Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 13 of 211
Found at i:3648439 original size:10 final size:10
Alignment explanation
Indices: 3648424--3648501 Score: 63
Period size: 10 Copynumber: 7.6 Consensus size: 10
3648414 GCGACCCGAA
3648424 GAAAAAGAAG
1 GAAAAAGAAG
*
3648434 GAAAAAGAAA
1 GAAAAAGAAG
3648444 GAAAAAGAAG
1 GAAAAAGAAG
*
3648454 AAGAAAAAG-TG
1 --GAAAAAGAAG
*
3648465 AGAAAAAGGAAA
1 -GAAAAA-GAAG
3648477 GAAAAAGAA-
1 GAAAAAGAAG
3648486 GAAGAAA-AAG
1 GAA-AAAGAAG
3648496 GAAAAA
1 GAAAAA
3648502 AATCTACAGT
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
9 8 0.14
10 34 0.60
11 8 0.14
12 7 0.12
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (10 bp):
GAAAAAGAAG
Found at i:3648443 original size:6 final size:6
Alignment explanation
Indices: 3648422--3648501 Score: 51
Period size: 6 Copynumber: 13.3 Consensus size: 6
3648412 GTGCGACCCG
* * *
3648422 AAGAAA AAGAAGGA AA-AAGA AAGAAA AAGAAG AAGAAA AAG--T GAGAAA
1 AAGAAA AAGAA--A AAGAA-A AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* *
3648470 AAG-GA AAGAAA AAGAAG AAGAAA AAGGAAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AA-GAAA AA
3648502 AATCTACAGT
Statistics
Matches: 57, Mismatches: 10, Indels: 13
0.71 0.12 0.16
Matches are distributed among these distances:
4 2 0.04
5 4 0.07
6 38 0.67
7 10 0.18
8 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (6 bp):
AAGAAA
Found at i:3648482 original size:33 final size:31
Alignment explanation
Indices: 3648421--3648503 Score: 121
Period size: 33 Copynumber: 2.6 Consensus size: 31
3648411 GGTGCGACCC
*
3648421 GAAGAAAAAGAAGGAAAAAGAAAGAAAAAGAA
1 GAAGAAAAAGGA-GAAAAAGAAAGAAAAAGAA
3648453 GAAGAAAAAGTGAGAAAAAGGAAAGAAAAAGAA
1 GAAGAAAAAG-GAGAAAAA-GAAAGAAAAAGAA
*
3648486 GAAGAAAAAGGAAAAAAA
1 GAAGAAAAAGGAGAAAAA
3648504 TCTACAGTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
32 23 0.49
33 24 0.51
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.01
Consensus pattern (31 bp):
GAAGAAAAAGGAGAAAAAGAAAGAAAAAGAA
Found at i:3648496 original size:23 final size:22
Alignment explanation
Indices: 3648421--3648503 Score: 93
Period size: 22 Copynumber: 3.9 Consensus size: 22
3648411 GGTGCGACCC
*
3648421 GAAGAAAAA-GAAGGAAAAAGA
1 GAAGAAAAAGGAAAGAAAAAGA
* *
3648442 -AAGAAAAAGAAGAAGAAAAAGT
1 GAAGAAAAAGGA-AAGAAAAAGA
3648464 G-AGAAAAAGGAAAGAAAAAGAA
1 GAAGAAAAAGGAAAGAAAAAG-A
3648486 GAAGAAAAAGGAAA-AAAA
1 GAAGAAAAAGGAAAGAAAA
3648504 TCTACAGTCA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
20 8 0.15
21 10 0.19
22 22 0.42
23 12 0.23
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.01
Consensus pattern (22 bp):
GAAGAAAAAGGAAAGAAAAAGA
Found at i:3648601 original size:24 final size:24
Alignment explanation
Indices: 3648574--3648625 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
3648564 CCAGCAGCCC
3648574 AAAAAAAAAAACAAAACAGCAAAA
1 AAAAAAAAAAACAAAACAGCAAAA
*
3648598 AAAAAACAAAACAAAACAGCAAAA
1 AAAAAAAAAAACAAAACAGCAAAA
3648622 AAAA
1 AAAA
3648626 GAGCAGAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.83, C:0.13, G:0.04, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAACAAAACAGCAAAA
Found at i:3649487 original size:16 final size:17
Alignment explanation
Indices: 3649453--3649506 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
3649443 CGTATTTCGA
*
3649453 AAAATTGTCATGTTTTC
1 AAAATTTTCATGTTTTC
3649470 AAAATTTTCATG-TTTC
1 AAAATTTTCATGTTTTC
*
3649486 AAAATTTCCATGTTTTC
1 AAAATTTTCATGTTTTC
3649503 AAAA
1 AAAA
3649507 ATTCTTGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 15 0.44
17 19 0.56
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.44
Consensus pattern (17 bp):
AAAATTTTCATGTTTTC
Found at i:3649620 original size:19 final size:20
Alignment explanation
Indices: 3649598--3649642 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
3649588 CTCGTATCTC
3649598 AAAAAAT-TATCGTG-TTTTT
1 AAAAAATAT-TCGTGTTTTTT
*
3649617 AAAATATATTCGTGTTTTTT
1 AAAAAATATTCGTGTTTTTT
3649637 AAAAAA
1 AAAAAA
3649643 AACAAACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (20 bp):
AAAAAATATTCGTGTTTTTT
Found at i:3649681 original size:16 final size:18
Alignment explanation
Indices: 3649660--3649694 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3649650 AATTTTCATA
3649660 TTTC-AAATTT-TCGTGT
1 TTTCAAAATTTCTCGTGT
3649676 TTTCAAAATTTCTCGTGT
1 TTTCAAAATTTCTCGTGT
3649694 T
1 T
3649695 AAAAAATTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 6 0.35
18 7 0.41
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.54
Consensus pattern (18 bp):
TTTCAAAATTTCTCGTGT
Found at i:3649876 original size:20 final size:20
Alignment explanation
Indices: 3649827--3649883 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
3649817 TGTTTCTAAT
3649827 ATTCTCATATTTCAAAAAAA
1 ATTCTCATATTTCAAAAAAA
* *
3649847 ATTC-CGTATTTTAAAAAAA
1 ATTCTCATATTTCAAAAAAA
*
3649866 ATTCTCTTATTTCAAAAA
1 ATTCTCATATTTCAAAAA
3649884 TTGTCATGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTCTCATATTTCAAAAAAA
Found at i:3649929 original size:16 final size:17
Alignment explanation
Indices: 3649898--3649989 Score: 98
Period size: 17 Copynumber: 5.3 Consensus size: 17
3649888 CATGTTTAGA
*
3649898 AAAAATTTGTCGTGTTTC
1 AAAAATTT-CCGTGTTTC
3649916 AAAAA-TTCCGTGTTTC
1 AAAAATTTCCGTGTTTC
*
3649932 AAAAATTTTCGTGTTTTTC
1 AAAAATTTCCGTG--TTTC
*
3649951 AACAA-TTCTCGTGTTTC
1 AAAAATTTC-CGTGTTTC
*
3649968 AAAAATTTCCGCGTTTC
1 AAAAATTTCCGTGTTTC
3649985 AAAAA
1 AAAAA
3649990 AATATTGTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
16 13 0.21
17 28 0.44
18 10 0.16
19 12 0.19
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (17 bp):
AAAAATTTCCGTGTTTC
Found at i:3649930 original size:36 final size:34
Alignment explanation
Indices: 3649843--3650097 Score: 131
Period size: 36 Copynumber: 7.1 Consensus size: 34
3649833 ATATTTCAAA
* * * *
3649843 AAAAATTCCGTATTTTAAAAAAAATTCTCTTATTTC
1 AAAAATTCCGT-GTTT-AAAAAAATTTTCGTGTTTC
* *
3649879 AAAAATTGTCATGTTTAGAAAAAATTTGTCGTGTTTC
1 AAAAATT-CCGTGTTTA-AAAAAATTT-TCGTGTTTC
*
3649916 AAAAATTCCGTGTTT-CAAAAATTTTCGTGTTTTTC
1 AAAAATTCCGTGTTTAAAAAAATTTTCGTG--TTTC
* * * *
3649951 AACAATTCTCGTGTTT-CAAAAATTTCCGCGTTTC
1 AAAAATTC-CGTGTTTAAAAAAATTTTCGTGTTTC
* ** *
3649985 AAAAAAAT-ATTGTTCT-AAAAAATTGTCGTGTTTTC
1 -AAAAATTCCGTGTT-TAAAAAAATTTTCGTG-TTTC
* ** * *
3650020 AAGAATATCCGTGTTTTTAAGAATTTTCGTGTCTC
1 AAAAAT-TCCGTGTTTAAAAAAATTTTCGTGTTTC
* **
3650055 TAAAATTCTCGTGTTTTTAAAAAAAAATTCGTGTTTTC
1 AAAAATTC-CGTG--TTTAAAAAAATTTTCGTG-TTTC
3650093 AAAAA
1 AAAAA
3650098 AATTGTTTCA
Statistics
Matches: 166, Mismatches: 37, Indels: 30
0.71 0.16 0.13
Matches are distributed among these distances:
33 9 0.05
34 29 0.17
35 34 0.20
36 58 0.35
37 29 0.17
38 7 0.04
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (34 bp):
AAAAATTCCGTGTTTAAAAAAATTTTCGTGTTTC
Found at i:3649947 original size:53 final size:53
Alignment explanation
Indices: 3649875--3649989 Score: 142
Period size: 53 Copynumber: 2.2 Consensus size: 53
3649865 AATTCTCTTA
* *
3649875 TTTCAAAAATTGTCATGTTTAGAAAAAATTTGTCGTGTTTCAAAAA-TTCCGTG
1 TTTCAAAAATTGTCATGTTTAGAAAAAA-TTCTCGTGTTTCAAAAATTTCCGCG
* * *** *
3649928 TTTCAAAAATTTTCGTGTTTTTCAACAATTCTCGTGTTTCAAAAATTTCCGCG
1 TTTCAAAAATTGTCATGTTTAGAAAAAATTCTCGTGTTTCAAAAATTTCCGCG
3649981 TTTCAAAAA
1 TTTCAAAAA
3649990 AATATTGTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 16 0.30
53 37 0.70
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (53 bp):
TTTCAAAAATTGTCATGTTTAGAAAAAATTCTCGTGTTTCAAAAATTTCCGCG
Found at i:3649951 original size:35 final size:35
Alignment explanation
Indices: 3649875--3650070 Score: 129
Period size: 35 Copynumber: 5.6 Consensus size: 35
3649865 AATTCTCTTA
* * *
3649875 TTTCAAAAATTGTCATGTTTAGAAAAAATTTGTCGTG
1 TTTCAAAAATTCTCGTGTTT--CAAAAATTTGTCGTG
3649912 TTTCAAAAATTC-CGTGTTTCAAAAATTT-TCGTG
1 TTTCAAAAATTCTCGTGTTTCAAAAATTTGTCGTG
* * *
3649945 TTTTTCAACAATTCTCGTGTTTCAAAAATTT-CCGCG
1 --TTTCAAAAATTCTCGTGTTTCAAAAATTTGTCGTG
* * *
3649981 TTTCAAAAAAATAT--TG-TTCTAAAAAATTGTCGTG
1 TTTC-AAAAATTCTCGTGTTTC-AAAAATTTGTCGTG
* * *
3650015 TTTTCAAGAATATC-CGTGTTTTTAAGAATTT-TCGTG
1 -TTTCAAAAAT-TCTCGTG-TTTCAAAAATTTGTCGTG
* *
3650051 TCTCTAAAATTCTCGTGTTT
1 TTTCAAAAATTCTCGTGTTT
3650071 TTAAAAAAAA
Statistics
Matches: 125, Mismatches: 21, Indels: 29
0.71 0.12 0.17
Matches are distributed among these distances:
32 3 0.02
33 14 0.11
34 24 0.19
35 33 0.26
36 32 0.26
37 17 0.14
38 2 0.02
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (35 bp):
TTTCAAAAATTCTCGTGTTTCAAAAATTTGTCGTG
Found at i:3650020 original size:52 final size:52
