGAAAATTTA-TTTTA
1 AGGAAAATTGATACTTTCAACTTTTCCTCAAAACAATTTTTTTTTGAAAATTTATTTTTA
* ** *
135086 AGGAAAAATTGATACTTTCAGCTTTTCCTCAAAACCCTTTTTTTTTAAAAATTTATTTTTA
1 AGG-AAAATTGATACTTTCAACTTTTCCTCAAAACAATTTTTTTTTGAAAATTTATTTTTA
* **
135147 AGGAAAATTGATACTTTCAACTTTTTCTCAAAAGTATTTTTTTTT
1 AGGAAAATTGATACTTTCAACTTTTCCTCAAAACAATTTTTTTTT
135192 AATTTTATTT
Statistics
Matches: 259, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
59 97 0.37
60 103 0.40
61 59 0.23
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (60 bp):
AGGAAAATTGATACTTTCAACTTTTCCTCAAAACAATTTTTTTTTGAAAATTTATTTTTA
Found at i:135301 original size:13 final size:13
Alignment explanation
Indices: 135283--135319 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
135273 AATCTAACCT
135283 AATAATAATAATA
1 AATAATAATAATA
135296 AATAAT-ATATATA
1 AATAATAATA-ATA
135309 AATAATAATAA
1 AATAATAATAA
135320 AAAAAAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.14
13 16 0.73
14 3 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:136162 original size:18 final size:18
Alignment explanation
Indices: 136126--136168 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
136116 AAAAAAAAGG
136126 AAATAAAAAAAATCAAAT
1 AAATAAAAAAAATCAAAT
136144 -AATAAAAAAAA-CATTAAT
1 AAATAAAAAAAATCA--AAT
136162 AAATAAA
1 AAATAAA
136169 TAATCAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.09
17 11 0.50
18 3 0.14
19 6 0.27
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (18 bp):
AAATAAAAAAAATCAAAT
Found at i:136241 original size:26 final size:24
Alignment explanation
Indices: 136186--136246 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 24
136176 ATAAACCAAA
136186 AAAT-TAACAGATAAATTAATTAT
1 AAATATAACAGATAAATTAATTAT
136209 AATATATAATCAGATAAA-TATATATAT
1 AA-ATATAA-CAGATAAATTA-AT-TAT
136236 AAATATTAACA
1 AAATA-TAACA
136247 AAAATAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
23 2 0.06
24 2 0.06
25 5 0.16
26 15 0.47
27 8 0.25
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (24 bp):
AAATATAACAGATAAATTAATTAT
Found at i:136279 original size:49 final size:50
Alignment explanation
Indices: 136188--136303 Score: 130
Period size: 49 Copynumber: 2.3 Consensus size: 50
136178 AAACCAAAAA
* *
136188 ATTAACAGATAAATTAATTATAATATATAATCAGATAAATATA-TATATAAAT
1 ATTAACA-ATAAA-TAATAATAATATATAATAAGATAAATATATTA-ATAAAT
*
136240 ATTAACAA-AAATAATAATAATA-ATAATAAAGATATATATATTAATAAAT
1 ATTAACAATAAATAATAATAATATATAAT-AAGATAAATATATTAATAAAT
* *
136289 AGTAATAATAAATAA
1 ATTAACAATAAATAA
136304 GTAAATAAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
48 5 0.09
49 32 0.57
50 11 0.20
51 1 0.02
52 7 0.12
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (50 bp):
ATTAACAATAAATAATAATAATATATAATAAGATAAATATATTAATAAAT
Found at i:136311 original size:43 final size:40
Alignment explanation
Indices: 136207--136311 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 40
136197 TAAATTAATT
* *
136207 ATAATATATAATCAGATAAATATATATATAAATATTAACAAAA
1 ATAATA-ATAAT-A-ATAAATAAAGATATAAATATTAACAAAA
* *
136250 ATAATAATAATAAT-AATAAAGATATATATATTAATAAATA
1 ATAATAATAATAATAAATAAAGATATAAATATTAACAAA-A
*
136290 GTAATAATAAATAAGTAAATAA
1 ATAATAAT-AATAA-TAAATAA
136312 GAAATACTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
39 20 0.38
40 10 0.19
41 6 0.11
42 6 0.11
43 11 0.21
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (40 bp):
ATAATAATAATAATAAATAAAGATATAAATATTAACAAAA
Found at i:136358 original size:12 final size:12
Alignment explanation
Indices: 136344--136385 Score: 59
Period size: 11 Copynumber: 3.5 Consensus size: 12
136334 TATATATAAT
*
136344 ATAAAATAAAAT
1 ATAAAATAAAAA
136356 ATAAAATACAAAA
1 ATAAAATA-AAAA
136369 ATAAAA-AAAAA
1 ATAAAATAAAAA
136380 ATAAAA
1 ATAAAA
136386 CAGACTAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 10 0.36
12 9 0.32
13 9 0.32
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:136363 original size:19 final size:19
Alignment explanation
Indices: 136335--136385 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
136325 GATAAAGAAT
*
136335 ATATATAATATAAAATAAA
1 ATATAAAATATAAAATAAA
*
136354 ATATAAAATACAAAAATAAA
1 ATATAAAATA-TAAAATAAA
136374 A-A-AAAA-ATAAAA
1 ATATAAAATATAAAA
136386 CAGACTAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.14
17 1 0.04
18 4 0.14
19 10 0.36
20 9 0.32
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
ATATAAAATATAAAATAAA
Found at i:136618 original size:46 final size:45
Alignment explanation
Indices: 136551--136748 Score: 269
Period size: 46 Copynumber: 4.4 Consensus size: 45
136541 AAGACTTGAT
* *
136551 CAAGGCTCCTCTAAGCAGAGGCTCAACAACTTTGAAAATGAATAAA
1 CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAA-GAATAAA
*
136597 CAAGGCTCTTCTAATCAGAGGCTCAACGACTTTGAAAATGAATAAA
1 CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAA-GAATAAA
* * *
136643 CAATGCTCCTCTAATAAGAGGCTCAACGACTTTGGAAA-AAT-AA
1 CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAGAATAAA
*
136686 -ATGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAG-ATAAA
1 CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAGAATAAA
* *
136729 CAAAGCTCCTTTAATCAGAG
1 CAAGGCTCCTCTAATCAGAG
136749 TCATTTTTTT
Statistics
Matches: 135, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
42 35 0.26
43 4 0.03
44 19 0.14
46 77 0.57
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (45 bp):
CAAGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAGAATAAA
Found at i:136767 original size:10 final size:10
Alignment explanation
Indices: 136752--136810 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
136742 ATCAGAGTCA
136752 TTTTTTTTGT
1 TTTTTTTTGT
136762 TTTTTTTAT-T
1 TTTTTTT-TGT
136772 TTTTTTGTT-T
1 TTTTTT-TTGT
*
136782 ATTTTTGTTGT
1 -TTTTTTTTGT
*
136793 TTATTTTTGT
1 TTTTTTTTGT
136803 TTTTTTTT
1 TTTTTTTT
136811 TATCAAAGCT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 33 0.80
11 8 0.20
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.86
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:136774 original size:18 final size:19
Alignment explanation
Indices: 136751--136787 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
136741 AATCAGAGTC
136751 ATTTTTTTTGTTT-TTTTT
1 ATTTTTTTTGTTTATTTTT
136769 ATTTTTTTTGTTTATTTTT
1 ATTTTTTTTGTTTATTTTT
136788 GTTGTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.08, C:0.00, G:0.05, T:0.86
Consensus pattern (19 bp):
ATTTTTTTTGTTTATTTTT
Found at i:136777 original size:13 final size:13
Alignment explanation
Indices: 136752--136808 Score: 62
Period size: 13 Copynumber: 4.4 Consensus size: 13
136742 ATCAGAGTCA
*
136752 TTTTT-TTTGTTT
1 TTTTTATTTTTTT
136764 TTTTTATTTTTTT
1 TTTTTATTTTTTT
* *
136777 TGTTTATTTTTGT
1 TTTTTATTTTTTT
*
136790 TGTTTATTTTTGTT
1 TTTTTATTTTT-TT
136804 TTTTT
1 TTTTT
136809 TTTATCAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
12 5 0.13
13 28 0.74
14 5 0.13
ACGTcount: A:0.05, C:0.00, G:0.09, T:0.86
Consensus pattern (13 bp):
TTTTTATTTTTTT
Found at i:137145 original size:41 final size:41
