Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 281 of 320
Found at i:90719460 original size:2 final size:2
Alignment explanation
Indices: 90719447--90719490 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
90719437 TCAAGAGATC
* *
90719447 AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
90719489 AG
1 AG
90719491 GAAAAACTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.52, C:0.02, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:90719600 original size:47 final size:47
Alignment explanation
Indices: 90719531--90719624 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
90719521 ATATTAAGAT
90719531 AAACTAACCAAATTACTAGAAATAAAGAAAAATAACTAATTGACCTC
1 AAACTAACCAAATTACTAGAAATAAAGAAAAATAACTAATTGACCTC
** *
90719578 AAACTAATTAAATTTCTAGAAATAAAGAAAAATAACTAATTGACCTC
1 AAACTAACCAAATTACTAGAAATAAAGAAAAATAACTAATTGACCTC
90719625 TATACAATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.54, C:0.15, G:0.06, T:0.24
Consensus pattern (47 bp):
AAACTAACCAAATTACTAGAAATAAAGAAAAATAACTAATTGACCTC
Found at i:90722107 original size:15 final size:16
Alignment explanation
Indices: 90722069--90722101 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
90722059 AGATTTGTAA
90722069 AATATATAAATATTTT
1 AATATATAAATATTTT
90722085 AATATATAAA-ATTTT
1 AATATATAAATATTTT
90722100 AA
1 AA
90722102 AGTATATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATATAAATATTTT
Found at i:90728974 original size:7 final size:7
Alignment explanation
Indices: 90728964--90728989 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
90728954 TAGTAATAAC
90728964 AAATATA
1 AAATATA
90728971 AAATATA
1 AAATATA
90728978 AAATATA
1 AAATATA
90728985 AAATA
1 AAATA
90728990 GGCCATATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATATA
Found at i:90734056 original size:5 final size:5
Alignment explanation
Indices: 90734043--90734087 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
90734033 CCGACCCTAT
* * *
90734043 TCTCA TCTCG TCTCC TCTCG TCTCC TCTCG TCATCG TCTCG TCTC
1 TCTCG TCTCG TCTCG TCTCG TCTCG TCTCG TC-TCG TCTCG TCTC
90734088 CCCTTGTCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.04, C:0.44, G:0.11, T:0.40
Consensus pattern (5 bp):
TCTCG
Found at i:90734061 original size:10 final size:10
Alignment explanation
Indices: 90734043--90734088 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
90734033 CCGACCCTAT
*
90734043 TCTCATCTCG
1 TCTCCTCTCG
90734053 TCTCCTCTCG
1 TCTCCTCTCG
90734063 TCTCCTCTCG
1 TCTCCTCTCG
*
90734073 TCATCGTCTCG
1 TC-TCCTCTCG
90734084 TCTCC
1 TCTCC
90734089 CCTTGTCACG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
10 23 0.72
11 9 0.28
ACGTcount: A:0.04, C:0.46, G:0.11, T:0.39
Consensus pattern (10 bp):
TCTCCTCTCG
Found at i:90739772 original size:46 final size:46
Alignment explanation
Indices: 90739705--90739967 Score: 236
Period size: 46 Copynumber: 5.7 Consensus size: 46
90739695 TGCAACCCAC
* *
90739705 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCAT
* * *
90739751 CCATAAGTAAACTCAGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GCC--GTTCGCAT
* * * *
90739801 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGCCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCAT
** *
90739844 CCATAAGTGAACTCATACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GCC--GTTCGCAT
* * * *
90739894 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCAT
90739937 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
90739968 TTCGAATGCC
Statistics
Matches: 171, Mismatches: 28, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
42 6 0.04
43 6 0.04
44 7 0.04
45 4 0.02
46 78 0.46
47 47 0.27
48 4 0.02
49 7 0.04
50 6 0.04
51 6 0.04
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCAT
Found at i:90739820 original size:93 final size:93
Alignment explanation
Indices: 90739712--90739967 Score: 440
Period size: 93 Copynumber: 2.8 Consensus size: 93
90739702 CACCCATAAG
* * *
90739712 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTAAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
90739777 ACGAGCTCAGATGCCTAGTTACATCTCA
66 ACGAGCTCAGATGCCTAGTTACATCTCA
* * *
90739805 CGAACTCGGACTCAACTCAATGAGTTCGGCCGTTCGCATCCATAAGTGAACTCATACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
90739870 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCAGATGCCTAGTTACATCTCA
*
90739898 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
90739963 ACGAG
66 ACGAG
90739968 TTCGAATGCC
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 153 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCA
Found at i:90739911 original size:47 final size:47
Alignment explanation
Indices: 90739760--90739927 Score: 175
Period size: 47 Copynumber: 3.6 Consensus size: 47
90739750 TCCATAAGTA
*
90739760 AACTCAGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCACG
1 AACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACG
* * * * * *
90739807 AACTCGGACTCAACTCAATGAGTTC-G--GCC--GTTCGCATCCATAAGTG
1 AACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-CG
*
90739853 AACTCATACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACG
1 AACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACG
* *
90739900 AACTCGGACTCAACTCAACGAGTTCGGA
1 AACTCAGACTCAACTCAACGAGCTCGGA
90739928 CGTTCGCATC
Statistics
Matches: 96, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 4 0.04
45 2 0.02
46 23 0.24
47 49 0.51
48 2 0.02
49 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (47 bp):
AACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACG
Found at i:90745672 original size:35 final size:35
Alignment explanation
Indices: 90745626--90745696 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
90745616 AATCAATGCA
90745626 AGCATGTTTGACATGTTAAAAACAAGTTTTAAAAC
1 AGCATGTTTGACATGTTAAAAACAAGTTTTAAAAC
90745661 AGCATGTTTGACATGTTAAAAACAAGTTTTAAAAC
1 AGCATGTTTGACATGTTAAAAACAAGTTTTAAAAC
90745696 A
1 A
90745697 TGAATAGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (35 bp):
AGCATGTTTGACATGTTAAAAACAAGTTTTAAAAC
Found at i:90752531 original size:16 final size:17
Alignment explanation
Indices: 90752494--90752534 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
90752484 TTTCCATTTA
*
90752494 TCTATTTTTTCATCCCT
1 TCTAATTTTTCATCCCT
*
90752511 T-TAATTTTTCAT-CTT
1 TCTAATTTTTCATCCCT
90752526 TCTAATTTT
1 TCTAATTTT
90752535 CTTTACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 17 0.81
17 1 0.05
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (17 bp):
TCTAATTTTTCATCCCT
Found at i:90757703 original size:36 final size:37
Alignment explanation
Indices: 90757663--90757740 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 37
90757653 AAATTAAATT
*
90757663 TCACATTTTATCTTTAAGATAATTTTT-ATTTAAAAA
1 TCACATTTTATATTTAAGATAATTTTTAATTTAAAAA
* * * *
90757699 TCACATTTTTTATTTAATATATTTTTTAATTTCAAAA
1 TCACATTTTATATTTAAGATAATTTTTAATTTAAAAA
90757736 T-ACAT
1 TCACAT
90757741 AATGACAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 27 0.75
37 9 0.25
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (37 bp):
TCACATTTTATATTTAAGATAATTTTTAATTTAAAAA
Found at i:90758311 original size:3 final size:3
Alignment explanation
Indices: 90758303--90758335 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
90758293 TGTATTAACA
90758303 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
90758336 CCATTGAGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:90764065 original size:22 final size:22
Alignment explanation
Indices: 90764037--90764079 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
90764027 ATATAAAAAT
90764037 AAAAATACCTTCAAAATAATAG
1 AAAAATACCTTCAAAATAATAG
** *
90764059 AAAAATATTTTTAAAATAATA
1 AAAAATACCTTCAAAATAATA
90764080 TTTGTTACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAAATACCTTCAAAATAATAG
Found at i:90777404 original size:17 final size:16
Alignment explanation
Indices: 90777384--90777423 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
90777374 ATAACTTTTT
*
90777384 ATTTTTATATATTTTAA
1 ATTTTTA-AGATTTTAA
90777401 ATTTGTTAAGATTTTAA
1 ATTT-TTAAGATTTTAA
90777418 ATTTTT
1 ATTTTT
90777424 TGAATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 16 0.76
18 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (16 bp):
ATTTTTAAGATTTTAA
Found at i:90779725 original size:24 final size:22
Alignment explanation
Indices: 90779678--90779719 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
90779668 TGCTAGATCC
*
90779678 AATTTTTTTATTATATCAAGTA
1 AATTTTTTTATTATATAAAGTA
*
90779700 AATTTTTTTATTTTATAAAG
1 AATTTTTTTATTATATAAAG
90779720 ATTAAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (22 bp):
AATTTTTTTATTATATAAAGTA
Found at i:90782375 original size:21 final size:21
Alignment explanation
Indices: 90782349--90782389 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
90782339 ATCTGCTCAA
* *
90782349 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
90782370 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
90782390 TCGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:90800433 original size:39 final size:39
Alignment explanation
Indices: 90800374--90800452 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
90800364 AAGTAGATTC
*
90800374 CATAGCTATCCACCTATTACTCTACCATGTTCAGAAACA
1 CATAACTATCCACCTATTACTCTACCATGTTCAGAAACA
90800413 CATAACTATCCACCTATTACTCTACCATGTTCAGAAACA
1 CATAACTATCCACCTATTACTCTACCATGTTCAGAAACA
90800452 C
1 C
90800453 TTAGCACTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.34, C:0.32, G:0.06, T:0.28
Consensus pattern (39 bp):
CATAACTATCCACCTATTACTCTACCATGTTCAGAAACA
Found at i:90801839 original size:18 final size:19
