Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 276 of 325
Found at i:90186072 original size:16 final size:16
Alignment explanation
Indices: 90186051--90186081 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90186041 TTTATTATTT
90186051 TATTAACATAATATAA
1 TATTAACATAATATAA
*
90186067 TATTAATATAATATA
1 TATTAACATAATATA
90186082 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:90187854 original size:146 final size:147
Alignment explanation
Indices: 90187583--90187864 Score: 478
Period size: 146 Copynumber: 1.9 Consensus size: 147
90187573 TGATATAAAA
* *
90187583 TGCTATTTTGATCATCAATTGAAATGGTGTAAAAGTATGATATTTGAGTATTGAATATGCAAATT
1 TGCTAGTTTAATCATCAATTGAAATGGTGTAAAAGTATGATATTTGAGTATTGAATATGCAAATT
*
90187648 GATCTAGTTGAATTGTGGCATATATTGATTGAATTTCTATATTAAGTATGCTCACTTGTGACTTG
66 GATCTAGTTGAATTGTGACATATATTGATTGAATTTCTATATTAAGTATGCTCACTTGTGACTTG
90187713 AATCATAAACGCACCAC
131 AATCATAAACGCACCAC
90187730 TGCTAGTTTAATCATCAATTGAAATGGTGTAAAAGTA-GATATTTGAGTATTGAATATGCAAATT
1 TGCTAGTTTAATCATCAATTGAAATGGTGTAAAAGTATGATATTTGAGTATTGAATATGCAAATT
* * * *
90187794 TATTTGGTTGAATTGTGACATATATTGATTGAATTTCTATATTAAGTATGCTTA-TCTGTGACTT
66 GATCTAGTTGAATTGTGACATATATTGATTGAATTTCTATATTAAGTATGCTCACT-TGTGACTT
90187858 GAATCAT
130 GAATCAT
90187865 GAAAGTACCA
Statistics
Matches: 127, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
145 1 0.01
146 91 0.72
147 35 0.28
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.40
Consensus pattern (147 bp):
TGCTAGTTTAATCATCAATTGAAATGGTGTAAAAGTATGATATTTGAGTATTGAATATGCAAATT
GATCTAGTTGAATTGTGACATATATTGATTGAATTTCTATATTAAGTATGCTCACTTGTGACTTG
AATCATAAACGCACCAC
Found at i:90191671 original size:18 final size:18
Alignment explanation
Indices: 90191648--90191684 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
90191638 ACGTTCTAAG
90191648 TTAGACAAATCAAGTGCC
1 TTAGACAAATCAAGTGCC
90191666 TTAGACAAATCAAGTGCC
1 TTAGACAAATCAAGTGCC
90191684 T
1 T
90191685 CATCTTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (18 bp):
TTAGACAAATCAAGTGCC
Found at i:90191881 original size:20 final size:20
Alignment explanation
Indices: 90191852--90191939 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
90191842 TACAATATCT
*
90191852 TAAAAAAAAATTAATAACTA
1 TAAAATAAAATTAATAACTA
90191872 TAAAATAAAATT-A-AACTA
1 TAAAATAAAATTAATAACTA
* * *
90191890 TAAACT----TTAAAACACAA
1 TAAAATAAAATTAATA-ACTA
*
90191907 TAAAAAAAAATTAATAACTA
1 TAAAATAAAATTAATAACTA
90191927 TAAAATAAAATTA
1 TAAAATAAAATTA
90191940 CAATCTAAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
14 2 0.04
15 1 0.02
16 1 0.02
17 7 0.13
18 10 0.19
19 1 0.02
20 26 0.49
21 5 0.09
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAATAAAATTAATAACTA
Found at i:90191932 original size:55 final size:55
Alignment explanation
Indices: 90191852--90191967 Score: 207
Period size: 55 Copynumber: 2.1 Consensus size: 55
90191842 TACAATATCT
90191852 TAAAAAAAAATTAATAACTATAAAATAAAATTA-AACTATAAACTTTAAAACACAA
1 TAAAAAAAAATTAATAACTATAAAATAAAATTACAA-TATAAACTTTAAAACACAA
*
90191907 TAAAAAAAAATTAATAACTATAAAATAAAATTACAATCTAAACTTTAAAACACAA
1 TAAAAAAAAATTAATAACTATAAAATAAAATTACAATATAAACTTTAAAACACAA
90191962 TAAAAA
1 TAAAAA
90191968 CAATTGTAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
55 57 0.97
56 2 0.03
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (55 bp):
TAAAAAAAAATTAATAACTATAAAATAAAATTACAATATAAACTTTAAAACACAA
Found at i:90191933 original size:25 final size:25
Alignment explanation
Indices: 90191852--90191936 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 25
90191842 TACAATATCT
90191852 TAAAAAAAAATTAATAACTATAAAA
1 TAAAAAAAAATTAATAACTATAAAA
** * *
90191877 TAAAATTAAACT-ATAAACTTTAAAACACAA
1 TAAAAAAAAATTAAT-AAC--T-ATA-A-AA
90191907 TAAAAAAAAATTAATAACTATAAAA
1 TAAAAAAAAATTAATAACTATAAAA
90191932 TAAAA
1 TAAAA
90191937 TTACAATCTA
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
24 2 0.04
25 19 0.42
26 1 0.02
27 3 0.07
28 3 0.07
29 1 0.02
30 14 0.31
31 2 0.04
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (25 bp):
TAAAAAAAAATTAATAACTATAAAA
Found at i:90192761 original size:31 final size:31
Alignment explanation
Indices: 90192705--90192767 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
90192695 ATATACTAAA
90192705 TTTTTTAATTTTTATAAACTATTAAA-TATT
1 TTTTTTAATTTTTATAAACTATTAAATTATT
* *
90192735 TTTTTTAAATTTTT-TATAATTTTTAAATTATT
1 TTTTTT-AATTTTTATA-AACTATTAAATTATT
90192767 T
1 T
90192768 ATTGACGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 8 0.29
31 15 0.54
32 5 0.18
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTTTTAATTTTTATAAACTATTAAATTATT
Found at i:90203766 original size:23 final size:22
Alignment explanation
Indices: 90203723--90203769 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
90203713 AATGCTCTAA
*
90203723 TTTTCCTTTTTATTTCTTTTTC
1 TTTTCCTTTTTATTTCATTTTC
90203745 TTTTCTCTTTTT-TCTTCATTTTC
1 TTTTC-CTTTTTAT-TTCATTTTC
90203768 TT
1 TT
90203770 ATTTTTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTCCTTTTTATTTCATTTTC
Found at i:90203775 original size:20 final size:21
Alignment explanation
Indices: 90203752--90203790 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
90203742 TTCTTTTCTC
90203752 TTTTTTC-TTCAT-TTTCTTA
1 TTTTTTCATTCATCTTTCTTA
90203771 TTTTTTCATTCATCTTTCTT
1 TTTTTTCATTCATCTTTCTT
90203791 TCTATTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTTTCATTCATCTTTCTTA
Found at i:90203778 original size:16 final size:17
Alignment explanation
Indices: 90203739--90203780 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
90203729 TTTTTATTTC
*
90203739 TTTTTC-TTTTCTCTTT
1 TTTTTCATTTTCTCTAT
90203755 TTTCTTCATTTTCT-TAT
1 TTT-TTCATTTTCTCTAT
90203772 TTTTTCATT
1 TTTTTCATT
90203781 CATCTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTCATTTTCTCTAT
Found at i:90203788 original size:21 final size:19
Alignment explanation
Indices: 90203732--90203790 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
90203722 ATTTTCCTTT
90203732 TTATTTCTTT-TTC-TTTTC
1 TTATTT-TTTCTTCATTTTC
*
90203750 -TCTTTTTTCTTCATTTTC
1 TTATTTTTTCTTCATTTTC
90203768 TTATTTTTTCATTCATCTTTC
1 TTATTTTTTC-TTCAT-TTTC
90203789 TT
1 TT
90203791 TCTATTCTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 3 0.09
17 7 0.21
18 5 0.15
19 8 0.24
20 5 0.15
21 6 0.18
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTTTTTCTTCATTTTC
Found at i:90205398 original size:12 final size:12
Alignment explanation
Indices: 90205383--90205463 Score: 53
Period size: 11 Copynumber: 6.8 Consensus size: 12
90205373 AATATAATAG
* *
90205383 ATAATATATGAT
1 ATAACATATAAT
90205395 ATAACATATAAT
1 ATAACATATAAT
* *
90205407 ATAAAAAAATAAT
1 AT-AACATATAAT
*
90205420 AGGTAATATATAAT
1 A--TAACATATAAT
*
90205434 A-AAAATATAAT
1 ATAACATATAAT
90205445 A-AA-ATATAAT
1 ATAACATATAAT
90205455 ATAA-ATATA
1 ATAACATATA
90205464 TGTGATAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
10 8 0.14
11 19 0.33
12 12 0.21
13 9 0.16
14 9 0.16
15 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (12 bp):
ATAACATATAAT
Found at i:90205428 original size:39 final size:39
Alignment explanation
Indices: 90205367--90205455 Score: 110
Period size: 39 Copynumber: 2.3 Consensus size: 39
90205357 AATATAAAAC
* * *
90205367 ATAAATAATATAATAGATAATATATGATATAACATATAAT
1 ATAAATAAAATAATAGATAATATATAATA-AAAATATAAT
*
90205407 ATAAA-AAAATAATAGGTAATATATAATAAAAATATAAT
1 ATAAATAAAATAATAGATAATATATAATAAAAATATAAT
*
90205445 A-AAATATAATA
1 ATAAATAAAATA
90205456 TAAATATATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
37 3 0.07
38 15 0.35
39 20 0.47
40 5 0.12
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (39 bp):
ATAAATAAAATAATAGATAATATATAATAAAAATATAAT
Found at i:90205433 original size:7 final size:7
Alignment explanation
Indices: 90205355--90205464 Score: 61
Period size: 7 Copynumber: 16.3 Consensus size: 7
90205345 AATATAATGG
90205355 ATAATAT
1 ATAATAT
* *
90205362 AAAACAT
1 ATAATAT
90205369 A-AATAAT
1 ATAAT-AT
*
90205376 ATAATAG
1 ATAATAT
90205383 ATAATAT
1 ATAATAT
*
90205390 AT--GAT
1 ATAATAT
*
90205395 ATAACAT
1 ATAATAT
90205402 ATAATAT
1 ATAATAT
* *
90205409 A-AAAAA
1 ATAATAT
*
90205415 ATAATAG
1 ATAATAT
*
90205422 GTAATAT
1 ATAATAT
90205429 ATAATA-
1 ATAATAT
*
90205435 AAAATAT
1 ATAATAT
*
90205442 AATAAAAT
1 -ATAATAT
90205450 ATAATAT
1 ATAATAT
90205457 A-AATAT
1 ATAATAT
90205463 AT
1 AT
90205465 GTGATAAATT
Statistics
Matches: 76, Mismatches: 19, Indels: 16
0.68 0.17 0.14
Matches are distributed among these distances:
5 4 0.05
6 17 0.22
7 47 0.62
8 8 0.11
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (7 bp):
ATAATAT
Found at i:90205443 original size:11 final size:11
Alignment explanation
Indices: 90205427--90205463 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
90205417 AATAGGTAAT
90205427 ATATAATAAAA
1 ATATAATAAAA
90205438 ATATAAT-AAA
1 ATATAATAAAA
*
90205448 ATATAATATAA
1 ATATAATAAAA
90205459 ATATA
1 ATATA
90205464 TGTGATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATATAATAAAA
Found at i:90205453 original size:21 final size:22
Alignment explanation
Indices: 90205404--90205463 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
