Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 135 of 427
Found at i:36324339 original size:40 final size:40
Alignment explanation
Indices: 36324212--36324341 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
36324202 ATGCTGGAAA
* * *
36324212 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
36324252 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * *
36324292 TTCTATCCAGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
36324332 TTATATCCGG
1 TTATATCCGG
36324342 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:36327597 original size:13 final size:13
Alignment explanation
Indices: 36327579--36327609 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
36327569 CTATTTGTCC
36327579 TTATTTATTTTAT
1 TTATTTATTTTAT
*
36327592 TTATTTATTTTGT
1 TTATTTATTTTAT
36327605 TTATT
1 TTATT
36327610 ATTCATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (13 bp):
TTATTTATTTTAT
Found at i:36327725 original size:16 final size:17
Alignment explanation
Indices: 36327698--36327732 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
36327688 ATTTTAAATT
*
36327698 ATTTTTTAAAATTTTAA
1 ATTTTTTAAAATATTAA
36327715 ATTTTTT-AAATATTAA
1 ATTTTTTAAAATATTAA
36327731 AT
1 AT
36327733 ATATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTTTAAAATATTAA
Found at i:36327836 original size:16 final size:16
Alignment explanation
Indices: 36327797--36327845 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
36327787 TTATTATTAG
36327797 TTTTATAATATTTTAAA
1 TTTTA-AATATTTTAAA
*
36327814 -TGT--ATATTTTAAA
1 TTTTAAATATTTTAAA
*
36327827 TTTTAAATATTTTTAA
1 TTTTAAATATTTTAAA
36327843 TTT
1 TTT
36327846 ATTTTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
16 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTTAAATATTTTAAA
Found at i:36327836 original size:29 final size:29
Alignment explanation
Indices: 36327783--36327858 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
36327773 ATGACCTTTC
* *
36327783 AAATTTATTAT-TAGTTTTATAATATTTT
1 AAATTTATTTTATAATTTTATAATATTTT
36327811 AAATGTATATTTTA-AATTTTA-AATATTTT
1 AAAT-T-TATTTTATAATTTTATAATATTTT
*
36327840 TAATTTATTTTATAATTTT
1 AAATTTATTTTATAATTTT
36327859 TTAAATTATG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
27 7 0.17
28 11 0.27
29 12 0.29
30 11 0.27
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (29 bp):
AAATTTATTTTATAATTTTATAATATTTT
Found at i:36327849 original size:20 final size:22
Alignment explanation
Indices: 36327826--36327887 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 22
36327816 TATATTTTAA
36327826 ATTTTAAATATTTTTAATT-T-
1 ATTTTAAATATTTTTAATTATG
36327846 ATTTTATAAT-TTTTTAAATTATG
1 ATTTTA-AATATTTTT-AATTATG
36327869 ATTTTTAAATTATTTTTAA
1 A-TTTTAAA-TATTTTTAA
36327888 AGATATTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
20 11 0.31
21 7 0.20
22 1 0.03
23 3 0.09
24 8 0.23
25 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTAAATATTTTTAATTATG
Found at i:36327859 original size:29 final size:30
Alignment explanation
Indices: 36327797--36327864 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
36327787 TTATTATTAG
36327797 TTTTATAATATTTTAAATGTATATTTTAAA-
1 TTTTA-AATATTTTAAATGTATATTTTAAAT
*
36327827 TTTTAAATATTTTTAAT-T-TATTTTATAATT
1 TTTTAAATATTTTAAATGTATATTTTA-AA-T
36327857 TTTTAAAT
1 TTTTAAAT
36327865 TATGATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 7 0.21
28 3 0.09
29 11 0.32
30 13 0.38
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (30 bp):
TTTTAAATATTTTAAATGTATATTTTAAAT
Found at i:36327888 original size:11 final size:11
Alignment explanation
Indices: 36327827--36327888 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 11
36327817 ATATTTTAAA
36327827 TTTTAAA-TAT
1 TTTTAAATTAT
*
36327837 TTTTAATTTA-
1 TTTTAAATTAT
36327847 TTTTATAA-T-T
1 TTTTA-AATTAT
36327857 TTTTAAATTATGAT
1 TTTTAAA-T-T-AT
36327871 TTTTAAATTAT
1 TTTTAAATTAT
36327882 TTTTAAA
1 TTTTAAA
36327889 GATATTCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
9 2 0.05
10 17 0.40
11 12 0.29
12 2 0.05
13 1 0.02
14 8 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TTTTAAATTAT
Found at i:36328040 original size:15 final size:17
Alignment explanation
Indices: 36328004--36328040 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
36327994 TTATTTGTTA
36328004 AAAAATATGACTATATT
1 AAAAATATGACTATATT
*
36328021 TAAAATAT-AC-ATATT
1 AAAAATATGACTATATT
36328036 AAAAA
1 AAAAA
36328041 ATAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.50
16 2 0.11
17 7 0.39
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (17 bp):
AAAAATATGACTATATT
Found at i:36329271 original size:44 final size:44
Alignment explanation
Indices: 36329220--36329303 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
36329210 TATGAGGCAA
* * *
36329220 CTGAACTCATTGAATTGTTTCGAGTTCATTATGGACGCGAGCAT
1 CTGAACTCATTGAATTGGTCCGAGTTCATAATGGACGCGAGCAT
* *
36329264 CTGAACTCGTTGAATTGGTCCGAGTTCATAATGGATGCGA
1 CTGAACTCATTGAATTGGTCCGAGTTCATAATGGACGCGA
36329304 TATATGTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
CTGAACTCATTGAATTGGTCCGAGTTCATAATGGACGCGAGCAT
Found at i:36340485 original size:56 final size:59
Alignment explanation
Indices: 36340362--36340486 Score: 141
Period size: 58 Copynumber: 2.2 Consensus size: 59
36340352 ACTTAATCAC
* *
36340362 TTTAATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAACATTA
1 TTTAATATTAAATTAATAAAATACTTATCAAGATAAATATAAGATTAAATTTAACATTA
** * * * * *
36340421 AAT-CTATTAAATTAATAAAATATTTATCTATA-AAATA-AATATTAAATTTAA-ATTA
1 TTTAATATTAAATTAATAAAATACTTATCAAGATAAATATAAGATTAAATTTAACATTA
36340476 TTTAATATTAA
1 TTTAATATTAA
36340487 GATAATCACA
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
55 5 0.09
56 18 0.34
57 5 0.09
58 24 0.45
59 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (59 bp):
TTTAATATTAAATTAATAAAATACTTATCAAGATAAATATAAGATTAAATTTAACATTA
Found at i:36341015 original size:19 final size:19
Alignment explanation
Indices: 36340977--36341016 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36340967 AAAATATCAT
*
36340977 ATTAATTTTAATTAATTTG
1 ATTAATTTTAATTAACTTG
* *
36340996 ATTAATTTTATTTTACTTG
1 ATTAATTTTAATTAACTTG
36341015 AT
1 AT
36341017 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTAACTTG
Found at i:36343505 original size:15 final size:15
Alignment explanation
Indices: 36343483--36343520 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
36343473 TTTCAAATGA
36343483 TTTT-ATTTCTCCAT
1 TTTTCATTTCTCCAT
*
36343497 TTTTCATTT-TTCAT
1 TTTTCATTTCTCCAT
36343511 TTTTCATTTC
1 TTTTCATTTC
36343521 GGAGAAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTCATTTCTCCAT
Found at i:36343513 original size:6 final size:7
Alignment explanation
Indices: 36343494--36343519 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36343484 TTTATTTCTC
36343494 CATTTTT
1 CATTTTT
36343501 CATTTTT
1 CATTTTT
36343508 CATTTTT
1 CATTTTT
36343515 CATTT
1 CATTT
36343520 CGGAGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:36343584 original size:10 final size:10
Alignment explanation
Indices: 36343569--36343593 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
36343559 TTGATTTCAC
36343569 CATTTCTATT
1 CATTTCTATT
36343579 CATTTCTATT
1 CATTTCTATT
36343589 CATTT
1 CATTT
36343594 GATTCAACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (10 bp):
CATTTCTATT
Found at i:36344896 original size:26 final size:28
Alignment explanation
Indices: 36344853--36344908 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 28
36344843 AAGATTGTTA
*
36344853 AAACTCTTCTAAAAGAAAACTTAAAGAG
1 AAACTCTTCTAAAAGAAAACTCAAAGAG
36344881 AAACT-TT-TAAAAGAAAACTCAAAGAG
1 AAACTCTTCTAAAAGAAAACTCAAAGAG
36344907 AA
1 AA
36344909 TTTTATTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 20 0.74
27 2 0.07
28 5 0.19
ACGTcount: A:0.57, C:0.12, G:0.11, T:0.20
Consensus pattern (28 bp):
AAACTCTTCTAAAAGAAAACTCAAAGAG
Found at i:36345152 original size:17 final size:15
Alignment explanation
Indices: 36345116--36345156 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 15
36345106 CAAAATTTGG
36345116 AATAAATAAAAAATT
1 AATAAATAAAAAATT
36345131 -A-AAATAATAAAACTT
1 AATAAATAA-AAAA-TT
36345146 AATAAATAAAA
1 AATAAATAAAA
36345157 TATTGGGCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
13 6 0.27
14 5 0.23
15 2 0.09
16 3 0.14
17 6 0.27
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAAATAAAAAATT
Found at i:36347006 original size:48 final size:46
Alignment explanation
Indices: 36346908--36347175 Score: 242
Period size: 47 Copynumber: 5.7 Consensus size: 46
36346898 TACTTGTGTA
* * * * *
36346908 CCAGTGTAAGACATGTCTGGGAAATGCAT-TA-GCCACATTATGAGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGACG-TAGA-GATGAGTG
*
36346954 CCAGTGTAAGACCATGTTTGGGACATGGCATCGACGTAGAGATGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACGTAGAGATGAGTG
* *
36347002 CCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGATGATGA-TAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGACGTAGA-GATGAGT-G
* *
36347049 CCAGTGTAAGACATGTCTGGGACATGCATTGAC-TA-AGA-GTTGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGACGTAGAGATG-AGTG
* * * * *
36347093 CTAGTGTAAGACATGTTTGGGACATGCATCAGCACGTATATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATC-G-ACGTAGAGATGAGTG
* *
36347141 CTAGTGTAAGACCATGTCTAGGACATGGCATCGAC
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC
36347176 AACTTATCCC
Statistics
Matches: 187, Mismatches: 20, Indels: 28
0.80 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 30 0.16
45 3 0.02
46 26 0.14
47 65 0.35
48 39 0.21
49 17 0.09
50 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGACGTAGAGATGAGTG
Found at i:36347070 original size:94 final size:92
Alignment explanation
Indices: 36346908--36347175 Score: 312
Period size: 94 Copynumber: 2.9 Consensus size: 92
36346898 TACTTGTGTA
* *
36346908 CCAGTGTAAGACATGTCTGGGAAATGCATTAGCCAC-ATTATGAGT-GCCAGTGTAAGACCATGT
1 CCAGTGTAAGACATGTCTGGGACATGCATCA-CCACGATTATGA-TAGCCAGTGTAAGACCATGT
*
36346971 TTGGGACATGGCATCGACGT-AGAGATGAGTG
64 CTGGGACATGGCATCGAC-TAAGAG-T-AGTG
* *
36347002 CCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGATGATGATAGCCAGTGTAAGA-CATGTC
1 CCAGTGTAAGACATGTCTGGGACATGCATC-ACCACGATTATGATAGCCAGTGTAAGACCATGTC
* *
36347066 TGGGACAT-GCATTGACTAAGAGTTGTG
65 TGGGACATGGCATCGACTAAGAGTAGTG
* * * * *
36347093 CTAGTGTAAGACATGTTTGGGACATGCATCAGCACGTATATATGAGAGCTAGTGTAAGACCATGT
1 CCAGTGTAAGACATGTCTGGGACATGCATCACCACG-AT-TATGATAGCCAGTGTAAGACCATGT
*
36347158 CTAGGACATGGCATCGAC