Alignment explanation
Indices: 90801798--90801840 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
90801788 TCAGTTTTAA
*
90801798 TATTATGTACTTTTAGTTT
1 TATTATATACTTTTAGTTT
* *
90801817 AATTATATA-TTTTATTTT
1 TATTATATACTTTTAGTTT
90801835 TATTAT
1 TATTAT
90801841 TAATTCCAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (19 bp):
TATTATATACTTTTAGTTT
Found at i:90802527 original size:18 final size:19
Alignment explanation
Indices: 90802481--90802527 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
90802471 ATATTATAAA
* *
90802481 AAACTCAAATTCAAGTTTG
1 AAACTCAATTTAAAGTTTG
* *
90802500 AAATTAAATTTAAAG-TTG
1 AAACTCAATTTAAAGTTTG
90802518 AAACTCAATT
1 AAACTCAATT
90802528 CCACAATTGT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.34
Consensus pattern (19 bp):
AAACTCAATTTAAAGTTTG
Found at i:90808921 original size:12 final size:12
Alignment explanation
Indices: 90808904--90808948 Score: 90
Period size: 12 Copynumber: 3.8 Consensus size: 12
90808894 TAGTTAGAAA
90808904 AAGAAATTGTTG
1 AAGAAATTGTTG
90808916 AAGAAATTGTTG
1 AAGAAATTGTTG
90808928 AAGAAATTGTTG
1 AAGAAATTGTTG
90808940 AAGAAATTG
1 AAGAAATTG
90808949 GGTAAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.31
Consensus pattern (12 bp):
AAGAAATTGTTG
Found at i:90819319 original size:37 final size:37
Alignment explanation
Indices: 90819278--90819352 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
90819268 ATCATCTCAG
90819278 TTAGAAGCTGGTAAGCTTCATCAATTTTATCATTCTT
1 TTAGAAGCTGGTAAGCTTCATCAATTTTATCATTCTT
90819315 TTAGAAGCTGGTAAGCTTCATCAATTTTATCATTCTT
1 TTAGAAGCTGGTAAGCTTCATCAATTTTATCATTCTT
90819352 T
1 T
90819353 CAAAGCTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (37 bp):
TTAGAAGCTGGTAAGCTTCATCAATTTTATCATTCTT
Found at i:90831873 original size:27 final size:27
Alignment explanation
Indices: 90831835--90831889 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
90831825 TTGTGGGGTG
90831835 TATGTGTTTTTTATATCTTCATAGAAT
1 TATGTGTTTTTTATATCTTCATAGAAT
90831862 TATGTGTTTTTTATATCTTCATAGAAT
1 TATGTGTTTTTTATATCTTCATAGAAT
90831889 T
1 T
90831890 TGACTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.11, T:0.56
Consensus pattern (27 bp):
TATGTGTTTTTTATATCTTCATAGAAT
Found at i:90831899 original size:27 final size:27
Alignment explanation
Indices: 90831841--90831900 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
90831831 GGTGTATGTG
**
90831841 TTTTTTATATCTTCATAGAATTATGTG
1 TTTTTTATATCTTCATAGAATTATGAC
90831868 TTTTTTATATCTTCATAGAATT-TGAC
1 TTTTTTATATCTTCATAGAATTATGAC
90831894 TCTTTTT
1 T-TTTTT
90831901 TTTCTGGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.23, C:0.10, G:0.08, T:0.58
Consensus pattern (27 bp):
TTTTTTATATCTTCATAGAATTATGAC
Found at i:90835898 original size:14 final size:15
Alignment explanation
Indices: 90835877--90835910 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
90835867 TTTAATTTTC
90835877 AAAA-TTTAAAAA-A
1 AAAATTTTAAAAATA
90835890 AAAATTTTAAAAATA
1 AAAATTTTAAAAATA
90835905 AAAATT
1 AAAATT
90835911 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 8 0.42
15 7 0.37
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTTTAAAAATA
Found at i:90835940 original size:30 final size:31
Alignment explanation
Indices: 90835906--90836007 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
90835896 TTAAAAATAA
*
90835906 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
90835936 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
90835966 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
90835996 AAATTTCATTTT
1 AAATTTCATTTT
90836008 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:90836289 original size:10 final size:10
Alignment explanation
Indices: 90836270--90836319 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
90836260 TTTTTCGAAG
*
90836270 GAAAAAAGAA
1 GAAAAGAGAA
90836280 GAAAAGAGAA
1 GAAAAGAGAA
90836290 GAAAAGAGAA
1 GAAAAGAGAA
* *
90836300 -AGAGGAGAA
1 GAAAAGAGAA
90836309 GAAAAGA-AA
1 GAAAAGAGAA
90836318 GA
1 GA
90836320 GTACCGACGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAGAGAA
Found at i:90836320 original size:17 final size:19
Alignment explanation
Indices: 90836273--90836315 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
90836263 TTCGAAGGAA
90836273 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
90836291 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
90836310 AAAAGA
1 AAAAGA
90836316 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:90836381 original size:3 final size:3
Alignment explanation
Indices: 90836375--90836446 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
90836365 GCTAGACTTT
*
90836375 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAA -AA GAG GAA GAA GAAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA G-AA
*
90836422 GAAA GAA -AA -AA GAA AAA GAA -AA GAA
1 G-AA GAA GAA GAA GAA GAA GAA GAA GAA
90836447 ATAATAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:90836393 original size:10 final size:10
Alignment explanation
Indices: 90836378--90836406 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
90836368 AGACTTTGAA
90836378 GAAGAAGAAG
1 GAAGAAGAAG
90836388 GAAGAAGAAG
1 GAAGAAGAAG
90836398 GAAGAAGAA
1 GAAGAAGAA
90836407 AAGAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:90836393 original size:13 final size:13
Alignment explanation
Indices: 90836375--90836420 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
90836365 GCTAGACTTT
90836375 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
90836388 GAAGAAGAAGGAA-
1 GAAGAAGAA-GAAG
90836401 GAAGAA-AAG-AG
1 GAAGAAGAAGAAG
90836412 GAAGAAGAA
1 GAAGAAGAA
90836421 AGAAAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 4 0.13
13 15 0.50
14 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Found at i:90836777 original size:21 final size:22
Alignment explanation
Indices: 90836731--90836779 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
90836721 CCAGCCCAGC
* *
90836731 AAAAAAAAAGAGAAAAGAGAGA
1 AAAAAAAAAGAAAAAACAGAGA
90836753 AAAAGAAAAAGAAAAAACA-AGA
1 AAAA-AAAAAGAAAAAACAGAGA
90836775 AAAAA
1 AAAAA
90836780 GAGGTTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 11 0.46
23 12 0.50
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAGAAAAAACAGAGA
Found at i:90836947 original size:16 final size:17
Alignment explanation
Indices: 90836921--90836958 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
90836911 TTATATTTAT
90836921 ATTTTTAATTTAATTTG
1 ATTTTTAATTTAATTTG
* *
90836938 ATTTTT-ATTTTATTTT
1 ATTTTTAATTTAATTTG
90836954 ATTTT
1 ATTTT
90836959 AAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTAATTTAATTTG
Found at i:90837155 original size:18 final size:18
Alignment explanation
Indices: 90837111--90837628 Score: 274
Period size: 17 Copynumber: 29.8 Consensus size: 18
90837101 TCAATAATCC
*
90837111 TCGTGCTTTT-AAAAATTC
1 TCGTG-TTTTCAAAAATTT
* *
90837129 TCATG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
*
90837146 TCGTGTTTTC-AAAATTC
1 TCGTGTTTTCAAAAATTT
*
90837163 TAGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
*
90837180 TCTTGTTTTCAGAAAAAATTT
1 TCGTGTTTTC---AAAAATTT
*
90837201 TCGTGTTTT-ATAAATTT
1 TCGTGTTTTCAAAAATTT
* * **
90837218 CCGTATTTTCAAAAA-AA
1 TCGTGTTTTCAAAAATTT
*
90837235 TCATGTCTTTCAAAAATTT
1 TCGTGT-TTTCAAAAATTT
**
90837254 TCGTGTTTTCAAAAAAAATGA
1 TCGTGTTTTC---AAAAATTT
*
90837275 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* ***
90837292 CCGTGTTAAAAAAAATCTT
1 TCGTGTTTTCAAAAAT-TT
*
90837311 T-GTATTTTCAAAAAATTT
1 TCGTGTTTTC-AAAAATTT
*
90837329 TCGTG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
90837346 TCGTGTTTTCAAAAA-TT
1 TCGTGTTTTCAAAAATTT
*
90837363 TCG-GTGTTTCAAAGATTT
1 TCGTGT-TTTCAAAAATTT
*
90837381 TCGTGTTTTCAAAAA-CT
1 TCGTGTTTTCAAAAATTT
* ***
90837398 CCGGTGATTTT-AAAAAAAA
1 TC-GTG-TTTTCAAAAATTT
*
90837417 TCGT-TTTCTAAAAAATTT
1 TCGTGTTT-TCAAAAATTT
*
90837435 CCGTG-TTTC-AAAATTT
1 TCGTGTTTTCAAAAATTT
90837451 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
90837468 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
*
90837485 TCGTATTTT---AAATTT
1 TCGTGTTTTCAAAAATTT
*** **
90837500 T--T-TTAAGAAAAAAAT
1 TCGTGTTTTCAAAAATTT
* *
90837515 T-GTG-TTTCAAAAAATG
1 TCGTGTTTTCAAAAATTT
* *
90837531 TCTTGTTTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
* *
90837548 TCGTG-TTTCAAAAAATG
1 TCGTGTTTTCAAAAATTT
90837565 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
**
90837582 TCGTGTTTT-TGAAATTT
1 TCGTGTTTTCAAAAATTT
* *
90837599 CCGTG-TTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
90837615 TCGTGTTTT-AAAAA
1 TCGTGTTTTCAAAAA
90837629 AAAAACTTTC
Statistics
Matches: 384, Mismatches: 77, Indels: 79
0.71 0.14 0.15
Matches are distributed among these distances:
12 2 0.01
13 1 0.00
15 12 0.03
16 47 0.12
17 175 0.46
18 95 0.25
19 22 0.06
20 4 0.01
21 26 0.07
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:90837173 original size:16 final size:16
Alignment explanation
Indices: 90837122--90837175 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
90837112 CGTGCTTTTA
90837122 AAAATTCTCA-TGTTTC
1 AAAATTCT-AGTGTTTC
* *
90837138 AAAAATCTTCGTGTTTTC
1 AAAATTC-TAGTG-TTTC
90837156 AAAATTCTAGTGTTTC
1 AAAATTCTAGTGTTTC
90837172 AAAA
1 AAAA
90837176 ATTTTCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 14 0.45
17 7 0.23
18 10 0.32
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (16 bp):
AAAATTCTAGTGTTTC
Found at i:90837263 original size:74 final size:73
Alignment explanation
Indices: 90837168--90837370 Score: 209
Period size: 74 Copynumber: 2.8 Consensus size: 73
90837158 AATTCTAGTG
* * * * *