90205394 TATAACATAT
*
90205404 AATATAA-AAAAATAATAGGTAA
1 AATATAATAAAAAT-ATAGATAA
*
90205426 TATATAATAAAAATATA-ATAA
1 AATATAATAAAAATATAGATAA
*
90205447 AATATAATATAAATATA
1 AATATAATAAAAATATA
90205464 TGTGATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 18 0.55
22 9 0.27
23 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (22 bp):
AATATAATAAAAATATAGATAA
Found at i:90205509 original size:25 final size:26
Alignment explanation
Indices: 90205472--90205532 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
90205462 TATGTGATAA
*
90205472 ATTTTTTATATAA-ATATATAAATAGT
1 ATTTTTTA-ATAAGACATATAAATAGT
*
90205498 ATTTTTTAATAATGACATATATATAGT
1 ATTTTTTAATAA-GACATATAAATAGT
90205525 -TTTTTTAA
1 ATTTTTTAA
90205533 AATAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 4 0.13
26 16 0.52
27 11 0.35
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (26 bp):
ATTTTTTAATAAGACATATAAATAGT
Found at i:90205547 original size:25 final size:27
Alignment explanation
Indices: 90205493--90205543 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
90205483 AAATATATAA
* *
90205493 ATAGTATTTTTTAATAATGACATATAT
1 ATAGTATTTTTTAATAATGAAATAAAT
90205520 ATAGT-TTTTTTAA-AAT-AAATAAAT
1 ATAGTATTTTTTAATAATGAAATAAAT
90205544 TATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 8 0.36
27 5 0.23
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (27 bp):
ATAGTATTTTTTAATAATGAAATAAAT
Found at i:90209130 original size:20 final size:20
Alignment explanation
Indices: 90209066--90209131 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
90209056 GAGGTGTTAT
* * *
90209066 ACAGGGCACGAAAATGCAT-
1 ACAGGGCACCAGAGTGCATA
*
90209085 ACAGGAGCACC-GAAGTGCTTA
1 ACAGG-GCACCAG-AGTGCATA
*
90209106 TCAGGGCACCAGAGTGCATA
1 ACAGGGCACCAGAGTGCATA
90209126 ACAGGG
1 ACAGGG
90209132 TACATATGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.35, C:0.23, G:0.30, T:0.12
Consensus pattern (20 bp):
ACAGGGCACCAGAGTGCATA
Found at i:90218154 original size:45 final size:45
Alignment explanation
Indices: 90218105--90218217 Score: 122
Period size: 45 Copynumber: 2.5 Consensus size: 45
90218095 GTCATAGTGC
* *
90218105 CTTTCAGCTATGGTCTTACTCAT-TTCTATCATGATGCCATAACAT
1 CTTTCAACTATGGTCTTACTCATCTT-AATCATGATGCCATAACAT
* * ***
90218150 CTTTCAACTATGGTTTTACTTATCTTAATCATGATGCCATAGTGT
1 CTTTCAACTATGGTCTTACTCATCTTAATCATGATGCCATAACAT
*
90218195 CTTTTAACTA-GGTTCTTACTCAT
1 CTTTCAACTATGG-TCTTACTCAT
90218218 TTTAGGCGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 2 0.04
45 52 0.93
46 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (45 bp):
CTTTCAACTATGGTCTTACTCATCTTAATCATGATGCCATAACAT
Found at i:90219198 original size:15 final size:15
Alignment explanation
Indices: 90219178--90219227 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
90219168 TACAATGATC
*
90219178 CCTAATGTAATTTAT
1 CCTAATGCAATTTAT
*
90219193 CCTAATGCAA-TGAT
1 CCTAATGCAATTTAT
90219207 CCCTAATGCAATTTAT
1 -CCTAATGCAATTTAT
90219223 CCTAA
1 CCTAA
90219228 GTATGCAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 3 0.10
15 24 0.80
16 3 0.10
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (15 bp):
CCTAATGCAATTTAT
Found at i:90219206 original size:30 final size:30
Alignment explanation
Indices: 90219170--90219227 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
90219160 AAACTAAATA
*
90219170 CAATGATCCCTAATGTAATTTATCCTAATG
1 CAATGATCCCTAATGCAATTTATCCTAATG
90219200 CAATGATCCCTAATGCAATTTATCCTAA
1 CAATGATCCCTAATGCAATTTATCCTAA
90219228 GTATGCAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (30 bp):
CAATGATCCCTAATGCAATTTATCCTAATG
Found at i:90232345 original size:34 final size:34
Alignment explanation
Indices: 90232293--90232388 Score: 115
Period size: 34 Copynumber: 2.8 Consensus size: 34
90232283 CTTTGTTTGC
*
90232293 ATACTG-TATTGAAATGGGCTAAGGCCCAGACTG
1 ATACTGTTACTGAAATGGGCTAAGGCCCAGACTG
* * *
90232326 CCT-CTGTTACTGAAATGGGCTTAGGCCCATACTG
1 -ATACTGTTACTGAAATGGGCTAAGGCCCAGACTG
*
90232360 ATACTGTTACTGAAAAGGGGCTAAGGCCC
1 ATACTGTTACTG-AAATGGGCTAAGGCCC
90232389 TAACCCGAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
33 4 0.08
34 34 0.65
35 14 0.27
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (34 bp):
ATACTGTTACTGAAATGGGCTAAGGCCCAGACTG
Found at i:90248750 original size:34 final size:34
Alignment explanation
Indices: 90248707--90248782 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
90248697 TTGCATACTA
* *
90248707 TACTGAAATGGGCTAAGGCCCAGATTGCCTCTAT
1 TACTGAAATGGGCTAAGGCCCAGACTGACTCTAT
* * *
90248741 TACTGAAATGGGCTCAGGCCCAGACTGATTCTGT
1 TACTGAAATGGGCTAAGGCCCAGACTGACTCTAT
90248775 TACTGAAA
1 TACTGAAA
90248783 AAGTGGTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAGACTGACTCTAT
Found at i:90260338 original size:46 final size:45
Alignment explanation
Indices: 90260237--90260397 Score: 160
Period size: 46 Copynumber: 3.5 Consensus size: 45
90260227 TGATATGTGT
* ** **
90260237 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCCCATTATAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATAA-A
* * **
90260283 GCCAATGTAAGACATGTCTGGGACATGCATCGGTATTAAGATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGAT-AAA
* * *
90260329 GCTAGTGTAAAACATGTCTGGGACATGTATCGGCCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTT-A-AGATA-AA
*
90260377 GCTAGTGTAAGACCTGTCTGG
1 GCTAGTGTAAGACATGTCTGG
90260398 TACAGGGCGT
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
46 65 0.70
47 4 0.04
48 24 0.26
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTAAGATAAA
Found at i:90260497 original size:49 final size:49
Alignment explanation
Indices: 90260424--90260553 Score: 131
Period size: 49 Copynumber: 2.7 Consensus size: 49
90260414 GTTGTGTGTT
* * * *
90260424 AGTGTCAA-ACCTGTCTAGGACATGGCATCGACAC-CGATAGATGAGAG-C
1 AGTGT-AAGACCTATCTGGGACATGGCATCGAC-CTCAATAGATGAAAGTC
* * * *
90260472 TAGTGTAAGACTTATCTGGGACATGGTATCGGCCTCAATATATGAAAGTC
1 -AGTGTAAGACCTATCTGGGACATGGCATCGACCTCAATAGATGAAAGTC
*
90260522 AGTGTAAGACCTGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCTATCTGGGACATGGCATCGAC
90260554 TTTGACGTGC
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
48 3 0.05
49 62 0.94
50 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTATCTGGGACATGGCATCGACCTCAATAGATGAAAGTC
Found at i:90274456 original size:46 final size:45
Alignment explanation
Indices: 90274297--90274459 Score: 206
Period size: 46 Copynumber: 3.6 Consensus size: 45
90274287 TGATATGTGT
*
90274297 GCTAGTGTAAGACATGTCTGGAACATGCATCAGCCACATTATA-A-G-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG---CATTA-AGACGAA
* * * *
90274343 GCCAGTGTAAGACATGTCTGAGACATGCATCATCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGACGA-A
90274389 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGACGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGACG-AA
90274435 GCTAGTGTAAGACATGTCTGGGACA
1 GCTAGTGTAAGACATGTCTGGGACA
90274460 GGGCGTCAGC
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 1 0.01
46 95 0.92
47 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCATTAAGACGAA
Found at i:90274558 original size:49 final size:49
Alignment explanation
Indices: 90274499--90274609 Score: 127
Period size: 49 Copynumber: 2.3 Consensus size: 49
90274489 GACTTGTCTG
* *
90274499 GGACATGGCATCGACAC-CGATAGATGAGA-TCTAGTGTAAAACCTATCTA
1 GGACATGGCATCGAC-CTCGATAGATGAAAGTC-AGTGTAAAACCTACCTA
* * * * *
90274548 GGACACGGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACCTACCTG
1 GGACATGGCATCGACCTCGATAGATGAAAGTCAGTGTAAAACCTACCTA
90274597 GGACATGGCATCG
1 GGACATGGCATCG
90274610 TCTTTAACAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
48 1 0.02
49 49 0.94
50 2 0.04
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (49 bp):
GGACATGGCATCGACCTCGATAGATGAAAGTCAGTGTAAAACCTACCTA
Found at i:90277260 original size:25 final size:25
Alignment explanation
Indices: 90277226--90277276 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
90277216 TTCTAGCTAC
90277226 CCATCTAGAGCTTTCCCTTTTAACA
1 CCATCTAGAGCTTTCCCTTTTAACA
*
90277251 CCATTTAGAGCTTTCCCTTTTAACA
1 CCATCTAGAGCTTTCCCTTTTAACA
90277276 C
1 C
90277277 ACTCTTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.08, T:0.37
Consensus pattern (25 bp):
CCATCTAGAGCTTTCCCTTTTAACA
Found at i:90279159 original size:20 final size:19
Alignment explanation
Indices: 90279111--90279162 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
90279101 CAAGTTTATG
*
90279111 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
90279129 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
90279148 GTATATAATAATATA
1 GTA-AAAATAATATA
90279163 TGCAATACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:90279195 original size:5 final size:5
Alignment explanation
Indices: 90279185--90279223 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
90279175 TATTTAAGTA
90279185 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
90279224 CTATTATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:90287538 original size:79 final size:81
Alignment explanation
Indices: 90287395--90287577 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
90287385 TACTCGTTCA
* *
