Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 104 of 226
Found at i:35943206 original size:5 final size:5
Alignment explanation
Indices: 35943196--35943233 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
35943186 TTTGTTTTAT
35943196 TATAA TATAA TATAA TATAA TATAA TATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
35943234 CTTAAATCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.12
5 28 0.88
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:35945730 original size:49 final size:49
Alignment explanation
Indices: 35945677--35945774 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 49
35945667 AAGTTGTAAG
* * *
35945677 TCAATTGTATATCATGCTAGAG-CTATATGTTTATTTACACTATCTTGTT
1 TCAATTCTATATCATGCTAGAGTC-ATATGCTTATTTACAATATCTTGTT
* * *
35945726 TCAATTCTATATCCTTCTAGAGTCGTATGCTTATTTACAATATCTTGTT
1 TCAATTCTATATCATGCTAGAGTCATATGCTTATTTACAATATCTTGTT
35945775 AATATAATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 41 0.98
50 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (49 bp):
TCAATTCTATATCATGCTAGAGTCATATGCTTATTTACAATATCTTGTT
Found at i:35946670 original size:19 final size:22
Alignment explanation
Indices: 35946632--35946672 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 22
35946622 TATCAATGAG
35946632 TATTCTCTTTAATCTTATATTT
1 TATTCTCTTTAATCTTATATTT
35946654 TATTCT-TTT-AT-TTATATTT
1 TATTCTCTTTAATCTTATATTT
35946673 CGTTAGCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 3 0.16
22 6 0.32
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (22 bp):
TATTCTCTTTAATCTTATATTT
Found at i:35949295 original size:9 final size:9
Alignment explanation
Indices: 35949281--35949318 Score: 67
Period size: 9 Copynumber: 4.1 Consensus size: 9
35949271 TTTTGTTTTA
35949281 TTTCTTCTT
1 TTTCTTCTT
35949290 TTTCTTCTT
1 TTTCTTCTT
35949299 TTTCTTCTT
1 TTTCTTCTT
35949308 TTTCTTACTT
1 TTTCTT-CTT
35949318 T
1 T
35949319 CGTTTTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 24 0.86
10 4 0.14
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTCTTCTT
Found at i:35964708 original size:56 final size:49
Alignment explanation
Indices: 35964611--35964787 Score: 142
Period size: 50 Copynumber: 3.4 Consensus size: 49
35964601 ATTTGGGTAA
* * * *
35964611 AGAGATCCTATGTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGT-TTGGACATGGCA-TGGCATC--CGA-G--ATG
35964667 AGAGGTCCCATGTAAGACCATGTCTTGGACATGGCACTGGCA-CCGAGATG
1 AGAGGTCCCATGTAAGACCATGT-TTGGACATGGCA-TGGCATCCGAGATG
** *
35964717 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCAT-CGATATG
1 AGAGGTCCCATGTAAGACCATGTTT-GGACATGGCAT-GGCATCCGAGATG
** * *
35964767 AGAACTCCCACGTAAGTCCAT
1 AGAGGTCCCATGTAAGACCAT
35964788 ATCTGGGATA
Statistics
Matches: 105, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
49 3 0.03
50 61 0.58
52 1 0.01
53 2 0.02
55 1 0.01
56 37 0.35
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
AGAGGTCCCATGTAAGACCATGTTTGGACATGGCATGGCATCCGAGATG
Found at i:35964718 original size:50 final size:48
Alignment explanation
Indices: 35964664--35964850 Score: 153
