Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 206 of 228
Found at i:60246952 original size:79 final size:79
Alignment explanation
Indices: 60246816--60246977 Score: 306
Period size: 79 Copynumber: 2.1 Consensus size: 79
60246806 GGAGAAGTTG
*
60246816 TTATATTTTGCCTATAAATATGCATCACTTATGGATGTGTGATGCAACTTTTGTGAGTGCTTGTG
1 TTATATTTTGCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTGTGAGTGCTTGTG
60246881 CTACATTTTACTCA
66 CTACATTTTACTCA
*
60246895 TTATATTTTGCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTTTGAGTGCTTGTG
1 TTATATTTTGCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTGTGAGTGCTTGTG
60246960 CTACATTTTACTCA
66 CTACATTTTACTCA
60246974 TTAT
1 TTAT
60246978 TTGCTTGTGT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.44
Consensus pattern (79 bp):
TTATATTTTGCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTGTGAGTGCTTGTG
CTACATTTTACTCA
Found at i:60247323 original size:18 final size:18
Alignment explanation
Indices: 60247280--60247316 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
60247270 TAAAATGCTT
*
60247280 TTTCAA-TATTTTTATTA
1 TTTCAATTAATTTTATTA
60247297 TTTCAATTAATTTTATTA
1 TTTCAATTAATTTTATTA
60247315 TT
1 TT
60247317 CGAATTATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTCAATTAATTTTATTA
Found at i:60253912 original size:17 final size:17
Alignment explanation
Indices: 60253880--60254067 Score: 131
Period size: 17 Copynumber: 10.9 Consensus size: 17
60253870 GCACAATAAT
*
60253880 AATTGTTTGAAAACACGTA
1 AATT-TTTG-AAACACGAA
*
60253899 AATTTGTGAAACACGAGA
1 AATTTTTGAAACACGA-A
* *
60253917 ATTTTTTGAAAACATGAA
1 AATTTTTG-AAACACGAA
60253935 AATTTTTGAAACACGAA
1 AATTTTTGAAACACGAA
60253952 AATTTTTGAAACAC-ATGA
1 AATTTTTGAAACACGA--A
*
60253970 ATTTTTTGAAAACACGAA
1 AATTTTTG-AAACACGAA
* *
60253988 AATTTTTTAAACACAGGA
1 AATTTTTGAAACAC-GAA
60254006 AA-TTTT-----ACGAA
1 AATTTTTGAAACACGAA
* * *
60254017 GAGTTTTGAAACACCG-G
1 AATTTTTGAAACA-CGAA
60254034 AATTTTTGAAAACACGAA
1 AATTTTTG-AAACACGAA
*
60254052 GATTTTTGAAACACGA
1 AATTTTTGAAACACGA
60254068 TTTTTTTTAA
Statistics
Matches: 135, Mismatches: 18, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
11 3 0.02
12 6 0.04
16 1 0.01
17 56 0.41
18 51 0.38
19 17 0.13
20 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (17 bp):
AATTTTTGAAACACGAA
Found at i:60253930 original size:36 final size:35
Alignment explanation
Indices: 60253880--60254011 Score: 126
Period size: 36 Copynumber: 3.7 Consensus size: 35
60253870 GCACAATAAT
* *
60253880 AATTGTTTGAAAACACGTAAATTTGTGAAACACGA
1 AATTTTTTGAAAACACGTAAATTTTTGAAACACGA
* *
60253915 GAATTTTTTGAAAACATGAAAATTTTTGAAACACGA
1 -AATTTTTTGAAAACACGTAAATTTTTGAAACACGA
* * *
60253951 AAATTTTTG-AAACACATGAATTTTTTGAAAACACGAA
1 AATTTTTTGAAAACACGT-AAATTTTTG-AAACACG-A
*
60253988 AATTTTTT--AAACACAGGAAATTTT
1 AATTTTTTGAAAACAC-GTAAATTTT
60254012 ACGAAGAGTT
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
34 5 0.06
35 16 0.20
36 50 0.63
37 8 0.10
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (35 bp):
AATTTTTTGAAAACACGTAAATTTTTGAAACACGA
Found at i:60253962 original size:53 final size:53
Alignment explanation
Indices: 60253880--60254011 Score: 176
Period size: 53 Copynumber: 2.4 Consensus size: 53
60253870 GCACAATAAT
* * *
60253880 AATTGTTTGAAAACACGTAAATTTGTGAAACACGA-GAATTTTTTGAAAACATGAA
1 AATT-TTTG-AAACACGAAAATTTTTGAAACAC-ATGAATTTTTTGAAAACACGAA
60253935 AATTTTTGAAACACGAAAATTTTTGAAACACATGAATTTTTTGAAAACACGAA
1 AATTTTTGAAACACGAAAATTTTTGAAACACATGAATTTTTTGAAAACACGAA
* *
60253988 AATTTTTTAAACACAGGAAATTTT
1 AATTTTTGAAACAC-GAAAATTTT
60254012 ACGAAGAGTT
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
52 1 0.01
53 53 0.76
54 12 0.17
55 4 0.06
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (53 bp):
AATTTTTGAAACACGAAAATTTTTGAAACACATGAATTTTTTGAAAACACGAA
Found at i:60254048 original size:18 final size:18
Alignment explanation
Indices: 60254012--60254120 Score: 89
Period size: 18 Copynumber: 6.2 Consensus size: 18
60254002 AGGAAATTTT
*
60254012 ACGAAGAGTTTTG-AAAC
1 ACGAAGATTTTTGAAAAC
*
60254029 ACCGGA-ATTTTTGAAAAC
1 A-CGAAGATTTTTGAAAAC
60254047 ACGAAGATTTTTG-AAAC
1 ACGAAGATTTTTGAAAAC
*** *
60254064 ACGATTTTTTTTAAAAAC
1 ACGAAGATTTTTGAAAAC
* * *
60254082 AAGAAAATTTGTGAAAAC
1 ACGAAGATTTTTGAAAAC
* *
60254100 ATGAAGATTTGTGAAAAC
1 ACGAAGATTTTTGAAAAC
60254118 ACG
1 ACG
60254121 GAATTTTTTT
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
17 23 0.32
18 49 0.68
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
ACGAAGATTTTTGAAAAC
Found at i:60254293 original size:20 final size:20
Alignment explanation
Indices: 60254268--60254306 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60254258 CGTGATTCTA
*
60254268 TTAAAACACGAGAATTTTTT
1 TTAAAACACGAAAATTTTTT
*
60254288 TTAAAACATGAAAATTTTT
1 TTAAAACACGAAAATTTTT
60254307 GAATATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (20 bp):
TTAAAACACGAAAATTTTTT
Found at i:60254632 original size:7 final size:7
Alignment explanation
Indices: 60254620--60254687 Score: 66
Period size: 7 Copynumber: 9.7 Consensus size: 7
60254610 CTTGGGCCCC
60254620 TTTTTCT
1 TTTTTCT
60254627 TTTTTCT
1 TTTTTCT
*
60254634 TTCTTCT
1 TTTTTCT
*
60254641 TTTTTAT
1 TTTTTCT
*
60254648 TTTTTAT
1 TTTTTCT
60254655 TTTTT-T
1 TTTTTCT
*
60254661 TCTCTTCT
1 T-TTTTCT
60254669 TTTTTCT
1 TTTTTCT
**
60254676 TTCCTCT
1 TTTTTCT
60254683 TTTTT
1 TTTTT
60254688 TGGGCCTTCT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
6 2 0.04
7 46 0.92
8 2 0.04
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:60254659 original size:28 final size:28
Alignment explanation
Indices: 60254620--60254673 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
60254610 CTTGGGCCCC
*
60254620 TTTTTCTTTTTTCTT-TCTTCTTTTTTAT
1 TTTTTATTTTTT-TTCTCTTCTTTTTTAT
60254648 TTTTTATTTTTTTTCTCTTCTTTTTT
1 TTTTTATTTTTTTTCTCTTCTTTTTT
60254674 CTTTCCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (28 bp):
TTTTTATTTTTTTTCTCTTCTTTTTTAT
Found at i:60255030 original size:8 final size:8
Alignment explanation
Indices: 60255017--60255044 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
60255007 TTATTTTTAC
60255017 TTTTATTT
1 TTTTATTT
60255025 TTTTATTT
1 TTTTATTT
60255033 TTTTATTT
1 TTTTATTT
60255041 TTTT
1 TTTT
60255045 CCTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:60255050 original size:16 final size:16
Alignment explanation
Indices: 60255017--60255095 Score: 61
Period size: 16 Copynumber: 4.8 Consensus size: 16
60255007 TTATTTTTAC
**
60255017 TTTTATTTTTTTATTT
1 TTTTATTTTTTTCCTT
60255033 TTTTATTTTTTTCCTT
1 TTTTATTTTTTTCCTT
**
60255049 TTTT-TTCTTTCCCCTT
1 TTTTATT-TTTTTCCTT
* *
60255065 TTTTCTTTTCTTCTCTT
1 TTTTATTTTTTTC-CTT
60255082 CTTTTATTCTTTTT
1 -TTTTATT-TTTTT
60255096 TCTTCTCCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
15 2 0.04
16 32 0.65
17 5 0.10
18 6 0.12
19 4 0.08
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTTTCCTT
Found at i:60255232 original size:21 final size:21
Alignment explanation
Indices: 60255208--60255251 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
60255198 CTCTCTGTCC
*
60255208 TTCTTCTTT-GCTGCTTTTTTT
1 TTCTT-TTTGGCTGCTATTTTT
*
60255229 TTCTTTTTGGTTGCTATTTTT
1 TTCTTTTTGGCTGCTATTTTT
60255250 TT
1 TT
60255252 GTTGATTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.02, C:0.14, G:0.11, T:0.73
Consensus pattern (21 bp):
TTCTTTTTGGCTGCTATTTTT
Found at i:60255264 original size:22 final size:23
Alignment explanation
Indices: 60255214--60255286 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 23
60255204 GTCCTTCTTC
* *
60255214 TTTGC-TGCTTTTTTTTTCTT--
1 TTTGCTTGCTATTTTTTTGTTGA
*
60255234 TTTGGTTGCTATTTTTTTGTTGA
1 TTTGCTTGCTATTTTTTTGTTGA
* *
60255257 TTT-CTTGCTGTTTTTTTGTTGC
1 TTTGCTTGCTATTTTTTTGTTGA
60255279 TTTGCTTG
1 TTTGCTTG
60255287 TTTGGGTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 4 0.09
21 13 0.30
22 19 0.44
23 7 0.16
ACGTcount: A:0.03, C:0.11, G:0.18, T:0.68
Consensus pattern (23 bp):
TTTGCTTGCTATTTTTTTGTTGA
Found at i:60255868 original size:30 final size:29
Alignment explanation
Indices: 60255770--60255875 Score: 83
Period size: 30 Copynumber: 3.6 Consensus size: 29
60255760 TAAAAAATAC
* * * *
60255770 GGGCCAAAATGTAATTTCTAGAAAGTTTA
1 GGGCTAAAATATAATTTTTAAAAAGTTTA
**
60255799 GGGGCTTGAATATAA--TTTACAAAA-TATTA
1 -GGGCTAAAATATAATTTTTA-AAAAGT-TTA
*
60255828 GGGGTCAAAATATAATTTTTAAAAAGTTTA
1 GGGCT-AAAATATAATTTTTAAAAAGTTTA
60255858 GGAGCTAAAATATAATTT
1 GG-GCTAAAATATAATTT
60255876 CTATTTTTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
28 8 0.14
29 13 0.22
30 31 0.53
31 7 0.12
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.34
Consensus pattern (29 bp):
GGGCTAAAATATAATTTTTAAAAAGTTTA
Found at i:60256496 original size:75 final size:76
Alignment explanation
Indices: 60256215--60256990 Score: 937
Period size: 75 Copynumber: 10.2 Consensus size: 76
60256205 ATATTTTTTA
* * ** * * * ** * *
60256215 TTTGAAAAACAGAAATCGAAA-ATAGCTTAGTATGCGACCTGAAACTCAACTCACCTCTCGGATT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
60256279 ATGAGTTGATT
66 ATGAGTTGATT
* * ** * *
60256290 TTTGAAAAACAAAAATTGAAAAATACCTCGGTGTGTGACCCGAGGCTCAACTCACCTCTCGTATT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
60256355 ATGTGTTGATT
66 ATGAGTTGATT
* *
60256366 TTTGAGAAAAAAAATAGAAATT-AAAGATGCCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
1 TTT--G---AAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTC
*
60256430 GCAAAATGAGTTGATT
61 GCAATATGAGTTGATT
* * * * *
60256446 TTTAAAAAACAGAAATT-AAAGATACATTGGTATGTGATCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
60256510 ATAAGTTGATT
66 ATGAGTTGATT
* * *
60256521 TTTAAAAAAATAGAAATT-AAAGATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTT-GAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
60256585 TATGAGTTGATTT
65 TATGAGTTGA-TT
*
60256598 TTTGAAAAACAGAAATTGAAA-ATACCTCAGCA--TGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*
60256660 ATGAGTTAATTTT
66 ATGAGTTGA--TT
*
60256673 TTTGAAAAACAGAAATTGAAA-ATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
60256735 ATGAGTTGATT
66 ATGAGTTGATT
* * * * * *