90287395 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
* *
90287459 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
*
90287475 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTT-AGTCCG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACT-CG
* *
90287536 GATATGGTCACTTAGCAC
64 GATATAGTAACTTAGCAC
*
90287554 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
90287578 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
78 5 0.06
79 57 0.63
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGGA
TATAGTAACTTAGCAC
Found at i:90287577 original size:40 final size:40
Alignment explanation
Indices: 90287374--90287577 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
90287364 CGGAATTTAA
** *
90287374 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90287414 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
90287454 TCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
90287493 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
90287533 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
90287573 CCGGA
1 CCGGA
90287578 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:90292861 original size:30 final size:30
Alignment explanation
Indices: 90292825--90292889 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
90292815 CTCCAGGCCC
* *
90292825 TGTCCTTCATACGACTGAGACACACGGTCG
1 TGTCCTTCACACGACTAAGACACACGGTCG
*
90292855 TGTCCTTCACACGGCTAAGACACACGGTCG
1 TGTCCTTCACACGACTAAGACACACGGTCG
90292885 TGTCC
1 TGTCC
90292890 CTACCCATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.23
Consensus pattern (30 bp):
TGTCCTTCACACGACTAAGACACACGGTCG
Found at i:90294659 original size:43 final size:43
Alignment explanation
Indices: 90294612--90294698 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
90294602 CACATGGTAC
90294612 AACATCACATTAATTATATATACTTACCATACATGCAATATCA
1 AACATCACATTAATTATATATACTTACCATACATGCAATATCA
90294655 AACATCACATTAATTATATATACTTACCATACATGCAATATCA
1 AACATCACATTAATTATATATACTTACCATACATGCAATATCA
90294698 A
1 A
90294699 GCATTTAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (43 bp):
AACATCACATTAATTATATATACTTACCATACATGCAATATCA
Found at i:90297000 original size:20 final size:19
Alignment explanation
Indices: 90296952--90297003 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
90296942 CAAGTGCGTG
*
90296952 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
90296970 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
90296989 GTATATAATAATATA
1 GTA-AAAATAATATA
90297004 TGTAATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.35
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:90297151 original size:20 final size:20
Alignment explanation
Indices: 90297128--90297170 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
90297118 AAGTAAAATG
90297128 AAAGAAAAAGAAAGAAGGA-A
1 AAAGAAAAAGAAA-AAGGAGA
*
90297148 AAAGAGAAAGAAAAAGGAGA
1 AAAGAAAAAGAAAAAGGAGA
90297168 AAA
1 AAA
90297171 AGCTAGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAGAAAAAGGAGA
Found at i:90297154 original size:36 final size:36
Alignment explanation
Indices: 90297087--90297155 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
90297077 ATAATAAATG
* * *
90297087 AAATGAAATAAAAAAAGGAATAGAAATAGAGAAGTA
1 AAATGAAAGAAAAAAAAGAATAGAAAAAGAGAAGTA
*
90297123 AAATGAAAGAAAAAGAAAGAA-GGAAAAAGAGAA
1 AAATGAAAGAAAAA-AAAGAATAGAAAAAGAGAA
90297156 AGAAAAAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 23 0.82
37 5 0.18
ACGTcount: A:0.70, C:0.00, G:0.22, T:0.09
Consensus pattern (36 bp):
AAATGAAAGAAAAAAAAGAATAGAAAAAGAGAAGTA
Found at i:90297155 original size:22 final size:21
Alignment explanation
Indices: 90297130--90297172 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
90297120 GTAAAATGAA
90297130 AGAAA-AAGAAAGAAGGAAAAAG
1 AGAAAGAA-AAAGAA-GAAAAAG
*
90297152 AGAAAGAAAAAGGAGAAAAAG
1 AGAAAGAAAAAGAAGAAAAAG
90297173 CTAGGGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 10 0.53
23 2 0.11
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AGAAAGAAAAAGAAGAAAAAG
Found at i:90297162 original size:13 final size:12
Alignment explanation
Indices: 90297098--90297169 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 12
90297088 AATGAAATAA
90297098 AAAAAG-GAATAG
1 AAAAAGAGAA-AG
*
90297110 AAATAGAG-AAG
1 AAAAAGAGAAAG
* *
90297121 TAAAA-TGAAAG
1 AAAAAGAGAAAG
*
90297132 AAAAAGAAAGAAGG
1 AAAAAG--AGAAAG
90297146 AAAAAGAGAAAG
1 AAAAAGAGAAAG
90297158 AAAAAGGAGAAA
1 AAAAA-GAGAAA
90297170 AAGCTAGGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
10 1 0.02
11 12 0.26
12 16 0.35
13 7 0.15
14 10 0.22
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.06
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:90298154 original size:40 final size:40
Alignment explanation
Indices: 90298035--90298167 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 40
90298025 CTTCGAGTCG
* ***
90298035 ATGAGACACTAGGTGTCAATTTATTACTTCGGATTAATTTG
1 ATGAGACACTGGGTGTCAATTTATTACTTCGGATT-ATCCA
* * * * * *
90298076 ATGAGGCACCGGGTGCCAA--T-TTACTTTGGTTTAGCCA
1 ATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCCA
*
90298113 ATGAGACACTGGGTGTCAATTTATTACTTCGAATTATCCA
1 ATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCCA
*
90298153 ATGAGGCACTGGGTG
1 ATGAGACACTGGGTG
90298168 CCAAACTGGT
Statistics
Matches: 71, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 17 0.24
38 10 0.14
39 2 0.03
40 27 0.38
41 15 0.21
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAATTTATTACTTCGGATTATCCA
Found at i:90299374 original size:6 final size:6
Alignment explanation
Indices: 90299338--90299412 Score: 62
Period size: 6 Copynumber: 12.0 Consensus size: 6
90299328 CTAATTAATG
* * * *
90299338 TTCTTT CTTCTTT TTATTT TTATATT ATTCTTT TTCTTAT TTCTTA TTCATT
1 TTCTTT -TTCTTT TTCTTT TTCT-TT -TTCTTT TTCTT-T TTCTTT TTCTTT
*
90299390 TTCTTT GT-TTT TTCTTT TTCTTT
1 TTCTTT TTCTTT TTCTTT TTCTTT
90299413 ACTTTCGATT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
5 4 0.07
6 33 0.59
7 16 0.29
8 3 0.05
ACGTcount: A:0.09, C:0.13, G:0.01, T:0.76
Consensus pattern (6 bp):
TTCTTT
Found at i:90299384 original size:19 final size:18
Alignment explanation
Indices: 90299362--90299412 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
90299352 TATTTTTATA
90299362 TTATTCTTTTTCTTAT-TT
1 TTATTCTTTTTCTT-TGTT
*
90299380 CTTATTCATTTTCTTTGTT
1 -TTATTCTTTTTCTTTGTT
90299399 TT-TTCTTTTTCTTT
1 TTATTCTTTTTCTTT
90299413 ACTTTCGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 11 0.38
18 3 0.10
19 15 0.52
ACGTcount: A:0.08, C:0.14, G:0.02, T:0.76
Consensus pattern (18 bp):
TTATTCTTTTTCTTTGTT
Found at i:90301408 original size:24 final size:23
Alignment explanation
Indices: 90301376--90301438 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
90301366 AACCGAATTT
* * * *
90301376 GCACTCATAGTGCTTATTACACTC
1 GCACACATAGTGCATAGTAAAC-C
90301400 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTG-CATAGTAAACC
90301424 GCACACATAGTGCAT
1 GCACACATAGTGCAT
90301439 TGGATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 3 0.09
24 24 0.71
25 7 0.21
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (23 bp):
GCACACATAGTGCATAGTAAACC
Found at i:90306756 original size:55 final size:55
Alignment explanation
Indices: 90306686--90306796 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
90306676 GCCATACTAT
90306686 TTTTAGGTTAATTCCCACCTTTATAAATTCCTAGAGTCGTCAAGCCTAGGGTTTA
1 TTTTAGGTTAATTCCCACCTTTATAAATTCCTAGAGTCGTCAAGCCTAGGGTTTA
*
90306741 TTTTAGGTTAATTCCCACCTTTATAACTTCCTAGAGTCGTCAAGCCTAGGGTTTA
1 TTTTAGGTTAATTCCCACCTTTATAAATTCCTAGAGTCGTCAAGCCTAGGGTTTA
90306796 T
1 T
90306797 GTTCTCTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (55 bp):
TTTTAGGTTAATTCCCACCTTTATAAATTCCTAGAGTCGTCAAGCCTAGGGTTTA
Found at i:90307760 original size:13 final size:13
Alignment explanation
Indices: 90307742--90307766 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90307732 AAATAAGTTC
90307742 AAAAATATTTATT
1 AAAAATATTTATT
90307755 AAAAATATTTAT
1 AAAAATATTTAT
90307767 GAGTCTAGTG
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAAATATTTATT
Found at i:90308016 original size:3 final size:3
Alignment explanation
Indices: 90307978--90308057 Score: 62
Period size: 3 Copynumber: 27.7 Consensus size: 3
90307968 AAATTATATA
* * *
90307978 TAT TA- TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT TAAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT TAT
**
90308022 TAT GGT T-T TA- TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
90308058 AATAAATTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
2 10 0.16
3 45 0.74
4 6 0.10
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:90308342 original size:33 final size:33
Alignment explanation
Indices: 90308305--90308374 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
90308295 TATTTATACA
*
90308305 ATTATAATATT-TTATTTAAATT-AGTAGATATTT
1 ATTAT-ATATTATTATTAAAATTAAG-AGATATTT
*
90308338 ATTATTTATTATTATTAAAATTAAGAGATATTT
1 ATTATATATTATTATTAAAATTAAGAGATATTT
90308371 ATTA
1 ATTA
90308375 ATTAACTAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 4 0.12
33 27 0.82
