Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 193 of 203
Found at i:61537757 original size:23 final size:23
Alignment explanation
Indices: 61537721--61537776 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
61537711 AGCTTTTGAC
* *
61537721 TGGTTATTTGTGTA-TCTTTTACT
1 TGGTT-TTTTTGTACTCTTATACT
*
61537744 TGGTATTTTTTGTACTCTTATATT
1 TGGT-TTTTTTGTACTCTTATACT
61537768 TGGTTTTTT
1 TGGTTTTTT
61537777 ATTGGAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 16 0.57
24 12 0.43
ACGTcount: A:0.12, C:0.07, G:0.16, T:0.64
Consensus pattern (23 bp):
TGGTTTTTTTGTACTCTTATACT
Found at i:61538072 original size:12 final size:12
Alignment explanation
Indices: 61538057--61538086 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
61538047 AACAGATGTT
*
61538057 TAAACATTTGTC
1 TAAACATTTCTC
61538069 TAAACATTTCTC
1 TAAACATTTCTC
61538081 TAAACA
1 TAAACA
61538087 ACAAATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.37
Consensus pattern (12 bp):
TAAACATTTCTC
Found at i:61539105 original size:22 final size:22
Alignment explanation
Indices: 61539054--61539105 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
61539044 GATTAGTGTG
* *
61539054 TCTCGAGACATTTAGTCATATG
1 TCTCGAGACAATTAGTCATATA
* *
61539076 TTTTGAGACAATTAGTCGA-ATA
1 TCTCGAGACAATTAGTC-ATATA
61539098 TCTCGAGA
1 TCTCGAGA
61539106 TATGACTCCC
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (22 bp):
TCTCGAGACAATTAGTCATATA
Found at i:61539559 original size:3 final size:3
Alignment explanation
Indices: 61539551--61539580 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
61539541 ATTTATTTCT
61539551 TTA TTA TTA TTA TTA TTA TTA TTCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TT
61539581 TGAAGCAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:61542084 original size:21 final size:21
Alignment explanation
Indices: 61542037--61542089 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
61542027 ATCCTTGATT
* *
61542037 CTAATCTCACCACTACAGTAT
1 CTAATCTCACCACTACAATAA
* * *
61542058 CCAATCTTACTACTACAATAA
1 CTAATCTCACCACTACAATAA
61542079 CTAATCTCACC
1 CTAATCTCACC
61542090 GGAGATAAAC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.34, G:0.02, T:0.28
Consensus pattern (21 bp):
CTAATCTCACCACTACAATAA
Found at i:61544221 original size:42 final size:43
Alignment explanation
Indices: 61544131--61544240 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 43
61544121 GTCCTAGACG
* * * *
61544131 TGGTCTTACATGTAATCAAATATCGACGCCACTGTCCCAGATA
1 TGGTCTTACATGAAATCAAATATCGACGCCAATGTCCCAAACA
* *
61544174 AGGTCTTACATGAAATCATATA-CGACGCCAATGTCCCAAACA
1 TGGTCTTACATGAAATCAAATATCGACGCCAATGTCCCAAACA
* * *
61544216 TGGTCTTACACGTAATCACATATCG
1 TGGTCTTACATGAAATCAAATATCG
61544241 GAATCCTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 35 0.62
43 21 0.38
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
TGGTCTTACATGAAATCAAATATCGACGCCAATGTCCCAAACA
Found at i:61545865 original size:31 final size:31
Alignment explanation
Indices: 61545830--61545889 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
61545820 AACAACCCAA
* **
61545830 TGACTTGAATGAAAACTTTTGAATAGTTTAC
1 TGACTTAAATGAAAACTTTCCAATAGTTTAC
61545861 TGACTTAAATGAAAACTTTCCAATAGTTT
1 TGACTTAAATGAAAACTTTCCAATAGTTT
61545890 GGTGACCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (31 bp):
TGACTTAAATGAAAACTTTCCAATAGTTTAC
Found at i:61551115 original size:42 final size:40
Alignment explanation
Indices: 61551056--61551190 Score: 135
Period size: 42 Copynumber: 3.2 Consensus size: 40
61551046 TGCTAAATAA
* * **
61551056 AAGCTCATAAATGCTAAATAGAAACCCGTAAGGGTTGAATGG
1 AAGCTCATAAA-GCTAAAT-GAAACCCATAAGGGTTAAACAG
*
61551098 AAGCTCATAATAGCTAAACGAAAACCCATAAGGGTTAAACAG
1 AAGCTCATAA-AGCTAAATG-AAACCCATAAGGGTTAAACAG
* * *
61551140 AAGCTCAAAAGAGCTAAATGAAAACCTATTAGGGTTAAACAG
1 AAGCTCATAA-AGCTAAATG-AAACCCATAAGGGTTAAACAG
*
61551182 AAACTCATA
1 AAGCTCATA
61551191 TGAGTTAACA
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.01
42 77 0.97
43 1 0.01
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (40 bp):
AAGCTCATAAAGCTAAATGAAACCCATAAGGGTTAAACAG
Found at i:61560003 original size:18 final size:19
Alignment explanation
Indices: 61559982--61560032 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
61559972 CATAACCGTG
61559982 GGTTCACATGTCACATAT-
1 GGTTCACATGTCACATATA
61560000 GGTTCACA--T-A-ATATA
1 GGTTCACATGTCACATATA
61560015 GGCTTCACATGTCACATA
1 GG-TTCACATGTCACATA
61560033 GGATTCGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
14 4 0.15
15 3 0.11
16 7 0.26
18 9 0.33
19 1 0.04
20 3 0.11
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (19 bp):
GGTTCACATGTCACATATA
Found at i:61560008 original size:34 final size:34
Alignment explanation
Indices: 61559970--61560058 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 34
61559960 CATAGGTTCG
61559970 CACATAACCGT-GGGTTCACATGTCACATATGG-TT
1 CACATAA-CGTAGGGTTCACATGTCACATA-GGATT
** *
61560004 CACATAATATAGGCTTCACATGTCACATAGGATT
1 CACATAACGTAGGGTTCACATGTCACATAGGATT
*
61560038 CGCATAACGTAGGGTTCACAT
1 CACATAACGTAGGGTTCACAT
61560059 AGGGCTTCGC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
33 3 0.07
34 43 0.93
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (34 bp):
CACATAACGTAGGGTTCACATGTCACATAGGATT
Found at i:61560173 original size:27 final size:29
Alignment explanation
Indices: 61560132--61560201 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
61560122 CATTTTAAGA
*
61560132 GTTCGCACAT-A-ATAT-TACA-ATCAGG
1 GTTCGCACATCATATATAAACATATCAGG
61560157 GTTCGCACATCATATATAAACATATCAGG
1 GTTCGCACATCATATATAAACATATCAGG
* *
61560186 GCTCGCATATCATATA
1 GTTCGCACATCATATA
61560202 GGTTTGCACA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 10 0.26
26 1 0.03
27 4 0.11
28 3 0.08
29 20 0.53
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (29 bp):
GTTCGCACATCATATATAAACATATCAGG
Found at i:61561355 original size:4 final size:4
Alignment explanation
Indices: 61561346--61561372 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
61561336 TTATTATTAT
61561346 TAAC TAAC TAAC TAAC TAAC TAAC TAA
1 TAAC TAAC TAAC TAAC TAAC TAAC TAA
61561373 TTATTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAC
Found at i:61562063 original size:6 final size:6
Alignment explanation
Indices: 61562035--61562136 Score: 102
Period size: 6 Copynumber: 17.5 Consensus size: 6
61562025 CTGTAATTCG
* * * *
61562035 TTTCAT TTCCAT TTTCA- TATCAT TCTCAT TTTCAT TTTCA- TATCAT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
* * * * *
61562081 TCTCAT TTTCAT TTTCAT TTTCA- TTTCAA TTTCAA TTTCAA TTTCAA
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
61562128 TTTCAT TTT
1 TTTCAT TTT
61562137 ATATTCAAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
5 13 0.15
6 71 0.85
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.58
Consensus pattern (6 bp):
TTTCAT
Found at i:61562063 original size:23 final size:23
Alignment explanation
Indices: 61562037--61562120 Score: 116
Period size: 23 Copynumber: 3.7 Consensus size: 23
61562027 GTAATTCGTT
*
61562037 TCATTTCCATTTTCATATCATTC
1 TCATTTTCATTTTCATATCATTC
61562060 TCATTTTCATTTTCATATCATTC
1 TCATTTTCATTTTCATATCATTC
*
61562083 TCATTTTCATTTTCATTTTCATT-
1 TCATTTTCATTTTCA-TATCATTC
* *
61562106 TCAATTTCAATTTCA
1 TCATTTTCATTTTCA
61562121 ATTTCAATTT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
23 50 0.89
24 6 0.11
ACGTcount: A:0.23, C:0.21, G:0.00, T:0.56
Consensus pattern (23 bp):
TCATTTTCATTTTCATATCATTC
Found at i:61562131 original size:29 final size:29
Alignment explanation
Indices: 61562064--61562135 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
61562054 TCATTCTCAT
* * *
61562064 TTTCATTTTCATATCATTCTCATTTTCAT
1 TTTCATTTTCATTTCATTCTCAATTTCAA
61562093 TTTCATTTTCATTTCAATT-TCAATTTCAA
1 TTTCATTTTCATTTC-ATTCTCAATTTCAA
*
61562122 TTTCAATTTCATTT
1 TTTCATTTTCATTT
61562136 TATATTCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 35 0.92
30 3 0.08
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTCATTTTCATTTCATTCTCAATTTCAA
Found at i:61573643 original size:21 final size:21
Alignment explanation
Indices: 61573617--61573694 Score: 88
Period size: 21 Copynumber: 3.7 Consensus size: 21
61573607 GCTCTAGTAT
61573617 CCACACGCCCGTGTCACTTAC
1 CCACACGCCCGTGTCACTTAC
* *
61573638 CCACACGCCCGTGTGTAAC--CC
1 CCACACGCCC--GTGTCACTTAC
*
61573659 CTCACACGCCCATGTCACTTAC
1 C-CACACGCCCGTGTCACTTAC
61573681 CCACACGCCCGTGT
1 CCACACGCCCGTGT
61573695 GTAACCCCTC
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 5 0.11
21 24 0.52
22 11 0.24
23 6 0.13
ACGTcount: A:0.19, C:0.47, G:0.15, T:0.18
Consensus pattern (21 bp):
CCACACGCCCGTGTCACTTAC
Found at i:61573667 original size:22 final size:22
Alignment explanation
Indices: 61573639--61573717 Score: 92
Period size: 22 Copynumber: 3.6 Consensus size: 22
61573629 GTCACTTACC
61573639 CACACGCCCGTGTGTAACCCCT
1 CACACGCCCGTGTGTAACCCCT
* * *
61573661 CACACGCCC--ATGTCACTTACC-
1 CACACGCCCGTGTGTAAC--CCCT
61573682 CACACGCCCGTGTGTAACCCCT
1 CACACGCCCGTGTGTAACCCCT
61573704 CACACGCCCGTGTG
1 CACACGCCCGTGTG
61573718 AAAACCACTG
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 5 0.11
21 11 0.24
22 25 0.54
23 5 0.11
ACGTcount: A:0.19, C:0.46, G:0.18, T:0.18
Consensus pattern (22 bp):
CACACGCCCGTGTGTAACCCCT
Found at i:61573679 original size:43 final size:43
Alignment explanation
Indices: 61573618--61573712 Score: 181
Period size: 43 Copynumber: 2.2 Consensus size: 43
61573608 CTCTAGTATC
*
61573618 CACACGCCCGTGTCACTTACCCACACGCCCGTGTGTAACCCCT
1 CACACGCCCATGTCACTTACCCACACGCCCGTGTGTAACCCCT
61573661 CACACGCCCATGTCACTTACCCACACGCCCGTGTGTAACCCCT
1 CACACGCCCATGTCACTTACCCACACGCCCGTGTGTAACCCCT
61573704 CACACGCCC
1 CACACGCCC
61573713 GTGTGAAAAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.20, C:0.48, G:0.15, T:0.17
Consensus pattern (43 bp):
CACACGCCCATGTCACTTACCCACACGCCCGTGTGTAACCCCT
Found at i:61575827 original size:41 final size:41
Alignment explanation
Indices: 61575782--61575864 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
61575772 GGTTGGATCT
*
61575782 ATTCTCTTACGATAGATATTTAAAATCATGCAAAGAAAATG
1 ATTCTCTTACGATAGATATTTAAAACCATGCAAAGAAAATG
*
61575823 ATTCTCTTACGATAGATCTTTAAAACCATGCAAAGAAAATG
1 ATTCTCTTACGATAGATATTTAAAACCATGCAAAGAAAATG
61575864 A
1 A
61575865 ATTTTAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (41 bp):
ATTCTCTTACGATAGATATTTAAAACCATGCAAAGAAAATG
Found at i:61581256 original size:16 final size:16
Alignment explanation
Indices: 61581235--61581266 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61581225 GAACTATTTT
61581235 CTAAGTAGTTAATTAA
1 CTAAGTAGTTAATTAA
*
61581251 CTAAGTTGTTAATTAA
1 CTAAGTAGTTAATTAA
61581267 TTTCCCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (16 bp):
CTAAGTAGTTAATTAA
Found at i:61582090 original size:19 final size:18
Alignment explanation
Indices: 61582055--61582103 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
61582045 AGCCACACGC
*
61582055 AACAAC-AAAAACA-AAA