60256746 TTT-AGAAACATAAATTGAAAAATACCTCGGCGTGTGACCCAAGGCTCAACTCACCTCTCGCATT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
60256810 ATGAGTTGATT
66 ATGAGTTGATT
* * * *
60256821 TTTGAAAAACATAAATTGAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTTGTAAT
1 TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
60256886 ATGAGTTGATTTT
66 ATGAGTTGA--TT
* *
60256899 TTTGAAAAATAGAAATTG-AAGAATACCTCGGCATATGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAACAGAAATTGAAAG-ATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
*
60256963 TATGAGCTGATTT
65 TATGAGTTGA-TT
60256976 TTTGAAAAACAGAAA
1 TTTGAAAAACAGAAA
60256991 AAGAAATGGT
Statistics
Matches: 622, Mismatches: 61, Indels: 34
0.87 0.09 0.05
Matches are distributed among these distances:
72 15 0.02
73 14 0.02
74 38 0.06
75 200 0.32
76 197 0.32
77 27 0.04
78 67 0.11
80 53 0.09
81 11 0.02
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (76 bp):
TTTGAAAAACAGAAATTGAAAGATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATT
Found at i:60258759 original size:103 final size:104
Alignment explanation
Indices: 60258515--60258780 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
60258505 GTTGTACATA
** *
60258515 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
60258580 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
60258619 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
60258683 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
60258722 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
60258781 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:60266234 original size:103 final size:104
Alignment explanation
Indices: 60265990--60266255 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
60265980 GTTGTACATA
** *
60265990 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
60266055 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
60266094 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
60266158 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
60266197 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
60266256 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:60279074 original size:18 final size:17
Alignment explanation
Indices: 60278996--60279227 Score: 171
Period size: 18 Copynumber: 13.1 Consensus size: 17
60278986 GCACAATAAT
*
60278996 AATTGTTTGAAAACACGTA
1 AATT-TTTG-AAACACGAA
*
60279015 AATTTGTGAAACACGAGA
1 AATTTTTGAAACACGA-A
* * *
60279033 ATTTTTTAAAAACGCGAA
1 AATTTTT-GAAACACGAA
*
60279051 AATTTTTGAAACACAAA
1 AATTTTTGAAACACGAA
* *
60279068 AATTTTTGAAACA-TAGG
1 AATTTTTGAAACACGA-A
60279085 AATTTTTGAAAACACGAA
1 AATTTTTG-AAACACGAA
60279103 AATTTTTGAAACACCGAA
1 AATTTTTGAAACA-CGAA
60279121 AA-TTTTGAAAACACGAA
1 AATTTTTG-AAACACGAA
* * * *
60279138 GAGTTTTGAAACACCAG
1 AATTTTTGAAACACGAA
60279155 AATTTTTGAAAACACGAA
1 AATTTTTG-AAACACGAA
* * *
60279173 GATTTTTGAAGCACGAT
1 AATTTTTGAAACACGAA
** * *
60279190 TTTTTTTAAAAACAAGAA
1 AATTTTT-GAAACACGAA
*
60279208 AATTTGTGAAAACACGAA
1 AATTTTTG-AAACACGAA
60279226 AA
1 AA
60279228 AAACGAAGAT
Statistics
Matches: 167, Mismatches: 35, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
16 1 0.01
17 75 0.45
18 79 0.47
19 12 0.07
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (17 bp):
AATTTTTGAAACACGAA
Found at i:60279196 original size:35 final size:34
Alignment explanation
Indices: 60278996--60279226 Score: 187
Period size: 35 Copynumber: 6.5 Consensus size: 34
60278986 GCACAATAAT
*
60278996 AATTGTTTGAAAACACGTAAATTTGTG-AAACACGAGA
1 AATT-TTTG-AAACACG-AAATTTTTGAAAACACGA-A
* * * *
60279033 ATTTTTTAAAAACGCGAAAATTTTTG-AAACACAAA
1 AATTTTT-GAAACACG-AAATTTTTGAAAACACGAA
* *
60279068 AATTTTTGAAACATAGGAATTTTTGAAAACACGAA
1 AATTTTTGAAACA-CGAAATTTTTGAAAACACGAA
*
60279103 AATTTTTGAAACACCGAAAATTTTGAAAACACGAA
1 AATTTTTGAAACA-CGAAATTTTTGAAAACACGAA
* * *
60279138 GAGTTTTGAAACACCAGAATTTTTGAAAACACGAA
1 AATTTTTGAAACACGA-AATTTTTGAAAACACGAA
* * ** * *
60279173 GATTTTTGAAGCACGATTTTTTTTAAAAACAAGAA
1 AATTTTTGAAACACGA-AATTTTTGAAAACACGAA
*
60279208 AATTTGTGAAAACACGAAA
1 AATTTTTG-AAACACGAAA
60279227 AAAACGAAGA
Statistics
Matches: 156, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
34 14 0.09
35 108 0.69
36 31 0.20
37 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.29
Consensus pattern (34 bp):
AATTTTTGAAACACGAAATTTTTGAAAACACGAA
Found at i:60279772 original size:16 final size:15
Alignment explanation
Indices: 60279738--60279784 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
60279728 CTTGGGCCTC
*
60279738 TTCTTTTTTTCTTTTT
1 TTCTTCTTTT-TTTTT
60279754 TTC-TCTTCTTTTTTCT
1 TTCTTCTT-TTTTTT-T
60279770 TTCTTCTTTTTTTTT
1 TTCTTCTTTTTTTTT
60279785 GGCCTGTTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 8 0.30
16 15 0.56
17 4 0.15
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTCTTCTTTTTTTTT
Found at i:60279774 original size:14 final size:13
Alignment explanation
Indices: 60279746--60279782 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
60279736 TCTTCTTTTT
60279746 TTCTTTTTTTCTC
1 TTCTTTTTTTCTC
*
60279759 TTCTTTTTTCTTTC
1 TTCTTTTTT-TCTC
60279773 TTCTTTTTTT
1 TTCTTTTTTT
60279783 TTGGCCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTCTTTTTTTCTC
Found at i:60280170 original size:13 final size:13
Alignment explanation
Indices: 60280144--60280208 Score: 76
Period size: 13 Copynumber: 4.9 Consensus size: 13
60280134 TTTTTTATTT
60280144 TTTTCTTCTTTTTC
1 TTTTCTT-TTTTTC
*
60280158 TTCTCTTTTTTTC
1 TTTTCTTTTTTTC
* *
60280171 TTTCCCTTTTTTC
1 TTTTCTTTTTTTC
* *
60280184 TTTTCTTCTGTTC
1 TTTTCTTTTTTTC
60280197 TTTTCTTTTTTT
1 TTTTCTTTTTTT
60280209 TCCTTCTCTA
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
13 35 0.85
14 6 0.15
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:60280181 original size:26 final size:27
Alignment explanation
Indices: 60280152--60280217 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 27
60280142 TTTTTTCTTC
* *
60280152 TTTTTCTTCTCTTTTTTTC-TTTCCCT
1 TTTTTCTTCTCTTCTGTTCTTTTCCCT
* **
60280178 TTTTTCTTTTCTTCTGTTCTTTTCTTT
1 TTTTTCTTCTCTTCTGTTCTTTTCCCT
60280205 TTTTTCCTTCTCT
1 TTTTT-CTTCTCT
60280218 AAACCCTAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 16 0.50
27 10 0.31
28 6 0.19
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (27 bp):
TTTTTCTTCTCTTCTGTTCTTTTCCCT
Found at i:60280188 original size:31 final size:33
Alignment explanation
Indices: 60280144--60280204 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
60280134 TTTTTTATTT
*
60280144 TTTTCTTCTTTTTCTTCTCTTTTTTTCTTTCCC
1 TTTTCTTCTTTTTCTTCTCTTCTTTTCTTTCCC
*
60280177 TTTT-TTC-TTTTCTTCTGTTCTTTTCTTT
1 TTTTCTTCTTTTTCTTCTCTTCTTTTCTTT
60280205 TTTTTCCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 19 0.73
32 3 0.12
33 4 0.15
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (33 bp):
TTTTCTTCTTTTTCTTCTCTTCTTTTCTTTCCC
Found at i:60280208 original size:8 final size:8
Alignment explanation
Indices: 60280128--60280208 Score: 56
Period size: 8 Copynumber: 9.5 Consensus size: 8
60280118 CTATTTTTAC
*
60280128 TTTTATTT
1 TTTTCTTT
*
60280136 TTTTATTT
1 TTTTCTTT
60280144 TTTTCTTCT
1 TTTTCTT-T
60280153 TTTTCTTCT
1 TTTTCTT-T
60280162 CTTTT-TTT
1 -TTTTCTTT
* *
60280170 CTTTCCCTT
1 -TTTTCTTT
60280179 TTTTCTTT
1 TTTTCTTT
*
60280187 TCTTCTGTT
1 TTTTCT-TT
60280196 CTTTTCTTT
1 -TTTTCTTT
60280205 TTTT
1 TTTT
60280209 TCCTTCTCTA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
8 34 0.56
9 18 0.30
10 9 0.15
ACGTcount: A:0.02, C:0.17, G:0.01, T:0.79
Consensus pattern (8 bp):
TTTTCTTT
Found at i:60280358 original size:19 final size:20
Alignment explanation
Indices: 60280322--60280365 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
60280312 TTCTCTCTCA
60280322 TTTTTCTTCTTTGCTGCT-T
1 TTTTTCTTCTTTGCTGCTAT
*
60280341 TTTTTCTT-TTTGGTTGCTAT
1 TTTTTCTTCTTT-GCTGCTAT
60280361 TTTTT
1 TTTTT
60280366 TTGTTGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 13 0.59
20 6 0.27
ACGTcount: A:0.02, C:0.14, G:0.11, T:0.73
Consensus pattern (20 bp):
TTTTTCTTCTTTGCTGCTAT
Found at i:60280385 original size:22 final size:24
Alignment explanation
Indices: 60280349--60280402 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
60280339 TTTTTTTCTT
*
60280349 TTTGGTTGCTATTTTTTTTGTTGA
1 TTTGCTTGCTATTTTTTTTGTTGA
*
60280373 TTT-CTTGCT-TTTTTTTTGTTGC
1 TTTGCTTGCTATTTTTTTTGTTGA
60280395 TTTGCTTG
1 TTTGCTTG
60280403 TTTGGGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 15 0.56
23 9 0.33
24 3 0.11
ACGTcount: A:0.04, C:0.09, G:0.19, T:0.69
Consensus pattern (24 bp):
TTTGCTTGCTATTTTTTTTGTTGA
Found at i:60280399 original size:19 final size:18
Alignment explanation
Indices: 60280336--60280401 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 18
60280326 TCTTCTTTGC
* *
60280336 TGCTTTTTTTCTTTTTGGT
1 TGCTTTTTTT-TTGTTGTT
60280355 TGCTATTTTTTTTGTTGATTTCT
1 TGCT-TTTTTTTTGTTG---T-T
60280378 TGCTTTTTTTTTGTTGCTT
1 TGCTTTTTTTTTGTTG-TT
60280397 TGCTT
1 TGCTT
60280402 GTTTGGGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 15 0.38
20 7 0.18
22 12 0.31
23 5 0.13
ACGTcount: A:0.03, C:0.11, G:0.15, T:0.71
Consensus pattern (18 bp):
TGCTTTTTTTTTGTTGTT
Found at i:60286223 original size:11 final size:11
Alignment explanation
Indices: 60286207--60286233 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
60286197 TTTACTTTAT
60286207 TTATTTTATTA
1 TTATTTTATTA
60286218 TTATTTTATTA
1 TTATTTTATTA
60286229 TTATT
1 TTATT
60286234 AAAATTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:60290051 original size:21 final size:21
Alignment explanation
Indices: 60290022--60290074 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
60290012 GTTCACTATG
*
60290022 TTGCGACATCGACATTCCAG-A
1 TTGCAACATCGACATTCC-GTA
*
60290043 TTGCAACATCAACATTCCGTA
1 TTGCAACATCGACATTCCGTA
60290064 TTGCAACATCG
1 TTGCAACATCG
60290075 TGGCCAGTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (21 bp):
TTGCAACATCGACATTCCGTA
Found at i:60292645 original size:9 final size:9
Alignment explanation
Indices: 60292627--60292702 Score: 91
Period size: 9 Copynumber: 8.4 Consensus size: 9
60292617 TTTGGTTAAA
60292627 AATTAACCG
1 AATTAACCG
*
60292636 AATTACCCG
1 AATTAACCG
*
60292645 AATTAACTG
1 AATTAACCG
*
60292654 AATTAA-CT
1 AATTAACCG