34 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (33 bp):
ATTATATATTATTATTAAAATTAAGAGATATTT
Found at i:90308396 original size:33 final size:33
Alignment explanation
Indices: 90308316--90308396 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
90308306 TTATAATATT
* * *
90308316 TTATTTAAATT-AGTAGATATTTATTATTTATTA
1 TTATTAAAATTAAG-AGATATTTATTATTAACTA
90308349 TTATTAAAATTAAGAGATATTTATTAATTAACTA
1 TTATTAAAATTAAGAGATATTTATT-ATTAACTA
90308383 GTTA-TAAAA-TAAGA
1 -TTATTAAAATTAAGA
90308397 CTTTTATGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.62
34 13 0.31
35 3 0.07
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.47
Consensus pattern (33 bp):
TTATTAAAATTAAGAGATATTTATTATTAACTA
Found at i:90308633 original size:12 final size:12
Alignment explanation
Indices: 90308618--90308661 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
90308608 AAAACAAGGG
90308618 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
90308630 AGAAAAAGGGAA
1 AGAAAAAGAGAA
* *
90308642 AGAAATAGAAAA
1 AGAAAAAGAGAA
90308654 AGGAAAAA
1 A-GAAAAA
90308662 CTAGAGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:90309664 original size:12 final size:12
Alignment explanation
Indices: 90309647--90309671 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90309637 GCCGACTACT
90309647 GTTACTGTTACC
1 GTTACTGTTACC
90309659 GTTACTGTTACC
1 GTTACTGTTACC
90309671 G
1 G
90309672 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:90309702 original size:45 final size:45
Alignment explanation
Indices: 90309649--90309755 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
90309639 CGACTACTGT
* *
90309649 TACTGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
* *
90309694 TATTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
**
90309739 TACTGTTATTGTTACTG
1 TACTGTTACCGTTACTG
90309756 CTACTACTAC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
Found at i:90312163 original size:20 final size:20
Alignment explanation
Indices: 90312138--90312177 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
90312128 GAGCCTATTT
90312138 ATACTTTGATTGATCCTGGA
1 ATACTTTGATTGATCCTGGA
90312158 ATACTTTGATTGATCCTGGA
1 ATACTTTGATTGATCCTGGA
90312178 TCTTCACACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
ATACTTTGATTGATCCTGGA
Found at i:90316202 original size:38 final size:37
Alignment explanation
Indices: 90316109--90316202 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 37
90316099 TGTAATGATA
* *
90316109 ATATTTATACAATTATAATATT-TTATTTAAATTAGTAG
1 ATATTTAT-TAATTA-AATATTATTATTAAAATTAGTAG
90316147 ATATTTATT-ATT---TATTATTATTAAAATTAAG-AG
1 ATATTTATTAATTAAATATTATTATTAAAATT-AGTAG
90316180 ATATTTATTAATTAAATAATTAT
1 ATATTTATTAATTAAAT-ATTAT
90316203 AAAATAAGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
32 4 0.09
33 21 0.45
34 5 0.11
36 3 0.06
37 1 0.02
38 13 0.28
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTTATTAATTAAATATTATTATTAAAATTAGTAG
Found at i:90316211 original size:33 final size:33
Alignment explanation
Indices: 90316131--90316211 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
90316121 TTATAATATT
* * *
90316131 TTATTTAAATT-AGTAGATATTTATTATTTATTA
1 TTATTAAAATTAAG-AGATATTTATTATTAATAA
90316164 TTATTAAAATTAAGAGATATTTATTAATTAAATAA
1 TTATTAAAATTAAGAGATATTTATT-ATT-AATAA
90316199 TTA-TAAAA-TAAGA
1 TTATTAAAATTAAGA
90316212 TTTTTATGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.62
34 10 0.24
35 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (33 bp):
TTATTAAAATTAAGAGATATTTATTATTAATAA
Found at i:90316378 original size:22 final size:20
Alignment explanation
Indices: 90316343--90316392 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
90316333 AATATAATAT
90316343 AAATAAAATAAAATAAAAAG
1 AAATAAAATAAAATAAAAAG
*
90316363 AAATAAAGCATAAAATAAATAG
1 AAATAAA--ATAAAATAAAAAG
*
90316385 AAACAAAA
1 AAATAAAA
90316393 CAAACAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 8 0.31
22 18 0.69
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (20 bp):
AAATAAAATAAAATAAAAAG
Found at i:90316446 original size:12 final size:12
Alignment explanation
Indices: 90316431--90316474 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
90316421 AAAACAGGGG
90316431 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
90316443 AGAAAAAGGGAA
1 AGAAAAAGAGAA
* *
90316455 AGAAATAGAAAA
1 AGAAAAAGAGAA
90316467 ATGAAAAA
1 A-GAAAAA
90316475 CTAGAGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.05
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:90317217 original size:40 final size:40
Alignment explanation
Indices: 90317171--90317249 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
90317161 TTATGGGATG
* ** *
90317171 CTGAATATTGTTTTGAATATCGAATTGAACTGTGAAATTA
1 CTGAATAATGTTACGAATATCGAATTGAACTGTAAAATTA
* * *
90317211 CTGAATAATGTTACGTATATTGCATTGAACTGTAAAATT
1 CTGAATAATGTTACGAATATCGAATTGAACTGTAAAATT
90317250 TCTAATGAAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.39
Consensus pattern (40 bp):
CTGAATAATGTTACGAATATCGAATTGAACTGTAAAATTA
Found at i:90317476 original size:12 final size:12
Alignment explanation
Indices: 90317459--90317483 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
90317449 GCCGACTACT
90317459 GTTACTGTTACC
1 GTTACTGTTACC
90317471 GTTACTGTTACC
1 GTTACTGTTACC
90317483 G
1 G
90317484 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:90317514 original size:45 final size:45
Alignment explanation
Indices: 90317462--90317567 Score: 151
Period size: 45 Copynumber: 2.4 Consensus size: 45
90317452 GACTACTGTT
* * *
90317462 ACTGTTACCGTTACTGTTACCGATTC-GACACTTTGTGTGTTGAAT
1 ACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTATGTTGAAA
*
90317507 ATTGTTACCGTTACTGTTACAGATTCAGCACTTTGTATGTTGAAA
1 ACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTATGTTGAAA
*
90317552 ACTGTTACTGTTACTG
1 ACTGTTACCGTTACTG
90317568 CTACTGCTAC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 53 0.98
46 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.41
Consensus pattern (45 bp):
ACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTATGTTGAAA
Found at i:90319445 original size:3 final size:3
Alignment explanation
Indices: 90319437--90319493 Score: 105
Period size: 3 Copynumber: 18.7 Consensus size: 3
90319427 GTGGCTGTTA
90319437 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
90319485 TATT TAT TA
1 TA-T TAT TA
90319494 CAATAATAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:90322241 original size:9 final size:9
Alignment explanation
Indices: 90322212--90322269 Score: 50
Period size: 8 Copynumber: 6.7 Consensus size: 9
90322202 AATCATTTTT
90322212 AAAATTA-A
1 AAAATTATA
*
90322220 AATATTAATA
1 AAAATT-ATA
90322230 AAAATTATA
1 AAAATTATA
90322239 AAAA-TATA
1 AAAATTATA
* *
90322247 AGAATT-TT
1 AAAATTATA
*
90322255 AAAATTTTA
1 AAAATTATA
90322264 AAAATT
1 AAAATT
90322270 TCTAAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
8 18 0.45
9 16 0.40
10 6 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (9 bp):
AAAATTATA
Found at i:90322270 original size:17 final size:17
Alignment explanation
Indices: 90322227--90322277 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
90322217 TAAAATATTA
* *
90322227 ATAAAAATTATAAAAAT
1 ATAAAAATTTTAAAATT
*
90322244 ATAAGAATTTTAAAATT
1 ATAAAAATTTTAAAATT
*
90322261 TTAAAAATTTCTAAAAT
1 ATAAAAATTT-TAAAAT
90322278 AAAAATTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 22 0.79
18 6 0.21
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (17 bp):
ATAAAAATTTTAAAATT
Found at i:90326652 original size:204 final size:201
Alignment explanation
Indices: 90326260--90326667 Score: 507
Period size: 204 Copynumber: 2.0 Consensus size: 201
90326250 CATATGTTTT
* *
90326260 TTTTATTTTTTTAATTTGGTTATGCCAACTTTAACTGTTTTGTCACTCATCTGTTCTTCTCATTC
1 TTTTATTTTTTTAATTTGGTTATGCCAACTGTAACTGTTTTGTCACTCATCTGTTCTTCTCATGC
** * * * * * ** *
90326325 TGATTGGGATACAAAATTGTAATTTCTTTTCCGTAGTCTCCCTCCTTTTTCTTCCTCATGCTATC
66 TGAAAGGGATACAAAAATGAAATTTCTTTTCCCTAGTCTCCCTCCTTTCTCTTCCACACACTAAC
* * * *
90326390 AGTCAAGAACTAGAATTTCTAACTGAATTGGGGAGAACATAACCTGTTTTAACTTCCATTGCTGA
131 AGTCAAGAACTAGAATTTCTAACTGAATTAGGGAGAACACAACCTGTGTTAACTTCCATTGCTAA
90326455 TATTGA
196 TATTGA
* * * *
90326461 TTTTCTTTTTTT-ATTTGGTTATGCCATCTGTAACTGTTTTGTCATTCTTCTGTTCTTCCTCATG
1 TTTTATTTTTTTAATTTGGTTATGCCAACTGTAACTGTTTTGTCACTCATCTGTTCTT-CTCATG
*
90326525 CTGAAAGGGATACAAAAATGAAATTTCTTTTCCACT-GTCTCCTTCCTTTCTCTTCTTCACACAC
65 CTGAAAGGGATACAAAAATGAAATTTCTTTTCC-CTAGTCTCCCTCCTTTCTCTTC--CACACAC
* * * *
90326589 TCAACAGTCAAGAACTAGAGTTTTTAACTG-ATATAGGGAGAACACAACTTGTGTTAGCTTCCAT
127 T-AACAGTCAAGAACTAGAATTTCTAACTGAAT-TAGGGAGAACACAACCTGTGTTAACTTCCAT
*
90326653 TGCTAATATTTA
190 TGCTAATATTGA
90326665 TTT
1 TTT
90326668 ATTAACATAC
Statistics
Matches: 175, Mismatches: 26, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
200 41 0.23
201 62 0.35
202 1 0.01
203 7 0.04
204 64 0.37
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (201 bp):
TTTTATTTTTTTAATTTGGTTATGCCAACTGTAACTGTTTTGTCACTCATCTGTTCTTCTCATGC
TGAAAGGGATACAAAAATGAAATTTCTTTTCCCTAGTCTCCCTCCTTTCTCTTCCACACACTAAC
AGTCAAGAACTAGAATTTCTAACTGAATTAGGGAGAACACAACCTGTGTTAACTTCCATTGCTAA