64 CTGGGACATGGCATCGAC
36347176 AACTTATCCC
Statistics
Matches: 150, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
90 4 0.03
91 33 0.22
92 18 0.12
93 24 0.16
94 52 0.35
95 19 0.13
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (92 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCACCACGATTATGATAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGACTAAGAGTAGTG
Found at i:36347172 original size:141 final size:139
Alignment explanation
Indices: 36346908--36347175 Score: 348
Period size: 141 Copynumber: 1.9 Consensus size: 139
36346898 TACTTGTGTA
*
36346908 CCAGTGTAAGACATGTCTGGGAAATGCATTAGCCACATTATGAGTGCCAGTGTAAGACCATGTTT
1 CCAGTGTAAGACATGTCTGGGAAATGCATTAG-CACA-TAAGAGTGCCAGTGTAAGACCATGTTT
* *
36346973 GGGACATGGCATCGACGTAGAGATGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTC
64 GGGACATGGCATCGACGTAGAGATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACCTC
36347038 GATGATGATAG
129 GATGATGATAG
* *
36347049 CCAGTGTAAGACATGTCTGGGACATGCATT-G-AC-TAAGAGTTGTGCTAGTGTAAGA-CATGTT
1 CCAGTGTAAGACATGTCTGGGAAATGCATTAGCACATAAGA---GTGCCAGTGTAAGACCATGTT
* * *
36347110 TGGGACAT-GCATCAGCACGTATATATGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCG
63 TGGGACATGGCATC-G-ACGTAGAGATGAGAGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCG
36347174 AC
124 AC
36347176 AACTTATCCC
Statistics
Matches: 112, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
136 4 0.04
137 5 0.04
138 17 0.15
139 35 0.31
140 14 0.12
141 37 0.33
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (139 bp):
CCAGTGTAAGACATGTCTGGGAAATGCATTAGCACATAAGAGTGCCAGTGTAAGACCATGTTTGG
GACATGGCATCGACGTAGAGATGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACCTCGA
TGATGATAG
Found at i:36348803 original size:35 final size:35
Alignment explanation
Indices: 36348757--36348830 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
36348747 GTTGTATACT
36348757 CTTTATGATGGCTTAGTTGTGATCTTTTAAGAAGG
1 CTTTATGATGGCTTAGTTGTGATCTTTTAAGAAGG
*
36348792 CTTTATGATGGCTTAGTTGTGATCTTTTAGGAAGG
1 CTTTATGATGGCTTAGTTGTGATCTTTTAAGAAGG
36348827 CTTT
1 CTTT
36348831 GATTATATTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.20, C:0.09, G:0.26, T:0.45
Consensus pattern (35 bp):
CTTTATGATGGCTTAGTTGTGATCTTTTAAGAAGG
Found at i:36349681 original size:22 final size:23
Alignment explanation
Indices: 36349656--36349698 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
36349646 TGGAATAATT
36349656 ACTTGCTT-AGCTAAATTAGTTA
1 ACTTGCTTCAGCTAAATTAGTTA
* *
36349678 ACTTGGTTCAGCTCAATTAGT
1 ACTTGCTTCAGCTAAATTAGT
36349699 CCATGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (23 bp):
ACTTGCTTCAGCTAAATTAGTTA
Found at i:36350059 original size:54 final size:53
Alignment explanation
Indices: 36350001--36350104 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 53
36349991 GCTTGTAGGT
* **
36350001 GACTATTTAGTTGGAATCAATTATGTACAA-GGGCTGTTACAAAGTAATAAATGC
1 GACTATTCAGTTGGAATCAATTACATACAAGGGGCTGTTAC-AA-TAATAAATGC
**
36350055 GACTATTCAGTTGGAATCGGTTACATACAAGGGGCTGTTACAATAATAAA
1 GACTATTCAGTTGGAATCAATTACATACAAGGGGCTGTTACAATAATAAA
36350105 AGGAGAGCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
53 7 0.16
54 27 0.61
55 10 0.23
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (53 bp):
GACTATTCAGTTGGAATCAATTACATACAAGGGGCTGTTACAATAATAAATGC
Found at i:36351834 original size:31 final size:31
Alignment explanation
Indices: 36351799--36351866 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
36351789 TTTTGTTTTG
*
36351799 GTCACTGAACTATTCGAAAGTTTTCATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTTAA
* * * *
36351830 GTCACAGAGCTATTCAAAATTTTTTATTTAA
1 GTCACTGAACTATTCAAAAGTTTTCATTTAA
36351861 GTCACT
1 GTCACT
36351867 AGGTTGTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (31 bp):
GTCACTGAACTATTCAAAAGTTTTCATTTAA
Found at i:36355917 original size:8 final size:8
Alignment explanation
Indices: 36355904--36355934 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
36355894 AACTCAAAGG
36355904 AAAAAATAA
1 AAAAAAT-A
36355913 AAAAAATA
1 AAAAAATA
36355921 AAAAAATA
1 AAAAAATA
36355929 AAAAAA
1 AAAAAA
36355935 AACTGTTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:36355918 original size:9 final size:9
Alignment explanation
Indices: 36355904--36355935 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
36355894 AACTCAAAGG
36355904 AAAAAATAA
1 AAAAAATAA
36355913 AAAAAAT-A
1 AAAAAATAA
36355921 AAAAAATAA
1 AAAAAATAA
36355930 AAAAAA
1 AAAAAA
36355936 ACTGTTGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAATAA
Found at i:36356123 original size:20 final size:20
Alignment explanation
Indices: 36356089--36356129 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
36356079 CTAATTCTTT
*
36356089 AAACTAAATATTAAAA-AAA
1 AAACTAAATAATAAAATAAA
36356108 AAACTGAAATAATAAAATAAA
1 AAACT-AAATAATAAAATAAA
36356129 A
1 A
36356130 TAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 10 0.53
21 4 0.21
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (20 bp):
AAACTAAATAATAAAATAAA
Found at i:36359131 original size:282 final size:282
Alignment explanation
Indices: 36358627--36360008 Score: 1808
Period size: 282 Copynumber: 4.9 Consensus size: 282
36358617 CATTGTTTAC
* * * * ** * * * *
36358627 ACCTGAAGAATGCGGCAGCTTAGCTGGATCAGATTCCCGG-CCTTGTTGGACAGCATTATGTA-A
1 ACCTGAAGAATGTGGCAGCTCAGCTGGATTAGATT-TCGGAAGTTGTCGAACAGCTTTATCTATA
* * * *** *
36358690 TTCCTTCAGAGATCTTGCCTCCACAACAGGTAATTTTGATTTGTTACCTGTGTCATCCTGTG--G
65 -TCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGAT-CTG-GCAG
* * * * * *
36358753 TTCCACAATCATACTTGGAACAATTACTTCCTCAACATCAGCTCCTTCATGCAGTTGCTTAAAAG
127 TTTCTCAATCATACTCGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAG
*
36358818 CCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTAATCTCAGTCTTC
192 CCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTAGTCTCAGTCTTC
*
36358883 ATATCTTTTGATGGTTCATTCCTTGA
257 ATATCTTTTGATGATTCATTCCTTGA
* * * *
36358909 ACCTGAAGAATGTGGCAGCTCAGCTGGATTAGATTTCGGAAGTTGTTGAATAGCTTTGTCTATGT
1 ACCTGAAGAATGTGGCAGCTCAGCTGGATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATAT
*
36358974 CCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGGTCTGGCAGTTTC
66 CCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTC
*
36359039 TCAATCATACTCGGAACAATTACTTCCTCAATGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAA
131 TCAATCATACTCGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAA
* * * ** **
36359104 ATCAATATCTTCGGCTGGTCTTGCTTCAAAAACTGGCAGCACCACATTAGTCTTGGTCTTCGCAT
196 ATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTAGTCTCAGTCTTCATAT
*
36359169 CTTTTGATGATTCAATCCTTGA
261 CTTTTGATGATTCATTCCTTGA
* ** * * * *
36359191 GCCTGAAGAA--T---A--T--GCTGGATTAGATTTCACAAGTTGTTGAATAGCTTTGTCTAAAT
1 ACCTGAAGAATGTGGCAGCTCAGCTGGATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATAT
* *
36359247 CCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTATCTCCAAGATCTGGCAGTTTC
66 CCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTC
* * **
36359312 TCAATCATACTCGGAACAATTACTTCCTCGACATTGACTCCTTCATGAAGTTGCTTAAAAGCCAA
131 TCAATCATACTCGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAA
* * * * * *
36359377 ATCAATATCTTCTGCTGACCTTGTTTCAAGAACTGGAAGCACCACATTAGTCTCAGTATCCTTAT
196 ATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTAGTCTCAGTCTTCATAT
* *
36359442 CTGTTAATGATTCATTCCTT-A
261 CTTTTGATGATTCATTCCTTGA
* *
36359463 AGCCTGAAGAATGTGGCGGCTCAGCTGGATTAGA-TTCTGGAAGTTGTCGAACAGCTTTATGTAT
1 A-CCTGAAGAATGTGGCAGCTCAGCTGGATTAGATTTC-GGAAGTTGTCGAACAGCTTTATCTAT
*
36359527 ATCCTCCAGAGATCTTGCCTCGACAATAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTT
64 ATCCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTT
* *
36359592 TCTCGATCATACTTGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCC
129 TCTCAATCATACTCGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCC
* * * *
36359657 AAATCAATATCTTCAGCTGATCTTGGTTCAAGAA-TAGGCAGCACCACATTAGTCTCAGTTTTCG
194 AAATCAATATCTTCTGCTGATCTTGCTTCAAGAACT-GGCAGCACCACATTAGTCTCAGTCTTCA
36359721 TATCTTTTGATGATTCATTCCTTGA
258 TATCTTTTGATGATTCATTCCTTGA
* * * *
36359746 GCCTGAAGAATGTGGCGGCTCAGCTGGATTAGATTCCGGAAGTTGTCGAACAGCTTTATGTATAT
1 ACCTGAAGAATGTGGCAGCTCAGCTGGATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATAT
* * *
36359811 CCTCCAGAGACCTTGCCTCGAAAACAGGTAATTTTGATTTGTTACCTCCATGATCTGGCAGTTTC
66 CCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTC
** * * *
36359876 TTGATCATACTCGGAACAGTTACTTCCTCAACGTCGACTCCTTCATGAAGTTGCTTAAAAGTCAA
131 TCAATCATACTCGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAA
* ** *
36359941 ATAAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACTGCATTAGTCTTC-GCCTTCATA
196 ATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTAGTC-TCAGTCTTCATA
36360005 TCTT
260 TCTT
36360009 CCTGTAACAA
Statistics
Matches: 969, Mismatches: 111, Indels: 40
0.87 0.10 0.04
Matches are distributed among these distances:
272 1 0.00
273 240 0.25
275 2 0.00
277 1 0.00
280 3 0.00
281 10 0.01
282 706 0.73
283 6 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (282 bp):
ACCTGAAGAATGTGGCAGCTCAGCTGGATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATAT
CCTCCAGAGATCTTGCCTCGACAACAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTC
TCAATCATACTCGGAACAATTACTTCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAA
ATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTAGTCTCAGTCTTCATAT
CTTTTGATGATTCATTCCTTGA
Found at i:36359699 original size:555 final size:558
Alignment explanation
Indices: 36358676--36359993 Score: 1855
Period size: 555 Copynumber: 2.4 Consensus size: 558
36358666 GCCTTGTTGG
* * * * * **
36358676 ACAGCATTATGTAATTCCTTCAGAGATCTTGCCTCCACAACAGGTAATTTTGATTTGTTACCTGT
1 ACAGCTTTATCTAAATCCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTACCTCC
* * * * * *
36358741 GTCATCCTGTG--GTTCCACAATCATACTTGGAACAATTACTTCCTCAACA-TCAGCTCCTTCAT
66 ATGAT-CTG-GCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATTGA-CTCCTTCAT
*
36358803 GCAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACA
128 GAAGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACA
* * * * * *
36358868 TTAATCTCAGTCTTCATATCTTTTGATGGTTCATTCCTTGAACCTGAAGAATGTGGCAGCTCAGC
193 TTAGTCTCAGTATCCATATCTGTTAATGATTCATTCCTTGAACCTGAAGAATGTGGCAGCTCAGC
* * * *
36358933 TGGATTAGATTTCGGAAGTTGTTGAATAGCTTTGTCTATGTCCTCCAGAGATCTTGCCTCGACAA
258 TGGATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATATCCTCCAGAGATCTTGCCTCGACAA
*
36358998 CAGGTAATTTTGATTTGTTATCTCCATGGTCTGGCAGTTTCTCAATCATACTCGGAACAATTACT