90837168 TTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAAAAA
1 TTTCAAAAATTTTCGTGTTTTCA-AAAAAATCTTCGTGTTTTAAAAATTTCCG--TGTTAAAAAA
90837233 AATC-ATGT-C
63 AATCTATGTAC
*** *
90837242 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAAAAAA
1 TTTCAAAAATTTTCGTGTTTTC-AAAAAAATCTTCGTGTTTTAAAAATTTCCGTGTTAAAAAAAA
* *
90837307 TCTTTGTAT
65 TCTATGTAC
*
90837316 TTTCAAAAAATTTTCGTG-TTTC--AAAAATCTTCGTGTTTTCAAAAATTTCGGTGTT
1 TTTC-AAAAATTTTCGTGTTTTCAAAAAAATCTTCGTGTTTT-AAAAATTTCCGTGTT
90837371 TCAAAGATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
71 13 0.12
72 26 0.24
73 3 0.03
74 53 0.49
75 14 0.13
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (73 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAATCTTCGTGTTTTAAAAATTTCCGTGTTAAAAAAAAT
CTATGTAC
Found at i:90837297 original size:38 final size:37
Alignment explanation
Indices: 90837132--90837298 Score: 139
Period size: 38 Copynumber: 4.6 Consensus size: 37
90837122 AAAATTCTCA
*
90837132 TGTTTCAAAAATCTT-CGTGTTTTC---AAAATTCTA-G
1 TGTTTCAAAAAT-TTCCGTGTTTTCAAAAAAAATC-ACG
* * * **
90837166 TGTTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTCG
1 TGTTTCAAAAATTTCCGTGTTTTCA-AAAAAAATCACG
* * * *
90837204 TGTTTTATAAATTTCCGTATTTTC-AAAAAAATCATG
1 TGTTTCAAAAATTTCCGTGTTTTCAAAAAAAATCACG
* * *
90837240 TCTTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCG
1 TGTTTCAAAAATTTCCGTGTTTTCAAAAAAAATCA-CG
90837278 TGTTTCAAAAATTTCCGTGTT
1 TGTTTCAAAAATTTCCGTGTT
90837299 AAAAAAAATC
Statistics
Matches: 104, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
33 2 0.02
34 20 0.19
36 27 0.26
37 9 0.09
38 46 0.44
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (37 bp):
TGTTTCAAAAATTTCCGTGTTTTCAAAAAAAATCACG
Found at i:90837320 original size:36 final size:35
Alignment explanation
Indices: 90837280--90837493 Score: 125
Period size: 35 Copynumber: 6.1 Consensus size: 35
90837270 AATGACCGTG
*
90837280 TTTCAAAAATTTCCGTGTTAAAAAAAATCTTTGTAT
1 TTTCAAAAATTTCCGTGTT-AAAAAAATCTTCGTAT
* ** *
90837316 TTTCAAAAAATTTTCGTGTTTCAAAAATCTTCGTGT
1 TTTC-AAAAATTTCCGTGTTAAAAAAATCTTCGTAT
* ** * * *
90837352 TTTCAAAAATTTCGGTGTTTCAAAGATTTTCGTGT
1 TTTCAAAAATTTCCGTGTTAAAAAAATCTTCGTAT
* *
90837387 TTTCAAAAA-CTCCGGTGATTTTAAAAAAA--ATCGT-T
1 TTTCAAAAATTTCC-GTG---TTAAAAAAATCTTCGTAT
* ** * *
90837422 TTCTAAAAAATTTCCGTGTT-TCAAAATTTTCGTGT
1 TT-TCAAAAATTTCCGTGTTAAAAAAATCTTCGTAT
* ** *
90837457 TTT-AAAAATTTTCGTGTTTTAAAAATTTTCGTAT
1 TTTCAAAAATTTCCGTGTTAAAAAAATCTTCGTAT
90837491 TTT
1 TTT
90837494 AAATTTTTTT
Statistics
Matches: 144, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
32 4 0.03
33 16 0.11
34 23 0.16
35 45 0.31
36 33 0.23
37 17 0.12
38 6 0.04
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (35 bp):
TTTCAAAAATTTCCGTGTTAAAAAAATCTTCGTAT
Found at i:90837545 original size:97 final size:97
Alignment explanation
Indices: 90837410--90837590 Score: 249
Period size: 97 Copynumber: 1.9 Consensus size: 97
90837400 GGTGATTTTA
* * * * * *
90837410 AAAAAAATCGTTTTCTAAAAAATTTCCGTGTTTCAAAATTTTCGTGTTTTAAAAATTTTCGTGTT
1 AAAAAAATCGTTTTCTAAAAAATGTCCGTGTTTAAAAATTCTCGTGTTTCAAAAAATGTCGTGTT
90837475 TTAAAAATTTTCGTATTTTAAATTTTTTTAAG
66 TTAAAAATTTTCGTATTTTAAATTTTTTTAAG
* *
90837507 AAAAAAATTGTGTTTC-AAAAAATGT-CTTGTTTTAAAAATTCTCGTGTTTCAAAAAATGTCGTG
1 AAAAAAATCGT-TTTCTAAAAAATGTCCGTG-TTTAAAAATTCTCGTGTTTCAAAAAATGTCGTG
*
90837570 TTTTAAAAATTTTCGTGTTTT
64 TTTTAAAAATTTTCGTATTTT
90837591 TGAAATTTCC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
96 3 0.04
97 66 0.90
98 4 0.05
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.46
Consensus pattern (97 bp):
AAAAAAATCGTTTTCTAAAAAATGTCCGTGTTTAAAAATTCTCGTGTTTCAAAAAATGTCGTGTT
TTAAAAATTTTCGTATTTTAAATTTTTTTAAG
Found at i:90846133 original size:54 final size:54
Alignment explanation
Indices: 90846034--90846139 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
90846024 CGCTGAGGTA
**
90846034 TTTTAATTTTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCGC
1 TTTTAATTTTGTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCGC
* *
90846088 TTTTAATTTCTGTTTT-CAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
1 TTTTAATTT-TGTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCC
90846140 TCAAGACACG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
54 41 0.87
55 6 0.13
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (54 bp):
TTTTAATTTTGTTTTAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCGC
Found at i:90846134 original size:124 final size:125
Alignment explanation
Indices: 90845859--90846209 Score: 500
Period size: 124 Copynumber: 2.8 Consensus size: 125
90845849 ATTTTTTAAA
* * * *
90845859 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTT-T
** *
90845924 GTTTT---AAATTGACTCATATTGCGAGAGGTGAGTTAAG-CCTTTTAATTTTTGTTTTTC
65 GTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCCTTTTAATTTCTGTTTTTC
* *
90845981 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTAATTTTG
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTTG
90846045 TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCGCTTTTAATTTCTG-TTTTC
66 TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCC-CTTTTAATTTCTGTTTTTC
* * *
90846105 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTT-
1 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTTG
** *
90846169 TTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCC
90846210 TCGGTCACAG
Statistics
Matches: 206, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
120 6 0.03
121 8 0.04
122 48 0.23
123 30 0.15
124 92 0.45
125 22 0.11
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (125 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTTG
TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCCTTTTAATTTCTGTTTTTC
Found at i:90846272 original size:68 final size:69
Alignment explanation
Indices: 90846088--90846272 Score: 216
Period size: 70 Copynumber: 2.7 Consensus size: 69
90846078 GTTAAGCCGC
** *
90846088 TTTTAATTTCTGTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
1 TTTTAATTTCTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTG
90846153 AGGTAT
64 AGGTAT
** * *
90846159 TTTTAATTT-T-TTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACAGC
1 TTTTAATTTCTGTT---TTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC-GC
90846221 TGAGGTA-
62 TGAGGTAT
*
90846228 TTTTAATTTCTGTTTTAAATTAACTCATATTGCGAGAGGTGAGTT
1 TTTTAATTTCTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTT
90846273 AAGCTTTTAA
Statistics
Matches: 98, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
68 28 0.29
69 15 0.15
70 44 0.45
71 11 0.11
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (69 bp):
TTTTAATTTCTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
GTAT
Found at i:90846323 original size:52 final size:49
Alignment explanation
Indices: 90846228--90846324 Score: 131
Period size: 52 Copynumber: 1.9 Consensus size: 49
90846218 AGCTGAGGTA
* **
90846228 TTTTAATTTCTGTTTTAAATTAACTCATATTGCGAGAGGTGAGTTAAGC
1 TTTTAATTTCTGTTTTAAATCAACTCATATTGCGAGAAATGAGTTAAGC
*
90846277 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAATGAGTT
1 TTTTAATTTCTG-TTTT--AAATCAACTCATATTGCGAGAAATGAGTT
90846325 GAGCCTCAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
49 11 0.27
50 4 0.10
52 26 0.63
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.44
Consensus pattern (49 bp):
TTTTAATTTCTGTTTTAAATCAACTCATATTGCGAGAAATGAGTTAAGC
Found at i:90846557 original size:16 final size:17
Alignment explanation
Indices: 90846536--90846569 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
90846526 TGCTGAGGTA
*
90846536 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
90846552 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
90846569 T
1 T
90846570 CAAAATCAAC
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:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:90846679 original size:85 final size:87
Alignment explanation
Indices: 90846475--90846723 Score: 301
Period size: 90 Copynumber: 2.8 Consensus size: 87
90846465 TAATTTTTGT
90846475 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CAC--GCTGAGGTATTT
* * **
90846539 TCAATTTATGTTTTTTTCAATCTATGC
62 TCAATTTCTGCTTTACTCAATCTA-GC
* *
90846566 TTTTCAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGAGGTATTTTCA
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACGCTGAGGTATTTTCA
90846630 ATTTCTGCTTTACT-AATTCTA-C
65 ATTTCTGCTTTACTCAA-TCTAGC
* *
90846652 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-C-CACGCTGAGGTATTTTC
*
90846716 AAATTCTG
64 AATTTCTG
90846724 TTTTTAATTT
Statistics
Matches: 141, Mismatches: 11, Indels: 16
0.84 0.07 0.10
Matches are distributed among these distances:
84 3 0.02
85 33 0.23
86 6 0.04
87 25 0.18
88 29 0.21
90 38 0.27
91 5 0.04
92 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (87 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACGCTGAGGTATTTTCAA
TTTCTGCTTTACTCAATCTAGC
Found at i:90846732 original size:85 final size:88
Alignment explanation
Indices: 90846475--90846732 Score: 316
Period size: 85 Copynumber: 2.9 Consensus size: 88
90846465 TAATTTTTGT
*
90846475 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
*
90846539 TCAATTTATGTTTTTTTCAA-TCTATGC
64 TCAATTTCTG-TTTTTT-AATTCTA-GC
* *
90846566 TTTTCAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTTT
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTTT
**
90846628 CAATTTCTGCTTTACTAATTCTA-C
65 CAATTTCTG-TTTTTTAATTCTAGC
* *
90846652 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
90846716 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
90846733 TCTGTTTTTT
Statistics
Matches: 147, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