Alignment explanation
Indices: 3649897--3650035 Score: 140
Period size: 52 Copynumber: 2.7 Consensus size: 52
3649887 TCATGTTTAG
* * *
3649897 AAAAAATTTGTCGTGTTTCAAAAA-TTCCGTGTTTCAAAAATTTTCGTGTTTTT
1 AAAAAA-TTGTCGTGTTTCAAAAATTTCCGTGTTTCAAAAAATATC-TGTTTCT
* * * *
3649950 CAACAATTCTCGTGTTTCAAAAATTTCCGCGTTTCAAAAAAATAT-TG-TTCT
1 AAAAAATTGTCGTGTTTCAAAAATTTCCGTGTTTC-AAAAAATATCTGTTTCT
* *
3650001 AAAAAATTGTCGTGTTTTCAAGAATATCCGTGTTT
1 AAAAAATTGTCGTG-TTTCAAAAATTTCCGTGTTT
3650036 TTAAGAATTT
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
51 14 0.20
52 35 0.50
53 14 0.20
54 7 0.10
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (52 bp):
AAAAAATTGTCGTGTTTCAAAAATTTCCGTGTTTCAAAAAATATCTGTTTCT
Found at i:3650050 original size:18 final size:18
Alignment explanation
Indices: 3650005--3650074 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
3649995 TGTTCTAAAA
* *
3650005 AATTGTCGTGTTTTCAAG
1 AATTTTCGTGTTTTTAAG
* *
3650023 AATATCCGTGTTTTTAAG
1 AATTTTCGTGTTTTTAAG
* *
3650041 AATTTTCGTGTCTCTAA-
1 AATTTTCGTGTTTTTAAG
*
3650058 AATTCTCGTGTTTTTAA
1 AATTTTCGTGTTTTTAA
3650075 AAAAAAATTC
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
17 14 0.34
18 27 0.66
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (18 bp):
AATTTTCGTGTTTTTAAG
Found at i:3650098 original size:17 final size:17
Alignment explanation
Indices: 3649897--3650098 Score: 56
Period size: 17 Copynumber: 11.4 Consensus size: 17
3649887 TCATGTTTAG
*
3649897 AAAAAATTTGTCGTGTTTC
1 AAAAAATTCGT-GT-TTTC
3649916 -AAAAATTCCGTG-TTTC
1 AAAAAATT-CGTGTTTTC
*
3649932 AAAAATTTTCGTGTTTTTC
1 AAAAA-ATTCGTG-TTTTC
* *
3649951 AACAATTCTCGTG-TTTC
1 AAAAAAT-TCGTGTTTTC
* *
3649968 AAAAATTTCCGCG-TTTC
1 AAAAAATT-CGTGTTTTC
* ** *
3649985 AAAAAAATATTGTTCT-
1 AAAAAATTCGTGTTTTC
3650001 AAAAAATTGTCGTGTTTTC
1 AAAAAA-T-TCGTGTTTTC
* * *
3650020 AAGAATATCCGTGTTTTT
1 AA-AAAATTCGTGTTTTC
** *
3650038 AAGAATTTTCGTG-TCTC
1 AA-AAAATTCGTGTTTTC
* * *
3650055 TAAAATTCTCGTGTTTTTAAA
1 AAAAAAT-TCGTG-TTTT--C
3650076 AAAAAATTCGTGTTTTC
1 AAAAAATTCGTGTTTTC
3650093 AAAAAA
1 AAAAAA
3650099 ATTGTTTCAA
Statistics
Matches: 137, Mismatches: 29, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
16 16 0.12
17 47 0.34
18 37 0.27
19 24 0.18
20 8 0.06
21 5 0.04
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (17 bp):
AAAAAATTCGTGTTTTC
Found at i:3650111 original size:32 final size:30
Alignment explanation
Indices: 3650075--3650133 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
3650065 GTGTTTTTAA
*
3650075 AAAAAAATTCGTGTTTTCAAAAAAATTGTTTC
1 AAAAAAATTCGTG--TTAAAAAAAATTGTTTC
**
3650107 AAAAATCTTCGTGTTAAAAAAAATTGT
1 AAAAAAATTCGTGTTAAAAAAAATTGT
3650134 ATTTTGATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.54
32 11 0.46
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (30 bp):
AAAAAAATTCGTGTTAAAAAAAATTGTTTC
Found at i:3660402 original size:18 final size:18
Alignment explanation
Indices: 3660379--3660414 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3660369 GCATAAATCC
3660379 AAATGAAACCAAAAGATT
1 AAATGAAACCAAAAGATT
3660397 AAATGAAACCAAAAGATT
1 AAATGAAACCAAAAGATT
3660415 TTCAATGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.17
Consensus pattern (18 bp):
AAATGAAACCAAAAGATT
Found at i:3661867 original size:86 final size:85
Alignment explanation
Indices: 3661621--3661877 Score: 383
Period size: 84 Copynumber: 3.0 Consensus size: 85
3661611 GGTCAATTTT
* *
3661621 TTGTCCGTTTTCTTTTCAAATTGATCAATTTTAGTACCTATCTTTTAGAATTTTAAATTTTAATC
1 TTGTCCATTTTCTTTTCAAATTGATCAATTTTAGTCCCTATCTTTTAGAATTTTAAATTTTAATC
*
3661686 TTGACTTGGTAACAGTTAAA
66 TTGACTTGGTAACAATTAAA
* *
3661706 TTGTCCAATAT-TTTTCAAATTGATCAA-TTTAGTCCCTATACTTTTAGAATTTTAAATTTTAAT
1 TTGTCCATTTTCTTTTCAAATTGATCAATTTTAGTCCCTAT-CTTTTAGAATTTTAAATTTTAAT
3661769 CTTGACTTGGTAACAATTAAA
65 CTTGACTTGGTAACAATTAAA
* * * *
3661790 TTGTCCATTTTCTTTTCAAATTAATCAATTTTAGTCCCTGTGTTTTTAGAATATTAAATTTTAAT
1 TTGTCCATTTTCTTTTCAAATTGATCAATTTTAGTCCCTAT-CTTTTAGAATTTTAAATTTTAAT
* *
3661855 CTTAACTTGGTAACACTTAAA
65 CTTGACTTGGTAACAATTAAA
3661876 TT
1 TT
3661878 CGTTTAATTA
Statistics
Matches: 155, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
83 11 0.07
84 68 0.44
85 23 0.15
86 53 0.34
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.47
Consensus pattern (85 bp):
TTGTCCATTTTCTTTTCAAATTGATCAATTTTAGTCCCTATCTTTTAGAATTTTAAATTTTAATC
TTGACTTGGTAACAATTAAA
Found at i:3663130 original size:15 final size:15
Alignment explanation
Indices: 3663107--3663165 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
3663097 TTTCTCATCG
* *
3663107 TTATTATACTTACTA
1 TTATAATACTTATTA
*
3663122 TTATAATACTGATTA
1 TTATAATACTTATTA
*
3663137 TCT-TAAAACTTATTA
1 T-TATAATACTTATTA
3663152 TTATAATACTTATT
1 TTATAATACTTATT
3663166 CCTCTTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 1 0.03
15 34 0.94
16 1 0.03
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (15 bp):
TTATAATACTTATTA
Found at i:3677385 original size:14 final size:14
Alignment explanation
Indices: 3677366--3677395 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3677356 AGGGATTTTT
*
3677366 TTATTTTTTTATTA
1 TTATTTATTTATTA
3677380 TTATTTATTTATTA
1 TTATTTATTTATTA
3677394 TT
1 TT
3677396 GTTATTTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTTATTTATTA
Found at i:3678040 original size:28 final size:28
Alignment explanation
Indices: 3677986--3678040 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
3677976 TCAAGCCCAT
3677986 TTTATTTCTTTTAAATTTAGCTGCATGA
1 TTTATTTCTTTTAAATTTAGCTGCATGA
* *
3678014 TTTATTTCTGTTTCAATTTGGCT-CATG
1 TTTATTTCT-TTTAAATTTAGCTGCATG
3678041 CTGCTGCGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.55
Consensus pattern (28 bp):
TTTATTTCTTTTAAATTTAGCTGCATGA
Found at i:3681643 original size:3 final size:3
Alignment explanation
Indices: 3681635--3681689 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
3681625 TAAATTGTAG
3681635 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3681683 TAA TAA T
1 TAA TAA T
3681690 GAAATTCGAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3682558 original size:8 final size:8
Alignment explanation
Indices: 3682545--3682585 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
3682535 GTTTTCTTTC
3682545 AAAATAAA
1 AAAATAAA
3682553 AAAATAAA
1 AAAATAAA
*
3682561 AAAACAAA
1 AAAATAAA
3682569 ATAAATAAA
1 A-AAATAAA
*
3682578 TAAATAAA
1 AAAATAAA
3682586 TAGACTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 23 0.79
9 6 0.21
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAATAAA
Found at i:3683736 original size:132 final size:129
Alignment explanation
Indices: 3683585--3683884 Score: 413
Period size: 132 Copynumber: 2.3 Consensus size: 129
3683575 GACTGATGGT
* * *
3683585 TTAAATCTGCTTCCCTACTACCTTAGAAAGATAAGATTCACCGTATTTGATCTGCTCCATTACTG
1 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTATTTGATCTCCTCCATTACTG
* * * * *
3683650 TTTAGGGAGACAGGATCTACATTCTTCAACCTACTCCACTGTTGCTCAGGGAGATAAGATTGGTG
66 CTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGACT--T-
3683715 GC
128 GC
* *
3683717 TTAAATCTGCTTCCCTACTACTTTGGGAAGATAAGATTCACCGTCTTTGATCTCCTCCATTACTG
1 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTATTTGATCTCCTCCATTACTG
* * * * *
3683782 CTTAGGGAGACAGGATTTACAATCTTCAACCTATTCCATTGCTGCTCAATGAGATATGACTTGC
66 CTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGACTTGC
*
3683846 TGT-AATTTGCTTCCCTACTACCTTGGGAAGATAAGATTC
1 T-TAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTC
3683885 GCCATCTTCG
Statistics
Matches: 150, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
129 37 0.25
130 2 0.01
132 111 0.74
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (129 bp):
TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTATTTGATCTCCTCCATTACTG
CTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGACTTGC
Found at i:3696229 original size:3 final size:3
Alignment explanation
Indices: 3696221--3696264 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
3696211 ATAAATTTTT
3696221 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3696265 GAAGTTTGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:3696383 original size:23 final size:23
Alignment explanation
Indices: 3696357--3696401 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3696347 AAAAAATAAA
3696357 TAAACAAAAACACA-AAACAAAAT
1 TAAA-AAAAACACAGAAACAAAAT
* *
3696380 TAAAAACAAGACAGAAACAAAA
1 TAAAAAAAACACAGAAACAAAA
3696402 AAAAAAGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.73, C:0.16, G:0.04, T:0.07
Consensus pattern (23 bp):
TAAAAAAAACACAGAAACAAAAT
