Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold77
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: 1374688
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.34
Warning! 47366 characters in sequence are not A, C, G, or T
File 6 of 9
Found at i:673039 original size:13 final size:15
Alignment explanation
Indices: 673012--673043 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
673002 TACACATTTT
673012 AAAATATATTATAAA
1 AAAATATATTATAAA
673027 AAAATA-ATT-TAAA
1 AAAATATATTATAAA
673040 AAAA
1 AAAA
673044 GAAATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 3 0.18
15 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATATATTATAAA
Found at i:676085 original size:13 final size:13
Alignment explanation
Indices: 676067--676104 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
676057 AAAACATAAT
676067 ATAATATAAAAAA
1 ATAATATAAAAAA
*
676080 ATAATATAAATATA
1 ATAATATAAA-AAA
676094 AT-ATATAAAAA
1 ATAATATAAAAA
676105 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 1 0.05
13 17 0.77
14 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATATAAAAAA
Found at i:676127 original size:18 final size:18
Alignment explanation
Indices: 676054--676127 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
676044 ATAAAAAATA
*
676054 ATTAAAACATAATATAAT
1 ATTAAAAAATAATATAAT
*
676072 ATAAAAAAATAATATAA-
1 ATTAAAAAATAATATAAT
* *
676089 ATATAATATATAA-A-AAT
1 AT-TAAAAAATAATATAAT
*
676106 -TTAAAAAATTATATAAT
1 ATTAAAAAATAATATAAT
676123 ATTAA
1 ATTAA
676128 TTATTAATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
15 7 0.16
16 4 0.09
17 6 0.14
18 26 0.60
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTAAAAAATAATATAAT
Found at i:676136 original size:51 final size:52
Alignment explanation
Indices: 676027--676124 Score: 130
Period size: 51 Copynumber: 1.9 Consensus size: 52
676017 CATATATTAT
* *
676027 AATAAT-TAAATATGATTATAAAAAATAATTAAAACATAATATAATATAAAAA
1 AATAATATAAATATAATTATAAAAAAT-ATTAAAAAATAATATAATATAAAAA
*
676079 AATAATATAAATATAA-TATATAAAAAT-TTAAAAAATTATATAATAT
1 AATAATATAAATATAATTATA-AAAAATATTAAAAAATAATATAATAT
676125 TAATTATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
51 17 0.41
52 10 0.24
53 14 0.34
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (52 bp):
AATAATATAAATATAATTATAAAAAATATTAAAAAATAATATAATATAAAAA
Found at i:676143 original size:33 final size:33
Alignment explanation
Indices: 676075--676161 Score: 83
Period size: 33 Copynumber: 2.6 Consensus size: 33
676065 ATATAATATA
*
676075 AAAAAATAATATAA-ATATAATATATAAAAATTT
1 AAAAAATTATATAATAT-TAATATATAAAAATTT
676108 AAAAAATTATATAATATTAAT-TATTAATAAA-TT
1 AAAAAATTATATAATATTAATATA-TAA-AAATTT
*
676141 -AAAATTTATTATCAATATTAA
1 AAAAAATTA-TAT-AATATTAA
676162 AATTTTTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
32 9 0.19
33 25 0.53
34 13 0.28
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
AAAAAATTATATAATATTAATATATAAAAATTT
Found at i:676151 original size:18 final size:20
Alignment explanation
Indices: 676128--676170 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
676118 ATAATATTAA
676128 TTATTAAT-AA-ATTAAAAT
1 TTATTAATCAATATTAAAAT
676146 TTATT-ATCAATATTAAAAT
1 TTATTAATCAATATTAAAAT
676165 TT-TTAA
1 TTATTAA
676171 ATATAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.09
18 9 0.41
19 11 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTAATCAATATTAAAAT
Found at i:682435 original size:6 final size:6
Alignment explanation
Indices: 682415--682471 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
682405 TGAGTAAAAA
* * * * *
682415 AAATTT -AATTT AAATTC AAATTT AAACTT AAATTT AAACTC AAAATT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
682462 AAATAT AAAT
1 AAATTT AAAT
682472 AATCAAATTT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
5 5 0.12
6 35 0.88
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (6 bp):
AAATTT
Found at i:683178 original size:30 final size:30
Alignment explanation
Indices: 683142--683198 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
683132 AATAATTATT
683142 TTTTAAA-AATAAAAAAGTTATTTTTAAAAA
1 TTTTAAAGAATAAAAAA-TTATTTTTAAAAA
**
683172 TTTTAAAGTTTAAAAAATTATTTTTAA
1 TTTTAAAGAATAAAAAATTATTTTTAA
683199 TAGTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (30 bp):
TTTTAAAGAATAAAAAATTATTTTTAAAAA
Found at i:683220 original size:13 final size:13
Alignment explanation
Indices: 683153--683227 Score: 62
Period size: 13 Copynumber: 5.4 Consensus size: 13
683143 TTTAAAAATA
683153 AAAAAGTTATTTTT
1 AAAAA-TTATTTTT
683167 AAAAATT-TTAAAGTTT
1 AAAAATTATT----TTT
683183 AAAAAATTATTTTT
1 -AAAAATTATTTTT
* * *
683197 AATAGTAATTTTT
1 AAAAATTATTTTT
683210 AAAAATTATTTTT
1 AAAAATTATTTTT
683223 AAAAA
1 AAAAA
683228 ATTTTAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
12 2 0.04
13 27 0.55
14 8 0.16
16 3 0.06
17 7 0.14
18 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:683241 original size:26 final size:26
Alignment explanation
Indices: 683180--683236 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
683170 AATTTTAAAG
*
683180 TTTAAAAAATTATTTTTAATAGTAAT
1 TTTAAAAAATTATTTTTAATAGAAAT
*
683206 TTTTAAAAATTATTTTTAA-A-AAAT
1 TTTAAAAAATTATTTTTAATAGAAAT
683230 TTTAAAA
1 TTTAAAA
683237 TAAATATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 9 0.32
25 1 0.04
26 18 0.64
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
TTTAAAAAATTATTTTTAATAGAAAT
Found at i:684065 original size:20 final size:20
Alignment explanation
Indices: 684042--684079 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
684032 TTTAAAATGC
684042 ATAAACAAT-CATCAAAATAT
1 ATAAA-AATACATCAAAATAT
*
684062 ATAAAAATACATGAAAAT
1 ATAAAAATACATCAAAAT
684080 TTCACCCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.24
Consensus pattern (20 bp):
ATAAAAATACATCAAAATAT
Found at i:688567 original size:110 final size:110
Alignment explanation
Indices: 688371--688594 Score: 403
Period size: 110 Copynumber: 2.0 Consensus size: 110
688361 AGAAATTTTA
*
688371 TTTTATATGATTCAACAGTTTCATAAGAAAAAATTAATTAAGAAGTTAAGCCCATTGTTTATCAA
1 TTTTATATGATTCAAAAGTTTCATAAGAAAAAATTAATTAAGAAGTTAAGCCCATTGTTTATCAA
688436 TTGGATAAGAAAAATTCTAATTAAACTTGTTCAAAGTCGGGTTAT
66 TTGGATAAGAAAAATTCTAATTAAACTTGTTCAAAGTCGGGTTAT
* *
688481 TTTTATATGATTCAAAAGTTTCATAAGAAAGAATTAATTAAGAAGTTGAGCCCATTGTTTATCAA
1 TTTTATATGATTCAAAAGTTTCATAAGAAAAAATTAATTAAGAAGTTAAGCCCATTGTTTATCAA
* *
688546 TTGGATAAGAAAAATTTTAATTAAACTTGTTCAAAGTCGGTTTAT
66 TTGGATAAGAAAAATTCTAATTAAACTTGTTCAAAGTCGGGTTAT
688591 TTTT
1 TTTT
688595 TTTAGTTTAT
Statistics
Matches: 109, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (110 bp):
TTTTATATGATTCAAAAGTTTCATAAGAAAAAATTAATTAAGAAGTTAAGCCCATTGTTTATCAA
TTGGATAAGAAAAATTCTAATTAAACTTGTTCAAAGTCGGGTTAT
Found at i:689410 original size:28 final size:31
Alignment explanation
Indices: 689363--689419 Score: 93
Period size: 28 Copynumber: 1.9 Consensus size: 31
689353 CATCAACAAT
689363 ATTAAGAATATCAATGAAAAAATTCAATAAA
1 ATTAAGAATATCAATGAAAAAATTCAATAAA
689394 ATTAA-AATAT-AAT-AAAAAATTCAATA
1 ATTAAGAATATCAATGAAAAAATTCAATA
689420 TTAAACTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 13 0.50
29 3 0.12
30 5 0.19
31 5 0.19
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.28
Consensus pattern (31 bp):
ATTAAGAATATCAATGAAAAAATTCAATAAA
Found at i:690379 original size:2 final size:2
Alignment explanation
Indices: 690374--690410 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
690364 TATATATATA
690374 TG TG TG TG TG TG TG TG TG TG TG TG 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 T
690411 TTTATTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:693698 original size:3 final size:3
Alignment explanation
Indices: 693692--693726 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
693682 AGAAAATCTA
693692 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
693727 ATCTTTATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:693859 original size:20 final size:18
Alignment explanation
Indices: 693836--693922 Score: 73
Period size: 20 Copynumber: 5.1 Consensus size: 18
693826 TAATAATATT
693836 TAAATTATTATATATTTATA
1 TAAATT-TTATATA-TTATA
693856 TAAATTTTA-ATA-TA-A
1 TAAATTTTATATATTATA
693871 T-AA--TT-TATATTATA
1 TAAATTTTATATATTATA
693885 TAAATTTTAATATATTTATA
1 TAAATTTT-ATATA-TTATA
*
693905 TTAATTTTATAT-TTATA
1 TAAATTTTATATATTATA
693922 T
1 T
693923 TTTTTTTTTA
Statistics
Matches: 57, Mismatches: 1, Indels: 21
0.72 0.01 0.27
Matches are distributed among these distances:
12 5 0.09
13 2 0.04
14 4 0.07
15 4 0.07
16 2 0.04
17 8 0.14
18 3 0.05
19 11 0.19
20 18 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAAATTTTATATATTATA
Found at i:693867 original size:37 final size:35
Alignment explanation
Indices: 693826--693922 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 35
693816 TTTTGTATTA
693826 TAATAATATTTAAATTATTATATATTTATATAAATT
1 TAATAATATTTAAATTATT-TATATTTATATAAATT
*
693862 T--TAATA--T-AATAATTTATA-TTATATAAATTT
1 TAATAATATTTAAATTATTTATATTTATATAAA-TT
*
693892 TAAT-ATATTTATATTAATTTTATATTTATAT
1 TAATAATATTTAAATT-A-TTTATATTTATAT
693923 TTTTTTTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 17
0.71 0.04 0.25
Matches are distributed among these distances:
29 9 0.18
30 7 0.14
31 9 0.18
32 2 0.04
33 1 0.02
34 7 0.14
35 1 0.02
36 7 0.14
37 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (35 bp):
TAATAATATTTAAATTATTTATATTTATATAAATT
Found at i:693890 original size:15 final size:15
Alignment explanation
Indices: 693846--693891 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
693836 TAAATTATTA
693846 TATATTTATATAAATT
1 TATA-TTATATAAATT
*
693862 T-TAATATA-ATAATT
1 TATATTATATA-AATT
693876 TATATTATATAAATT
1 TATATTATATAAATT