*
60292662 AGATTACCCG
1 A-ATTAACCG
60292672 AATTAACCG
1 AATTAACCG
*
60292681 AATTATCCG
1 AATTAACCG
60292690 AATTAACCG
1 AATTAACCG
60292699 AATT
1 AATT
60292703 GAATCACTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
8 1 0.02
9 52 0.95
10 2 0.04
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:60292845 original size:18 final size:18
Alignment explanation
Indices: 60292805--60292848 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
60292795 AATTTTTATG
**
60292805 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
60292823 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
60292841 CTTGGGTT
1 ATTGGGTT
60292849 TGGATTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:60297975 original size:3 final size:3
Alignment explanation
Indices: 60297967--60298006 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
60297957 TGAGCTGTCA
60297967 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
60298007 GTGCTATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:60302177 original size:6 final size:6
Alignment explanation
Indices: 60302166--60302198 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
60302156 CGACTCCCCA
*
60302166 TTTATT TTTATT TTTATT TTTATT TTTGTT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTT
60302199 TGTAACCCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:60303291 original size:28 final size:28
Alignment explanation
Indices: 60303223--60303292 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
60303213 CCGAATATAA
* *
60303223 TAAATATATATTTTATATTTTTTTAATTT
1 TAAA-ATAAATTTTTTATTTTTTTAATTT
* *
60303252 TAAAAT-ACTTTTTTATTTTTTTATTTT
1 TAAAATAAATTTTTTATTTTTTTAATTT
60303279 TAAAATAAATTTTT
1 TAAAATAAATTTTT
60303293 GGTGTTTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.66
28 8 0.23
29 4 0.11
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (28 bp):
TAAAATAAATTTTTTATTTTTTTAATTT
Found at i:60315775 original size:35 final size:35
Alignment explanation
Indices: 60315696--60315767 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 35
60315686 CTTTTGTGCC
* *
60315696 TTTTT-TTTTTATTTTTAATCTCCCTTCTTCAAAA
1 TTTTTATTTTTAATTTTAATCTCCCTTCTACAAAA
*
60315730 TTTTTATTTTTAATTTT-ATCTTCCTTCTACAAAA
1 TTTTTATTTTTAATTTTAATCTCCCTTCTACAAAA
60315764 TTTT
1 TTTT
60315768 ACCTTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 24 0.71
35 10 0.29
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.62
Consensus pattern (35 bp):
TTTTTATTTTTAATTTTAATCTCCCTTCTACAAAA
Found at i:60318661 original size:29 final size:29
Alignment explanation
Indices: 60318628--60318683 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
60318618 ACAAGAATGC
*
60318628 TTGATTTTATTGATTATGATTAGGTTTAG
1 TTGATTTTATTGATTAAGATTAGGTTTAG
* *
60318657 TTGATTTTATTGCTTAAGTTTAGGTTT
1 TTGATTTTATTGATTAAGATTAGGTTT
60318684 TTAGATGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.02, G:0.20, T:0.57
Consensus pattern (29 bp):
TTGATTTTATTGATTAAGATTAGGTTTAG
Found at i:60320829 original size:6 final size:6
Alignment explanation
Indices: 60320820--60320854 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
60320810 ATAGAAGTAG
60320820 AACATT AACATT AACATT AACATT AACATT AACAT
1 AACATT AACATT AACATT AACATT AACATT AACAT
60320855 CCTTCCCCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.31
Consensus pattern (6 bp):
AACATT
Found at i:60326060 original size:27 final size:27
Alignment explanation
Indices: 60326003--60326054 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
60325993 TAGATTAAGA
*
60326003 TTTGATTTTAATTATTATTATTTAAATT
1 TTTG-TTTTAATTATTATTACTTAAATT
60326031 TTTGTTTTAATT-TTA-TACTTAAAT
1 TTTGTTTTAATTATTATTACTTAAAT
60326055 AATTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 3 0.13
27 8 0.35
28 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (27 bp):
TTTGTTTTAATTATTATTACTTAAATT
Found at i:60326794 original size:16 final size:16
Alignment explanation
Indices: 60326773--60326804 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
60326763 ATAACCTAAG
60326773 GGAAACAAAAGTGATT
1 GGAAACAAAAGTGATT
60326789 GGAAACAAAAGTGATT
1 GGAAACAAAAGTGATT
60326805 ATTTTGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.25, T:0.19
Consensus pattern (16 bp):
GGAAACAAAAGTGATT
Found at i:60326944 original size:22 final size:21
Alignment explanation
Indices: 60326919--60326980 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 21
60326909 AATTATAAAT
60326919 TATTGATATTATTTAAATAATA
1 TATT-ATATTATTTAAATAATA
*
60326941 TATTACA--ATTTAAA-AATTA
1 TATTATATTATTTAAATAA-TA
60326960 TATTATATT-TTTGAAATAATA
1 TATTATATTATTT-AAATAATA
60326981 AAAAAGAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 11
0.72 0.04 0.24
Matches are distributed among these distances:
18 2 0.06
19 15 0.45
20 3 0.09
21 7 0.21
22 6 0.18
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (21 bp):
TATTATATTATTTAAATAATA
Found at i:60327635 original size:21 final size:20
Alignment explanation
Indices: 60327610--60327648 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
60327600 TCTAATTTCG
*
60327610 AATTTAATAAATTTTTATTCA
1 AATTT-ATAAAATTTTATTCA
*
60327631 AATTTTTAAAATTTTATT
1 AATTTATAAAATTTTATT
60327649 TGTAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTATAAAATTTTATTCA
Found at i:60330797 original size:32 final size:32
Alignment explanation
Indices: 60330761--60330824 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
60330751 GCAAGTAAGC
60330761 TAACTGAAGCTTAGTAAGTGCAATTAGTTAAA
1 TAACTGAAGCTTAGTAAGTGCAATTAGTTAAA
*
60330793 TAACTGAAGCTTAGTAAGTTCAATTAGTTAAA
1 TAACTGAAGCTTAGTAAGTGCAATTAGTTAAA
60330825 CATAAATCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (32 bp):
TAACTGAAGCTTAGTAAGTGCAATTAGTTAAA
Found at i:60331073 original size:21 final size:21
Alignment explanation
Indices: 60331045--60331239 Score: 133
Period size: 21 Copynumber: 9.3 Consensus size: 21
60331035 AAGTCTGAAG
60331045 GCTAAACAGAAGCTCATAAGA
1 GCTAAACAGAAGCTCATAAGA
* * * *
60331066 GATAAACAGAAACCCATAAGG
1 GCTAAACAGAAGCTCATAAGA
* * *
60331087 GTTGAACGGAAGCTCATAAGA
1 GCTAAACAGAAGCTCATAAGA
* * *
60331108 GCTAAAC-GAAAACCCATAAGG
1 GCTAAACAG-AAGCTCATAAGA
* *
60331129 GTTAAACAGAAGCTCAAAAGA
1 GCTAAACAGAAGCTCATAAGA
* * * * *
60331150 GCTTAACGGAAACCCATAAGG
1 GCTAAACAGAAGCTCATAAGA
*
60331171 GTTAAACAGAAGCTCA-ATAGA
1 GCTAAACAGAAGCTCATA-AGA
* * *
60331192 GCTAAACAAAAACTCATATGA
1 GCTAAACAGAAGCTCATAAGA
* * * *
60331213 GTTGAATAGAAGCTCATGAGA
1 GCTAAACAGAAGCTCATAAGA
60331234 GCTAAA
1 GCTAAA
60331240 TGGAAAGTAA
Statistics
Matches: 124, Mismatches: 46, Indels: 8
0.70 0.26 0.04
Matches are distributed among these distances:
20 2 0.02
21 120 0.97
22 2 0.02
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (21 bp):
GCTAAACAGAAGCTCATAAGA
Found at i:60331101 original size:42 final size:42
Alignment explanation
Indices: 60331047--60331239 Score: 237
Period size: 42 Copynumber: 4.6 Consensus size: 42
60331037 GTCTGAAGGC
*
60331047 TAAACAGAAGCTCATAAGAGATAAACAGAAACCCATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* *
60331089 TGAACGGAAGCTCATAAGAGCTAAAC-GAAAACCCATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAACAG-AAACCCATAAGGGT
* * *
60331131 TAAACAGAAGCTCAAAAGAGCTTAACGGAAACCCATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * * *
60331173 TAAACAGAAGCTCA-ATAGAGCTAAACAAAAACTCATATGAGT
1 TAAACAGAAGCTCATA-AGAGCTAAACAGAAACCCATAAGGGT
* * *
60331215 TGAATAGAAGCTCATGAGAGCTAAA
1 TAAACAGAAGCTCATAAGAGCTAAA
60331240 TGGAAAGTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.02
42 128 0.98
43 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (42 bp):
TAAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
Found at i:60337681 original size:41 final size:41
Alignment explanation
Indices: 60337622--60337702 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
60337612 CACATGGCCG
* * * *
60337622 TGTGGTAGGTCATGTGGGTCACGC-AGTCATGTGGTAGACCA
1 TGTGGTAGGCCATATGGGTCACACGA-CCATGTGGTAGACCA
*
60337663 TGTGGTAGGCCGTATGGGTCACACGACCATGTGGTAGACC
1 TGTGGTAGGCCATATGGGTCACACGACCATGTGGTAGACC
60337703 GTATGGGTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 33 0.97
42 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.25
Consensus pattern (41 bp):
TGTGGTAGGCCATATGGGTCACACGACCATGTGGTAGACCA
Found at i:60337690 original size:29 final size:29
Alignment explanation
Indices: 60337658--60337737 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 29
60337648 TCATGTGGTA
60337658 GACCATGTGGTAGGCCGTATGGGTCACAC
1 GACCATGTGGTAGGCCGTATGGGTCACAC
*
60337687 GACCATGTGGTAGACCGTATGGGTCACAC
1 GACCATGTGGTAGGCCGTATGGGTCACAC
* *
60337716 AACCCTGTGGTAGGCCGTATGG
1 GACCATGTGGTAGGCCGTATGG
60337738 TGGCCCTTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.21, C:0.24, G:0.34, T:0.21
Consensus pattern (29 bp):
GACCATGTGGTAGGCCGTATGGGTCACAC
Found at i:60337790 original size:41 final size:41
Alignment explanation
Indices: 60337692--60337791 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 41
60337682 CACACGACCA
* **
60337692 TGTGGTAGACCGTATGGGTCACACAACCCTGTGGTAGGCCG
1 TGTGGTAGACCGTGTGGGTCACACAACAATGTGGTAGGCCG
* * * * *
60337733 TATGGTGGCCCTTGTGGGTCACACAACAATGTGGTAGGTTC-
1 TGTGGTAGACCGTGTGGGTCACACAACAATGTGGTAGG-CCG
*
60337774 TGTGGCAGACCGTGTGGG
1 TGTGGTAGACCGTGTGGG
60337792 CTATACGAGC
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
41 44 0.98
42 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.36, T:0.25
Consensus pattern (41 bp):
TGTGGTAGACCGTGTGGGTCACACAACAATGTGGTAGGCCG
Found at i:60338274 original size:47 final size:48
Alignment explanation
Indices: 60338206--60338298 Score: 111
Period size: 48 Copynumber: 2.0 Consensus size: 48
60338196 GTTTAACCAT
60338206 ATATCTGTTCTGGCAACTTTA-TTGCGAT-TATAGTGGCTTGACCATCC
1 ATATCTGTTCTGGCAACTTTATTTGC-ATATATAGTGGCTTGACCATCC
* * * *
60338253 ATATCTGATTCTGG-TAGTTTATTTGCATATTTTGTGGCTTGACCAT
1 ATATCTG-TTCTGGCAACTTTATTTGCATATATAGTGGCTTGACCAT
60338299 ATTTATTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
47 14 0.36
48 25 0.64
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.43
Consensus pattern (48 bp):
ATATCTGTTCTGGCAACTTTATTTGCATATATAGTGGCTTGACCATCC
Found at i:60339181 original size:15 final size:15