1 AACAACAAAAAATAGAAA
61582071 AACAACAAACAAATAGAAA
1 AACAACAAA-AAATAGAAA
*
61582090 AACTACAAAAAATA
1 AACAACAAAAAATA
61582104 ATGATTAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 6 0.21
17 2 0.07
18 9 0.32
19 11 0.39
ACGTcount: A:0.76, C:0.16, G:0.02, T:0.06
Consensus pattern (18 bp):
AACAACAAAAAATAGAAA
Found at i:61595508 original size:44 final size:43
Alignment explanation
Indices: 61595357--61595568 Score: 153
Period size: 45 Copynumber: 4.8 Consensus size: 43
61595347 TTCTATATTA
*
61595357 GCAGCGAAGCAGATCGAACACACAGCCTTGCCTCCCTGAGTTT
1 GCAGCGAAGCAGATCGAAGACACAGCCTTGCCTCCCTGAGTTT
* * * * * *
61595400 GCAGCGGAGCAGA-CTGAAGATAGCAGATCTTGTCTTCCTGTA-TTA
1 GCAGCGAAGCAGATC-GAAGACA-CAG-CCTTGCCTCCCTG-AGTTT
**
61595445 GCAGCGAAGCAGATCGAAGACACCAGCCTCACCTCCCTGAGTTT
1 GCAGCGAAGCAGATCGAAGACA-CAGCCTTGCCTCCCTGAGTTT
* * * * * * *
61595489 GCAGCGGAGCAGA-CTGAAGATAGTAGATCTTGTCTTCCTGTA-TTA
1 GCAGCGAAGCAGATC-GAAGACA-CAG-CCTTGCCTCCCTG-AGTTT
*
61595534 GCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTC
1 GCAGCGAAGCAGATCGAAGACA-CAGCCTTGCCTC
61595569 TTTAGTTTAC
Statistics
Matches: 125, Mismatches: 34, Indels: 19
0.70 0.19 0.11
Matches are distributed among these distances:
42 1 0.01
43 19 0.15
44 38 0.30
45 63 0.50
46 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (43 bp):
GCAGCGAAGCAGATCGAAGACACAGCCTTGCCTCCCTGAGTTT
Found at i:61595517 original size:89 final size:89
Alignment explanation
Indices: 61595327--61595784 Score: 659
Period size: 89 Copynumber: 5.2 Consensus size: 89
61595317 ATGGATTGAA
* * * *
61595327 GAAGATAGCAGATCTTGTCTTTCTATATTAGCAGCGAAGCAGATCGAACACA-CAGCCTTGCCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTC
*
61595391 CCTGAGTTTGCAGCGGAGCAGACT
66 CTTGAGTTTGCAGCGGAGCAGACT
*
61595415 GAAGATAGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGCAGATCGAAGACACCAGCCTCACCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTC
*
61595480 CCTGAGTTTGCAGCGGAGCAGACT
66 CTTGAGTTTGCAGCGGAGCAGACT
*
61595504 GAAGATAGTAGATCTTGTCTTCCTGTATTAGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCT-
1 GAAGATAGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTC
* * *
61595568 CTTTAGTTTACAGCGGAGCAAACT
66 CTTGAGTTTGCAGCGGAGCAGACT
* * * * * *
61595592 GAAGATAGTAGGTCTTATCTTCTTGTATTAGCAGTGAAACAGATCGAAGACACCAGCCTCGCCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTC
* *
61595657 CTTAAGTTTGCAGTGGAGCAGACT
66 CTTGAGTTTGCAGCGGAGCAGACT
* * * * *
61595681 GAAGATAGCAGATCTTGTCTTCATATATTGGCAGCGAAGCAGATCAAAGACACCAGCCTCGTCTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTC
*
61595746 CTTGAGTTTGCAGTGGAGCAGACT
66 CTTGAGTTTGCAGCGGAGCAGACT
* *
61595770 GTAGATAGCGGATCT
1 GAAGATAGCAGATCT
61595785 CATCATGTCA
Statistics
Matches: 335, Mismatches: 33, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
88 128 0.38
89 207 0.62
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (89 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTC
CTTGAGTTTGCAGCGGAGCAGACT
Found at i:61595623 original size:177 final size:178
Alignment explanation
Indices: 61595327--61595784 Score: 668
Period size: 177 Copynumber: 2.6 Consensus size: 178
61595317 ATGGATTGAA
* * *
61595327 GAAGATAGCAGATCTTGTCTTTCTATATTAGCAGCGAAGCAGATCGAACACA-CAGCCTTGCCTC
1 GAAGATAGCAGATCTTGTCTTCCTATATTAGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTC
* * *
61595391 CCTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTAGCAGCGAAGCA
66 CTTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTATCTTCCTGTATTAGCAGCGAAACA
*
61595456 GATCGAAGACACCAGCCTCACCTCCCTGAGTTTGCAGCGGAGCAGACT
131 GATCGAAGACACCAGCCTCACCTCCCTAAGTTTGCAGCGGAGCAGACT
* *
61595504 GAAGATAGTAGATCTTGTCTTCCTGTATTAGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCT-
1 GAAGATAGCAGATCTTGTCTTCCTATATTAGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTC
* * * * * * *
61595568 CTTTAGTTTACAGCGGAGCAAACTGAAGATAGTAGGTCTTATCTTCTTGTATTAGCAGTGAAACA
66 CTTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTATCTTCCTGTATTAGCAGCGAAACA
* * *
61595633 GATCGAAGACACCAGCCTCGCCTCCTTAAGTTTGCAGTGGAGCAGACT
131 GATCGAAGACACCAGCCTCACCTCCCTAAGTTTGCAGCGGAGCAGACT
* * * *
61595681 GAAGATAGCAGATCTTGTCTTCATATATTGGCAGCGAAGCAGATCAAAGACACCAGCCTCGTCTC
1 GAAGATAGCAGATCTTGTCTTCCTATATTAGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTC
* * *
61595746 CTTGAGTTTGCAGTGGAGCAGACTGTAGATAGCGGATCT
66 CTTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCT
61595785 CATCATGTCA
Statistics
Matches: 246, Mismatches: 33, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
177 205 0.83
178 41 0.17
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (178 bp):
GAAGATAGCAGATCTTGTCTTCCTATATTAGCAGCGAAGCAGATCGAAGACACCAGCCTCGCCTC
CTTGAGTTTGCAGCGGAGCAGACTGAAGATAGCAGATCTTATCTTCCTGTATTAGCAGCGAAACA
GATCGAAGACACCAGCCTCACCTCCCTAAGTTTGCAGCGGAGCAGACT
Found at i:61595685 original size:44 final size:44
Alignment explanation
Indices: 61595637--61595770 Score: 119
Period size: 44 Copynumber: 3.0 Consensus size: 44
61595627 GAAACAGATC
*
61595637 GAAGACACCAGCCTCGCCTCCTTAAGTTTGCAGTGGAGCAGACT
1 GAAGACACCAGCCTCGTCTCCTTAAGTTTGCAGTGGAGCAGACT
* * * * * * * * *
61595681 GAAGATAGCAGATCTTGTCTTCATATA-TTGGCAGCGAAGCAGA-T
1 GAAGACACCAG-CCTCGTCTCCTTA-AGTTTGCAGTGGAGCAGACT
* *
61595725 CAAAGACACCAGCCTCGTCTCCTTGAGTTTGCAGTGGAGCAGACT
1 -GAAGACACCAGCCTCGTCTCCTTAAGTTTGCAGTGGAGCAGACT
61595770 G
1 G
61595771 TAGATAGCGG
Statistics
Matches: 63, Mismatches: 22, Indels: 10
0.66 0.23 0.11
Matches are distributed among these distances:
43 1 0.02
44 31 0.49
45 30 0.48
46 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (44 bp):
GAAGACACCAGCCTCGTCTCCTTAAGTTTGCAGTGGAGCAGACT
Found at i:61601668 original size:103 final size:104
Alignment explanation
Indices: 61601424--61601689 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
61601414 GTTGTACATA
** *
61601424 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
61601489 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
61601528 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
61601592 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
61601631 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
61601690 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:61604030 original size:24 final size:25
Alignment explanation
Indices: 61604003--61604050 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
61603993 TTAAGTTGAT
*
61604003 AAGAATT-CTCTTTGAGTTT-TTTTC
1 AAGAATTACT-TTTAAGTTTCTTTTC
61604027 AAGAATTACTTTTAAGTTTCTTTT
1 AAGAATTACTTTTAAGTTTCTTTT
61604051 AGAGTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.54
Consensus pattern (25 bp):
AAGAATTACTTTTAAGTTTCTTTTC
Found at i:61605998 original size:95 final size:97
Alignment explanation
Indices: 61605835--61606024 Score: 303
Period size: 95 Copynumber: 2.0 Consensus size: 97
61605825 GGAGGAATAG
* * *
61605835 GATTGAGCTATCACATTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
1 GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
*
61605900 GTCCAATTAAA-ATCTAAATAGAG-AGAAAAC
66 GTCCAATTAAATATCCAAATAGAGAAGAAAAC
* *
61605930 GATTGAGCTATCACCTTTTATGAAATGTTATTAGTGTAGTTCACAAGATCATAAGGGTTTCCAAT
1 GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
*
61605995 GTCCAATTAAATATCCAACTAGAGAAGAAA
66 GTCCAATTAAATATCCAAATAGAGAAGAAA
61606025 GTAAGTATGA
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 71 0.83
96 10 0.12
97 5 0.06
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (97 bp):
GATTGAGCTATCACATTTTATGAAATGTTATTAGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
GTCCAATTAAATATCCAAATAGAGAAGAAAAC
Found at i:61615638 original size:4 final size:4
Alignment explanation
Indices: 61615629--61615653 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
61615619 GCCATGGGGA
61615629 CCCT CCCT CCCT CCCT CCCT CCCT C
1 CCCT CCCT CCCT CCCT CCCT CCCT C
61615654 ATGTTTGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.76, G:0.00, T:0.24
Consensus pattern (4 bp):
CCCT
Found at i:61633256 original size:11 final size:10
Alignment explanation
Indices: 61633236--61633261 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
61633226 TTCAATTTCT
61633236 AAAAATAAAA
1 AAAAATAAAA
61633246 AAAAATAAAA
1 AAAAATAAAA
61633256 AAAAAT
1 AAAAAT
61633262 GACTAGAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:61634501 original size:26 final size:26
Alignment explanation
Indices: 61634468--61634518 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
61634458 AATATTAAGG
61634468 TAAATAATATTTAT-TTTAATGATAAA
1 TAAATAATATTTATATTT-ATGATAAA
61634494 TAAATAATATTTATATTTATGATAA
1 TAAATAATATTTATATTTATGATAA
61634519 TATTATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (26 bp):
TAAATAATATTTATATTTATGATAAA
Found at i:61634520 original size:21 final size:21
Alignment explanation
Indices: 61634496--61634538 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
61634486 ATGATAAATA
61634496 AATAATATTTATATTTATGAT
1 AATAATATTTATATTTATGAT
* *
61634517 AATATTATTTATCTTTATGAT
1 AATAATATTTATATTTATGAT
61634538 A
1 A
61634539 CTTTGTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (21 bp):
AATAATATTTATATTTATGAT
Found at i:61634837 original size:14 final size:15
Alignment explanation
Indices: 61634818--61634851 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
61634808 ATTAACCATT
61634818 TTTTAAAAT-TTATA
1 TTTTAAAATATTATA
61634832 TTTTAAAATATTATA
1 TTTTAAAATATTATA
61634847 TTTTA
1 TTTTA
61634852 TATCAATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTAAAATATTATA
Found at i:61641744 original size:24 final size:24
Alignment explanation
Indices: 61641709--61641756 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
61641699 AGAGAGAAGA
61641709 ATAAAAAAGATGAAAAGATTTATT
1 ATAAAAAAGATGAAAAGATTTATT
* * *
61641733 ATAAAAAGGATGACAATATTTATT
1 ATAAAAAAGATGAAAAGATTTATT
61641757 TTTCTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.31
Consensus pattern (24 bp):
ATAAAAAAGATGAAAAGATTTATT
Found at i:61658544 original size:16 final size:16
Alignment explanation
Indices: 61658512--61658541 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61658502 TATTTTTAAT
61658512 TAATTAAATTAATTTC
1 TAATTAAATTAATTTC
61658528 TAATTAAA-TAATTT
1 TAATTAAATTAATTT
61658542 TCTCAACCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTAAATTAATTTC
Found at i:61670027 original size:24 final size:25
Alignment explanation
Indices: 61669994--61670040 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61669984 TTTAGCCATT
*
61669994 ATTTTATTTT-ATTTTATTTTTATA
1 ATTTTATTTTAATTTAATTTTTATA
*
61670018 ATTTTGTTTTAATTTAATTTTTA
1 ATTTTATTTTAATTTAATTTTTA
61670041 CATTTACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (25 bp):
ATTTTATTTTAATTTAATTTTTATA
Found at i:61674319 original size:35 final size:35
Alignment explanation
Indices: 61674273--61674349 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
61674263 TACTCTCTGT
61674273 TTGGTGTGTTTCGGAGGGACTAGCTCTTT-TGAGCA
1 TTGGTGTGTTTCGGAGGGACTAGCT-TTTATGAGCA