693891 T
1 T
693892 TAATATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
13 1 0.04
14 9 0.36
15 13 0.52
16 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATATTATATAAATT
Found at i:693899 original size:14 final size:14
Alignment explanation
Indices: 693852--693899 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
693842 ATTATATATT
693852 TATATAAATTTTAA
1 TATATAAATTTTAA
*
693866 TATA-ATAATTTATAT
1 TATATA-AATTT-TAA
693881 TATATAAATTTTAA
1 TATATAAATTTTAA
693895 TATAT
1 TATAT
693900 TTATATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 1 0.03
14 16 0.55
15 11 0.38
16 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:693929 original size:17 final size:17
Alignment explanation
Indices: 693831--693923 Score: 72
Period size: 17 Copynumber: 5.6 Consensus size: 17
693821 TATTATAATA
* *
693831 ATATTTAAATT-ATTAT
1 ATATTTATATTAATTTT
*
693847 ATATTTATATAAATTTT
1 ATATTTATATTAATTTT
*
693864 A-A--TATAATAA-TTT
1 ATATTTATATTAATTTT
*
693877 ATA-TTATATAAATTTTAAT
1 ATATTTATATTAA-TTT--T
693896 ATATTTATATTAATTTT
1 ATATTTATATTAATTTT
693913 ATATTTATATT
1 ATATTTATATT
693924 TTTTTTTTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
13 4 0.07
14 7 0.11
15 6 0.10
16 10 0.16
17 19 0.31
19 7 0.11
20 8 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTTATATTAATTTT
Found at i:694942 original size:24 final size:24
Alignment explanation
Indices: 694895--694942 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
694885 AAAAACTTTC
* * *
694895 AATTATAAATTTTTTTAAGAAAAT
1 AATTAGAAATTATTTGAAGAAAAT
*
694919 AATTAGAAATTATTTGAAGCAAAT
1 AATTAGAAATTATTTGAAGAAAAT
694943 TTGGATTGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (24 bp):
AATTAGAAATTATTTGAAGAAAAT
Found at i:695118 original size:8 final size:8
Alignment explanation
Indices: 695105--695165 Score: 54
Period size: 8 Copynumber: 7.5 Consensus size: 8
695095 ATAATATATA
695105 ATATAAAT
1 ATATAAAT
695113 ATATAAAT
1 ATATAAAT
*
695121 ATATCAAAA
1 ATAT-AAAT
*
695130 AT-TAAAA
1 ATATAAAT
695137 ATAATAAAT
1 AT-ATAAAT
695146 A-ATAAAT
1 ATATAAAT
*
695153 ATTATTAAT
1 A-TATAAAT
695162 ATAT
1 ATAT
695166 CAAAATTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
7 13 0.29
8 16 0.36
9 16 0.36
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATAAAT
Found at i:697256 original size:17 final size:17
Alignment explanation
Indices: 697219--697266 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
697209 TAATAAATAA
*
697219 TAAATTTAATTTTTATATT
1 TAAATTTAA-ATTT-TATT
*
697238 TAATTTTAAATTTTATT
1 TAAATTTAAATTTTATT
697255 TAAATTTAAATT
1 TAAATTTAAATT
697267 ATGCTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 15 0.58
18 3 0.12
19 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAAATTTAAATTTTATT
Found at i:697327 original size:21 final size:20
Alignment explanation
Indices: 697287--697350 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
697277 TTTTTTAAAA
* *
697287 TTAATTAAA-AGTAAAATAT
1 TTAATTAAATATTTAAATAT
697306 TTAATTAAAT-TTATAAATTAT
1 TTAATTAAATATT-TAAA-TAT
*
697327 TAAATTAAATATTTAAATAT
1 TTAATTAAATATTTAAATAT
697347 TTAA
1 TTAA
697351 ATTTAATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
19 10 0.27
20 9 0.24
21 16 0.43
22 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TTAATTAAATATTTAAATAT
Found at i:697351 original size:21 final size:22
Alignment explanation
Indices: 697300--697359 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
697290 ATTAAAAGTA
697300 AAATATTT-AATTAAAT-TTAT
1 AAATATTTAAATTAAATATTAT
697320 AAAT-TATTAAATTAAATATT-T
1 AAATAT-TTAAATTAAATATTAT
*
697341 AAATATTTAAATTTAATAT
1 AAATATTTAAATTAAATAT
697360 AAATTTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 25 0.71
22 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATATTTAAATTAAATATTAT
Found at i:698555 original size:2 final size:2
Alignment explanation
Indices: 698548--698574 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
698538 TTAACTAATT
698548 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
698575 TTTTAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:699573 original size:16 final size:17
Alignment explanation
Indices: 699552--699583 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
699542 ACTTGCTTAC
699552 ATTAATTAATT-AAATA
1 ATTAATTAATTCAAATA
699568 ATTAATTAATTCAAAT
1 ATTAATTAATTCAAAT
699584 GTTTGTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTAATTAATTCAAATA
Found at i:699992 original size:4 final size:4
Alignment explanation
Indices: 699953--700010 Score: 62
Period size: 4 Copynumber: 14.5 Consensus size: 4
699943 TGTGGACTTT
* * * * * *
699953 ATTA AATA ATTG ATTA ATTG ATTG ATTG ATTG ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
700001 ATTA ATTA AT
1 ATTA ATTA AT
700011 GCATTAAGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:702932 original size:16 final size:16
Alignment explanation
Indices: 702911--702963 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
702901 CTCGATTTTA
*
702911 TAAATTTCATTTGAAT
1 TAAATTTAATTTGAAT
** *
702927 TAAATTTAATTAAAAA
1 TAAATTTAATTTGAAT
702943 TAAATTTAATTTG-AT
1 TAAATTTAATTTGAAT
702958 TAAATT
1 TAAATT
702964 ATTATGAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 7 0.23
16 23 0.77
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (16 bp):
TAAATTTAATTTGAAT
Found at i:702953 original size:26 final size:27
Alignment explanation
Indices: 702919--703001 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 27
702909 TATAAATTTC
702919 ATTTGAATT-AAATTTAATTAAAAATAA
1 ATTT-AATTAAAATTTAATTAAAAATAA
702946 ATTTAATTTGATTAAA-TT-ATTATGAAAAT-A
1 ATTTAA-TT-A--AAATTTAATTA--AAAATAA
*
702976 ATTTTATTAAAATTTAATTAAAAATA
1 ATTTAATTAAAATTTAATTAAAAATA
703002 TAAATATTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 20
0.68 0.02 0.30
Matches are distributed among these distances:
26 10 0.22
27 8 0.18
28 5 0.11
29 6 0.13
30 8 0.18
31 8 0.18
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (27 bp):
ATTTAATTAAAATTTAATTAAAAATAA
Found at i:703251 original size:15 final size:13
Alignment explanation
Indices: 703222--703278 Score: 69
Period size: 13 Copynumber: 4.2 Consensus size: 13
703212 ATACTGACTC
703222 TATTTTTATATAA
1 TATTTTTATATAA
703235 TATTTTTATATAA
1 TATTTTTATATAA
* * *
703248 AATATCTATATAA
1 TATTTTTATATAA
703261 TATTTTTAATATATA
1 TATTTTT-ATATA-A
703276 TAT
1 TAT
703279 ATATATATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
13 27 0.75
14 5 0.14
15 4 0.11
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTTTATATAA
Found at i:703264 original size:26 final size:28
Alignment explanation
Indices: 703228--703287 Score: 88
Period size: 26 Copynumber: 2.2 Consensus size: 28
703218 ACTCTATTTT
*
703228 TATATAATATTTTT-ATATA-AAATATC
1 TATATAATATTTTTAATATATAAATATA
*
703254 TATATAATATTTTTAATATATATATATA
1 TATATAATATTTTTAATATATAAATATA
703282 TATATA
1 TATATA
703288 TATAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 14 0.47
27 5 0.17
28 11 0.37
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
TATATAATATTTTTAATATATAAATATA
Found at i:703527 original size:2 final size:2
Alignment explanation
Indices: 703516--703552 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
703506 GGTATAAATG
703516 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
703553 AGAATTATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:706440 original size:113 final size:110
Alignment explanation
Indices: 706242--706443 Score: 305
Period size: 113 Copynumber: 1.8 Consensus size: 110
706232 TCTGCTACAT
* *
706242 AGACAAAAGCAAAAAATTTACAGGAGCTAAGTTGTTAATGCCAGTATTGTTAGAAATTGAGAGAT
1 AGACAAAAGCAAAAAATTTACAGGAGCTAAGTTGTTAACGCCAGTATTGCTAGAAATTGAGAGAT
*
706307 TCAGGATTAGTTCGACACTTTGTGGTTGTGCAGTTTTGCCTCTGG
66 TCAGGAGTAGTTCGACACTTTGTGGTTGTGCAGTTTTGCCTCTGG
* * *
706352 AGACAAAAGCATAACATTTACAGGAGCTAAGTTGTTAGTAACGCCAGTATTGCTAGATATTGAGA
1 AGACAAAAGCAAAAAATTTACAGGAGCTAAGTTG-T--TAACGCCAGTATTGCTAGAAATTGAGA
* *
706417 GATTCGGGAGTAGTTCGATACTTTGTG
63 GATTCAGGAGTAGTTCGACACTTTGTG
706444 CATTTGCAGT
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
110 32 0.40
111 1 0.01
113 48 0.59
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.31
Consensus pattern (110 bp):
AGACAAAAGCAAAAAATTTACAGGAGCTAAGTTGTTAACGCCAGTATTGCTAGAAATTGAGAGAT
TCAGGAGTAGTTCGACACTTTGTGGTTGTGCAGTTTTGCCTCTGG
Found at i:714542 original size:18 final size:19
Alignment explanation
Indices: 714509--714577 Score: 63
Period size: 18 Copynumber: 3.7 Consensus size: 19
714499 CTATAATTTT
714509 AAATATAATATAATATAAA
1 AAATATAATATAATATAAA
*
714528 AAATA-AATATTATAT-AA
1 AAATATAATATAATATAAA
* *
714545 ATATATAAAAT-ATATTAAA
1 AAATATAATATAATA-TAAA
*
714564 TATATATAATATAA
1 -AAATATAATATAA
714578 ACTATAAGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
17 9 0.22
18 14 0.34
19 7 0.17
20 10 0.24
21 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATATAATATAATATAAA
Found at i:714557 original size:9 final size:9
Alignment explanation
Indices: 714511--714576 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
714501 ATAATTTTAA
*
714511 ATATAATAT
1 ATATAAAAT
714520 AATATAAAA-
1 -ATATAAAAT
714529 A-AT-AAAT
1 ATATAAAAT
714536 ATTATATAAAT
1 A-TATA-AAAT
714547 ATATAAAAT
1 ATATAAAAT
*
714556 ATATTAAAT
1 ATATAAAAT
*
714565 ATATATAAT
1 ATATAAAAT
714574 ATA
1 ATA
714577 AACTATAAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
6 3 0.06
7 3 0.06
8 1 0.02
9 24 0.51
10 11 0.23
11 5 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
ATATAAAAT
Found at i:715917 original size:16 final size:17
Alignment explanation
Indices: 715896--715935 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
715886 TGAAATATGG
715896 TATGAATATATA-AAAA