Found at i:3699363 original size:21 final size:22
Alignment explanation
Indices: 3699323--3699364 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
3699313 TTATATACAT
*
3699323 ATATACGTGCATACATTTTTATA
1 ATATACGTACATA-ATTTTTATA
3699346 ATATACGTACAT-ATTTTTA
1 ATATACGTACATAATTTTTA
3699365 CAATTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
23 11 0.61
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (22 bp):
ATATACGTACATAATTTTTATA
Found at i:3699434 original size:12 final size:12
Alignment explanation
Indices: 3699417--3699451 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
3699407 TTCTATAATT
3699417 TATATACATATC
1 TATATACATATC
**
3699429 TATATATGTATC
1 TATATACATATC
3699441 TATATACATAT
1 TATATACATAT
3699452 TTTTTAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (12 bp):
TATATACATATC
Found at i:3699565 original size:20 final size:22
Alignment explanation
Indices: 3699526--3699565 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
3699516 TATATACATA
*
3699526 CATATATTTTCATTTTTTTTTG
1 CATATATTTTCATTTATTTTTG
3699548 CATA-ATTTT-ATTTATTTT
1 CATATATTTTCATTTATTTT
3699566 GTTTTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (22 bp):
CATATATTTTCATTTATTTTTG
Found at i:3706598 original size:14 final size:16
Alignment explanation
Indices: 3706567--3706598 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
3706557 GTGATCTTAT
3706567 GGGCAGCTAATCTGGC
1 GGGCAGCTAATCTGGC
3706583 GGGCAG-TAAT-TGGC
1 GGGCAGCTAATCTGGC
3706597 GG
1 GG
3706599 ATTATCCGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.19, C:0.19, G:0.44, T:0.19
Consensus pattern (16 bp):
GGGCAGCTAATCTGGC
Found at i:3722796 original size:21 final size:21
Alignment explanation
Indices: 3722758--3722802 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3722748 TTTTGTTAGA
* * *
3722758 AGATAAGTATATGTTTAAAAT
1 AGATAAGCATAGGGTTAAAAT
*
3722779 AGATAAGCATAGGGTTAAGAT
1 AGATAAGCATAGGGTTAAAAT
3722800 AGA
1 AGA
3722803 GTTTGTCACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (21 bp):
AGATAAGCATAGGGTTAAAAT
Found at i:3723041 original size:82 final size:83
Alignment explanation
Indices: 3722904--3723070 Score: 318
Period size: 82 Copynumber: 2.0 Consensus size: 83
3722894 GGGCCATTGA
3722904 TGCACTTAACCTGTCCCACAATCATCTGACAAGACTTATCCCGGTTTCCTTATCGAATC-TATCT
1 TGCACTTAACCTGTCCCACAATCATCTGACAAGACTTATCCCGGTTTCCTTATCGAATCATATCT
3722968 CAACTTGAAAGTTTGGAT
66 CAACTTGAAAGTTTGGAT
3722986 TGCACTTAACCTGTCCCACAATCATCTGACAAGACTTATCCCGGTTTCCTTATCGAATCTATATC
1 TGCACTTAACCTGTCCCACAATCATCTGACAAGACTTATCCCGGTTTCCTTATCGAATC-ATATC
3723051 TCAACTTGAAAGTTTGGAT
65 TCAACTTGAAAGTTTGGAT
3723070 T
1 T
3723071 TTTCTTACTT
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
82 59 0.71
84 24 0.29
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (83 bp):
TGCACTTAACCTGTCCCACAATCATCTGACAAGACTTATCCCGGTTTCCTTATCGAATCATATCT
CAACTTGAAAGTTTGGAT
Found at i:3724453 original size:28 final size:24
Alignment explanation
Indices: 3724399--3724454 Score: 58
Period size: 28 Copynumber: 2.2 Consensus size: 24
3724389 TTTTATGCGA
*
3724399 TAATAATTTATTTTATGTATATTT
1 TAATAATTTATTTTATGTATATAT
*
3724423 TAATATATTTATATATTCATGTTTATAT
1 TAATA-ATTTAT-T-TT-ATGTATATAT
3724451 TAAT
1 TAAT
3724455 TTTTTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
25 6 0.23
26 1 0.04
27 2 0.08
28 12 0.46
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (24 bp):
TAATAATTTATTTTATGTATATAT
Found at i:3725482 original size:8 final size:8
Alignment explanation
Indices: 3725469--3725511 Score: 59
Period size: 8 Copynumber: 5.1 Consensus size: 8
3725459 AGCTTTTACT
3725469 AATTTTTA
1 AATTTTTA
3725477 AATTTTTAA
1 AATTTTT-A
3725486 TAATTTTTA
1 -AATTTTTA
3725495 AATTTTTA
1 AATTTTTA
*
3725503 AATATTTA
1 AATTTTTA
3725511 A
1 A
3725512 GAAGGACCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 23 0.72
9 2 0.06
10 7 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
AATTTTTA
Found at i:3725509 original size:18 final size:18
Alignment explanation
Indices: 3725462--3725503 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
3725452 TGAGAAAAGC
*
3725462 TTTTACTAATTTTTAAAT
1 TTTTAATAATTTTTAAAT
3725480 TTTTAATAATTTTTAAAT
1 TTTTAATAATTTTTAAAT
3725498 TTTTAA
1 TTTTAA
3725504 ATATTTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTAATAATTTTTAAAT
Found at i:3727973 original size:19 final size:18
Alignment explanation
Indices: 3727926--3727973 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
3727916 TTTTTTATAA
*
3727926 TTAAAAATATTTTTTACTT
1 TTAAAAA-ATTTTTTAATT
* *
3727945 TTTAATAATTTTTTAAATT
1 TTAAAAAATTTTTT-AATT
3727964 TTAAAAAATT
1 TTAAAAAATT
3727974 AATTAATTGC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAAAAAATTTTTTAATT
Found at i:3730657 original size:13 final size:13
Alignment explanation
Indices: 3730641--3730666 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3730631 CTTTGCATAT
3730641 TGTCTTCAACAGG
1 TGTCTTCAACAGG
3730654 TGTCTTCAACAGG
1 TGTCTTCAACAGG
3730667 CTCGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:3731739 original size:13 final size:13
Alignment explanation
Indices: 3731723--3731748 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3731713 CTTTGCATAT
3731723 TGTCTTCAACAGG
1 TGTCTTCAACAGG
3731736 TGTCTTCAACAGG
1 TGTCTTCAACAGG
3731749 CTCGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:3732821 original size:13 final size:13
Alignment explanation
Indices: 3732805--3732830 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3732795 CTTTGCATAT
3732805 TGTCTTCAACAGG
1 TGTCTTCAACAGG
3732818 TGTCTTCAACAGG
1 TGTCTTCAACAGG
3732831 CTCGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:3733903 original size:13 final size:13
Alignment explanation
Indices: 3733887--3733912 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3733877 CTTTGCATAT
3733887 TGTCTTCAACAGG
1 TGTCTTCAACAGG
3733900 TGTCTTCAACAGG
1 TGTCTTCAACAGG
3733913 CTCGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:3734985 original size:13 final size:13
Alignment explanation
Indices: 3734969--3734994 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3734959 CTTTGCATAT
3734969 TGTCTTCAACAGG
1 TGTCTTCAACAGG
3734982 TGTCTTCAACAGG
1 TGTCTTCAACAGG
3734995 CTCGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:3740027 original size:19 final size:18
Alignment explanation
Indices: 3740003--3740042 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
3739993 AGTGGGAATT
3740003 AAAAAAAAAGGTGAAACAG
1 AAAAAAAAAGGTGAAA-AG
* *
3740022 AAAAAAAGAGTTGAAAAG
1 AAAAAAAAAGGTGAAAAG
3740040 AAA
1 AAA
3740043 CAGTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.70, C:0.03, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAAAAAAGGTGAAAAG
Found at i:3740195 original size:20 final size:16
Alignment explanation
Indices: 3740147--3740181 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
3740137 GAAATATTAT
3740147 TTCAAATAAATATCCA
1 TTCAAATAAATATCCA
3740163 TTCAAATAAATATCCA
1 TTCAAATAAATATCCA
3740179 TTC
1 TTC
3740182 TAACCAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (16 bp):
TTCAAATAAATATCCA
Found at i:3749493 original size:60 final size:60
Alignment explanation
Indices: 3749429--3749557 Score: 186
Period size: 60 Copynumber: 2.1 Consensus size: 60
3749419 CCTTGGGCAA
* * * * *
3749429 AATAGTGGGCAGAACCTTGGGCTGAATGCAGGTCAGTCTCTTGGGCCTGCTAGTGGACAG
1 AATAGTGGGCAGAACCTTGGGCGGAATGCAGGCCAGTCTCTTGGGCCTACTACTAGACAG
* **
3749489 AATAGTGGGCAGTATTTTGGGCGGAATGCAGGCCAGTCTCTTGGGCCTACTACTAGACAG
1 AATAGTGGGCAGAACCTTGGGCGGAATGCAGGCCAGTCTCTTGGGCCTACTACTAGACAG
3749549 AATAGTGGG
1 AATAGTGGG
3749558 TCGAATAGTA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (60 bp):
AATAGTGGGCAGAACCTTGGGCGGAATGCAGGCCAGTCTCTTGGGCCTACTACTAGACAG
Found at i:3751150 original size:45 final size:46
Alignment explanation
Indices: 3751077--3751339 Score: 444
Period size: 46 Copynumber: 5.8 Consensus size: 46
3751067 TACGTATGAT
*
3751077 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
3751120 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
3751165 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
3751211 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
3751257 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
3751303 CACTTATCACTTTGTCACATGATCAGATAAGTATAGC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
3751340 ACTTATCACT
Statistics
Matches: 211, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
43 10 0.05
44 5 0.02
45 65 0.31
46 131 0.62
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:3751295 original size:92 final size:91