Alignment explanation
Indices: 136841--137151 Score: 344
Period size: 41 Copynumber: 7.6 Consensus size: 41
136831 GAGGCTCAAT
* * * * ** *
136841 GACTTGGAAAAATAAA-TGAATTCTCTAAATAGAAACACCAT
1 GACTTTGAAAAATAAATTG-CTCCTCTAAACAGAGGCACCAC
136882 GACTTT-AAAAATAAA-TGCTCCTCTAAACAGAGGCACCAC
1 GACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
* * * * *
136921 AACTTTGAAAAGTAAATTGCTCCTCTAATCAGAAGCAACCAT
1 GACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC-ACCAC
*
136963 GACTTTGAAAAATAAATTGCTCCTCTAAATAGAGGCAACCAC
1 GACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC-ACCAC
137005 GACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
1 GACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
* * * * *
137046 GACTTTGAAAAGTAAATTTCTCATCTAAATAGAGGTA--AC
1 GACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
*
137085 GAAACTTTCAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
1 G--ACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
* * *
137128 GACGTTGAAAAGTAAATTACTCCT
1 GACTTTGAAAAATAAATTGCTCCT
137152 TGACAATCAT
Statistics
Matches: 229, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
39 24 0.10
40 19 0.08
41 108 0.47
42 75 0.33
43 3 0.01
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (41 bp):
GACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCAC
Found at i:137494 original size:43 final size:42
Alignment explanation
Indices: 137442--137523 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 42
137432 TTTGGCAAAC
* *
137442 TTGGAATTCATATCC-AAAAGTCTAAAGCTTTTCATTTGAATT
1 TTGGAATTCACATCCAAAAATTC-AAAGCTTTTCATTTGAATT
*
137484 TTGGAAATTCACATCCAAAAATTCACAGCTTTTCATTTGA
1 TTGG-AATTCACATCCAAAAATTCAAAGCTTTTCATTTGA
137524 GTTCAAAGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 4 0.11
43 25 0.71
44 6 0.17
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (42 bp):
TTGGAATTCACATCCAAAAATTCAAAGCTTTTCATTTGAATT
Found at i:139011 original size:25 final size:24
Alignment explanation
Indices: 138983--139032 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
138973 AATTTGAATC
*
138983 TCTTTTTTCATTT-TTTCATTTTTTT
1 TCTTCTTTC-TTTCTTTC-TTTTTTT
139008 TCTTCTTTCTTTCTTTCTTTTTTT
1 TCTTCTTTCTTTCTTTCTTTTTTT
139032 T
1 T
139033 AAGTTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (24 bp):
TCTTCTTTCTTTCTTTCTTTTTTT
Found at i:143095 original size:117 final size:118
Alignment explanation
Indices: 142961--143284 Score: 471
Period size: 117 Copynumber: 2.8 Consensus size: 118
142951 TTGTACAGGG
142961 GAAAATTGATACTTTCAAC-TTTCCTTAAAAAAAACTTTTTTGAAAATTTATTTTTTAAGGAAAA
1 GAAAATTGATACTTTCAACTTTTCCTTAAAAAAAACTTTTTTGAAAATTTATTTTTTAAGGAAAA
143025 TTGATACTTTCAACTTTTTCCCAAAAATATGTTTTGAAACTTTTAATTTCG-A
66 TTGATACTTTCAACTTTTTCCCAAAAATATGTTTTGAAACTTTTAATTTCGAA
* * * *
143077 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTCTGAAAATTTA-TTTTTAAGAAAA
1 G-AAAATTGATACTTTCAACTTTTCCTTAAAAAAAACTTTTTTGAAAATTTATTTTTTAAGGAAA
*
143141 ATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAACTTTTAATTTCGAA
65 ATTGATACTTTCAACTTTTTCCCAAAAATATGTTTTGAAACTTTTAATTTCGAA
* * * * * **
143195 GAAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTGAAACTTT-TAATTTCGAGGAAA
1 GAAAATTGATACTTTCAACTTTTCCTTAAAAAAAACTTTTTTGAAAATTTAT-TTTTTAAGGAAA
143258 ATTGATACTTTCAAC-TTTTCCTCAAAA
65 ATTGATACTTTCAACTTTTTCC-CAAAA
143285 GTTTTTTTTT
Statistics
Matches: 186, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
116 24 0.13
117 132 0.71
118 30 0.16
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (118 bp):
GAAAATTGATACTTTCAACTTTTCCTTAAAAAAAACTTTTTTGAAAATTTATTTTTTAAGGAAAA
TTGATACTTTCAACTTTTTCCCAAAAATATGTTTTGAAACTTTTAATTTCGAA
Found at i:143291 original size:58 final size:57
Alignment explanation
Indices: 142960--143293 Score: 377
Period size: 59 Copynumber: 5.7 Consensus size: 57
142950 TTTGTACAGG
* * * * **
142960 GGAAAATTGATACTTTCAAC-TTTCCTTAAAAAAAACTTTTTTGAAA-ATTTATTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC--CAAAAATA-TTTTTTGAAACTTTTA-ATTTCGA
*
143019 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATGTTTTGAAACTTTTAATTTCGA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGAAACTTTTAATTTCGA
* * * * * **
143077 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTCTGAAA-ATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATA--TTTTTTGAAACTTTTAATTTCGA
*
143136 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAACTTTTAATTTCGA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGAAACTTTTAATTTCGA
*
143194 AGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAACTTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATA-TTTTTTGAAACTTTTAATTTCGA
* *
143253 GGAAAATTGATACTTTCAACTTTTCCTCAAAAGTTTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTT
143294 TTGAATTTTA
Statistics
Matches: 238, Mismatches: 26, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
57 22 0.09
58 78 0.33
59 118 0.50
60 15 0.06
61 5 0.02
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.43
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTGAAACTTTTAATTTCGA
Found at i:143756 original size:19 final size:20
Alignment explanation
Indices: 143727--143765 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
143717 AACTCCGGTT
*
143727 AAATATTCATCGGATTCTGG
1 AAATATTCATCGGAATCTGG
143747 AAAT-TTCATCGGAATCTGG
1 AAATATTCATCGGAATCTGG
143766 GTTTTTCGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (20 bp):
AAATATTCATCGGAATCTGG
Found at i:143934 original size:11 final size:11
Alignment explanation
Indices: 143914--143965 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
143904 ATCTGGAAAT
143914 TTTCC-AAAAA
1 TTTCCAAAAAA
143924 TTTCCAAAAAAA
1 TTTCC-AAAAAA
*
143936 ATTCGCAGAAAAA
1 TTTC-CA-AAAAA
*
143949 TCTCCAAAAAA
1 TTTCCAAAAAA
143960 TTTCCA
1 TTTCCA
143966 CCGATTCCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
10 5 0.15
11 10 0.29
12 11 0.32
13 8 0.24
ACGTcount: A:0.50, C:0.21, G:0.04, T:0.25
Consensus pattern (11 bp):
TTTCCAAAAAA
Found at i:144226 original size:13 final size:13
Alignment explanation
Indices: 144208--144232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144198 AGTCGAAAAA
144208 AAAAAGAAATCAG
1 AAAAAGAAATCAG
144221 AAAAAGAAATCA
1 AAAAAGAAATCA
144233 AATAATAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.08, G:0.12, T:0.08
Consensus pattern (13 bp):
AAAAAGAAATCAG
Found at i:144281 original size:20 final size:21
Alignment explanation
Indices: 144253--144292 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
144243 AAAATATTAA
144253 TAAATAAA-TAATCAGATAAAC
1 TAAATAAATTAA-CAGATAAAC
144274 TAAA-AAATTAACAGATAAA
1 TAAATAAATTAACAGATAAA
144293 TTAATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (21 bp):
TAAATAAATTAACAGATAAAC
Found at i:144707 original size:20 final size:22
Alignment explanation
Indices: 144678--144718 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
144668 GAATTTAATT
*
144678 TTATTTTTTAT-AAT-ATATAA
1 TTATTATTTATCAATAATATAA
144698 TTATTATTTATCAATAATATA
1 TTATTATTTATCAATAATATA