1 TATGAATATATATAAAA
* *
715912 TATGAAAATATATATAA
1 TATGAATATATATAAAA
715929 TATGAAT
1 TATGAAT
715936 CATTAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (17 bp):
TATGAATATATATAAAA
Found at i:715934 original size:33 final size:33
Alignment explanation
Indices: 715841--715935 Score: 90
Period size: 33 Copynumber: 2.9 Consensus size: 33
715831 AAATTACAAG
*
715841 ATAAAAATATGAAAATAAATTAAAATATG-ATAT
1 ATAAAAATATGAAAATAAA-TATAATATGAATAT
* * **
715874 -TAAAAA-AT-TAATTGAAATATGGTATGAATAT
1 ATAAAAATATGAAAAT-AAATATAATATGAATAT
*
715905 ATAAAAATATGAAAATATATATAATATGAAT
1 ATAAAAATATGAAAATAAATATAATATGAAT
715936 CATTAATATA
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
30 9 0.19
31 9 0.19
32 12 0.26
33 14 0.30
34 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (33 bp):
ATAAAAATATGAAAATAAATATAATATGAATAT
Found at i:716009 original size:31 final size:30
Alignment explanation
Indices: 715953--716011 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
715943 ATATTAAATT
**
715953 TTATATAAATATATAAAATTTTAAATATGA
1 TTATATAAATATATAAAATCATAAATATGA
715983 TTATATAAA-ATATAAAAATACATAAATAT
1 TTATATAAATATAT-AAAAT-CATAAATAT
716012 AATACAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 4 0.16
30 14 0.56
31 7 0.28
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (30 bp):
TTATATAAATATATAAAATCATAAATATGA
Found at i:716025 original size:19 final size:16
Alignment explanation
Indices: 715990--716028 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 16
715980 TGATTATATA
715990 AAATATAAAAATACAT
1 AAATATAAAAATACAT
716006 AAATATAATACAATTACAT
1 AAATATAA-A-AA-TACAT
716025 AAAT
1 AAAT
716029 TATCATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 8 0.40
17 1 0.05
18 2 0.10
19 9 0.45
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATATAAAAATACAT
Found at i:716336 original size:11 final size:11
Alignment explanation
Indices: 716316--716359 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
716306 GTTTGATTCG
716316 ATTTTAATTTA
1 ATTTTAATTTA
* *
716327 ATTTTTATTTT
1 ATTTTAATTTA
716338 A-TTTAATTTA
1 ATTTTAATTTA
716348 ATTTTAATTTA
1 ATTTTAATTTA
716359 A
1 A
716360 ATAATAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
ATTTTAATTTA
Found at i:716344 original size:21 final size:21
Alignment explanation
Indices: 716318--716357 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
716308 TTGATTCGAT
*
716318 TTTAATTTAATTTTTATTTTA
1 TTTAATTTAATTTTAATTTTA
716339 TTTAATTTAATTTTAATTT
1 TTTAATTTAATTTTAATTT
716358 AAATAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTAATTTAATTTTAATTTTA
Found at i:716465 original size:8 final size:7
Alignment explanation
Indices: 716435--716463 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
716425 TTGAATTAAA
716435 TAATTTT
1 TAATTTT
716442 TAATTTT
1 TAATTTT
716449 TAATTTT
1 TAATTTT
716456 TAATTTT
1 TAATTTT
716463 T
1 T
716464 TATAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TAATTTT
Found at i:716712 original size:2 final size:2
Alignment explanation
Indices: 716707--716739 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
716697 AATTCGACTC
716707 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
716740 CTTACCACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:717018 original size:3 final size:3
Alignment explanation
Indices: 717010--717056 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
717000 ATCAATAAGT
*
717010 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
717057 GGATAAACTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:717110 original size:15 final size:16
Alignment explanation
Indices: 717086--717120 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
717076 TTGTGTGGTA
717086 TTTT-TATTATTT-AC
1 TTTTATATTATTTGAC
717100 TTTTATATTATTTGAC
1 TTTTATATTATTTGAC
717116 TTTTA
1 TTTTA
717121 CTTAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 8 0.42
16 7 0.37
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTATATTATTTGAC
Found at i:719615 original size:21 final size:21
Alignment explanation
Indices: 719581--719623 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
719571 CTATTAAATT
719581 AAATAAATACAAATTATATAAA
1 AAATAAATACAAA-TATATAAA
* *
719603 AAAT-AATATAAATATTTAAA
1 AAATAAATACAAATATATAAA
719623 A
1 A
719624 TTAATTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATAAATACAAATATATAAA
Found at i:728629 original size:25 final size:25
Alignment explanation
Indices: 728601--728725 Score: 117
Period size: 27 Copynumber: 4.8 Consensus size: 25
728591 AAGCCACCCA
*
728601 TTTGTTTGTCAAAAATGGTGGTTATT
1 TTTGTTTGTCAAAAATGGTGGTT-TC
728627 TTGTGTTTGTCAAAAATGGTGGTTTCC
1 TT-TGTTTGTCAAAAATGGTGGTTT-C
* * *
728654 TTTGTATTTGTCAAATATGGAGGTTTG
1 TTTG--TTTGTCAAAAATGGTGGTTTC
* * *
728681 TTTATTTGTCAAAATTGGTGGCTT-
1 TTTGTTTGTCAAAAATGGTGGTTTC
* *
728705 GTTGTTTGTCAAAATTGGTGG
1 TTTGTTTGTCAAAAATGGTGG
728726 CTAATTTTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
24 19 0.23
25 16 0.19
26 5 0.06
27 26 0.31
28 18 0.21
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.47
Consensus pattern (25 bp):
TTTGTTTGTCAAAAATGGTGGTTTC
Found at i:728658 original size:28 final size:26
Alignment explanation
Indices: 728603--728725 Score: 117
Period size: 28 Copynumber: 4.7 Consensus size: 26
728593 GCCACCCATT
728603 TGTTTGTCAAAAATGGTGGTTATTTTG
1 TGTTTGTCAAAAATGGTGGTT-TTTTG
728630 TGTTTGTCAAAAATGGTGGTTTCCTTTG
1 TGTTTGTCAAAAATGGTGGTTT--TTTG
* * * *
728658 TATTTGTCAAATATGGAGGTTTGTT-
1 TGTTTGTCAAAAATGGTGGTTTTTTG
* * * *
728683 TATTTGTCAAAATTGGTGG-CTTGT-
1 TGTTTGTCAAAAATGGTGGTTTTTTG
*
728707 TGTTTGTCAAAATTGGTGG
1 TGTTTGTCAAAAATGGTGG
728726 CTAATTTTTA
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
24 20 0.24
25 16 0.19
26 3 0.04
27 21 0.25
28 23 0.28
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.46
Consensus pattern (26 bp):
TGTTTGTCAAAAATGGTGGTTTTTTG
Found at i:729877 original size:25 final size:26
Alignment explanation
Indices: 729848--729897 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
729838 TTTAATTTTA
729848 AATTTAAAATATTAAT-ATAAAATAT
1 AATTTAAAATATTAATAATAAAATAT
** *
729873 AATTTTTATTATTAATAATAAAATA
1 AATTTAAAATATTAATAATAAAATA
729898 ATATGCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTTAAAATATTAATAATAAAATAT
Found at i:732358 original size:145 final size:146
Alignment explanation
Indices: 732127--732402 Score: 473
Period size: 145 Copynumber: 1.9 Consensus size: 146
732117 ACTTAAAATC
*
732127 AAAACTATTAGATTGATAGAACTTATTTAGTAGATTATTAATATAAATATGATAAAAAAATTAAA
1 AAAACTATTAGATTGATAGAACTTATTTAGTAGACTATTAATATAAATATGATAAAAAAATTAAA
* * *
732192 TAAAAATAATATCTACACAAAAATCTTCATAGC-TAATTTTTATGTGAAAATGAATATTTGCAAA
66 TAAAAATAATAGCTACACAAAAATCTTCATAGCAAAATTTTCATGTGAAAATGAATATTTGCAAA
732256 TCTTCATAGCTAAACA
131 TCTTCATAGCTAAACA
*
732272 AAAATTATTAGATTGATAGAACTTATTTAGTAGACTATTAATATAAATATGATAAAAAAATTAAA
1 AAAACTATTAGATTGATAGAACTTATTTAGTAGACTATTAATATAAATATGATAAAAAAATTAAA
* **
732337 TAAAAATAATAGCTACGCAAAAATCTTCATAGCAAAATTTTCATGTGATTATGAATATTTGCAAA
66 TAAAAATAATAGCTACACAAAAATCTTCATAGCAAAATTTTCATGTGAAAATGAATATTTGCAAA
732402 T
131 T
732403 TTAACTTAGA
Statistics
Matches: 122, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
145 94 0.77
146 28 0.23
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.34
Consensus pattern (146 bp):
AAAACTATTAGATTGATAGAACTTATTTAGTAGACTATTAATATAAATATGATAAAAAAATTAAA
TAAAAATAATAGCTACACAAAAATCTTCATAGCAAAATTTTCATGTGAAAATGAATATTTGCAAA
TCTTCATAGCTAAACA
Found at i:732929 original size:24 final size:26
Alignment explanation
Indices: 732900--732952 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
732890 TAGATATCGA
*
732900 TTAAAATATT-ATATAAT-AATTATT
1 TTAAAAAATTAATATAATGAATTATT
*
732924 TTAAAAAATTACATTTAATGAATTATT
1 TTAAAAAATTA-ATATAATGAATTATT
732951 TT
1 TT
732953 TTATTAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
26 6 0.25
27 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
TTAAAAAATTAATATAATGAATTATT
Found at i:734686 original size:24 final size:24
Alignment explanation
Indices: 734642--734687 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
734632 AAATATAAAC
*
734642 ATAATATAAATATTCAAATATTTT
1 ATAATATAAATAATCAAATATTTT
*
734666 ATAATATATATAAT-AATATATT
1 ATAATATAAATAATCAA-ATATT
734688 AAATTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAATATAAATAATCAAATATTTT
Found at i:734720 original size:24 final size:22
Alignment explanation
Indices: 734658--734721 Score: 58
Period size: 26 Copynumber: 2.7 Consensus size: 22
734648 TAAATATTCA
*
734658 AATATTTTATAA-TATATATAAT
1 AATATTTTA-AATTATATAAAAT
*
734680 AATATATTAAATTTTATATAAAATAT
1 AATATTTTAAA--TTATAT-AAA-AT
734706 AATATTTTAAATTATA
1 AATATTTTAAATTATA
734722 AAATGTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
21 2 0.06
22 8 0.24
24 10 0.29
25 2 0.06
26 12 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATATTTTAAATTATATAAAAT
Found at i:736335 original size:20 final size:20
Alignment explanation
Indices: 736307--736355 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
736297 AGAAAGAATT
736307 GAAGAGGGATACAAGAGAGG
1 GAAGAGGGATACAAGAGAGG
* * **
736327 GATGAGGGATGCTTGAGAGG
1 GAAGAGGGATACAAGAGAGG
736347 GAAGAGGGA
1 GAAGAGGGA
736356 GCCTCTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.49, T:0.10
Consensus pattern (20 bp):
GAAGAGGGATACAAGAGAGG
Found at i:736493 original size:27 final size:26
Alignment explanation
Indices: 736411--736496 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
736401 TAGCCACAAA
* * *
736411 TTTTGACAAATA-AACAAGCCTCCAT
1 TTTTGACAAATACAAAAAACCACCAT
* *
736436 ATTTGACAAATCCAAAAGAAACCACCAT
1 TTTTGACAAATAC-AAA-AAACCACCAT
736464 TTTTGACAAATACAAAATAACCACCAT
1 TTTTGACAAATACAAAA-AACCACCAT