**
61674308 TTGGTGTGTTTCGGTTGGACTAGCTTTTATGAGCA
1 TTGGTGTGTTTCGGAGGGACTAGCTTTTATGAGCA
61674343 TTGGTGT
1 TTGGTGT
61674350 ATTTTGTAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
34 3 0.08
35 36 0.92
ACGTcount: A:0.13, C:0.12, G:0.34, T:0.42
Consensus pattern (35 bp):
TTGGTGTGTTTCGGAGGGACTAGCTTTTATGAGCA
Found at i:61684181 original size:12 final size:12
Alignment explanation
Indices: 61684164--61684198 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
61684154 CCAAGACGTC
61684164 CGTGTGCTAGGT
1 CGTGTGCTAGGT
61684176 CGTGTGCTAGGT
1 CGTGTGCTAGGT
*
61684188 CGTGTGTTAGG
1 CGTGTGCTAGG
61684199 CCATGTAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.09, C:0.14, G:0.43, T:0.34
Consensus pattern (12 bp):
CGTGTGCTAGGT
Found at i:61686916 original size:6 final size:6
Alignment explanation
Indices: 61686907--61686970 Score: 56
Period size: 6 Copynumber: 10.2 Consensus size: 6
61686897 TCATTTCAAA
* * * * *
61686907 TTTATT TTTAGT TTTATT TTTGTT TTTGTT TTTGTT TTTGTT TTTAGTTAT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA--T-T
61686958 TTTATT TTTATT T
1 TTTATT TTTATT T
61686971 CTTAGATTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
6 44 0.86
7 1 0.02
8 1 0.02
9 5 0.10
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:61686932 original size:18 final size:18
Alignment explanation
Indices: 61686911--61686955 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
61686901 TTCAAATTTA
61686911 TTTTTAGTTTTATTTTTG
1 TTTTTAGTTTTATTTTTG
*
61686929 TTTTT-GTTTTTGTTTTTG
1 TTTTTAG-TTTTATTTTTG
61686947 TTTTTAGTT
1 TTTTTAGTT
61686956 ATTTTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.07, C:0.00, G:0.13, T:0.80
Consensus pattern (18 bp):
TTTTTAGTTTTATTTTTG
Found at i:61688622 original size:30 final size:30
Alignment explanation
Indices: 61688587--61688699 Score: 147
Period size: 30 Copynumber: 3.8 Consensus size: 30
61688577 CCACACGGTC
*
61688587 GTGTGAGACACACGAGCTGGACATACAACT
1 GTGTGAGACACACGAGCTGGACACACAACT
* * *
61688617 GTGTGAGACACATGAGCTGGACACACAGCC
1 GTGTGAGACACACGAGCTGGACACACAACT
*
61688647 GTGTGAGACACACGAGCTGGACACAC-AGT
1 GTGTGAGACACACGAGCTGGACACACAACT
* *
61688676 CGTGTGAGACACACGGGCTAGACA
1 -GTGTGAGACACACGAGCTGGACA
61688700 TACGGCCATG
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
30 72 1.00
ACGTcount: A:0.31, C:0.25, G:0.30, T:0.14
Consensus pattern (30 bp):
GTGTGAGACACACGAGCTGGACACACAACT
Found at i:61688658 original size:17 final size:16
Alignment explanation
Indices: 61688636--61688689 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
61688626 ACATGAGCTG
61688636 GACACACAGCCGTGTGA
1 GACACACAG-CGTGTGA
61688653 GACACACGAGC---TG-
1 GACACAC-AGCGTGTGA
61688666 GACACACAGTCGTGTGA
1 GACACACAG-CGTGTGA
61688683 GACACAC
1 GACACAC
61688690 GGGCTAGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
12 2 0.06
13 8 0.26
14 2 0.06
16 2 0.06
17 15 0.48
18 2 0.06
ACGTcount: A:0.31, C:0.30, G:0.28, T:0.11
Consensus pattern (16 bp):
GACACACAGCGTGTGA
Found at i:61694184 original size:131 final size:131
Alignment explanation
Indices: 61693949--61695014 Score: 1641
Period size: 131 Copynumber: 8.1 Consensus size: 131
61693939 NNNNNNNNNN
61693949 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATC
1 AGGGAGACAAGGCTTGGT-GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATC
* *
61694014 TTTGATCTGCTCCACTACCGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
65 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
61694079 TC
130 TC
** * * *
61694081 AGGGAGACAAGGCTTGGTTTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCATAT
1 AGGGAGACAAGGCTTGGTGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCT
* * *
61694146 TTGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCT
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCT
61694211 C
131 C
*
61694212 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTC
1 AGGGAGACAAGGCTTGGT-GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATC
* *
61694277 TTCGATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTAC
65 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
61694342 TC
130 TC
* * *
61694344 AGGGAGACAAGGCTTGGTGCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTTCCGTCT
1 AGGGAGACAAGGCTTGGTGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCT
* *
61694409 TCAATCAT-CTCCACTACCGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
66 TCGATC-TGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
61694473 TC
130 TC
** * * *
61694475 AGGGAGACAAGGCTTGGTTTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCATAT
1 AGGGAGACAAGGCTTGGTGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCT
* * *
61694540 TTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTGCTGCT
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCT
61694605 C
131 C
** * * *
61694606 AGGGAGACAAGGCTTGGTTTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCATAT
1 AGGGAGACAAGGCTTGGTGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCT
* * *
61694671 TTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACT
66 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCT
61694736 C
131 C
* * *
61694737 AGGGAGACAAGGCTTGGTGCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTTCCGTCT
1 AGGGAGACAAGGCTTGGTGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCT
* *
61694802 TCAATCAT-CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGC
66 TCGATC-TGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
61694866 TC
130 TC
* * *
61694868 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCGACTATCTTGGAAAGATAAGATTTACCGTC
1 AGGGAGACAAGGCTTGGT-GCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATC
* * * * *
61694933 CTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACGATCCTCAACCTACTCCGCTGTTGC
65 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
*
61694998 TT
130 TC
61695000 AGGGAGACAAGGCTT
1 AGGGAGACAAGGCTT
61695015 AGTGTTTCAC
Statistics
Matches: 866, Mismatches: 62, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
130 1 0.00
131 609 0.70
132 256 0.30
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (131 bp):
AGGGAGACAAGGCTTGGTGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCT
TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCT
C
Found at i:61694895 original size:394 final size:394
Alignment explanation
Indices: 61693949--61695014 Score: 1787
Period size: 394 Copynumber: 2.7 Consensus size: 394
61693939 NNNNNNNNNN
* * *
61693949 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATC
1 AGGGAGACAAGGCTTGGT-GCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTTCCGTC
**
61694014 TTTGATC-TGCTCCACTACCGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTG
65 TTCAATCAT-CTCCACTACCGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTG
61694078 CTCAGGGAGACAAGGCTTGGTTTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCA
129 CTCAGGGAGACAAGGCTTGGTTTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCA
*
61694143 TATTTGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTGCT
194 TATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTGCT
*
61694208 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGC
259 GCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGAAAAGATAAGATTTGC
* *
61694273 CGTCTTCGATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTG
324 CATATTCGATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTG
61694338 CTACTC
389 CTACTC
61694344 AGGGAGACAAGGCTTGGTGCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTTCCGTCT
1 AGGGAGACAAGGCTTGGTGCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTTCCGTCT
61694409 TCAATCATCTCCACTACCGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCT
66 TCAATCATCTCCACTACCGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCT
61694474 CAGGGAGACAAGGCTTGGTTTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCATA
131 CAGGGAGACAAGGCTTGGTTTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCATA
*
61694539 TTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTGCTGC
196 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTGCTGC
** *
61694604 TCAGGGAGACAAGGCTTGGT-TTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCA
261 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGAAAAGATAAGATTTGCCA
*
61694668 TATTTGAT-TTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGC
326 TATTCGATCTT-CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGC
61694732 TACTC
390 TACTC
61694737 AGGGAGACAAGGCTTGGTGCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTTCCGTCT
1 AGGGAGACAAGGCTTGGTGCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTTCCGTCT
* *
61694802 TCAATCATCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCT
66 TCAATCATCTCCACTACCGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCT
** * * * * *
61694867 CAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCGACTATCTTGGAAAGATAAGATTTACCGT
131 CAGGGAGACAAGGCTTGGT-TTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCAT
** * * * * * *
61694932 CCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACGATCCTCAACCTACTCCGCTGTTG
195 ATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTGCTG
*
61694997 CTTAGGGAGACAAGGCTT
260 CTCAGGGAGACAAGGCTT
61695015 AGTGTTTCAC
Statistics
Matches: 635, Mismatches: 33, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
392 2 0.00
393 250 0.39
394 364 0.57
395 19 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (394 bp):
AGGGAGACAAGGCTTGGTGCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTTCCGTCT
TCAATCATCTCCACTACCGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCT
CAGGGAGACAAGGCTTGGTTTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCATA
TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTGCTGC
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGAAAAGATAAGATTTGCCA
TATTCGATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
ACTC
Found at i:61694960 original size:525 final size:526
Alignment explanation
Indices: 61693949--61695014 Score: 1841
Period size: 525 Copynumber: 2.0 Consensus size: 526
61693939 NNNNNNNNNN
* *
61693949 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGAAAAGATAAGATTTGCCATA
61694014 TTTGATCTGCTCCACTACCGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
66 TTTGATCTGCTCCACTACCGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
61694079 TCAGGGAGACAAGGCTTGGTTTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCAT
131 TCAGGGAGACAAGGCTTGGTTTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCAT
* * *
61694144 ATTTGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTGCTG
196 ATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTA
*
61694209 CTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCC
261 CTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTGCC
* * *
61694274 GTCTTCGATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGC
326 GTCTTCAATCATCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGC
*
61694339 TACTCAGGGAGACAAGGCTTGGTGCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTTC
391 TACTCAGGGAGACAAGGCTTGGTGCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTAC
* *
61694404 CGTCTTCAATCATCTCCACTACCGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTG
456 CGTCCTCAATCATCTCCACTACCGCTTAGGGAGATAAGATCTACAATCCTCAACCTACTCCGCTG
61694469 CTGCTC
521 CTGCTC
** *
61694475 AGGGAGACAAGGCTTGGT-TTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCATA
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGAAAAGATAAGATTTGCCATA
* * *
61694539 TTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTGCTGC
66 TTTGATCTGCTCCACTACCGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
61694604 TCAGGGAGACAAGGCTTGGTTTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCAT
131 TCAGGGAGACAAGGCTTGGTTTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCAT
*
61694669 ATTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTA
196 ATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTA
*
61694734 CTCAGGGAGACAAGGCTTGGT-GCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTTCC
261 CTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTGCC
61694798 GTCTTCAATCATCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGC
326 GTCTTCAATCATCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGC
* * *
61694863 TGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCGACTATCTTGGAAAGATAAGATTTA
391 TACTCAGGGAGACAAGGCTTGGT-GCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTA
* * *
61694928 CCGTCCTCGATC-TACTCCACTACTGCTTAGGGAGATAAGATCTACGATCCTCAACCTACTCCGC
455 CCGTCCTCAATCAT-CTCCACTACCGCTTAGGGAGATAAGATCTACAATCCTCAACCTACTCCGC
* *
61694992 TGTTGCTT
519 TGCTGCTC
61695000 AGGGAGACAAGGCTT
1 AGGGAGACAAGGCTT
61695015 AGTGTTTCAC
Statistics
Matches: 510, Mismatches: 28, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
524 126 0.25
525 366 0.72
526 18 0.04
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (526 bp):
AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGAAAAGATAAGATTTGCCATA
TTTGATCTGCTCCACTACCGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
TCAGGGAGACAAGGCTTGGTTTTTAAATCTGCTTCCCACTATCTTGAAAATATAAGATTTGCCAT
ATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTA
CTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTGCC
GTCTTCAATCATCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGC
TACTCAGGGAGACAAGGCTTGGTGCTTAAATCTGATTCCCACTATCTTGGAAAGATAAGATTTAC
CGTCCTCAATCATCTCCACTACCGCTTAGGGAGATAAGATCTACAATCCTCAACCTACTCCGCTG
CTGCTC
Found at i:61694979 original size:44 final size:44
Alignment explanation
Indices: 61694784--61695006 Score: 118
Period size: 44 Copynumber: 5.1 Consensus size: 44
61694774 TATCTTGGAA
* * * *
61694784 AGATAAGATTTTCCGTCTTCAATC-ATCTCCACTACTGCTTAGGG
1 AGATAAGATCTACCGTCCTCAACCTA-CTCCACTACTGCTTAGGG
** * * *
61694828 AGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGG
1 AGATAAGATCTACCGTCCTCAACCTACTCCACTACTGCTTAGGG
* * ** * * * * *
61694872 AGACAAG-GCT-TGGTGGCTTAAATCTGCTTCCGACTA-T-CTT-GGAA
1 AGATAAGATCTACCGT--CCTCAACCTAC-TCC-ACTACTGCTTAGG-G
* * *
61694916 AGATAAGATTTACCGTCCTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATCTACCGTCCTCAACCTACTCCACTACTGCTTAGGG
* **
61694960 AGATAAGATCTA-CGATCCTCAACCTACTCCGCTGTTGCTTAGGG
1 AGATAAGATCTACCG-TCCTCAACCTACTCCACTACTGCTTAGGG
61695004 AGA
1 AGA
61695007 CAAGGCTTAG
Statistics
Matches: 133, Mismatches: 34, Indels: 24
0.70 0.18 0.13
Matches are distributed among these distances:
42 5 0.04
43 10 0.08
44 105 0.79
45 8 0.06
46 5 0.04
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (44 bp):
AGATAAGATCTACCGTCCTCAACCTACTCCACTACTGCTTAGGG
Found at i:61698622 original size:46 final size:46
Alignment explanation
Indices: 61698555--61698643 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
61698545 ACAAGTAAGA
*
61698555 CTTTGCCCTAGTACCCAGAACTCTGATCTTCCTAAGTAACAAAAGG
1 CTTTGCCCTAGTACCCAGAACTCTAATCTTCCTAAGTAACAAAAGG
61698601 CTTTGCCCTAGTACCCAGAACTCTAATCTTCCTAAGTAACAAA
1 CTTTGCCCTAGTACCCAGAACTCTAATCTTCCTAAGTAACAAA
61698644 GCTAATTCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.27
Consensus pattern (46 bp):
CTTTGCCCTAGTACCCAGAACTCTAATCTTCCTAAGTAACAAAAGG
Found at i:61703004 original size:21 final size:21
Alignment explanation
Indices: 61702978--61703053 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
61702968 AATCATATCT
61702978 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
61702999 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
61703020 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
61703039 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
61703054 TCTCGAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 18 0.36
21 32 0.64
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:61703013 original size:19 final size:19
Alignment explanation
Indices: 61702991--61703053 Score: 99
Period size: 19 Copynumber: 3.2 Consensus size: 19
61702981 AAGATTGTAT
61702991 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
61703010 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
61703031 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
61703050 ATAT
1 ATAT
61703054 TCTCGAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 22 0.54
21 19 0.46
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.40
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:61708588 original size:15 final size:15
Alignment explanation
Indices: 61708568--61708629 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
61708558 AAAAGAAAAG
61708568 AAAAATCGAAATAAA
1 AAAAATCGAAATAAA
*
61708583 AAAAATC--AATCAA
1 AAAAATCGAAATAAA
*
61708596 AAAAA-CAAAATCAAA
1 AAAAATCGAAAT-AAA
61708611 AAAAAT-GAAAATAAA
1 AAAAATCG-AAATAAA
61708626 AAAA
1 AAAA
61708630 CAAAAGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
12 1 0.03
13 10 0.26
14 3 0.08
15 21 0.54
16 4 0.10
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAATCGAAATAAA
Found at i:61708628 original size:23 final size:21
Alignment explanation
Indices: 61708602--61708658 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
61708592 TCAAAAAAAC
*
61708602 AAAATCAAAAAAAATGAAAATAA
1 AAAATCAAAAAAAA-G-AAAGAA
*
61708625 AAAAACAAAAGAAAAGAAAGAA
1 AAAATCAAAA-AAAAGAAAGAA
*
61708647 AAAATGAAAAAA
1 AAAATCAAAAAA
61708659 GAAAAAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 2 0.07
22 13 0.45
23 10 0.34
24 4 0.14
ACGTcount: A:0.81, C:0.04, G:0.09, T:0.07
Consensus pattern (21 bp):
AAAATCAAAAAAAAGAAAGAA
Found at i:61708657 original size:43 final size:41
Alignment explanation
Indices: 61708610--61708698 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 41
61708600 ACAAAATCAA
61708610 AAAAAATGAAAATAA-AAAAACAAAA-GAAAAGAAAGAAAAAATG
1 AAAAAA-GAAAA-AACAAAAACAAAATGAAAA-AAAGAAAAAA-G
* *
61708653 AAAAAAGAAAAAATCAAAATCAAAATGACAAAAAGAAAAAAG
1 AAAAAAGAAAAAA-CAAAAACAAAATGAAAAAAAGAAAAAAG
61708695 AAAA
1 AAAA
61708699 TGAGAGGCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
41 2 0.05
42 10 0.24
43 25 0.61
44 4 0.10
ACGTcount: A:0.79, C:0.04, G:0.10, T:0.07
Consensus pattern (41 bp):
AAAAAAGAAAAAACAAAAACAAAATGAAAAAAAGAAAAAAG
Found at i:61708659 original size:15 final size:15
Alignment explanation
Indices: 61708563--61708671 Score: 66
Period size: 14 Copynumber: 7.1 Consensus size: 15
61708553 ATCGAAAAAG
61708563 AAAAG-AAAAATCGAA
1 AAAAGAAAAAATC-AA
*
61708578 ATAAAAAAAATCAATCAA
1 A-AAAGAAAA--AATCAA
*
61708596 AAAA-ACAAAATCAA
1 AAAAGAAAAAATCAA
*
61708610 AAAA-AATGAAAATAAA
1 AAAAGAA--AAAATCAA
*
61708626 AAAACAAAAGAA--AA
1 AAAAGAAAA-AATCAA
* *
61708640 GAAAGAAAAAATGAA
1 AAAAGAAAAAATCAA
61708655 AAAAGAAAAAATCAA
1 AAAAGAAAAAATCAA
61708670 AA
1 AA
61708672 TCAAAATGAC
Statistics
Matches: 76, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.03
14 20 0.26
15 20 0.26
16 19 0.25
17 8 0.11
18 3 0.04
19 4 0.05
ACGTcount: A:0.78, C:0.06, G:0.07, T:0.08
Consensus pattern (15 bp):
AAAAGAAAAAATCAA
Found at i:61709494 original size:21 final size:21
Alignment explanation
Indices: 61709468--61709511 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
61709458 CGAAAAAATG
*
61709468 TGAAAAATAAAAAAATGAAAA
1 TGAAAAATAAAAAAATAAAAA
* *
61709489 TGAAAAATGAAAAAGTAAAAA
1 TGAAAAATAAAAAAATAAAAA
61709510 TG
1 TG
61709512 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (21 bp):
TGAAAAATAAAAAAATAAAAA
Found at i:61709496 original size:13 final size:14
Alignment explanation
Indices: 61709478--61709511 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
61709468 TGAAAAATAA
*
61709478 AAAAATGAAAATG-
1 AAAAATGAAAAAGT
61709491 AAAAATGAAAAAGT
1 AAAAATGAAAAAGT
61709505 AAAAATG
1 AAAAATG
61709512 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (14 bp):
AAAAATGAAAAAGT
Found at i:61710986 original size:44 final size:43
Alignment explanation
Indices: 61710924--61711076 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 43
61710914 GTGAAACAGA
* *
61710924 TCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGGAGG
1 TCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGG
* * ** * * ** * * * *
61710967 TTGAAGATAGTAGATCTTGCCTTCCTGAACTGGCAGCGAAGTAGA
1 TCGAAGACACCAG-CCTTGCCTCCCTG-GGTTGCAGCGGAGCAGG
61711012 TCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGG
1 TCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGG
* * *
61711055 TCAAAAACACCAGATCTTGCCT
1 TCGAAGACACCAG-CCTTGCCT
61711077 TCTTGTATTG
Statistics
Matches: 81, Mismatches: 26, Indels: 5
0.72 0.23 0.04
Matches are distributed among these distances:
43 32 0.40
44 29 0.36
45 20 0.25
ACGTcount: A:0.24, C:0.27, G:0.28, T:0.21
Consensus pattern (43 bp):
TCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGG
Found at i:61711089 original size:88 final size:88
Alignment explanation
Indices: 61710835--61711105 Score: 344
Period size: 88 Copynumber: 3.1 Consensus size: 88
61710825 AGTAGAGTAA
* * * *
61710835 ATCGAAGACACTAGCCTTGCCTCCCGGGGTTACAGCAGATCAGGTTGAAGATAGCAGATCTTGCC
1 ATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCC
* ** *
61710900 TTCCTATACTAACAGTGAAACAG
66 TTCCTGTACTGGCAGTGAAGCAG
* *
61710923 ATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGGAGGTTGAAGATAGTAGATCTTGCC
1 ATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCC
* * *
61710988 TTCCTGAACTGGCAGCGAAGTAG
66 TTCCTGTACTGGCAGTGAAGCAG
* ** * * *
61711011 ATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTCAAAAACACCAGATCTTGCC
1 ATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCC
* * *
61711076 TTCTTGTATTGGCAATGAAGCAG
66 TTCCTGTACTGGCAGTGAAGCAG
61711099 ATCGAAG
1 ATCGAAG
61711106 CCAATAATCC
Statistics
Matches: 156, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 156 1.00
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (88 bp):
ATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAGATCTTGCC
TTCCTGTACTGGCAGTGAAGCAG
Found at i:61711522 original size:50 final size:49
Alignment explanation
Indices: 61711433--61711824 Score: 208
Period size: 50 Copynumber: 7.9 Consensus size: 49