TATTGA
Found at i:90330408 original size:16 final size:18
Alignment explanation
Indices: 90330382--90330414 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
90330372 TTACATTAGA
90330382 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
90330399 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
90330415 CTCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:90340576 original size:18 final size:18
Alignment explanation
Indices: 90340553--90340603 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 18
90340543 GAGGAATGGA
90340553 TAGAATTCAACACTATTC
1 TAGAATTCAACACTATTC
90340571 TAGAATTCAACAACACTATTC
1 TAGAATT---CAACACTATTC
90340592 TAGAATTCAACA
1 TAGAATTCAACA
90340604 AGGTTCTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 12 0.40
21 18 0.60
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.29
Consensus pattern (18 bp):
TAGAATTCAACACTATTC
Found at i:90340586 original size:21 final size:21
Alignment explanation
Indices: 90340560--90340604 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
90340550 GGATAGAATT
90340560 CAACACTATTCTAGAATTCAA
1 CAACACTATTCTAGAATTCAA
90340581 CAACACTATTCTAGAATTCAA
1 CAACACTATTCTAGAATTCAA
90340602 CAA
1 CAA
90340605 GGTTCTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.24, G:0.04, T:0.27
Consensus pattern (21 bp):
CAACACTATTCTAGAATTCAA
Found at i:90348085 original size:18 final size:19
Alignment explanation
Indices: 90348064--90348106 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
90348054 CCAAAAGCAA
* *
90348064 CGAGCTTTATTAAAAG-TG
1 CGAGCTTCATAAAAAGATG
90348082 CGAGC-TCATAAAAAGATG
1 CGAGCTTCATAAAAAGATG
90348100 CGAGCTT
1 CGAGCTT
90348107 AACTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 8 0.38
18 12 0.57
19 1 0.05
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (19 bp):
CGAGCTTCATAAAAAGATG
Found at i:90349032 original size:29 final size:29
Alignment explanation
Indices: 90348995--90349050 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
90348985 TCCTGAATTA
90348995 ACTAAAATTGTGATTTCGATAGAAATTCG
1 ACTAAAATTGTGATTTCGATAGAAATTCG
* * *
90349024 ACTACAATTGTGATTTTGGTAGAAATT
1 ACTAAAATTGTGATTTCGATAGAAATT
90349051 GCTTAGGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (29 bp):
ACTAAAATTGTGATTTCGATAGAAATTCG
Found at i:90350180 original size:63 final size:64
Alignment explanation
Indices: 90350057--90350180 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 64
90350047 ACAATTTAGA
* *
90350057 CATTCAAACAAAACTTAGTTTCATCAATTGAAACATAAAAATCTTTGTCATTAGATGAACCGAG
1 CATTCAAACAAAACTTAGTTTCATCAATAGAAACATAAAAATCTTTGTCATCAGATGAACCGAG
* * * * *
90350121 CATTCGAACAAAACTTGGTTTCAT-TATAGAAATATACAAATCTTTGTCATCAGATGAACC
1 CATTCAAACAAAACTTAGTTTCATCAATAGAAACATAAAAATCTTTGTCATCAGATGAACC
90350181 ATACTAAACA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
63 31 0.58
64 22 0.42
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (64 bp):
CATTCAAACAAAACTTAGTTTCATCAATAGAAACATAAAAATCTTTGTCATCAGATGAACCGAG
Found at i:90362587 original size:22 final size:23
Alignment explanation
Indices: 90362553--90362595 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
90362543 AACTGATGCC
*
90362553 AATGTCACGATACC-AAGACATT
1 AATGTCACAATACCGAAGACATT
*
90362575 AATGTCTCAATACCGAAGACA
1 AATGTCACAATACCGAAGACA
90362596 GAAGCCGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.42, C:0.23, G:0.14, T:0.21
Consensus pattern (23 bp):
AATGTCACAATACCGAAGACATT
Found at i:90364935 original size:11 final size:12
Alignment explanation
Indices: 90364898--90364938 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
90364888 GTTTATTCCC
90364898 TGTTTTAAATTT
1 TGTTTTAAATTT
90364910 TGTTTTAAATTT
1 TGTTTTAAATTT
*
90364922 TGTTTT-ATTTT
1 TGTTTTAAATTT
90364933 TGTTTT
1 TGTTTT
90364939 TGCTTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (12 bp):
TGTTTTAAATTT
Found at i:90396246 original size:14 final size:15
Alignment explanation
Indices: 90396227--90396256 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
90396217 ATATTTGACT
90396227 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
90396241 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
90396256 T
1 T
90396257 TTTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:90415831 original size:26 final size:24
Alignment explanation
Indices: 90415789--90415841 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
90415779 CTCCGCTACT
* *
90415789 TTTTTTTATTTTCTTTTACTGTTA
1 TTTTTTTATTTTATTTTAATGTTA
*
90415813 TTTTTTTATTCTTTATTTTAATTTTA
1 TTTTTTTA-T-TTTATTTTAATGTTA
90415839 TTT
1 TTT
90415842 CATCTCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.33
25 1 0.04
26 15 0.62
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (24 bp):
TTTTTTTATTTTATTTTAATGTTA
Found at i:90422747 original size:45 final size:45
Alignment explanation
Indices: 90422719--90422925 Score: 249
Period size: 45 Copynumber: 4.6 Consensus size: 45
90422709 CGATATGATA
* *
90422719 CCATAATGTCTTTCAACTATGATCTTATTCATTTTC-GTCATATTG
1 CCATAATGTCTTTCAACTATGGTCTTATTCATTTTCGGT-ATAGTG
* *
90422764 TCATAAT-TCCTTTCAACTATGGTCTTATTCGATTCT-GGTATAGTG
1 CCATAATGT-CTTTCAACTATGGTCTTATTC-ATTTTCGGTATAGTG
* * *
90422809 CTATAGTGTCTTTCAACTATGGTCTTATTCATTTTTGGTATAGTG
1 CCATAATGTCTTTCAACTATGGTCTTATTCATTTTCGGTATAGTG
** * * *
90422854 CCATTGTGCCTTTCGACTATGGTCTTATTCATTTCCGGTATAGTG
1 CCATAATGTCTTTCAACTATGGTCTTATTCATTTTCGGTATAGTG
*
90422899 CCATAATGTCTTTCATCTATGGTCTTA
1 CCATAATGTCTTTCAACTATGGTCTTA
90422926 CTCGTTTGAT
Statistics
Matches: 138, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
44 5 0.04
45 126 0.91
46 7 0.05
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (45 bp):
CCATAATGTCTTTCAACTATGGTCTTATTCATTTTCGGTATAGTG
Found at i:90422825 original size:90 final size:90
Alignment explanation
Indices: 90422719--90422925 Score: 274
Period size: 90 Copynumber: 2.3 Consensus size: 90
90422709 CGATATGATA
* * * *
90422719 CCATAATGTCTTTCAACTATGATCTTATTCA-TTTTCGTCATATTGTCATAATTCCTTTCAACTA
1 CCATAATGTCTTTCAACTATGGTCTTATTCATTTTTCGT-ATAGTGCCATAATGCCTTTCAACTA
*
90422783 TGGTCTTATTCGA-TTCTGGTATAGTG
65 TGGTCTTATTC-ATTTCCGGTATAGTG
* * * ** *
90422809 CTATAGTGTCTTTCAACTATGGTCTTATTCATTTTTGGTATAGTGCCATTGTGCCTTTCGACTAT
1 CCATAATGTCTTTCAACTATGGTCTTATTCATTTTTCGTATAGTGCCATAATGCCTTTCAACTAT
90422874 GGTCTTATTCATTTCCGGTATAGTG
66 GGTCTTATTCATTTCCGGTATAGTG
*
90422899 CCATAATGTCTTTCATCTATGGTCTTA
1 CCATAATGTCTTTCAACTATGGTCTTA
90422926 CTCGTTTGAT
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
89 1 0.01
90 94 0.93
91 6 0.06
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (90 bp):
CCATAATGTCTTTCAACTATGGTCTTATTCATTTTTCGTATAGTGCCATAATGCCTTTCAACTAT
GGTCTTATTCATTTCCGGTATAGTG
Found at i:90422946 original size:45 final size:45
Alignment explanation
Indices: 90422897--90423020 Score: 203
Period size: 45 Copynumber: 2.8 Consensus size: 45
90422887 TCCGGTATAG
*
90422897 TGCCATAATGTCTTTCATCTATGGTCTTACTCGTTTGATTCGTGA
1 TGCCATAGTGTCTTTCATCTATGGTCTTACTCGTTTGATTCGTGA
*
90422942 TGCCATAGTGTCTTTCATATATGGTCTTACTCGTTTGATTCGTGA
1 TGCCATAGTGTCTTTCATCTATGGTCTTACTCGTTTGATTCGTGA
* * *
90422987 TGCCATAGCGTCTTTTAGCTATGGTCTTACTCGT
1 TGCCATAGTGTCTTTCATCTATGGTCTTACTCGT
90423021 ATTTCAACCA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 73 1.00
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCATCTATGGTCTTACTCGTTTGATTCGTGA
Found at i:90422946 original size:90 final size:89
Alignment explanation
Indices: 90422719--90422970 Score: 251
Period size: 90 Copynumber: 2.8 Consensus size: 89
90422709 CGATATGATA
* * * * * * *
90422719 CCATAATGTCTTTCAACTATGATCTTATTCA-TTTTCGTCATATTGTCATAATTCCTTTCAACTA
1 CCATAATGTCTTTCAACTATGGTCTTACTCATTTTTCGT-AGAGTGCCATAGTGCCTTTC-ACTA
*
90422783 TGGTCTTATTCGATTCTGGTATAGTG
64 TGGTCTTATTCGATTCCGGTATAGTG
* * * * * *
90422809 CTATAGTGTCTTTCAACTATGGTCTTATTCATTTTTGGTATAGTGCCATTGTGCCTTTCGACTAT
1 CCATAATGTCTTTCAACTATGGTCTTACTCATTTTTCGTAGAGTGCCATAGTGCCTTTC-ACTAT
90422874 GGTCTTATTC-ATTTCCGGTATAGTG
65 GGTCTTATTCGA-TTCCGGTATAGTG
* * * *
90422899 CCATAATGTCTTTCATCTATGGTCTTACTCGTTTGATTCGT-GA-TGCCATAGTGTCTTTCATAT
1 CCATAATGTCTTTCAACTATGGTCTTACTCATTT--TTCGTAGAGTGCCATAGTGCCTTTCA-CT
90422962 ATGGTCTTA
63 ATGGTCTTA
90422971 CTCGTTTGAT
Statistics
Matches: 136, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
89 2 0.01
90 123 0.90
91 7 0.05
92 4 0.03
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (89 bp):
CCATAATGTCTTTCAACTATGGTCTTACTCATTTTTCGTAGAGTGCCATAGTGCCTTTCACTATG
GTCTTATTCGATTCCGGTATAGTG
Found at i:90426112 original size:12 final size:12
Alignment explanation
Indices: 90426097--90426142 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
90426087 TTATTGTTGA
90426097 TTCTATTTTTAT
1 TTCTATTTTTAT
90426109 TTCTATTTTTAT
1 TTCTATTTTTAT
90426121 TT-TA-TTTTAT
1 TTCTATTTTTAT
*
90426131 TTTTAATTTTTA
1 TTCT-ATTTTTA
90426143 ATTTTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 8 0.26
11 3 0.10
12 15 0.48
13 5 0.16
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTATTTTTAT
Found at i:90426125 original size:17 final size:17
Alignment explanation
Indices: 90426103--90426140 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