144719 TTTAATTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTATTATTTATCAATAATATAA
Found at i:145104 original size:21 final size:21
Alignment explanation
Indices: 145073--145128 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
145063 TTATTAATAT
*
145073 ATTATAA-TAATA-AATTAAA
1 ATTATAATTAATATAACTAAA
*
145092 TTTAATAATTAATATAACTAAA
1 ATT-ATAATTAATATAACTAAA
145114 ATTATAATTAATATA
1 ATTATAATTAATATA
145129 TAATAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 2 0.06
20 4 0.13
21 17 0.55
22 8 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTATAATTAATATAACTAAA
Found at i:145137 original size:17 final size:17
Alignment explanation
Indices: 145065--145139 Score: 55
Period size: 17 Copynumber: 4.2 Consensus size: 17
145055 AAAATTACTT
*
145065 ATTAATATATTATAATA
1 ATTAATATATAATAATA
*
145082 ATAAAT-TA-AATTTAATA
1 ATTAATATATAA--TAATA
*
145099 ATTAATATAACTAAAATTATA
1 ATTAATAT-A-T--AATAATA
145120 ATTAATATATAATAATA
1 ATTAATATATAATAATA
145137 ATT
1 ATT
145140 TATTTTATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 16
0.68 0.08 0.24
Matches are distributed among these distances:
15 1 0.02
16 2 0.04
17 24 0.53
18 1 0.02
19 2 0.04
20 1 0.02
21 12 0.27
23 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTAATATATAATAATA
Found at i:145150 original size:55 final size:54
Alignment explanation
Indices: 145054--145161 Score: 137
Period size: 55 Copynumber: 2.0 Consensus size: 54
145044 TATTTTATTA
* *
145054 TAAAATTACTTATTAATATATTATAATAATAAATTAAATTTAATAATTAATATAAC
1 TAAAATTACTAATTAATATATAATAATAATAAATTAAATTT-ATAATT-ATATAAC
** **
145110 TAAAATTA-TAATTAATATATAATAATAATTTATTTTATTTATAATTATATAA
1 TAAAATTACTAATTAATATATAATAATAATAAATTAAATTTATAATTATATAA
145162 ATAATTAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 6 0.13
54 6 0.13
55 26 0.57
56 8 0.17
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (54 bp):
TAAAATTACTAATTAATATATAATAATAATAAATTAAATTTATAATTATATAAC
Found at i:145177 original size:12 final size:12
Alignment explanation
Indices: 145104--145179 Score: 54
Period size: 12 Copynumber: 6.6 Consensus size: 12
145094 TAATAATTAA
* *
145104 TATAACTAAAAT
1 TATAATTAATAT
145116 TATAATTAATA-
1 TATAATTAATAT
145127 TATAA-TAATAAT
1 TATAATTAAT-AT
* *
145139 T-TATTTTAT-T
1 TATAATTAATAT
145149 TATAATT-ATAT
1 TATAATTAATAT
*
145160 AAATAATTAATAT
1 -TATAATTAATAT
145173 TATAATT
1 TATAATT
145180 TATGTAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
10 8 0.16
11 13 0.26
12 25 0.50
13 4 0.08
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (12 bp):
TATAATTAATAT
Found at i:145188 original size:24 final size:24
Alignment explanation
Indices: 145144--145209 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
145134 ATAATTTATT
145144 TTAT-TTATAATTATATAAAT-AA-
1 TTATATTATAATT-TATAAATAAAC
*
145166 TTAATATTATAATTTATGTAATAAAC
1 TT-ATATTATAATTTAT-AAATAAAC
145192 TTATATTA-AATTTA-AAAT
1 TTATATTATAATTTATAAAT
145210 GAATTATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
22 5 0.14
23 5 0.14
24 17 0.46
25 8 0.22
26 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TTATATTATAATTTATAAATAAAC
Found at i:145205 original size:55 final size:53
Alignment explanation
Indices: 145054--145205 Score: 128
Period size: 55 Copynumber: 2.8 Consensus size: 53
145044 TATTTTATTA
* * **
145054 TAAAATTACTTATTAATATATTATAATAATAAATTAAATTTAATAATTAATATAAC
1 TAAAATTA-TAATT-ATATATAATAATAATTTATTAAATTT-ATAATTAATATAAC
** *
145110 TAAAATTATAATTAATATATAATAATAATTTATTTTATTTATAATTATATAAATAAT
1 TAAAATTATAATT-ATATATAATAATAATTTATTAAATTTATAATTA-AT--ATAAC
* * *
145167 TAATATTATAATT-TATGTAATAA-ACTTATATTAAATTTA
1 TAAAATTATAATTATATATAATAATAATT-TATTAAATTTA
145206 AAATGAATTA
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
54 10 0.12
55 46 0.57
56 8 0.10
57 16 0.20
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.47
Consensus pattern (53 bp):
TAAAATTATAATTATATATAATAATAATTTATTAAATTTATAATTAATATAAC
Found at i:145315 original size:10 final size:10
Alignment explanation
Indices: 145259--145364 Score: 60
Period size: 10 Copynumber: 10.4 Consensus size: 10
145249 TTATGTTAAT
*
145259 TTATAATATAA
1 TTATAA-ATTA
145270 TTATAAATTA
1 TTATAAATTA
145280 TAATATAAA--A
1 T--TATAAATTA
*
145290 TTAATAATTTA
1 TT-ATAAATTA
*
145301 ATATAAATTA
1 TTATAAATTA
*
145311 TTATAACTTA
1 TTATAAATTA
145321 -TAGT-AATTAA
1 TTA-TAAATT-A
145331 TTAATAAATT-
1 TT-ATAAATTA
*
145341 TTATATATTA
1 TTATAAATTA
*
145351 TTATAAATAA
1 TTATAAATTA
145361 TTAT
1 TTAT
145365 TAATATTAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 23
0.69 0.09 0.21
Matches are distributed among these distances:
8 1 0.01
9 15 0.20
10 37 0.50
11 10 0.14
12 11 0.15
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (10 bp):
TTATAAATTA
Found at i:145322 original size:41 final size:40
Alignment explanation
Indices: 145258--145358 Score: 107
Period size: 41 Copynumber: 2.5 Consensus size: 40
145248 ATTATGTTAA
*
145258 TTTATAATATAATTATAAATTATAAT-ATAAAATTAAT-AAT
1 TTTATAA-ATTATTATAAATTATAATAAT-AAATTAATAAAT
* * *
145298 TTAATATAAATTATTATAACTTATAGTAATTAATTAATAAAT
1 TT--TATAAATTATTATAAATTATAATAATAAATTAATAAAT
*
145340 TTTATATATTATTATAAAT
1 TTTATAAATTATTATAAAT
145359 AATTATTAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
40 17 0.33
41 22 0.43
42 12 0.24
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (40 bp):
TTTATAAATTATTATAAATTATAATAATAAATTAATAAAT
Found at i:145362 original size:30 final size:31
Alignment explanation
Indices: 145303--145372 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 31
145293 ATAATTTAAT
*
145303 ATAAATTATTATAACTTATAGTAATTAATTA
1 ATAAATTATTATAACTTATAGTAAATAATTA
145334 ATAAATT-TTATATA-TTATTA-TAAATAATTA
1 ATAAATTATTATA-ACTTA-TAGTAAATAATTA
*
145364 TTAATATTA
1 ATAA-ATTA
145373 ATTTTTAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
30 20 0.61
31 13 0.39
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (31 bp):
ATAAATTATTATAACTTATAGTAAATAATTA
Found at i:145733 original size:10 final size:10
Alignment explanation
Indices: 145709--145742 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
145699 AATTAATTAA
145709 ATAATAATA-
1 ATAATAATAT
145718 ATAATAATAT
1 ATAATAATAT
*
145728 ATAATATTAT
1 ATAATAATAT
145738 ATAAT
1 ATAAT
145743 TATTATTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATAATAATAT
Found at i:145864 original size:18 final size:18
Alignment explanation
Indices: 145840--145883 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
145830 AAATTATAAA
*
145840 TATAATTTATTA-TTTAT
1 TATAATTTATAATTTTAT
*
145857 TAATAATTAATAATTTTAT
1 T-ATAATTTATAATTTTAT
145876 TATAATTT
1 TATAATTT
145884 GGTTTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATAATTTATAATTTTAT
Found at i:146395 original size:10 final size:10
Alignment explanation
Indices: 146351--146417 Score: 51
Period size: 10 Copynumber: 7.3 Consensus size: 10
146341 TAGATATAGT
146351 TTATATA-AA
1 TTATATATAA
146360 TT-TATAATAA
1 TTATAT-ATAA
146370 TTAT-TA-AA
1 TTATATATAA
146378 -TA-ATATAA
1 TTATATATAA