61711423 TCCCAGGCGG
* * * * **
61711433 TGCAGTGGAACAGATTGAAGCAACAATGGCGAA-CATTACTTCCCCAACAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGATGAATC-TTACTT-CCCAACAT
* * * **
61711483 TGCAGTTAAAAAGATTGAAGCTACAACGATGAATCTTACTTCTCAGGCGG
1 TGCAGTTGAAAAGATTGAAGCTACAACGATGAATCTTACTTCCCA-ACAT
* * * * * ** *
61711533 TGCAGTGGAACATATTGAAGCCACAAC-AGCGAATCTTGTTTTCCCGACAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGA-TGAATCTT-ACTTCCCAACAT
* * **
61711583 TCCAGTT-AAAAGATTGAAGCTACAAC-AGCGAATCTTACTTCCCAAGCGG
1 TGCAGTTGAAAAGATTGAAGCTACAACGA-TGAATCTTACTTCCCAA-CAT
* * * * ** ** *
61711632 TGCAATGGAATAGATTGAAGCCACAACGGCGAATCTTGTTTTCCCGACAT
1 TGCAGTTGAAAAGATTGAAGCTACAACGATGAATCTT-ACTTCCCAACAT
* * * * * **
61711682 TGCAGTT-AAAATATTAAAGCTACAACGGTGAATCTTACTTCTCAGGCGG
1 TGCAGTTGAAAAGATTGAAGCTACAACGATGAATCTTACTTCCCA-ACAT
* * *
61711731 TGCAGTGGAACAGATTGAAGCTACAAC-AGTGAATCTTCCTTCCCCGAA-AT
1 TGCAGTTGAAAAGATTGAAGCTACAACGA-TGAATCTTACTT-CCC-AACAT
*
61711781 TGCAGTT-AAGAAGATTGAAG-TCACAACGGTGAATCTTACTTCCC
1 TGCAGTTGAA-AAGATTGAAGCT-ACAACGATGAATCTTACTTCCC
61711825 TAGCGGTGTA
Statistics
Matches: 253, Mismatches: 73, Indels: 33
0.70 0.20 0.09
Matches are distributed among these distances:
48 10 0.04
49 72 0.28
50 157 0.62
51 13 0.05
52 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (49 bp):
TGCAGTTGAAAAGATTGAAGCTACAACGATGAATCTTACTTCCCAACAT
Found at i:61711649 original size:99 final size:99
Alignment explanation
Indices: 61711416--61711896 Score: 554
Period size: 99 Copynumber: 4.8 Consensus size: 99
61711406 TCGCATCAGG
* ** * * *
61711416 TCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCAACAATGGCGAA-CATTACTTCCCCAA
1 TCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCCACAACAGCGAATC-TTATTTTCCCGA
*
61711480 CATTGCAGTTAAAAAGATTGAAGCTACAACGATGAA
65 CATTGCAGTT-AAAAGATTGAAGCTACAACGGTGAA
* * *
61711516 TCTTACTTCTCAGGCGGTGCAGTGGAACATATTGAAGCCACAACAGCGAATCTTGTTTTCCCGAC
1 TCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCCACAACAGCGAATCTTATTTTCCCGAC
* * *
61711581 ATTCCAGTTAAAAGATTGAAGCTACAACAGCGAA
66 ATTGCAGTTAAAAGATTGAAGCTACAACGGTGAA
* * * * *
61711615 TCTTACTTCCCAAGCGGTGCAATGGAATAGATTGAAGCCACAACGGCGAATCTTGTTTTCCCGAC
1 TCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCCACAACAGCGAATCTTATTTTCCCGAC
* *
61711680 ATTGCAGTTAAAATATTAAAGCTACAACGGTGAA
66 ATTGCAGTTAAAAGATTGAAGCTACAACGGTGAA
* * * ** * *
61711714 TCTTACTTCTCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACAGTGAATCTTCCTTCCCCGAA
1 TCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCCACAACAGCGAATCTTATTTTCCCGAC
61711779 ATTGCAGTTAAGAAGATTGAAG-TCACAACGGTGAA
66 ATTGCAGTTAA-AAGATTGAAGCT-ACAACGGTGAA
* * * * * * * *
61711814 TCTTACTTCCCTA-GCGGTGTAATGGAATAGATTAAAGCTACGACAGTGAATCTTATTTTCCTGA
1 TCTTACTTCCC-AGGCGGTGCAGTGGAACAGATTGAAGCCACAACAGCGAATCTTATTTTCCCGA
**
61711878 CATCACAGTTAAATAGATT
65 CATTGCAGTTAAA-AGATT
61711897 AAAGTTACGA
Statistics
Matches: 326, Mismatches: 50, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
99 177 0.54
100 147 0.45
101 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (99 bp):
TCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCCACAACAGCGAATCTTATTTTCCCGAC
ATTGCAGTTAAAAGATTGAAGCTACAACGGTGAA
Found at i:61711817 original size:199 final size:198
Alignment explanation
Indices: 61711416--61711900 Score: 623
Period size: 199 Copynumber: 2.4 Consensus size: 198
61711406 TCGCATCAGG
* * * * * * *
61711416 TCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCAACAATGGCGAA-CATTACTTCCCCAA
1 TCTTACTTCCCAAGCGGTGCAATGGAATAGATTGAAGCAACAACGGCGAATC-TTATTTTCCCGA
*
61711480 CATTGCAGTTAAAAAGATTGAAGCTACAACGATGAATCTTACTTCTCAGGCGGTGCAGTGGAACA
65 CATTGCAGTT-AAAAGATTAAAGCTACAACGATGAATCTTACTTCTCAGGCGGTGCAGTGGAACA
* ** * *
61711545 TATTGAAGCCACAACAGCGAATCTTGTTTTCCCGACATTCCAGTTAAAAGATTGAAGCTACAACA
129 GATTGAAGCCACAACAGCGAATCTTCCTTCCCCGAAATTCCAGTTAAAAGATTGAAGCTACAACA
61711610 GCGAA
194 GCGAA
* *
61711615 TCTTACTTCCCAAGCGGTGCAATGGAATAGATTGAAGCCACAACGGCGAATCTTGTTTTCCCGAC
1 TCTTACTTCCCAAGCGGTGCAATGGAATAGATTGAAGCAACAACGGCGAATCTTATTTTCCCGAC
* *
61711680 ATTGCAGTTAAAATATTAAAGCTACAACGGTGAATCTTACTTCTCAGGCGGTGCAGTGGAACAGA
66 ATTGCAGTTAAAAGATTAAAGCTACAACGATGAATCTTACTTCTCAGGCGGTGCAGTGGAACAGA
* * * *
61711745 TTGAAGCTACAACAGTGAATCTTCCTTCCCCGAAATTGCAGTTAAGAAGATTGAAG-TCACAACG
131 TTGAAGCCACAACAGCGAATCTTCCTTCCCCGAAATTCCAGTTAA-AAGATTGAAGCT-ACAACA
*
61711809 GTGAA
194 GCGAA
* * * * * * * *
61711814 TCTTACTTCCCTAGCGGTGTAATGGAATAGATTAAAGCTACGACAGTGAATCTTATTTTCCTGAC
1 TCTTACTTCCCAAGCGGTGCAATGGAATAGATTGAAGCAACAACGGCGAATCTTATTTTCCCGAC
**
61711879 ATCACAGTTAAATAGATTAAAG
66 ATTGCAGTTAAA-AGATTAAAG
61711901 TTACGAGTTA
Statistics
Matches: 248, Mismatches: 34, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
198 91 0.37
199 148 0.60
200 9 0.04
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (198 bp):
TCTTACTTCCCAAGCGGTGCAATGGAATAGATTGAAGCAACAACGGCGAATCTTATTTTCCCGAC
ATTGCAGTTAAAAGATTAAAGCTACAACGATGAATCTTACTTCTCAGGCGGTGCAGTGGAACAGA
TTGAAGCCACAACAGCGAATCTTCCTTCCCCGAAATTCCAGTTAAAAGATTGAAGCTACAACAGC
GAA
Found at i:61711846 original size:50 final size:50
Alignment explanation
Indices: 61711494--61711868 Score: 194
Period size: 50 Copynumber: 7.5 Consensus size: 50
61711484 GCAGTTAAAA
* * *
61711494 AGATTGAAGCTACAAC-GATGAATCTTACTTCTC-AGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAG-TGAATCTTACTTCCCTA-GCGGTGCAATGGAAT
* * * ** * ** * * * *
61711544 ATATTGAAGCCACAACAGCGAATCTTGTTTTCCCGA-CATTCCAGT-TAAA
1 AGATTGAAGCTACAACAGTGAATCTT-ACTTCCCTAGCGGTGCAATGGAAT
* *
61711593 AGATTGAAGCTACAACAGCGAATCTTACTTCCCAAGCGGTGCAATGGAAT
1 AGATTGAAGCTACAACAGTGAATCTTACTTCCCTAGCGGTGCAATGGAAT
* * * ** * ** * * *
61711643 AGATTGAAGCCACAACGGCGAATCTTGTTTTCCCGA-CATTGCAGT-TAAA
1 AGATTGAAGCTACAACAGTGAATCTT-ACTTCCCTAGCGGTGCAATGGAAT
* * * * * *
61711692 ATATTAAAGCTACAACGGTGAATCTTACTTCTC-AGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACAGTGAATCTTACTTCCCTA-GCGGTGCAATGGAAT
* * *** * * *
61711742 AGATTGAAGCTACAACAGTGAATCTTCCTTCCC-CGAAATTGCAGT-TAAGA
1 AGATTGAAGCTACAACAGTGAATCTTACTTCCCTAG-CGGTGCAATGGAA-T
* *
61711792 AGATTGAAG-TCACAACGGTGAATCTTACTTCCCTAGCGGTGTAATGGAAT
1 AGATTGAAGCT-ACAACAGTGAATCTTACTTCCCTAGCGGTGCAATGGAAT
* *
61711842 AGATTAAAGCTACGACAGTGAATCTTA
1 AGATTGAAGCTACAACAGTGAATCTTA
61711869 TTTTCCTGAC
Statistics
Matches: 243, Mismatches: 67, Indels: 30
0.71 0.20 0.09
Matches are distributed among these distances:
47 1 0.00
48 10 0.04
49 66 0.27
50 150 0.62
51 15 0.06
52 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGTGAATCTTACTTCCCTAGCGGTGCAATGGAAT
Found at i:61720400 original size:9 final size:9
Alignment explanation
Indices: 61720383--61720419 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
61720373 TGAGTTTTCG
61720383 AATTCGAAT
1 AATTCGAAT
*
61720392 AACTCGAAT
1 AATTCGAAT
61720401 AATTCGAAT
1 AATTCGAAT
61720410 AATTCGAAT
1 AATTCGAAT
61720419 A
1 A
61720420 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:61721455 original size:5 final size:5
Alignment explanation
Indices: 61721445--61721470 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
61721435 CTCGAAAATT
61721445 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
61721471 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:61723756 original size:5 final size:5
Alignment explanation
Indices: 61723748--61723853 Score: 157
Period size: 5 Copynumber: 21.6 Consensus size: 5
61723738 ATTTTACATA
61723748 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
*
61723798 ATAAT ATAAT ATAAT ATAAT ATAAT ATATTTT ATAAT -TAA- ATAAT AT-AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA--AT ATAAT ATAAT ATAAT ATAAT
61723847 -TAAT ATA
1 ATAAT ATA
61723854 TTTAAAACAT
Statistics
Matches: 93, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
3 1 0.01
4 10 0.11
5 78 0.84
7 4 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:61725998 original size:7 final size:6
Alignment explanation
Indices: 61725953--61725985 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
61725943 TTCCATAACG
*
61725953 AAACTA AAACTA AAATTA AAACTA AAACTA AAA
1 AAACTA AAACTA AAACTA AAACTA AAACTA AAA
61725986 ATCTAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (6 bp):
AAACTA
Found at i:61732362 original size:25 final size:23
Alignment explanation
Indices: 61732298--61732362 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
61732288 ATTAACCATC
* *
61732298 AAAAAGTAAATTAATTTTTTTATT
1 AAAAATTAAATT-ATTTTTCTATT
*
61732322 AAAAATTTAATCTATTTTTACTATT
1 AAAAATTAAAT-TATTTTT-CTATT
61732347 AAAAATTAAAATTATT
1 AAAAATT-AAATTATT
61732363 AATAAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 15 0.44
25 16 0.47
26 3 0.09
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (23 bp):
AAAAATTAAATTATTTTTCTATT
Found at i:61733126 original size:18 final size:19
Alignment explanation
Indices: 61733093--61733129 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
61733083 ATTTTCATCA
*
61733093 ATTATACATAATTTTAATT
1 ATTATACATAAATTTAATT
61733112 ATTATA-ATAAATTTAATT
1 ATTATACATAAATTTAATT
61733130 TTTAACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTATACATAAATTTAATT
Found at i:61743377 original size:25 final size:25
Alignment explanation
Indices: 61743349--61743428 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 25
61743339 TCTCTCTCTC
*
61743349 GAGCCATTTAACAGGAAGCTCATGT
1 GAGCCATTTAACAGGAAGCTCATGA
*
61743374 GAGCCATGTAAC-GAGAAGCTCCA-GA
1 GAGCCATTTAACAG-GAAGCT-CATGA
61743399 GAGCCA-TTAACAGGAAGCTCAT-A
1 GAGCCATTTAACAGGAAGCTCATGA
61743422 CGAGCCA
1 -GAGCCA
61743429 ATATCAGGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
23 3 0.06
24 17 0.36
25 25 0.53
26 2 0.04
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (25 bp):
GAGCCATTTAACAGGAAGCTCATGA
Found at i:61743415 original size:24 final size:25
Alignment explanation
Indices: 61743349--61743439 Score: 84
Period size: 24 Copynumber: 3.7 Consensus size: 25
61743339 TCTCTCTCTC
*
61743349 GAGCCATTTAACAGGAAGCT-CATGT
1 GAGCCA-TTAACAGGAAGCTCCATGA
61743374 GAGCCATGTAAC-GAGAAGCTCCA-GA
1 GAGCCAT-TAACAG-GAAGCTCCATGA
61743399 GAGCCATTAACAGGAAGCT-CAT-A
1 GAGCCATTAACAGGAAGCTCCATGA
* *
61743422 CGAGCCAATATCAGGAAG
1 -GAGCCATTAACAGGAAG
61743440 ATTCAAGCAA
Statistics
Matches: 57, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
23 3 0.05
24 27 0.47
25 25 0.44
26 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.16
Consensus pattern (25 bp):
GAGCCATTAACAGGAAGCTCCATGA
Found at i:61743455 original size:25 final size:25
Alignment explanation
Indices: 61743422--61743507 Score: 120
Period size: 25 Copynumber: 3.4 Consensus size: 25
61743412 GAAGCTCATA
*
61743422 CGAGCCAATATCAGGAAGATTCAAG
1 CGAGCCAATATCAGGAAGGTTCAAG
* *
61743447 CAAGCCAATATCGGGAAGGTTCAAG
1 CGAGCCAATATCAGGAAGGTTCAAG
*
61743472 CGAGCCAATAT-TGGAAAGGTTCAAG
1 CGAGCCAATATCAGG-AAGGTTCAAG
61743497 CGAGCCAATAT
1 CGAGCCAATAT
61743508 TGGGAAGCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 2 0.04