736491 TTTTGA
1 TTTTGA
736497 TAAACAAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
25 10 0.20
26 1 0.02
27 20 0.40
28 19 0.38
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (26 bp):
TTTTGACAAATACAAAAAACCACCAT
Found at i:736505 original size:24 final size:27
Alignment explanation
Indices: 736411--736496 Score: 95
Period size: 28 Copynumber: 3.2 Consensus size: 27
736401 TAGCCACAAA
* * *
736411 TTTTGACAAATA-AACA-AGCCTCCAT
1 TTTTGACAAATACAAAATAACCACCAT
* * *
736436 ATTTGACAAATCCAAAAGAAACCACCAT
1 TTTTGACAAATACAAAA-TAACCACCAT
736464 TTTTGACAAATACAAAATAACCACCAT
1 TTTTGACAAATACAAAATAACCACCAT
736491 TTTTGA
1 TTTTGA
736497 TAAACAAATG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
25 10 0.20
26 3 0.06
27 15 0.30
28 22 0.44
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (27 bp):
TTTTGACAAATACAAAATAACCACCAT
Found at i:738420 original size:21 final size:22
Alignment explanation
Indices: 738382--738427 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
738372 ATCTGTTGAA
* **
738382 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
738403 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
738425 ACT
1 ACT
738428 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:739841 original size:5 final size:5
Alignment explanation
Indices: 739833--739916 Score: 87
Period size: 5 Copynumber: 16.8 Consensus size: 5
739823 GCATGAAAGT
* * * * * *
739833 AATGT AATGA AATGC AATGC AATGA AATGA AATGC AATGT AATGA AATGC
1 AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA
* * *
739883 AATGA AATGA AATGA AGTGC AATGC AATGA AATG
1 AATGA AATGA AATGA AATGA AATGA AATGA AATG
739917 TTTTTGAAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
5 67 1.00
ACGTcount: A:0.49, C:0.07, G:0.21, T:0.23
Consensus pattern (5 bp):
AATGA
Found at i:739861 original size:20 final size:20
Alignment explanation
Indices: 739833--739916 Score: 106
Period size: 20 Copynumber: 4.5 Consensus size: 20
739823 GCATGAAAGT
*
739833 AATGTAATGAAATGCAATGC
1 AATGAAATGAAATGCAATGC
739853 AATGAAATGAAATGCAATG-
1 AATGAAATGAAATGCAATGC
*
739872 --T--AATGAAATGCAATGA
1 AATGAAATGAAATGCAATGC
*
739888 AATGAAATGAAGTGCAATGC
1 AATGAAATGAAATGCAATGC
739908 AATGAAATG
1 AATGAAATG
739917 TTTTTGAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
15 14 0.25
17 1 0.02
18 1 0.02
20 40 0.71
ACGTcount: A:0.49, C:0.07, G:0.21, T:0.23
Consensus pattern (20 bp):
AATGAAATGAAATGCAATGC
Found at i:739906 original size:15 final size:15
Alignment explanation
Indices: 739821--739896 Score: 102
Period size: 15 Copynumber: 5.2 Consensus size: 15
739811 CGGCCATTTC
*
739821 ATGC-ATGAAA-GTA
1 ATGCAATGAAATGAA
* *
739834 ATGTAATGAAATGCA
1 ATGCAATGAAATGAA
739849 ATGCAATGAAATGAA
1 ATGCAATGAAATGAA
*
739864 ATGCAATGTAATGAA
1 ATGCAATGAAATGAA
739879 ATGCAATGAAATGAA
1 ATGCAATGAAATGAA
739894 ATG
1 ATG
739897 AAGTGCAATG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
13 3 0.05
14 6 0.11
15 46 0.84
ACGTcount: A:0.49, C:0.07, G:0.21, T:0.24
Consensus pattern (15 bp):
ATGCAATGAAATGAA
Found at i:740035 original size:44 final size:43
Alignment explanation
Indices: 739928--740028 Score: 193
Period size: 44 Copynumber: 2.3 Consensus size: 43
739918 TTTTGAAATG
739928 CATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAA
1 CATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAA
739971 CATGAAATGAAAAATTATGCATGCATGAAATGTTACGTGAAAAA
1 CATGAAATG-AAAATTATGCATGCATGAAATGTTACGTGAAAAA
740015 CATGAAATGAAAAT
1 CATGAAATGAAAAT
740029 GCATGCAATG
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
43 14 0.25
44 43 0.75
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.25
Consensus pattern (43 bp):
CATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAA
Found at i:740141 original size:16 final size:15
Alignment explanation
Indices: 740120--740188 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 15
740110 TCATTTCTTC
740120 TTTTTATTTCATTATT
1 TTTTTATTT-ATTATT
** *
740136 TTTTTATAAAATTTTT
1 TTTTTAT-TTATTATT
740152 ATTTTTATTTATTTATT
1 -TTTTTATTTA-TTATT
* *
740169 TTTTTGTTTAATATT
1 TTTTTATTTATTATT
740184 TTTTT
1 TTTTT
740189 GAAATCTCGG
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
15 9 0.21
16 22 0.52
17 11 0.26
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (15 bp):
TTTTTATTTATTATT
Found at i:740568 original size:42 final size:42
Alignment explanation
Indices: 740472--741834 Score: 1651
Period size: 42 Copynumber: 31.9 Consensus size: 42
740462 AAAAAAATAC
* * * *
740472 TCTCCCGGGTCAAAGCCAACGGGCAGACTTAGGGAAAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAAAG
* * *
740515 TCTCCAAGGTCAAAACCGACAGGCAGACTAAGGGATGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
* *
740557 TCTCCAGGGTCAAGGCCGACAGGAAGACTGAA-GGAAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGAAGAAAAG
*
740599 TCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAAG-AAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGAAGAAAAG
* * *
740641 TCTCCAGGGTCAAAGCCGATAGGCCGACTAAGGGAAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
* *
740683 TCTCCAGGGTCAAAGCCGACAGGCCGACTAAGGGAAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
740725 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
* * *
740767 TCTCCAGGGCCAAAGCCGACAGACAGACTTAGGGAAAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAAAG
* *
740810 TCTCCAGGGTTAAAGCCGACAGGCAGACTAAGGGATGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
** **
740852 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATG-AG-GCAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGAC--TAAGGGAAGAAAAG
* *
740894 TCTCCAGAGTCAAAGCTGACAGGCAGACTGAAGGGATAGGAAAGTCTCCAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGA-A-G--A------AAAG
* *
740947 TCTCCAGGGTCAAAGCCAACAGGTAGACTAAGGGAAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
* * *
740989 TCT-CGGGGTCAAAGCCGACAGGCAGATTGAA-GGAAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGAAGAAAAG
*
741030 TCTCCAGGGTCAAAGCCGACAGGTAGACTAAGGGAATG-AAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAA-GAAAAG
* *
741072 TCTCCAGGGTCAAAGCCGACAGGCCGACTAAGGGAAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
741114 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
* *
741156 TCTCCAGGGCCAAAGCCGACAGGCAGACTTAGGGAAAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAAAG
*
741199 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
** **
741241 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAA-ATAAG-GCAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGAC--TAAGGGAAGAAAAG
* * *
741283 TCTCCAGAGTCAAAGCTGACAGGCAGACTGAAGGGATAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGA-AGAAAAG
*
741327 TCTCCAGGGTCAAAGCCGATAGGCAGACTGAA-GGAAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGAAGAAAAG
*
741369 TCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAAG-AAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGAAGAAAAG
* *
741411 TCTCCAGGGTCAAAGCCGACAGGCCGACTAAGGGAAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
741453 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
* * *
741495 TCTCCAGGGCCAAAGCCGACAGGTAGACTTAGGGAAAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAAAG
* *
741538 TCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGATGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
** **
741580 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATG-AG-GCAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGAC--TAAGGGAAGAAAAG
* *
741622 TCTCCAGAGTCAAAGCTGACAGGCAGACTGAAGGGATAGGAAAGTCTCCAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGA-A-G--A------AAAG
* *
741675 TCTCCAGGGTCAAAGCCAACAGGTAGACTAAGGGAAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
* * *
741717 TCT-CGGGGTCAAAGCCGACAGGCAGATTGAA-GGAAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGAAGAAAAG
*
741758 TCTCCAGGGTCAAAGCCGACAGGTAGACTAAGGGAAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
*
741800 TCT-CGGGGTCAAAGCCGACAGGCAGACTAAGGGAA
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAA
741835 AACAAAAAAG
Statistics
Matches: 1150, Mismatches: 118, Indels: 106
0.84 0.09 0.08
Matches are distributed among these distances:
40 3 0.00
41 123 0.11
42 742 0.65
43 166 0.14
44 44 0.04
48 2 0.00
50 2 0.00
51 2 0.00
52 12 0.01
53 54 0.05
ACGTcount: A:0.36, C:0.21, G:0.31, T:0.12
Consensus pattern (42 bp):
TCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAG
Found at i:740975 original size:53 final size:51
Alignment explanation
Indices: 740892--740992 Score: 139
Period size: 53 Copynumber: 1.9 Consensus size: 51
740882 TAAATGAGGC
** *
740892 AGTCTCCAGAGTCAAAGCTGACAGGCAGACTGAAGGGATAGGAAAGTCTCCAA
1 AGTCTCCAGAGTCAAAGCCAACAGGCAGACT-AAGGGA-AGAAAAGTCTCCAA
* *
740945 AGTCTCCAGGGTCAAAGCCAACAGGTAGACTAAGGGAAGAAAAGTCTC
1 AGTCTCCAGAGTCAAAGCCAACAGGCAGACTAAGGGAAGAAAAGTCTC
740993 GGGGTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 10 0.23
52 6 0.14
53 27 0.63
ACGTcount: A:0.37, C:0.21, G:0.28, T:0.15
Consensus pattern (51 bp):
AGTCTCCAGAGTCAAAGCCAACAGGCAGACTAAGGGAAGAAAAGTCTCCAA
Found at i:741322 original size:389 final size:381
Alignment explanation
Indices: 740513--741834 Score: 1873
Period size: 389 Copynumber: 3.4 Consensus size: 381
740503 GGGAAAGAAA
* * * *
740513 AGTCTCCA-AGGTCAAAACCGACAGGCAGACT-AAGGGAT-GAAAAGTCTCCAGGGTCAAGGCCG
1 AGTCTCCAGA-GTCAAAGCTGACAGGCAGACTGAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCG
740575 ACAGGAAGACTGAAGGAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAAGAAA
65 ACAGGAAGACTGAAGGAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAAGAAA
*
740640 GTCTCCAGGGTCAAAGCCGATAGGCCGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAG
130 GTCTCCAGGGTCAAAGCCGACAGGCCGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAG
740705 GCCGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCT
195 GCCGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCT
* *
740770 CCAGGGCCAAAGCCGACAGACAGACTTAGGGAAAGAAAAGTCTCCAGGGTTAAAGCCGACAGGCA
260 CCAGGGCCAAAGCCGACAGGCAGACTTAGGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCA
*
740835 GACTAAGGGATGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGC
325 GACTAAGGGATGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATAAGGC
740892 AGTCTCCAGAGTCAAAGCTGACAGGCAGACTGAAGGGATAGGAAAGTCTCCAAAGTCTCCAGGGT
1 AGTCTCCAGAGTCAAAGCTGACAGGCAGACTGAAGGGATA-G---G-----AAAGTCTCCAGGGT
* * * *
740957 CAAAGCCAACAGGTAGACT-AAGGGAAGAAAAGTCT-CGGGGTCAAAGCCGACAGGCAGATTGAA
57 CAAAGCCGACAGGAAGACTGAA-GGAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAA
* ** *
741020 GGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGTAGACTAAGGGAATGAAAGTCTCCAGGGTCAA
121 GGAAAGAAAGTCTCCAGGGTCAAAGCCGACAGGCCGACTAAGGGAAGGAAAGTCTCCAGGGTCAA
741085 AGCCGACAGGCCGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAA
186 AGCCGACAGGCCGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAA
741150 GAAAAGTCTCCAGGGCCAAAGCCGACAGGCAGACTTAGGGAAAGAAAAGTCTCCAGGGTCAAAGC
251 GAAAAGTCTCCAGGGCCAAAGCCGACAGGCAGACTTAGGGAAAGAAAAGTCTCCAGGGTCAAAGC
741215 CGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATAAGG
316 CGACAGGCAGACTAAGGGATGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATAAGG
741280 C
381 C
741281 AGTCTCCAGAGTCAAAGCTGACAGGCAGACTGAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCGA
1 AGTCTCCAGAGTCAAAGCTGACAGGCAGACTGAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCGA
* *
741346 TAGGCAGACTGAAGGAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAAGAAAG
66 CAGGAAGACTGAAGGAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAAGAAAG
741411 TCTCCAGGGTCAAAGCCGACAGGCCGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGG
131 TCTCCAGGGTCAAAGCCGACAGGCCGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGG
* * * * *
741476 CAGACTAAGGGAAGAAAAGTCTCCAGGGCCAAAGCCGACAGGTAGACTTAGGGAAAGAAAAGTCT
196 CCGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGG-AAGAAAAGTCT
* * * *
741541 CCAAGGTCAAAGCCGACAGGCAGACTAAGGG-ATGAAAAGTCTCCAGGGTCAAAGCCGACAGGCA
260 CCAGGGCCAAAGCCGACAGGCAGACTTAGGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCA
** * * *
741605 GACTTTAA---ATGAGGCAGTCTCCAGAGTCAAAGCTGACAGGCAGAC-TGAAGGGATAGGAAAG
325 GAC--TAAGGGATGA-AAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAA---AT----AAG
*
741666 TCTCC
380 ---GC
* ** * * *
741671 AAAGTCTCCAGGGTCAAAGCCAACAGGTAGACT-AAGGGA-AGAAAAGTCT-CGGGGTCAAAGCC
1 --AGTCTCCAGAGTCAAAGCTGACAGGCAGACTGAAGGGATAGGAAAGTCTCCAGGGTCAAAGCC
* * * * *
741733 GACAGGCAGATTGAAGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGTAGACT-AAGGGAAGAA
64 GACAGGAAGACTGAAGGAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAAG-A
* *
741797 AAGTCT-CGGGGTCAAAGCCGACAGGCAGACTAAGGGAA
128 AAGTCTCCAGGGTCAAAGCCGACAGGCCGACTAAGGGAA
741835 AACAAAAAAG
Statistics
Matches: 858, Mismatches: 53, Indels: 55
0.89 0.05 0.06
Matches are distributed among these distances:
379 27 0.03
380 58 0.07
381 210 0.24
382 40 0.05
383 5 0.01
385 1 0.00
387 3 0.00
388 38 0.04
389 390 0.45
390 53 0.06
391 6 0.01
392 27 0.03
ACGTcount: A:0.36, C:0.21, G:0.31, T:0.12
Consensus pattern (381 bp):
AGTCTCCAGAGTCAAAGCTGACAGGCAGACTGAAGGGATAGGAAAGTCTCCAGGGTCAAAGCCGA
CAGGAAGACTGAAGGAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAAGGAAAGAAAG
TCTCCAGGGTCAAAGCCGACAGGCCGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGG
CCGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTC
CAGGGCCAAAGCCGACAGGCAGACTTAGGGAAAGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAG
ACTAAGGGATGAAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATAAGGC
Found at i:741703 original size:53 final size:51
Alignment explanation
Indices: 741620--741720 Score: 139
Period size: 53 Copynumber: 1.9 Consensus size: 51
741610 TAAATGAGGC
** *
741620 AGTCTCCAGAGTCAAAGCTGACAGGCAGACTGAAGGGATAGGAAAGTCTCCAA
1 AGTCTCCAGAGTCAAAGCCAACAGGCAGACT-AAGGGA-AGAAAAGTCTCCAA
* *
741673 AGTCTCCAGGGTCAAAGCCAACAGGTAGACTAAGGGAAGAAAAGTCTC
1 AGTCTCCAGAGTCAAAGCCAACAGGCAGACTAAGGGAAGAAAAGTCTC
741721 GGGGTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 10 0.23
52 6 0.14
53 27 0.63
ACGTcount: A:0.37, C:0.21, G:0.28, T:0.15
Consensus pattern (51 bp):
AGTCTCCAGAGTCAAAGCCAACAGGCAGACTAAGGGAAGAAAAGTCTCCAA
Found at i:754775 original size:6 final size:6
Alignment explanation
Indices: 754764--754796 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
754754 GAGCTGTTGG
754764 AACCGA AACCGA AACCGA AACCGA AACCGA AAC
1 AACCGA AACCGA AACCGA AACCGA AACCGA AAC
754797 AGCAGCTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.33, G:0.15, T:0.00
Consensus pattern (6 bp):
AACCGA
Found at i:754905 original size:181 final size:181
Alignment explanation
Indices: 754601--754940 Score: 680
Period size: 181 Copynumber: 1.9 Consensus size: 181
754591 TTTTTCTTTG
754601 AACCGAAACCGAAACAGCAGCTGTTGGAAGCTGCTGGCTGGAGTCTTCGATTGTTGAAGGTTGCA
1 AACCGAAACCGAAACAGCAGCTGTTGGAAGCTGCTGGCTGGAGTCTTCGATTGTTGAAGGTTGCA
754666 GAGCTGCTGCCGGTGTTCGTGGGTTGGAAGCTGATGGAGCTGCTGCCAGTGTTCGTGGCTAGAAG
66 GAGCTGCTGCCGGTGTTCGTGGGTTGGAAGCTGATGGAGCTGCTGCCAGTGTTCGTGGCTAGAAG
754731 TTGCTGCCGGTCGTGGGATGCACGAGCTGTTGGAACCGAAACCGAAACCGA
131 TTGCTGCCGGTCGTGGGATGCACGAGCTGTTGGAACCGAAACCGAAACCGA
754782 AACCGAAACCGAAACAGCAGCTGTTGGAAGCTGCTGGCTGGAGTCTTCGATTGTTGAAGGTTGCA
1 AACCGAAACCGAAACAGCAGCTGTTGGAAGCTGCTGGCTGGAGTCTTCGATTGTTGAAGGTTGCA
754847 GAGCTGCTGCCGGTGTTCGTGGGTTGGAAGCTGATGGAGCTGCTGCCAGTGTTCGTGGCTAGAAG
66 GAGCTGCTGCCGGTGTTCGTGGGTTGGAAGCTGATGGAGCTGCTGCCAGTGTTCGTGGCTAGAAG
754912 TTGCTGCCGGTCGTGGGATGCACGAGCTG
131 TTGCTGCCGGTCGTGGGATGCACGAGCTG
754941 CAAGCTGCTG
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
181 159 1.00
ACGTcount: A:0.20, C:0.21, G:0.36, T:0.24
Consensus pattern (181 bp):
AACCGAAACCGAAACAGCAGCTGTTGGAAGCTGCTGGCTGGAGTCTTCGATTGTTGAAGGTTGCA
GAGCTGCTGCCGGTGTTCGTGGGTTGGAAGCTGATGGAGCTGCTGCCAGTGTTCGTGGCTAGAAG
TTGCTGCCGGTCGTGGGATGCACGAGCTGTTGGAACCGAAACCGAAACCGA
Found at i:755119 original size:20 final size:19
Alignment explanation
Indices: 755082--755120 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
755072 GAGCAGACGC
*
755082 TGGAAGCTGCTGCTATGGA
1 TGGAAGCTGCTGCAATGGA
*
755101 TGGAAGGCTGCTGGAATGGA
1 TGGAA-GCTGCTGCAATGGA
755121 AGTTGGAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.23, C:0.13, G:0.41, T:0.23
Consensus pattern (19 bp):
TGGAAGCTGCTGCAATGGA
Found at i:755484 original size:5 final size:5
Alignment explanation
Indices: 755476--755569 Score: 107
Period size: 5 Copynumber: 18.8 Consensus size: 5
755466 GCATGAAAGT
* * * * *
755476 AATGT AATGA AATGC AATGC AATGA AATGA AATGA AATGA AATGC AATGT
1 AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA
* * * *
755526 AATGA AATGC AATGA AATGA AATGA AGTGC AATGC AATGA AATG
1 AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATGA AATG
755570 TTTTTGAAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 77 1.00
ACGTcount: A:0.50, C:0.06, G:0.21, T:0.22
Consensus pattern (5 bp):
AATGA
Found at i:755499 original size:15 final size:15
Alignment explanation
Indices: 755464--755569 Score: 110
Period size: 15 Copynumber: 7.2 Consensus size: 15
755454 CGGCCATTTC
*
755464 ATGC-ATGAAA-GTA
1 ATGCAATGAAATGCA
*
755477 ATGTAATGAAATGCA
1 ATGCAATGAAATGCA
*
755492 ATGCAATGAAATGAA
1 ATGCAATGAAATGCA
*
755507 ATGAAATGAAATGCA
1 ATGCAATGAAATGCA
*
755522 ATGTAATGAAATGCA
1 ATGCAATGAAATGCA
*
755537 ATGAAATGAAATG-A
1 ATGCAATGAAATGCA
* *
755551 AGTGCAATGCAATGAA
1 A-TGCAATGAAATGCA
755567 ATG
1 ATG
755570 TTTTTGAAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
13 3 0.04
14 8 0.10
15 66 0.84
16 2 0.03
ACGTcount: A:0.49, C:0.07, G:0.22, T:0.23
Consensus pattern (15 bp):
ATGCAATGAAATGCA
Found at i:755688 original size:44 final size:43
Alignment explanation
Indices: 755582--755681 Score: 191
Period size: 44 Copynumber: 2.3 Consensus size: 43
755572 TTTGAAATGT
755582 ATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAAC
1 ATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAAC
755625 ATGAAATGAAAAATTATGCATGCATGAAATGTTACGTGAAAAAC
1 ATGAAATG-AAAATTATGCATGCATGAAATGTTACGTGAAAAAC
755669 ATGAAATGAAAAT
1 ATGAAATGAAAAT
755682 GCATGCAATG
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
43 13 0.23
44 43 0.77
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGAAATGAAAATTATGCATGCATGAAATGTTACGTGAAAAAC
Found at i:755794 original size:16 final size:15
Alignment explanation
Indices: 755773--755841 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 15
755763 TCATTTCTTC
755773 TTTTTATTTCATTATT
1 TTTTTATTT-ATTATT
** *
755789 TTTTTATAAAATTTTT
1 TTTTTAT-TTATTATT
755805 ATTTTTATTTATTTATT
1 -TTTTTATTTA-TTATT
* *
755822 TTTTTGTTTAATATT
1 TTTTTATTTATTATT
755837 TTTTT
1 TTTTT
755842 GAAATCTCGG
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
15 9 0.21
16 22 0.52
17 11 0.26
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (15 bp):
TTTTTATTTATTATT
Found at i:758078 original size:27 final size:26
Alignment explanation
Indices: 757996--758085 Score: 101
Period size: 28 Copynumber: 3.4 Consensus size: 26
757986 TAGCTACAAA
* * *
757996 TTTTGACAAATA-AACAAGCCTCCAT
1 TTTTGACAAATACAAAAAACCACCAT
* *
758021 ATTTGACAAATCCAAAGGAAACCACCAT
1 TTTTGACAAATACAAA--AAACCACCAT
758049 TTTTGACAAATACAAAATAACCACCAT
1 TTTTGACAAATACAAAA-AACCACCAT
758076 TTTTGACAAA
1 TTTTGACAAA
758086 CAAATGGGTG
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
25 10 0.19
26 3 0.06
27 19 0.35
28 22 0.41