90426093 TTGATTCTAT
90426103 TTTTATTTCTATTTTT-A
1 TTTTATTT-TATTTTTAA
90426120 TTTTATTTTATTTTTAA
1 TTTTATTTTATTTTTAA
90426137 TTTT
1 TTTT
90426141 TAATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTTATTTTTAA
Found at i:90426134 original size:6 final size:6
Alignment explanation
Indices: 90426100--90426154 Score: 60
Period size: 7 Copynumber: 9.0 Consensus size: 6
90426090 TTGTTGATTC
*
90426100 TATTTT TATTTC TATTTT TA-TTT TA-TTT TATTTT TAATTTT TAATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T-ATTTT T-ATTTT
90426148 TAATTTT
1 T-ATTTT
90426155 GAAAGTTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
5 10 0.22
6 16 0.36
7 19 0.42
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:90426147 original size:13 final size:13
Alignment explanation
Indices: 90426101--90426185 Score: 63
Period size: 13 Copynumber: 6.8 Consensus size: 13
90426091 TGTTGATTCT
90426101 ATTTTT-ATTTCT-
1 ATTTTTAATTT-TA
90426113 ATTTTT-ATTTT-
1 ATTTTTAATTTTA
*
90426124 A-TTTTATTTTTA
1 ATTTTTAATTTTA
90426136 ATTTTTAATTTTTA
1 ATTTTTAA-TTTTA
* **
90426150 ATTTTGAAAGTTA
1 ATTTTTAATTTTA
*
90426163 ATTTTTAATTTTT
1 ATTTTTAATTTTA
*
90426176 ATTTTAAATT
1 ATTTTTAATT
90426186 ATATCATATA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
10 4 0.07
11 6 0.10
12 11 0.19
13 26 0.44
14 12 0.20
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.69
Consensus pattern (13 bp):
ATTTTTAATTTTA
Found at i:90426179 original size:6 final size:7
Alignment explanation
Indices: 90426125--90426185 Score: 65
Period size: 7 Copynumber: 9.1 Consensus size: 7
90426115 TTTTATTTTA
90426125 TTTT-AT
1 TTTTAAT
90426131 TTTTAAT
1 TTTTAAT
90426138 TTTTAAT
1 TTTTAAT
90426145 TTTTAAT
1 TTTTAAT
*
90426152 TTTGAA-
1 TTTTAAT
**
90426158 AGTTAAT
1 TTTTAAT
90426165 TTTTAAT
1 TTTTAAT
90426172 TTTT-AT
1 TTTTAAT
*
90426178 TTTAAAT
1 TTTTAAT
90426185 T
1 T
90426186 ATATCATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
6 12 0.27
7 33 0.73
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (7 bp):
TTTTAAT
Found at i:90426185 original size:20 final size:19
Alignment explanation
Indices: 90426100--90426182 Score: 66
Period size: 20 Copynumber: 4.4 Consensus size: 19
90426090 TTGTTGATTC
* *
90426100 TATTTTTATTTCT-ATTTT
1 TATTTTAATTTTTAATTTT
90426118 TATTTT-A-TTTT-ATTTT
1 TATTTTAATTTTTAATTTT
90426134 TAATTTTTAATTTTTAATTTT
1 T-A-TTTTAATTTTTAATTTT
* **
90426155 GAAAGTTAATTTTTAATTTT
1 -TATTTTAATTTTTAATTTT
90426175 TATTTTAA
1 TATTTTAA
90426183 ATTATATCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
16 9 0.17
17 2 0.04
18 10 0.19
19 6 0.12
20 19 0.37
21 6 0.12
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.70
Consensus pattern (19 bp):
TATTTTAATTTTTAATTTT
Found at i:90426588 original size:31 final size:32
Alignment explanation
Indices: 90426553--90426614 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
90426543 TTATTTAGTT
*
90426553 AAATTTAACTCTTAACCTTTT-AAAAAGAGTG
1 AAATTTAACTATTAACCTTTTGAAAAAGAGTG
* *
90426584 AAATTTGACTATTAACTTTTTGAAAAAGAGT
1 AAATTTAACTATTAACCTTTTGAAAAAGAGT
90426615 CTAATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (32 bp):
AAATTTAACTATTAACCTTTTGAAAAAGAGTG
Found at i:90441270 original size:20 final size:22
Alignment explanation
Indices: 90441231--90441273 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
90441221 ATAAGAGAGT
*
90441231 AAAAAGAGAGAGAAATGGGCCA
1 AAAAAGAGAGAGAAACGGGCCA
90441253 AAAAAG-GAGA-AAACGGGCCA
1 AAAAAGAGAGAGAAACGGGCCA
90441273 A
1 A
90441274 CATAGGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 4 0.20
22 6 0.30
ACGTcount: A:0.56, C:0.12, G:0.30, T:0.02
Consensus pattern (22 bp):
AAAAAGAGAGAGAAACGGGCCA
Found at i:90443067 original size:30 final size:30
Alignment explanation
Indices: 90443031--90443096 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
90443021 GTGTGTTCAG
90443031 AGGTTGGTCCTCTGGGTCGGGCTCCACCAT
1 AGGTTGGTCCTCTGGGTCGGGCTCCACCAT
* *
90443061 ATGTTGGTCCTTTGGGTCGGGCTCCACCAT
1 AGGTTGGTCCTCTGGGTCGGGCTCCACCAT
90443091 AGGTTG
1 AGGTTG
90443097 ATTTCTACGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.11, C:0.26, G:0.33, T:0.30
Consensus pattern (30 bp):
AGGTTGGTCCTCTGGGTCGGGCTCCACCAT
Found at i:90445780 original size:54 final size:53
Alignment explanation
Indices: 90445703--90445808 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 53
90445693 TCTCAATACT
* *
90445703 AAAAAATAATTAAACTATTTTGTTCAAGACTGATAAT-ATTTTGTCTTACAAAA
1 AAAAAATAATTAAACTATTTTGTTCAAGACCGA-AATCATTGTGTCTTACAAAA
90445756 AAAAACATAATTAAACTATTTTGTTCAAGACCGAAATCATTGTGTCTTACAAA
1 AAAAA-ATAATTAAACTATTTTGTTCAAGACCGAAATCATTGTGTCTTACAAA
90445809 TTGAAAAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
53 8 0.16
54 41 0.84
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (53 bp):
AAAAAATAATTAAACTATTTTGTTCAAGACCGAAATCATTGTGTCTTACAAAA
Found at i:90450658 original size:18 final size:17
Alignment explanation
Indices: 90450631--90450667 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
90450621 ATATATCAAA
90450631 GTCTTGATGAGTTAAAT
1 GTCTTGATGAGTTAAAT
*
90450648 GTCTATGATGAGTTGAAT
1 GTCT-TGATGAGTTAAAT
90450666 GT
1 GT
90450668 TGGTTATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.27, C:0.05, G:0.27, T:0.41
Consensus pattern (17 bp):
GTCTTGATGAGTTAAAT
Found at i:90459897 original size:14 final size:15
Alignment explanation
Indices: 90459878--90459933 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
90459868 TCTTAGATAT
90459878 GATATG-CAATCTTA
1 GATATGACAATCTTA
90459892 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
90459909 GATATGATTACAATCTTA
1 GATATG---ACAATCTTA
90459927 GATATGA
1 GATATGA
90459934 TATGCAATCT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 6 0.16
15 1 0.03
17 14 0.38
18 16 0.43
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:90459954 original size:17 final size:19
Alignment explanation
Indices: 90459857--90459947 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
90459847 ATAATCTTCA
*
90459857 ATGATTTGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
90459876 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
90459895 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
90459912 ATGAT-TACAATCTTAGAT
1 ATGATATGCAATCTTAGAT
90459930 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
90459948 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:90459973 original size:22 final size:22
Alignment explanation
Indices: 90459926--90459970 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
90459916 TTACAATCTT
*
90459926 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
90459948 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
90459971 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:90468790 original size:78 final size:77
Alignment explanation
Indices: 90468649--90468948 Score: 426
Period size: 78 Copynumber: 3.9 Consensus size: 77
90468639 TCTTCACATC
* ** ***
90468649 GAAGTAGATCCAAGATGATTTGGCATC-CTTGCGTT-GAAAAGGAGCAGATCGAAGACATAGCAG
1 GAAGCAGATCCAAGATGATTTGGCATCTC-TGTATTAGACGGGGAGCAGATCGAAGACATAGCAG
90468712 ATATGACCTTCATT
65 AT-TGACCTTCATT
* *
90468726 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
90468791 TCTGACCTTCATT
66 T-TGACCTTCATT
* * *
90468804 GAAGCAGATCCAAAACGATTTGGCATCTCTGTATTAGACGGGGAGCAGAAT-GAAGACATAACAG
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAG-ATCGAAGACATAGCAG
90468868 ATTGGACCTTCATT
65 ATT-GACCTTCATT
*
90468882 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGACATAGCAGA
1 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
90468947 TT
66 TT
90468949 TGGCTTTCAC
Statistics
Matches: 201, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
77 33 0.16
78 166 0.83
79 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (77 bp):
GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGA
TTGACCTTCATT
Found at i:90469162 original size:78 final size:78
Alignment explanation
Indices: 90469029--90469323 Score: 439
Period size: 78 Copynumber: 3.8 Consensus size: 78
90469019 CGAAGAAATA
** * *
90469029 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
90469094 GCAGATCTAAGAT
66 GCAGATCCAAGAT
* * *
90469107 GATTTGGCATCTATGTATTACACGGGGAGCAGATCGAAGACATAGCAGATTTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
90469172 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
90469185 GATTTGACATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
90469249 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
90469263 GATTTGGCATCTCTATATTAGACGGGGAGTAGATCGAAGACATAGTAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
90469324 GTGTTTGCAT
Statistics
Matches: 195, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 193 0.99
79 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:90469460 original size:89 final size:89
Alignment explanation
Indices: 90469353--90469522 Score: 259
Period size: 89 Copynumber: 1.9 Consensus size: 89
90469343 TCCAAGATGA
* * * *
90469353 CAGATTTGACATCTCTGTATTAGACGGGGAGCACATCGGAGATAATAGATTTGGCATCTCTGTAT
1 CAGATTTGACATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
90469418 TAGACGGGGAGCAGATTGAAGAAG