84 3 0.02
85 40 0.27
86 6 0.04
87 25 0.17
88 31 0.21
90 35 0.24
91 5 0.03
92 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTCTAGC
Found at i:90846735 original size:13 final size:13
Alignment explanation
Indices: 90846719--90846752 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
90846709 TCTTTTCAAA
90846719 TTCTGTTTTTAAT
1 TTCTGTTTTTAAT
90846732 TTCTGTTTTTTTAAT
1 TTCTG--TTTTTAAT
90846747 TTCTGT
1 TTCTGT
90846753 GTTTCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.32
15 13 0.68
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.71
Consensus pattern (13 bp):
TTCTGTTTTTAAT
Found at i:90846744 original size:15 final size:15
Alignment explanation
Indices: 90846724--90846752 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
90846714 TCAAATTCTG
90846724 TTTTTAATTTCTGTT
1 TTTTTAATTTCTGTT
90846739 TTTTTAATTTCTGT
1 TTTTTAATTTCTGT
90846753 GTTTCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTTTAATTTCTGTT
Found at i:90846913 original size:54 final size:55
Alignment explanation
Indices: 90846829--90847045 Score: 315
Period size: 54 Copynumber: 4.1 Consensus size: 55
90846819 TCAATTTCTA
*
90846829 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
90846884 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
90846938 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
90846989 CTTTTGCAAATTCT-GTTTTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
90847043 CTT
1 CTT
90847046 GGCTCACGTG
Statistics
Matches: 149, Mismatches: 6, Indels: 15
0.88 0.04 0.09
Matches are distributed among these distances:
50 12 0.08
51 35 0.23
52 2 0.01
53 2 0.01
54 84 0.56
55 5 0.03
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:90847018 original size:105 final size:104
Alignment explanation
Indices: 90846837--90847045 Score: 332
Period size: 105 Copynumber: 2.0 Consensus size: 104
90846827 TACTTTTCAA
* * *
90846837 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTT
1 TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCTAGTTTT
*
90846902 CAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
66 CAAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
90846941 TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTGCAAATTCT-GT
1 TTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--AAATTCTAGT
*
90847005 TTTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
63 TTTCAAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
90847046 GGCTCACGTG
Statistics
Matches: 97, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
104 11 0.11
105 75 0.77
106 5 0.05
107 6 0.06
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (104 bp):
TTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAAATTCTAGTTTT
CAAAAACCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
Found at i:90847305 original size:13 final size:14
Alignment explanation
Indices: 90847287--90847319 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
90847277 TTTAATTTTC
*
90847287 AAAATTTCAAAA-A
1 AAAATTTAAAAATA
90847300 AAAATTTAAAAATA
1 AAAATTTAAAAATA
90847314 AAAATT
1 AAAATT
90847320 GCATTTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATTTAAAAATA
Found at i:90847378 original size:30 final size:29
Alignment explanation
Indices: 90847315--90847430 Score: 126
Period size: 30 Copynumber: 3.9 Consensus size: 29
90847305 TTAAAAATAA
* *
90847315 AAATTGCATTTTGACCCCTAAACTTT-TCCT
1 AAATTTCATTTTGA-CCCTAAACTTTCT-TT
90847345 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCC-TAAACTTTCTTT
* * *
90847375 AAATTTCACTTAGACCCTAAACTTTCATT
1 AAATTTCATTTTGACCCTAAACTTTCTTT
* * *
90847404 AAATTTCATTTTAATCCTAAATTTTCT
1 AAATTTCATTTTGACCCTAAACTTTCT
90847431 AAAAATTACA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
29 35 0.48
30 37 0.51
31 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.03, T:0.45
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCTTT
Found at i:90847422 original size:29 final size:28
Alignment explanation
Indices: 90847315--90847430 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 28
90847305 TTAAAAATAA
* * *
90847315 AAATTGCATTTTGACCCCTAAACTTTTCCT
1 AAATTTCATTTT-AACCCTAAAC-TTTCTT
*
90847345 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTAACCC-TAAACTTTC-TT
*
90847375 AAATTTCA-CTTAGACCCTAAACTTTCATT
1 AAATTTCATTTTA-ACCCTAAACTTTC-TT
* *
90847404 AAATTTCATTTTAATCCTAAATTTTCT
1 AAATTTCATTTTAACCCTAAACTTTCT
90847431 AAAAATTACA
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
28 1 0.01
29 39 0.54
30 32 0.44
ACGTcount: A:0.30, C:0.22, G:0.03, T:0.45
Consensus pattern (28 bp):
AAATTTCATTTTAACCCTAAACTTTCTT
Found at i:90847727 original size:17 final size:19
Alignment explanation
Indices: 90847680--90847722 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
90847670 TTTCGAAGGA
90847680 AAAAGAAGAAA-A-GAGAAG
1 AAAAG-AGAAAGAGGAGAAG
90847698 AAAAGAGAAAGAGGAGAAG
1 AAAAGAGAAAGAGGAGAAG
90847717 AAAAGA
1 AAAAGA
90847723 AAGAGTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 6 0.26
19 12 0.52
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAAGAGGAGAAG
Found at i:90847788 original size:3 final size:3
Alignment explanation
Indices: 90847782--90847853 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
90847772 GCTAGACTTT
*
90847782 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAA -AA GAG GAA GAA GAAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA G-AA
*
90847829 GAAA GAA -AA -AA GAA AAA GAA -AA GAA
1 G-AA GAA GAA GAA GAA GAA GAA GAA GAA
90847854 ATAATAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:90847800 original size:10 final size:10
Alignment explanation
Indices: 90847785--90847813 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
90847775 AGACTTTGAA
90847785 GAAGAAGAAG
1 GAAGAAGAAG
90847795 GAAGAAGAAG
1 GAAGAAGAAG
90847805 GAAGAAGAA
1 GAAGAAGAA
90847814 AAGAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:90847800 original size:13 final size:13
Alignment explanation
Indices: 90847782--90847827 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
90847772 GCTAGACTTT
90847782 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
90847795 GAAGAAGAAGGAA-
1 GAAGAAGAA-GAAG
90847808 GAAGAA-AAG-AG
1 GAAGAAGAAGAAG
90847819 GAAGAAGAA
1 GAAGAAGAA
90847828 AGAAAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 4 0.13
13 15 0.50
14 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Found at i:90847990 original size:10 final size:10
Alignment explanation
Indices: 90847977--90848015 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
90847967 AAAAAAGCAA
90847977 AAAGAAGAAG
1 AAAGAAGAAG
*
90847987 AAAGAAGCAGAA
1 AAAGAAG-A-AG
90847999 AAAGAAGAAG
1 AAAGAAGAAG
90848009 AAAGAAG
1 AAAGAAG
90848016 CAGCCCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 15 0.60
11 2 0.08
12 8 0.32
ACGTcount: A:0.69, C:0.03, G:0.28, T:0.00
Consensus pattern (10 bp):
AAAGAAGAAG
Found at i:90848002 original size:22 final size:22
Alignment explanation
Indices: 90847975--90848018 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
90847965 AAAAAAAAGC
90847975 AAAAAGAAGAAGAAAGAAGCAG
1 AAAAAGAAGAAGAAAGAAGCAG
90847997 AAAAAGAAGAAGAAAGAAGCAG
1 AAAAAGAAGAAGAAAGAAGCAG
90848019 CCCAAATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.05, G:0.27, T:0.00
Consensus pattern (22 bp):
AAAAAGAAGAAGAAAGAAGCAG
Found at i:90848046 original size:17 final size:17
Alignment explanation
Indices: 90848026--90848079 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
90848016 CAGCCCAAAT
90848026 GCAGGCCCAGCGCAGCA
1 GCAGGCCCAGCGCAGCA
*
90848043 GCAGGCCCA--GCAGGCC
1 GCAGGCCCAGCGCA-GCA
* *
90848059 CCAGGCCCAGCGCAGTA
1 GCAGGCCCAGCGCAGCA
90848076 GCAG
1 GCAG
90848080 ACCACCCACA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.10
16 10 0.34
17 13 0.45
18 3 0.10
ACGTcount: A:0.22, C:0.41, G:0.35, T:0.02
Consensus pattern (17 bp):
GCAGGCCCAGCGCAGCA
Found at i:90848149 original size:10 final size:10
Alignment explanation
Indices: 90848134--90848186 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 10
90848124 CAGCCCAGCA
90848134 AAAAAAAAAG
1 AAAAAAAAAG
90848144 AAAAAAAAAG
1 AAAAAAAAAG
* *
90848154 AGAGAAAAAG
1 AAAAAAAAAG
90848164 ---AAAAAAG
1 AAAAAAAAAG
*
90848171 AAAAAACAAG
1 AAAAAAAAAG
90848181 AAAAAA
1 AAAAAA
90848187 GAGGTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 6 0.17
10 30 0.83
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:90848169 original size:17 final size:18
Alignment explanation
Indices: 90848147--90848189 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
90848137 AAAAAAGAAA
*
90848147 AAAAAAGAGAGAAA-AAG
1 AAAAAAGAGAAAAACAAG
90848164 AAAAAAGA-AAAAACAAG
1 AAAAAAGAGAAAAACAAG
90848181 AAAAAAGAG
1 AAAAAAGAG
90848190 GTTCAATTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAAAGAGAAAAACAAG
Found at i:90848353 original size:16 final size:17
Alignment explanation
Indices: 90848327--90848364 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
90848317 TTATATTTAT
90848327 ATTTTTAATTTAATTTG
1 ATTTTTAATTTAATTTG
* *
90848344 ATTTTT-ATTTTATTTT
1 ATTTTTAATTTAATTTG
90848360 ATTTT
1 ATTTT
90848365 AAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTAATTTAATTTG
Found at i:90848563 original size:16 final size:16
Alignment explanation
Indices: 90848527--90848579 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
90848517 CGTGCTTTTA
90848527 AAAATTCTCA-TGTTTC
1 AAAATTCT-AGTGTTTC
* *
90848543 AAAAATCTTCGTGTTTC
1 AAAATTC-TAGTGTTTC
90848560 AAAATTCTAGTGTTTC
1 AAAATTCTAGTGTTTC
90848576 AAAA
1 AAAA
90848580 ATTTTCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 18 0.58
17 13 0.42