Period size: 50 Copynumber: 3.8 Consensus size: 48
35964654 CATTGAGGTT
* *
35964664 ATGAGAGGTCCCATGTAAGACCATGTCTTGGACATGGCACTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTTGGACATGGCA-TGGCA-CGAC
* *
35964714 ATGAGAGGTCCCCCGTAAGACCATGT-TTGGGACATGGCATGGGCATCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTT-GGACATGGCAT-GGCA-CGAC
** * * * *
35964764 ATGAGAACTCCCACGTAAGTCCATATCTGGGATATGGCATTGGCA-GTAC
1 ATGAGAGGTCCCACGTAAGACCATGTCTTGGACATGGCA-TGGCACG-AC
* * ** * *
35964813 AAGAAACATCCCATGTAAGACCATGTCTAGGACATGGC
1 ATGAGAGGTCCCACGTAAGACCATGTCTTGGACATGGC
35964851 TTTGGCATGT
Statistics
Matches: 111, Mismatches: 21, Indels: 11
0.78 0.15 0.08
Matches are distributed among these distances:
48 1 0.01
49 33 0.30
50 75 0.68
51 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.21
Consensus pattern (48 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTTGGACATGGCATGGCACGAC
Found at i:35964808 original size:100 final size:102
Alignment explanation
Indices: 35964622--35964808 Score: 234
Period size: 100 Copynumber: 1.8 Consensus size: 102
35964612 GAGATCCTAT
* ** *
35964622 GTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGGTTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTATGGGACATGGCATGGGCATC--TGA-G-TATGAGAACTCCCACGTAAGACCA
* *
35964687 TGTCTTGGACATGGCACTGGCACCGAGATGAGAGGTCCCCC
62 TATCTGGGACATGGCACTGGCACCGAGATGAGAGGTCCCCC
* *
35964728 GTAAGACCATGTTTGGGACATGGCATGGGCATC-GA-TATGAGAACTCCCACGTAAGTCCATATC
1 GTAAGACCATGTATGGGACATGGCATGGGCATCTGAGTATGAGAACTCCCACGTAAGACCATATC
* *
35964791 TGGGATATGGCATTGGCA
66 TGGGACATGGCACTGGCA
35964809 GTACAAGAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
100 38 0.54
103 2 0.03
106 31 0.44
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (102 bp):
GTAAGACCATGTATGGGACATGGCATGGGCATCTGAGTATGAGAACTCCCACGTAAGACCATATC
TGGGACATGGCACTGGCACCGAGATGAGAGGTCCCCC
Found at i:35975870 original size:28 final size:26
Alignment explanation
Indices: 35975839--35975898 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
35975829 ACTAAAGTGT
*
35975839 TTTCAGTACATATTACTA-CCTATAGCAG
1 TTTCAGTA-ATA-TACTATCC-ATAACAG
35975867 TTTCAG-AATATACTATCCATAACAG
1 TTTCAGTAATATACTATCCATAACAG
35975892 TTTCAGT
1 TTTCAGT
35975899 TTAAAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 17 0.59
26 5 0.17
27 1 0.03
28 6 0.21
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (26 bp):
TTTCAGTAATATACTATCCATAACAG
Found at i:35979908 original size:10 final size:11
Alignment explanation
Indices: 35979866--35979910 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
35979856 CTGTCGAAAA
35979866 TAATCAAAA-T
1 TAATCAAAATT
35979876 TAATCAAAATT
1 TAATCAAAATT
*
35979887 T-ATTATAAATT
1 TAATCA-AAATT
35979898 TAAT-AAAATT
1 TAATCAAAATT
35979908 TAA
1 TAA
35979911 CATGTTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 20 0.65
11 9 0.29
12 2 0.06
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (11 bp):
TAATCAAAATT
Found at i:35983692 original size:16 final size:15
Alignment explanation
Indices: 35983667--35983700 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