Alignment explanation
Indices: 3751077--3751375 Score: 435
Period size: 92 Copynumber: 3.4 Consensus size: 91
3751067 TACGTATGAT
3751077 CACTTATCACTTGTC-C-C-TGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTGTCAC
1 CACTTATCACTT-TCTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCAC
3751138 TTGATCAGATAAGTGTAGCTAGGCTAC
65 TTGATCAGATAAGTGTAGCTAGGCTAC
* *
3751165 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
3751230 TGATCAGATAAGTGTAGCTAAGGCTAC
66 TGATCAGATAAGTGTAGCT-AGGCTAC
* *
3751257 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACA
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
3751322 TGATCAGATAA--GTA--TA-G----
66 TGATCAGATAAGTGTAGCTAGGCTAC
* *
3751339 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGC
3751376 ACTTATCACT
Statistics
Matches: 198, Mismatches: 8, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
82 35 0.18
86 1 0.01
87 2 0.01
88 14 0.07
89 1 0.01
90 22 0.11
91 44 0.22
92 79 0.40
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (91 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAGCTAGGCTAC
Found at i:3751344 original size:36 final size:36
Alignment explanation
Indices: 3751303--3751401 Score: 162
Period size: 36 Copynumber: 2.8 Consensus size: 36
3751293 CTAAGGCTAA
* *
3751303 CACTTATCACTTTGTCACATGATCAGATAAGTATAG
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAG
*
3751339 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTATCACTTGATCAGATAAGTATAG
*
3751375 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
3751402 AGTACTCAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTATAG
Found at i:3762414 original size:21 final size:21
Alignment explanation
Indices: 3762381--3762436 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
3762371 GTGGGGGTCT
**
3762381 ACACACCTGTGTGAAGGCCAC
1 ACACACCCATGTGAAGGCCAC
* **
3762402 ACACACCCATGTGGAGGGGAC
1 ACACACCCATGTGAAGGCCAC
*
3762423 ACACGCCCATGTGA
1 ACACACCCATGTGA
3762437 GCAGCCCGTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.32, G:0.27, T:0.12
Consensus pattern (21 bp):
ACACACCCATGTGAAGGCCAC
Found at i:3766828 original size:17 final size:17
Alignment explanation
Indices: 3766808--3767051 Score: 98
Period size: 17 Copynumber: 13.3 Consensus size: 17
3766798 TTTTTTTATT
3766808 CACGAGAATTTTTGAAA
1 CACGAGAATTTTTGAAA
* *
3766825 CACG-GAAATTTTCGATA
1 CACGAG-AATTTTTGAAA
* ***
3766842 CATGAGAATTTTTTTGA
1 CACGAGAATTTTTGAAA
* *
3766859 CACGAAAAATTTTGAAAA
1 CACGAGAATTTTTG-AAA
*
3766877 CACGA-AAATTTTGAAAA
1 CACGAGAATTTTTG-AAA
* * *
3766894 CATGAAAATTTTTTTAAAA
1 CACGAGAA--TTTTTGAAA
* *
3766913 CACGA-ATTTTTTTAAAAA
1 CACGAGA-ATTTTT-GAAA
3766931 CACGAGAATTTTTTGAAAA
1 CACGAGAA-TTTTTG-AAA
*
3766950 CACGAAAACATGAAAATTTTGAAAA
1 CACG-----A-G-AATTTTTG-AAA
* *
3766975 CATGAAAATTTTTGAAA
1 CACGAGAATTTTTGAAA
3766992 CACGAGAATTTTTTGAAAA
1 CACGAGAA-TTTTTG-AAA
* * *
3767011 CACGAAAATTTGTCAAA
1 CACGAGAATTTTTGAAA
3767028 CACGAGAATTTTTTGAAAA
1 CACGAGAA-TTTTTG-AAA
3767047 CACGA
1 CACGA
3767052 TAACATCAAA
Statistics
Matches: 173, Mismatches: 32, Indels: 42
0.70 0.13 0.17
Matches are distributed among these distances:
16 1 0.01
17 73 0.42
18 40 0.23
19 38 0.22
20 5 0.03
24 1 0.01
25 13 0.08
26 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (17 bp):
CACGAGAATTTTTGAAA
Found at i:3766878 original size:52 final size:51
Alignment explanation
Indices: 3766782--3766908 Score: 134
Period size: 52 Copynumber: 2.5 Consensus size: 51
3766772 TCCTCTTTTT
* * * * *
3766782 TTTTAAAAACACG-AAATTTTTTT-ATTCACGAGAATTTTTGAAACACGGAAA
1 TTTTGAAAACATGAAAATTTTTTTGA--CACGAAAAATTTTGAAACACGAAAA
* *
3766833 TTTTCG-ATACATGAGAATTTTTTTGACACGAAAAATTTTGAAAACACGAAAA
1 TTTT-GAAAACATGAAAATTTTTTTGACACGAAAAATTTTG-AAACACGAAAA
3766885 TTTTGAAAACATGAAAATTTTTTT
1 TTTTGAAAACATGAAAATTTTTTT
3766909 AAAACACGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
51 22 0.35
52 39 0.63
53 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (51 bp):
TTTTGAAAACATGAAAATTTTTTTGACACGAAAAATTTTGAAACACGAAAA
Found at i:3766912 original size:19 final size:19
Alignment explanation
Indices: 3766858--3767051 Score: 170
Period size: 18 Copynumber: 10.3 Consensus size: 19
3766848 AATTTTTTTG
*
3766858 ACACGAAAA-ATTTTGAAA
1 ACACGAAAATTTTTTGAAA
3766876 ACACGAAAA--TTTTGAAA
1 ACACGAAAATTTTTTGAAA
* *
3766893 ACATGAAAATTTTTTTAAA
1 ACACGAAAATTTTTTGAAA
* *
3766912 ACACG-AATTTTTTTAAAA
1 ACACGAAAATTTTTTGAAA
*
3766930 ACACGAGAATTTTTTGAAA
1 ACACGAAAATTTTTTGAAA
*
3766949 ACACGAAAACATGAAAATTTTGAAA
1 ACACG-AAA-AT----TTTTTGAAA
*
3766974 ACATGAAAA-TTTTTG-AA
1 ACACGAAAATTTTTTGAAA
*
3766991 ACACGAGAATTTTTTGAAA
1 ACACGAAAATTTTTTGAAA
* *
3767010 ACACGAAAA-TTTGT-CAA
1 ACACGAAAATTTTTTGAAA
*
3767027 ACACGAGAATTTTTTGAAA
1 ACACGAAAATTTTTTGAAA
3767046 ACACGA
1 ACACGA
3767052 TAACATCAAA
Statistics
Matches: 143, Mismatches: 20, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
17 35 0.24
18 44 0.31
19 44 0.31
20 2 0.01
21 2 0.01
23 1 0.01
24 3 0.02
25 12 0.08
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (19 bp):
ACACGAAAATTTTTTGAAA
Found at i:3766941 original size:37 final size:36
Alignment explanation
Indices: 3766858--3766957 Score: 121
Period size: 37 Copynumber: 2.8 Consensus size: 36
3766848 AATTTTTTTG
* *
3766858 ACACGAAAA-ATTTTGAAAACACGAAAATTTTGAAA
1 ACACGAAAATTTTTTGAAAACACGAAAATTTTAAAA
* * **
3766893 ACATGAAAATTTTTTTAAAACACGAATTTTTTTAAAA
1 ACACGAAAATTTTTTGAAAACACGAA-AATTTTAAAA
*
3766930 ACACGAGAATTTTTTGAAAACACGAAAA
1 ACACGAAAATTTTTTGAAAACACGAAAA
3766958 CATGAAAATT
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
35 8 0.15
36 14 0.27
37 30 0.58
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (36 bp):
ACACGAAAATTTTTTGAAAACACGAAAATTTTAAAA
Found at i:3766970 original size:81 final size:80
Alignment explanation
Indices: 3766872--3767021 Score: 230
Period size: 81 Copynumber: 1.9 Consensus size: 80
3766862 GAAAAATTTT
*
3766872 GAAAACACGAAAATTTTGAAAACATGAAAATTTTTTTAAAACACGA-ATTTTTTTAAAAACACGA
1 GAAAACACGAAAATTTTGAAAACATGAAAA--TTTTTAAAACACGAGAATTTTTTAAAAACACGA
*
3766936 GAATTTTTTGAAAACAC
64 AAATTTTTTGAAAACAC
* * *
3766953 GAAAACATGAAAATTTTGAAAACATGAAAATTTTTGAAACACGAGAATTTTTTGAAAACACGAAA
1 GAAAACACGAAAATTTTGAAAACATGAAAATTTTTAAAACACGAGAATTTTTTAAAAACACGAAA
3767018 ATTT
66 ATTT
3767022 GTCAAACACG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
79 13 0.21
80 21 0.33
81 29 0.46
ACGTcount: A:0.49, C:0.10, G:0.11, T:0.30
Consensus pattern (80 bp):
GAAAACACGAAAATTTTGAAAACATGAAAATTTTTAAAACACGAGAATTTTTTAAAAACACGAAA
ATTTTTTGAAAACAC
Found at i:3767137 original size:17 final size:17
Alignment explanation
Indices: 3767082--3767137 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
3767072 CGAGAATTTT
*
3767082 TTTTTGAAAACACAAAA
1 TTTTTGAAAACACGAAA
** * *
3767099 TTTTTTCAAACAAGGGAA
1 TTTTTGAAAAC-ACGAAA
3767117 -TTTTGAAAACACGAAA
1 TTTTTGAAAACACGAAA
3767133 TTTTT
1 TTTTT
3767138 TTTTTACTCA
Statistics
Matches: 28, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
16 4 0.14
17 21 0.75
18 3 0.11
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (17 bp):
TTTTTGAAAACACGAAA
Found at i:3767265 original size:18 final size:17
Alignment explanation
Indices: 3767224--3767272 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
3767214 TATTATTATT
3767224 ATTTTGAAACACGAGAA
1 ATTTTGAAACACGAGAA
*
3767241 ATTTTGAAGACATGA-AA
1 ATTTTGAA-ACACGAGAA
3767258 ATTTTTGAAACACGA
1 A-TTTTGAAACACGA
3767273 TTTTTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (17 bp):
ATTTTGAAACACGAGAA
Found at i:3767846 original size:75 final size:75
Alignment explanation
Indices: 3767753--3768086 Score: 555
Period size: 76 Copynumber: 4.4 Consensus size: 75
3767743 GGGCCGCTAA
* *
3767753 TTTT-AAAAAAGACAAAAATTAAAAATACCTCAGCGTGATCCGAGGCTCAACTCACCTCTATATT
1 TTTTGAAAAAAG-CAAAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATT
3767817 ATGAGTTGATT
65 ATGAGTTGATT
3767828 TTTTGAAAAAAGCAAAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATT
1 TTTTGAAAAAAGCAAAAA-TTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATT
3767893 ATGAGTTGA-T
65 ATGAGTTGATT
* * *
3767903 TTTTAAAAAAAACATAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATT
1 TTTTGAAAAAAGCA-AAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATT
3767968 ATGAGTTGATT
65 ATGAGTTGATT
3767979 TTTTGAAAAAAGCAAAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATT
1 TTTTGAAAAAAGCAAAAA-TTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATT
3768044 ATGAGTTGATT
65 ATGAGTTGATT
*
3768055 TTTTGAAAAAAGCAGAAATTTAAAAATACCTC
1 TTTTGAAAAAAGCA-AAAATTAAAAATACCTC