323 CAGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACT
* * *
36359063 TCCTCAATGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCGGCTGGTCTTGC
388 TCCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCAGCTGATCTTGC
**
36359128 TTCAAAAACTGGCAGCACCACATTAGTCTTGGTCTTCGCATCTTTTGATGATTCAATCCTTGAGC
453 TTCAAAAACTGGCAGCACCACATTAGTCTCAGTCTTCGCATCTTTTGATGATTCAATCCTTGAGC
* *
36359193 CTGAAGAA-T-AT-GCTGGATTAGATTTCACAAGTTGTTGA
518 CTGAAGAAGTGATAGCTGGATTAGATTCCACAAGTTGTCGA
* * *
36359231 ATAGCTTTGTCTAAATCCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTATCTCC
1 ACAGCTTTATCTAAATCCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTACCTCC
* *
36359296 AAGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCGACATTGACTCCTTCATGAA
66 ATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATTGACTCCTTCATGAA
* * *
36359361 GTTGCTTAAAAGCCAAATCAATATCTTCTGCTGACCTTGTTTCAAGAACTGGAAGCACCACATTA
131 GTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTA
* *
36359426 GTCTCAGTATCCTTATCTGTTAATGATTCATTCCTT-AAGCCTGAAGAATGTGGCGGCTCAGCTG
196 GTCTCAGTATCCATATCTGTTAATGATTCATTCCTTGAA-CCTGAAGAATGTGGCAGCTCAGCTG
* *
36359490 GATTAGA-TTCTGGAAGTTGTCGAACAGCTTTATGTATATCCTCCAGAGATCTTGCCTCGACAAT
260 GATTAGATTTC-GGAAGTTGTCGAACAGCTTTATCTATATCCTCCAGAGATCTTGCCTCGACAAC
* *
36359554 AGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTCTCGATCATACTTGGAACAATTACTT
324 AGGTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTT
*
36359619 CCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCAGCTGATCTTGGT
389 CCTCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCAGCTGATCTTGCT
* * * *
36359684 TCAAGAA-TAGGCAGCACCACATTAGTCTCAGTTTTCGTATCTTTTGATGATTCATTCCTTGAGC
454 TCAAAAACT-GGCAGCACCACATTAGTCTCAGTCTTCGCATCTTTTGATGATTCAATCCTTGAGC
* **
36359748 CTGAAGAATGTGGCGGCTCAGCTGGATTAGATTCCGGAAGTTGTCGA
518 CTGAAGAA-GT----GAT-AGCTGGATTAGATTCCACAAGTTGTCGA
* * *
36359795 ACAGCTTTATGTATATCCTCCAGAGACCTTGCCTCGAA-AACAGGTAATTTTGATTTGTTACCTC
1 ACAGCTTTATCTAAATCCTCCAGAGATCTTGCCTC-AACAACAGGTAATTTTGATTTGTTACCTC
** * * *
36359859 CATGATCTGGCAGTTTCTTGATCATACTCGGAACAGTTACTTCCTCAACGTCGACTCCTTCATGA
65 CATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATTGACTCCTTCATGA
* * **
36359924 AGTTGCTTAAAAGTCAAATAAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACTGCATT
130 AGTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATT
36359989 AGTCT
195 AGTCT
36359994 TCGCCTTCAT
Statistics
Matches: 673, Mismatches: 74, Indels: 23
0.87 0.10 0.03
Matches are distributed among these distances:
553 1 0.00
554 9 0.01
555 458 0.68
556 2 0.00
557 1 0.00
562 1 0.00
564 199 0.30
565 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (558 bp):
ACAGCTTTATCTAAATCCTCCAGAGATCTTGCCTCAACAACAGGTAATTTTGATTTGTTACCTCC
ATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCCTCAACATTGACTCCTTCATGAA
GTTGCTTAAAAGCCAAATCAATATCTTCTGCTGATCTTGCTTCAAGAACTGGCAGCACCACATTA
GTCTCAGTATCCATATCTGTTAATGATTCATTCCTTGAACCTGAAGAATGTGGCAGCTCAGCTGG
ATTAGATTTCGGAAGTTGTCGAACAGCTTTATCTATATCCTCCAGAGATCTTGCCTCGACAACAG
GTAATTTTGATTTGTTATCTCCATGATCTGGCAGTTTCTCAATCATACTCGGAACAATTACTTCC
TCAACGTCAACTCCTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCAGCTGATCTTGCTTC
AAAAACTGGCAGCACCACATTAGTCTCAGTCTTCGCATCTTTTGATGATTCAATCCTTGAGCCTG
AAGAAGTGATAGCTGGATTAGATTCCACAAGTTGTCGA
Found at i:36364871 original size:39 final size:39
Alignment explanation
Indices: 36364793--36364884 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 39
36364783 AAAAATTATA
* *
36364793 TTTAATACAATAAAATATTTATTATATTTATTTGTA-TTT
1 TTTAATATAATAAAACATTTATTATATTTA-TTGTATTTT
*
36364832 TTTAATATAATAGAACATTTATTATATTTA-TGATAATTTT
1 TTTAATATAATAAAACATTTATTATATTTATTG-T-ATTTT
36364872 TTTAATATTAATA
1 TTTAATA-TAATA
36364885 CTTTTTAATG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
37 2 0.04
38 1 0.02
39 28 0.61
40 10 0.22
41 5 0.11
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.54
Consensus pattern (39 bp):
TTTAATATAATAAAACATTTATTATATTTATTGTATTTT
Found at i:36378298 original size:45 final size:44
Alignment explanation
Indices: 36378233--36378317 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 44
36378223 CATCAAATAC
* *
36378233 TATTAAAATAACTTACACTAATTAGAGTTTTAAGTGGGAAACTAA
1 TATTAAAATAACTTACACTAATCAGAG-TTTAAGTGAGAAACTAA
*
36378278 TATTAAAATAACCTT-TACTAATCAGAGTTTAAGTGAGAAA
1 TATTAAAATAA-CTTACACTAATCAGAGTTTAAGTGAGAAA
36378318 TTAGAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 12 0.33
45 21 0.58
46 3 0.08
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (44 bp):
TATTAAAATAACTTACACTAATCAGAGTTTAAGTGAGAAACTAA
Found at i:36390384 original size:32 final size:32
Alignment explanation
Indices: 36390339--36390403 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
36390329 AGTTATTAAT
*
36390339 ATTTTAAAATATATAGAATAAAAAAT-TATAA
1 ATTTTAAAATATATACAATAAAAAATATATAA
*
36390370 ATTTATAAAATATATACAATTAAAAATATATAA
1 ATTT-TAAAATATATACAATAAAAAATATATAA
36390403 A
1 A
36390404 AATCCTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 4 0.13
32 20 0.67
33 6 0.20
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (32 bp):
ATTTTAAAATATATACAATAAAAAATATATAA
Found at i:36395838 original size:71 final size:72
Alignment explanation
Indices: 36395721--36395865 Score: 265
Period size: 71 Copynumber: 2.0 Consensus size: 72
36395711 TTCGCCTTTG
* *
36395721 AATTAAATATACTTTATTTAAAAATTGGATTTTGATCTCTCGATTTAAATGGTACGTAAAATCAT
1 AATTAAATATACTTTATTTAAAAATTGGATTTTGATCTCTCAATTTAAACGGTACGTAAAATCAT
36395786 AAGAGGC
66 AAGAGGC
36395793 AATTAAATATACTTTATTT-AAAATTGGATTTTGATCTCTCAATTTAAACGGTACGTAAAATCAT
1 AATTAAATATACTTTATTTAAAAATTGGATTTTGATCTCTCAATTTAAACGGTACGTAAAATCAT
36395857 AAGAGGC
66 AAGAGGC
36395864 AA
1 AA
36395866 CCATGTTTTC
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 52 0.73
72 19 0.27
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (72 bp):
AATTAAATATACTTTATTTAAAAATTGGATTTTGATCTCTCAATTTAAACGGTACGTAAAATCAT
AAGAGGC
Found at i:36402923 original size:15 final size:15
Alignment explanation
Indices: 36402905--36402946 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
36402895 AGCCTAGAAC
36402905 AAAGAAATCCAAGAT
1 AAAGAAATCCAAGAT
*
36402920 AAAGAAATCCATGAT
1 AAAGAAATCCAAGAT
*
36402935 AAGGAAATCCAA
1 AAAGAAATCCAA
36402947 TTTACAACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (15 bp):
AAAGAAATCCAAGAT
Found at i:36416677 original size:30 final size:30
Alignment explanation
Indices: 36416641--36416698 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
36416631 AATCAGAAGT
*
36416641 TTTGGCACTAAGTGTGCGATTTAAACTATC
1 TTTGGCACTAAATGTGCGATTTAAACTATC
36416671 TTTGGCACTAAATGTGCGATTTAAACTA
1 TTTGGCACTAAATGTGCGATTTAAACTA
36416699 GCTTCGGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (30 bp):
TTTGGCACTAAATGTGCGATTTAAACTATC
Found at i:36425448 original size:29 final size:30
Alignment explanation
Indices: 36425377--36425513 Score: 108
Period size: 29 Copynumber: 4.7 Consensus size: 30
36425367 GTGCCCACTG
**
36425377 ACCGATCTCGCACACATAGTG-CTCGGTTGA
1 ACCGATCTCGCACACATAGTGCCTCAATT-A
* *
36425407 A--GAACTCGCACACACAGTGCCTCAATT-
1 ACCGATCTCGCACACATAGTGCCTCAATTA
**
36425434 ACCGATCTCGCACACATAGTG-CTCGGTTA
1 ACCGATCTCGCACACATAGTGCCTCAATTA
** * *
36425463 AAAGAAT-TCGCACACACAGTGCCTTAATT-
1 ACCG-ATCTCGCACACATAGTGCCTCAATTA
*
36425492 ATCGATCTCGCACACATAGTGC
1 ACCGATCTCGCACACATAGTGC
36425514 TCGGTTAAAG
Statistics
Matches: 83, Mismatches: 17, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
27 1 0.01
28 23 0.28
29 52 0.63
30 7 0.08
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (30 bp):
ACCGATCTCGCACACATAGTGCCTCAATTA
Found at i:36425475 original size:58 final size:58
Alignment explanation
Indices: 36425377--36425545 Score: 277
Period size: 58 Copynumber: 2.9 Consensus size: 58
36425367 GTGCCCACTG
* *
36425377 ACCGATCTCGCACACATAGTGCTCGGTT-GAAGAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAAGAATTCGCACACACAGTGCCTCAATT
*
36425434 ACCGATCTCGCACACATAGTGCTCGGTTAAAAGAATTCGCACACACAGTGCCTTAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAAGAATTCGCACACACAGTGCCTCAATT
* * *
36425492 ATCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAAGAATTCGCACACACAGTGCCTC
36425546 TAATCATTCG
Statistics
Matches: 104, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
57 28 0.27
58 76 0.73
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAAGAATTCGCACACACAGTGCCTCAATT
Found at i:36426050 original size:19 final size:19
Alignment explanation
Indices: 36426026--36426066 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
36426016 TTGAGCATGA
36426026 TGATAGTATACATGTATAT
1 TGATAGTATACATGTATAT
36426045 TGATAGTATACATGTATAT
1 TGATAGTATACATGTATAT
36426064 TGA
1 TGA
36426067 ACTGGTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (19 bp):
TGATAGTATACATGTATAT
Found at i:36426390 original size:34 final size:34
Alignment explanation
Indices: 36426344--36426426 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
36426334 ATACTGCATG
*
36426344 AATGC-TAC-GATACTGTGATGGGCTAGGGCCCT
1 AATGCATACTGATACTGTGATGGGCTAAGGCCCT
*
36426376 AATGCATACTGATACTGTGATGGGCTAATGCCCT
1 AATGCATACTGATACTGTGATGGGCTAAGGCCCT
* *
36426410 ATTGCATATTTGATACT
1 AATGCATA-CTGATACT
36426427 ATATTGAGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
32 5 0.11
33 3 0.07
34 29 0.66
35 7 0.16
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (34 bp):
AATGCATACTGATACTGTGATGGGCTAAGGCCCT
Found at i:36426849 original size:13 final size:14
Alignment explanation
Indices: 36426831--36426859 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36426821 CTTCTGCAAC
36426831 AAGAAAA-GTTTTA
1 AAGAAAATGTTTTA
36426844 AAGAAAATGTTTTA
1 AAGAAAATGTTTTA
36426858 AA
1 AA
36426860 TAAGTAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (14 bp):
AAGAAAATGTTTTA
Found at i:36434509 original size:48 final size:48
Alignment explanation
Indices: 36434388--36434510 Score: 210
Period size: 48 Copynumber: 2.6 Consensus size: 48
36434378 ATGTGTGCTA
*
36434388 GTATAAGACCATGTCCGAGACATGACATCGGCACTAACATGAAACCTC
1 GTATAAGACCATGTCCGAGACATGGCATCGGCACTAACATGAAACCTC
*
36434436 GTATAAGACCATGTCCGGGACATGGCATCGGCACTAACATGAAACCTC
1 GTATAAGACCATGTCCGAGACATGGCATCGGCACTAACATGAAACCTC
* *
36434484 GTATAAGACCATATCCGAGATATGGCA
1 GTATAAGACCATGTCCGAGACATGGCA
36434511 ACGATATGTG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (48 bp):
GTATAAGACCATGTCCGAGACATGGCATCGGCACTAACATGAAACCTC
Found at i:36436066 original size:46 final size:46
Alignment explanation