25 53 0.96
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (25 bp):
CGAGCCAATATCAGGAAGGTTCAAG
Found at i:61743556 original size:25 final size:26
Alignment explanation
Indices: 61743521--61743579 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
61743511 GAAGCTCTGG
61743521 AGAGCCATTAA-CAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* *
61743546 AGAGCCTTTAATCAGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
61743572 AGAGCCAT
1 AGAGCCAT
61743580 ATATCGGGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:61747091 original size:37 final size:37
Alignment explanation
Indices: 61747041--61747119 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
61747031 AAAAAAACTT
61747041 AAATTATTCAAGGCGTTACAACTCAACCCCCTAAAAG
1 AAATTATTCAAGGCGTTACAACTCAACCCCCTAAAAG
*
61747078 AAATTATTCAAGGCGTTACAACTCTACCCCCTAAAAG
1 AAATTATTCAAGGCGTTACAACTCAACCCCCTAAAAG
61747115 AAATT
1 AAATT
61747120 TTAGCCTCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.24
Consensus pattern (37 bp):
AAATTATTCAAGGCGTTACAACTCAACCCCCTAAAAG
Found at i:61749403 original size:40 final size:40
Alignment explanation
Indices: 61749354--61750269 Score: 1805
Period size: 40 Copynumber: 22.9 Consensus size: 40
61749344 ATAACCACAA
* *
61749354 GCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749394 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749434 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749474 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749514 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749554 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749594 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749634 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749674 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749714 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749754 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749794 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749834 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749874 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749914 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749954 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61749994 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61750034 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61750074 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61750114 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61750154 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
61750194 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
61750234 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCA
61750270 TTCAAATGCT
Statistics
Matches: 873, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 873 1.00
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:61752112 original size:12 final size:12
Alignment explanation
Indices: 61752084--61752117 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
61752074 TTTTCATTAC
61752084 CTTTCTTTT-TT
1 CTTTCTTTTATT
61752095 -TTTCTTTTATT
1 CTTTCTTTTATT
61752106 CTTTCTTTTATT
1 CTTTCTTTTATT
61752118 TATTATAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.38
11 2 0.10
12 11 0.52
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (12 bp):
CTTTCTTTTATT
Found at i:61756653 original size:18 final size:18
Alignment explanation
Indices: 61756627--61756664 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
61756617 TTCAAAATCC
* *
61756627 TGGGTCCACATGCCCGTG
1 TGGGCCCACACGCCCGTG
61756645 TGGGCCCACACGCCCGTG
1 TGGGCCCACACGCCCGTG
61756663 TG
1 TG
61756665 ACATGTCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.37, G:0.34, T:0.18
Consensus pattern (18 bp):
TGGGCCCACACGCCCGTG
Found at i:61764852 original size:19 final size:19
Alignment explanation
Indices: 61764823--61764868 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
61764813 GGATATATTT
61764823 TAAAT-TTATTTA-GATAGA
1 TAAATCTTATTTATG-TAGA
61764841 TAAATCTTATTTATGTAGA
1 TAAATCTTATTTATGTAGA
61764860 TAAATCTTA
1 TAAATCTTA
61764869 GAATAAACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.19
19 20 0.77
20 1 0.04
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (19 bp):
TAAATCTTATTTATGTAGA
Found at i:61764952 original size:42 final size:42
Alignment explanation
Indices: 61764906--61764989 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
61764896 ATATTTTATT
*
61764906 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCCC
1 TTATCTTTTAGTAGTTTACTAGAATAAGGGAATTATTTTCCC
61764948 TTATCTTTTAGTAGTTTACTAGAATAAGGGAATTATTTTCCC
1 TTATCTTTTAGTAGTTTACTAGAATAAGGGAATTATTTTCCC
61764990 AATTAGGTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTACTAGAATAAGGGAATTATTTTCCC
Found at i:61769614 original size:19 final size:19
Alignment explanation
Indices: 61769585--61769630 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
61769575 GGATATATTT
61769585 TAAAT-TTATTTA-GATAGA
1 TAAATCTTATTTATG-TAGA
61769603 TAAATCTTATTTATGTAGA
1 TAAATCTTATTTATGTAGA
61769622 TAAATCTTA
1 TAAATCTTA
61769631 GAATAAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.19
19 20 0.77
20 1 0.04
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (19 bp):
TAAATCTTATTTATGTAGA
Found at i:61769744 original size:42 final size:42
Alignment explanation
Indices: 61769668--61769751 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
61769658 ATATTTTATT
* * * * *
61769668 TTATCTTTTAGTAGTTTATTATAATAAGATAATTATTTTCCC
1 TTATCTTCTAGTAGTTTACTAGAATAAGAGAATTAGTTTCCC
*
61769710 TTATCTTCTAGTAGTTTACTAGAATAAGGGAATTAGTTTCCC
1 TTATCTTCTAGTAGTTTACTAGAATAAGAGAATTAGTTTCCC
61769752 AATTAGGTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.46
Consensus pattern (42 bp):
TTATCTTCTAGTAGTTTACTAGAATAAGAGAATTAGTTTCCC
Found at i:61773496 original size:51 final size:49
Alignment explanation
Indices: 61773376--61773562 Score: 223
Period size: 51 Copynumber: 3.7 Consensus size: 49
61773366 TGGTCATGTA
61773376 TGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATG-ATAGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGTAT-GGTCACATG
* * * *
61773426 TGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTTTCGATCACATG
1 TGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT-GTAT-GGTCACATG
* * *
61773477 TGTAGTACTATGTGTAGGCTACTACGTGTATCGGATGGTAATGGTCACATG
1 TGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT-GT-ATGGTCACATG
* * *
61773528 TGTAGTACTATGTGTAGGCTACTATGTGAACCGAA
1 TGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
61773563 CATCATTGAT
Statistics
Matches: 117, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
49 4 0.03
50 31 0.26
51 81 0.69
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGTATGGTCACATG
Found at i:61773552 original size:102 final size:101
Alignment explanation
Indices: 61773376--61773562 Score: 295
Period size: 102 Copynumber: 1.8 Consensus size: 101
61773366 TGGTCATGTA
61773376 TGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTACTATGTGC
1 TGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTACTATGTGC
*
61773441 AGGCTACTATGCGTACCGAATAGTTTCGATCACATG
66 AGGCTACTATGCGAACCGAATAGTTTCGATCACATG
* * *
61773477 TGTAGTACTATGTGTAGGCTACTACGTGTATCGG-ATGGTAATGGTCACATGTGTAGTACTATGT
1 TGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCACATGTGTAGTACTATGT
* *
61773541 GTAGGCTACTATGTGAACCGAA
64 GCAGGCTACTATGCGAACCGAA
61773563 CATCATTGAT
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
100 4 0.05
101 33 0.42
102 41 0.53
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (101 bp):
TGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGGTCACATGTGTAGTACTATGTGC
AGGCTACTATGCGAACCGAATAGTTTCGATCACATG
Found at i:61773613 original size:45 final size:45
Alignment explanation
Indices: 61773557--61773651 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
61773547 TACTATGTGA
* *
61773557 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
61773602 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
61773647 ACCGA
1 ACCGA
61773652 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:61802857 original size:46 final size:46
Alignment explanation
Indices: 61802790--61803769 Score: 1705
Period size: 46 Copynumber: 21.5 Consensus size: 46
61802780 TTTGAGTACT
* * * * *
61802790 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
*
61802836 TCTGATCAAGTGAAAAAGTGAT-AA-G-T-GC--TA--TAC--TTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61802872 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61802918 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61802964 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803010 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803056 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803102 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803148 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803194 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803240 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803286 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803332 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803378 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803424 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803470 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803516 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803562 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
61803608 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
* * * * *
61803654 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTTTT
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACA--GTTA
* * * * *
61803702 TTTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
*
61803748 TCTGATC-AGGGAC-AAGTGATAA
1 TCTGATCAAGTGACAAAGTGATAA
61803770 GTGATCATAC
Statistics
Matches: 908, Mismatches: 14, Indels: 26
0.96 0.01 0.03
Matches are distributed among these distances:
36 24 0.03
37 2 0.00
38 4 0.00
39 1 0.00
40 4 0.00
42 4 0.00
43 1 0.00
44 13 0.01
45 6 0.01
46 806 0.89
48 43 0.05
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAATGTTAGCTTTAGCTACAGTTA
Found at i:61802872 original size:36 final size:36
Alignment explanation
Indices: 61802826--61802895 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
61802816 GGTAGCTTTA
61802826 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
61802862 GCTATACTTATCTGATCAAGTGACAAAGTGATAA
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA
61802896 ATGTTAGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:61813388 original size:19 final size:18
Alignment explanation
Indices: 61813364--61813428 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
61813354 AAGAATATTT
61813364 TTTAAAAAACTTATAAAAG
1 TTTAAAAAA-TTATAAAAG
*
61813383 TTTAAAACATTCATAAAA-
1 TTTAAAAAATT-ATAAAAG
*
61813401 TTATAAAAATATTAAATAAAG
1 TT-TAAAAA-ATTATA-AAAG
61813422 TTTAAAA
1 TTTAAAA
61813429 GTCCAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 4 0.11