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (26 bp):
TTTTGACAAATACAAAAAACCACCAT
Found at i:758190 original size:17 final size:16
Alignment explanation
Indices: 758165--758228 Score: 60
Period size: 17 Copynumber: 4.0 Consensus size: 16
758155 ATTCATAAAC
758165 ATAAT-TTTAATATAT
1 ATAATATTTAATATAT
*
758180 ATAATACTTTATTATAT
1 ATAATA-TTTAATATAT
* **
758197 ATATTA-AAAATATAT
1 ATAATATTTAATATAT
758212 ATAATATTATAATATAT
1 ATAATATT-TAATATAT
758229 GATTTTTGTG
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
15 16 0.43
17 21 0.57
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATTTAATATAT
Found at i:760389 original size:9 final size:9
Alignment explanation
Indices: 760375--760399 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
760365 TCACTATCTT
760375 TTTTTTTTA
1 TTTTTTTTA
760384 TTTTTTTTA
1 TTTTTTTTA
760393 TTTTTTT
1 TTTTTTT
760400 ATGAATCTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:761703 original size:2 final size:2
Alignment explanation
Indices: 761698--761722 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
761688 TATGAAAAAA
761698 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
761723 ATTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:765535 original size:37 final size:34
Alignment explanation
Indices: 765494--765574 Score: 85
Period size: 37 Copynumber: 2.3 Consensus size: 34
765484 TAAATTACAA
765494 TTTATAAATTAATAAAAATTAAAAATTATTTTTATAT
1 TTTATAAATTAATAAAAA-TAAAAA-TATTTTT-TAT
**
765531 TTTAT-AATTGAATTTAAATAAAAATATTTTTTAT
1 TTTATAAATT-AATAAAAATAAAAATATTTTTTAT
*
765565 TAT-TAAATTA
1 TTTATAAATTA
765575 TAATTCAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
33 2 0.05
34 9 0.23
35 7 0.18
36 10 0.26
37 11 0.28
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (34 bp):
TTTATAAATTAATAAAAATAAAAATATTTTTTAT
Found at i:765698 original size:23 final size:22
Alignment explanation
Indices: 765667--765721 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
765657 ACAATTCATG
* *
765667 TATCTATATTATATTCATATATTT
1 TATC-ATATTATAATCACATA-TT
765691 TATCATATTATAATCACATATT
1 TATCATATTATAATCACATATT
*
765713 TAACATATT
1 TATCATATT
765722 TTACATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 10 0.36
23 14 0.50
24 4 0.14
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (22 bp):
TATCATATTATAATCACATATT
Found at i:765754 original size:17 final size:18
Alignment explanation
Indices: 765719--765764 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
765709 TATTTAACAT
765719 ATTTTAC-AT-TTATATA
1 ATTTTACTATATTATATA
765735 ATTTTACTATATTA-ATA
1 ATTTTACTATATTATATA
*
765752 ATTCGTACTATAT
1 ATT-TTACTATAT
765765 AATCTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 7 0.27
17 8 0.31
18 11 0.42
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (18 bp):
ATTTTACTATATTATATA
Found at i:765810 original size:18 final size:17
Alignment explanation
Indices: 765774--765830 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 17
765764 TAATCTTAAA
765774 ATATTCATA-ATGTTATTT
1 ATATTCATATAT-TT-TTT
765792 ATATTCATATTATTTTTT
1 ATATTCATA-TATTTTTT
*
765810 ATGATATGATATATTTTTT
1 AT-AT-TCATATATTTTTT
765829 AT
1 AT
765831 CATATTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
18 14 0.41
19 14 0.41
20 6 0.18
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.60
Consensus pattern (17 bp):
ATATTCATATATTTTTT
Found at i:765841 original size:17 final size:18
Alignment explanation
Indices: 765801--765845 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
765791 TATATTCATA
*
765801 TTATTTTTTATGATATGAT
1 TTATTTTTTATCATAT-AT
*
765820 ATATTTTTTATCATAT-T
1 TTATTTTTTATCATATAT
765837 TTATTTTTT
1 TTATTTTTT
765846 TTGTTATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
19 14 0.61
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (18 bp):
TTATTTTTTATCATATAT
Found at i:768823 original size:17 final size:18
Alignment explanation
Indices: 768787--768831 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
768777 GAATATATAA
*
768787 ATATACATATTAAAATTT
1 ATATAAATATTAAAATTT
*
768805 ATATAAATATT-ACATTT
1 ATATAAATATTAAAATTT
768822 ATATAAATAT
1 ATATAAATAT
768832 ATAATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAAATATTAAAATTT
Found at i:768826 original size:43 final size:43
Alignment explanation
Indices: 768735--768834 Score: 105
Period size: 43 Copynumber: 2.3 Consensus size: 43
768725 ATTATAATAT
* *
768735 AATATAAA-ATTTGACATATTAAAAATAATATAAATATGATATG
1 AATATAAATATAT-ACATATTAAAAATAATATAAATATGACATG
* * * *
768778 AATATATAA-ATATACATATTAAAATTTATATAAATATTACATT
1 AATATA-AATATATACATATTAAAAATAATATAAATATGACATG
*
768821 TATATAAATATATA
1 AATATAAATATATA
768835 ATTTTTTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.04
43 41 0.85
44 5 0.10
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (43 bp):
AATATAAATATATACATATTAAAAATAATATAAATATGACATG
Found at i:768838 original size:17 final size:17
Alignment explanation
Indices: 768800--768848 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
768790 TACATATTAA
768800 AATTTATATAAATAT-T
1 AATTTATATAAATATAT
768816 ACATTTATATAAATATAT
1 A-ATTTATATAAATATAT
*
768834 AATTT-TTTAAATATA
1 AATTTATATAAATATA
768849 ATTAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 10 0.33
17 18 0.60
18 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTTATATAAATATAT
Found at i:770667 original size:2 final size:2
Alignment explanation
Indices: 770655--770703 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
770645 ATTGAAGTTT
770655 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
770696 TA TA TA TA
1 TA TA TA TA
770704 AAACTTGAGT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:774349 original size:29 final size:29
Alignment explanation
Indices: 774308--774366 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
774298 TTATAAATAA
**
774308 TAAATTTAAATAATTTAAATAAA-TTAAAT
1 TAAATTTAAATAAAATAAA-AAATTTAAAT
774337 TAAATATT-AATAAAATAAAAAATTTAAAT
1 TAAAT-TTAAATAAAATAAAAAATTTAAAT
774366 T
1 T
774367 TTTTCAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 3 0.12
29 21 0.81
30 2 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (29 bp):
TAAATTTAAATAAAATAAAAAATTTAAAT
Found at i:775470 original size:10 final size:9
Alignment explanation
Indices: 775451--775475 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
775441 ACAATTTACC
775451 AAAAAGAAA
1 AAAAAGAAA
775460 AAAAAGAAA
1 AAAAAGAAA
775469 AAAAAGA
1 AAAAAGA
775476 GCATACTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:776991 original size:11 final size:12
Alignment explanation
Indices: 776972--777026 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
776962 TATGACTTTG
*
776972 AATACGATAT-A
1 AATATGATATAA
776983 AATATGATATAA
1 AATATGATATAA
* *
776995 AAAATAAT-TAA
1 AATATGATATAA
*
777006 AATATGACATAA
1 AATATGATATAA
777018 AATATGATA
1 AATATGATA
777027 CGATACGAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
11 17 0.49
12 18 0.51
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (12 bp):
AATATGATATAA
Found at i:777521 original size:26 final size:26
Alignment explanation
Indices: 777472--777521 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
777462 TAGTTAGAAA
* *
777472 AGAAGATTTTATTTTATTTTATTTGC
1 AGAAGATTATATTTTATTTCATTTGC
777498 AGAAGAATTATATTTTA-TTCATTT
1 AGAAG-ATTATATTTTATTTCATTT
777522 TATTGGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.54
Consensus pattern (26 bp):
AGAAGATTATATTTTATTTCATTTGC
Found at i:778601 original size:22 final size:22
Alignment explanation
Indices: 778576--778620 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
778566 AATTGTTATT
*
778576 TAAA-TTTAATTATAAAAATATA
1 TAAATTTTAA-TATAAAAAAATA
778598 TAAATTTTAATATAAAAAAATA
1 TAAATTTTAATATAAAAAAATA
778620 T
1 T
778621 TTTTTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATTTTAATATAAAAAAATA
Found at i:782264 original size:265 final size:265
Alignment explanation
Indices: 781875--782934 Score: 1994
Period size: 265 Copynumber: 4.0 Consensus size: 265
781865 CTATAAATTG
*
781875 AATCTATTTAAAATACAAAAATTTTTTCTTAAATTAAATCTACTATGATTAAAGCATGATATCGA
1 AATCTATTTAAAATACAAAATTTTTTTCTTAAATTAAATCTACTATGATTAAAGCATGATATCGA
* * *
781940 CTCCTGATCAAATAGTATTATTTAAAATAAAACTTATATCACTGTTTAAATATAAAAAATTATTT
66 CTCCTAATCAAATACTATTATTTAAAATAAAACTTATATCACTATTTAAATATAAAAAATTATTT
782005 TTATATTAATATTTATAATTAAATTTAAAATAAAAATAATTTTTATTAAATAAATAATAATATAA
131 TTATATTAATATTTATAATTAAATTTAAAATAAAAATAATTTTTATTAAATAAATAATAATATAA
*
782070 ACTCAATTAATTCAAAATATAAAATTTCAATCTAAATTCAACTTATACAAGTAAGGCATGCTGCC
196 ACTCAATTAATTCAAAATATAAAATTTCAATCTAAATTCAACTGATACAAGTAAGGCATGCTGCC
782135 GACCT
261 GACCT
782140 AATCTATTTAAAATACAAAATTTTTTTCTTAAATTAAATCTACTATGATTAAAGCATGATATCGA
1 AATCTATTTAAAATACAAAATTTTTTTCTTAAATTAAATCTACTATGATTAAAGCATGATATCGA
* *
782205 CTCCTGATTAAATACTATTATTTAAAATAAAACTTATATCACTATTTAAATATAAAAAATTATTT
66 CTCCTAATCAAATACTATTATTTAAAATAAAACTTATATCACTATTTAAATATAAAAAATTATTT
*
782270 TTATATTAATATTCATAATTAAATTTAAAATAAAAATAATTTTTATTAAATAAATAATAATATAA
131 TTATATTAATATTTATAATTAAATTTAAAATAAAAATAATTTTTATTAAATAAATAATAATATAA
*
782335 ACTCAATTAATTCAAAATATAAAATTTCAATCTAAATTCAACTGATACAAGTAAGGCATGCTGCT
196 ACTCAATTAATTCAAAATATAAAATTTCAATCTAAATTCAACTGATACAAGTAAGGCATGCTGCC
782400 GACCT
261 GACCT
* *
782405 AATCTATTTAAAATGCAAAATTTTTTTCTTAAATTAAATCTACTATGATTAAAGCATGATATCGG
1 AATCTATTTAAAATACAAAATTTTTTTCTTAAATTAAATCTACTATGATTAAAGCATGATATCGA
782470 CTCCTAATCAAATACTATTATTTAAAATAAAACTTATATCACTATTTAAATATAAAAAATTATTT
66 CTCCTAATCAAATACTATTATTTAAAATAAAACTTATATCACTATTTAAATATAAAAAATTATTT
782535 TTATATTAATATTTATAATTAAATTTAAAATAAAAATAATTTTTATTAAATAAATAATAATATAA
131 TTATATTAATATTTATAATTAAATTTAAAATAAAAATAATTTTTATTAAATAAATAATAATATAA