35983657 AAAGTTGATA
*
35983667 ATAATTAATATACATT
1 ATAATAAATATA-ATT
35983683 ATAATAAATATAATT
1 ATAATAAATATAATT
35983698 ATA
1 ATA
35983701 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:35983824 original size:29 final size:30
Alignment explanation
Indices: 35983766--35983825 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
35983756 GCCTTTTAAA
* * *
35983766 ATATTTACAAAAAGAGGCATCTAATTTTTG
1 ATATTTACAAAAAGAGGCAACCAAATTTTG
35983796 ATATTTACAAAAAGA-GCAACCAAATTTTG
1 ATATTTACAAAAAGAGGCAACCAAATTTTG
35983825 A
1 A
35983826 AAATAGTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (30 bp):
ATATTTACAAAAAGAGGCAACCAAATTTTG
Found at i:36018913 original size:44 final size:44
Alignment explanation
Indices: 36018849--36019474 Score: 488
Period size: 44 Copynumber: 13.8 Consensus size: 44
36018839 TCATGGTGAG
* * * *
36018849 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAA
* * * * *
36018893 CCTTATCTCCCTAAAGTTGTAGTGGAACAAATTGAAGATAGCAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAA
* * *
36018938 TCTTATCCCCCTGAAA-TTACAGTGAAGCAGATTGAAGCTACAAA
1 TCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTGAAGCTACAAA
* *
36018982 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAA
* * * *
36019027 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAA
* * *
36019071 CCTTATCCCCCCTGAAA-TTGCAGTGAAGCAGATTGAAGCTACAAA
1 TCTTAT-CTCCCT-AAAGTTGCAGTGGAGCAGATTGAAGCTACAAA
* * * * *
36019116 TCTTATCTCCCTAAAGTTGTAGTAGAGTAGATTGAAGATAGTAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAA
* * * * *
36019161 TCTTATCTCTCTGAAGTTGCAGTAGAGCATATTAAAGCTACAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAA
* * *
36019205 CCTTATCTCCCTGAAA-TTGCAGTGGAGTAGATTGAAGTTACAAA
1 TCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTGAAGCTACAAA
* * * * * *
36019249 TCTTATCTCACTGAAGTTGCAGTGGAGCAAATGGAAACAACAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAA
** * * * * * *
36019293 TCCAATAC-CTCTGAAGTTGCAGTAGG-TCGGATTAAATCTACCATAGCAA
1 TCTTAT-CTCCCTAAAGTTGCAGT-GGAGCAGATTGAAGCTA-C--A--AA
* * ** *
36019342 GTCTTATCTCCCTAAAGTTGCAATGGAATAGACTAAAGCTACAAGATAACAAA
1 -TCTTATCTCCCTAAAGTTGCAGTGG---AG-C---AGATTGAAGCT-ACAAA
* * *
36019395 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAA
* *
36019439 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAA
36019475 ATTACAATTC
Statistics
Matches: 460, Mismatches: 94, Indels: 56
0.75 0.15 0.09
Matches are distributed among these distances:
43 7 0.02
44 235 0.51
45 155 0.34
46 5 0.01
47 1 0.00
49 7 0.02
50 16 0.03
52 23 0.05
53 2 0.00
54 1 0.00
55 1 0.00
57 6 0.01
58 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAA
Found at i:36018981 original size:89 final size:88
Alignment explanation
Indices: 36018849--36019474 Score: 499
Period size: 89 Copynumber: 6.9 Consensus size: 88
36018839 TCATGGTGAG
* * * * * * * *
36018849 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAAGTTGTA
1 TCTTATCTCCCTGAAATTGCAGTGAAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCA
*
36018914 GTGGAACAAATTGAAGATAGCAAA
66 GTGGAGCAAATTGAAGATA-CAAA