146386 TTATATATAA
1 TTATATATAA
146396 TTATA-ATAA
1 TTATATATAA
*
146405 ATAT-TAATAA
1 TTATAT-ATAA
146415 TTA
1 TTA
146418 AGTTATTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
7 4 0.09
8 7 0.15
9 13 0.28
10 22 0.47
11 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTATATATAA
Found at i:146400 original size:35 final size:33
Alignment explanation
Indices: 146351--146430 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 33
146341 TAGATATAGT
*
146351 TTATATA-AATTTATAATAATTATTAAATAATATAA
1 TTATATATAA-TTATAATAAATATT-AATAAT-TAA
146386 TTATATATAATTATAATAAATATTAATAATTAA
1 TTATATATAATTATAATAAATATTAATAATTAA
*
146419 GT-TAT-TAATTAT
1 TTATATATAATTAT
146431 GTTAATATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
31 7 0.17
32 3 0.07
33 4 0.10
34 6 0.14
35 20 0.48
36 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (33 bp):
TTATATATAATTATAATAAATATTAATAATTAA
Found at i:146404 original size:19 final size:17
Alignment explanation
Indices: 146351--146411 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
146341 TAGATATAGT
146351 TTATATAAATTTATAATAA
1 TTAT-TAAA-TTATAATAA
*
146370 TTATTAAATAAT-ATAA
1 TTATTAAATTATAATAA
146386 TTATATATAATTATAATAA
1 TTAT-TA-AATTATAATAA
*
146405 ATATTAA
1 TTATTAA
146412 TAATTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 8 0.22
17 6 0.17
18 11 0.31
19 11 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTATTAAATTATAATAA
Found at i:146414 original size:19 final size:19
Alignment explanation
Indices: 146361--146417 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
146351 TTATATAAAT
*
146361 TTATAATAATTATTAAATAA
1 TTATAATAAATATT-AATAA
*
146381 -TATAAT-TATA-T-ATAA
1 TTATAATAAATATTAATAA
146396 TTATAATAAATATTAATAA
1 TTATAATAAATATTAATAA
146415 TTA
1 TTA
146418 AGTTATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
15 4 0.13
16 6 0.20
17 4 0.13
18 3 0.10
19 13 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTATAATAAATATTAATAA
Found at i:146940 original size:14 final size:15
Alignment explanation
Indices: 146921--146954 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
146911 TTTAGAAACA
146921 ATTGTTA-AATAATT
1 ATTGTTATAATAATT
146935 ATTGTTATTAATAATT
1 ATTGTTA-TAATAATT
146951 ATTG
1 ATTG
146955 ACCATTAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
16 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (15 bp):
ATTGTTATAATAATT
Found at i:147008 original size:24 final size:25
Alignment explanation
Indices: 146967--147018 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
146957 CATTAGTCCA
**
146967 TAATTAAAATTATTAATT-AATTAAT
1 TAATTAAAATTAAGAATTCAA-TAAT
146992 TAATTAAAA-TAAGAATTCAATAAT
1 TAATTAAAATTAAGAATTCAATAAT
147016 TAA
1 TAA
147019 AATATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
TAATTAAAATTAAGAATTCAATAAT
Found at i:147386 original size:182 final size:182
Alignment explanation
Indices: 147182--148269 Score: 985
Period size: 181 Copynumber: 6.0 Consensus size: 182
147172 GATATTCATA
* * * *
147182 ACTATTTGAATAATTATCTATTTCAAATCA-TTATGACCTATTATTTTGTCATAAAACAATTGTA
1 ACTATTTGAACAATTATCTATTTCAAAT-AGTTATGACCTTTTGTTTTGTCATAAAACAATTGTT
* * *
147246 TCAAGTT-ATATAGGCTTATTCAAAATAAAAT-ATTACTAATTTATTAATATTCTAAAAATTAAT
65 TCTAGTTCATACAAGCTTATTCAAAATAAAATAATTACTAATTTATTAATATTCTAAAAATTAAT
* * * *
147309 GAGTAAGAGATTTAAAAAAATGAATTCGTTTACTGAACAAGTTTAAATCGTGATG
130 AAGTAAGAGATTT-AAAAAAT-AATTCGTTTACTGAACAAGTTCAAATAGTTATG
* * * * *
147364 ACTATTTGAATAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTATCAAAAAAATAATTGTT
1 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTC-ATAAAACAATTG-T
*** *
147429 TTCT-GTTCATACAAGCTTATTTTGAATAAAATAATTA--AATTAATTAATATTC-AAAAATTTA
64 TTCTAGTTCATACAAGCTTATTCAAAATAAAATAATTACTAATTTATTAATATTCTAAAAA-TTA
* * ** * * *
147490 ATAAGTAA-AAATTTAAAAAATAAATTTGTTTTTTGAACATGTTCGAATAGTTCTG
128 ATAAGTAAGAGATTTAAAAAAT-AATTCGTTTACTGAACAAGTTCAAATAGTTATG
* * * * * *
147545 ACTATTTAAACAATTATTTATTTCAAATAGTTATGAGCTTTTGTTTTGTGATAAACCAATTTTTT
1 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
* ** * * * *
147610 CT-GTCCATACAAGCTTATTCTGAATAAAGTAATTA--AATTGATTAATATTCCAAAATTTAATA
66 CTAGTTCATACAAGCTTATTCAAAATAAAATAATTACTAATTTATTAATATTCTAAAAATTAATA
* * * ** * * *
147672 AGTAA-AAATTTTAAAAATAAATT-TTTTGTTGAACATGTTCAAATAGATCTG
131 AGTAAGAGATTTAAAAAAT-AATTCGTTTACTGAACAAGTTCAAATAGTTATG
* * *
147723 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTG-CGATGAACCAATTTTT
1 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTC-ATAAAACAATTGTT
* * * * * *
147787 TTTTG-TCTATATAAGCTTATTCAAAATAAAATAA-TACTAATTTAATAATATTCCAACAATTAA
65 TCTAGTTC-ATACAAGCTTATTCAAAATAAAATAATTACTAATTTATTAATATTCTAAAAATTAA
* * * ** * *
147850 TAAGTAAAAGATTTAAAAAATAAATCTATTTACTGAGTAAGCTCAAATAGTTATA
129 TAAGTAAGAGATTTAAAAAATAATTC-GTTTACTGAACAAGTTCAAATAGTTATG
* * * * *
147905 ACTATTTGAATAATTTTTTATTTCTAAA-AGCTATGATCTTTTGTTTTGTCATAAAACAATTGTT
1 ACTATTTGAACAATTATCTATTTC-AAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTT
* * * *
147969 TCTA-TTCATACAAGTTTATTCAAAATAAAATAA-TACTACTTTATTAATATTTTACAAATTAAT
65 TCTAGTTCATACAAGCTTATTCAAAATAAAATAATTACTAATTTATTAATATTCTAAAAATTAAT
* * * *
148032 AGGT-AGAAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCTAATAGTCATG
130 AAGTAAG-AGATTTAAAAAATAATTC-GTTTACTGAACAAGTTCAAATAGTTATG
* * * * *
148086 TCCATTAGAACAATTATCTATTTCAAATTGTTATGA-CTATTTGTTTTGTCATAAAATAATTGTT
1 ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCT-TTTGTTTTGTCATAAAACAATTGTT
* * * * *
148150 TCTA-TTCATAC-AGAATTATTCAAAATACAATAATT-TTGATTTATTAATATTTTAAAAA-T--
65 TCTAGTTCATACAAG-CTTATTCAAAATAAAATAATTACTAATTTATTAATATTCTAAAAATTAA
* * *
148209 TAA-TAAGAGATTTAAAAACTAAATAT-ATTTA-TGAAACCAGTTCAAATAGTTATG
129 TAAGTAAGAGATTTAAAAAAT-AAT-TCGTTTACTG-AACAAGTTCAAATAGTTATG
148263 ACTATTT
1 ACTATTT
148270 TAATTAATTA
Statistics
Matches: 752, Mismatches: 127, Indels: 59
0.80 0.14 0.06
Matches are distributed among these distances:
176 2 0.00
177 38 0.05
178 93 0.12
179 101 0.13
180 52 0.07
181 271 0.36
182 128 0.17
183 41 0.05
184 22 0.03
185 4 0.01
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.41
Consensus pattern (182 bp):
ACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTT
CTAGTTCATACAAGCTTATTCAAAATAAAATAATTACTAATTTATTAATATTCTAAAAATTAATA
AGTAAGAGATTTAAAAAATAATTCGTTTACTGAACAAGTTCAAATAGTTATG
Found at i:148806 original size:22 final size:22
Alignment explanation
Indices: 148775--148819 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
148765 ATATCTCAAT
* *
148775 TATTATTAATAATTATTATATA
1 TATTACTAATAATTAATATATA
148797 TATTACTAATAATTAATATATA
1 TATTACTAATAATTAATATATA
148819 T
1 T
148820 TAGTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTACTAATAATTAATATATA
Found at i:148829 original size:22 final size:21
Alignment explanation
Indices: 148775--148829 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
148765 ATATCTCAAT
*
148775 TATTATT-AATAATTATTATA
1 TATTATTAAATAATTAATATA
148795 TA-TATTACTAATAATTAATATA
1 TATTATTA--AATAATTAATATA
148817 TATTAGTTAAATA