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (16 bp):
AAAATTCTAGTGTTTC
Found at i:90848564 original size:33 final size:33
Alignment explanation
Indices: 90848504--90848591 Score: 97
Period size: 33 Copynumber: 2.6 Consensus size: 33
90848494 AAAATTGTAA
* *
90848504 TTTCAATAATCCTCGTGCTTTTAAAAATTCTCA-TG
1 TTTCAAAAATCTTCGTG--TTTAAAAATTCT-AGTG
*
90848539 TTTCAAAAATCTTCGTGTTTCAAAATTCTAGTG
1 TTTCAAAAATCTTCGTGTTTAAAAATTCTAGTG
* *
90848572 TTTCAAAAATTTTCTTGTTT
1 TTTCAAAAATCTTCGTGTTT
90848592 TCAGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 1 0.02
33 31 0.66
35 15 0.32
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (33 bp):
TTTCAAAAATCTTCGTGTTTAAAAATTCTAGTG
Found at i:90848590 original size:17 final size:17
Alignment explanation
Indices: 90848516--90849028 Score: 232
Period size: 17 Copynumber: 29.8 Consensus size: 17
90848506 TCAATAATCC
* *
90848516 TCGTGCTTTTAAAAATTC
1 TCGTG-TTTCAAAAATTT
* *
90848534 TCATGTTTCAAAAATCT
1 TCGTGTTTCAAAAATTT
*
90848551 TCGTGTTTC-AAAATTC
1 TCGTGTTTCAAAAATTT
*
90848567 TAGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTT
*
90848584 TCTTGTTTTCAGAAAAATTT
1 TCGTG-TTTC--AAAAATTT
* *
90848604 TCGTGTTTTATAAATTT
1 TCGTGTTTCAAAAATTT
* * **
90848621 CCGTATTTTCAAAAA-AA
1 TCGT-GTTTCAAAAATTT
*
90848638 TCATGTCTTTCAAAAATTT
1 TC--GTGTTTCAAAAATTT
**
90848657 TCGTGTTTTCAAAAAAAATGA
1 TCGTG-TTTC---AAAAATTT
*
90848678 CCGTGTTTC-AAAATTT
1 TCGTGTTTCAAAAATTT
* ** *
90848694 CCGTGTTAAAAAAAATCT
1 TCGTGTT-TCAAAAATTT
*
90848712 TCGTATTTTCAAAAAATTT
1 TCGT-GTTTC-AAAAATTT
*
90848731 TCGTGTTTCAAAAATCT
1 TCGTGTTTCAAAAATTT
90848748 TCGTGTTTTCAAAAA-TT
1 TCGTG-TTTCAAAAATTT
*
90848765 TCGGTGTTTCAAAGATTT
1 TC-GTGTTTCAAAAATTT
*
90848783 TCGTGTTTTCAAAAA-CT
1 TCGTG-TTTCAAAAATTT
* * ***
90848800 CCGGTGATTTTAAAAAAAAA
1 TC-GTG--TTTCAAAAATTT
90848820 TCGT-TTTCTAAAAAATTT
1 TCGTGTTTC--AAAAATTT
*
90848838 CCGTGTTTC-AAAATTT
1 TCGTGTTTCAAAAATTT
*
90848854 TCGTGTTTTAAAAATTT
1 TCGTGTTTCAAAAATTT
* *
90848871 TCGTGTTT-TAAAATTC
1 TCGTGTTTCAAAAATTT
* *
90848887 TCGTATTT--TAAA-TT
1 TCGTGTTTCAAAAATTT
* **
90848901 T--T-TTTAAGAAAAAAT
1 TCGTGTTTCA-AAAATTT
* *
90848916 T-GTGTTTCAAAAAATG
1 TCGTGTTTCAAAAATTT
* * *
90848932 TCTTGTTTTAAAAATTC
1 TCGTGTTTCAAAAATTT
* *
90848949 TCGTGTTTCAAAAAATG
1 TCGTGTTTCAAAAATTT
*
90848966 TCGTGTTTTAAAAATTT
1 TCGTGTTTCAAAAATTT
**
90848983 TCGTGTTT-TGAAATTT
1 TCGTGTTTCAAAAATTT
* *
90848999 CCGTGTTT-AAAAATTC
1 TCGTGTTTCAAAAATTT
*
90849015 TCGTGTTTTAAAAA
1 TCGTGTTTCAAAAA
90849029 AAAACTTTCA
Statistics
Matches: 376, Mismatches: 84, Indels: 71
0.71 0.16 0.13
Matches are distributed among these distances:
11 3 0.01
12 1 0.00
14 5 0.01
15 5 0.01
16 87 0.23
17 137 0.36
18 76 0.20
19 35 0.09
20 17 0.05
21 10 0.03
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:90848656 original size:73 final size:71
Alignment explanation
Indices: 90848572--90848772 Score: 194
Period size: 73 Copynumber: 2.8 Consensus size: 71
90848562 AATTCTAGTG
* * * *
90848572 TTTCAAAAATTTTCTTGTTTTCAGAAAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAAAAAA
1 TTTCAAAAATTTTCGTGTTTTCA-AAAAATCTTCGTGTTTTA-AAATTTCCG--TGTTAAAAAAA
90848637 ATCAT-GT-C
62 ATCATCGTAC
*** *
90848645 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAATTTCCGTGTTAAAAAAAAT
1 TTTCAAAAATTTTCGTGTTTTC--AAAAAATCTTCGTGTTTTAAAATTTCCGTGTTAAAAAAAAT
* *
90848710 CTTCGTAT
64 CATCGTAC
*
90848718 TTTCAAAAAATTTTCGTG-TTTC-AAAAATCTTCGTGTTTTCAAAAATTTCGGTGTT
1 TTTC-AAAAATTTTCGTGTTTTCAAAAAATCTTCGTGTTTT--AAAATTTCCGTGTT
90848773 TCAAAGATTT
Statistics
Matches: 107, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
70 13 0.12
71 13 0.12
72 15 0.14
73 38 0.36
74 27 0.25
75 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (71 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAATCTTCGTGTTTTAAAATTTCCGTGTTAAAAAAAATCA
TCGTAC
Found at i:90848775 original size:53 final size:52
Alignment explanation
Indices: 90848539--90848883 Score: 201
Period size: 53 Copynumber: 6.5 Consensus size: 52
90848529 AATTCTCATG
* * *
90848539 TTTCAAAAATCTTCGTGTTTC--AAAA-TTCTAGTGTTTCAAAAATTTTCTTGT
1 TTTCAAAAAT-TTCGTGTTTCAAAAAATTTC-CGTGTTTCAAAAATCTTCGTGT
* * * ** *
90848590 TTTCAGAAAAATTTTCGTGTTT-TATAAATTTCCGTATTTTCAAAAA-AATCATGT
1 TTTC--AAAAA-TTTCGTGTTTCAAAAAATTTCCGT-GTTTCAAAAATCTTCGTGT
**
90848644 CTTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTC-AAAAT-TTCCGTGT
1 -TTTCAAAAA-TTTCGTG-TTTC--AAAAAATTTCCGTGTTTCAAAAATCTT-CGTGT
*** * *
90848700 TAAAAAAAATCTTCGTATTTTCAAAAAATTTTCGTGTTTCAAAAATCTTCGTGT
1 TTTCAAAAAT-TTCGT-GTTTCAAAAAATTTCCGTGTTTCAAAAATCTTCGTGT
* * *
90848754 TTTCAAAAATTTCGGTGTTTC-AAAGATTTTCGTGTTTTCAAAAA-CTCCGGTGAT
1 TTTCAAAAATTTC-GTGTTTCAAAAAATTTCCGTG-TTTCAAAAATCTTC-GTG-T
* ** *
90848808 TTTAAAAAAAAATCGT-TTTCTAAAAAATTTCCGTGTTTC-AAAATTTTCGTGT
1 TTT-CAAAAATTTCGTGTTTC-AAAAAATTTCCGTGTTTCAAAAATCTTCGTGT
*
90848860 TTT-AAAAATTTTCGTGTTTTAAAA
1 TTTCAAAAA-TTTCGTGTTTCAAAA
90848884 TTCTCGTATT
Statistics
Matches: 230, Mismatches: 36, Indels: 56
0.71 0.11 0.17
Matches are distributed among these distances:
50 5 0.02
51 12 0.05
52 22 0.10
53 72 0.31
54 46 0.20
55 56 0.24
56 8 0.03
57 9 0.04
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (52 bp):
TTTCAAAAATTTCGTGTTTCAAAAAATTTCCGTGTTTCAAAAATCTTCGTGT
Found at i:90849032 original size:21 final size:20
Alignment explanation
Indices: 90849007--90849059 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
90848997 TTCCGTGTTT
90849007 AAAAATTCTCGTGTTTTAAAA
1 AAAAATT-TCGTGTTTTAAAA
* *
90849028 AAAAACTTTCAT-TTTTTAAA
1 AAAAA-TTTCGTGTTTTAAAA
90849048 AAAAATTTCGTG
1 AAAAATTTCGTG
90849060 CTTCAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
21 8 0.30
22 2 0.07
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (20 bp):
AAAAATTTCGTGTTTTAAAA
Found at i:90849067 original size:16 final size:17
Alignment explanation
Indices: 90849048--90849084 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
90849038 ATTTTTTAAA
90849048 AAAAATT-TCGTG-CTT
1 AAAAATTCTCGTGTCTT
*
90849063 CAAAATTCTCGTGTCTT
1 AAAAATTCTCGTGTCTT
90849080 AAAAA
1 AAAAA
90849085 AGTTTTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
15 6 0.33
16 5 0.28
17 7 0.39
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (17 bp):
AAAAATTCTCGTGTCTT
Found at i:90849494 original size:18 final size:19
Alignment explanation
Indices: 90849460--90849521 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 19
90849450 TTTTAACAAT
90849460 TAAAATAATTAAAAAAAAA
1 TAAAATAATTAAAAAAAAA
90849479 TAAAAT-ATTAATAAAAAAA
1 TAAAATAATTAA-AAAAAAA
**
90849498 -AAAA-AAAAAAAAAAAAA
1 TAAAATAATTAAAAAAAAA
*
90849515 AAAAATA
1 TAAAATA
90849522 TACAATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 7 0.19
18 16 0.43
19 14 0.38
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (19 bp):
TAAAATAATTAAAAAAAAA
Found at i:90849495 original size:1 final size:1
Alignment explanation
Indices: 90849491--90849519 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
90849481 AAATATTAAT
90849491 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
90849520 TATACAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:90849581 original size:16 final size:15
Alignment explanation
Indices: 90849562--90849661 Score: 56
Period size: 13 Copynumber: 6.9 Consensus size: 15
90849552 ATTTTTTTTT
90849562 TTTTTTTTAATTTT-A
1 TTTTTTTT-ATTTTCA
90849577 GTTTTTTTTATTTTCA
1 -TTTTTTTTATTTTCA
90849593 TTTTTTTT-TTTT--
1 TTTTTTTTATTTTCA
90849605 TTTTTTATCTA-TTT--
1 TTTTTT-T-TATTTTCA
*
90849619 TTTTTTTTATTGT-A
1 TTTTTTTTATTTTCA
* *
90849633 -TTTTTTTATTATGA
1 TTTTTTTTATTTTCA
90849647 TTTAATTTTTATTTT
1 TTT--TTTTTATTTT
90849662 TATTATGTTA
Statistics
Matches: 71, Mismatches: 3, Indels: 19
0.76 0.03 0.20
Matches are distributed among these distances:
12 8 0.11
13 15 0.21
14 15 0.21
15 15 0.21
16 9 0.13
17 9 0.13
ACGTcount: A:0.15, C:0.02, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTTTTATTTTCA
Found at i:90849583 original size:21 final size:20
Alignment explanation
Indices: 90849552--90849626 Score: 84
Period size: 19 Copynumber: 3.9 Consensus size: 20
90849542 TTTAAAGTCG
90849552 ATTTT-TTTTTTTTTTTTTA
1 ATTTTATTTTTTTTTTTTTA
* *
90849571 ATTTTAGTTTTTTTTATTTTC
1 ATTTTA-TTTTTTTTTTTTTA
*
90849592 ATTTT-TTTTTTTTTTTTTT
1 ATTTTATTTTTTTTTTTTTA
*
90849611 A-TCTATTTTTTTTTTT
1 ATTTTATTTTTTTTTTT
90849627 ATTGTATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
18 2 0.04
19 29 0.60
21 17 0.35
ACGTcount: A:0.11, C:0.03, G:0.01, T:0.85
Consensus pattern (20 bp):
ATTTTATTTTTTTTTTTTTA
Found at i:90849584 original size:22 final size:20
Alignment explanation
Indices: 90849552--90849676 Score: 103
Period size: 20 Copynumber: 6.3 Consensus size: 20
90849542 TTTAAAGTCG
*
90849552 ATTTTTTTTTTTTTT-TTTA
1 ATTTTTTTTTTTTTTATTTT
**
90849571 ATTTTAGTTTTTTTTATTTT
1 ATTTTTTTTTTTTTTATTTT
90849591 CATTTTTTTTTTTTTT-TTTT
1 -ATTTTTTTTTTTTTTATTTT
* *
90849611 ATCTATTTTTTTTTTTATTGT
1 AT-TTTTTTTTTTTTTATTTT
* * * *
90849632 A-TTTTTTTATTATGATTTA
1 ATTTTTTTTTTTTTTATTTT
* * *
90849651 ATTTTTATTTTTATTATGTT
1 ATTTTTTTTTTTTTTATTTT
90849671 ATTTTT
1 ATTTTT
90849677 AATTTTTTCA
Statistics
Matches: 83, Mismatches: 18, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
19 28 0.34
20 38 0.46
21 17 0.20
ACGTcount: A:0.15, C:0.02, G:0.03, T:0.80
Consensus pattern (20 bp):
ATTTTTTTTTTTTTTATTTT
Found at i:90849607 original size:40 final size:40
Alignment explanation
Indices: 90849552--90849639 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
90849542 TTTAAAGTCG
*
90849552 ATTTTTTTTTTTTTTTTTAAT-T-TTAGTTTTTTTTATTTT
1 ATTTTTTTTTTTTTTTTTAATCTATT-GTTTTTTTTATTGT
* *
90849591 CATTTTTTTTTTTTTTTTTTATCTATTTTTTTTTTTATTGT