* *
36018938 TCTTATCCCCCTGAAATTACAGTGAAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAATTGCAGTGAAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCA
*
36019003 GTGGAGCAGATTGAAGATAGCAAA
66 GTGGAGCAAATTGAAGATA-CAAA
* * * * * *
36019027 TCTTATCTCTCTGAAGTTGCAGT-AGAGCAGATTAAAGCTACAAACCTTATCCCCCCTGAAATTG
1 TCTTATCTCCCTGAAATTGCAGTGA-AGCAGATTGAAGCTACAAATCTTAT-CTCCCTGAAGTTG
* * *
36019091 CAGTGAAGCAGATTGAAGCTACAAA
64 CAGTGGAGCAAATTGAAGATACAAA
* * * * *
36019116 TCTTATCTCCCT-AAAGTTGTAGT-AGAGTAGATTGAAGATAGTAAATCTTATCTCTCTGAAGTT
1 TCTTATCTCCCTGAAA-TTGCAGTGA-AGCAGATTGAAGCTA-CAAATCTTATCTCCCTGAAGTT
* * * *
36019179 GCAGTAGAGCATATTAAAGCTACAAA
63 GCAGTGGAGCAAATTGAAGATACAAA
* * * * *
36019205 CCTTATCTCCCTGAAATTGCAGTGGAGTAGATTGAAGTTACAAATCTTATCTCACTGAAGTTGCA
1 TCTTATCTCCCTGAAATTGCAGTGAAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCA
* *
36019270 GTGGAGCAAATGGAA-ACAACAAA
66 GTGGAGCAAATTGAAGA-TACAAA
** * * * * * * *
36019293 TCCAATAC-CTCTGAAGTTGCAGT-AGGTCGGATTAAATCTACCATAGCAAGTCTTATCTCCCTA
1 TCTTAT-CTCCCTGAAATTGCAGTGAAG-CAGATTGAAGCTA-C--A--AA-TCTTATCTCCCTG
* **
36019356 AAGTTGCAATGGAATAGACTAAAGCTACAAGATAACAAA
58 AAGTTGCAGTGG---AG-C-AAA--TTGAAGAT-ACAAA
* * * *
36019395 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAATTGCAGTGAAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCA
* *
36019460 GTGGAGTAGATTGAA
66 GTGGAGCAAATTGAA
36019475 ATTACAATTC
Statistics
Matches: 430, Mismatches: 81, Indels: 52
0.76 0.14 0.09
Matches are distributed among these distances:
87 1 0.00
88 66 0.15
89 221 0.51
90 41 0.10
91 3 0.01
93 4 0.01
94 22 0.05
96 23 0.05
97 4 0.01
98 1 0.00
99 4 0.01
101 5 0.01
102 34 0.08
103 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (88 bp):
TCTTATCTCCCTGAAATTGCAGTGAAGCAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCA
GTGGAGCAAATTGAAGATACAAA
Found at i:36019106 original size:134 final size:133
Alignment explanation
Indices: 36018849--36019471 Score: 601
Period size: 134 Copynumber: 4.6 Consensus size: 133
36018839 TCATGGTGAG
* * ** * * * *
36018849 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCTCTGAAGTTGCA
* * * * * * * *
36018914 GTGGAACAAATTGAAGATAGCAAATCTTATCCCCCTGAAATTACAGTGAAGCAGATTGAAGCTAC
66 GTAGAGCAGATTAAAGCTACCAAACCTTATCCCCCTGAAATTGCAGTGAAGCAGATTGAAGCTAC
36018979 AAA
131 AAA
36018982 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCTCTGAAGTTGC
36019047 AGTAGAGCAGATTAAAGCTA-CAAACCTTATCCCCCCTGAAATTGCAGTGAAGCAGATTGAAGCT
65 AGTAGAGCAGATTAAAGCTACCAAACCTTAT-CCCCCTGAAATTGCAGTGAAGCAGATTGAAGCT
36019111 ACAAA
129 ACAAA
* * * * *
36019116 TCTTATCTCCCTAAAGTTGTAGTAGAGTAGATTGAAGATAGTAAATCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTTATCTCTCTGAAGTTGC
* * * * *
36019181 AGTAGAGCATATTAAAGCTA-CAAACCTTATCTCCCTGAAATTGCAGTGGAGTAGATTGAAGTTA
65 AGTAGAGCAGATTAAAGCTACCAAACCTTATCCCCCTGAAATTGCAGTGAAGCAGATTGAAGCTA
36019245 CAAA
130 CAAA
* * * * **
36019249 TCTTATCTCACTGAAGTTGCAGTGGAGCAAATGGAA-ACAACAAATCCAATAC-CTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACAAATCTTAT-CTCTCTGAAGTTG
* * * * *