Indices: 36436013--36436230 Score: 234
Period size: 46 Copynumber: 4.7 Consensus size: 46
36436003 AGATTTGTGT
*
36436013 GCCAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATA
*
36436059 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAG---CATTGA-GATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-ATGAT-A
* * * *
36436105 GGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATA
* * *
36436153 GCCAGTGTAAGACATGTCTGGGACATGCGTCGGCTACGA-GATG-T-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGATA
*
36436197 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
36436231 ATGATTACAT
Statistics
Matches: 148, Mismatches: 13, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
44 32 0.22
45 7 0.05
46 57 0.39
47 29 0.20
48 18 0.12
49 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATA
Found at i:36436134 original size:94 final size:90
Alignment explanation
Indices: 36436016--36436227 Score: 300
Period size: 94 Copynumber: 2.3 Consensus size: 90
36436006 TTTGTGTGCC
** * *
36436016 AGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGA-CATGTCTGG
*
36436081 GACATGGCATCAGC-ATTGAGATGAGGGCT
65 GACAT-GCATCAGCTA-CGAGAT--GGGCT
36436110 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGGG
* * *
36436175 ACATGCGTCGGCTACGAGATGTGCT
66 ACATGCATCAGCTACGAGATGGGCT
36436200 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
36436228 GGCATGATTA
Statistics
Matches: 109, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
90 32 0.29
92 11 0.10
93 15 0.14
94 51 0.47
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGGG
ACATGCATCAGCTACGAGATGGGCT
Found at i:36436252 original size:90 final size:89
Alignment explanation
Indices: 36436010--36436274 Score: 268
Period size: 90 Copynumber: 2.9 Consensus size: 89
36436000 ATAAGATTTG
* *
36436010 TGTGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCACATT-ATGATAGCCAGTGTAAGACCA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CACATTAATG-T-GCCAGTGTAAGA-CA
*
36436074 TGTCTGGGACATGGCATCAGCATTGAGA
62 TGTCTGGGACATGGCATCAGCATCGAGA
* * * *
36436102 TGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGT-ATGAGAGCCAGTGTAAGAC
1 T--GTGCTAGTGTAAGACATGTCTGGGACATGCATC-GGCACATTAAT--GTGCCAGTGTAAGAC
* *
36436166 ATGTCTGGGACAT-GCGTCGGC-TACGAGA
61 ATGTCTGGGACATGGCATCAGCAT-CGAGA
* * * *
36436194 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATGATTACATGTGTCAATGTAAGACCTG
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCA-CATTA-ATGTGCCAGTGTAAGACATG
*
36436259 TCTGGGACACGGCATC
64 TCTGGGACATGGCATC
36436275 GACACAGATG
Statistics
Matches: 144, Mismatches: 19, Indels: 21
0.78 0.10 0.11
Matches are distributed among these distances:
89 3 0.02
90 57 0.40
91 5 0.03
92 14 0.10
93 14 0.10
94 49 0.34
95 1 0.01
96 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (89 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCACATTAATGTGCCAGTGTAAGACATGTC
TGGGACATGGCATCAGCATCGAGA
Found at i:36436261 original size:46 final size:44
Alignment explanation
Indices: 36436018--36436267 Score: 148
Period size: 46 Copynumber: 5.5 Consensus size: 44
36436008 TGTGTGCCAG
* * * * *
36436018 TGTAAGACATGTCTGGGACATGCATTGGCCAC-ATTATGATAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACGA-CATG-T-GCTAA
* * * * *
36436064 TGTAAGACCATGTCTGGGACATGGCATCAGC-ATTGAGATGAGGGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGACAT--GTGCTAA
* * * * * *
36436112 TGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACGA-CAT--GTGCTAA
* * *
36436158 TGTAAGACATGTCTGGGACATGCGTCGGCTACGAGATGTGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTACGACATGTGCTAA
**
36436202 TGTAAGACATGTCTGGGACATGCATCGGCATGATTACATGTG-TCAA
1 TGTAAGACATGTCTGGGACATGCATCGGC-T-ACGACATGTGCT-AA
*
36436248 TGTAAGACCTGTCTGGGACA
1 TGTAAGACATGTCTGGGACA
36436268 CGGCATCGAC
Statistics
Matches: 170, Mismatches: 22, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
44 33 0.19
45 3 0.02
46 82 0.48
47 31 0.18
48 19 0.11
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (44 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTACGACATGTGCTAA
Found at i:36439650 original size:48 final size:48
Alignment explanation
Indices: 36439579--36439686 Score: 184
Period size: 48 Copynumber: 2.2 Consensus size: 48
36439569 ATGTGTGCTA
36439579 GTATAAGACCATGTTCGGGACATGGCATTGGA-ACTAACATGAAACCTC
1 GTATAAGACCATGTTCGGGACATGGCA-TGGACACTAACATGAAACCTC
36439627 GTATAAGACCATG-TCTGGGACATGGCATGGACACTAACATGAAACCTC
1 GTATAAGACCATGTTC-GGGACATGGCATGGACACTAACATGAAACCTC
36439675 GTATAAGACCAT
1 GTATAAGACCAT
36439687 ATCCGGGATA
Statistics
Matches: 58, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
47 6 0.10
48 52 0.90
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (48 bp):
GTATAAGACCATGTTCGGGACATGGCATGGACACTAACATGAAACCTC
Found at i:36443760 original size:16 final size:16
Alignment explanation
Indices: 36443739--36443793 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
36443729 CTAGTAACAC
36443739 CCCAAAAATCTCAAAA
1 CCCAAAAATCTCAAAA
*
36443755 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCAAAA
* *
36443771 TCCAAAAATCTCGAAAT
1 CCCAAAAATCTC-AAAA
36443788 CCCAAA
1 CCCAAA
36443794 TTTTCTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
16 26 0.79
17 7 0.21
ACGTcount: A:0.51, C:0.31, G:0.04, T:0.15
Consensus pattern (16 bp):
CCCAAAAATCTCAAAA
Found at i:36444490 original size:29 final size:28
Alignment explanation
Indices: 36444435--36444545 Score: 132
Period size: 29 Copynumber: 3.9 Consensus size: 28
36444425 GTAAGCATGA
* * *
36444435 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
36444463 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
36444492 ATATATAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
36444521 ATATGAATATGATTGGGCATAATGG
1 ATATAAATGTGATTGGGCCTAATGG
36444546 ATCAGATACA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 23 0.32
29 49 0.68
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:36448926 original size:32 final size:32
Alignment explanation
Indices: 36448890--36448950 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
36448880 ATGAATCAGC
36448890 AAAAGCCAAAATGCTAAAATGCCGAAAAGTCG
1 AAAAGCCAAAATGCTAAAATGCCGAAAAGTCG
* *
36448922 AAAAGTCGAAATGCTAAAATGCCGAAAAG
1 AAAAGCCAAAATGCTAAAATGCCGAAAAG
36448951 CCAAAAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.51, C:0.16, G:0.20, T:0.13
Consensus pattern (32 bp):
AAAAGCCAAAATGCTAAAATGCCGAAAAGTCG
Found at i:36448947 original size:16 final size:16
Alignment explanation
Indices: 36448898--36448948 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
36448888 GCAAAAGCCA
36448898 AAATGCTAAAATGCCG
1 AAATGCTAAAATGCCG
* * *
36448914 AAAAGTCGAAAA-GTCG
1 AAATG-CTAAAATGCCG
36448930 AAATGCTAAAATGCCG
1 AAATGCTAAAATGCCG
36448946 AAA
1 AAA
36448949 AGCCAAAAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 5 0.19
16 17 0.63
17 5 0.19
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.16
Consensus pattern (16 bp):
AAATGCTAAAATGCCG
Found at i:36448956 original size:16 final size:16
Alignment explanation
Indices: 36448905--36448956 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
36448895 CCAAAATGCT
*
36448905 AAAATGCCGAAAAGTCG
1 AAAATGCCGAAAAG-CC
* * *
36448922 AAAA-GTCGAAATGCT
1 AAAATGCCGAAAAGCC
36448937 AAAATGCCGAAAAGCC
1 AAAATGCCGAAAAGCC
36448953 AAAA
1 AAAA
36448957 GTTGGGCTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 5 0.18
16 19 0.68
17 4 0.14
ACGTcount: A:0.52, C:0.17, G:0.19, T:0.12
Consensus pattern (16 bp):
AAAATGCCGAAAAGCC
Found at i:36449085 original size:19 final size:19
Alignment explanation
Indices: 36449053--36449099 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
36449043 ACTTGGGTTG
* *
36449053 AGAATTGGCCAAATGGGCC
1 AGAATGGGCTAAATGGGCC
36449072 AGAATGGGCTAAATGGGCC
1 AGAATGGGCTAAATGGGCC
*
36449091 TG-ATGGGCT
1 AGAATGGGCT
36449100 GTTGGGCCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.19
Consensus pattern (19 bp):
AGAATGGGCTAAATGGGCC
Found at i:36449212 original size:29 final size:29
Alignment explanation
Indices: 36449180--36449286 Score: 92
Period size: 29 Copynumber: 3.7 Consensus size: 29
36449170 ATAATATGAT
*
36449180 TTGGGCCTAATGGGCCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAATAAGAA
* * **
36449209 TTGGGCCTAGTGGGCCATAAGAATTTGAA
1 TTGGGCCTAATGGGCCATATGAATAAGAA
* * * **
36449238 CTAGGCC-AGATGGGCCATTTGAGCAAG-A
1 TTGGGCCTA-ATGGGCCATATGAATAAGAA
*
36449266 TTGGGCCTAGTGGGCCATATG
1 TTGGGCCTAATGGGCCATATG
36449287 CATGTAAGTA
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
28 17 0.29
29 42 0.71
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATAAGAA
Found at i:36459599 original size:13 final size:13
Alignment explanation
Indices: 36459581--36459606 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36459571 AATATATTGT
36459581 ATTCAACTCAACA
1 ATTCAACTCAACA
36459594 ATTCAACTCAACA
1 ATTCAACTCAACA
36459607 CTTAAGACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (13 bp):
ATTCAACTCAACA
Found at i:36474472 original size:27 final size:28
Alignment explanation
Indices: 36474388--36474485 Score: 171
Period size: 28 Copynumber: 3.5 Consensus size: 28
36474378 AAACTTGTAC
36474388 AGCACTAAGTGTGCGAGTTTGATAATAT
1 AGCACTAAGTGTGCGAGTTTGATAATAT
*
36474416 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATAATAT
*
36474444 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATAATAT
36474471 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36474486 GACTCACTAT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.35
28 44 0.65
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATAATAT
Found at i:36478315 original size:13 final size:13
Alignment explanation
Indices: 36478297--36478322 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36478287 TTAGGACACG
36478297 GCCGTGTGTCTCA
1 GCCGTGTGTCTCA
36478310 GCCGTGTGTCTCA
1 GCCGTGTGTCTCA
36478323 CACAGCCTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.31, G:0.31, T:0.31
Consensus pattern (13 bp):
GCCGTGTGTCTCA
Found at i:36478769 original size:36 final size:36
Alignment explanation
Indices: 36478729--36478798 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
36478719 TTATAGATTC
36478729 AAGATGTCAGCTGAATCGAATCGAGCTATAGTTATA
1 AAGATGTCAGCTGAATCGAATCGAGCTATAGTTATA
36478765 AAGATGTCAGCTGAATCGAATCGAGCTATAGTTA
1 AAGATGTCAGCTGAATCGAATCGAGCTATAGTTA
36478799 ATGAAGCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (36 bp):
AAGATGTCAGCTGAATCGAATCGAGCTATAGTTATA
Found at i:36483241 original size:27 final size:28