66 TAGACGGGGAGCAGATTGAAGAAG
* * * *
90469442 CAGATTTGGCGTCTCTGTATTAGACGAGGAGCAAATCGAAGATAACATATTTGGCGTCTCTGTAT
1 CAGATTTGACATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
*
90469507 TAGACGGGGAGTAGAT
66 TAGACGGGGAGCAGAT
90469523 CAAAGATAGT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (89 bp):
CAGATTTGACATCTCTGTATTAGACGAGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTAT
TAGACGGGGAGCAGATTGAAGAAG
Found at i:90469529 original size:45 final size:45
Alignment explanation
Indices: 90469339--90469530 Score: 242
Period size: 45 Copynumber: 4.3 Consensus size: 45
90469329 TGCATCAAAT
* * *
90469339 CAGATCCAAGATGACAGATTTGACATCTCTGTATTAGACGGGGAG
1 CAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAG
* * *
90469384 CACATCGGAGATAATAGATTTGGCATCTCTGTATTAGACGGGGAG
1 CAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAG
* * * *
90469429 CAGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGAGGAG
1 CAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAG
* * *
90469473 CAAATCGAAGATAACATATTTGGCGTCTCTGTATTAGACGGGGAG
1 CAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAG
* *
90469518 TAGATCAAAGATA
1 CAGATCGAAGATA
90469531 GTAGATATCA
Statistics
Matches: 125, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
44 38 0.30
45 87 0.70
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.26
Consensus pattern (45 bp):
CAGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAG
Found at i:90469914 original size:19 final size:19
Alignment explanation
Indices: 90469886--90469922 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
90469876 ATAATCTTCA
* *
90469886 ATGATTTGCAATTTTAGAT
1 ATGATATGCAATCTTAGAT
90469905 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
90469923 AGATATGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:90469929 original size:22 final size:23
Alignment explanation
Indices: 90469901--90469945 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
90469891 TTGCAATTTT
90469901 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
90469923 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
90469946 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:90475725 original size:12 final size:11
Alignment explanation
Indices: 90475689--90475726 Score: 53
Period size: 9 Copynumber: 3.5 Consensus size: 11
90475679 GTATAGGGAC
90475689 TTTGGTTATG-
1 TTTGGTTATGT
90475699 -TTGGTTATGT
1 TTTGGTTATGT
90475709 TTTGGTTATGAT
1 TTTGGTTATG-T
90475721 TTTGGT
1 TTTGGT
90475727 CATTTGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.36
11 9 0.36
12 7 0.28
ACGTcount: A:0.11, C:0.00, G:0.29, T:0.61
Consensus pattern (11 bp):
TTTGGTTATGT
Found at i:90485266 original size:17 final size:17
Alignment explanation
Indices: 90485246--90485293 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
90485236 CATAAACATG
*
90485246 AAGTTTTCTTAAAATTA
1 AAGTTTTCTTAAAATGA
*
90485263 AAGTTTTCTGAAAATGA
1 AAGTTTTCTTAAAATGA
*
90485280 ACGATTTTCTTAAA
1 AAG-TTTTCTTAAA
90485294 CAAAAAGTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (17 bp):
AAGTTTTCTTAAAATGA
Found at i:90486757 original size:46 final size:46
Alignment explanation
Indices: 90486707--90486882 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
90486697 TGGTTGAGCA
90486707 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90486753 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
90486798 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90486846 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90486883 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:90486863 original size:93 final size:93
Alignment explanation
Indices: 90486704--90486875 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
90486694 GGATGGTTGA
* *
90486704 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90486769 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
90486797 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90486862 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
90486876 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90493233 original size:45 final size:45
Alignment explanation
Indices: 90493169--90493283 Score: 187
Period size: 45 Copynumber: 2.6 Consensus size: 45
90493159 GTTGTACAGT
*
90493169 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAGAC
* *
90493214 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAGAC
*
90493259 ATTTTTCGGGCC-TCGAGCCTAGCAG
1 ATTATTCGGGCCTTCGAGCCTAGCAG
90493284 CAAAATGCGG
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 12 0.18
45 54 0.82
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAGAC
Found at i:90501248 original size:45 final size:45
Alignment explanation
Indices: 90501184--90501313 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
90501174 GTTGTACAGT
* *
90501184 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
90501229 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* * *
90501274 ATTTTTCGGGCC-TCGAGCCTAGCAGAC-AAAATGCCGGTGA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
90501314 ATAAATTCGG
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 12 0.15
44 13 0.17
45 53 0.68
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
Found at i:90503983 original size:60 final size:60
Alignment explanation
Indices: 90503886--90504020 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 60
90503876 GTGTTAACTT
*
90503886 GGCCTTAGCCCATATCAATATTAATCTAGGCCATAGCCAT-TTAC-AGTATC-AGAGTATATTG
1 GGCC-TAGCCCATATCAATATCAATCTAGGCCATAGCCATATTACAAG--TCGAGA-TATATTG
* * *
90503947 GGCCTAGCCCATATCAGTATCAATCTAGG-TAGTAGCCCTATTACAAGTCGAGATATATTG
1 GGCCTAGCCCATATCAATATCAATCTAGGCCA-TAGCCATATTACAAGTCGAGATATATTG
*
90504007 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
90504021 TAACATAGTT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
59 1 0.02
60 51 0.78
61 11 0.17
62 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATATCAATCTAGGCCATAGCCATATTACAAGTCGAGATATATTG
Found at i:90510460 original size:25 final size:25
Alignment explanation
Indices: 90510427--90510476 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
90510417 AATGTGAAAG
* *
90510427 GGGTTGCTATGTGCTGATTCCCCGA
1 GGGTTGCTAAGTGATGATTCCCCGA
90510452 GGGTTGCTAAGTGATGATTCCCCGA
1 GGGTTGCTAAGTGATGATTCCCCGA
90510477 TTTCATTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (25 bp):
GGGTTGCTAAGTGATGATTCCCCGA
Found at i:90510535 original size:100 final size:100
Alignment explanation
Indices: 90510350--90510707 Score: 507
Period size: 100 Copynumber: 3.6 Consensus size: 100
90510340 TGTATATAAA
** * * *
90510350 AGGGGTTGCTGTGTGCTGATTCCCCGATTTA-TGGGTGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGTGTGTGCTAAGTGCGAT-ATCCACCATATCT
90510413 TTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAA--TGAAAGGGGTTGCTATGTGCTGATTCCCCG
*
90510451 A-GGGTTGCTAAGTGATGATTCCCCGATTTCATTGTG-GTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGTGTGTGCTAAGTGCGATATCCACCATATCT
90510514 TTGAAATGAAAGGGGGTTGCTA--TGCTGATTCCCCCG
65 TTGAAATGAAA-GGGGTTGCTATGTGCTGATT-CCCCG
90510550 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTG-GTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGTGT-GTGCTAAGTGCGATATCCACCATATCT
*
90510614 TTGAAATAAAAGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGAAAGGGGTTGCTATGTGCTGATTCCCCG
* **
90510650 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTG-GTGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGTGTGTGCTAAGTGCGATATCCACCA
90510708 ATAACGGCTA
Statistics
Matches: 236, Mismatches: 11, Indels: 22
0.88 0.04 0.08
Matches are distributed among these distances:
98 9 0.04
99 48 0.20
100 133 0.56
101 42 0.18
102 4 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (100 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGTGTGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAGGGGTTGCTATGTGCTGATTCCCCG
Found at i:90510660 original size:26 final size:26
Alignment explanation
Indices: 90510624--90510676 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
90510614 TTGAAATAAA
*
90510624 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
90510650 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
90510676 A
1 A
90510677 TTCAGTGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.28
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:90521205 original size:46 final size:46
Alignment explanation
Indices: 90521074--90521220 Score: 168
Period size: 46 Copynumber: 3.2 Consensus size: 46
90521064 CATGTCCCAG
* * * * *
90521074 ACACTAGCATTCACGATGTGGCTGATGCATGTCCCAAACATGTCTC
1 ACACTGGCACTCACAATGTGGCCGATGCATGTCCCAGACATGTCTC
* * * * * *
90521120 ACACTAGCACACATATCTCGAGGCCGATGCATGTCCCAGACATGTCTT
1 ACACTGGCACTCACA-AT-GTGGCCGATGCATGTCCCAGACATGTCTC
*
90521168 ACACTGGCTCTCACAATGTGGCCGATGCATGTCCCAGACATGTCTC
1 ACACTGGCACTCACAATGTGGCCGATGCATGTCCCAGACATGTCTC
90521214 ACACTGG
1 ACACTGG
90521221 TGCACATATC
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
46 45 0.54
47 2 0.02
48 36 0.43
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (46 bp):
ACACTGGCACTCACAATGTGGCCGATGCATGTCCCAGACATGTCTC