*
782600 ACTCAATTAATTCAAAATATAAAATTTCAATCTAAATTCAACTGATACAAGTAAGGCATGCTGCT
196 ACTCAATTAATTCAAAATATAAAATTTCAATCTAAATTCAACTGATACAAGTAAGGCATGCTGCC
782665 GACCT
261 GACCT
*
782670 AATCTATTTAAAATACAAAATTTTTTTCTTAAATTAAATCTACTATGATTAAAGCATGATATCGG
1 AATCTATTTAAAATACAAAATTTTTTTCTTAAATTAAATCTACTATGATTAAAGCATGATATCGA
782735 CTCCTAATCAAATACTATTATTTAAAATAAAACTTATATCACTATTTAAATATAAAAAATTATTT
66 CTCCTAATCAAATACTATTATTTAAAATAAAACTTATATCACTATTTAAATATAAAAAATTATTT
782800 TTATATTAATATTTATAATTAAATTTAAAATAAAAATAATTTTTATTAAATAAATAATAATATAA
131 TTATATTAATATTTATAATTAAATTTAAAATAAAAATAATTTTTATTAAATAAATAATAATATAA
*
782865 ACTCAATTAATTCAAAATATAAAATTTCAATCTAAATTCAACTGATACAAATAAGGCATGCTGCC
196 ACTCAATTAATTCAAAATATAAAATTTCAATCTAAATTCAACTGATACAAGTAAGGCATGCTGCC
782930 GACCT
261 GACCT
782935 TTTTTTTTTT
Statistics
Matches: 780, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
265 780 1.00
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (265 bp):
AATCTATTTAAAATACAAAATTTTTTTCTTAAATTAAATCTACTATGATTAAAGCATGATATCGA
CTCCTAATCAAATACTATTATTTAAAATAAAACTTATATCACTATTTAAATATAAAAAATTATTT
TTATATTAATATTTATAATTAAATTTAAAATAAAAATAATTTTTATTAAATAAATAATAATATAA
ACTCAATTAATTCAAAATATAAAATTTCAATCTAAATTCAACTGATACAAGTAAGGCATGCTGCC
GACCT
Found at i:783712 original size:24 final size:24
Alignment explanation
Indices: 783682--783758 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 24
783672 TAATTTATTA
783682 TTAATAAAAATTTAATAATATAAT
1 TTAATAAAAATTTAATAATATAAT
* *
783706 TTAAT-AAAATTAAATATTTATAAT
1 TTAATAAAAATTTAATA-ATATAAT
*
783730 TTATATTAAAA-TT-ATAA-ATAAT
1 TTA-ATAAAAATTTAATAATATAAT
783752 TTAATAA
1 TTAATAA
783759 TTTAAAACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
21 3 0.07
22 8 0.18
23 10 0.22
24 17 0.38
25 3 0.07
26 4 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TTAATAAAAATTTAATAATATAAT
Found at i:784327 original size:21 final size:21
Alignment explanation
Indices: 784301--784355 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
784291 TATTTTATTA
784301 ATAAAAAATTTAAA-ATTAATT
1 ATAAAAAATTTAAATATTAA-T
*
784322 ATAAAAATATATAAATATTAAT
1 ATAAAAA-ATTTAAATATTAAT
784344 ATAAAATAATTT
1 ATAAAA-AATTT
784356 TTAATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 7 0.24
22 16 0.55
23 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAAAAATTTAAATATTAAT
Found at i:784329 original size:20 final size:22
Alignment explanation
Indices: 784296--784349 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
784286 AGATATATTT
784296 TATTAATA-AAAAAT-T-TAAA
1 TATTAATATAAAAATATATAAA
784315 -ATTAATTATAAAAATATATAAA
1 TATTAA-TATAAAAATATATAAA
784337 TATTAATATAAAA
1 TATTAATATAAAA
784350 TAATTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.17
19 2 0.07
20 6 0.20
21 1 0.03
22 11 0.37
23 5 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TATTAATATAAAAATATATAAA
Found at i:784906 original size:2 final size:2
Alignment explanation
Indices: 784901--784928 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
784891 CCCTCCACAC
784901 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
784929 TAAGAATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:785023 original size:2 final size:2
Alignment explanation
Indices: 785016--785056 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
785006 AAAATAATAA
*
785016 AT AT AT AT CAA AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
785057 CACACACATG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 33 0.94
3 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:785030 original size:18 final size:18
Alignment explanation
Indices: 785007--785041 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
784997 CTAAATTTAA
785007 AAATAATAAATATATATC
1 AAATAATAAATATATATC
*
785025 AAATAATATATATATAT
1 AAATAATAAATATATAT
785042 ATATATATAT
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:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATAATAAATATATATC
Found at i:785177 original size:15 final size:13
Alignment explanation
Indices: 785157--785190 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
785147 TATTTTATAT
785157 AAAATATATATATTA
1 AAAATAT-TAT-TTA
785172 AAAATATTATTTA
1 AAAATATTATTTA
785185 AAAATA
1 AAAATA
785191 ATAAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 3 0.16
15 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAATATTATTTA
Found at i:785236 original size:50 final size:50
Alignment explanation
Indices: 785176--785414 Score: 245
Period size: 49 Copynumber: 4.8 Consensus size: 50
785166 ATATTAAAAA
* * *
785176 TATTATTTAAAAATAATAAAATTAAAATTATTTTATGA-TAGATCTTAAAT
1 TATTATTTAAAAATAATAAAATTAAAAATATTTTAT-ATTAAATCTCAAAT
* * * *
785226 TATTACTT-AAAATAATAAAA-AATAAAATATTTTATATTAAATTTAAAAT
1 TATTATTTAAAAATAATAAAATTA-AAAATATTTTATATTAAATCTCAAAT
* * *
785275 TACTATTTAAAAATAATAAATATTAAAAAATATATTATATTAAAATCTCGAAT
1 TATTATTTAAAAATAATAAA-ATT-AAAAATATTTTATATT-AAATCTCAAAT
* * * *
785328 AACTATTTAAATATAATAAAA-TAAAAATA-ATTATATTAAATCTCAAAT
1 TATTATTTAAAAATAATAAAATTAAAAATATTTTATATTAAATCTCAAAT
* *
785376 TATTTTTTAAAAATAATAAAAAATAAAAATATTTTATAT
1 TATTATTTAAAAATAAT-AAAATTAAAAATATTTTATAT
785415 ATGTATTGTG
Statistics
Matches: 158, Mismatches: 21, Indels: 19
0.80 0.11 0.10
Matches are distributed among these distances:
48 25 0.16
49 50 0.32
50 33 0.21
51 8 0.05
52 15 0.09
53 27 0.17
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (50 bp):
TATTATTTAAAAATAATAAAATTAAAAATATTTTATATTAAATCTCAAAT
Found at i:785244 original size:49 final size:49
Alignment explanation
Indices: 785169--785414 Score: 212
Period size: 50 Copynumber: 4.9 Consensus size: 49
785159 AATATATATA
* *
785169 TTAAAAATATTATTTAAAAATAATAAAATTAAAATTATTTTATGA-TAGAT
1 TTAAAATTATTATTTAAAAATAATAAAATTAAAA-TATTTTAT-ATTAAAT
* *
785219 CTT-AAATTATTACTT-AAAATAATAAAAAATAAAATATTTTATATTAAAT
1 -TTAAAATTATTATTTAAAAATAAT-AAAATTAAAATATTTTATATTAAAT
* *
785268 TTAAAATTACTATTTAAAAATAATAAATATTAAAAAATATATTATATTAAAAT
1 TTAAAATTATTATTTAAAAATAATAAA-ATT--AAAATATTTTATATT-AAAT
* ** * * * * *
785321 CTCGAATAACTATTTAAATATAATAAAATAAAAATA-ATTATATTAAAT
1 TTAAAATTATTATTTAAAAATAATAAAATTAAAATATTTTATATTAAAT
* * * *
785369 CTCAAATTATTTTTTAAAAATAATAAAAAATAAAAATATTTTATAT
1 TTAAAATTATTATTTAAAAATAAT--AAAATTAAAATATTTTATAT
785415 ATGTATTGTG
Statistics
Matches: 164, Mismatches: 20, Indels: 22
0.80 0.10 0.11
Matches are distributed among these distances:
48 26 0.16
49 41 0.25
50 47 0.29
51 8 0.05
52 16 0.10
53 26 0.16
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (49 bp):
TTAAAATTATTATTTAAAAATAATAAAATTAAAATATTTTATATTAAAT
Found at i:785303 original size:17 final size:17
Alignment explanation
Indices: 785278--785319 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
785268 TTAAAATTAC
*
785278 TATTTAAAAATA-ATAAA
1 TATTAAAAAATATAT-AA
*
785295 TATTAAAAAATATATTA
1 TATTAAAAAATATATAA
785312 TATTAAAA
1 TATTAAAA
785320 TCTCGAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATTAAAAAATATATAA
Found at i:785368 original size:101 final size:101
Alignment explanation
Indices: 785232--785414 Score: 253
Period size: 101 Copynumber: 1.8 Consensus size: 101
785222 AAATTATTAC
* * *
785232 TTAAAATAATAAAAAATAAAATATTTTATATTAAATTTAAAATTACTATTTAAAAATAATAAATA
1 TTAAAATAATAAAAAATAAAATATATTATATTAAATCTAAAATTACTATTTAAAAATAATAAAAA
*
785297 TTAAAAAATATATTATATTAAAATCTCGAATAACTAT
66 AT-AAAAATATATTATATTAAAATCTCGAATAACTAT
* * * *
785334 TTAAATATAATAAAATA-AAAATA-ATTATATTAAATCTCAAATTATTTTTTAAAAATAATAAAA
1 TTAAA-ATAATAAAAAATAAAATATATTATATTAAATCTAAAATTACTATTTAAAAATAATAAAA
*
785397 AATAAAAATATTTTATAT
65 AATAAAAATATATTATAT
785415 ATGTATTGTG
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
100 14 0.20
101 36 0.51
102 11 0.15
103 10 0.14
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (101 bp):
TTAAAATAATAAAAAATAAAATATATTATATTAAATCTAAAATTACTATTTAAAAATAATAAAAA
ATAAAAATATATTATATTAAAATCTCGAATAACTAT
Found at i:786159 original size:16 final size:16
Alignment explanation
Indices: 786131--786163 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
786121 CTTCGAATAA
786131 AATTAAATATACATAT
1 AATTAAATATACATAT
786147 AATTATAAT-TACATAT
1 AATTA-AATATACATAT
786163 A
1 A
786164 CACAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAATATACATAT
Found at i:786318 original size:34 final size:39
Alignment explanation
Indices: 786265--786336 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 39
786255 TCAAATTAAA
786265 TATTTCTTAATATATATAAAAAAATTT-ATT-TTTTTAT
1 TATTTCTTAATATATATAAAAAAATTTAATTATTTTTAT
* *
786302 TATTT-TTAA-ATA-ATAAAGAATTTTAATTATTTTTA
1 TATTTCTTAATATATATAAAAAAATTTAATTATTTTTA
786337 AATTCTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
34 10 0.32
35 6 0.19
36 10 0.32
37 5 0.16
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (39 bp):
TATTTCTTAATATATATAAAAAAATTTAATTATTTTTAT
Found at i:786377 original size:53 final size:51
Alignment explanation
Indices: 786320--786550 Score: 252
Period size: 53 Copynumber: 4.4 Consensus size: 51
786310 AATAATAAAG
* **
786320 AATTTTAATTATTTTTAAATTCTAATTTTTAGATTTAATATAAAATATTTTTT
1 AATTTTTATTATTTTTAAATAATAA-TTTTAGATTTAATATAAAATA-TTTTT
* ** *
786373 AATTTTTATTATTTTTAACTAATAATTTGGGATTTAATAT--AATTTTTTT
1 AATTTTTATTATTTTTAAATAATAATTTTAGATTTAATATAAAATATTTTT
* * *
786422 AAAAATTTTTATTATTTTTAAAATAGTTATTTCAGATTTAATATAAAATA-TTTT
1 ---AATTTTTATTATTTTT-AAATAATAATTTTAGATTTAATATAAAATATTTTT
* * *
786476 AATTTTTATTATTTTTAAATAATAATTTAAGATTAAATATAAGATATTTTT
1 AATTTTTATTATTTTTAAATAATAATTTTAGATTTAATATAAAATATTTTT
786527 AATTTTTTTATTATTTTTAAATAA
1 AA--TTTTTATTATTTTTAAATAA
786551 CATTTTTAAT
Statistics
Matches: 151, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
49 5 0.03
50 28 0.19
51 22 0.15
52 29 0.19
53 60 0.40
54 4 0.03
55 3 0.02