Alignment explanation
Indices: 36483211--36483282 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
36483201 AATAATAAAT
* *
36483211 TTACTAAAATACCCCTAAGTATG-ACAA
1 TTACCAAAATACCCCTAAGTATGCAAAA
**
36483238 TTACCATTATACCCCTAAGTATGCAAAA
1 TTACCAAAATACCCCTAAGTATGCAAAA
**
36483266 TTACCATTATACCCCTA
1 TTACCAAAATACCCCTA
36483283 GGGTTAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 20 0.50
28 20 0.50
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (28 bp):
TTACCAAAATACCCCTAAGTATGCAAAA
Found at i:36483276 original size:28 final size:27
Alignment explanation
Indices: 36483219--36483282 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 27
36483209 ATTTACTAAA
*
36483219 ATACCCCTAAGTATGACAATTACCATT
1 ATACCCCTAAGTATGAAAATTACCATT
36483246 ATACCCCTAAGTATGCAAAATTACCATT
1 ATACCCCTAAGTATG-AAAATTACCATT
36483274 ATACCCCTA
1 ATACCCCTA
36483283 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 15 0.43
28 20 0.57
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (27 bp):
ATACCCCTAAGTATGAAAATTACCATT
Found at i:36483480 original size:27 final size:26
Alignment explanation
Indices: 36483385--36483475 Score: 128
Period size: 27 Copynumber: 3.3 Consensus size: 26
36483375 TGGAGGAAGC
36483385 GTTCTGGTGGCTATGCCACAACTATCT
1 GTTCTGGTGGCTATGCCACAA-TATCT
*
36483412 ATTTCTGGTGGCTATGCCACAGATATCT
1 -GTTCTGGTGGCTATGCCACA-ATATCT
*
36483440 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
36483466 GTATCTGGTG
1 GT-TCTGGTG
36483476 ACTCTATCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
26 8 0.14
27 25 0.43
28 24 0.41
29 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:36483486 original size:27 final size:26
Alignment explanation
Indices: 36483385--36483497 Score: 91
Period size: 27 Copynumber: 4.2 Consensus size: 26
36483375 TGGAGGAAGC
* * *
36483385 GTTCTGGTGGCTATGCCACAACTATCT
1 GTTCTGGTGACTCTACCACAA-TATCT
* * * *
36483412 ATTTCTGGTGGCTATGCCACAGATATCT
1 -GTTCTGGTGACTCTACCACA-ATATCT
* *
36483440 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGACTCTACCACAATATCT
* *
36483466 GTATCTGGTGACTCTATCACAATATTT
1 GT-TCTGGTGACTCTACCACAATATCT
36483493 GTTCT
1 GTTCT
36483498 AGCAGGCATG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
26 11 0.14
27 40 0.53
28 24 0.32
29 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGACTCTACCACAATATCT
Found at i:36487648 original size:27 final size:28
Alignment explanation
Indices: 36487626--36487691 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
36487616 ATTTACTAAA
36487626 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAGTATGCAAAATTACCATT
*
36487653 TTACCCCTAAGTATGCAAAATTACCATT
1 ATACCCCTAAGTATGCAAAATTACCATT
36487681 ATACCCCTAAG
1 ATACCCCTAAG
36487692 GTTAATTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 14 0.39
28 22 0.61
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTAAGTATGCAAAATTACCATT
Found at i:36487863 original size:27 final size:26
Alignment explanation
Indices: 36487792--36487906 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
36487782 TGGAGGAAGC
36487792 GTTCTGGTGGCTATGCCACAATTATCT
1 GTTCTGGTGGCTATGCCACAA-TATCT
* *
36487819 ATTTCTAGTGGCTATGCCACAGATATCT
1 -GTTCTGGTGGCTATGCCACA-ATATCT
*
36487847 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
36487873 GTAT-TAGGTGACTCTGTCACAATATCT
1 GT-TCT-GGTGGCTATGCCACAATATCT
36487900 GTTCTGG
1 GTTCTGG
36487907 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
26 12 0.16
27 40 0.53
28 23 0.30
29 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:36490600 original size:40 final size:40
Alignment explanation
Indices: 36490515--36490665 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
36490505 AATTGAATGA
* * *
36490515 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
36490555 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
36490596 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
36490635 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
36490666 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:36490679 original size:40 final size:40
Alignment explanation
Indices: 36490551--36490681 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
36490541 TATGCTGGAA
* * *
36490551 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
36490591 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
36490631 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
36490671 ATTATATCCGG
1 ATTATATCCGG
36490682 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:36498695 original size:40 final size:40
Alignment explanation
Indices: 36498567--36498697 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
36498557 TATGCTGGAA
* * * *
36498567 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
36498607 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
36498647 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
36498687 ATTATATCCGG
1 ATTATATCCGG
36498698 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:36509925 original size:28 final size:28
Alignment explanation
Indices: 36509891--36509945 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
36509881 TTGAGCCTGA
*
36509891 TGGGCCATATGAATGTGATTAGGCCTAC
1 TGGGCCATATGAATGAGATTAGGCCTAC
* *
36509919 TGGGCCATGTGAATGAGATTGGGCCTA
1 TGGGCCATATGAATGAGATTAGGCCTA
36509946 AAGGGGCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (28 bp):
TGGGCCATATGAATGAGATTAGGCCTAC
Found at i:36509961 original size:29 final size:28
Alignment explanation
Indices: 36509892--36509961 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
36509882 TGAGCCTGAT
* **
36509892 GGGCCATATGAATGTGATTAGGCCTACT
1 GGGCCATATGAATGAGATTAGGCCTAAG
* *
36509920 GGGCCATGTGAATGAGATTGGGCCTAAAG
1 GGGCCATATGAATGAGATTAGGCCT-AAG
*
36509949 GGGCCAAATGAAT
1 GGGCCATATGAAT
36509962 AAGTGTGGAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 22 0.65
29 12 0.35
ACGTcount: A:0.29, C:0.16, G:0.33, T:0.23
Consensus pattern (28 bp):
GGGCCATATGAATGAGATTAGGCCTAAG
Found at i:36510750 original size:27 final size:27
Alignment explanation
Indices: 36510262--36510737 Score: 425
Period size: 27 Copynumber: 17.7 Consensus size: 27
36510252 TAATAAAGTG
* *
36510262 AAATTACCGAAATACCC-CCAGTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
** * *
36510289 AAATTACCAAAATACCCCCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
36510316 AAATTA-TCGAAGTACCC-CCAGTTTGTA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
* * *
36510343 AAACTA-TCGAAATGCCCTCGGTTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
36510370 AAATTACTAAAATACCCTCGATTTGAA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
36510397 AAATTACTGAAATACCTTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* **
36510424 AAATTACCGAAGCACCCTC-AGTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
*
36510451 AAATTACTGAAATACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
36510478 AAATTACCGAAGTACCC-CCAGTTTGTA
1 AAATTACTGAAATACCCTCGA-TTTGTA
* *
36510505 AAATTACCGAAATA-CCTCCAATTTGTA
1 AAATTACTGAAATACCCT-CGATTTGTA
*
36510532 AAATTA-TCGAAATACCCTCGATTTGCA
1 AAATTACT-GAAATACCCTCGATTTGTA
*
36510559 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
36510586 AAATTACCGAAATACCCTCGA-TGGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
36510612 GAATTATTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
36510639 AAATTATTAAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
36510666 AAATTATTGAAACACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
36510693 AAATTA-TCAAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
36510720 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
36510738 TGTAGTGTAA
Statistics
Matches: 373, Mismatches: 59, Indels: 34
0.80 0.13 0.07
Matches are distributed among these distances:
26 30 0.08
27 331 0.89
28 12 0.03
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:36510761 original size:27 final size:27
Alignment explanation
Indices: 36510702--36510763 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
36510692 AAAATTATCA
* *
36510702 AAATACCCTTGTAGTGTAAAATTACTG
1 AAATACCCTTGTAGTGTAAAATGACCG
*
36510729 AAATACCCTTGTAGTGTAAAATGGCCG
1 AAATACCCTTGTAGTGTAAAATGACCG
*
36510756 ACATACCC
1 AAATACCC
36510764 CTACAGGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (27 bp):
AAATACCCTTGTAGTGTAAAATGACCG
Found at i:36516030 original size:44 final size:42
Alignment explanation
Indices: 36515904--36516058 Score: 161
Period size: 44 Copynumber: 3.6 Consensus size: 42
36515894 GTATCAAATG
* * * *
36515904 TGGTCTTACATGTAATCACATATCGATGCCACTATCCTAGACA
1 TGGTCTTACACGAAATCACATATCGATGCCAC-GTCCCAGACA
* * * *
36515947 GGGTCTTACAC-AAA-CTCATATACGATGCTGATGTCCCAGACA
1 TGGTCTTACACGAAATCACATAT-CGATGC-CACGTCCCAGACA
* *
36515989 TGGTCTTACACGTAAATCACAAATCGATGCCAACGTCCCAGACG
1 TGGTCTTACACG-AAATCACATATCGATGCC-ACGTCCCAGACA
36516033 TGGTCTTACACGAAATCACATATCGA
1 TGGTCTTACACGAAATCACATATCGA
36516059 AATCCTATGT
Statistics
Matches: 91, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 6 0.07
42 26 0.29
43 23 0.25
44 31 0.34
45 5 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (42 bp):
TGGTCTTACACGAAATCACATATCGATGCCACGTCCCAGACA
Found at i:36520850 original size:37 final size:37
Alignment explanation
Indices: 36520800--36520876 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
36520790 ACAAATACAG
*
36520800 AGGAGCATTCTTACGCACTAATGAATAGAGAGCACTA
1 AGGAGCATTCTTACGCACTAATGAACAGAGAGCACTA
36520837 AGGAGCATTCTTACGCACTAATGAACAGAGAGCACTA
1 AGGAGCATTCTTACGCACTAATGAACAGAGAGCACTA
36520874 AGG
1 AGG
36520877 TGTTATACTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (37 bp):
AGGAGCATTCTTACGCACTAATGAACAGAGAGCACTA
Found at i:36520892 original size:22 final size:22
Alignment explanation
Indices: 36520864--36520926 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
36520854 CTAATGAACA
* * *
36520864 GAGAGCACTAAGGTGTTATACT
1 GAGAGCACTAAGGTGCTAAACG
*
36520886 GAGAGCA-TGAATGTGCTAAACG
1 GAGAGCACT-AAGGTGCTAAACG
*
36520908 GAGAGCACTAATGTGCTAA
1 GAGAGCACTAAGGTGCTAA
36520927 CAATCGAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (22 bp):
GAGAGCACTAAGGTGCTAAACG
Found at i:36522278 original size:29 final size:29
Alignment explanation
Indices: 36522213--36522335 Score: 117
Period size: 29 Copynumber: 4.3 Consensus size: 29
36522203 CATTCACATT
* * *
36522213 CATGTATCTAGCCCATTAAGCCC-AATCA
1 CATGTATATGGCCCATTAGGCCCAAATCA
*
36522241 TAT-TCATATGGCCCATTAGGCCCAAATCA
1 CATGT-ATATGGCCCATTAGGCCCAAATCA
* *
36522270 CCTGTATATGGTCCATTAGGCCCAAATCA
1 CATGTATATGGCCCATTAGGCCCAAATCA