Found at i:90525467 original size:5 final size:5
Alignment explanation
Indices: 90525444--90525484 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
90525434 CATCAGCTTC
* *
90525444 TGATA TG-TT TGAAA TGATA TGATA TGATA TGATA TGATA TG
1 TGATA TGATA TGATA TGATA TGATA TGATA TGATA TGATA TG
90525485 TGATGAAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 3 0.10
5 28 0.90
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (5 bp):
TGATA
Found at i:90527182 original size:16 final size:17
Alignment explanation
Indices: 90527161--90527194 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
90527151 CATTTTGATG
90527161 TAAATGAATCAAA-ATA
1 TAAATGAATCAAAGATA
*
90527177 TAAATGTATCAAAGATA
1 TAAATGAATCAAAGATA
90527194 T
1 T
90527195 GATGAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.29
Consensus pattern (17 bp):
TAAATGAATCAAAGATA
Found at i:90527451 original size:68 final size:68
Alignment explanation
Indices: 90527339--90527491 Score: 252
Period size: 68 Copynumber: 2.2 Consensus size: 68
90527329 GCGAATTCTC
* *
90527339 CACAGCTCGTTTGAGCAGCATCGTGTAGCTTACATTCTGACCCACTACTCGTGTGAGCAGGCCCA
1 CACAGCTCGTGTGAGCAGCATCGTGTAGCTTACATTCTGACCCACTACTCGTGTGAGCAAGCCCA
90527404 TTT
66 TTT
* *
90527407 CACAGCTCGTGTGAGTAGCATCGTGTAGCTTACATTCTGGCCCACTACTCGTGTGAGCAAGCCCA
1 CACAGCTCGTGTGAGCAGCATCGTGTAGCTTACATTCTGACCCACTACTCGTGTGAGCAAGCCCA
90527472 TTT
66 TTT
* *
90527475 CACAGTTTGTGTGAGCA
1 CACAGCTCGTGTGAGCA
90527492 TGGATGTAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 78 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (68 bp):
CACAGCTCGTGTGAGCAGCATCGTGTAGCTTACATTCTGACCCACTACTCGTGTGAGCAAGCCCA
TTT
Found at i:90535296 original size:45 final size:45
Alignment explanation
Indices: 90535129--90535347 Score: 306
Period size: 45 Copynumber: 4.9 Consensus size: 45
90535119 TATCGTACGG
90535129 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGAAAT--CGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTAT--AATGCCGGTGAGA
*
90535174 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
90535219 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATTCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
90535264 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
90535309 TGA-TA-TCGAG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTG
90535348 GATGAATTCG
Statistics
Matches: 163, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
42 10 0.06
43 20 0.12
44 4 0.02
45 128 0.79
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:90536600 original size:42 final size:43
Alignment explanation
Indices: 90536519--90536602 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
90536509 CATATTTCAC
90536519 TTCTCATCTCATATACATTTCTCATCTTTGCCAATTCAATATT
1 TTCTCATCTCATATACATTTCTCATCTTTGCCAATTCAATATT
* * *
90536562 TTCTCATCTTATATGCATTTCT-ATCTTTGCCATTTCAATAT
1 TTCTCATCTCATATACATTTCTCATCTTTGCCAATTCAATAT
90536603 CAATCACATA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 18 0.47
43 20 0.53
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.49
Consensus pattern (43 bp):
TTCTCATCTCATATACATTTCTCATCTTTGCCAATTCAATATT
Found at i:90544330 original size:23 final size:23
Alignment explanation
Indices: 90544283--90544330 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
90544273 TATTTGTATG
*
90544283 ATTTATTAATGCATGAAGATTTC
1 ATTTATTAATGCATGAAGATATC
*
90544306 ATTTATTATTGGCATGAA-ATATC
1 ATTTATTAAT-GCATGAAGATATC
90544329 AT
1 AT
90544331 AGAAATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (23 bp):
ATTTATTAATGCATGAAGATATC
Found at i:90554382 original size:26 final size:26
Alignment explanation
Indices: 90554346--90554401 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
90554336 TGATAAAAAT
90554346 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90554372 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90554398 TGAT
1 TGAT
90554402 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90559381 original size:34 final size:34
Alignment explanation
Indices: 90559332--90559428 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 34
90559322 TTTAAAATTT
* *
90559332 TTTAAAAAAAATAATTAAATTAGGTTTTA-GGGG
1 TTTAAAAAAATTAATTAAATTAGGGTTTATGGGG
* **
90559365 TTTAAAGTAAATTAATTAAATTAGGGTTTATGGTT
1 TTTAAA-AAAATTAATTAAATTAGGGTTTATGGGG
90559400 TTTAAAAAAATTAATTAAATTAGGGTTTA
1 TTTAAAAAAATTAATTAAATTAGGGTTTA
90559429 CATTTTTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
33 6 0.11
34 42 0.75
35 8 0.14
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.41
Consensus pattern (34 bp):
TTTAAAAAAATTAATTAAATTAGGGTTTATGGGG
Found at i:90559436 original size:34 final size:33
Alignment explanation
Indices: 90559312--90559428 Score: 126
Period size: 34 Copynumber: 3.4 Consensus size: 33
90559302 TTTAAAAAAA
* *
90559312 TAAATTAGGGTTTAAAATTTTTTAAAAAAAATAAT
1 TAAATTAGGGTTT--AAGTTTTTAAAAAAATTAAT
* * ** *
90559347 TAAATTAGGTTTTAGGGGTTTAAAGTAAATTAAT
1 TAAATTAGGGTTTAAGTTTTTAAA-AAAATTAAT
*
90559381 TAAATTAGGGTTTATGGTTTTTAAAAAAATTAAT
1 TAAATTAGGGTTTA-AGTTTTTAAAAAAATTAAT
90559415 TAAATTAGGGTTTA
1 TAAATTAGGGTTTA
90559429 CATTTTTTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
33 7 0.10
34 42 0.61
35 20 0.29
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.42
Consensus pattern (33 bp):
TAAATTAGGGTTTAAGTTTTTAAAAAAATTAAT
Found at i:90559813 original size:126 final size:125
Alignment explanation
Indices: 90559532--90560030 Score: 554
Period size: 125 Copynumber: 4.0 Consensus size: 125
90559522 TTTGTTTCTA
* * *
90559532 AAAAATTAATTTTGAGAAGATGATTCTGAAAAAATAATGTCAAAAATGCTTTAAGCATGATGCAC
1 AAAAA-TAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGGATGCAC
* * * * * * * * *
90559597 TGTTAGAAAAAGTACTG-AAAAAGCTCTCATGTGGATGCTCTTTTTCTATAATAGTTCCTG
65 TGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTG
* * *
90559657 AAAAAATAATTTTGAGAAGAC-AGTTCTGAAAAAATAATGTAAAAAACGCTTCAAGCATGATGCA
1 -AAAAATAATTTTGAGAAGACGA-TTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGGATGCA
* * * * *
90559721 CTATCAGCAAAGTTATTGAAAAAAACTCCCACGTGGATGCTCTTTTTCTACAGTAGTTCTTG
64 CTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTG
* * * * * * *
90559783 AAATAATATTTTTAAGAAAATGGTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGTAGGATGCAC
1 AAA-AATAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGGATGCAC
* * * * * *
90559848 TGTCAGCAAAATTACTGAAAAAAGCTCTCACATGAACGTTCTTTTTCTACAGTAATTCCTG
65 TGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTG
* * * * * *
90559909 AAAAATAATTTTGAGAAGACGATTATGAAAAAGTAGTTTTAGAAATGCTTCAAGCAGGATGCACT
1 AAAAATAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGGATGCACT
* * *
90559974 GTCAGCAAAATTACT-AAAAAAAGGTTCCATGTGGACGCTCTTTTTCTACAGTAGTTC
66 GTCAGCAAAATTACTGAAAAAAA-CTCCCACGTGGACGCTCTTTTTCTACAGTAGTTC
90560031 TTGCTTGGTA
Statistics
Matches: 311, Mismatches: 57, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
124 7 0.02
125 159 0.51
126 145 0.47
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (125 bp):
AAAAATAATTTTGAGAAGACGATTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGGATGCACT
GTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCTG
Found at i:90560016 original size:251 final size:251
Alignment explanation
Indices: 90559541--90560033 Score: 641
Period size: 251 Copynumber: 2.0 Consensus size: 251
90559531 AAAAAATTAA
* * * * *
90559541 TTTTGAGAAGATGATTCTGAAAAAATAATGTCAAAAATGCTTTAAGCATGATGCACTGTTAGAAA
1 TTTTAAGAAAATGATTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGGATGCACTGTCAGAAA
** * * * *
90559606 AAGTACTGAAAAAGCTCTCATGTGGATGCTCTTTTTCTATAATAGTTCCTGAAAAAATAATTTTG
66 AAGTACTGAAAAAGCTCTCACATGAACGCTCTTTTTCTACAATAATTCCTGAAAAAATAATTTTG
* * *
90559671 AGAAGACAGTTCTGAAAAAATAATGTAAAAAACGCTTCAAGCATGATGCACTATCAGCAAAGTTA
131 AGAAGACAGTTATGAAAAAATAATGTAAAAAACGCTTCAAGCAGGATGCACTATCAGCAAAATTA
* *
90559736 TTGAAAAAAACTCCCACGTGGATGCTCTTTTTCTACAGTAGTTCTTGAAATAATAT
196 CTGAAAAAAACTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTGAAATAATAT
* * * *
90559792 TTTTAAGAAAATGGTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGTAGGATGCACTGTCAGCAA
1 TTTTAAGAAAATGATTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGGATGCACTGTCAGAAA
* * *
90559857 AATTACTGAAAAAAGCTCTCACATGAACGTTCTTTTTCTACAGTAATTCCTG-AAAAATAATTTT
66 AAGTACTG-AAAAAGCTCTCACATGAACGCTCTTTTTCTACAATAATTCCTGAAAAAATAATTTT
* * * * * * *
90559921 GAGAAGAC-GATTATGAAAAAGTAGTTTTAGAAATGCTTCAAGCAGGATGCACTGTCAGCAAAAT
130 GAGAAGACAG-TTATGAAAAAATAATGTAAAAAACGCTTCAAGCAGGATGCACTATCAGCAAAAT
* * *
90559985 TACT-AAAAAAAGGTTCCATGTGGACGCTCTTTTTCTACAGTAGTTCTTG
194 TACTGAAAAAAA-CTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTG
90560034 CTTGGTATTA
Statistics
Matches: 206, Mismatches: 33, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
250 8 0.04
251 163 0.79
252 35 0.17
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (251 bp):
TTTTAAGAAAATGATTCTGAAAAAATAATGTCAAAAATGCTTCAAGCAGGATGCACTGTCAGAAA
AAGTACTGAAAAAGCTCTCACATGAACGCTCTTTTTCTACAATAATTCCTGAAAAAATAATTTTG
AGAAGACAGTTATGAAAAAATAATGTAAAAAACGCTTCAAGCAGGATGCACTATCAGCAAAATTA
CTGAAAAAAACTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCTTGAAATAATAT
Done.