3768087 TTGAAAGAAA
Statistics
Matches: 244, Mismatches: 9, Indels: 11
0.92 0.03 0.04
Matches are distributed among these distances:
75 81 0.33
76 160 0.66
77 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (75 bp):
TTTTGAAAAAAGCAAAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTA
TGAGTTGATT
Found at i:3767968 original size:151 final size:151
Alignment explanation
Indices: 3767753--3768086 Score: 589
Period size: 151 Copynumber: 2.2 Consensus size: 151
3767743 GGGCCGCTAA
* * *
3767753 TTTTAAAAAAGACAAAAATTAAAAATACCTCAGCGTGATCCGAGGCTCAACTCACCTCTATATTA
1 TTTTAAAAAAAACAAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTATATTA
3767818 TGAGTTGATTTTTTGAAAAAAGCAAAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCA
66 TGAGTTGATTTTTTGAAAAAAGCAAAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCA
3767883 CCTCTGTATTATGAGTTGA-T
131 CCTCTGTATTATGAGTTGATT
*
3767903 TTTTAAAAAAAACATAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATT
1 TTTTAAAAAAAACA-AAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTATATT
3767968 ATGAGTTGATTTTTTGAAAAAAGCAAAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTC
65 ATGAGTTGATTTTTTGAAAAAAGCAAAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTC
3768033 ACCTCTGTATTATGAGTTGATT
130 ACCTCTGTATTATGAGTTGATT
* *
3768055 TTTTGAAAAAAGCAGAAATTTAAAAATACCTC
1 TTTTAAAAAAAACA-AAATTTAAAAATACCTC
3768087 TTGAAAGAAA
Statistics
Matches: 175, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
150 13 0.07
151 132 0.75
152 30 0.17
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (151 bp):
TTTTAAAAAAAACAAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTATATTA
TGAGTTGATTTTTTGAAAAAAGCAAAAATTTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCA
CCTCTGTATTATGAGTTGATT
Found at i:3768947 original size:1 final size:1
Alignment explanation
Indices: 3768937--3769031 Score: 91
Period size: 1 Copynumber: 95.0 Consensus size: 1
3768927 TTCATCTTGA
* * * * * * * *
3768937 TTTTTATTTTTCTTTTTTCTTTTTTGTTTTTTTATTTTTTTGTTTTTTTTGTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
3769002 TTTGTTTTTTTTGTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3769032 AGGCATAATA
Statistics
Matches: 72, Mismatches: 22, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:3768967 original size:27 final size:24
Alignment explanation
Indices: 3768937--3769031 Score: 109
Period size: 26 Copynumber: 3.7 Consensus size: 24
3768927 TTCATCTTGA
*
3768937 TTTTTATTTTTCTTTTTTCTTTTTTG
1 TTTTT-TTTTT-TTTTTTTTTTTTTG
*
3768963 TTTTTTTATTTTTTTGTTTTTTTTG
1 TTTTTTT-TTTTTTTTTTTTTTTTG
3768988 TTTTTTTTGTTTTTTTTGTTTTTTTTG
1 -TTTTTTT-TTTTTTTT-TTTTTTTTG
*
3769015 TTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTT
3769032 AGGCATAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.03
25 21 0.34
26 29 0.48
27 9 0.15
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.88
Consensus pattern (24 bp):
TTTTTTTTTTTTTTTTTTTTTTTG
Found at i:3768968 original size:9 final size:9
Alignment explanation
Indices: 3768937--3769031 Score: 122
Period size: 9 Copynumber: 10.4 Consensus size: 9
3768927 TTCATCTTGA
*
3768937 TTTTTATTT
1 TTTTTGTTT
*
3768946 TTCTTTTTTCT
1 TT-TTTGTT-T
3768957 TTTTTG-TT
1 TTTTTGTTT
*
3768965 TTTTT-ATT
1 TTTTTGTTT
3768973 TTTTTGTTT
1 TTTTTGTTT
3768982 TTTTTGTTT
1 TTTTTGTTT
3768991 TTTTTGTTT
1 TTTTTGTTT
3769000 TTTTTGTTT
1 TTTTTGTTT
3769009 TTTTTGTTTT
1 TTTTTG-TTT
3769019 TTTTTGTTT
1 TTTTTGTTT
3769028 TTTT
1 TTTT
3769032 AGGCATAATA
Statistics
Matches: 78, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
8 13 0.17
9 45 0.58
10 17 0.22
11 3 0.04
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.88
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:3773012 original size:4 final size:4
Alignment explanation
Indices: 3773003--3773040 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
3772993 ATGCATATGC
3773003 AATG AATG AATG AATG AATG AATG AATG AATG -ATG AAT
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AAT
3773041 TTCAATCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (4 bp):
AATG
Found at i:3773497 original size:5 final size:5
Alignment explanation
Indices: 3773489--3773527 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
3773479 GAAAAGAGAA
*
3773489 AAAAG AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
3773528 GACTATGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:3774861 original size:18 final size:16
Alignment explanation
Indices: 3774806--3774887 Score: 56
Period size: 17 Copynumber: 4.8 Consensus size: 16
3774796 AACACGAAAA
*
3774806 AAAAATTTAAAACACG
1 AAAATTTTAAAACACG
* * *
3774822 AGAATTTTAGAGACAAG
1 AAAATTTTA-AAACACG
3774839 AAAATTCTTAAATACACG
1 AAAATT-TTAAA-ACACG
*
3774857 AAAATTTTTGAAAACATG
1 AAAA-TTTT-AAAACACG
*
3774875 AGAATTTTGAAAA
1 AAAATTTT-AAAA
3774888 ACGGAATCCT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
16 7 0.13
17 20 0.38
18 20 0.38
19 5 0.10
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (16 bp):
AAAATTTTAAAACACG
Found at i:3774983 original size:50 final size:50
Alignment explanation
Indices: 3774904--3775029 Score: 141
Period size: 50 Copynumber: 2.5 Consensus size: 50
3774894 TCCTCTTTTT
* * *
3774904 TTTTAAAACACGAAATTTTTTTATTCACGAGAATTTTTG-AAACAC-AGAAA
1 TTTTAAAACATGAAATTTTTTTA-TCACGAAAAATTTTGAAAACACGA-AAA
*
3774954 TTTTAATACATGAGAATTTTTTTGA-CACGAAAAATTTTGAAAACACGAAAA
1 TTTTAAAACATGA-AATTTTTTT-ATCACGAAAAATTTTGAAAACACGAAAA
3775005 TTTTGAAAACATGAAAATTTTTTTA
1 TTTT-AAAACATG-AAATTTTTTTA
3775030 AAACACGAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
50 23 0.35
51 23 0.35
52 18 0.28
53 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (50 bp):
TTTTAAAACATGAAATTTTTTTATCACGAAAAATTTTGAAAACACGAAAA
Found at i:3775061 original size:37 final size:36
Alignment explanation
Indices: 3774978--3775077 Score: 121
Period size: 37 Copynumber: 2.8 Consensus size: 36
3774968 AATTTTTTTG
* *
3774978 ACACGAAAA-ATTTTGAAAACACGAAAATTTTGAAA
1 ACACGAAAATTTTTTGAAAACACGAAAATTTTAAAA
* * **
3775013 ACATGAAAATTTTTTTAAAACACGAATTTTTTAAAAA
1 ACACGAAAATTTTTTGAAAACACGAAAATTTT-AAAA
*
3775050 ACACGAGAATTTTTTGAAAACACGAAAA
1 ACACGAAAATTTTTTGAAAACACGAAAA
3775078 CATGAAAATT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
35 8 0.15
36 18 0.35
37 26 0.50
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (36 bp):
ACACGAAAATTTTTTGAAAACACGAAAATTTTAAAA
Found at i:3775095 original size:81 final size:79
Alignment explanation
Indices: 3774992--3775141 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 79
3774982 GAAAAATTTT
*
3774992 GAAAACACGAAAATTTTGAAAACATGAAAATTTTTTTAAAACACG-AATTTTTTAAAAAACACGA
1 GAAAACACGAAAATTTTGAAAACACGAAAA--TTTTTAAAACACGAAATTTTTT-AAAAACACGA
*
3775056 GAATTTTTTGAAAACAC
63 AAATTTTTTGAAAACAC
* * *
3775073 GAAAACATGAAAATTTTGAAAACACGAAAATTTTTGAAACACGATAATTTTTTGAAAACACGAAA
1 GAAAACACGAAAATTTTGAAAACACGAAAATTTTTAAAACACGA-AATTTTTTAAAAACACGAAA
3775138 ATTT
65 ATTT
3775142 GTCAAACACA
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
79 12 0.19
80 14 0.23
81 36 0.58
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (79 bp):
GAAAACACGAAAATTTTGAAAACACGAAAATTTTTAAAACACGAAATTTTTTAAAAACACGAAAA
TTTTTTGAAAACAC
Found at i:3775101 original size:98 final size:97
Alignment explanation
Indices: 3774984--3775182 Score: 276
Period size: 98 Copynumber: 2.0 Consensus size: 97
3774974 TTTGACACGA
* * * *
3774984 AAAATTTTGAAAACACGAAAA-TTTTGAAAACATGAAAATTTTTTTAAAACACG-AATTTTTTAA
1 AAAATTTTGAAAACACGAAAATTTTTG-AAACACGAAAATTTTTTGAAAACACGAAAATTTGT--
* *
3775047 AAAACACGAGAATTTTTTGAAAACACGAAAACATG
63 AAAACACAAGAATTTTTTGAAAACACGAAAACATC
* *
3775082 AAAATTTTGAAAACACGAAAATTTTTGAAACACGATAATTTTTTGAAAACACGAAAATTTGTCAA
1 AAAATTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTTTTGAAAACACGAAAATTTGTAAA
*
3775147 ACACAAGAATTTTTTGAAAACACGATAACATC
66 ACACAAGAATTTTTTGAAAACACGAAAACATC
3775179 AAAA
1 AAAA
3775183 AAAATCCACG
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
97 35 0.39
98 44 0.49
99 11 0.12
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.29
Consensus pattern (97 bp):
AAAATTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTTTTGAAAACACGAAAATTTGTAAA
ACACAAGAATTTTTTGAAAACACGAAAACATC
Found at i:3775126 original size:36 final size:36
Alignment explanation
Indices: 3775086--3775171 Score: 136
Period size: 36 Copynumber: 2.4 Consensus size: 36
3775076 AACATGAAAA
* * * *
3775086 TTTTGAAAACACGAAAATTTTTGAAACACGATAATT
1 TTTTGAAAACACGAAAATTTGTCAAACACAAGAATT
3775122 TTTTGAAAACACGAAAATTTGTCAAACACAAGAATT
1 TTTTGAAAACACGAAAATTTGTCAAACACAAGAATT