Alignment explanation
Indices: 60339140--60339186 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
60339130 CATGCATAAC
60339140 TTGCTTTATACTTTAG
1 TTGCTTT-TACTTTAG
* *
60339156 TTAAC-TATACTTTAG
1 TT-GCTTTTACTTTAG
60339171 TTGCTTTTACTTTAG
1 TTGCTTTTACTTTAG
60339186 T
1 T
60339187 ACTTTAGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
14 1 0.04
15 20 0.80
16 3 0.12
17 1 0.04
ACGTcount: A:0.21, C:0.13, G:0.11, T:0.55
Consensus pattern (15 bp):
TTGCTTTTACTTTAG
Found at i:60339999 original size:18 final size:18
Alignment explanation
Indices: 60339957--60339993 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
60339947 AATTGTACCT
* *
60339957 TACTTAAGTGTTTGGTTG
1 TACTTGAGTGTTTGATTG
60339975 TACTTGAGTGTTTGATTG
1 TACTTGAGTGTTTGATTG
60339993 T
1 T
60339994 CGTTGAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.05, G:0.27, T:0.51
Consensus pattern (18 bp):
TACTTGAGTGTTTGATTG
Found at i:60340123 original size:23 final size:23
Alignment explanation
Indices: 60340093--60340142 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
60340083 AAGTTTATTA
* *
60340093 GAAA-ATTGTTTGG-TTTGGGAGT
1 GAAATATTGTCTGGATTT-GGACT
60340115 GAAATATTGTCTGGATTTGGACT
1 GAAATATTGTCTGGATTTGGACT
60340138 GAAAT
1 GAAAT
60340143 TAGAGTTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.17
23 17 0.71
24 3 0.12
ACGTcount: A:0.28, C:0.04, G:0.30, T:0.38
Consensus pattern (23 bp):
GAAATATTGTCTGGATTTGGACT
Found at i:60341406 original size:29 final size:28
Alignment explanation
Indices: 60341370--60341467 Score: 115
Period size: 29 Copynumber: 3.4 Consensus size: 28
60341360 TGTCACATGG
60341370 CCATGTGGTAGCTCGTGTGGGTTACACAA
1 CCATGTGGTAGC-CGTGTGGGTTACACAA
* *
60341399 CCGTGTGGTAGGCCGTGTGGGTTACACAG
1 CCATGTGGTA-GCCGTGTGGGTTACACAA
* * *
60341428 CCATATGGTAGCCTGTGTGGGTCACACGA
1 CCATGTGGTAGCC-GTGTGGGTTACACAA
*
60341457 CCATATGGTAG
1 CCATGTGGTAG
60341468 ATTGTATGGG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
28 3 0.05
29 55 0.92
30 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (28 bp):
CCATGTGGTAGCCGTGTGGGTTACACAA
Found at i:60341477 original size:29 final size:29
Alignment explanation
Indices: 60341428--60341483 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
60341418 GGTTACACAG
* *
60341428 CCATATGGTAGCCTGTGTGGGTCACACGA
1 CCATATGGTAGACTGTATGGGTCACACGA
*
60341457 CCATATGGTAGATTGTATGGGTCACAC
1 CCATATGGTAGACTGTATGGGTCACAC
60341484 AATAATGTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (29 bp):
CCATATGGTAGACTGTATGGGTCACACGA
Found at i:60342568 original size:25 final size:25
Alignment explanation
Indices: 60342539--60342609 Score: 88
Period size: 26 Copynumber: 2.8 Consensus size: 25
60342529 TCTGTTGATA
* *
60342539 GCTCTTCGGAGCATCCCGATTAAAG
1 GCTCTTTGGAGCTTCCCGATTAAAG
** *
60342564 GCTCTTTGTGAGCTTCCTAATTAATG
1 GCTCTTTG-GAGCTTCCCGATTAAAG
60342590 GCTCTTTGGAGCTTCCCGAT
1 GCTCTTTGGAGCTTCCCGAT
60342610 ATTGGCTCGC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 17 0.45
26 21 0.55
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (25 bp):
GCTCTTTGGAGCTTCCCGATTAAAG
Found at i:60344869 original size:37 final size:37
Alignment explanation
Indices: 60344828--60345003 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
60344818 TTTGAGTACT
60344828 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
60344865 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
60344902 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
60344939 TCTGATCAAGATACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
60344976 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
60345004 TAGCTTCAGC
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 133 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:60345075 original size:45 final size:46
Alignment explanation
Indices: 60344966--60345089 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
60344956 GTGATAAGTG
* *
60344966 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
60345012 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
60345057 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
60345090 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:60348881 original size:26 final size:26
Alignment explanation
Indices: 60348852--60348904 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
60348842 TATGTGAATG
*
60348852 TTGAAATGGTGGGTTTACTATAAAGT
1 TTGAAATGATGGGTTTACTATAAAGT
60348878 TTGAAATGATGGGTTTACTATAAAGT
1 TTGAAATGATGGGTTTACTATAAAGT
60348904 T
1 T
60348905 GAATTTTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.04, G:0.25, T:0.40
Consensus pattern (26 bp):
TTGAAATGATGGGTTTACTATAAAGT
Found at i:60349740 original size:4 final size:4
Alignment explanation
Indices: 60349731--60349795 Score: 130
Period size: 4 Copynumber: 16.2 Consensus size: 4
60349721 TATCTAGTGG
60349731 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
60349779 TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA T
60349796 ATTCAAGTGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:60352999 original size:29 final size:31
Alignment explanation
Indices: 60352952--60353020 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
60352942 ATGGGAAAAG
*
60352952 TTTGATTTAATGTGTAATTTTATACAT-AAAT
1 TTTGATTT-ATGTGCAATTTTATACATGAAAT
*
60352983 TTTGATTT-TGTGCAATTTTATATATGAAAT
1 TTTGATTTATGTGCAATTTTATACATGAAAT
*
60353013 TTTAATTT
1 TTTGATTT
60353021 GATCTAATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 15 0.44
30 11 0.32
31 8 0.24
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (31 bp):
TTTGATTTATGTGCAATTTTATACATGAAAT
Found at i:60355692 original size:23 final size:24
Alignment explanation
Indices: 60355666--60355710 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
60355656 TAGGAATACC
*
60355666 TCATCTAA-ATATT-TTAGTATTTA
1 TCATATAACATATTGTTA-TATTTA
60355689 TCATATAACATATTGTTATATT
1 TCATATAACATATTGTTATATT
60355711 CTTCTATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 9 0.47
25 3 0.16
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (24 bp):
TCATATAACATATTGTTATATTTA
Found at i:60356756 original size:17 final size:17
Alignment explanation
Indices: 60356734--60356768 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
60356724 ACTAATACAT
*
60356734 AAAAGAATAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
60356751 AAAAGAAGAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
60356768 A
1 A
60356769 GAGACCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.77, C:0.06, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAGAAGAAAAGAAAC
Found at i:60358507 original size:50 final size:50
Alignment explanation
Indices: 60358432--60358586 Score: 202
Period size: 50 Copynumber: 2.9 Consensus size: 50
60358422 TATGGTCTTA
60358432 CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTATCACTTGT
1 CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTATCACTTGT
*
60358482 CACTGATCAGGTAAGTGTAGCTAAGCTACCACTTATCACTTATCACTTGTCACTTAT
1 CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTATCACTTG-------T
** *
60358539 CACTGATCAGATAAGTGTAGCTAAAATTACCACTTATCACTTGTCACT
1 CACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTATCACT
60358587 GATCAGAAGT
Statistics
Matches: 92, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
50 48 0.52
57 22 0.24
58 22 0.24
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (50 bp):
CACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTATCACTTGT
Found at i:60358523 original size:7 final size:7
Alignment explanation
Indices: 60358511--60358547 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
60358501 GCTAAGCTAC
60358511 CACTTAT
1 CACTTAT
60358518 CACTTAT
1 CACTTAT
*
60358525 CACTTGT
1 CACTTAT
60358532 CACTTAT
1 CACTTAT
*
60358539 CACTGAT
1 CACTTAT
60358546 CA
1 CA
60358548 GATAAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.27, C:0.30, G:0.05, T:0.38
Consensus pattern (7 bp):
CACTTAT
Found at i:60358554 original size:57 final size:58
Alignment explanation
Indices: 60358461--60358591 Score: 192
Period size: 57 Copynumber: 2.3 Consensus size: 58
60358451 GCTAAGCTAC
* * *
60358461 CACTTATCACTTATCACTTGTCACTGATCAGGTAAGTGTAGCT-AAGCTACCACTTAT
1 CACTTATCACTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAACTACCACTTAT
* *
60358518 CACTTATCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAAATTACCACTTAT
1 CACTTATCACTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAACTACCACTTAT
* *
60358576 CACTTGTCACTGATCA
1 CACTTATCACTTATCA
60358592 GAAGTACTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
57 40 0.62
58 25 0.38
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (58 bp):
CACTTATCACTTATCACTTATCACTGATCAGATAAGTGTAGCTAAAACTACCACTTAT
Found at i:60360632 original size:46 final size:44
Alignment explanation
Indices: 60360579--60360686 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 44
60360569 GCTTTGCCGA
* *
60360579 TCAGGCACTTTATGTGTCGTACATCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTACATCAGGCACCTCATGTGTCGT-T
*
60360624 CTCAGGCACTTTATGTGTC--ATATCAGGCACCTCATGTGTCGTT
1 -TCAGGCACTTTATGTGTCGTACATCAGGCACCTCATGTGTCGTT
*
60360667 TCAGGCAC-TTATGTATCGTA
1 TCAGGCACTTTATGTGTCGTA
60360687 TACTGATCAG
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
41 8 0.14
42 8 0.14
43 2 0.04
44 20 0.36
46 18 0.32
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (44 bp):
TCAGGCACTTTATGTGTCGTACATCAGGCACCTCATGTGTCGTT
Found at i:60360651 original size:21 final size:22
Alignment explanation
Indices: 60360578--60360680 Score: 122
Period size: 23 Copynumber: 4.7 Consensus size: 22
60360568 GGCTTTGCCG
*
60360578 ATCAGGCACTTTATGTGTCGTAC
1 ATCAGGCACTTTATGTGTCG-AT
60360601 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCG-AT
*
60360624 CTCAGGCACTTTATGTGTC-AT
1 ATCAGGCACTTTATGTGTCGAT
* *
60360645 ATCAGGCACCTCATGTGTCG-T
1 ATCAGGCACTTTATGTGTCGAT
*
60360666 TTCAGGCAC-TTATGT
1 ATCAGGCACTTTATGT
60360681 ATCGTATACT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
20 5 0.07
21 27 0.38
23 40 0.56
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (22 bp):
ATCAGGCACTTTATGTGTCGAT
Found at i:60366102 original size:21 final size:21