1 TATTA-TTAAATA
148830 TAACAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
19 4 0.14
20 2 0.07
22 18 0.62
23 2 0.07
24 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTATTAAATAATTAATATA
Found at i:149134 original size:30 final size:31
Alignment explanation
Indices: 149092--149151 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
149082 ATTGCTTGGA
149092 TAAATTTAAATAAATAATTTACT-AATTTAT
1 TAAATTTAAATAAATAATTTACTAAATTTAT
* *
149122 TAAAGTTT-AATAAGTAATTTATTAAATTTA
1 TAAA-TTTAAATAAATAATTTACTAAATTTA
149152 ATTGTTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (31 bp):
TAAATTTAAATAAATAATTTACTAAATTTAT
Found at i:149515 original size:16 final size:17
Alignment explanation
Indices: 149481--149542 Score: 67
Period size: 16 Copynumber: 3.7 Consensus size: 17
149471 TAATAAATTG
*
149481 TTATTATG-TATTTATAA
1 TTATTATGTTA-TAATAA
149498 TTATTAT-TTATAATAA
1 TTATTATGTTATAATAA
*
149514 TTA-TATGTTATAATTA
1 TTATTATGTTATAATAA
149530 TTATATATGTTAT
1 TTAT-TATGTTAT
149543 TAGATATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.08
16 19 0.49
17 9 0.23
18 8 0.21
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
TTATTATGTTATAATAA
Found at i:149686 original size:19 final size:19
Alignment explanation
Indices: 149655--149725 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 19
149645 TTATTAAACC
*
149655 TAATATAAT-TTATATTAA
1 TAATAAAATATTATATTAA
*
149673 TAATAAAATATTATAGTAA
1 TAATAAAATATTATATTAA
*
149692 TCTAATAAAATAGTACTAATCTAA
1 --TAATAAAATATTA-T-AT-TAA
149716 TAATAAAATA
1 TAATAAAATA
149726 ATACTAATCT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 8 0.19
19 8 0.19
21 12 0.28
22 11 0.26
23 1 0.02
24 3 0.07
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (19 bp):
TAATAAAATATTATATTAA
Found at i:149722 original size:22 final size:22
Alignment explanation
Indices: 149670--149788 Score: 93
Period size: 22 Copynumber: 5.4 Consensus size: 22
149660 TAATTTATAT
*
149670 TAATAATAAAATATTATAGTAATC
1 TAATAATAAAATA--ATACTAATC
*
149694 ---TAATAAAATAGTACTAATC
1 TAATAATAAAATAATACTAATC
149713 TAATAATAAAATAATACTAATC
1 TAATAATAAAATAATACTAATC
*** * *
149735 TAATAATATTTTGAACTAGCTTATT
1 TAATAATAAAAT-AA-TA-CTAATC
*
149760 TGA-AATAAAATAATACTAATC
1 TAATAATAAAATAATACTAATC
149781 TAATAATA
1 TAATAATA
149789 TTTTGAAAAT
Statistics
Matches: 73, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
19 7 0.10
21 16 0.22
22 33 0.45
23 4 0.05
24 7 0.10
25 6 0.08
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (22 bp):
TAATAATAAAATAATACTAATC
Found at i:150257 original size:18 final size:18
Alignment explanation
Indices: 150234--150268 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
150224 GTCCAATTAA
150234 ATTATATAATAAATAATT
1 ATTATATAATAAATAATT
*
150252 ATTATATAATATATAAT
1 ATTATATAATAAATAAT
150269 ATACAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATATAATAAATAATT
Found at i:150269 original size:25 final size:25
Alignment explanation
Indices: 150236--150311 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
150226 CCAATTAAAT
*
150236 TATATAATAAATAATTATTATATA-A
1 TATATAATAAATAATTATAAT-TACA
* *
150261 TATATAATATACAATTATAATTACA
1 TATATAATAAATAATTATAATTACA
*
150286 TATTATAATAATTAA-TATAATT-CA
1 TA-TATAATAAATAATTATAATTACA
150310 TA
1 TA
150312 AAATATTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 6 0.14
25 28 0.65
26 9 0.21
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (25 bp):
TATATAATAAATAATTATAATTACA
Found at i:150281 original size:13 final size:14
Alignment explanation
Indices: 150249--150295 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
150239 ATAATAAATA
*
150249 ATTATTATATA-AT
1 ATTATAATATACAT
150262 A-TATAATATACA-
1 ATTATAATATACAT
150274 ATTATAAT-TACAT
1 ATTATAATATACAT
150287 ATTATAATA
1 ATTATAATA
150296 ATTAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 13 0.45
13 16 0.55
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTATAATATACAT
Found at i:150317 original size:47 final size:44
Alignment explanation
Indices: 150227--150317 Score: 103
Period size: 47 Copynumber: 2.0 Consensus size: 44
150217 TATATATGTC
* *
150227 CAATTAAATTATATAATAAATAATTATTATATAATATATAATATA
1 CAATTAAATTACATAATAAATAATTA-TATATAATATAAAATATA
*
150272 CAATTATAATTACATATTATAATAATTA-ATATAATTCATAAAATAT
1 CAATTA-AATTACATAATA-AATAATTATATATAA-T-ATAAAATAT
150318 TATTAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
45 12 0.31
46 11 0.28
47 16 0.41
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (44 bp):
CAATTAAATTACATAATAAATAATTATATATAATATAAAATATA
Found at i:150408 original size:18 final size:19
Alignment explanation
Indices: 150385--150420 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
150375 AATTACTATA
150385 ATAAATAGTAA-TAATATT
1 ATAAATAGTAACTAATATT
*
150403 ATAAATATTAACTAATAT
1 ATAAATAGTAACTAATAT
150421 ATGAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
ATAAATAGTAACTAATATT
Found at i:151164 original size:22 final size:21
Alignment explanation
Indices: 151123--151192 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
151113 AATTTGTTAG
151123 TAATTTATTAATAAATAAAAT
1 TAATTTATTAATAAATAAAAT
151144 TAATATTATTAATAACA-AAAA-
1 TAAT-TTATTAATAA-ATAAAAT
* *
151165 TATTTGTAATAATAATATAAAAAT
1 TAATT-TATTAATAA-AT-AAAAT
151189 TAAT
1 TAAT
151193 AATAATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
20 1 0.03
21 16 0.41
22 14 0.36
23 5 0.13
24 3 0.08
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (21 bp):
TAATTTATTAATAAATAAAAT
Found at i:151468 original size:31 final size:33
Alignment explanation
Indices: 151433--151493 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
151423 TAATATCAGT
151433 TATTT-ATAAATAATAAAAATAA-AATATATTA
1 TATTTAATAAATAATAAAAATAATAATATATTA
* * *
151464 TATTTAATAAGTTATAAAATTAATAATATA
1 TATTTAATAAATAATAAAAATAATAATATA
151494 GCAATAATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 5 0.20
32 14 0.56
33 6 0.24
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (33 bp):
TATTTAATAAATAATAAAAATAATAATATATTA
Found at i:151538 original size:16 final size:17
Alignment explanation
Indices: 151507--151541 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
151497 ATAATGATTT
*
151507 ATTTATTGATTAATTAA
1 ATTTATTGAATAATTAA
151524 ATTTATT-AATAATTAA
1 ATTTATTGAATAATTAA
151540 AT
1 AT
151542 AATTATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTTATTGAATAATTAA
Found at i:151739 original size:15 final size:16
Alignment explanation
Indices: 151714--151753 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
151704 TATATTTTTG
151714 TTAATTCAATTTAATA-
1 TTAATT-AATTTAATAT
151730 TTAATTAA-TTAATAT
1 TTAATTAATTTAATAT
151745 TTAATTAAT
1 TTAATTAAT
151754 AAACAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.27
15 10 0.45
16 6 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATTAATTTAATAT
Found at i:152581 original size:17 final size:18
Alignment explanation
Indices: 152559--152612 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 18
152549 TTAATAAATA