3775158 TTTTGAAAACACGA
1 TTTTGAAAACACGA
3775172 TAACATCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (36 bp):
TTTTGAAAACACGAAAATTTGTCAAACACAAGAATT
Found at i:3775131 original size:19 final size:18
Alignment explanation
Indices: 3774901--3775171 Score: 145
Period size: 17 Copynumber: 14.9 Consensus size: 18
3774891 GAATCCTCTT
*
3774901 TTTTTTTAAAACACGAAA
1 TTTTTTGAAAACACGAAA
* **
3774919 TTTTTT-TATTCACGAGAA
1 TTTTTTGAAAACACGA-AA
3774937 -TTTTTG-AAACACAGAAA
1 TTTTTTGAAAACAC-GAAA
* *
3774954 --TTTT-AATACATGAGAA
1 TTTTTTGAAAACACGA-AA
3774970 TTTTTTTG---ACACGAAA
1 -TTTTTTGAAAACACGAAA
**
3774986 AATTTTGAAAACACGAAA
1 TTTTTTGAAAACACGAAA
* *
3775004 -ATTTTGAAAACATGAAAA
1 TTTTTTGAAAACACG-AAA
*
3775022 TTTTTTTAAAACACG-AA
1 TTTTTTGAAAACACGAAA
*
3775039 TTTTTTAAAAAACACGAGAA
1 TTTTTT-GAAAACACGA-AA
3775059 TTTTTTGAAAACACGAAAACA
1 TTTTTTGAAAACACG--AA-A
*
3775080 TGAAAATTTTGAAAACACGAAA
1 T----TTTTTGAAAACACGAAA
*
3775102 ATTTTTG-AAACACGATAA
1 TTTTTTGAAAACACGA-AA
3775120 TTTTTTGAAAACACGAAA
1 TTTTTTGAAAACACGAAA
* * * *
3775138 ATTTGT-CAAACACAAGAA
1 TTTTTTGAAAACACGA-AA
3775156 TTTTTTGAAAACACGA
1 TTTTTTGAAAACACGA
3775172 TAACATCAAA
Statistics
Matches: 197, Mismatches: 28, Indels: 55
0.70 0.10 0.20
Matches are distributed among these distances:
15 7 0.04
16 12 0.06
17 58 0.29
18 54 0.27
19 38 0.19
20 9 0.05
21 3 0.02
22 1 0.01
23 2 0.01
25 13 0.07
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (18 bp):
TTTTTTGAAAACACGAAA
Found at i:3775383 original size:18 final size:17
Alignment explanation
Indices: 3775342--3775390 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
3775332 TATTATTATT
3775342 ATTTTGAAACACGAGAA
1 ATTTTGAAACACGAGAA
*
3775359 ATTTTGAAGACATGA-AA
1 ATTTTGAA-ACACGAGAA
3775376 ATTTTTGAAACACGA
1 A-TTTTGAAACACGA
3775391 TTTTTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (17 bp):
ATTTTGAAACACGAGAA
Found at i:3775957 original size:11 final size:11
Alignment explanation
Indices: 3775943--3776005 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 11
3775933 TGGGCTGAAC
3775943 CTGCTGGACTG
1 CTGCTGGACTG
*
3775954 CTGCACTGGGCCTG
1 CTG--CT-GGACTG
3775968 CTGCTGGACTG
1 CTGCTGGACTG
*
3775979 CTGCACTGGGCTTG
1 CTG--CTGGAC-TG
3775993 CTGCTGGACTG
1 CTGCTGGACTG
3776004 CT
1 CT
3776006 TCTTTCTTCT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
11 15 0.36
12 7 0.17
13 7 0.17
14 13 0.31
ACGTcount: A:0.08, C:0.30, G:0.35, T:0.27
Consensus pattern (11 bp):
CTGCTGGACTG
Found at i:3775970 original size:14 final size:14
Alignment explanation
Indices: 3775951--3775996 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
3775941 ACCTGCTGGA
3775951 CTGCTGCACTGGGC
1 CTGCTGCACTGGGC
*
3775965 CTGCTG--CT-GGA
1 CTGCTGCACTGGGC
3775976 CTGCTGCACTGGGC
1 CTGCTGCACTGGGC
*
3775990 TTGCTGC
1 CTGCTGC
3775997 TGGACTGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
11 8 0.31
12 2 0.08
13 2 0.08
14 14 0.54
ACGTcount: A:0.07, C:0.33, G:0.35, T:0.26
Consensus pattern (14 bp):
CTGCTGCACTGGGC
Found at i:3775971 original size:25 final size:25
Alignment explanation
Indices: 3775943--3776005 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
3775933 TGGGCTGAAC
3775943 CTGCTGGACTGCTGCACTGGGCCTG
1 CTGCTGGACTGCTGCACTGGGCCTG
*
3775968 CTGCTGGACTGCTGCACTGGGCTTG
1 CTGCTGGACTGCTGCACTGGGCCTG
3775993 CTGCTGGACTGCT
1 CTGCTGGACTGCT
3776006 TCTTTCTTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.08, C:0.30, G:0.35, T:0.27
Consensus pattern (25 bp):
CTGCTGGACTGCTGCACTGGGCCTG
Found at i:3776033 original size:24 final size:24
Alignment explanation
Indices: 3776001--3776068 Score: 88
Period size: 22 Copynumber: 3.0 Consensus size: 24
3775991 TGCTGCTGGA
3776001 CTGCTTCTTTCTTCTTCTTTTTTT
1 CTGCTTCTTTCTTCTTCTTTTTTT
3776025 CTGCTTCTTTCTTC--CTTTTTTT
1 CTGCTTCTTTCTTCTTCTTTTTTT
* * *
3776047 CTGCTGC-TTCTTTTTCTATTTT
1 CTGCTTCTTTCTTCTTCTTTTTT
3776069 GGTTTTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
21 5 0.13
22 14 0.36
23 6 0.15
24 14 0.36
ACGTcount: A:0.01, C:0.25, G:0.06, T:0.68
Consensus pattern (24 bp):
CTGCTTCTTTCTTCTTCTTTTTTT
Found at i:3776068 original size:25 final size:23
Alignment explanation
Indices: 3776001--3776068 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 23
3775991 TGCTGCTGGA
3776001 CTGCTTCTTTCTTCTTCTTTTTTT
1 CTGCTTCTTTCTTCTT-TTTTTTT
*
3776025 CTGCTTCTTTCTTCCTTTTTTTCTG
1 CTGCTTCTTTCTT-CTTTTTTT-TT
*
3776050 CTGCTTCTTT-TTCTATTTT
1 CTGCTTCTTTCTTCTTTTTT
3776069 GGTTTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.15
24 20 0.50
25 14 0.35
ACGTcount: A:0.01, C:0.25, G:0.06, T:0.68
Consensus pattern (23 bp):
CTGCTTCTTTCTTCTTTTTTTTT
Found at i:3776210 original size:3 final size:3
Alignment explanation
Indices: 3776204--3776263 Score: 52
Period size: 3 Copynumber: 19.3 Consensus size: 3
3776194 TTTTTTTTCT
* *
3776204 TTC TTC TTC TTC TTCC TTC TTTC TT- TCTC TT- TTT TTC TTC TTT TTCC
1 TTC TTC TTC TTC TT-C TTC -TTC TTC T-TC TTC TTC TTC TTC TTC TT-C
3776251 TTC TTC TTC TTC T
1 TTC TTC TTC TTC T
3776264 CCGTTCGTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
2 3 0.06
3 36 0.75
4 9 0.19
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:3776216 original size:13 final size:12
Alignment explanation
Indices: 3776198--3776263 Score: 66
Period size: 13 Copynumber: 5.5 Consensus size: 12
3776188 TCTTTTTTTT
3776198 TTTTCTTTCTTC
1 TTTTCTTTCTTC
*
3776210 TTCTTCTTCCTTC
1 TT-TTCTTTCTTC
3776223 -TTTCTTTC-TC
1 TTTTCTTTCTTC
3776233 TTTT-TTTCTTC
1 TTTTCTTTCTTC
*
3776244 TTTTTCCTTCTTC
1 -TTTTCTTTCTTC
3776257 TTCTTCT
1 TT-TTCT
3776264 CCGTTCGTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
10 6 0.14
11 11 0.25
12 9 0.20
13 18 0.41
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTCTTTCTTC
Found at i:3776946 original size:30 final size:30
Alignment explanation
Indices: 3776885--3776953 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
3776875 AGAAAATTTT
**
3776885 GTCAAAATGTAAATTTTACAAAGGTTTGGG
1 GTCAAAATGTAAATTTTACAAAGGTCAGGG
3776915 GTCAAAATGTAAATTTTGA-AAA-GTACAGGG
1 GTCAAAATGTAAATTTT-ACAAAGGT-CAGGG
3776945 GTCAAAATG
1 GTCAAAATG
3776954 CAATTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 2 0.06
30 32 0.91
31 1 0.03
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (30 bp):
GTCAAAATGTAAATTTTACAAAGGTCAGGG
Found at i:3786035 original size:33 final size:33
Alignment explanation
Indices: 3785998--3786064 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
3785988 AAAATAGTAA
3785998 AATATAAACATGCAAATAAACTCTGCAAAGCAT
1 AATATAAACATGCAAATAAACTCTGCAAAGCAT
3786031 AATATAAACATGCAAATAAACTCTGCAAAGCAT
1 AATATAAACATGCAAATAAACTCTGCAAAGCAT
3786064 A
1 A
3786065 CTTTTATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.21
Consensus pattern (33 bp):
AATATAAACATGCAAATAAACTCTGCAAAGCAT
Found at i:3793599 original size:26 final size:25
Alignment explanation
Indices: 3793570--3793619 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
3793560 ACCCAACAAA
* *
3793570 TTAACATAAATAAAATATAACAAATT
1 TTAAAATAAATAAAA-AAAACAAATT
*
3793596 TTAAAATAACTAAAAAAAACAAAT
1 TTAAAATAAATAAAAAAAACAAAT
3793620 AACATGCAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (25 bp):
TTAAAATAAATAAAAAAAACAAATT
Found at i:3794349 original size:21 final size:21
Alignment explanation
Indices: 3794284--3794366 Score: 85
Period size: 21 Copynumber: 3.7 Consensus size: 21
3794274 AATAATGTTA
*
3794284 ATGAAAAATTTAAAATAATAAC
1 ATGAAAAACTTAAAATAAT-AC
* *
3794306 AATGATAAACTTACAATAATAATGC
1 -ATGAAAAACTT--AA-AATAATAC
*
3794331 ATGATAAACTTAAAATAATAC
1 ATGAAAAACTTAAAATAATAC
3794352 ATGAAAAACTTAAAA
1 ATGAAAAACTTAAAA
3794367 AAAAAACAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
21 21 0.40
22 2 0.04
23 9 0.17
24 11 0.21
25 3 0.06
26 6 0.12
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (21 bp):
ATGAAAAACTTAAAATAATAC
Found at i:3801178 original size:20 final size:20
Alignment explanation
Indices: 3801153--3801202 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3801143 TGGCTTAAAA
3801153 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3801173 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3801190 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3801203 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3805807 original size:20 final size:20
Alignment explanation
Indices: 3805782--3805831 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3805772 TGGCTTAAAA
3805782 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3805802 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3805819 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3805832 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3821120 original size:20 final size:21