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.56
Consensus pattern (51 bp):
AATTTTTATTATTTTTAAATAATAATTTTAGATTTAATATAAAATATTTTT
Found at i:786438 original size:105 final size:106
Alignment explanation
Indices: 786315--786549 Score: 302
Period size: 103 Copynumber: 2.2 Consensus size: 106
786305 TTTTAAATAA
* *
786315 TAAAGAATTTTAATTATTTTTAAATTCTAATT-TTT-AGATTTAATATAAAATATTTTTTAATTT
1 TAAA-AATTTTTATTATTTTTAAA-TATAATTATTTCAGATTTAATATAAAATA--TTTTAATTT
* ** * *
786378 TTATTATTTTTAACTAATAATTTGGGATTTAATAT-A-ATTTTTT
62 TTATTATTTTTAAATAATAATTTAAGATTAAATATAAGATATTTT
*
786421 TAAAAATTTTTATTATTTTTAAA-ATAGTTATTTCAGATTTAATATAAAATATTTTAATTTTTAT
1 TAAAAATTTTTATTATTTTTAAATATAATTATTTCAGATTTAATATAAAATATTTTAATTTTTAT
786485 TATTTTTAAATAATAATTTAAGATTAAATATAAGATATTTT
66 TATTTTTAAATAATAATTTAAGATTAAATATAAGATATTTT
**
786526 T-AATTTTTTTATTATTTTTAAATA
1 TAAAAATTTTTATTATTTTTAAATA
786550 ACATTTTTAA
Statistics
Matches: 114, Mismatches: 10, Indels: 11
0.84 0.07 0.08
Matches are distributed among these distances:
103 44 0.39
104 23 0.20
105 43 0.38
106 4 0.04
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (106 bp):
TAAAAATTTTTATTATTTTTAAATATAATTATTTCAGATTTAATATAAAATATTTTAATTTTTAT
TATTTTTAAATAATAATTTAAGATTAAATATAAGATATTTT
Found at i:786575 original size:12 final size:11
Alignment explanation
Indices: 786555--786601 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
786545 AAATAACATT
786555 TTTAATATATA
1 TTTAATATATA
786566 TTTAAT-TATA
1 TTTAATATATA
* *
786576 TGTAAGATATA
1 TTTAATATATA
*
786587 TATATATATATA
1 TTTA-ATATATA
786599 TTT
1 TTT
786602 TTTTTTTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
10 8 0.28
11 13 0.45
12 8 0.28
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (11 bp):
TTTAATATATA
Found at i:786683 original size:2 final size:2
Alignment explanation
Indices: 786676--786751 Score: 125
Period size: 2 Copynumber: 38.0 Consensus size: 2
786666 ATATGTTTCA
*
786676 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
786718 AT AT TT AT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
786752 TATTTTTAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:786697 original size:18 final size:18
Alignment explanation
Indices: 786676--786782 Score: 149
Period size: 18 Copynumber: 6.4 Consensus size: 18
786666 ATATGTTTCA
*
786676 ATATATATATATATATAT
1 ATATATATATTTATATAT
786694 ATATATATATTTATATAT
1 ATATATATATTTATATAT
786712 ATATATATATTTATATAT
1 ATATATATATTTATATAT
786730 ATATATATATTTATATAT
1 ATATATATATTTATATAT
786748 ATAT-TAT-TTT-TA-A-
1 ATATATATATTTATATAT
786761 ATATA-AT-TTTA-ATAT
1 ATATATATATTTATATAT
786776 ATATATA
1 ATATATA
786783 ATTAATATTT
Statistics
Matches: 83, Mismatches: 1, Indels: 12
0.86 0.01 0.12
Matches are distributed among these distances:
13 10 0.12
14 2 0.02
15 7 0.08
16 4 0.05
17 3 0.04
18 57 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATATATATTTATATAT
Found at i:786821 original size:38 final size:39
Alignment explanation
Indices: 786730--786823 Score: 93
Period size: 38 Copynumber: 2.4 Consensus size: 39
786720 ATTTATATAT
* * *
786730 ATATATATATTTATATATATATTATTTTTAAATATAATTTTA
1 ATATATATA-TAAT-TA-ATATTATTATTAAATATAATTTGA
*
786772 ATATATATATAATTAATATT-TTATTAACTATAATTTGA
1 ATATATATATAATTAATATTATTATTAAATATAATTTGA
*
786810 GATTTAT-TATAATT
1 -ATATATATATAATT
786824 TTTTTATAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
38 22 0.48
39 10 0.22
40 2 0.04
41 3 0.07
42 9 0.20
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (39 bp):
ATATATATATAATTAATATTATTATTAAATATAATTTGA
Found at i:787594 original size:44 final size:44
Alignment explanation
Indices: 787531--787620 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
787521 TTTTTTGTCT
787531 CTTGCCCCCACCTTAATAATTGAGGTGGAAGTGTTTGAAGAGTC
1 CTTGCCCCCACCTTAATAATTGAGGTGGAAGTGTTTGAAGAGTC
787575 CTTGCCCCCACCTTAATAATTGAGGTGGAAGTGTTTGAAGAGTC
1 CTTGCCCCCACCTTAATAATTGAGGTGGAAGTGTTTGAAGAGTC
787619 CT
1 CT
787621 CTATGAAGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (44 bp):
CTTGCCCCCACCTTAATAATTGAGGTGGAAGTGTTTGAAGAGTC
Found at i:787817 original size:22 final size:21
Alignment explanation
Indices: 787792--787848 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
787782 TAGTTTAAAG
* *
787792 TTATTTTATTTTAAAGTATGAT
1 TTATTTTATTTTAAAAT-TAAT
787814 TTATTTTTATTTATAAAATTAAT
1 TTA-TTTTATTT-TAAAATTAAT
*
787837 TTAATTTATTTT
1 TTATTTTATTTT
787849 TATTAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 1 0.03
22 10 0.33
23 14 0.47
24 5 0.17
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
TTATTTTATTTTAAAATTAAT
Found at i:787843 original size:24 final size:23
Alignment explanation
Indices: 787795--787868 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
787785 TTTAAAGTTA
* *
787795 TTTTATTT-TAAAGTATGATTTAT
1 TTTTATTTATAAAAT-TAATTTAT
787818 TTTTATTTATAAAATTAATTTA-
1 TTTTATTTATAAAATTAATTTAT
* *
787840 ATTTATTT-T--TATTAAATTTAT
1 TTTTATTTATAAAATT-AATTTAT
787861 TTTTATTT
1 TTTTATTT
787869 GATTATGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.07
20 6 0.14
21 8 0.19
22 7 0.16
23 14 0.33
24 5 0.12
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (23 bp):
TTTTATTTATAAAATTAATTTAT
Found at i:787859 original size:15 final size:15
Alignment explanation
Indices: 787839--787867 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
787829 AAATTAATTT
787839 AATTTATTTTTATTA
1 AATTTATTTTTATTA
787854 AATTTATTTTTATT
1 AATTTATTTTTATT
787868 TGATTATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
AATTTATTTTTATTA
Found at i:788498 original size:33 final size:34
Alignment explanation
Indices: 788434--788496 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 34
788424 AATGGTGTAA
* *
788434 TTTAATTTTATTTATAAAATTTTAAGATTTTATT
1 TTTAATTTGATTTATAAAATTTTAAAATTTTATT
788468 TTTAATTTGA-TTATAAAA-TTTAAAATTTT
1 TTTAATTTGATTTATAAAATTTTAAAATTTT
788497 TAAAATTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 10 0.37
33 8 0.30
34 9 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (34 bp):
TTTAATTTGATTTATAAAATTTTAAAATTTTATT
Found at i:792100 original size:20 final size:20
Alignment explanation
Indices: 792036--792151 Score: 110
Period size: 20 Copynumber: 5.7 Consensus size: 20
792026 TTTTAACTAG
* *
792036 ATGTATCGATGCATTG-AGC
1 ATGTATCGATACATTGAAGA
*
792055 ATGTATTGATACATCTAGATAGA
1 ATGTATCGATACAT-T-GA-AGA
792078 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
* ***
792098 ATGTATCGATACATTCATCC
1 ATGTATCGATACATTGAAGA
792118 ATGTATCGATACATTG-AGAA
1 ATGTATCGATACATTGAAG-A
*
792138 ATGTATCGGTACAT
1 ATGTATCGATACAT
792152 CTAGGTAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.15
20 48 0.61
21 3 0.04
22 1 0.01
23 15 0.19
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:792792 original size:32 final size:32
Alignment explanation
Indices: 792756--792849 Score: 89
Period size: 32 Copynumber: 2.9 Consensus size: 32
792746 AGGTTCCCAT
* *
792756 CAACTTGTATAGGCTTTGAAAAGGGTTGCCCC
1 CAACTCGTATAGGCTTTGAAAAGAGTTGCCCC
* * * *
792788 CAACTCGTGTGGGCTTTGAAATGAGTTGCCAC
1 CAACTCGTATAGGCTTTGAAAAGAGTTGCCCC
** * * *
792820 TGACTCGTGTGGGCTTTGAAATGAGTTGCC
1 CAACTCGTATAGGCTTTGAAAAGAGTTGCC
792850 ACTGACTTGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (32 bp):
CAACTCGTATAGGCTTTGAAAAGAGTTGCCCC
Found at i:792886 original size:28 final size:28
Alignment explanation
Indices: 792795--793511 Score: 749
Period size: 28 Copynumber: 24.8 Consensus size: 28
792785 CCCCAACTCG
792795 TGTGGGCTTTGAAATGAGTTGCCACTGACT
1 TGTGGGCTTTGAAATGA--TGCCACTGACT
792825 CGTGTGGGCTTTGAAATGAGTTGCCACTGACT
1 --TGTGGGCTTTGAAATGA--TGCCACTGACT
*
792857 TGTGGGCTTTAAAATGATGCCA-TGAACT
1 TGTGGGCTTTGAAATGATGCCACTG-ACT
* * * *
792885 TGTGGGCTTTAAAATGGGTTGCCATTAACTT
1 TGTGGGCTTTGAAAT--GATGCCACTGAC-T
* * * * *
792916 GTGTGGGCTTTAAAATGGGTTACCATTAACTT
1 -TGTGGGCTTTGAAAT--GATGCCACTGAC-T
* **
792948 GTGTGGGCTTTCAAATGAGTTGCCACCAACTT
1 -TGTGGGCTTTGAAATGA--TGCCACTGAC-T
*
792980 GTGTGGGCTTTGAAATGAGTTGCCAATGACT
1 -TGTGGGCTTTGAAATGA--TGCCACTGACT
* *
793011 TGTGAGCTTTGAAATGATTCCAC-GAACT
1 TGTGGGCTTTGAAATGATGCCACTG-ACT
* *
793039 TGTGGGCTTTGAAAGGATGCTACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
793067 TGTAGGCTTTGGAAA-GATGCCACTAACT
1 TGTGGGCTTT-GAAATGATGCCACTGACT
* *
793095 TGTGGGTTTTGAAATAATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
793123 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
793151 TGTGAGCTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
*
793179 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
793207 TGTGGGCTTTAAAATGATGCCACTAACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
*
793235 TGTGGGCTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* * *
793263 TATAGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
793291 TATGGGCTTTGAAATGATGCTACTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
793319 TGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* * *
793347 TGTGGGCCTTAAAATGATGCCACCGACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
* *
793375 TGTAGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAATGATGCCACTGACT
* * *
793404 TGTAGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAATGATGCCACTGACT
*
793432 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAATGATGCCACTGACT
*
793461 TGTGGGCTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAATGATGCCACTGACT
* *
793490 TGTGAGCTTTGAAA-GGTGCCAC
1 TGTGGGCTTTGAAATGATGCCAC
793512 GAAGTTGTGG
Statistics
Matches: 605, Mismatches: 66, Indels: 33
0.86 0.09 0.05
Matches are distributed among these distances:
27 14 0.02
28 352 0.58
29 85 0.14
30 41 0.07
31 3 0.00
32 110 0.18
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAATGATGCCACTGACT
Done.