19 21 0.55
20 11 0.29
21 2 0.05
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (18 bp):
TTTAAAAAATTATAAAAG
Found at i:61813888 original size:16 final size:15
Alignment explanation
Indices: 61813853--61813894 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 15
61813843 TTAAATTTTT
61813853 TTTATTTATTTTT-A
1 TTTATTTATTTTTAA
61813867 -TT-TTTATTTTTAAA
1 TTTATTTATTTTT-AA
61813881 TTTATTTATTTTTA
1 TTTATTTATTTTTA
61813895 TAAATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 9 0.38
13 2 0.08
14 1 0.04
15 3 0.12
16 9 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTATTTTTAA
Found at i:61813898 original size:18 final size:17
Alignment explanation
Indices: 61813863--61813923 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 17
61813853 TTTATTTATT
*
61813863 TTTATTTTTATTTTTAAA
1 TTTATTTTT-TTTATAAA
61813881 TTTATTTATTTTTATAAA
1 TTTATTT-TTTTTATAAA
*
61813899 TTTTAATATTTTTTTACAAA
1 -TTT-AT-TTTTTTTATAAA
61813919 TTTAT
1 TTTAT
61813924 ACAAAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 16 0.43
19 8 0.22
20 11 0.30
21 2 0.05
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATTTTTTTTATAAA
Found at i:61814355 original size:4 final size:4
Alignment explanation
Indices: 61814346--61814371 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
61814336 AAATTTACTT
61814346 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
61814372 CCAATGTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:61817059 original size:32 final size:35
Alignment explanation
Indices: 61817023--61817108 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 35
61817013 CCTATTTCCC
61817023 TAAATT-TGA-AAAAA-AAAATCAACCTAATATTT
1 TAAATTATGATAAAAAGAAAATCAACCTAATATTT
* *
61817055 TAAATTCATTATAAAAATGAAAATCAACCTAGTATTT
1 TAAATT-ATGATAAAAA-GAAAATCAACCTAATATTT
*
61817092 TAAATTAATTATAAAAA
1 TAAATT-ATGATAAAAA
61817109 TGACATATAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
32 6 0.13
34 2 0.04
35 5 0.11
37 33 0.72
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (35 bp):
TAAATTATGATAAAAAGAAAATCAACCTAATATTT
Found at i:61817083 original size:37 final size:37
Alignment explanation
Indices: 61817037--61817111 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
61817027 TTTGAAAAAA
*
61817037 AAAATCAACCTAATATTTTAAATTCATTATAAAAATG
1 AAAATCAACCTAATATTTTAAATTAATTATAAAAATG
*
61817074 AAAATCAACCTAGTATTTTAAATTAATTATAAAAATG
1 AAAATCAACCTAATATTTTAAATTAATTATAAAAATG
61817111 A
1 A
61817112 CATATATGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (37 bp):
AAAATCAACCTAATATTTTAAATTAATTATAAAAATG
Found at i:61819403 original size:18 final size:19
Alignment explanation
Indices: 61819370--61819408 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
61819360 ATGAACATAT
*
61819370 TCTAAATTTGTTTAAAGCG
1 TCTAAATTTATTTAAAGCG
61819389 TCTAAA-TTATTTAAAGCG
1 TCTAAATTTATTTAAAGCG
61819407 TC
1 TC
61819409 AGGCTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (19 bp):
TCTAAATTTATTTAAAGCG
Found at i:61828555 original size:22 final size:22
Alignment explanation
Indices: 61828525--61828569 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
61828515 TTAACGTATC
*
61828525 ATATCATATTGAAGCATAACAT
1 ATATCATATCGAAGCATAACAT
* *
61828547 ATATTATATCGAATCATAACAT
1 ATATCATATCGAAGCATAACAT
61828569 A
1 A
61828570 GCATATCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (22 bp):
ATATCATATCGAAGCATAACAT
Found at i:61829208 original size:12 final size:12
Alignment explanation
Indices: 61829188--61829229 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
61829178 CATGTGCTCT
*
61829188 ACATGGCCTGGC
1 ACATGGCCTGAC
*
61829200 ACATAGCCT-ACC
1 ACATGGCCTGA-C
61829212 ACATGGCCTGAC
1 ACATGGCCTGAC
61829224 ACATGG
1 ACATGG
61829230 TCGTGTCGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 24 0.96
13 1 0.04
ACGTcount: A:0.26, C:0.33, G:0.24, T:0.17
Consensus pattern (12 bp):
ACATGGCCTGAC
Found at i:61829784 original size:3 final size:3
Alignment explanation
Indices: 61829776--61830080 Score: 603
Period size: 3 Copynumber: 102.0 Consensus size: 3
61829766 AAAATAAAAG
61829776 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
61829824 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
61829872 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
61829920 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
61829968 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
61830016 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
61830064 AGA AGA AGA AGA A-A AGA
1 AGA AGA AGA AGA AGA AGA
61830081 CGCATAAGGG
Statistics
Matches: 301, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
2 2 0.01
3 299 0.99
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:61840100 original size:40 final size:40
Alignment explanation
Indices: 61840056--61840175 Score: 159
Period size: 40 Copynumber: 3.0 Consensus size: 40
61840046 ATGGAGGAAT
* * *
61840056 TACTAGCAGCTTGTCTGCAATACTGGTGGCTTGTCCACAA
1 TACTAGCAGTTTATCTGCATTACTGGTGGCTTGTCCACAA
* * * *
61840096 TACTAGTAGTTTATCTGTATTACTGGTGACTTGTCCATAA
1 TACTAGCAGTTTATCTGCATTACTGGTGGCTTGTCCACAA
* *
61840136 TACTGGCAGTTTATCTGCATTATTGGTGGCTTGTCCACAA
1 TACTAGCAGTTTATCTGCATTACTGGTGGCTTGTCCACAA
61840176 ACTGGTGTGC
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (40 bp):
TACTAGCAGTTTATCTGCATTACTGGTGGCTTGTCCACAA
Found at i:61842306 original size:21 final size:21
Alignment explanation
Indices: 61842282--61842323 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
61842272 CCTTTTAAAA
61842282 TTTCATCTTTCCAATTTCTTT
1 TTTCATCTTTCCAATTTCTTT
61842303 TTTCATCTTTCCAATTTCTTT
1 TTTCATCTTTCCAATTTCTTT
61842324 CTACTCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTCATCTTTCCAATTTCTTT
Found at i:61851448 original size:25 final size:25
Alignment explanation
Indices: 61851326--61851451 Score: 100
Period size: 25 Copynumber: 5.1 Consensus size: 25
61851316 CATTAGGGAT
*
61851326 TACCGATTC-TCAGCTCGT-ATGAGCT
1 TACCGATTCAT-AGCTCGTGA-GAGCA
* *
61851351 TACCGATTGCA-A-CTCCTGAGAGCT
1 TACCGATT-CATAGCTCGTGAGAGCA
* * *
61851375 TACCGAATCTTAGCTCTTGAGAGCA
1 TACCGATTCATAGCTCGTGAGAGCA
* * *
61851400 TACCGATTTACAGCTTGTGAGAGCA
1 TACCGATTCATAGCTCGTGAGAGCA
61851425 TACCGATTCATAGCTCGT-ATGAGCA
1 TACCGATTCATAGCTCGTGA-GAGCA
61851450 TA
1 TA
61851452 TATGTACAAG
Statistics
Matches: 81, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
23 1 0.01
24 18 0.22
25 61 0.75
26 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (25 bp):
TACCGATTCATAGCTCGTGAGAGCA
Found at i:61851449 original size:50 final size:48
Alignment explanation
Indices: 61851326--61851451 Score: 128
Period size: 50 Copynumber: 2.5 Consensus size: 48
61851316 CATTAGGGAT
* * *
61851326 TACCGATTCTCAGCTCGTATGAGCTTACCGATTGCAACTCCTGAGAGCT
1 TACCGATTCT-AGCTCGTATGAGCATACCGATTACAACTCCTGAGAGCA
* * * **
61851375 TACCGAATCTTAGCTCTTGA-GAGCATACCGATTTACAGCTTGTGAGAGCA
1 TACCGATTC-TAGCTCGT-ATGAGCATACCGA-TTACAACTCCTGAGAGCA
61851425 TACCGATTCATAGCTCGTATGAGCATA
1 TACCGATTC-TAGCTCGTATGAGCATA
61851452 TATGTACAAG
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
49 25 0.40
50 37 0.60
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (48 bp):
TACCGATTCTAGCTCGTATGAGCATACCGATTACAACTCCTGAGAGCA
Found at i:61854019 original size:49 final size:49
Alignment explanation
Indices: 61853963--61854101 Score: 215
Period size: 49 Copynumber: 2.8 Consensus size: 49
61853953 TTTACTTTCT
* *
61853963 CGATGCCATAGTCCAACTATGGTCTTACACATAATCACATAACATATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACATAACATATAC
* * *
61854012 CGATGCCATAGCCCAGCTATGGCCTTACACGTAATCACATAACATATAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACATAACATATAC
* *
61854061 CGATGCCATAGCCCAACTACGGTCTTACACGGAATCACATA
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACATA
61854102 TTACTTATTG
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 81 1.00
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACATAACATATAC
Found at i:61855320 original size:23 final size:23
Alignment explanation
Indices: 61855289--61855406 Score: 164
Period size: 23 Copynumber: 5.1 Consensus size: 23
61855279 GTGCCACTCC
* *
61855289 GATATGTAGTCGAAGCTACCACT
1 GATATGTAGCCGTAGCTACCACT
* *
61855312 GATACGTAGCTGTAGCTACCACT
1 GATATGTAGCCGTAGCTACCACT
* *
61855335 GATATGTAGCCGTAGCTACTATT
1 GATATGTAGCCGTAGCTACCACT
* *
61855358 GAAATGTAGCCGAAGCTACCACT
1 GATATGTAGCCGTAGCTACCACT
61855381 GATATGTAGCCGTAGCTACCACT
1 GATATGTAGCCGTAGCTACCACT
61855404 GAT
1 GAT
61855407 CAATAACACT
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 81 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
GATATGTAGCCGTAGCTACCACT
Found at i:61871459 original size:15 final size:15
Alignment explanation
Indices: 61871434--61871475 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
61871424 GGTAAGATGA
*
61871434 AATTTTAAATTTTGTT
1 AATTTT-AATTATGTT
61871450 -ATTTTCAATTATGTT
1 AATTTT-AATTATGTT
61871465 AATTTTAATTA
1 AATTTTAATTA
61871476 ATTTGTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (15 bp):
AATTTTAATTATGTT
Found at i:61871492 original size:23 final size:22
Alignment explanation
Indices: 61871464--61871506 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
61871454 TCAATTATGT
* *
61871464 TAATTTTAATTAATTTGTTTTGA
1 TAATTTGAAATAATTT-TTTTGA
61871487 TAATTTGAAATAATTTTTTT
1 TAATTTGAAATAATTTTTTT
61871507 ATGTTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (22 bp):
TAATTTGAAATAATTTTTTTGA
Found at i:61873376 original size:6 final size:6
Alignment explanation
Indices: 61873365--61873406 Score: 75
Period size: 6 Copynumber: 6.8 Consensus size: 6
61873355 GGTTTTCTCA
61873365 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
61873407 ATTCATTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:61874989 original size:65 final size:64
Alignment explanation
Indices: 61874911--61875037 Score: 202
Period size: 65 Copynumber: 2.0 Consensus size: 64
61874901 TCTTACAACC
*
61874911 AAGGTACAGGGACTAAAAGTG-AAAATAAGCCTAAGCTACAATAATAATTAACTTAACTAACACC
1 AAGGTACAGGGACTAAAAGTGCAAAA-AAGCCTAA-CTACAATAATAATTAACTAAACTAACACC
61874975 T
64 T
* *
61874976 AAGGTATAGGGACTAAAAGTGCAAAAAAGCCTAATTACAATAATAATTAACTAAACTAACAC
1 AAGGTACAGGGACTAAAAGTGCAAAAAAGCCTAACTACAATAATAATTAACTAAACTAACAC
61875038 TCGGAACAAC
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
64 26 0.45
65 28 0.48
66 4 0.07
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.21
Consensus pattern (64 bp):
AAGGTACAGGGACTAAAAGTGCAAAAAAGCCTAACTACAATAATAATTAACTAAACTAACACCT
Found at i:61879144 original size:30 final size:28
Alignment explanation
Indices: 61879110--61879179 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
61879100 CTGTGTTATG
*
61879110 AAGGCATTCCTTTAATAGAGGTTCGCCACA
1 AAGGCATTCCTTT--CAGAGGTTCGCCACA
* * * *
61879140 AAGGCTTTGCTTTCAGAGGTTTGCTACA
1 AAGGCATTCCTTTCAGAGGTTCGCCACA
61879168 AAGGCA-TCCTTT
1 AAGGCATTCCTTT
61879180 TCTTTCTGTA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