Alignment explanation
Indices: 3821078--3821121 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
3821068 CATTTAAAGC
*
3821078 ACAAAAAAACTAGATATGTCA
1 ACAAAAAAACTAGATATGCCA
3821099 ACAAAAAAA-TA-ATAATGCCA
1 ACAAAAAAACTAGAT-ATGCCA
3821119 ACA
1 ACA
3821122 TTCTCAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 10 0.48
21 9 0.43
ACGTcount: A:0.61, C:0.16, G:0.07, T:0.16
Consensus pattern (21 bp):
ACAAAAAAACTAGATATGCCA
Found at i:3821717 original size:29 final size:30
Alignment explanation
Indices: 3821682--3821740 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
3821672 TATGGTTTAA
*
3821682 TATGTAATTGTATACATGAACT-TTGATTT
1 TATGTAATTGTATACATGAAATATTGATTT
* *
3821711 TATGTAATTTTATATATGAAATATTGATTT
1 TATGTAATTGTATACATGAAATATTGATTT
3821741 GATCCAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (30 bp):
TATGTAATTGTATACATGAAATATTGATTT
Found at i:3822613 original size:15 final size:14
Alignment explanation
Indices: 3822593--3822626 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3822583 TATAAATATA
3822593 AAAATTAATGAATTT
1 AAAATTAA-GAATTT
*
3822608 AAAATTTAGAATTT
1 AAAATTAAGAATTT
3822622 AAAAT
1 AAAAT
3822627 GATAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (14 bp):
AAAATTAAGAATTT
Found at i:3824757 original size:19 final size:18
Alignment explanation
Indices: 3824733--3824776 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
3824723 ATTCTATTTA
3824733 AAAAAAATTAAAA-ATCTAT
1 AAAAAAA-TAAAATA-CTAT
*
3824752 AAAAAAATAAATTACTAT
1 AAAAAAATAAAATACTAT
3824770 AAAAAAA
1 AAAAAAA
3824777 AGATAAGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAAATAAAATACTAT
Found at i:3826200 original size:21 final size:20
Alignment explanation
Indices: 3826139--3826207 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
3826129 AGGATTAACT
3826139 CTAAACCCCTAA-CCTCTAAATC
1 CTAAACCCC-AACCCT-TAAA-C
*
3826161 CTAAA-CCCGACCC-TAAAC
1 CTAAACCCCAACCCTTAAAC
3826179 CTTAAACCCCAACCCTTAAAC
1 C-TAAACCCCAACCCTTAAAC
3826200 CGTAAACC
1 C-TAAACC
3826208 ATAAAAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 2 0.05
19 8 0.20
20 8 0.20
21 17 0.43
22 5 0.12
ACGTcount: A:0.38, C:0.42, G:0.03, T:0.17
Consensus pattern (20 bp):
CTAAACCCCAACCCTTAAAC
Found at i:3826946 original size:33 final size:34
Alignment explanation
Indices: 3826884--3826947 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
3826874 AAACACTCAG
*
3826884 TAATGTACCCGAAAAACTTAAAAATTATTTTAAA
1 TAATGTACCCAAAAAACTTAAAAATTATTTTAAA
3826918 TAATGTACCCAAAAAACTTAAAAA-TATTTT
1 TAATGTACCCAAAAAACTTAAAAATTATTTT
3826948 TTGCGGCCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (34 bp):
TAATGTACCCAAAAAACTTAAAAATTATTTTAAA
Found at i:3827007 original size:40 final size:41
Alignment explanation
Indices: 3826957--3827057 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 41
3826947 TTTGCGGCCC
* * *
3826957 TTTTAAAAAAACGCCGCTAAA-AATAGAGCATTAGCGGTGCT
1 TTTTCAAAAAACGCCGCTAAAGAACAGAGCATTAGCGGTG-A
* *
3826998 TTTTC-AAAAACGCCGCTAAAGACCCGAGCATTAGCGGTGA
1 TTTTCAAAAAACGCCGCTAAAGAACAGAGCATTAGCGGTGA
3827038 TTTTCAAAAAACGCCGCTAA
1 TTTTCAAAAAACGCCGCTAA
3827058 CGCCCCGAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
40 20 0.38
41 33 0.62
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.23
Consensus pattern (41 bp):
TTTTCAAAAAACGCCGCTAAAGAACAGAGCATTAGCGGTGA
Found at i:3827189 original size:40 final size:39
Alignment explanation
Indices: 3827096--3827190 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 39
3827086 TGTGCTTGGG
* * ** *
3827096 TTTTTTGCGGCGCTTTCTGAAAAATGCCGCTAATGCTAA
1 TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATGCTAA
* *
3827135 TTTTTAGCGTCGTTTTCCAAAAAACGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATGC-TAA
3827175 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
3827191 TTATCCAAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 30 0.64
40 17 0.36
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATGCTAA
Found at i:3827895 original size:42 final size:39
Alignment explanation
Indices: 3827843--3827923 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 39
3827833 AAAAATAAAA
3827843 AAATATTAAAAATATTTTAATTAATATTTCATAATTAAATTT
1 AAATATTAAAAATATTTT-ATTAATATTT-A-AATTAAATTT
* * *
3827885 AAATTTTAAAAATATTTTTTTACTATTTAAATTAAATTT
1 AAATATTAAAAATATTTTATTAATATTTAAATTAAATTT
3827924 GAACCAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 10 0.28
40 1 0.03
41 8 0.22
42 17 0.47
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (39 bp):
AAATATTAAAAATATTTTATTAATATTTAAATTAAATTT
Found at i:3840059 original size:63 final size:63
Alignment explanation
Indices: 3839957--3840084 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 63
3839947 ACACACATTC
* *
3839957 CACATAACCGTGCTGGGCTTGTTTTATCTGTAAGTAAATTTTGAACAACGCTAGTAAGCTTAT
1 CACATAACCGTGCTGGGCTTGTTTTATCTATAAGCAAATTTTGAACAACGCTAGTAAGCTTAT
* * *
3840020 CACATAATCGTGCTGGGCTTGTTTTATCTATAAGCAAATTTTGAGCAACGTTAGTAAGCTTAT
1 CACATAACCGTGCTGGGCTTGTTTTATCTATAAGCAAATTTTGAACAACGCTAGTAAGCTTAT
3840083 CA
1 CA
3840085 ATTTTGTCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (63 bp):
CACATAACCGTGCTGGGCTTGTTTTATCTATAAGCAAATTTTGAACAACGCTAGTAAGCTTAT
Found at i:3841282 original size:17 final size:18
Alignment explanation
Indices: 3841253--3841295 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
3841243 ATAAATAAAC
3841253 AATTAAA-TAAATTAG-A
1 AATTAAATTAAATTAGAA
3841269 AATTAAATTAAATTAGAA
1 AATTAAATTAAATTAGAA
3841287 AATTAAATT
1 AATTAAATT
3841296 CGAATTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 7 0.28
17 8 0.32
18 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (18 bp):
AATTAAATTAAATTAGAA
Found at i:3843626 original size:40 final size:39
Alignment explanation
Indices: 3843582--3843691 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 39
3843572 GTTTAGACAA
* *
3843582 AAAATGCCGTTAAAAATCGAGCATTAGCGGCGCTTTACA-T
1 AAAATGCCGCTAAAAAT-GAGCATTAGCGGCGC-TTACAGG
* * *
3843622 AAAATGCCGCTAGAGATTGAGCATTAGCGGCGCTTCCAGG
1 AAAATGCCGCTA-AAAATGAGCATTAGCGGCGCTTACAGG
**
3843662 AAAGCGCCGCTAAAAATGAGCATTAGCGGC
1 AAAATGCCGCTAAAAATGAGCATTAGCGGC
3843692 ATTTCTTGGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 20 0.34
40 36 0.61
41 3 0.05
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (39 bp):
AAAATGCCGCTAAAAATGAGCATTAGCGGCGCTTACAGG
Found at i:3843703 original size:39 final size:40
Alignment explanation
Indices: 3843639--3843717 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 40
3843629 CGCTAGAGAT
* * *
3843639 TGAGCATTAGCGGCGCTTCCAGG-AAAGCGCCGCTAAAAA
1 TGAGCATTAGCGGCACTTCCAGGAAAAACGCCGCAAAAAA
* **
3843678 TGAGCATTAGCGGCATTTCTTGGAAAAACGCCGCAAAAAA
1 TGAGCATTAGCGGCACTTCCAGGAAAAACGCCGCAAAAAA
3843718 CCTAAGCCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 19 0.58
40 14 0.42
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (40 bp):
TGAGCATTAGCGGCACTTCCAGGAAAAACGCCGCAAAAAA
Found at i:3844057 original size:14 final size:15
Alignment explanation
Indices: 3844027--3844059 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
3844017 AAGGTTTATA
3844027 GATTATGGAATTAGG
1 GATTATGGAATTAGG
3844042 GATTATGGAA-TAGG
1 GATTATGGAATTAGG
3844056 GATT
1 GATT
3844060 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:3844185 original size:7 final size:7
Alignment explanation
Indices: 3844162--3844213 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
3844152 TAAATAATAT
3844162 TTAGGGG
1 TTAGGGG
**
3844169 TTAGTAG
1 TTAGGGG
3844176 TTAGGGG
1 TTAGGGG
*
3844183 TTAAGGG
1 TTAGGGG
*
3844190 TTTGGGG
1 TTAGGGG
3844197 TTAGGGG
1 TTAGGGG
*
3844204 TTAGAGG
1 TTAGGGG
3844211 TTA
1 TTA
3844214 AGAGTTAGTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (7 bp):
TTAGGGG
Found at i:3844191 original size:21 final size:21
Alignment explanation
Indices: 3844166--3844221 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
3844156 TAATATTTAG
*
3844166 GGGTTAGTAGTTAGGGGTTAA
1 GGGTTAGGAGTTAGGGGTTAA
* *
3844187 GGGTTTGGGGTTAGGGGTT-A
1 GGGTTAGGAGTTAGGGGTTAA
*
3844207 GAGGTTAAGAGTTAG
1 G-GGTTAGGAGTTAG
3844222 TGATTTAAGG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.21, C:0.00, G:0.46, T:0.32
Consensus pattern (21 bp):
GGGTTAGGAGTTAGGGGTTAA
Found at i:3844196 original size:14 final size:14
Alignment explanation
Indices: 3844162--3844221 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
3844152 TAAATAATAT
*
3844162 TTAGGGGTT-AGTAG
1 TTAGGGGTTAAG-GG
3844176 TTAGGGGTTAAGGG
1 TTAGGGGTTAAGGG