152559 ATAATTTATA-AATTATT
1 ATAATTTATATAATTATT
152576 ATAA-TTATTATAATATATT
1 ATAATTTA-TATAAT-TATT
152595 ATTAATTATATATAATTA
1 A-TAATT-TATATAATTA
152613 AATTAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
16 3 0.10
17 6 0.19
18 3 0.10
19 5 0.16
20 5 0.16
21 7 0.23
22 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATAATTTATATAATTATT
Found at i:152588 original size:19 final size:21
Alignment explanation
Indices: 152564--152609 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
152554 AAATAATAAT
152564 TTATAAAT-TATTA-TAATTA
1 TTATAAATATATTATTAATTA
152583 TTAT-AATATATTATTAATTA
1 TTATAAATATATTATTAATTA
152603 TATATAA
1 T-TATAA
152610 TTAAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 3 0.13
19 9 0.39
20 7 0.30
21 3 0.13
22 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATAAATATATTATTAATTA
Found at i:152605 original size:14 final size:14
Alignment explanation
Indices: 152573--152623 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
152563 TTTATAAATT
152573 ATTATA-ATTATT-
1 ATTATATATTATTA
*
152585 ATAATATATTATTA
1 ATTATATATTATTA
*
152599 ATTATATATAATTAA
1 ATTATATATTATT-A
152614 ATTAATATAT
1 ATT-ATATAT
152624 CAATATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 5 0.16
13 6 0.19
14 11 0.34
15 4 0.12
16 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATTATATATTATTA
Found at i:152611 original size:10 final size:10
Alignment explanation
Indices: 152559--152612 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
152549 TTAATAAATA
152559 ATAATT-TAT
1 ATAATTATAT
152568 A-AATTAT-T
1 ATAATTATAT
152576 ATAATTAT-T
1 ATAATTATAT
152585 ATAA-TATATT
1 ATAATTATA-T
152595 ATTAATTATAT
1 A-TAATTATAT
152606 ATAATTA
1 ATAATTA
152613 AATTAATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
8 9 0.23
9 13 0.33
10 8 0.21
11 5 0.13
12 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATAATTATAT
Found at i:152617 original size:22 final size:22
Alignment explanation
Indices: 152566--152622 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
152556 ATAATAATTT
152566 ATAAATTATTATAATTATTATA
1 ATAAATTATTATAATTATTATA
*
152588 ATATATTA-T-TAATTATATATA
1 ATAAATTATTATAATTAT-TATA
*
152609 ATTAAATTAATATA
1 A-TAAATTATTATA
152623 TCAATATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 13 0.45
23 1 0.03
24 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAAATTATTATAATTATTATA
Found at i:152620 original size:30 final size:29
Alignment explanation
Indices: 152546--152623 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
152536 ATATCCATAT
152546 TAATTAATA-AATAATAATTTATAAATTATTA
1 TAATTAATATAAT-AT-A-TTATAAATTATTA
* *
152577 TAATTATTATAATATATTATTAATTATATA
1 TAATTAATATAATATATTATAAATTAT-TA
152607 TAATTAA-ATTAATATAT
1 TAATTAATA-TAATATAT
152624 CAATATTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 11 0.27
30 17 0.41
31 10 0.24
32 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TAATTAATATAATATATTATAAATTATTA
Found at i:153331 original size:177 final size:175
Alignment explanation
Indices: 152885--153408 Score: 528
Period size: 177 Copynumber: 3.0 Consensus size: 175
152875 TGAGATTGAT
* * * *
152885 AATTGTTCAAATATTCATAATTATTTGAACTAGTTTGGTAAACAGATTTATTGTTTAAATTTGTT
1 AATTGTTCAAATAATCATAATTATTTGAACTTGTTTGGTAAACAGATTTATTTTTTAAATAT-TT
* * ** *
152950 ACCTATT-ATTTTTGAAATATTAATCAATTAGTATTATTTTATTTTGAATAAGTTTGTATGATAA
65 -CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTA-TTCCAATAAGCTTGTAT--TAA
* * * *
153014 -AAAACAATTGTATTATGACAAAATAAAAGGTCATAATGATTTGAAATAGAT
126 TGAAACAATTGTTTTATGACAAAATAAAAGGTCATAACGATTT--AATAGAC
* *** *
153065 AATTATTCAAATGGCCATAATTATTTTAAC-TGATTTGGTAAACAGATTTATTTTTT-AA-ATTT
1 AATTGTTCAAATAATCATAATTATTTGAACTTG-TTTGGTAAACAGATTTATTTTTTAAATATTT
** *
153127 CTTATTAATTTAGGAAATATTAATAAATTAGTATTATTTTATTCCATCTAAGCTTGTATTAACTG
65 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCCA-ATAAGCTTGTATTAA-TG
* *
153192 AAACAATTGTTTTATGACAAATTAAAA-GTTATAACG-TTT-ATAGAC
128 AAACAATTGTTTTATGACAAAATAAAAGGTCATAACGATTTAATAGAC
* *
153237 AATTGTTCAAATAATAATAACTATTTGAACTTGTTTGGTAAACAGATTTATTTTTTAAATCCATT
1 AATTGTTCAAATAATCATAATTATTTGAACTTGTTTGGTAAACAGATTTATTTTTTAAAT--ATT
* * * * *
153302 TCTTATTAATTTTCTG-AATGTAGAATAAATTAGTATTAATTTATTCTAAATAAGCTTGTATGAA
64 TCTTATTAATTTT-TGAAATAT-TAATAAATTAGTATTATTTTATTC-CAATAAGCTTGTATTAA
* * * *
153366 TTGAAACAATTATTTTATGACTAAA-AAATGGTCAAAACGATTT
126 -TGAAACAATTGTTTTATGACAAAATAAAAGGTCATAACGATTT
153409 GAAGTATATA
Statistics
Matches: 285, Mismatches: 44, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
172 51 0.18
173 4 0.01
175 6 0.02
176 37 0.13
177 132 0.46
178 5 0.02
179 3 0.01
180 47 0.16
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (175 bp):
AATTGTTCAAATAATCATAATTATTTGAACTTGTTTGGTAAACAGATTTATTTTTTAAATATTTC
TTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCCAATAAGCTTGTATTAATGAAA
CAATTGTTTTATGACAAAATAAAAGGTCATAACGATTTAATAGAC
Found at i:153622 original size:13 final size:13
Alignment explanation
Indices: 153604--153628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
153594 AGTAAAATAT
153604 TAATAATTTTATC
1 TAATAATTTTATC
153617 TAATAATTTTAT
1 TAATAATTTTAT
153629 AATAAATCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATAATTTTATC
Found at i:153707 original size:17 final size:18
Alignment explanation
Indices: 153675--153708 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
153665 TTATTATTAA
*
153675 TAAATATAATTAATAATT
1 TAAATATAAATAATAATT
153693 TAAAT-TAAATAATAAT
1 TAAATATAAATAATAAT
153709 AATTTGTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATATAAATAATAATT
Found at i:153993 original size:21 final size:21
Alignment explanation
Indices: 153967--154007 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
153957 AATTTATATC
*
153967 TTTTAAATTGATAATTTTAAA
1 TTTTAAATTGATAATATTAAA
*
153988 TTTTAAATTGTTAATATTAA
1 TTTTAAATTGATAATATTAA
154008 TAATAGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
TTTTAAATTGATAATATTAAA
Found at i:154023 original size:17 final size:16
Alignment explanation
Indices: 154000--154043 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
153990 TTAAATTGTT
154000 AATATTAATAATAG-AA
1 AATATTAATAAT-GTAA
154016 ATATATTAAT-ATGTAA
1 A-ATATTAATAATGTAA
154032 AATATTAATAAT
1 AATATTAATAAT
154044 TAGATTGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 9 0.36
16 8 0.32
17 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
AATATTAATAATGTAA
Found at i:154041 original size:23 final size:22
Alignment explanation
Indices: 153998--154045 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
153988 TTTTAAATTG
153998 TTAATATTAATAATAGAAATATA
1 TTAATATTAATAATAGAAATA-A
**
154021 TTAATATGTAA-AATATTAATAA
1 TTAATAT-TAATAATAGAAATAA
154043 TTA
1 TTA
154046 GATTGTTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 15 0.68
24 3 0.14
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
TTAATATTAATAATAGAAATAA
Found at i:154173 original size:16 final size:17
Alignment explanation