1 -ATTTTTTTTTTTTTTTTTAATCTATTGTTTTTTTTATTGT
90849632 ATTTTTTT
1 ATTTTTTT
90849640 ATTATGATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
40 28 0.65
41 13 0.30
42 2 0.05
ACGTcount: A:0.11, C:0.02, G:0.02, T:0.84
Consensus pattern (40 bp):
ATTTTTTTTTTTTTTTTTAATCTATTGTTTTTTTTATTGT
Found at i:90849619 original size:17 final size:18
Alignment explanation
Indices: 90849558--90849639 Score: 69
Period size: 18 Copynumber: 4.4 Consensus size: 18
90849548 GTCGATTTTT
*
90849558 TTTTTTTTTTTTAATTTTA
1 TTTTTTTTTTTT-ATTCTA
*
90849577 GTTTTTTTTATTTTCATT-TT
1 -TTTTTTTT-TTTT-ATTCTA
*
90849597 TTTTTTTTTTTTTTATCTA
1 TTTTTTTTTTTTAT-TCTA
*
90849616 -TTTTTTTTTTTATTGTA
1 TTTTTTTTTTTTATTCTA
90849633 TTTTTTT
1 TTTTTTT
90849640 ATTATGATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
17 4 0.08
18 23 0.44
19 9 0.17
20 9 0.17
21 7 0.13
ACGTcount: A:0.11, C:0.02, G:0.02, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTTTTATTCTA
Found at i:90849639 original size:1 final size:1
Alignment explanation
Indices: 90849553--90849626 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
90849543 TTAAAGTCGA
** ** * ** * * *
90849553 TTTTTTTTTTTTTTTTTAATTTTAGTTTTTTTTATTTTCATTTTTTTTTTTTTTTTTTATCTATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
90849618 TTTTTTTTT
1 TTTTTTTTT
90849627 ATTGTATTTT
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.09, C:0.03, G:0.01, T:0.86
Consensus pattern (1 bp):
T
Found at i:90849663 original size:23 final size:21
Alignment explanation
Indices: 90849635--90849683 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 21
90849625 TTATTGTATT
90849635 TTTTTATTATGATTTAATTTTT-A
1 TTTTTATTATG--TT-ATTTTTAA
90849658 TTTTTATTATGTTATTTTTAA
1 TTTTTATTATGTTATTTTTAA
90849679 TTTTT
1 TTTTT
90849684 TCAATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.24
21 8 0.32
23 11 0.44
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTTTATTATGTTATTTTTAA
Found at i:90861590 original size:87 final size:87
Alignment explanation
Indices: 90861499--90861736 Score: 379
Period size: 87 Copynumber: 2.7 Consensus size: 87
90861489 TTTCGGATCT
* * * * *
90861499 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAAG-GATCTTATCTCCCTGAGATTACAGC
90861563 GGAGCAGATCGAAGACACTATCC
65 GGAGCAGATCGAAGACACTATCC
*
90861586 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCG
90861651 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
* * *
90861673 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGC
90861737 AGAGTGGATC
Statistics
Matches: 142, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
87 140 0.99
88 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCG
GAGCAGATCGAAGACACTATCC
Found at i:90861721 original size:131 final size:131
Alignment explanation
Indices: 90861493--90861735 Score: 292
Period size: 131 Copynumber: 1.9 Consensus size: 131
90861483 AAAGAATTTC
* * * * *
90861493 GGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATT
1 GGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGAGATCCTATCTCCCTGAGATT
** * *
90861558 ACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
66 ACAGCGGAGCAGATAAAAGAAACGATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
90861623 A
131 A
**
90861624 GGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTATCCTATCTCCCTGA-AGT
1 GGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGAGATCCTATCTCCCTGAGA-T
* * * * * * *
90861687 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAG
65 TACAGCGGAGCAGA-TAAAAGAAACGATCCTATCTCCCTGAAGTTACAG
90861736 CAGAGTGGAT
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
129 1 0.01
130 27 0.29
131 64 0.70
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (131 bp):
GGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGAGATCCTATCTCCCTGAGATT
ACAGCGGAGCAGATAAAAGAAACGATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAA
A
Found at i:90861733 original size:44 final size:44
Alignment explanation
Indices: 90861275--90861735 Score: 272
Period size: 44 Copynumber: 10.6 Consensus size: 44
90861265 GGTTTATTAT
* * **
90861275 ACAGG-TCTTATCTCCCTGAGATTACAGTGGAACAGACCA-AAG
1 ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAGAAG
* * *
90861317 AATTTCA-GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCA-AAG
1 -A---CAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAGAAG
* * * * * * *
90861363 ATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATT---A-
1 ACAG-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAGAAG
* * * * *
90861404 A-AGGATCTTATCTCCCTGAAGTTACAGTAGAGAAGATCA-CA-
1 ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAGAAG
* * ** **
90861445 TCAGG-TCTTATCTCCCTGAGATTACAGTGGAATAGACCA-AAG
1 ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAGAAG
90861487 A-ATTTCGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GAAG
1 ACA----GGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAGAAG
* * * *
90861533 CCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCGAAG
1 ACAG-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAGAAG
** * * * * *
90861577 ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
1 ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAGAAG
* * * *
90861621 AAAGGATCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCGAAG
1 ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAGAAG
** * * * * *
90861664 ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
1 ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAGAAG
* *
90861708 AAAGGATCTTATCTCTCTGAGGTTACAG
1 ACAGGATCTTATCTCCCTGAGGTTACAG
90861736 CAGAGTGGAT
Statistics
Matches: 320, Mismatches: 77, Indels: 41
0.73 0.18 0.09
Matches are distributed among these distances:
39 25 0.08
40 2 0.01
41 32 0.10
42 5 0.02
43 62 0.19
44 122 0.38
45 4 0.01
46 67 0.21
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAGAAG
Found at i:90861888 original size:83 final size:83
Alignment explanation
Indices: 90861738--90861894 Score: 188
Period size: 83 Copynumber: 1.9 Consensus size: 83
90861728 GGTTACAGCA
* * * * * * * *
90861738 GAGTGGATCACATCAAGTCTTATCTCCCTAAATAGTAGTGAAGCAGACGAAAGAAACCGATCTTA
1 GAGTAGATCACATCAAGTCTCATCTCCCTAAACAATAGCGAAGCAGACAAAAGAAACCAATCCTA
90861803 TCTCCCTAAGTAGTAGTG
66 TCTCCCTAAGTAGTAGTG
* * * * *
90861821 GAGTAGATCGCATCAAGTCTCATCTCTCTAAGCAATAGCGGAGCAGACAAAAGAAACTAATCCTA
1 GAGTAGATCACATCAAGTCTCATCTCCCTAAACAATAGCGAAGCAGACAAAAGAAACCAATCCTA
*
90861886 TCTCTCTAA
66 TCTCCCTAA
90861895 AGTTGCAGTG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
83 60 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (83 bp):
GAGTAGATCACATCAAGTCTCATCTCCCTAAACAATAGCGAAGCAGACAAAAGAAACCAATCCTA
TCTCCCTAAGTAGTAGTG
Found at i:90863296 original size:3 final size:3
Alignment explanation
Indices: 90863285--90863372 Score: 72
Period size: 3 Copynumber: 29.3 Consensus size: 3
90863275 ATTATTTTGT
* *
90863285 TTA TT- TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT- TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TTA
* * * * * *
90863330 TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
90863373 ATTTATACCT
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
2 3 0.04
3 60 0.90
4 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:90863305 original size:12 final size:12
Alignment explanation
Indices: 90863290--90863372 Score: 85
Period size: 12 Copynumber: 6.6 Consensus size: 12
90863280 TTTGTTTATT
*
90863290 TTATTATTATTA
1 TTATTATTACTA
90863302 TTATTATTTACTA
1 TTATTA-TTACTA
90863315 TTATTATCTTTACTA
1 TTATTA---TTACTA
* *
90863330 TTATTGTTAGTA
1 TTATTATTACTA
*
90863342 TTATTACTACTA
1 TTATTATTACTA
90863354 TTATTATTACTA
1 TTATTATTACTA
*
90863366 TCATTAT
1 TTATTAT
90863373 ATTTATACCT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
12 37 0.62
13 11 0.18
15 12 0.20
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:90872009 original size:21 final size:22
Alignment explanation
Indices: 90871980--90872026 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
90871970 CAGAAGGAGT
*
90871980 GAGTAGTACTTCACAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
*
90872002 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
90872023 GAGT
1 GAGT
90872027 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCACAGCAGGTG
Found at i:90875645 original size:20 final size:20
Alignment explanation
Indices: 90875622--90875666 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
90875612 TTTTTTTTTT
*
90875622 TTATTTT-TTATATTTTAAAA
1 TTATTTTGTTA-AATTTAAAA
*
90875642 TTATTTTGTTAAATTTAAAT
1 TTATTTTGTTAAATTTAAAA
90875662 TTATT
1 TTATT
90875667 ATAAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTATTTTGTTAAATTTAAAA
Found at i:90876455 original size:17 final size:17
Alignment explanation
Indices: 90876433--90876466 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90876423 ATCCACTAAT
*
90876433 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
90876450 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
90876467 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:90881093 original size:17 final size:17
Alignment explanation
Indices: 90881071--90881104 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90881061 ATCCACTAAT
*
90881071 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
90881088 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
90881105 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:90882141 original size:14 final size:14
Alignment explanation
Indices: 90882122--90882148 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
90882112 TTTTAACCTT
90882122 AATCTTAAATTTTG
1 AATCTTAAATTTTG
90882136 AATCTTAAATTTT
1 AATCTTAAATTTT