* *
3844190 TTTGGGGTTAGGGG
1 TTAGGGGTTAAGGG
* *
3844204 TTAGAGGTTAAGAG
1 TTAGGGGTTAAGGG
3844218 TTAG
1 TTAG
3844222 TGATTTAAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
14 36 0.95
15 2 0.05
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAAGGG
Found at i:3844356 original size:14 final size:14
Alignment explanation
Indices: 3844337--3844370 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3844327 AGGGGTTAGG
3844337 GGTTTAGGATTTAA
1 GGTTTAGGATTTAA
* *
3844351 GGTTTATGATTTAG
1 GGTTTAGGATTTAA
3844365 GGTTTA
1 GGTTTA
3844371 AGAGATAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (14 bp):
GGTTTAGGATTTAA
Found at i:3844499 original size:129 final size:128
Alignment explanation
Indices: 3844249--3844500 Score: 276
Period size: 129 Copynumber: 1.9 Consensus size: 128
3844239 ATTCGGGGTC
* * *
3844249 GGGTTAGGGTTTAAGGTTTAGATTAATTAGTATTTTTTTAATTTATATATTAATTAAGTTCTTAT
1 GGGTTAGGGTTTAAGGCTTAGATTAATTAGTAGTTTTTTAATTTATATATTAAATAAGTTCTTAT
* ** ** ****
3844314 ATAATTGTAAAAGAGGGGTTAGGGGTTTAGGATTTAAGGTTTATGATTTAGGGTTTAAGAGATAG
66 ATAATTGTAAAAGAGAGAATAGAAGTTTA-GATTTAAAAAGTATGATTTA-GGTTTAAGAGATAG
* *
3844379 GGGTTAGGGTTTAAGGCTTAGATTAATTGGT-GTTTTTTAATTTATATATTAAATAATTTCTTAT
1 GGGTTAGGGTTTAAGGCTTAGATTAATTAGTAGTTTTTTAATTTATATATTAAATAAGTTCTTAT
* * *
3844443 ATAATTGTAAAAGAGATAATATTAATTTTA-ATTTATTAAAAGTATGATTATA-GTTTAA
66 ATAATTGTAAAAGAGAGAATA-GAAGTTTAGATTTA--AAAAGTATGATT-TAGGTTTAA
3844501 ATTATTTAAG
Statistics
Matches: 101, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
128 5 0.05
129 53 0.52
130 41 0.41
131 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.20, T:0.45
Consensus pattern (128 bp):
GGGTTAGGGTTTAAGGCTTAGATTAATTAGTAGTTTTTTAATTTATATATTAAATAAGTTCTTAT
ATAATTGTAAAAGAGAGAATAGAAGTTTAGATTTAAAAAGTATGATTTAGGTTTAAGAGATAG
Found at i:3851256 original size:28 final size:28
Alignment explanation
Indices: 3851224--3851278 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
3851214 TTGACTAGTG
3851224 TGGTCAGCAAATGCATTCACATTCTTTT
1 TGGTCAGCAAATGCATTCACATTCTTTT
3851252 TGGTCAGCAAATGCATTCACATTCTTT
1 TGGTCAGCAAATGCATTCACATTCTTT
3851279 CTCCTTCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (28 bp):
TGGTCAGCAAATGCATTCACATTCTTTT
Found at i:3852090 original size:17 final size:17
Alignment explanation
Indices: 3852061--3852108 Score: 80
Period size: 17 Copynumber: 2.8 Consensus size: 17
3852051 ATAAATAAAC
3852061 AATTAAA-TAAATTAGA
1 AATTAAATTAAATTAGA
3852077 AATTAAATTAAATTAGA
1 AATTAAATTAAATTAGA
3852094 AATTAAATTCAAATT
1 AATTAAATT-AAATT
3852109 TTGTAAACAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.23
17 18 0.60
18 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
AATTAAATTAAATTAGA
Found at i:3858764 original size:23 final size:22
Alignment explanation
Indices: 3858721--3858765 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
3858711 AAAATCTATT
*
3858721 TATATAATTTACTTTTAATTTA
1 TATATAATTTACTTATAATTTA
*
3858743 TATATAACTTTACTTATGATTTA
1 TATATAA-TTTACTTATAATTTA
3858766 AATTTATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TATATAATTTACTTATAATTTA
Found at i:3862204 original size:18 final size:18
Alignment explanation
Indices: 3862172--3862206 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3862162 GTTGAACTAT
3862172 ATTTTATAATTTTTAATA
1 ATTTTATAATTTTTAATA
3862190 ATTTT-TAATTATTTAAT
1 ATTTTATAATT-TTTAAT
3862207 TTGAACCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTATAATTTTTAATA
Found at i:3862723 original size:2 final size:2
Alignment explanation
Indices: 3862718--3862742 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3862708 AAAAAAAAAG
3862718 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
3862743 TTTTCGATTT
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3864748 original size:13 final size:14
Alignment explanation
Indices: 3864723--3864753 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
3864713 AAAGAAAAAC
3864723 AATATATATATATA
1 AATATATATATATA
3864737 AATATA-ATATATA
1 AATATATATATATA
3864750 AATA
1 AATA
3864754 AACTAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATATATATATATA
Found at i:3865069 original size:3 final size:3
Alignment explanation
Indices: 3865061--3865088 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3865051 GTATATATGT
3865061 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3865089 CAGCTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:3865124 original size:26 final size:26
Alignment explanation
Indices: 3865068--3865117 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
3865058 TGTATAATAA
* * *
3865068 TAATAATAATAATAATAATAACAGCT
1 TAATAACAATAACAATAATAACAACT
*
3865094 TAATAACAATAACAATATTAACAA
1 TAATAACAATAACAATAATAACAA
3865118 ACTAATATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.28
Consensus pattern (26 bp):
TAATAACAATAACAATAATAACAACT
Found at i:3866381 original size:35 final size:35
Alignment explanation
Indices: 3866335--3866404 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
3866325 CTCACTGGGT
3866335 GTAATGTTTTATTTCTTTGAAATCAAAATGTTTTA
1 GTAATGTTTTATTTCTTTGAAATCAAAATGTTTTA
3866370 GTAATGTTTTATTTCTTTGAAATCAAAATGTTTTA
1 GTAATGTTTTATTTCTTTGAAATCAAAATGTTTTA
3866405 TCATTTTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (35 bp):
GTAATGTTTTATTTCTTTGAAATCAAAATGTTTTA
Found at i:3868423 original size:16 final size:16
Alignment explanation
Indices: 3868390--3868423 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3868380 TGCATTTGTT
* *
3868390 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
3868406 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
3868422 AA
1 AA
3868424 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:3871244 original size:21 final size:21
Alignment explanation
Indices: 3871218--3871258 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3871208 AGACGAGCAA
* *
3871218 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
3871239 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
3871259 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:3879285 original size:23 final size:22
Alignment explanation
Indices: 3879242--3879286 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
3879232 AAAATCTATT
*
3879242 TATATAATTTACTTTTAATTTA
1 TATATAATTTACTTATAATTTA
*
3879264 TATATAACTTTACTTATGATTTA
1 TATATAA-TTTACTTATAATTTA
3879287 AATTTATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TATATAATTTACTTATAATTTA
Found at i:3880719 original size:12 final size:12
Alignment explanation
Indices: 3880702--3880728 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3880692 GAGATATTTC
3880702 ACTAGTCTATGG
1 ACTAGTCTATGG
3880714 ACTAGTCTATGG
1 ACTAGTCTATGG
3880726 ACT
1 ACT
3880729 TAACCGAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (12 bp):
ACTAGTCTATGG
Found at i:3881895 original size:48 final size:48
Alignment explanation
Indices: 3881839--3881947 Score: 191
Period size: 48 Copynumber: 2.3 Consensus size: 48
3881829 TGAGACAAAG
*
3881839 TTGAAAATTCATCCACAATGGTGGAATATTTACGTACTACCAACTAAA
1 TTGAAAATTCATCCACAATGGTAGAATATTTACGTACTACCAACTAAA
* *
3881887 TTGAAAATTCATCCATAATGGTAGAATATTTACGTACTAGCAACTAAA
1 TTGAAAATTCATCCACAATGGTAGAATATTTACGTACTACCAACTAAA
3881935 TTGAAAATTCATC
1 TTGAAAATTCATC
3881948 AAAAATTAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (48 bp):
TTGAAAATTCATCCACAATGGTAGAATATTTACGTACTACCAACTAAA
Found at i:3882649 original size:3 final size:3
Alignment explanation
Indices: 3882641--3882674 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
3882631 AATCATTATG
* *
3882641 ATA ATA ATA ATG ATA ATT ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
3882675 GTATTATAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:3882653 original size:12 final size:12
Alignment explanation
Indices: 3882638--3882674 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
3882628 CATAATCATT
3882638 ATGATAATAATA
1 ATGATAATAATA
*
3882650 ATGATAATTATA
1 ATGATAATAATA
*
3882662 ATAATAATAATA
1 ATGATAATAATA
3882674 A
1 A
3882675 GTATTATAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
ATGATAATAATA
Found at i:3882680 original size:21 final size:21
Alignment explanation
Indices: 3882629--3882693 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
3882619 CTAACCTTCC
* *
3882629 ATAATCATTATGATAATAATA
1 ATAATAATTATAATAATAATA
*
3882650 ATGATAATTATAATAATAATA
1 ATAATAATTATAATAATAATA
* *
3882671 ATAAGT-ATTATAAGAAAAATA
1 ATAA-TAATTATAATAATAATA
3882692 AT
1 AT
3882694 CTACAGAAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (21 bp):
ATAATAATTATAATAATAATA
Done.