Alignment explanation
Indices: 60366076--60366116 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60366066 ATCTGCTCAA
* *
60366076 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
60366097 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
60366117 TTGCTCGTCT
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:60380945 original size:22 final size:23
Alignment explanation
Indices: 60380907--60380950 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
60380897 ATAATTTGTC
*
60380907 ATTATTTTGTATAATGTGAATTA
1 ATTAGTTTGTATAATGTGAATTA
60380930 ATTAGTTTG-ATAATGTGAATT
1 ATTAGTTTGTATAATGTGAATT
60380951 TGTCAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (23 bp):
ATTAGTTTGTATAATGTGAATTA
Found at i:60383931 original size:25 final size:25
Alignment explanation
Indices: 60383885--60383937 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
60383875 TATATAATTT
* *
60383885 TTTAATAAATTAAAAGGCATATAAA
1 TTTAATAAATTAAAAAGAATATAAA
* *
60383910 TTTATTAAATTAAAAATAATATAAA
1 TTTAATAAATTAAAAAGAATATAAA
60383935 TTT
1 TTT
60383938 TTTTCAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.40
Consensus pattern (25 bp):
TTTAATAAATTAAAAAGAATATAAA
Found at i:60388039 original size:27 final size:27
Alignment explanation
Indices: 60388001--60388056 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
60387991 TCATTGTATT
60388001 ATGAGTTTAGTAGTAGATTCTAGAAAG
1 ATGAGTTTAGTAGTAGATTCTAGAAAG
60388028 ATGAGTTTAGTAGTAGATTCTAGAAAG
1 ATGAGTTTAGTAGTAGATTCTAGAAAG
60388055 AT
1 AT
60388057 TTGATATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.34
Consensus pattern (27 bp):
ATGAGTTTAGTAGTAGATTCTAGAAAG
Found at i:60388800 original size:91 final size:91
Alignment explanation
Indices: 60388705--60389058 Score: 523
Period size: 91 Copynumber: 3.9 Consensus size: 91
60388695 TAAATTCTTG
*
60388705 TAAGAAAATTTATTAGTAAGAATTTTGTGAAATTATATATTATTATTAAATTATATTTAATAATA
1 TAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATATTTAATAATA
* *
60388770 ATAATTTTTAATTATAAAAATTTGTA
66 ATAATTTTAAATTATACAAATTTGTA
* *
60388796 TAAGAAAATTTATTAGTAAGAATGTTATGAAATTATATATTATTATTAAAATATATTTAATAATA
1 TAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATATTTAATAATA
* *
60388861 ATTATTTTAAATTATACAATTTTGTA
66 ATAATTTTAAATTATACAAATTTGTA
*
60388887 TAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATATTTAGTAATA
1 TAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATATTTAATAATA
* **
60388952 AAAATTTTAAATTATACAAATTCATA
66 ATAATTTTAAATTATACAAATTTGTA
* * * * * *
60388978 TAAGAATATTTATTACTAAAAAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAAA
1 TAAGAAAATTTATTAGT-AAGAATTTTATGAAATTATATATTATTATTAAATTATATTTAATAAT
60389043 AACTAA--TTAAATTATA
65 AA-TAATTTTAAATTATA
60389059 TTTTATAGTA
Statistics
Matches: 238, Mismatches: 23, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
91 192 0.81
92 44 0.18
93 2 0.01
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.46
Consensus pattern (91 bp):
TAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATATTTAATAATA
ATAATTTTAAATTATACAAATTTGTA
Found at i:60388948 original size:44 final size:43
Alignment explanation
Indices: 60388710--60389037 Score: 154
Period size: 44 Copynumber: 7.3 Consensus size: 43
60388700 TCTTGTAAGA
60388710 AAATT-TA-TTAGTAAGAATTTTGTGAAATTATATATTATTATT
1 AAATTATATTTAGTAAGAATTTT-TGAAATTATATATTATTATT
* * * * *
60388752 AAATTATATTTAATAATAATAATTTT-TAATTATAAAAATT-TGTATAAGA
1 AAATTATATTTAGTAAGAAT--TTTTGAAATTAT--ATATTAT-TAT---T
*
60388801 AAATT-TA-TTAGTAAGAATGTTATGAAATTATATATTATTATT
1 AAATTATATTTAGTAAGAAT-TTTTGAAATTATATATTATTATT
* * * * * * *
60388843 AAAATATATTTAATAATAATTATTTTAAATTATACAATTTTGTATAAGA
1 AAATTATATTTAGTAAGAATT-TTTGAAATTATA-TATTAT-TAT---T
60388892 AAATT-TA-TTAGTAAGAATTTTATGAAATTATATATTATTATT
1 AAATTATATTTAGTAAGAATTTT-TGAAATTATATATTATTATT
* * * *
60388934 AAATTATATTTAGTAATAAAAATTTT-AAATTATACA-AATTCATAT
1 AAATTATATTTAGT-A-AGAATTTTTGAAATTATATATTATT-AT-T
* * * * * *
60388979 AAGAATATTTATTACTAAAAAATTTTATTAAATTATATATTTTTATT
1 AA-ATTATAT-TTAGT-AAGAATTTT-TGAAATTATATATTATTATT
60389026 AAATTATATTTA
1 AAATTATATTTA
60389038 ATAAAAACTA
Statistics
Matches: 214, Mismatches: 40, Indels: 61
0.68 0.13 0.19
Matches are distributed among these distances:
42 14 0.07
43 10 0.05
44 50 0.23
45 24 0.11
46 46 0.21
47 44 0.21
48 15 0.07
49 11 0.05
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.47
Consensus pattern (43 bp):
AAATTATATTTAGTAAGAATTTTTGAAATTATATATTATTATT
Found at i:60389221 original size:15 final size:16
Alignment explanation
Indices: 60389193--60389222 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
60389183 TAAATTAGTA
60389193 TAAGAATCTTTATTAT
1 TAAGAATCTTTATTAT
60389209 TAAGAAT-TTTATTA
1 TAAGAATCTTTATTA
60389223 AATCATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATCTTTATTAT
Found at i:60389249 original size:16 final size:17
Alignment explanation
Indices: 60389215--60389250 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
60389205 TTATTAAGAA
60389215 TTTTATTAAATCATATAT
1 TTTTATTAAAT-ATATAT
60389233 TTTTATTAAAT-TATAT
1 TTTTATTAAATATATAT
60389249 TT
1 TT
60389251 AATAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
18 11 0.61
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATTAAATATATAT
Found at i:60389301 original size:106 final size:106
Alignment explanation
Indices: 60388969--60389374 Score: 379
Period size: 106 Copynumber: 3.8 Consensus size: 106
60388959 TAAATTATAC
* *
60388969 AAATTCATATAAGAATATTTATTACTAAAAAATTTTATTAAATTATATATTTTTATTAAATTATA
1 AAATTCATATAAGAATATTTATTA-TTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA
60389034 TTTAATAAA-AACTAA--TTAAATTATATTTTATAGTATTA-T
65 TTTAATAAATAA-TAATTTTAAATTATATTTTATAGTATTAGT
* * ** * * * * * * *
60389073 ATAATATAATTTTGGTAA-ATTCA-TA-TAAGAATATTTA-T-GACTAAAAAATTTTATGAAATT
1 A-AAT-TCATATAAG-AATATTTATTATTAAGAAT-TTTATTAAATTATATATTTTTATTAAA-T
* * ** *
60389133 ATATATTTTTATTAAATTAT-ATTTTATAGTATTATATACTAT-GATTTTAGT
61 -TATA--TTTAATAAATAATAATTTTA-A--ATTATATTTTATAG-TATTAGT
* *
60389184 AAATT-AGTATAAGAATCTTTATTATTAAGAATTTTATTAAATCATATATTTTTATTAAATTATA
1 AAATTCA-TATAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA
60389248 TTTAATAAATAATAATTTTAAATTATATTTTATAGTATTAGT
65 TTTAATAAATAATAATTTTAAATTATATTTTATAGTATTAGT
*
60389290 AAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATAT
1 AAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATAT
* *
60389355 TTAAT-AATAATTATGTTAAA
66 TTAATAAATAATAATTTTAAA
60389375 ATATGATTAA
Statistics
Matches: 237, Mismatches: 40, Indels: 49
0.73 0.12 0.15
Matches are distributed among these distances:
102 14 0.06
103 7 0.03
104 9 0.04
105 19 0.08
106 99 0.42
107 8 0.03
108 16 0.07
109 14 0.06
110 27 0.11
111 11 0.05
112 13 0.05
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (106 bp):
AAATTCATATAAGAATATTTATTATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATAT
TTAATAAATAATAATTTTAAATTATATTTTATAGTATTAGT
Found at i:60389368 original size:24 final size:22
Alignment explanation
Indices: 60389340--60389418 Score: 63
Period size: 27 Copynumber: 3.4 Consensus size: 22
60389330 ATTATATATT
60389340 TTTATTAAATTATATTTAATAA
1 TTTATTAAATTATATTTAATAA
* *
60389362 TAATTATGTTAAAATATGATTAAATAA
1 T--TTA--TTAAATTAT-ATTTAATAA
*
60389389 TTTATT-ATTTATA-TTAATAA
1 TTTATTAAATTATATTTAATAA
60389409 TCTTATTAAA
1 T-TTATTAAA
60389419 ATTTAATAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
20 7 0.16
21 6 0.14
22 6 0.14
23 2 0.05
24 3 0.07
25 3 0.07
26 8 0.18
27 9 0.20
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (22 bp):
TTTATTAAATTATATTTAATAA
Found at i:60389609 original size:16 final size:16
Alignment explanation
Indices: 60389588--60389639 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
60389578 AGATTTACCT
60389588 ATTATGCCTCTATTCC
1 ATTATGCCTCTATTCC
**
60389604 ATTATGTATCTATTCC
1 ATTATGCCTCTATTCC
**
60389620 ATTACACCTCTATTCC
1 ATTATGCCTCTATTCC
60389636 ATTA
1 ATTA
60389640 CAGCGAACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.25, C:0.27, G:0.04, T:0.44
Consensus pattern (16 bp):
ATTATGCCTCTATTCC
Found at i:60390819 original size:20 final size:20
Alignment explanation
Indices: 60390794--60390843 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
60390784 TGGCTTAAAA
60390794 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
60390814 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
60390831 GTGGTAGTGGATT
1 TTGGTAGTGGATT
60390844 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:60395459 original size:20 final size:20
Alignment explanation
Indices: 60395434--60395483 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
60395424 TGGCTTAAAA
60395434 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
60395454 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
60395471 GTGGTAGTGGATT
1 TTGGTAGTGGATT
60395484 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:60402241 original size:18 final size:19
Alignment explanation
Indices: 60402218--60402260 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
60402208 ACATATATGT
60402218 ATAATAAT-GATGAAAAT-A
1 ATAATAATAG-TGAAAATAA
60402236 ATAATAATAGTGAAAATAA
1 ATAATAATAGTGAAAATAA
60402255 ATAATA
1 ATAATA
60402261 TAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
ATAATAATAGTGAAAATAA
Found at i:60402244 original size:21 final size:21
Alignment explanation
Indices: 60402231--60402275 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
60402221 ATAATGATGA
*
60402231 AAATAATAATAATAGTGAAAAT
1 AAATAAT-ATAATAATGAAAAT
60402253 AAATAATATAATAAT-AAATAT
1 AAATAATATAATAATGAAA-AT
60402274 AA
1 AA
60402276 TGTAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 11 0.52
22 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (21 bp):
AAATAATATAATAATGAAAAT
Found at i:60402268 original size:15 final size:17
Alignment explanation
Indices: 60402232--60402272 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
60402222 TAATGATGAA
60402232 AATAAT-AATAATAGTG
1 AATAATAAATAATAGTG
60402248 AA-AATAAATAATA-T-
1 AATAATAAATAATAGTG
60402262 AATAATAAATA
1 AATAATAAATA
60402273 TAATGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AATAATAAATAATAGTG