90882149 AAACCCCGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
AATCTTAAATTTTG
Found at i:90884937 original size:4 final size:4
Alignment explanation
Indices: 90884928--90884954 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
90884918 GTTTTATGTA
90884928 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
90884955 CCATGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:90887841 original size:41 final size:41
Alignment explanation
Indices: 90887746--90887834 Score: 142
Period size: 41 Copynumber: 2.2 Consensus size: 41
90887736 CGGCGTTTTG
* * * *
90887746 AACTGAGCAATTGTGGCGTTTTCATGCAAAACGCCGCTAAA
1 AACTGAGCAATAGTAGTGTTTTCATGCAAAACGCCGCAAAA
90887787 AACTGAGCAATAGTAGTGTTTTCATGCAAAACGCCGCAAAA
1 AACTGAGCAATAGTAGTGTTTTCATGCAAAACGCCGCAAAA
90887828 AACTGAG
1 AACTGAG
90887835 ATATAGTGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (41 bp):
AACTGAGCAATAGTAGTGTTTTCATGCAAAACGCCGCAAAA
Found at i:90887860 original size:41 final size:41
Alignment explanation
Indices: 90887746--90887868 Score: 115
Period size: 41 Copynumber: 3.0 Consensus size: 41
90887736 CGGCGTTTTG
* * * * * *
90887746 AACTGAGCAATTGTGGCGTTTTCATGCAAAACGCCGCTAAA
1 AACTGAGCAATAGTAGTGCTTTCAGGCAAAACGCCGCAAAA
* *
90887787 AACTGAGCAATAGTAGTGTTTTCATGCAAAACGCCGCAAAA
1 AACTGAGCAATAGTAGTGCTTTCAGGCAAAACGCCGCAAAA
* * *
90887828 AACTGAG-ATATAGTGGTGCTTT-AGGTCCAAACGCCACAAAA
1 AACTGAGCA-ATAGTAGTGCTTTCAGG-CAAAACGCCGCAAAA
90887869 GGTTGAGCTA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
40 3 0.04
41 68 0.96
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (41 bp):
AACTGAGCAATAGTAGTGCTTTCAGGCAAAACGCCGCAAAA
Found at i:90888460 original size:28 final size:28
Alignment explanation
Indices: 90888425--90888478 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
90888415 AAAATATGAA
90888425 GCCTAACCCTAAATCATAACCCATGACC
1 GCCTAACCCTAAATCATAACCCATGACC
*
90888453 GCCTAACCCTAGATCATAACCCATGA
1 GCCTAACCCTAAATCATAACCCATGA
90888479 TCTAAACTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.37, G:0.09, T:0.19
Consensus pattern (28 bp):
GCCTAACCCTAAATCATAACCCATGACC
Found at i:90888641 original size:37 final size:36
Alignment explanation
Indices: 90888599--90888687 Score: 88
Period size: 37 Copynumber: 2.4 Consensus size: 36
90888589 CCTATAAACC
* *
90888599 TTTTAAACCCTAAAACTCTAAACTCTAAAAACTAAA
1 TTTTAAACCCTAAAACCCTAAACTATAAAAACTAAA
* * * * **
90888635 TCTTTAAACTCTTATACCCTAAATTATAAACCCTAAA
1 T-TTTAAACCCTAAAACCCTAAACTATAAAAACTAAA
90888672 TTTGTAAACCCTAAAA
1 TTT-TAAACCCTAAAA
90888688 ATAAATTTCA
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
36 3 0.08
37 37 0.93
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.31
Consensus pattern (36 bp):
TTTTAAACCCTAAAACCCTAAACTATAAAAACTAAA
Found at i:90888642 original size:135 final size:133
Alignment explanation
Indices: 90888385--90888646 Score: 291
Period size: 135 Copynumber: 1.9 Consensus size: 133
90888375 CTAAAGGCTA
* *
90888385 ATCCCAAAACCTTAAACTACATTAAACCCTAAAATATGAAGCCTAACCCTAAATCATAACCCATG
1 ATCCCAAAACCTTAAACTACATTAAACCCTAAAATATAAAGCCTAACCCTAAATCATAACCCATA
* * ** **
90888450 ACCGCCTAACCCTAGATCATAACCCATGATCTAAACTCTAAACCATTTAAACCTTAAACTCTAAA
66 ACCGCATAAACCTA-ATCATAACCCAAAATCTAAACTCTAAA-CAACTAAACCTTAAACTCTAAA
90888515 GCAAT
129 GCAAT
*
90888520 ATCCTAAAACCTTAAACTACCTAATT-AACCCTAAAATATAAAGCCTAACCCCTAAATCATAACC
1 ATCCCAAAACCTTAAACTA-C--ATTAAACCCTAAAATATAAAGCCTAA-CCCTAAATCATAACC
* * * *
90888584 CATAACC-TATAAACCT-TTTA-AACCCTAAAACTCTAAACTCTAAA-AACTAAATCTTTAAACT
62 CATAACCGCATAAACCTAATCATAACCC-AAAA-TCTAAACTCTAAACAACTAAA-CCTTAAACT
90888645 CT
124 CT
90888647 TATACCCTAA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
134 10 0.09
135 32 0.30
136 14 0.13
137 27 0.25
138 24 0.22
ACGTcount: A:0.44, C:0.29, G:0.03, T:0.25
Consensus pattern (133 bp):
ATCCCAAAACCTTAAACTACATTAAACCCTAAAATATAAAGCCTAACCCTAAATCATAACCCATA
ACCGCATAAACCTAATCATAACCCAAAATCTAAACTCTAAACAACTAAACCTTAAACTCTAAAGC
AAT
Found at i:90888669 original size:14 final size:15
Alignment explanation
Indices: 90888650--90888686 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
90888640 AAACTCTTAT
90888650 ACCCTAAA-TTATAA
1 ACCCTAAATTTATAA
*
90888664 ACCCTAAATTTGTAA
1 ACCCTAAATTTATAA
90888679 ACCCTAAA
1 ACCCTAAA
90888687 AATAAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.27
Consensus pattern (15 bp):
ACCCTAAATTTATAA
Found at i:90889814 original size:20 final size:20
Alignment explanation
Indices: 90889769--90889820 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
90889759 CCCCACCCAA
*
90889769 ATTTCCCCAAATCCCTAACT
1 ATTTCCCCAAATCCCTAAAT
*
90889789 -TTTCCCCTAATCCCTAAAT
1 ATTTCCCCAAATCCCTAAAT
*
90889808 ATTTCCCCGAATC
1 ATTTCCCCAAATC
90889821 AAAATTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.27, C:0.38, G:0.02, T:0.33
Consensus pattern (20 bp):
ATTTCCCCAAATCCCTAAAT
Found at i:90892343 original size:23 final size:23
Alignment explanation
Indices: 90892312--90892362 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
90892302 AACATTAATC
* *
90892312 AAATGTATGAATTGCAGCACTTT
1 AAATATATGAATTGCAGCACTTA
*
90892335 AAATATATGAATTGCAGCCCTTA
1 AAATATATGAATTGCAGCACTTA
90892358 AAATA
1 AAATA
90892363 AACTTGAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (23 bp):
AAATATATGAATTGCAGCACTTA
Found at i:90892942 original size:9 final size:9
Alignment explanation
Indices: 90892919--90893085 Score: 145
Period size: 9 Copynumber: 17.6 Consensus size: 9
90892909 ATTGATCATT
*
90892919 ACTTAAATA
1 ACTTACATA
*
90892928 AATTACATA
1 ACTTACATA
90892937 ACTTACATA
1 ACTTACATA
* *
90892946 ACTCATATA
1 ACTTACATA
90892955 ACTTACATA
1 ACTTACATA
*
90892964 ATTTACATAACA
1 ACTTACAT---A
90892976 ACTTACATA
1 ACTTACATA
*
90892985 ACTCACATA
1 ACTTACATA
90892994 ACTTACATA
1 ACTTACATA
*
90893003 ATTTACATAACA
1 ACTTACAT---A
90893015 ACTTACATA
1 ACTTACATA
*
90893024 ACTCACATA
1 ACTTACATA
*
90893033 ACTTATATA
1 ACTTACATA
*
90893042 ATTTACATA
1 ACTTACATA
*
90893051 ACTCACATA
1 ACTTACATA
*
90893060 ACGTACATAACA
1 ACTTACAT---A
90893072 ACTTACATA
1 ACTTACATA
90893081 ACTTA
1 ACTTA
90893086 ACTAATACAT
Statistics
Matches: 126, Mismatches: 23, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
9 102 0.81
12 24 0.19
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:90892988 original size:39 final size:39
Alignment explanation
Indices: 90892936--90893052 Score: 216
Period size: 39 Copynumber: 3.0 Consensus size: 39
90892926 TAAATTACAT
*
90892936 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
90892975 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
*
90893014 AACTTACATAACTCACATAACTTATATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
90893053 TCACATAACG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:90893009 original size:48 final size:47
Alignment explanation
Indices: 90892930--90893085 Score: 177
Period size: 48 Copynumber: 3.3 Consensus size: 47
90892920 CTTAAATAAA
* * *
90892930 TTACATAACTTACATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAA-CTACATAACAAC
* * * * *
90892978 TTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTACATA-ACAAC
* * * *
90893026 TCACATAACTTATATAATTTACATAACTCACATAACGTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAAC-TACATAACAAC
90893074 TTACATAACTTA
1 TTACATAACTTA
90893086 ACTAATACAT
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
47 4 0.05
48 80 0.91
49 4 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.32
Consensus pattern (47 bp):
TTACATAACTTACATAACTTACATAACTTACATAACTACATAACAAC
Found at i:90893036 original size:57 final size:57
Alignment explanation
Indices: 90892932--90893083 Score: 175
Period size: 57 Copynumber: 2.6 Consensus size: 57
90892922 TAAATAAATT
* * *
90892932 ACATAACTTACATAACT-CAT-ATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTACATAACAACTTACATAACTCACAT-A-AACTTACATAACTC
* * * *
90892989 ACATAACTTACATAATTTACATAACAACTTACATAACTCACAT-AACTTATATAATTT
1 ACATAACTTACATAA-CTACATAACAACTTACATAACTCACATAAACTTACATAACTC
*
90893046 ACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAAC-TACATAACAACTTACATAACT
90893084 TAACTAATAC
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
57 61 0.74
58 1 0.01
59 3 0.04
60 17 0.21
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (57 bp):
ACATAACTTACATAACTACATAACAACTTACATAACTCACATAAACTTACATAACTC
Found at i:90893076 original size:39 final size:37
Alignment explanation
Indices: 90892919--90893070 Score: 193
Period size: 39 Copynumber: 4.1 Consensus size: 37
90892909 ATTGATCATT
* * *
90892919 ACTTAAATAAATTACAT-AACTTACATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACTCACATA
90892955 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
90892994 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
* *
90893033 ACTTATATAATTTACAT-AACTCACATAACGT-ACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TCACATA
90893069 AC
1 AC
90893071 AACTTACATA
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
36 33 0.31
37 1 0.01
39 73 0.68
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.32
Consensus pattern (37 bp):
ACTTACATAATTTACATAAACTTACATAACTCACATA
Found at i:90894500 original size:137 final size:137
Alignment explanation
Indices: 90894271--90894540 Score: 497
Period size: 137 Copynumber: 2.0 Consensus size: 137
90894261 TTCAGGTAAT
*
90894271 AGTGGTACTGGCCCAGAGCCCTTTTCAGATTATAATAAACTGGGCCTTAGCCCCTTATTCAGATA
1 AGTGGTACTGGCCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
90894336 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
66 ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
90894401 GGGAAAC
131 GGGAAAC
*
90894408 AGTGGTACTGAG-CCAGAGCCCTTTTCAGATTACAATAAATTGGGCCTTAGCCCCTTATTCAGAT