36019312 CAGTAG-GTCGGATTAAATCTACCATAGCAAGTCTTATCTCCCT-AAAGTTGCAATGGAATAGAC
64 CAGTAGAG-CAGATTAAAGCTACC--A--AA-CCTTATCCCCCTGAAA-TTGCAGT-G-A-AG-C
* ** *
36019375 TAAAGCTACAAGATAACAAA
118 ---AGATTGAAGCT-ACAAA
* * * *
36019395 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCTCTGAAGTTGCA
* *
36019460 GTGGAGTAGATT
66 GTAGAGCAGATT
36019472 GAAATTACAA
Statistics
Matches: 407, Mismatches: 60, Indels: 33
0.81 0.12 0.07
Matches are distributed among these distances:
131 1 0.00
132 35 0.09
133 111 0.27
134 161 0.40
135 1 0.00
137 5 0.01
138 17 0.04
139 1 0.00
141 2 0.00
145 8 0.02
146 64 0.16
147 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (133 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTTATCTCTCTGAAGTTGCA
GTAGAGCAGATTAAAGCTACCAAACCTTATCCCCCTGAAATTGCAGTGAAGCAGATTGAAGCTAC
AAA
Found at i:36019481 original size:44 final size:44
Alignment explanation
Indices: 36019390--36019507 Score: 168
Period size: 44 Copynumber: 2.7 Consensus size: 44
36019380 CTACAAGATA
36019390 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCT
*
36019434 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAA-TT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAAGCT
* * *
36019478 ACAATTCCTATAC-CCCTGAAGTTGAAGTGG
1 ACAAATCTTAT-CTCCCTGAAGTTGCAGTGG
36019508 GTTGGAATGA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
44 64 0.94
45 4 0.06
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCT
Found at i:36020265 original size:47 final size:47
Alignment explanation
Indices: 36020178--36020271 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
36020168 TTGGGCTTAA
* **
36020178 GTTTCAGATGCCAAAACGACGTCGTTTTGGCTGACCCGATCCAACCT
1 GTTTCAGATGCCAAAACGACATCGTTTTGGCCAACCCGATCCAACCT
* * *
36020225 GTTTTAGATGCCAAAACGACATCGTTTTGGCCAACTCGATCCGACCT
1 GTTTCAGATGCCAAAACGACATCGTTTTGGCCAACCCGATCCAACCT
36020272 AAACCACTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
GTTTCAGATGCCAAAACGACATCGTTTTGGCCAACCCGATCCAACCT
Found at i:36028182 original size:5 final size:5
Alignment explanation
Indices: 36028174--36028206 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
36028164 CTTAATTCTA
36028174 ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG ATT
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG ATT
36028207 CTTTTCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.61
Consensus pattern (5 bp):
ATTTG
Found at i:36029467 original size:20 final size:21
Alignment explanation
Indices: 36029442--36029491 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
36029432 TGTCACAACC
36029442 TAAAAATTA-TTAAATTTTAA
1 TAAAAATTATTTAAATTTTAA
* *
36029462 TAAAAAATATTTAAATTTTAT
1 TAAAAATTATTTAAATTTTAA
36029483 TAAAAATTA
1 TAAAAATTA
36029492 GAAAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAAAATTATTTAAATTTTAA
Found at i:36029505 original size:19 final size:20
Alignment explanation
Indices: 36029442--36029529 Score: 65
Period size: 19 Copynumber: 4.5 Consensus size: 20
36029432 TGTCACAACC
* *
36029442 TAAAAATTA-TTAAATTTTAA
1 TAAAAATTAGTAAAAATTT-A
* * * *
36029462 TAAAAAATATTTAAATTTTA
1 TAAAAATTAGTAAAAATTTA