Found at i:60402761 original size:11 final size:12
Alignment explanation
Indices: 60402729--60402761 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
60402719 AGGAAAAAAA
60402729 GAAGAGA-AAGG
1 GAAGAGAGAAGG
60402740 GAAGAGAGAAGG
1 GAAGAGAGAAGG
60402752 G-AGAGAGAAG
1 GAAGAGAGAAG
60402762 AGAGGGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:60403624 original size:53 final size:53
Alignment explanation
Indices: 60403544--60403654 Score: 204
Period size: 53 Copynumber: 2.1 Consensus size: 53
60403534 GCTGCCCCTC
*
60403544 TTTGCTCATTATCGTATAACGAGAATAGAGCAAAGACATAAAGAGAGGTCAAT
1 TTTGCTCATTATCGTATAACGAGAATAGAGCAAAGACATAAAGAGAGGCCAAT
*
60403597 TTTGCTCATTATCGTATAACGGGAATAGAGCAAAGACATAAAGAGAGGCCAAT
1 TTTGCTCATTATCGTATAACGAGAATAGAGCAAAGACATAAAGAGAGGCCAAT
60403650 TTTGC
1 TTTGC
60403655 CTGGTCTTGC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (53 bp):
TTTGCTCATTATCGTATAACGAGAATAGAGCAAAGACATAAAGAGAGGCCAAT
Found at i:60404447 original size:75 final size:72
Alignment explanation
Indices: 60404237--60404460 Score: 276
Period size: 73 Copynumber: 3.0 Consensus size: 72
60404227 GAAAAAAATT
* * *
60404237 AATTGAGAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTCTTGCAATATGAGTTGA--TTTGA
1 AATTGAAAAGACCTCAGCGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
**
60404300 TGAACAGA
65 AAAACAGA
*
60404308 AATTGAAAAGACCTAAGCATGTGAGCC-GAGGCTCAACTCACCTCTCG-AGATATGAGTTGATTT
1 AATTGAAAAGACCTCAGC--GT--GCCTGAGGCTCAACTCACCTCTCGCA-ATATGAGTTGATTT
*
60404371 TTGACAAACAGA
61 TTGAAAAACAGA
60404383 AATTGAAAAGACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAAGACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT
60404448 GAAAAACAGA
63 GAAAAACAGA
60404458 AAT
1 AAT
60404461 CAAAAGGCTT
Statistics
Matches: 133, Mismatches: 8, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
71 16 0.12
72 3 0.02
73 65 0.49
74 1 0.01
75 48 0.36
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (72 bp):
AATTGAAAAGACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
AAACAGA
Found at i:60404526 original size:163 final size:161
Alignment explanation
Indices: 60404308--60404606 Score: 397
Period size: 162 Copynumber: 1.8 Consensus size: 161
60404298 GATGAACAGA
* **
60404308 AATTGAAAAGACCTAAGCATGTGAGCCGAGGCTCAACTCACCTCTCGAGATATGAGTTGATTTTT
1 AATTGAAAAGACCTAAGCATGTGAGCCGAGGCTCAACTCACCTCACGAGATATGAGTTGA-AATT
* * *
60404373 GACAAAC-AGAAATTGAAAAGACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
65 -A-AAACAAAAAATTGAAAAGACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
60404437 TTGATTTTTTTGAAAAACAGAAATCAAAAGGCTT
128 CTGATTTTTTTGAAAAACAGAAATCAAAAGGCTT
* * * * *
60404471 AATTGAAAATACCTCAGCGTGTG-TCCTGAGGCTCAACTCACTTCACGCA-ATATGAGTTGAAAT
1 AATTGAAAAGACCTAAGCATGTGAGCC-GAGGCTCAACTCACCTCACG-AGATATGAGTTGAAAT
* *
60404534 TAAAACATAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAG
64 TAAAACA-AAAAATTGAAAAGACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAG
60404599 CTGATTTT
128 CTGATTTT
60404607 GAAAAAGTAG
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
160 4 0.03
161 1 0.01
162 63 0.53
163 49 0.42
164 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (161 bp):
AATTGAAAAGACCTAAGCATGTGAGCCGAGGCTCAACTCACCTCACGAGATATGAGTTGAAATTA
AAACAAAAAATTGAAAAGACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTG
ATTTTTTTGAAAAACAGAAATCAAAAGGCTT
Found at i:60405026 original size:147 final size:148
Alignment explanation
Indices: 60404750--60405104 Score: 468
Period size: 147 Copynumber: 2.4 Consensus size: 148
60404740 AGTGTGTAAT
* * * *
60404750 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAAATACCT
60404815 CAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGAAA
64 CAGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGAAA
60404880 TTGAAAATACCTCAACGTGTC
128 TTGAAAATACCTCAACGTGTC
* ** * *
60404901 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
* ** *
60404966 GC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTT-AACAACAGAAAT
66 GCAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAA-AACAGAAAT
* *
60405028 TGAAATTACCTCAGCGTGTC
129 TGAAAATACCTCAACGTGTC
* *
60405048 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
60405105 GGCTTAACTC
Statistics
Matches: 179, Mismatches: 22, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
146 13 0.07
147 108 0.60
149 28 0.16
151 30 0.17
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (148 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
GCAGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGAAATTG
AAAATACCTCAACGTGTC
Found at i:60405095 original size:75 final size:74
Alignment explanation
Indices: 60404750--60405086 Score: 446
Period size: 75 Copynumber: 4.5 Consensus size: 74
60404740 AGTGTGTAAT
* *
60404750 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
*
60404815 CAGCATGTGAAC
66 CAGC--GTG-TC
* *
60404827 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTAAAAACAGAAATTGAAAATACC
*
60404891 TCAACGTGTC
65 TCAGCGTGTC
* ** * * * *
60404901 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
60404964 CAGCGTGTC
66 CAGCGTGTC
** * *
60404973 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTAAAAACAGAAATTGAAAATACC
60405038 TCAGCGTGTC
65 TCAGCGTGTC
*
60405048 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
60405087 GAAAAACAAA
Statistics
Matches: 235, Mismatches: 20, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
72 67 0.29
74 5 0.02
75 100 0.43
76 31 0.13
77 32 0.14
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:60405223 original size:69 final size:70
Alignment explanation
Indices: 60405104--60405277 Score: 212
Period size: 69 Copynumber: 2.5 Consensus size: 70
60405094 AAAAATTAAA
* * * * **
60405104 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
60405168 CCCCG
66 CCCCG
*
60405173 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-A-AAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACATAAACTAAAAATACCTCAACGT
* **
60405236 GTCTTG
65 GCCCCG
60405242 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
60405278 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
68 1 0.01
69 81 0.88
70 6 0.07
71 4 0.04
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:60417795 original size:124 final size:120
Alignment explanation
Indices: 60417619--60417857 Score: 290
Period size: 124 Copynumber: 2.0 Consensus size: 120
60417609 AAAAAGTAAA
* * * *
60417619 TATAATAAAATGATATTAAAATAAAGTCATTAAAAACAGTAATATATGTATATATACAT-CTAAT
1 TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATAC--AT
* *
60417683 -AAGAATATATAGTAATGTTA-ATGATAATAATAAAAATAATAATATTGAAATACAAAAGCTAT
64 GAAG-ATATACACTAATG-TACA--ATAATAAT---AATAATAATATTGAAATACAAAAGCTAT
* *
60417745 TATAATAAAA-AATATTAAAATAAAGT-AATAAAAACATTACTACATATATATATACATACATGA
1 TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATACATGA
60417808 AGATATACACTAATGTACAATAATAATAATAATAATATTGAAATACAAAA
66 AGATATACACTAATGTACAATAATAATAATAATAATATTGAAATACAAAA
60417858 AATGTAATAT
Statistics
Matches: 102, Mismatches: 8, Indels: 14
0.82 0.06 0.11
Matches are distributed among these distances:
118 23 0.23
121 8 0.08
122 2 0.02
123 14 0.14
124 29 0.28
125 16 0.16
126 10 0.10
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (120 bp):
TATAATAAAATAATATTAAAATAAAGTCAATAAAAACAGTAATACATATATATATACATACATGA
AGATATACACTAATGTACAATAATAATAATAATAATATTGAAATACAAAAGCTAT
Found at i:60418335 original size:11 final size:12
Alignment explanation
Indices: 60418321--60418356 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
60418311 AAGAAAAAAA
60418321 GAAGAGAG-AGG
1 GAAGAGAGAAGG
60418332 GAAGAGAGAAGG
1 GAAGAGAGAAGG
60418344 G-AGAGAGAAGG
1 GAAGAGAGAAGG
60418355 GA
1 GA
60418357 GGGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:60418466 original size:8 final size:8
Alignment explanation
Indices: 60418431--60418457 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
60418421 AAGGTAAAAA
60418431 TTTATATT
1 TTTATATT
60418439 TTTATATT
1 TTTATATT
60418447 TTTATATT
1 TTTATATT
60418455 TTT
1 TTT
60418458 TTGTATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTATATT
Found at i:60419333 original size:6 final size:6
Alignment explanation
Indices: 60419322--60419351 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
60419312 CCCATTTAAT
60419322 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
60419352 ACAACCTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:60431537 original size:37 final size:37
Alignment explanation
Indices: 60431496--60431671 Score: 289
Period size: 37 Copynumber: 4.8 Consensus size: 37
60431486 TTTGAGTACT
*
60431496 TCTGATCAAGAAACAAAGTGATAAGTGGCAACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
60431533 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
60431570 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
60431607 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
60431644 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
60431672 TAGCTTCAGC
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 133 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:60431743 original size:45 final size:46
Alignment explanation
Indices: 60431634--60431757 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
60431624 GTGATAAGTG
* *
60431634 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
60431680 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
60431725 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
60431758 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:60436165 original size:18 final size:21
Alignment explanation
Indices: 60436144--60436188 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
60436134 GATAATAGCA
60436144 ATAACAATA-T-AAAA-AATG
1 ATAACAATAGTAAAAATAATG
*
60436162 ATAATAATAGTAAAAATAATG
1 ATAACAATAGTAAAAATAATG
60436183 ATAACA
1 ATAACA
60436189 TTATTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 8 0.36
19 1 0.05
20 4 0.18
21 9 0.41
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.24
Consensus pattern (21 bp):
ATAACAATAGTAAAAATAATG
Found at i:60437825 original size:41 final size:41
Alignment explanation
Indices: 60437755--60437875 Score: 127