1 AGTGGTACTG-GCCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGAT
*
90894472 AACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGCCCATT
65 AACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATT
90894537 TGGG
130 TGGG
90894541 GAGACTACTC
Statistics
Matches: 129, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
137 128 0.99
138 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (137 bp):
AGTGGTACTGGCCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATA
ACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGCCCATTT
GGGAAAC
Found at i:90896362 original size:26 final size:26
Alignment explanation
Indices: 90896328--90896411 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
90896318 CATGAAATTC
90896328 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
90896354 TCATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
90896380 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
90896406 TTATCA
1 TTATCA
90896412 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:90898031 original size:40 final size:41
Alignment explanation
Indices: 90897976--90898084 Score: 139
Period size: 41 Copynumber: 2.6 Consensus size: 41
90897966 GCAAAAATTG
* *
90897976 TAAAACACATAGCAATAGCGGCGTTTTAC-AAAAAACGCCAC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTACTAAAAAAAGCCAC
* *
90898017 TAAAAACAGAGCAATAGCGGCGTTTTACTAAAAAAATCCGC
1 TAAAAACAGAGCAATAGCGGCGTTTTACTAAAAAAAGCCAC
* *
90898058 GAAAAACAGAGCATTAGCGGCGCTTTT
1 TAAAAACAGAGCAATAGCGGCG-TTTT
90898085 GGTAAAACGC
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 22 0.37
41 34 0.57
42 4 0.07
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (41 bp):
TAAAAACAGAGCAATAGCGGCGTTTTACTAAAAAAAGCCAC
Found at i:90898278 original size:7 final size:7
Alignment explanation
Indices: 90898266--90898356 Score: 56
Period size: 7 Copynumber: 12.4 Consensus size: 7
90898256 ATCATTATAG
90898266 TTATGGT
1 TTATGGT
90898273 TTATGGT
1 TTATGGT
* *
90898280 TTAAGAT
1 TTATGGT
*
90898287 ATATGGT
1 TTATGGT
*
90898294 TTAGGGT
1 TTATGGT
*
90898301 TTAAGGT
1 TTATGGT
90898308 TTATGAGT
1 TTATG-GT
90898316 TAACTATGGT
1 T---TATGGT
* *
90898326 TTAAGAT
1 TTATGGT
*
90898333 ATATGGT
1 TTATGGT
*
90898340 TTAGGGT
1 TTATGGT
*
90898347 TTAAGGT
1 TTATGGT
90898354 TTA
1 TTA
90898357 GGAGTTAACT
Statistics
Matches: 63, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
7 53 0.84
8 3 0.05
10 3 0.05
11 4 0.06
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:90898291 original size:21 final size:21
Alignment explanation
Indices: 90898267--90898351 Score: 98
Period size: 21 Copynumber: 3.9 Consensus size: 21
90898257 TCATTATAGT
*
90898267 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* *
90898288 TATGGTTTAGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
*
90898309 TATGAGTTAACTATGGTTTAAGATA
1 TATG-GTT---TAGGGTTTAAGATA
90898334 TATGGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
90898352 GTTTAGGAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
21 32 0.60
22 3 0.06
24 3 0.06
25 15 0.28
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:90898324 original size:46 final size:46
Alignment explanation
Indices: 90898274--90898367 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
90898264 AGTTATGGTT
*
90898274 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
90898320 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
90898366 TA
1 TA
90898368 GTGTTTGAAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.43
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAAC
Found at i:90898423 original size:7 final size:7
Alignment explanation
Indices: 90898394--90898491 Score: 56
Period size: 7 Copynumber: 14.0 Consensus size: 7
90898384 GATGAATTAT
90898394 GGGTTTA
1 GGGTTTA
*
90898401 GGGATTA
1 GGGTTTA
* *
90898408 TGATTTA
1 GGGTTTA
90898415 GGGTTTA
1 GGGTTTA
*
90898422 GGGGTTA
1 GGGTTTA
*
90898429 GAG-TT-
1 GGGTTTA
90898434 GGAGTTTA
1 GG-GTTTA
* *
90898442 AGGTGTAA
1 GGGT-TTA
*
90898450 GGGTTTG
1 GGGTTTA
*
90898457 GGGTTAA
1 GGGTTTA
*
90898464 GGGTTAA
1 GGGTTTA
90898471 GGGTTTA
1 GGGTTTA
*
90898478 GAGTTTA
1 GGGTTTA
*
90898485 GTGTTTA
1 GGGTTTA
90898492 TGGGATAGGG
Statistics
Matches: 68, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
5 1 0.01
6 3 0.04
7 58 0.85
8 6 0.09
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.39
Consensus pattern (7 bp):
GGGTTTA
Found at i:90899261 original size:5 final size:5
Alignment explanation
Indices: 90899235--90899292 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
90899225 ATGTGTTAAA
* *
90899235 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
90899284 ATATT ATAT
1 ATATT ATAT
90899293 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:90899271 original size:10 final size:9
Alignment explanation
Indices: 90899236--90899293 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
90899226 TGTGTTAAAA
90899236 TATATATAT
1 TATATATAT
*
90899245 TAAAT-TAT
1 TATATATAT
90899253 TAT-TATAT
1 TATATATAT
90899261 TATAGTATAT
1 TATA-TATAT
90899271 TATAT-TA-
1 TATATATAT
90899278 TATATTATAT
1 TATA-TATAT
90899288 TATATA
1 TATATA
90899294 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:90899283 original size:12 final size:12
Alignment explanation
Indices: 90899238--90899293 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
90899228 TGTTAAAATA
*
90899238 TATATATTAAAT
1 TATATATTATAT
90899250 TAT-TATTATATT
1 TATATATTATA-T
90899262 ATAGTATATTATAT
1 -TA-TATATTATAT
90899276 TATATATTATAT
1 TATATATTATAT
90899288 TATATA
1 TATATA
90899294 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:90900629 original size:18 final size:19
Alignment explanation
Indices: 90900606--90900644 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
90900596 ATATATATAG
90900606 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
90900624 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
90900643 AT
1 AT
90900645 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:90900994 original size:39 final size:38
Alignment explanation
Indices: 90900884--90901018 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 38
90900874 GACCTCGAGT
* * *
90900884 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA--ATATTACTTCGGCTAG-TC
** ** *
90900925 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAA-TATTACTTCGGCTAGTC
* *
90900963 CGATGAGACACTGGGTGTCAAGTATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAA-TATTACTTCG-GCTAGTC
*
90901002 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
90901019 CCATATTGGT
Statistics
Matches: 74, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
38 18 0.24
39 36 0.49
40 4 0.05
41 16 0.22
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAATATTACTTCGGCTAGTC
Found at i:90901162 original size:18 final size:19
Alignment explanation
Indices: 90901141--90901181 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
90901131 AATGAAATGA
90901141 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
90901159 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
90901178 GAAA
1 GAAA
90901182 ACATGACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:90905371 original size:209 final size:209
Alignment explanation
Indices: 90905011--90905416 Score: 785
Period size: 209 Copynumber: 1.9 Consensus size: 209
90905001 GGTAATCATA
90905011 ATTCATATAATTCACTTGATGCAAAAGATGATTCAAAAGTATAATTCTAAATGGTACATTATTTC
1 ATTCATATAATTCACTTGATGCAAAAGATGATTCAAAAGTATAATTCTAAATGGTACATTATTTC
*
90905076 ATTTTCTGGCATTAAATTCTAAATGGGCATATAATTCACTTGATGCAAAAGATGATTTAAAAGTA
66 ATTTTCTGGCATTAAATTCTAAATGGGCATATAATTCACTTGATGCAAAAGATGATTCAAAAGTA
*
90905141 TAATTCTAAGGAGCTTAAATACTGTAAATTTTGCATGTAATGAGGTATATCATTAATGTTGTTGA
131 TAATTCTAAGGAGCTTAAATACTGTAAATTCTGCATGTAATGAGGTATATCATTAATGTTGTTGA
90905206 TGACGGCAGTGTTT
196 TGACGGCAGTGTTT
*
90905220 ATTCATATAATTCACTTGATGCAAAAGATGATTCAAAAGTATAATTCTAAATGGTACATTGTTTC
1 ATTCATATAATTCACTTGATGCAAAAGATGATTCAAAAGTATAATTCTAAATGGTACATTATTTC
90905285 ATTTTCTGGCATTAAATTCTAAATGGGCATATAATTCACTTGATGCAAAAGATGATTCAAAAGTA
66 ATTTTCTGGCATTAAATTCTAAATGGGCATATAATTCACTTGATGCAAAAGATGATTCAAAAGTA
90905350 TAATTCTAAGGAGCTTAAATACTGTAAATTCTGCATGTAATGAGGTATATCATTAATGTTGTTGA
131 TAATTCTAAGGAGCTTAAATACTGTAAATTCTGCATGTAATGAGGTATATCATTAATGTTGTTGA
90905415 TG
196 TG
90905417 CATGTAAATT
Statistics
Matches: 194, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
209 194 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (209 bp):
ATTCATATAATTCACTTGATGCAAAAGATGATTCAAAAGTATAATTCTAAATGGTACATTATTTC
ATTTTCTGGCATTAAATTCTAAATGGGCATATAATTCACTTGATGCAAAAGATGATTCAAAAGTA
TAATTCTAAGGAGCTTAAATACTGTAAATTCTGCATGTAATGAGGTATATCATTAATGTTGTTGA
TGACGGCAGTGTTT
Found at i:90905431 original size:13 final size:13
Alignment explanation
Indices: 90905415--90905460 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
90905405 ATGTTGTTGA
90905415 TGCATGTAAATTC
1 TGCATGTAAATTC
90905428 TGCATGTAAA---
1 TGCATGTAAATTC
*
90905438 TAC-TGTAAATTC
1 TGCATGTAAATTC
90905450 TGCATGTAAAT
1 TGCATGTAAAT
90905461 CGGCATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
9 6 0.22
10 2 0.07
12 2 0.07
13 17 0.63
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (13 bp):
TGCATGTAAATTC
Found at i:90905447 original size:22 final size:22
Alignment explanation
Indices: 90905419--90905460 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
90905409 TGTTGATGCA
90905419 TGTAAATTCTGCATGTAAATAC
1 TGTAAATTCTGCATGTAAATAC
90905441 TGTAAATTCTGCATGTAAAT
1 TGTAAATTCTGCATGTAAAT
90905461 CGGCATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (22 bp):
TGTAAATTCTGCATGTAAATAC
Done.