* ** *
36522299 CATTTATATGGCCTGTTAGGCCC-AGTCA
1 CATGTATATGGCCCATTAGGCCCAAATCA
*
36522327 CATTTATAT
1 CATGTATAT
36522336 TCATGCTTAC
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
27 1 0.01
28 30 0.38
29 47 0.59
30 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (29 bp):
CATGTATATGGCCCATTAGGCCCAAATCA
Found at i:36522559 original size:8 final size:8
Alignment explanation
Indices: 36522546--36522588 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
36522536 GTAGCCAAAC
36522546 TTTCGGCT
1 TTTCGGCT
*
36522554 TTTCGGCA
1 TTTCGGCT
*
36522562 TTTCAGCT
1 TTTCGGCT
*
36522570 TTTCGGCA
1 TTTCGGCT
*
36522578 TTTCAGCT
1 TTTCGGCT
36522586 TTT
1 TTT
36522589 ACCGATTCAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.09, C:0.23, G:0.19, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:36522570 original size:16 final size:16
Alignment explanation
Indices: 36522546--36522588 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
36522536 GTAGCCAAAC
*
36522546 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
36522562 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
36522578 TTTCAGCTTTT
1 TTTCAGCTTTT
36522589 ACCGATTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.09, C:0.23, G:0.19, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:36526741 original size:28 final size:28
Alignment explanation
Indices: 36526709--36526820 Score: 102
Period size: 28 Copynumber: 4.0 Consensus size: 28
36526699 CATGTATCTA
* * *
36526709 GCCCATTAAGCCCAATCATATCCATATG
1 GCCCATTAGGCCCAATCACATTCATATG
* *
36526737 GCCCATT-GGCTCAAATCACCTGT-ATATG
1 GCCCATTAGGC-CCAATCACAT-TCATATG
*
36526765 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCC-AATCACATTCATATG
* * *
36526794 GCCCGTTAGGCCCAGTCATATTCATAT
1 GCCCATTAGGCCCAATCACATTCATAT
36526821 TCATGCTCAC
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
27 2 0.03
28 39 0.57
29 27 0.40
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTCATATG
Found at i:36526791 original size:29 final size:29
Alignment explanation
Indices: 36526709--36526807 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 29
36526699 CATGTATCTA
* * *
36526709 GCCCATTAAGCCC-AATCATATCCATATG
1 GCCCATTAGGCCCAAATCACATCTATATG
* * *
36526737 GCCCATT-GGCTCAAATCACCTGTATATG
1 GCCCATTAGGCCCAAATCACATCTATATG
*
36526765 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATCTATATG
*
36526794 GCCCGTTAGGCCCA
1 GCCCATTAGGCCCA
36526808 GTCATATTCA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 3 0.05
28 25 0.42
29 31 0.53
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.25
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATCTATATG
Found at i:36527055 original size:16 final size:16
Alignment explanation
Indices: 36527030--36527088 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
36527020 GTAGCCAAAC
* *
36527030 TTTCAGCTTTTCGACA
1 TTTCGGCTTTTCGGCA
*
36527046 TTTCGACTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
36527062 TTTCGGTTTTTCGGCA
1 TTTCGGCTTTTCGGCA
36527078 TTTCGGCTTTT
1 TTTCGGCTTTT
36527089 ACCGATTCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.10, C:0.22, G:0.19, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:36532107 original size:25 final size:25
Alignment explanation
Indices: 36532078--36532153 Score: 89
Period size: 26 Copynumber: 3.0 Consensus size: 25
36532068 TTCTCATCCA
* *
36532078 AATTTTGCTCCAATAAAATTTTGAT
1 AATTTTACTCCAATAAAATTTTGAC
* *
36532103 AATTTTACCCCCGATAAAATTTTGAC
1 AATTTTA-CTCCAATAAAATTTTGAC
*
36532129 AATTTTACTCCCAGTAAAATTTTGA
1 AATTTTACT-CCAATAAAATTTTGA
36532154 GAAATTTCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
25 7 0.17
26 35 0.83
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (25 bp):
AATTTTACTCCAATAAAATTTTGAC
Found at i:36532121 original size:26 final size:25
Alignment explanation
Indices: 36532090--36532153 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 25
36532080 TTTTGCTCCA
*
36532090 ATAAAATTTTGATAATTTTACCCCC
1 ATAAAATTTTGACAATTTTACCCCC
*
36532115 GATAAAATTTTGACAATTTTACTCCC
1 -ATAAAATTTTGACAATTTTACCCCC
36532141 AGTAAAATTTTGA
1 A-TAAAATTTTGA
36532154 GAAATTTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 1 0.03
26 34 0.97
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (25 bp):
ATAAAATTTTGACAATTTTACCCCC
Found at i:36532320 original size:18 final size:18
Alignment explanation
Indices: 36532294--36532329 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36532284 GGATTGCAAG
*
36532294 TTTCAATTTTCATTTTCA
1 TTTCAATTTCCATTTTCA
*
36532312 TTTCCATTTCCATTTTCA
1 TTTCAATTTCCATTTTCA
36532330 ATTTTGGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTCAATTTCCATTTTCA
Found at i:36536086 original size:21 final size:20
Alignment explanation
Indices: 36536030--36536107 Score: 59
Period size: 21 Copynumber: 3.8 Consensus size: 20
36536020 ATCCCAGTTC
*
36536030 TAAAAAATAAATAAATAAATA
1 TAAAAAATAAATAAAT-ATTA
* *
36536051 TATGAAAATACATAAATATTA
1 TA-AAAAATAAATAAATATTA
* *
36536072 TACAAAATATAATAATAAATT-
1 TAAAAAATA-AATAA-ATATTA
*
36536093 TAAAAAATATATAAA
1 TAAAAAATAAATAAA
36536108 AATAAAATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
19 1 0.02
20 10 0.22
21 19 0.41
22 16 0.35
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.29
Consensus pattern (20 bp):
TAAAAAATAAATAAATATTA
Found at i:36536100 original size:9 final size:10
Alignment explanation
Indices: 36536032--36536111 Score: 56
Period size: 10 Copynumber: 7.7 Consensus size: 10
36536022 CCCAGTTCTA
*
36536032 AAAAATAAAT
1 AAAAATATAT
36536042 AAATAAATATAT
1 -AA-AAATATAT
* *
36536054 GAAAATACAT
1 AAAAATATAT
*
36536064 AAATAT-TAT
1 AAAAATATAT
36536073 ACAAAATATAAT
1 A-AAAATAT-AT
*
36536085 AATAAATTTA-
1 AA-AAATATAT
36536095 AAAAATATAT
1 AAAAATATAT
36536105 AAAAATA
1 AAAAATA
36536112 AAATTTGATT
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
9 9 0.17
10 24 0.44
11 6 0.11
12 15 0.28
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.29
Consensus pattern (10 bp):
AAAAATATAT
Found at i:36537552 original size:37 final size:36
Alignment explanation
Indices: 36537501--36537576 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
36537491 ATTCCAAAAA
*
36537501 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
36537537 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
36537574 TAA
1 TAA
36537577 AGTGATTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:36545332 original size:11 final size:11
Alignment explanation
Indices: 36545257--36545332 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
36545247 ATTCTAAAAA
*
36545257 TAATATTATTT
1 TAATATTAATT
36545268 TAATAGTTTAATAT
1 TAATA--TTAAT-T
36545282 TAA-ATTAAATT
1 TAATATT-AATT
*
36545293 TAATATTTATCT
1 TAATATTAAT-T
*
36545305 TAATAGT-ATT
1 TAATATTAATT
36545315 T--TATTAATT
1 TAATATTAATT
36545324 TAATATTAA
1 TAATATTAA
36545333 AGTAATTATC
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 13 0.25
13 5 0.10
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:36545393 original size:68 final size:68
Alignment explanation
Indices: 36545275--36545401 Score: 168
Period size: 68 Copynumber: 1.9 Consensus size: 68
36545265 TTTTAATAGT
** * *
36545275 TTAATATTAAATTAAATTTAATATTTATCTTAATAGTATTTTATTAATTTAATATTAAAGTAATT
1 TTAATATTAAATTAAATTTAATATAGATCTTAATAGTATTTAATAAATTTAATATTAAAGTAATT
36545340 ATC
66 ATC
* *
36545343 TTAATATTAAATTAAATTTAATATAGA-CATT-CTATTATTTAATAAGATTTAATATTAAA
1 TTAATATTAAATTAAATTTAATATAGATC-TTAATAGTATTTAATAA-ATTTAATATTAAA
36545402 TTTAATCTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
67 11 0.22
68 40 0.78
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (68 bp):
TTAATATTAAATTAAATTTAATATAGATCTTAATAGTATTTAATAAATTTAATATTAAAGTAATT
ATC
Found at i:36546557 original size:22 final size:22
Alignment explanation
Indices: 36546532--36546608 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
36546522 CACTAAGTCA
*
36546532 ACAGGGCGGCTCAACACCGTAG
1 ACAGGACGGCTCAACACCGTAG
*
36546554 ACAGGACGGCTCAACACCATAG
1 ACAGGACGGCTCAACACCGTAG
* *
36546576 ACAGGACGGCTCAACGCTGTAG
1 ACAGGACGGCTCAACACCGTAG
*
36546598 ACAGGATGGCT
1 ACAGGACGGCT
36546609 AAAGGCCGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.30, C:0.29, G:0.30, T:0.12
Consensus pattern (22 bp):
ACAGGACGGCTCAACACCGTAG
Found at i:36548691 original size:14 final size:14
Alignment explanation
Indices: 36548674--36548701 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36548664 AAGTTAAAAT
36548674 GTTTTTCATGCTCA
1 GTTTTTCATGCTCA
36548688 GTTTTTCATGCTCA
1 GTTTTTCATGCTCA
36548702 AAGTGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
GTTTTTCATGCTCA
Found at i:36551485 original size:12 final size:12
Alignment explanation
Indices: 36551468--36551503 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
36551458 AACATTTTGA
*
36551468 CATTCATGTATT
1 CATTCATGCATT
36551480 CATTCATGCATT
1 CATTCATGCATT
*
36551492 CATTCATACATT
1 CATTCATGCATT
36551504 GCATATCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:36559962 original size:68 final size:70
Alignment explanation
Indices: 36559796--36559970 Score: 192
Period size: 71 Copynumber: 2.5 Consensus size: 70
36559786 CTTTTCAAGG
* * * *
36559796 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGATAAGGTATTTTTAATTTTT
1 AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGACAAGGTATTTTTAATTTAT
36559861 GTTTT
66 GTTTT
* * ** * ** *
36559866 CAAAATCGACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGGCACG-CCGGGTATTTTTAGTTTA
1 -AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGACAAGGTATTTTTAATTTA
36559930 TGTTTT
65 TGTTTT
** *
36559936 -AAATTTACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT
36559971 TTTAATTTTT
Statistics
Matches: 87, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
68 30 0.34
70 19 0.22
71 38 0.44
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (70 bp):
AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGACAAGGTATTTTTAATTTAT
GTTTT
Found at i:36560091 original size:72 final size:73
Alignment explanation
Indices: 36559974--36560158 Score: 241
Period size: 72 Copynumber: 2.6 Consensus size: 73
36559964 TAAGCCTTTT
* * * * * * *
36559974 AATTTTTGTTTTTCAA-AATCAGCCCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAG
1 AATTTCTGTTTCTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAG
*
36560038 GTATTTTC
66 GTAATTTC
* *
36560046 AATTTTTGTATTCT-AA-TATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGA
1 AATTTCTGT-TTCTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGA
36560109 GGTAATTTC
65 GGTAATTTC
*
36560118 AATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTG
1 AATTTCTGTTTCTCAAGAATCAACTCATATTGCGAGAGGTG
36560159 GGTTAAACCT
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
71 3 0.03
72 70 0.71
73 26 0.26
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (73 bp):
AATTTCTGTTTCTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAG
GTAATTTC
Found at i:36560288 original size:198 final size:191
Alignment explanation
Indices: 36559796--36560297 Score: 662
Period size: 198 Copynumber: 2.6 Consensus size: 191
36559786 CTTTTCAAGG
* * ** * * * *
36559796 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGATAAGGTATTTTTAATTTTT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
* * * * * * * * * *
36559861 GTTTTCAAAATCGACTCATATTGCAAGAAGTGAGTTGAGCCTCGGGGCACGCCGGGTATTTTTAG
66 GTTTT-AATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGACGGGTAATTTCAA
** * **
36559926 TTTATGTTTTAAATTTACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 TTTATGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAACCTTTTAATTTTACTTTTTC
*
36559988 AAAATCAGCCCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
*
36560053 GTATTCTAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTC
66 GT-TT-TAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGACG-GGTAATTTC
* *
36560118 AATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTAAACCTTTTAATTTCTACTT
128 AATTTATGTTT-T--A-AATCAACTCATATTGCGAGAGGTGAGTTAAACCTTTTAATTT-TACTT
36560183 TTTC
188 TTTC
36560187 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTG
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTT-
*
36560252 TGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
65 TGTTTTAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
36560298 TCACACGCCG
Statistics
Matches: 272, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
192 58 0.21
193 42 0.15
194 17 0.06
195 1 0.00
197 1 0.00
198 78 0.29
199 72 0.26
200 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (191 bp):
AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
GTTTTAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGACGGGTAATTTCAAT
TTATGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAACCTTTTAATTTTACTTTTTC
Found at i:36561792 original size:40 final size:40
Alignment explanation
Indices: 36561747--36561952 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
36561737 CGGAATACAA
*
36561747 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
36561787 CCGGATATAACGAGTTGCACAAATGCCTTCGGGTGTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* *
36561827 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
* ** * *
36561867 CCGGATGTAGTCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACGAA-TGCCTTCGGGTCTTAGC
* ** ** * *
36561907 CTGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTT-GCACGAATGCCTTCGGGTCTTAGC
36561947 CCGGAT
1 CCGGAT
36561953 GTCATTCAAT
Statistics
Matches: 137, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 132 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:36561887 original size:80 final size:80
Alignment explanation
Indices: 36561747--36561954 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 80
36561737 CGGAATACAA
* * * * *
36561747 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGAGTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
* *
36561812 CCTTCGGGTGTTAGC
66 CCTTCGGGTCTTAAC
* * *
36561827 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTA-ACGACTAGCACAAAT
36561891 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
* ** ** * *
36561907 CTGGATATAATTA-TTAGCATAAATGTCTTCGGGACTTAGCCCGGATGT
1 CCGGATATAACAACTT-GCACGAATGCCTTCGGGTCTTAGCCCGGATGT
36561955 CATTCAATTG
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 105 0.97
81 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAACGACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:36563008 original size:13 final size:13
Alignment explanation
Indices: 36562990--36563023 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
36562980 TGCTGAGGTA
*
36562990 TTTTCAATTTCTG
1 TTTTCAATTTATG
36563003 TTTTCAATTTATG
1 TTTTCAATTTATG
36563016 TTGTTCAA
1 TT-TTCAA
36563024 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:36563080 original size:140 final size:142
Alignment explanation
Indices: 36562826--36563152 Score: 525
Period size: 140 Copynumber: 2.3 Consensus size: 142
36562816 GGCTGTCACA
** * * * *
36562826 AGCCTCAGGTCACACCGAGGTATTTTCCATTTCTGTTTTCATTATTATGTTTTTGAAAGAATCAA
1 AGCCTCAGGTCATGCTGAGGTATTTTCAATTTCTGTTTTCAATATTATGTTGTTGAAAGAATCAA
36562891 CTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCG
66 CTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCG
36562956 AGAGGTGAGTTG
131 AGAGGTGAGTTG
*
36562968 AGCCTCAGGTCATGCTGAGGTATTTTCAATTTCTGTTTTCAAT-TTATGTTGTT-CAAGAATCAA
1 AGCCTCAGGTCATGCTGAGGTATTTTCAATTTCTGTTTTCAATATTATGTTGTTGAAAGAATCAA
*
36563031 CTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCG
66 CTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCG
36563096 AGAGGTGAGTTG
131 AGAGGTGAGTTG
36563108 AGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTGTCTTTCAA
1 AGCCTCAGG-T--CATGCTGAGGTATTTTCAATTTCTGT-TTTCAA
36563153 AAAAAAAAAT
Statistics
Matches: 173, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
139 2 0.01
140 92 0.53
141 9 0.05
142 64 0.37
143 6 0.03
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (142 bp):
AGCCTCAGGTCATGCTGAGGTATTTTCAATTTCTGTTTTCAATATTATGTTGTTGAAAGAATCAA
CTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCG
AGAGGTGAGTTG
Found at i:36563280 original size:72 final size:72
Alignment explanation
Indices: 36563158--36563298 Score: 264
Period size: 72 Copynumber: 2.0 Consensus size: 72
36563148 TTCAAAAAAA
*
36563158 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTC
36563223 TGTTTTC
66 TGTTTTC
*
36563230 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTC
36563295 TGTT
66 TGTT
36563299 CAAAATGAGT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (72 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:36563309 original size:49 final size:49
Alignment explanation
Indices: 36563252--36563347 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
36563242 ATATTGCGAG
*
36563252 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
36563301 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
36563348 TTCAAAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:36563394 original size:121 final size:121
Alignment explanation
Indices: 36563180--36563419 Score: 417
Period size: 121 Copynumber: 2.0 Consensus size: 121
36563170 ATATTGCGAG
* *
36563180 AAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTTTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
*
36563245 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
*
36563301 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * *
36563366 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
36563420 TTTCAAAAAA
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 112 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:36563471 original size:79 final size:75
Alignment explanation
Indices: 36563301--36563655 Score: 439
Period size: 79 Copynumber: 4.7 Consensus size: 75
36563291 TTTCTGTTCA
* * *
36563301 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
36563363 ATATTGCGAG
66 ATATTGCGAG
*
36563373 AAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAAATCA
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTC----AAAAAAATCA
*
36563438 ACTCATATTGTGAG
62 ACTCATATTGCGAG
36563452 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
36563517 ATATTGCGAG
66 ATATTGCGAG
** * * * * *
36563527 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTG-TTGTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
* *
36563591 GTATTGTGAG
66 ATATTGCGAG
*** * * * *
36563601 AGGCGAGTTGAGCCTCAGGTCACAAGCCGAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACATGCTGAGGTATTTTCAATTTCTGTTTTTCAA
36563656 TTTCTGCCTT
Statistics
Matches: 250, Mismatches: 23, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
72 42 0.17
73 5 0.02
74 44 0.18
75 62 0.25
76 21 0.08
77 6 0.02
79 70 0.28
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (75 bp):
AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGCGAG
Found at i:36563581 original size:151 final size:151
Alignment explanation
Indices: 36563301--36563655 Score: 459
Period size: 151 Copynumber: 2.4 Consensus size: 151
36563291 TTTCTGTTCA
* * *
36563301 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACAAGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
* * * *
36563363 ATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAA
66 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTC---A
36563428 AAAAAAATCAACTCATATTGTGAG
128 AAAAAAATCAACTCATATTGTGAG
*
36563452 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACAAGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
** * *
36563517 ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTG-TTGTC-AAA
66 ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAA
*
36563580 AAAATCAACTCGTATTGTGAG
131 AAAATCAACTCATATTGTGAG
*** * * *
36563601 AGGCGAGTTGAGCCTCAGGTCACAAGCCGAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACAAGCTGAGGTATTTTCAATTTCTGTTTTTCAA
36563656 TTTCTGCCTT
Statistics
Matches: 180, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
149 38 0.21
151 74 0.41
152 5 0.03
153 4 0.02
154 59 0.33
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (151 bp):
AAATGAGTTGAGCCTCAAGACAAGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAA
AAAATCAACTCATATTGTGAG
Found at i:36563749 original size:95 final size:95
Alignment explanation
Indices: 36563577--36563750 Score: 215
Period size: 95 Copynumber: 1.8 Consensus size: 95
36563567 TTTTGTTGTC
* * * *
36563577 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACAAGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGGTCACAAGCCGAGCTATTTTCAA
* *
36563642 TTTCCGTTTTTCAATTTCTGCCTTTCAAAA
66 TTTCCATCTTTCAATTTCTGCCTTTCAAAA
* * * ** *
36563672 AAAAAAATCAACTTATATTGCGAGAGGTAAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGG-TCACAAGCCGAGCTATTTTCA
*
36563736 ATTTCTATCTTTCAA
65 ATTTCCATCTTTCAA
36563751 AAAAATCAAC
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
94 2 0.03
95 63 0.97
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (95 bp):
AAAAAAATCAACTCATATTGCGAGAGGCAAGTTGAGCCTCAGGTCACAAGCCGAGCTATTTTCAA