Period size: 44 Copynumber: 2.9 Consensus size: 41
60437745 TTGATTTCTT
* *
60437755 CAATCTACTCCACTGCAACTTCA-AGGAGATAAGATTGGATA
1 CAATCTGCTCTACTGCAACTTCAGA-GAGATAAGATTGGATA
* * * *
60437796 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGGTCTGTGGTTT
1 CAATCTGCTCTACTGCAACTTCAGAGAGATAA-G-AT-TGGATA
* *
60437840 TAATCTGCTCTACTGCAACTTCAGAGAGATAGGATT
1 CAATCTGCTCTACTGCAACTTCAGAGAGATAAGATT
60437876 ATTTTTTTTC
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
41 28 0.42
42 3 0.05
43 2 0.03
44 33 0.50
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
CAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTGGATA
Found at i:60437951 original size:130 final size:128
Alignment explanation
Indices: 60437663--60438043 Score: 424
Period size: 130 Copynumber: 2.9 Consensus size: 128
60437653 AATAAAGTCT
* ** **
60437663 GATGCGATCTGCTCTACTACAACTTCAGAGAGAAAAGATCCATCATTTTAATCCGCT-TCACTGC
1 GATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCT-ACTGC
* * * * *
60437727 AACTTCAGGAAGATAGAATTGATTTCTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATTG
65 AACTTCAGG-AGATAGGATTGATTTCTTCAATCTACCCCACTGCAACTTCAAGGAGATAAAACTA
* * * *
60437792 GATACGATCTGCTCTACTGCAACTTCAGAGAGATAAGGTCTGTGGTTTTAATCTGCTCTACTGCA
1 GATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCTACTGCA
* ** * * *
60437857 ACTTCAGAGAGATAGGATT-ATTTTTTTTCTGTTTTCCCCACTGCAACTTCAGGGAGATAAAACT
66 ACTTCAG-GAGATAGGATTGA--TTTCTTCAATCTACCCCACTGCAACTTCAAGGAGATAAAACT
60437921 A
128 A
* * * *
60437922 GATGCGAACCGCTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCTACTGCG
1 GATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCTACTGCA
** ** * *
60437987 ACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAAGGAGAT
66 ACTTCA-GGAGATAGGATTGATTTCTTCAATCTACCCCACTGCAACTTCAAGGAGAT
60438044 GTGACTTGCC
Statistics
Matches: 211, Mismatches: 35, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
128 1 0.00
129 100 0.47
130 109 0.52
131 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (128 bp):
GATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCTACTGCA
ACTTCAGGAGATAGGATTGATTTCTTCAATCTACCCCACTGCAACTTCAAGGAGATAAAACTA
Found at i:60438244 original size:100 final size:100
Alignment explanation
Indices: 60438068--60438908 Score: 1070
Period size: 100 Copynumber: 8.4 Consensus size: 100
60438058 TCAATTTGTT
* * *
60438068 CGCCAGGGAAGTAAGATTCACTGTTGTGGCTTCAATCTTTTTAACCGCAATGTCGAGGAAGCAAG
1 CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAG
** *
60438133 ATTCGTTGTTGTAGCTTCAATCTGTTCCACTACAC
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * * *
60438168 CGTCAGGGAAGTAAGATTCATTGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGAAAGCAAG
1 CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAG
* *
60438233 ATTCGCCGTTGTAGCTTTAATCTGTTCCACTACAC
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * *
60438268 TGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
1 CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAG
* * *
60438333 ATTCACCGTTGTAGCTTTAATCTGTTCCACTGTAC
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * * *
60438368 TGTCAGGGAAGTAAGATTCACCGTTGTTGCTTCAATCTTTTTAATTTCAATGTCGGGGAAGCAAG
1 CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAG
*
60438433 ATTCGCCGTTGTAGCTTCAATCTGTTCTACTGCAC
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * * *
60438468 CACCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACCGCAATATCGGGGAAGCAA
1 CGCCAGGG-AAGTAAGATTCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAA
*
60438533 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCAC
65 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * * * * * * * *
60438569 TGCCTGGGAAAGTAAAATTCGCTGTTGTAGTTTTAATATTTTCAACTGCAATGTCGAGGAAGCAA
1 CGCCAGGG-AAGTAAGATTCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAA
* *
60438634 GATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCAT
65 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * ** * * * * *
60438670 CGCCAGGAAAGTAAGATTTACCATTGTGGCTTCAATCTTTTGAATTGCCATGTCGGGGAAGTAAG
1 CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAG
*
60438735 ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCAC
66 ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
* * ** *
60438770 CGCCTGAGAAAGTAAGATTCGTTGTTGTAGCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAA
1 CGCCAG-GGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAA
* *
60438835 GATTCGCCGTTGTAGCTTAAATCTATTCCACTGCAC
65 GATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
*
60438871 CGCCAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCT
1 CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCT
60438909 ATTCCACTAC
Statistics
Matches: 646, Mismatches: 93, Indels: 4
0.87 0.13 0.01
Matches are distributed among these distances:
100 384 0.59
101 262 0.41
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (100 bp):
CGCCAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAG
ATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAC
Found at i:60438681 original size:201 final size:200
Alignment explanation
Indices: 60438068--60438908 Score: 1088
Period size: 201 Copynumber: 4.2 Consensus size: 200
60438058 TCAATTTGTT
* *
60438068 CGCCAGGGAAGTAAGATTCACTGTTGTGGCTTCAATCTTTTTAACCGCAATGTCGAGGAAGCAAG
1 CGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAACCGCAATGTCGGGGAAGCAAG
*** * * * *
60438133 ATTCGTTGTTGTAGCTTCAATCTGTTCCACTACACCGTCAGGGAAGTAAGATTCATTGTTGTGGC
66 ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTAGC
* * * * *
60438198 TTCAATCTTTTTAATTACAATGTCGGGAAAGCAAGATTCGCCGTTGTAGCTTTAATCTGTTCCAC
131 TTCAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCAC
*
60438263 TACAC
196 TGCAC
* * **
60438268 TGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAG
1 CGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAACCGCAATGTCGGGGAAGCAAG
* * * * * *
60438333 ATTCACCGTTGTAGCTTTAATCTGTTCCACTGTACTGTCAGGGAAGTAAGATTCACCGTTGTTGC
66 ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTAGC
* * * *
60438398 TTCAATCTTTTTAATTTCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCTAC
131 TTCAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCAC
60438463 TGCAC
196 TGCAC
* * * * * * *
60438468 CACCTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACCGCAATATCGGGGAAGCAA
1 CGCCAGGG-AAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAACCGCAATGTCGGGGAAGCAA
* * * * * *
60438533 GATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGCCTGGGAAAGTAAAATTCGCTGTTGTA
65 GATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGG-AAGTAAGATTCACTGTTGTA
* * * * *
60438598 GTTTTAATATTTTCAACTGCAATGTCGAGGAAGCAAGATTTGCCGTTGTAGCTTCAATCTGTTCC
129 GCTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCC
*
60438663 ACTGCAT
194 ACTGCAC
* * * * ** * *
60438670 CGCCAGGAAAGTAAGATTTACCATTGTGGCTTCAATCTTTTGAATTGCCATGTCGGGGAAGTAAG
1 CGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAACCGCAATGTCGGGGAAGCAAG
* * **
60438735 ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTGAGAAAGTAAGATTCGTTGTTGTAG
66 ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAG-GGAAGTAAGATTCACTGTTGTAG
* *
60438800 CTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTAAATCTATTCCA
130 CTTCAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCA
60438865 CTGCAC
195 CTGCAC
*
60438871 CGCCAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCT
1 CGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCT
60438909 ATTCCACTAC
Statistics
Matches: 556, Mismatches: 82, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
200 184 0.33
201 288 0.52
202 84 0.15
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (200 bp):
CGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAACCGCAATGTCGGGGAAGCAAG
ATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTAGC
TTCAATCTTTTCAACTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCAC
TGCAC
Found at i:60438929 original size:50 final size:50
Alignment explanation
Indices: 60438071--60438908 Score: 669
Period size: 50 Copynumber: 16.7 Consensus size: 50
60438061 ATTTGTTCGC
* * * * * *
60438071 CAGGGAAGTAAGATTCACTGTTGTGGCTTCAATCTTTTTAACCGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
* ** * * * *
60438121 C-GAGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTTCCACTACACCGT
1 CAG-GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
*** * * * * *
60438171 CAGGGAAGTAAGATTCATTGTTGTGGCTTCAATCTTTTTAATTACAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
* * * * * *
60438221 C-GGGAAAGCAAGATTCGCCGTTGTAGCTTTAATCTGTTCCACTACACTGC
1 CAGGG-AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
* * * *
60438271 CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
* * * * * * *
60438321 CGGGGAAGCAAGATTCACCGTTGTAGCTTTAATCTGTTCCACTGTACTGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
* * * * * *
60438371 CAGGGAAGTAAGATTCACCGTTGTTGCTTCAATCTTTTTAATTTCAATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
* * * * ***
60438421 CGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCTACTGCACCAC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
* * * * *
60438471 CTGGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACCGCAATAT
1 CAGGG-AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
* * * * * *
60438522 CGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACTGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
* * * * * * *
60438572 CTGGGAAAGTAAAATTCGCTGTTGTAGTTTTAATATTTTCAACTGCAATGT
1 CAGGG-AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
* * * * *
60438623 C-GAGGAAGCAAGATTTGCCGTTGTAGCTTCAATCTGTTCCACTGCA-TCGC
1 CAG-GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACT-GT
* ** * * * *
60438673 CAGGAAAGTAAGATTTACCATTGTGGCTTCAATCTTTTGAATTGC-CATGT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCAC-TGT
* * * * * *
60438723 CGGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
* * ** *
60438773 CTGAGAAAGTAAGATTCGTTGTTGTAGCTTCAATCTTTTCAACTGCAATGT
1 CAG-GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
* * * * * * *
60438824 CGGGGAAGCAAGATTCGCCGTTGTAGCTTAAATCTATTCCACTGCACCGC
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
*