36029482 TTAAAAATTAG-AAAAATTTA
1 -TAAAAATTAGTAAAAATTTA
* *
36029502 TAAAAA-TCGTAAAAACTTA
1 TAAAAATTAGTAAAAATTTA
36029521 TAAAAATTA
1 TAAAAATTA
36029530 TCGTACCGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.04
19 20 0.36
20 17 0.30
21 17 0.30
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAAATTAGTAAAAATTTA
Found at i:36029525 original size:9 final size:9
Alignment explanation
Indices: 36029483--36029530 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
36029473 TAAATTTTAT
36029483 TAAAAATTA
1 TAAAAATTA
*
36029492 GAAAAATTTA
1 TAAAAA-TTA
**
36029502 TAAAAATCG
1 TAAAAATTA
36029511 TAAAAACTTA
1 TAAAAA-TTA
36029521 TAAAAATTA
1 TAAAAATTA
36029530 T
1 T
36029531 CGTACCGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
9 16 0.52
10 15 0.48
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:36029730 original size:11 final size:11
Alignment explanation
Indices: 36029716--36029786 Score: 54
Period size: 11 Copynumber: 6.1 Consensus size: 11
36029706 TTTTGAGACA
36029716 TTTTATAATTT
1 TTTTATAATTT
*
36029727 TTTTATGATTT
1 TTTTATAATTT
* *
36029738 TTATAAATATTACCAT
1 TTTTATA-ATT----T
36029754 TTTTATAATTT
1 TTTTATAATTT
36029765 TTTTATAA-TT
1 TTTTATAATTT
*
36029775 TTTAATAATTT
1 TTTTATAATTT
36029786 T
1 T
36029787 AAATATATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
10 9 0.19
11 26 0.55
12 3 0.06
15 3 0.06
16 6 0.13
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:36032423 original size:44 final size:44
Alignment explanation
Indices: 36032360--36032447 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
36032350 GTGAGTGTTA
36032360 GATATAAGTACGTATTCAACATGGATGTATTAAAGTTTTTTTCC
1 GATATAAGTACGTATTCAACATGGATGTATTAAAGTTTTTTTCC
36032404 GATATAAGTACGTATTCAACATGGATGTATTAAAGTTTTTTTCC
1 GATATAAGTACGTATTCAACATGGATGTATTAAAGTTTTTTTCC
36032448 AAGTTTCCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (44 bp):
GATATAAGTACGTATTCAACATGGATGTATTAAAGTTTTTTTCC
Found at i:36036552 original size:19 final size:19
Alignment explanation
Indices: 36036528--36036565 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
36036518 CCAAAAGCAT
36036528 GCTTTATACATATAGTATA
1 GCTTTATACATATAGTATA
36036547 GCTTTATACATATAGTATA
1 GCTTTATACATATAGTATA
36036566 ACCACGCTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (19 bp):
GCTTTATACATATAGTATA
Found at i:36038173 original size:25 final size:25
Alignment explanation
Indices: 36038123--36038195 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 25
36038113 GGTATGTTTT
*
36038123 TACGAGCT--GTAATCGGAAAGCTCA
1 TACGAGCTGAGTAA-CGGTAAGCTCA
36038147 TACGAGCTGAGTAACGGTAAGCTCA
1 TACGAGCTGAGTAACGGTAAGCTCA
*
36038172 TATGAGCTGAGTAACGGTAAGCTC
1 TACGAGCTGAGTAACGGTAAGCTC
36038196 TCTCGAGCTG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
24 8 0.18
25 33 0.73
26 4 0.09
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (25 bp):
TACGAGCTGAGTAACGGTAAGCTCA
Found at i:36038216 original size:25 final size:26
Alignment explanation
Indices: 36038131--36038207 Score: 106
Period size: 25 Copynumber: 3.0 Consensus size: 26