TTTCCATCTTTCAATTTCTGCCTTTCAAAA
Found at i:36563782 original size:77 final size:78
Alignment explanation
Indices: 36563672--36564033 Score: 316
Period size: 79 Copynumber: 4.5 Consensus size: 78
36563662 CCTTTCAAAA
* * * * *
36563672 AAAAAAATCAACTTATATTGCGAGAGGTAAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACACACTGAGCTATTTTCAA
36563737 TTTC-TATCTTTC
66 TTTCTTATCTTTC
* * *
36563749 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACACACTGAGCTA--TTTTC
* *
36563814 AATTT-ATATTTTTC
64 AATTTCTTATCTTTC
* * ** * ** *
36563828 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACA-TGTCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACACACT-GAGCTATTTTC-
* *
36563892 AAATCTGTTTTTCAAATTCTATTT
64 -AA--T-TTCTT---A-TCT-TTC
** * **
36563916 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGTACTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACACACTGAGCTATTTTCAA
* *
36563981 TTTCTGTTTTTTTTC
66 TTTC--TTATCTTTC
36563996 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
36564034 TTTTTAATTT
Statistics
Matches: 228, Mismatches: 38, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
77 55 0.24
78 1 0.00
79 67 0.29
80 7 0.03
81 32 0.14
82 2 0.01
83 3 0.01
84 1 0.00
85 2 0.01
86 3 0.01
87 2 0.01
88 52 0.23
89 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Consensus pattern (78 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACACACTGAGCTATTTTCAA
TTTCTTATCTTTC
Found at i:36563976 original size:88 final size:87
Alignment explanation
Indices: 36563830--36563991 Score: 218
Period size: 88 Copynumber: 1.8 Consensus size: 87
36563820 TATTTTTCAA
* * * *
36563830 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCAGCTCACA-GTCGAGCTATTTTCAAAA
36563895 TCTGTTTTTCAAATTCTATTTTC
65 TCTGTTTTTCAAATTCTATTTTC
* * *
36563918 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCAC-GTACTGAGCTATTTTCAAT
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCAGCTCACAGT-C-GAGCTATTTTCAAA
*
36563982 TTCTGTTTTT
64 ATCTGTTTTT
36563992 TTTCAAAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
86 2 0.03
87 1 0.02
88 61 0.95
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (87 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCAGCTCACAGTCGAGCTATTTTCAAAAT
CTGTTTTTCAAATTCTATTTTC
Found at i:36564051 original size:30 final size:30
Alignment explanation
Indices: 36564015--36564076 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
36564005 CAACTCATAT
36564015 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
36564045 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
36564075 TG
1 TG
36564077 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:36564159 original size:253 final size:246
Alignment explanation
Indices: 36563475--36564244 Score: 793
Period size: 253 Copynumber: 3.1 Consensus size: 246
36563465 CTCAAGACAT
*
36563475 GCTGAGGTATTTTCAATTTCTG---TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * * * * * **
36563537 AGCCTCAG--GACACGCTGAGGTA--ATTTCAATTT-T-TGTTGTCAAAAAAATCAACTCGTATT
66 AGCTTTAGATCACACACTGAGGTATCTTTTCAATTTATAT-TTTTC-AAAAAATCAACTCACATT
* * * * ** * * *
36563596 GTGAGAGGCGAGTTGAGCCT-CAGGTCACA-AGCCGAGGTATTTTCAATTTCCGTTTTTCAATTT
129 GCGAGAGGTGAGTTGAACCTCCA-GTCACATA-TCGAGGTATTTTCAAAATCTGCTTTTCAAATT
** * *
36563659 CTGCCTTTCAAAAAAAAAAATCAACTTATATTGCGAGAGGTAAGTTGAGCCTTGGCTCACGC
192 AAG--TTTC-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
* *
36563721 GCTGAGCTATTTTCAATTTC---TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
36563783 AGCTTTAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTG
66 AGCTTTAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTG
* * ** * * *
36563848 CGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTA
130 CGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATT-AA
* * * *
36563913 TTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGT
194 GTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
*
36563965 ACTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
1 GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTT
* * * * * *
36564030 GAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAA
65 GAGC--TTTAGA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAA
*
36564092 CTCATATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTT
121 CTCACATTGCGAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTT
* *
36564157 CAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCACGC
186 CAAATTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
36564218 GCTGAGCTATTTTCAATTTCTGTTTTT
1 GCTGAGCTATTTTCAATTTCTGTTTTT
36564245 AATGTCTGTT
Statistics
Matches: 445, Mismatches: 54, Indels: 43
0.82 0.10 0.08
Matches are distributed among these distances:
244 61 0.14
246 64 0.14
247 13 0.03
248 42 0.09
249 1 0.00
250 17 0.04
251 74 0.17
252 7 0.02
253 143 0.32
254 5 0.01
255 13 0.03
256 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (246 bp):
GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCTTTAGATCACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAAGT
TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
Found at i:36565495 original size:2 final size:2
Alignment explanation
Indices: 36565490--36565520 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
36565480 TAAATACTAT
*
36565490 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36565521 TTTTAAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:36565696 original size:15 final size:15
Alignment explanation
Indices: 36565673--36565704 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36565663 ATATTATTGT
36565673 TATAAATTTTTTATG
1 TATAAATTTTTTATG
*
36565688 TATATATTTTTTATG
1 TATAAATTTTTTATG
36565703 TA
1 TA
36565705 CGTTTCCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TATAAATTTTTTATG
Found at i:36570129 original size:6 final size:6
Alignment explanation
Indices: 36570111--36570154 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
36570101 TGCAAATGAA
* * *
36570111 TCATTT CTCATTT TCATTT TCATTT CCATTT CCATTT CCATTT T
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT T
36570155 TTGGGAAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (6 bp):
TCATTT
Found at i:36570135 original size:12 final size:12
Alignment explanation
Indices: 36570112--36570154 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
36570102 GCAAATGAAT
*
36570112 CATTTCTCATTTT
1 CATTT-TCATTTC
36570125 CATTTTCATTTC
1 CATTTTCATTTC
*
36570137 CATTTCCATTTC
1 CATTTTCATTTC
36570149 CATTTT
1 CATTTT
36570155 TTGGGAAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (12 bp):
CATTTTCATTTC
Found at i:36570146 original size:18 final size:19
Alignment explanation
Indices: 36570111--36570153 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
36570101 TGCAAATGAA
*
36570111 TCATTTCTCATTTTCATTT
1 TCATTTCTCATTTCCATTT
36570130 TCATTTC-CATTTCCATTT
1 TCATTTCTCATTTCCATTT
*
36570148 CCATTT
1 TCATTT
36570154 TTTGGGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (19 bp):
TCATTTCTCATTTCCATTT
Found at i:36572062 original size:45 final size:46
Alignment explanation
Indices: 36571983--36572078 Score: 124
Period size: 45 Copynumber: 2.1 Consensus size: 46
36571973 TATGTTGAGC
* *
36571983 TACTAAATAGTTAATTAAATTATATAGTATTTATTA-TTACTTATTTA
1 TACTAAATA-TTAACTAAATTACATAGTATTTATTATTTA-TTATTTA
* *
36572030 TACTAAAT-TTAACTAATTTACATATTATTTATTATTTATTATTTA
1 TACTAAATATTAACTAAATTACATAGTATTTATTATTTATTATTTA
36572075 TACT
1 TACT
36572079 TGGTCAATGA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
45 33 0.75
46 3 0.07
47 8 0.18
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (46 bp):
TACTAAATATTAACTAAATTACATAGTATTTATTATTTATTATTTA
Found at i:36572521 original size:31 final size:31
Alignment explanation
Indices: 36572486--36572546 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
36572476 TTACTACCTT
36572486 AGTAATTATATTACTATCCACTCACTCTGTA
1 AGTAATTATATTACTATCCACTCACTCTGTA
36572517 AGTAATTATATTACTATCCACTCACTCTGT
1 AGTAATTATATTACTATCCACTCACTCTGT
36572547 GGTGCCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (31 bp):
AGTAATTATATTACTATCCACTCACTCTGTA
Found at i:36582196 original size:2 final size:2
Alignment explanation
Indices: 36582152--36582179 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36582142 TGGCGGACTT
36582152 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36582180 AAAGGTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36587340 original size:20 final size:20
Alignment explanation
Indices: 36587317--36587376 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
36587307 TTAAATTCTA
**
36587317 AAAGATAAATGCAAATAAAT
1 AAAGATAAATAAAAATAAAT
* * *
36587337 AAAGATAATTAAAGATAATT
1 AAAGATAAATAAAAATAAAT
36587357 AAAGATAAATAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
36587377 CCTAAAATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:36587344 original size:10 final size:10
Alignment explanation
Indices: 36587317--36587376 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
36587307 TTAAATTCTA
36587317 AAAGATAAAT
1 AAAGATAAAT
*
36587327 GCAA-ATAAAT
1 -AAAGATAAAT
*
36587337 AAAGATAATT
1 AAAGATAAAT
*
36587347 AAAGATAATT
1 AAAGATAAAT
36587357 AAAGATAAAT
1 AAAGATAAAT
*
36587367 AAAAATAAAT
1 AAAGATAAAT
36587377 CCTAAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:36587412 original size:13 final size:14
Alignment explanation
Indices: 36587396--36587428 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
36587386 TAAATCTAAG
*
36587396 TAATTATCCTTA-A
1 TAATTATCCTAATA
36587409 TAATTATCCTAATA
1 TAATTATCCTAATA
36587423 TAATTA
1 TAATTA
36587429 AACATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATTATCCTAATA
Found at i:36588804 original size:21 final size:20
Alignment explanation
Indices: 36588780--36588818 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
36588770 AAACTTGTAT
36588780 ATCTATCAAAAAACATTCATA
1 ATCTATCAAAAAAC-TTCATA
*
36588801 ATCTATCAAGAAACTTCA
1 ATCTATCAAAAAACTTCA
36588819 AAAACATGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.49, C:0.21, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCTATCAAAAAACTTCATA
Found at i:36594070 original size:23 final size:23
Alignment explanation
Indices: 36594040--36594085 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
36594030 ATCGGGAGAA
36594040 AACGAAAGTTGTCGACTAGTAGC
1 AACGAAAGTTGTCGACTAGTAGC
36594063 AACGAAAGTTGTCGACTAGTAGC
1 AACGAAAGTTGTCGACTAGTAGC
36594086 CCCGTCCCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (23 bp):
AACGAAAGTTGTCGACTAGTAGC
Done.