60438874 CAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCT
1 CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT
60438909 ATTCCACTAC
Statistics
Matches: 615, Mismatches: 160, Indels: 26
0.77 0.20 0.03
Matches are distributed among these distances:
49 5 0.01
50 483 0.79
51 127 0.21
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (50 bp):
CAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAACTGCACTGT
Found at i:60439108 original size:132 final size:131
Alignment explanation
Indices: 60438935--60439254 Score: 451
Period size: 132 Copynumber: 2.4 Consensus size: 131
60438925 AGGGATATGA
* * * *
60438935 GATCTGCAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAAGACTAATGGCTTAAATCTAAT
1 GATCTACAATCTTCGACCTACTCCACTCTT-CTCAGGGAGATAGGACTAATGGCTTAAATCTAAT
* * **
60439000 TCCCTACTACCTTAGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGAC
65 TCCCTACTACCTTAGGAAGAGAAGATTCACCATCTTTGATCTGCTCCACTACAACTTAGGGAGAC
60439065 AG
130 AG
* * * ** * **
60439067 GATCTACAATTTTCGACCTACTCCACTACTTCTTAGAGAGATAGGACTGGTGGTTTAAATCTGCT
1 GATCTACAATCTTCGACCTACTCCACT-CTTCTCAGGGAGATAGGACTAATGGCTTAAATCTAAT
*
60439132 TCCCTACTACCTTGGGAAGAGAAGATTCACCATCTTTGATCTGCTCCACTACAACTTAGGGAGAC
65 TCCCTACTACCTTAGGAAGAGAAGATTCACCATCTTTGATCTGCTCCACTACAACTTAGGGAGAC
60439197 AG
130 AG
*
60439199 GATCTACAATCTTCGACCTACTCCACTGCTGCTCAGGGAGATAGGACTAATGGCTT
1 GATCTACAATCTTCGACCTACTCCACT-CTTCTCAGGGAGATAGGACTAATGGCTT
60439255 CACCAATTTG
Statistics
Matches: 162, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
132 160 0.99
133 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (131 bp):
GATCTACAATCTTCGACCTACTCCACTCTTCTCAGGGAGATAGGACTAATGGCTTAAATCTAATT
CCCTACTACCTTAGGAAGAGAAGATTCACCATCTTTGATCTGCTCCACTACAACTTAGGGAGACA
G
Found at i:60440420 original size:6 final size:6
Alignment explanation
Indices: 60440409--60440470 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
60440399 TGGCCTCTCC
* *
60440409 TTTTCT TTTTC- TTTTCT TCTTCT TCTTTC- TTTT-T TCTTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTTTCT TTTTCT
* *
60440455 TTTTCT CTCTCT TTTT
1 TTTTCT TTTTCT TTTT
60440471 TAAACATTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
5 11 0.25
6 30 0.68
7 3 0.07
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTCT
Found at i:60440434 original size:14 final size:15
Alignment explanation
Indices: 60440410--60440460 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
60440400 GGCCTCTCCT
*
60440410 TTTCTTTTTCTTTTC
1 TTTCTTCTTCTTTTC
60440425 -TTCTTCTTC-TTTC
1 TTTCTTCTTCTTTTC
*
60440438 TTTTTTCTTCTTTTTC
1 TTTCTTCTTC-TTTTC
60440454 TTT-TTCT
1 TTTCTTCT
60440461 CTCTCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 4 0.13
16 7 0.23
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTTCTTCTTTTC
Found at i:60440436 original size:20 final size:20
Alignment explanation
Indices: 60440411--60440460 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
60440401 GCCTCTCCTT
60440411 TTCTTTTTCTTTTCTTCTTC
1 TTCTTTTTCTTTTCTTCTTC
*
60440431 TTCTTTCTT-TTTTCTTCTTT
1 TTCTTT-TTCTTTTCTTCTTC
60440451 TTCTTTTTCT
1 TTCTTTTTCT
60440461 CTCTCTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTCTTTTTCTTTTCTTCTTC
Found at i:60440467 original size:28 final size:27
Alignment explanation
Indices: 60440403--60440471 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
60440393 TCACCTTGGC
*
60440403 CTCTC-CTTTTCTTTTTCTTTTCTTCTT
1 CTCTCTCTTTT-TTCTTCTTTTCTTCTT
* *
60440430 CTTCTTTCTTTTTTCTTCTTTTTCTTTTT
1 C-TCTCTCTTTTTTCTTC-TTTTCTTCTT
60440459 CTCTCTCTTTTTT
1 CTCTCTCTTTTTT
60440472 AAACATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 1 0.03
28 19 0.54
29 15 0.43
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (27 bp):
CTCTCTCTTTTTTCTTCTTTTCTTCTT
Found at i:60440469 original size:17 final size:15
Alignment explanation
Indices: 60440411--60440460 Score: 64
Period size: 17 Copynumber: 3.1 Consensus size: 15
60440401 GCCTCTCCTT
60440411 TTCTTTTTCTTTTCTTC
1 TTCTTTTTC-TTT-TTC
60440428 TTCTTCTTTCTTTTTTC
1 TTCTT-TTTC-TTTTTC
60440445 TTCTTTTTCTTTTTC
1 TTCTTTTTCTTTTTC
60440460 T
1 T
60440461 CTCTCTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.22
16 4 0.12
17 13 0.41
18 8 0.25
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTCTTTTTCTTTTTC
Found at i:60440471 original size:20 final size:20
Alignment explanation
Indices: 60440409--60440471 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 20
60440399 TGGCCTCTCC
*
60440409 TTTTCTTTTTCTTTTCTTCTTCT
1 TTTTCTTTTTC-TCTC-TCTT-T
60440432 TCTTTCTTTTT-TCT-TC--T
1 T-TTTCTTTTTCTCTCTCTTT
60440449 TTTTCTTTTTCTCTCTCTTT
1 TTTTCTTTTTCTCTCTCTTT
60440469 TTT
1 TTT
60440472 AAACATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 13
0.71 0.02 0.27
Matches are distributed among these distances:
16 9 0.26
17 5 0.15
18 2 0.06
20 6 0.18
22 2 0.06
23 1 0.03
24 9 0.26
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTTCTCTCTCTTT
Found at i:60441433 original size:25 final size:23
Alignment explanation
Indices: 60441386--60441436 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
60441376 AGAAAGAATG
*
60441386 AAAGAATAAAAATAATTATTCAA
1 AAAGAATAAAAATAATTACTCAA
*
60441409 AAAGAATGAAAGAATATTTACTCAA
1 AAAGAAT-AAA-AATAATTACTCAA
60441434 AAA
1 AAA
60441437 TGATCGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.29
24 3 0.12
25 14 0.58
ACGTcount: A:0.63, C:0.06, G:0.08, T:0.24
Consensus pattern (23 bp):
AAAGAATAAAAATAATTACTCAA
Found at i:60449058 original size:5 final size:5
Alignment explanation
Indices: 60449048--60449086 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
60449038 GCCTAAGATG
* *
60449048 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
60449087 GTTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:60455356 original size:103 final size:99
Alignment explanation
Indices: 60455164--60455392 Score: 219
Period size: 103 Copynumber: 2.3 Consensus size: 99
60455154 CAATGTTTAA
* * * * * * **
60455164 ATGTAAGACCATAGCTGGGTTATGGCATTTTAATGAAAAGACAATAATTGGGTTATGGCACCTTG
1 ATGTAATACCATAGTTGGGCTATGGCATTATAATGAAAAGACAATAACTGGATTATGGCACCTCA
* ** *
60455229 AACGTAAGACCATGGTTGGACCATGACAGTATATAT
66 AACATAAGACCATGGAAGGACCATGACA--ATACAT
* * *
60455265 ACATGTAATACCATAGTTGGGCTATGGCATTATGATGATAAGACCATAACTGGATTATGGCA-CT
1 --ATGTAATACCATAGTTGGGCTATGGCATTATAATGAAAAGACAATAACTGGATTATGGCACCT
* * *
60455329 ACAAATATAAGACCATGGCAAGG-CCATGGCAATGCAT
64 -CAAACATAAGACCATGG-AAGGACCATGACAATACAT
*
60455366 ATGTAATACCATAGTTGGACTATGGCA
1 ATGTAATACCATAGTTGGGCTATGGCA
60455393 CAAAAAGAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
99 26 0.25
101 4 0.04
102 2 0.02
103 71 0.68
104 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (99 bp):
ATGTAATACCATAGTTGGGCTATGGCATTATAATGAAAAGACAATAACTGGATTATGGCACCTCA
AACATAAGACCATGGAAGGACCATGACAATACAT
Found at i:60461571 original size:12 final size:12
Alignment explanation
Indices: 60461554--60461594 Score: 59
Period size: 11 Copynumber: 3.6 Consensus size: 12
60461544 ACTAATCCTA
60461554 TCTCAAATTTCC
1 TCTCAAATTTCC
*
60461566 TCTC-AATTTCT
1 TCTCAAATTTCC
60461577 TCT-AAATTTCC
1 TCTCAAATTTCC
60461588 TCTCAAA
1 TCTCAAA
60461595 AGCGCATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (12 bp):
TCTCAAATTTCC
Found at i:60462091 original size:16 final size:16
Alignment explanation
Indices: 60462072--60462102 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60462062 CCTAAACTAA
*
60462072 TAAAGTAATAAATTAT
1 TAAACTAATAAATTAT
60462088 TAAACTAATAAATTA
1 TAAACTAATAAATTA
60462103 ACACATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (16 bp):
TAAACTAATAAATTAT
Found at i:60463826 original size:11 final size:11
Alignment explanation
Indices: 60463806--60463835 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
60463796 TTTAAAAATA
60463806 AAAAAGTATTTT
1 AAAAA-TATTTT
60463818 AAAAATATTTT
1 AAAAATATTTT
60463829 AAAAATA
1 AAAAATA
60463836 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:60465933 original size:22 final size:22
Alignment explanation
Indices: 60465902--60465944 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
60465892 AACTTTTTTC
*
60465902 TTGCTGCTATTTTGCTATTATA
1 TTGCTACTATTTTGCTATTATA
*
60465924 TTGCTACTATTTTGTTATTAT
1 TTGCTACTATTTTGCTATTAT
60465945 TGTTTTATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.58
Consensus pattern (22 bp):
TTGCTACTATTTTGCTATTATA
Found at i:60469385 original size:29 final size:29
Alignment explanation
Indices: 60469348--60469403 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
60469338 ATTTATTACA
**
60469348 GTTAAGTGGGGTGATTTAGGGTTTAAATG
1 GTTAAGTGGAATGATTTAGGGTTTAAATG
* *
60469377 GTTAGGTGGAATGATTTCGGGTTTAAA
1 GTTAAGTGGAATGATTTAGGGTTTAAA
60469404 ATAAATGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.25, C:0.02, G:0.36, T:0.38
Consensus pattern (29 bp):
GTTAAGTGGAATGATTTAGGGTTTAAATG
Found at i:60470567 original size:28 final size:28
Alignment explanation
Indices: 60470506--60470565 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
60470496 TCACCAAAGC
* *
60470506 TTTTTGTGTTTGTTTCCTTATTACATGT
1 TTTTTGTGTTTGTTTCCTTATCAAATGT
* *
60470534 GTTTTGTGTTTGTTTCCTT-TCAAATTT
1 TTTTTGTGTTTGTTTCCTTATCAAATGT
60470561 TTTTT
1 TTTTT
60470566 TGAAGTGCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.10, C:0.10, G:0.13, T:0.67
Consensus pattern (28 bp):
TTTTTGTGTTTGTTTCCTTATCAAATGT
Found at i:60472538 original size:15 final size:17
Alignment explanation
Indices: 60472507--60472539 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
60472497 AATAAAATAT
60472507 AAATTATAAACATAAAA
1 AAATTATAAACATAAAA
60472524 AAATTA-AAACA-AAAA
1 AAATTATAAACATAAAA
60472539 A
1 A
60472540 CTCCAACACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 5 0.31
17 6 0.38
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
AAATTATAAACATAAAA
Found at i:60472539 original size:16 final size:17
Alignment explanation
Indices: 60472507--60472539 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
60472497 AATAAAATAT
*
60472507 AAATTATAAACATAAAA
1 AAATTATAAACAAAAAA
60472524 AAATTA-AAACAAAAAA
1 AAATTATAAACAAAAAA
60472540 CTCCAACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
AAATTATAAACAAAAAA
Done.