36038121 TTTACGAGCT
*
36038131 GTAATCGGAAAGCTCATA-CGAGCTGA
1 GTAA-CGGTAAGCTCATATCGAGCTGA
36038157 GTAACGGTAAGCTCATAT-GAGCTGA
1 GTAACGGTAAGCTCATATCGAGCTGA
*
36038182 GTAACGGTAAGCTC-TCTCGAGCTGA
1 GTAACGGTAAGCTCATATCGAGCTGA
36038207 G
1 G
36038208 AATCAGTAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
24 2 0.04
25 41 0.87
26 4 0.09
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (26 bp):
GTAACGGTAAGCTCATATCGAGCTGA
Found at i:36044144 original size:25 final size:24
Alignment explanation
Indices: 36044107--36044172 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 24
36044097 TCCTATACAT
*
36044107 GTATGCTCATACGAGCTCTGAATCG
1 GTATACTCATACGAGCTCT-AATCG
* *
36044132 GTATACTCTTACGAGCTGTAATCG
1 GTATACTCATACGAGCTCTAATCG
36044156 GTA-AGCTCATACGAGCT
1 GTATA-CTCATACGAGCT
36044173 GAGTAACGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 1 0.03
24 19 0.53
25 16 0.44
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
GTATACTCATACGAGCTCTAATCG
Found at i:36044168 original size:24 final size:24
Alignment explanation
Indices: 36044111--36044198 Score: 90
Period size: 25 Copynumber: 3.6 Consensus size: 24
36044101 ATACATGTAT
*
36044111 GCTCATACGAGCTCTGAATCGGTATA
1 GCTCATACGAGCTGT-AATCGGTA-A
*
36044137 -CTCTTACGAGCTGTAATCGGTAA
1 GCTCATACGAGCTGTAATCGGTAA
36044160 GCTCATACGAGCTGAGTAA-CGGTAA
1 GCTCATACGAGCT--GTAATCGGTAA
* *
36044185 CCTCATACAAGCTG
1 GCTCATACGAGCTG
36044199 AATAACAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
23 2 0.04
24 19 0.35
25 29 0.54
26 4 0.07
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
GCTCATACGAGCTGTAATCGGTAA
Found at i:36049770 original size:7 final size:7
Alignment explanation
Indices: 36049758--36049802 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
36049748 TAAAAAAAAT
36049758 TAAACCC
1 TAAACCC
36049765 TAAACCC
1 TAAACCC
*
36049772 TAAGCCC
1 TAAACCC
*
36049779 TAAGCCC
1 TAAACCC
*
36049786 TAGACCC
1 TAAACCC
*
36049793 TAAACTC
1 TAAACCC
36049800 TAA
1 TAA
36049803 TTTATTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.38, C:0.38, G:0.07, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:36064293 original size:25 final size:25
Alignment explanation
Indices: 36064259--36064308 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
36064249 ATAATAAAAC
36064259 AATAATAATAAAATATTCAACCAAT
1 AATAATAATAAAATATTCAACCAAT
36064284 AATAATAATAAAATATTCAACCAAT
1 AATAATAATAAAATATTCAACCAAT
36064309 CATATTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (25 bp):
AATAATAATAAAATATTCAACCAAT
Found at i:36067082 original size:21 final size:21
Alignment explanation
Indices: 36067058--36067097 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36067048 TTTTCTAAAA
* *
36067058 TTAAAAGTCAAAACTATTAAG
1 TTAAAAGGCAAAACCATTAAG
36067079 TTAAAAGGCAAAACCATTA
1 TTAAAAGGCAAAACCATTA
36067098 TATTGTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (21 bp):
TTAAAAGGCAAAACCATTAAG
Found at i:36068161 original size:19 final size:20
Alignment explanation
Indices: 36068129--36068166 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