Indices: 154152--154184 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
154142 TAATACTATA
154152 ATATAT-ATTTAAAAAT
1 ATATATAATTTAAAAAT
*
154168 ATATATAATTTATAAAT
1 ATATATAATTTAAAAAT
154185 TTATTAGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATATAATTTAAAAAT
Found at i:154354 original size:24 final size:24
Alignment explanation
Indices: 154327--154386 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
154317 TTATAAAAGG
*
154327 TAATT-TTAATATATAATTTAATAA
1 TAATTATTAATATATAACTTAAT-A
* * *
154351 TAATTATAAATATTTAACTTAATC
1 TAATTATTAATATATAACTTAATA
*
154375 TAATTGTTAATA
1 TAATTATTAATA
154387 CAATTATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (24 bp):
TAATTATTAATATATAACTTAATA
Found at i:154875 original size:29 final size:27
Alignment explanation
Indices: 154843--154896 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
154833 ATATTTATCA
*
154843 TTATAATAATTATTTAACTATATTATTAT
1 TTATAATAATAATTTAA-TA-ATTATTAT
*
154872 TTATTATAATAATTTAATAATTATT
1 TTATAATAATAATTTAATAATTATT
154897 GAAATATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 2 0.09
29 15 0.65
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
TTATAATAATAATTTAATAATTATTAT
Found at i:155031 original size:17 final size:18
Alignment explanation
Indices: 155011--155045 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
155001 ATTATATTTA
155011 TAATAATTAATAT-TAAT
1 TAATAATTAATATATAAT
*
155028 TAATTATTAATATATAAT
1 TAATAATTAATATATAAT
155046 ATTTGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATAATTAATATATAAT
Found at i:155045 original size:24 final size:21
Alignment explanation
Indices: 154995--155048 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 21
154985 TAACTAACAT
*
154995 TATAATATTATATTTATAATA
1 TATAATATTATAATTATAATA
155016 -ATTAATATTAATTAATTATTAATA
1 TA-TAATATT-A-TAATTA-TAATA
155040 TATAATATT
1 TATAATATT
155049 TGAATTACTC
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 1 0.04
21 7 0.26
22 1 0.04
23 5 0.19
24 12 0.44
25 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TATAATATTATAATTATAATA
Found at i:155352 original size:18 final size:18
Alignment explanation
Indices: 155325--155366 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
155315 TTATAAAATC
*
155325 AATTAATTA-TTATTTATT
1 AATTATTTATTTATTTA-T
155343 AATTATTTATTTATTTAT
1 AATTATTTATTTATTTAT
155361 AATTAT
1 AATTAT
155367 AATTAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTATTTATTTATTTAT
Found at i:155996 original size:14 final size:14
Alignment explanation
Indices: 155972--156019 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
155962 TTATAATATA
155972 TAAATTA-TATTAT
1 TAAATTAGTATTAT
155985 TAAATTAGTATTAT
1 TAAATTAGTATTAT
*
155999 TATTATATAGATATTAT
1 TA-AAT-TAG-TATTAT
156016 TAAA
1 TAAA
156020 ATAAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 7 0.24
14 8 0.28
15 2 0.07
16 4 0.14
17 8 0.28
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (14 bp):
TAAATTAGTATTAT
Found at i:156001 original size:17 final size:17
Alignment explanation
Indices: 155979--156017 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
155969 ATATAAATTA
155979 TATTATTAAATTAG-TAT
1 TATTATTAAA-TAGATAT
*
155996 TATTATTATATAGATAT
1 TATTATTAAATAGATAT
156013 TATTA
1 TATTA
156018 AAATAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
TATTATTAAATAGATAT
Found at i:156307 original size:12 final size:13
Alignment explanation
Indices: 156292--156321 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
156282 ATAAATAACA
156292 ATATAAATTA-TT
1 ATATAAATTATTT
156304 ATATAAATTATTT
1 ATATAAATTATTT
156317 ATATA
1 ATATA
156322 TTTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATAAATTATTT
Found at i:156335 original size:26 final size:26
Alignment explanation
Indices: 156304--156389 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 26
156294 ATAAATTATT
156304 ATATAAATTATTTATATATTTAATAA
1 ATATAAATTATTTATATATTTAATAA
156330 ATAT-AATTATTTATA-ATTATAACTAA
1 ATATAAATTATTTATATATT-TAA-TAA
* * *
156356 TTATATAATTTATTAATTTATATT-ATAA
1 --ATATAAATTATTTATATAT-TTAATAA
156384 ATATAA
1 ATATAA
156390 GTATAATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
24 3 0.06
25 14 0.28
26 13 0.26
28 7 0.14
29 9 0.18
30 3 0.06
31 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATAAATTATTTATATATTTAATAA
Found at i:156342 original size:17 final size:17
Alignment explanation
Indices: 156320--156433 Score: 54
Period size: 17 Copynumber: 6.2 Consensus size: 17
156310 ATTATTTATA
156320 TATTTAATAAATATAAT
1 TATTTAATAAATATAAT
* *
156337 TATTT-ATAATTATAAC
1 TATTTAATAAATATAAT
* *
156353 TAATTATATAATTTATTAATT
1 TATTTA-ATAA-ATA-TAA-T
156374 TATATT-ATAAATATAAGT
1 TAT-TTAATAAATATAA-T
**
156392 ATAATATATAATATTTATAAT
1 -T-AT-T-TAATAAATATAAT
156413 TATTTAAT-AATAATAAT
1 TATTTAATAAAT-ATAAT
156430 TATT
1 TATT
156434 ATTAATATAA
Statistics
Matches: 75, Mismatches: 11, Indels: 22
0.69 0.10 0.20
Matches are distributed among these distances:
16 14 0.19
17 18 0.24
18 9 0.12
19 8 0.11
20 12 0.16
21 4 0.05
22 10 0.13
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (17 bp):
TATTTAATAAATATAAT
Found at i:156470 original size:13 final size:14
Alignment explanation
Indices: 156451--156496 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
156441 TAACTAATTG
156451 AAATTATAT-TATT
1 AAATTATATATATT
*
156464 TAATTATAATATATT
1 AAATTAT-ATATATT
156479 AAATTA-ATATATT
1 AAATTATATATATT
156492 AAATT
1 AAATT
156497 TATTAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 18 0.62
14 2 0.07
15 9 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATTATATATATT
Found at i:156491 original size:28 final size:29
Alignment explanation
Indices: 156430--156506 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 29
156420 TAATAATAAT
156430 TATTA-TTAA-TATAACTA-ATTGAAATTA
1 TATTATTTAATTATAA-TATATTGAAATTA
156457 TATTATTTAATTATAATATATT-AAATTA
1 TATTATTTAATTATAATATATTGAAATTA
*
156485 -ATATATTAAATTTATTAATATA
1 TAT-TATTTAA-TTA-TAATATA
156507 CAATTAATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
27 7 0.16
28 18 0.42
29 11 0.26
30 7 0.16
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (29 bp):
TATTATTTAATTATAATATATTGAAATTA
Found at i:156800 original size:17 final size:16
Alignment explanation
Indices: 156778--156833 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 16
156768 TTATAATATT
156778 AATTATAATATTATAA
1 AATTATAATATTATAA
* *
156794 GAATTATAATATTTTAT
1 -AATTATAATATTATAA
156811 AATTAATTAATATTATAA
1 AATT-A-TAATATTATAA
156829 AATTA
1 AATTA
156834 ATGATAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.12
17 16 0.48
18 13 0.39
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
AATTATAATATTATAA
Found at i:156823 original size:18 final size:18
Alignment explanation
Indices: 156764--156835 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
156754 AATTTATAAA
*
156764 TAAT-TTATAATATTAATT
1 TAATATTATAAAATTAA-T
156782 ATAATATTATAAGAATT-A-
1 -TAATATTATAA-AATTAAT
* *
156800 TAATATTTTATAATTAAT
1 TAATATTATAAAATTAAT