27 5 0.15
28 17 0.52
30 11 0.33
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (28 bp):
AAGGCATTCCTTTCAGAGGTTCGCCACA
Found at i:61885714 original size:27 final size:27
Alignment explanation
Indices: 61885675--61885975 Score: 278
Period size: 27 Copynumber: 11.1 Consensus size: 27
61885665 ATTCATGGGC
61885675 AAATG-ACTGAAATACCCTCGAAGGGTA
1 AAATGAAC-GAAATACCCTCGAAGGGTA
* * *
61885702 AAATGATCAAAATACCCTCGAATGGTA
1 AAATGAACGAAATACCCTCGAAGGGTA
*
61885729 AAAT-AACTGAAATACCCCCGAAGGGTA
1 AAATGAAC-GAAATACCCTCGAAGGGTA
* * *
61885756 AAATG-ACTAAAATACCCTCAAAGGGCA
1 AAATGAAC-GAAATACCCTCGAAGGGTA
* * *
61885783 AAAT-AACCGAAATACCTTCAAAGGTTA
1 AAATGAA-CGAAATACCCTCGAAGGGTA
* *
61885810 AAATGACCGAAATACCCTCAAAGGGTA
1 AAATGAACGAAATACCCTCGAAGGGTA
61885837 AAAT-AACTGAAATACCCTCGAAGGGTA
1 AAATGAAC-GAAATACCCTCGAAGGGTA
* *
61885864 AAAT-AATTGAAATACCCTTGAAGGGTA
1 AAATGAA-CGAAATACCCTCGAAGGGTA
*
61885891 AAAT-AACTGAAATACCCCCGAAGGGTA
1 AAATGAAC-GAAATACCCTCGAAGGGTA
* ** *
61885918 AACTGATTGAAATACCCTCGAAAGGTA
1 AAATGAACGAAATACCCTCGAAGGGTA
*
61885945 AAAT-AACTGAAATACCC-CCATAGGGTA
1 AAATGAAC-GAAATACCCTCGA-AGGGTA
61885972 AAAT
1 AAAT
61885976 TACCATTATA
Statistics
Matches: 227, Mismatches: 35, Indels: 24
0.79 0.12 0.08
Matches are distributed among these distances:
26 7 0.03
27 216 0.95
28 4 0.02
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGAACGAAATACCCTCGAAGGGTA
Found at i:61885744 original size:54 final size:54
Alignment explanation
Indices: 61885675--61885975 Score: 381
Period size: 54 Copynumber: 5.6 Consensus size: 54
61885665 ATTCATGGGC
* * *
61885675 AAATGACTGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCGAATGGTA
1 AAATAACTGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTA
* * * *
61885729 AAATAACTGAAATACCCCCGAAGGGTAAAATGA-CTAAAATACCCTCAAAGGGCA
1 AAATAACTGAAATACCCTCGAAGGGTAAAATGATC-GAAATACCCTCGAAGGGTA
* * * * * *
61885783 AAATAACCGAAATACCTTCAAAGGTTAAAATGACCGAAATACCCTCAAAGGGTA
1 AAATAACTGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTA
* * *
61885837 AAATAACTGAAATACCCTCGAAGGGTAAAATAATTGAAATACCCTTGAAGGGTA
1 AAATAACTGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTA
* * * *
61885891 AAATAACTGAAATACCCCCGAAGGGTAAACTGATTGAAATACCCTCGAAAGGTA
1 AAATAACTGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTA
*
61885945 AAATAACTGAAATACCC-CCATAGGGTAAAAT
1 AAATAACTGAAATACCCTCGA-AGGGTAAAAT
61885976 TACCATTATA
Statistics
Matches: 216, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
53 3 0.01
54 212 0.98
55 1 0.00
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (54 bp):
AAATAACTGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTA
Found at i:61885970 original size:81 final size:81
Alignment explanation
Indices: 61885675--61885975 Score: 356
Period size: 81 Copynumber: 3.7 Consensus size: 81
61885665 ATTCATGGGC
* * * * *
61885675 AAATGACTGAAATACCCTCGAAGGGTAAAATGA-TCAAAATACCCTCGAATGGTAAAATAACTGA
1 AAATGACTGAAATACCCTCGAAAGGTAAAATAACT-GAAATACCCTCCAAGGGTAAAATAACTGA
61885739 AATACCCCCGAAGGGTA
65 AATACCCCCGAAGGGTA
* * * * * * * *
61885756 AAATGACTAAAATACCCTC-AAAGGGCAAAATAACCGAAATACCTTCAAAGGTTAAAATGACCGA
1 AAATGACTGAAATACCCTCGAAA-GGTAAAATAACTGAAATACCCTCCAAGGGTAAAATAACTGA
* *
61885820 AATACCCTCAAAGGGTA
65 AATACCCCCGAAGGGTA
* * * **
61885837 AAATAACTGAAATACCCTCGAAGGGTAAAATAATTGAAATACCCTTGAAGGGTAAAATAACTGAA
1 AAATGACTGAAATACCCTCGAAAGGTAAAATAACTGAAATACCCTCCAAGGGTAAAATAACTGAA
61885902 ATACCCCCGAAGGGTA
66 ATACCCCCGAAGGGTA
* *
61885918 AACTGATTGAAATACCCTCGAAAGGTAAAATAACTGAAATACCC-CCATAGGGTAAAAT
1 AAATGACTGAAATACCCTCGAAAGGTAAAATAACTGAAATACCCTCCA-AGGGTAAAAT
61885976 TACCATTATA
Statistics
Matches: 181, Mismatches: 35, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
80 3 0.02
81 176 0.97
82 2 0.01
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (81 bp):
AAATGACTGAAATACCCTCGAAAGGTAAAATAACTGAAATACCCTCCAAGGGTAAAATAACTGAA
ATACCCCCGAAGGGTA
Found at i:61891911 original size:30 final size:29
Alignment explanation
Indices: 61891874--61891933 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
61891864 TGATGGTCCG
*
61891874 TCAGAGGGTGTAGGGAAAAAATAGCCAAA
1 TCAGAGGGAGTAGGGAAAAAATAGCCAAA
61891903 TNCAGAGGGAGTAGGGAAAAAATAGCCAAA
1 T-CAGAGGGAGTAGGGAAAAAATAGCCAAA
61891933 T
1 T
61891934 GAGTTTGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.45, C:0.10, G:0.30, T:0.13
Consensus pattern (29 bp):
TCAGAGGGAGTAGGGAAAAAATAGCCAAA
Found at i:61896652 original size:38 final size:38
Alignment explanation
Indices: 61896561--61896662 Score: 107
Period size: 38 Copynumber: 2.7 Consensus size: 38
61896551 TTTACATTGT
* ** *
61896561 GTCGCCCCGAAGGACCAATAGATAGCCATTTACAAGGT
1 GTCGCCCCGAAGGACTAATAGATAATCATTTACAAGGC
* ** * *
61896599 GTTGCCCAAAAGGACTAGTAGATAATCATTTACACGGC
1 GTCGCCCCGAAGGACTAATAGATAATCATTTACAAGGC
*
61896637 GTCGCCCCGAAGGACT-TTAGATAATC
1 GTCGCCCCGAAGGACTAATAGATAATC
61896663 GTTCCATGAT
Statistics
Matches: 51, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
37 9 0.18
38 42 0.82
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
GTCGCCCCGAAGGACTAATAGATAATCATTTACAAGGC
Found at i:61899308 original size:68 final size:68
Alignment explanation
Indices: 61899193--61899331 Score: 215
Period size: 68 Copynumber: 2.0 Consensus size: 68
61899183 AAAGTGCTCA
* **
61899193 TGATCAATCATCCATTCAACTAAGAAGATAATGAAAGTGATGGAATTTTCTATATTCATATAACC
1 TGATCAATCATCCATTCAACTAAGAAGATAATGAAAGAGATCAAATTTTCTATATTCATATAACC
61899258 GAC
66 GAC
* ** *
61899261 TGATTAATCATCCATTCGGCTAAGAAGATAATGAAAGAGATCAAATTTTTTATATTCATATAACC
1 TGATCAATCATCCATTCAACTAAGAAGATAATGAAAGAGATCAAATTTTCTATATTCATATAACC
61899326 GAC
66 GAC
61899329 TGA
1 TGA
61899332 GTGGCCCACA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.32
Consensus pattern (68 bp):
TGATCAATCATCCATTCAACTAAGAAGATAATGAAAGAGATCAAATTTTCTATATTCATATAACC
GAC
Found at i:61914283 original size:24 final size:24
Alignment explanation
Indices: 61914236--61914283 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
61914226 GAACAAAGGG
*
61914236 GAAAATGAGAAGGAAAAGTTGAGA
1 GAAAATGAGAAGGAAAAGTAGAGA
*
61914260 GAAAATGAGAGAGGAGAAG-AGAGA
1 GAAAATGAGA-AGGAAAAGTAGAGA
61914284 ATGAGAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.54, C:0.00, G:0.38, T:0.08
Consensus pattern (24 bp):
GAAAATGAGAAGGAAAAGTAGAGA
Found at i:61914881 original size:12 final size:10
Alignment explanation
Indices: 61914855--61914894 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
61914845 AAAATAGTCC
*
61914855 AAATTAATCA
1 AAATTAATTA
61914865 AAATTAACTATA
1 AAATTAA-T-TA
61914877 AAATTAATTA
1 AAATTAATTA
61914887 AAATTAAT
1 AAATTAAT
61914895 CATGTTCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 17 0.63
11 2 0.07
12 8 0.30
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (10 bp):
AAATTAATTA
Found at i:61923843 original size:20 final size:20
Alignment explanation
Indices: 61923815--61923853 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
61923805 TTGCTTCTTC
61923815 TTTAATTACTCT-CTTATTTG
1 TTTAATTACT-TGCTTATTTG
*
61923835 TTTACTTACTTGCTTATTT
1 TTTAATTACTTGCTTATTT
61923854 AAATAACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.18, C:0.15, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTAATTACTTGCTTATTTG
Found at i:61924126 original size:50 final size:50
Alignment explanation
Indices: 61924062--61924247 Score: 183
Period size: 50 Copynumber: 3.6 Consensus size: 50
61924052 ACATGTTAAA
* ** *
61924062 GCCATGTCCTAGACATGGTCTTACATGGGAGTTCTCAAATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAAATCGGTGCCAAT
*** ** *
61924112 GCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTGCCAAA
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAAATCGGTGCCAAT
* * **
61924162 GCCATGTCCAAGACATGGTCTTAAATGGGACCTCTCATAACCTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCA-AA--TC---GGTGCCAAT
*
61924218 GCCATGTCCCAAACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
61924248 TCTCATCCCT
Statistics
Matches: 108, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
50 73 0.68
53 2 0.02
56 33 0.31
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAAATCGGTGCCAAT
Found at i:61937465 original size:25 final size:23
Alignment explanation
Indices: 61937410--61937491 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 23
61937400 ATGATCTGTA
* *
61937410 ATCGGTAAGCTCCTCTGAGTTGAAT
1 ATCGGTAAGCTCATC-GAGCTG-AT
*
61937435 AACGGTAAGCTCATGCGAGCTGAGT
1 ATCGGTAAGCTCAT-CGAGCTGA-T
*
61937460 ATCGGTAAGCTCATACGAGCTGAA
1 ATCGGTAAGCTCAT-CGAGCTGAT
61937484 ATCGGTAA
1 ATCGGTAA
61937492 CCCTAATGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
24 9 0.18
25 39 0.80
26 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (23 bp):
ATCGGTAAGCTCATCGAGCTGAT
Found at i:61943622 original size:25 final size:24
Alignment explanation
Indices: 61943563--61943622 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
61943553 TTTCTAGAAG
* *
61943563 ATTTAATATTTATTAGTATAATAT
1 ATTTATTATTTATTAGTATAAAAT
*
61943587 ATTTATCATTTATTAGTATAAAAAT
1 ATTTATTATTTATTAGTAT-AAAAT
*
61943612 ATTTGTTATTT
1 ATTTATTATTT
61943623 TTTTCATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 17 0.57
25 13 0.43
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (24 bp):
ATTTATTATTTATTAGTATAAAAT
Found at i:61945874 original size:17 final size:17
Alignment explanation
Indices: 61945852--61945901 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
61945842 ACAACTTGGT
*
61945852 TGAGCTCGCATCTTTGC
1 TGAGCTCACATCTTTGC
*
61945869 TGAGCTCACATCTTTGG
1 TGAGCTCACATCTTTGC
*
61945886 TGAGCTCACAACTTTG
1 TGAGCTCACATCTTTG
61945902 GCTCAGCTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (17 bp):
TGAGCTCACATCTTTGC
Found at i:61945886 original size:35 final size:35
Alignment explanation
Indices: 61945847--61945934 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
61945837 CGATCACAAC
* * * *
61945847 TTGGTTGAGCTCGCATCTTT-GCTGAGCTCACATCT
1 TTGG-TGAGCTCACAACTTTGGCTCAGCTCACATAT
**
61945882 TTGGTGAGCTCACAACTTTGGCTCAGCTTGCATAT
1 TTGGTGAGCTCACAACTTTGGCTCAGCTCACATAT
61945917 TTGGATGAGCTCACAACT
1 TTGG-TGAGCTCACAACT
61945935 ATGCAATCTA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
34 13 0.29
35 19 0.42
36 13 0.29
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (35 bp):
TTGGTGAGCTCACAACTTTGGCTCAGCTCACATAT
Found at i:61945902 original size:17 final size:18
Alignment explanation
Indices: 61945840--61945934 Score: 72
Period size: 17 Copynumber: 5.4 Consensus size: 18
61945830 CATGCATCGA
*
61945840 TCACAAC-TTGGTTGAGC
1 TCACAACTTTGGATGAGC
* * *
61945857 TCGCATCTTT-GCTGAGC
1 TCACAACTTTGGATGAGC
*
61945874 TCACATCTTTGG-TGAGC
1 TCACAACTTTGGATGAGC
* *
61945891 TCACAACTTTGGCTCAGC
1 TCACAACTTTGGATGAGC
**
61945909 TTGCATA-TTTGGATGAGC
1 TCACA-ACTTTGGATGAGC
61945927 TCACAACT
1 TCACAACT
61945935 ATGCAATCTA
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
17 37 0.61
18 23 0.38
19 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (18 bp):
TCACAACTTTGGATGAGC
Done.