156818 TAATATTATAAAATTAAT
1 TAATATTATAAAATTAAT
156836 GATAAATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
16 4 0.09
17 10 0.23
18 16 0.36
19 4 0.09
20 7 0.16
21 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (18 bp):
TAATATTATAAAATTAAT
Found at i:156971 original size:27 final size:27
Alignment explanation
Indices: 156907--156989 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
156897 TTTCAACAAT
*
156907 TATTA-ATTAATCAAATAGTAAAATAA
1 TATTATATTATTCAAATAGTAAAATAA
156933 TATTATATTATTCAAATA-TATAAATATA
1 TATTATATTATTCAAATAGTA-AAATA-A
* *
156961 TATTATA-TATT--ATTTGTAAAATAA
1 TATTATATTATTCAAATAGTAAAATAA
156985 TATTA
1 TATTA
156990 AATATTTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
24 6 0.12
25 7 0.14
26 9 0.18
27 20 0.40
28 8 0.16
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
TATTATATTATTCAAATAGTAAAATAA
Found at i:157406 original size:36 final size:36
Alignment explanation
Indices: 157336--157416 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 36
157326 TAATTATGTT
* *
157336 ATATTATTTCTATATTAGTAAATATATTAAATAA-TA
1 ATATTAATTCTATATTA-TAAATATAATAAATAATTA
*
157372 ATATTAATTCTATAATT-TAAATATAATACTATAATTA
1 ATATTAATTCTAT-ATTATAAATATAATA-AATAATTA
157409 ATATTAAT
1 ATATTAAT
157417 ATAGTTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
35 10 0.26
36 16 0.41
37 13 0.33
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (36 bp):
ATATTAATTCTATATTATAAATATAATAAATAATTA
Found at i:157520 original size:13 final size:13
Alignment explanation
Indices: 157502--157545 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
157492 ATATTTATAA
157502 ATTATACTAATAT
1 ATTATACTAATAT
157515 ATTATACT-ATAT
1 ATTATACTAATAT
157527 AATTATA-TAATAT
1 -ATTATACTAATAT
157540 ATTATA
1 ATTATA
157546 TATTTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTATACTAATAT
Found at i:157527 original size:20 final size:20
Alignment explanation
Indices: 157504--157547 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
157494 ATTTATAAAT
* *
157504 TATACTAATATATTATACTA
1 TATAATAATATAATATACTA
* *
157524 TATAATTATATAATATATTA
1 TATAATAATATAATATACTA
157544 TATA
1 TATA
157548 TTTATTATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
TATAATAATATAATATACTA
Found at i:157537 original size:25 final size:25
Alignment explanation
Indices: 157497--157545 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
157487 ATATCATATT
157497 TATAAATTATACTAATATATTATAC
1 TATAAATTATACTAATATATTATAC
157522 TATATAATTATA-TAATATATTATA
1 TATA-AATTATACTAATATATTATA
157546 TATTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (25 bp):
TATAAATTATACTAATATATTATAC
Found at i:157552 original size:20 final size:20
Alignment explanation
Indices: 157511--157552 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
157501 AATTATACTA
*
157511 ATATATTATACTATATAATT
1 ATATAATATACTATATAATT
* *
157531 ATATAATATATTATATATTT
1 ATATAATATACTATATAATT
157551 AT
1 AT
157553 TATTTATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATAATATACTATATAATT
Found at i:157844 original size:24 final size:24
Alignment explanation
Indices: 157817--157865 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
157807 TTTAAACATG
157817 TTATAAATAATATATTA-TA-AATTA
1 TTAT-AATAATA-ATTATTACAATTA
157841 TTATAATAATAATTATTACAATTA
1 TTATAATAATAATTATTACAATTA
157865 T
1 T
157866 CTTAGTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.17
23 9 0.39
24 10 0.43
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATAATAATAATTATTACAATTA
Found at i:158526 original size:21 final size:20
Alignment explanation
Indices: 158490--158563 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 20
158480 AACTTAATAT
158490 TTAAATAATTATTTTTATAG
1 TTAAATAATTATTTTTATAG
*
158510 TTAAATTATTAATTTTTATTTAG
1 TTAAATAATT-ATTTTTA--TAG
* *
158533 TATAATTAATTATTTTAATAG
1 T-TAAATAATTATTTTTATAG
158554 TT-AATAATTA
1 TTAAATAATTA
158564 AATCTGAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
19 7 0.16
20 10 0.22
21 11 0.24
23 10 0.22
24 7 0.16
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
TTAAATAATTATTTTTATAG
Found at i:158560 original size:23 final size:23
Alignment explanation
Indices: 158495--158564 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
158485 AATATTTAAA
* *
158495 TAATTATTTTTATAGTTAAATTAT
1 TAATTATTTTAATAGTT-AATAAT
*
158519 TAA-T-TTTTATTTAG-T-ATAAT
1 TAATTATTTTA-ATAGTTAATAAT
158539 TAATTATTTTAATAGTTAATAAT
1 TAATTATTTTAATAGTTAATAAT
158562 TAA
1 TAA
158565 ATCTGAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
20 7 0.19
21 4 0.11
22 11 0.30
23 12 0.32
24 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
TAATTATTTTAATAGTTAATAAT
Found at i:158999 original size:22 final size:22
Alignment explanation
Indices: 158974--159027 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
158964 AATTATTTAT
158974 TTATAGAT-TATCAATAATATAA
1 TTATA-ATATATCAATAATATAA
**
158996 TTATAATATATTTATAATATAA
1 TTATAATATATCAATAATATAA
*
159018 ATATAATATA
1 TTATAATATA
159028 GGGTAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TTATAATATATCAATAATATAA
Found at i:159001 original size:11 final size:11
Alignment explanation
Indices: 158987--159027 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
158977 TAGATTATCA
158987 ATAATATAATT
1 ATAATATAATT
*
158998 ATAATATATTT
1 ATAATATAATT
*
159009 ATAATATAAAT
1 ATAATATAATT
159020 ATAATATA
1 ATAATATA
159028 GGGTAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATATAATT
Found at i:159236 original size:20 final size:20
Alignment explanation
Indices: 159211--159250 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
159201 AACTTGTTAA
159211 AATAATTAACATAATTAATT
1 AATAATTAACATAATTAATT
* *
159231 AATAATTAATATTATTAATT
1 AATAATTAACATAATTAATT
159251 GATTAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAATTAACATAATTAATT
Found at i:159316 original size:22 final size:21
Alignment explanation
Indices: 159290--159369 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 21
159280 TGTTTCCATG
159290 ATAATTTAATAATATAAATTA
1 ATAATTTAATAATATAAATTA
* * *
159311 ATTAATATACTAATAT---CTA
1 A-TAATTTAATAATATAAATTA
*
159330 ATAATTTAATATTATAAATT-
1 ATAATTTAATAATATAAATTA
* *
159350 ATAA-TAAACAATATAAATTA
1 ATAATTTAATAATATAAATTA
159370 TTTATCATTA
Statistics
Matches: 44, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
18 11 0.25
19 15 0.34
20 4 0.09
21 2 0.05
22 12 0.27
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATTTAATAATATAAATTA
Found at i:159422 original size:16 final size:16
Alignment explanation
Indices: 159360--159423 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 16
159350 ATAATAAACA
159360 ATATAAATTATT-TAT
1 ATATAAATTATTATAT
* *
159375 CAT-TAATTTATGATAT
1 -ATATAAATTATTATAT
* * *
159391 ATATTAACTATCATAT
1 ATATAAATTATTATAT
159407 ATATAAATTATTATAT
1 ATATAAATTATTATAT
159423 A
1 A
159424 AATTATAAGA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
15 9 0.24
16 28 0.76
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATAAATTATTATAT
Done.