36068119 CAAGCTGATT
36068129 TTAGCTCAATTTCAGCTCCC
1 TTAGCTCAATTTCAGCTCCC
36068149 TTAGCTC-ATTTCAGCTCC
1 TTAGCTCAATTTCAGCTCC
36068167 AACCAGCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.18, C:0.34, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAGCTCAATTTCAGCTCCC
Found at i:36070976 original size:36 final size:36
Alignment explanation
Indices: 36070924--36071120 Score: 252
Period size: 36 Copynumber: 5.5 Consensus size: 36
36070914 ATATCAATAT
* *
36070924 TCCAACCGAAGCACACCAGATGCTCATAAGAGCTAA
1 TCCATCCGAAACACACCAGATGCTCATAAGAGCTAA
*
36070960 TCCATCCGAAACACACCATATGCTCATAAGAGCTAA
1 TCCATCCGAAACACACCAGATGCTCATAAGAGCTAA
* ** * **
36070996 TCCATCCGAAGCATGCCGGATGCTCATAAGATTTAA
1 TCCATCCGAAACACACCAGATGCTCATAAGAGCTAA
* *
36071032 TCCATTCGAAACACACCAGATGTTCATAAGAGCTAA
1 TCCATCCGAAACACACCAGATGCTCATAAGAGCTAA
* * *
36071068 T-CATCCGAAATAGACCAGATGCTTATAAGAGCTAA
1 TCCATCCGAAACACACCAGATGCTCATAAGAGCTAA
*
36071103 TCCATCCTAAACACACCA
1 TCCATCCGAAACACACCA
36071121 AAACAGGGAG
Statistics
Matches: 134, Mismatches: 26, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
35 30 0.22
36 104 0.78
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.20
Consensus pattern (36 bp):
TCCATCCGAAACACACCAGATGCTCATAAGAGCTAA
Found at i:36072044 original size:21 final size:21
Alignment explanation
Indices: 36072003--36072044 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
36071993 AAAATAAGAA
* *
36072003 TGTTTTAATCTTTCTTTAATT
1 TGTTTTAATATTTCTTAAATT
36072024 TGTTTTAA-ATTTCATTAAATT
1 TGTTTTAATATTTC-TTAAATT
36072045 ACAAAATTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (21 bp):
TGTTTTAATATTTCTTAAATT
Found at i:36079988 original size:40 final size:40
Alignment explanation
Indices: 36079919--36080145 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
36079909 TTATTGGTGA
* * * *
36079919 CCCTGTTTTTACTTCGGTACCCCCGAATGCACATACGTGC
1 CCCTATTTGTACTTTGGTACCCCTGAATGCACATACGTGC
*
36079959 CCCTATTTGTACTTTGGTACCCCTAAATGCACATACGTGC
1 CCCTATTTGTACTTTGGTACCCCTGAATGCACATACGTGC
* *
36079999 CCCTGTTTGTACTTTGGTACCCATGAATGCACATACGTGC
1 CCCTATTTGTACTTTGGTACCCCTGAATGCACATACGTGC
*
36080039 CCCTATTTGTACTTCGGTACCCCTGAATGCACATACGTGC
1 CCCTATTTGTACTTTGGTACCCCTGAATGCACATACGTGC
* *
36080079 CCCTGA-TTGTACTTTGGTACCCCTAAATGCACATACCTG-
1 CCCT-ATTTGTACTTTGGTACCCCTGAATGCACATACGTGC
* * **
36080118 TCTTATTTGTACTTTGGTAATCCTGAAT
1 CCCTATTTGTACTTTGGTACCCCTGAAT
36080146 TAAATAATAT
Statistics
Matches: 166, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 21 0.13
40 143 0.86
41 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (40 bp):
CCCTATTTGTACTTTGGTACCCCTGAATGCACATACGTGC
Found at i:36080081 original size:20 final size:20
Alignment explanation
Indices: 36079938--36080084 Score: 66
Period size: 20 Copynumber: 7.3 Consensus size: 20
36079928 TACTTCGGTA
*
36079938 CCCCCGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
* * * ** *
36079958 CCCCT-ATTTGTACTTTGGTA
1 CCCCTGA-ATGCACATACGTG
*
36079978 CCCCTAAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
** * * ** *
36079998 CCCCTGTTTGTACTTTGGTA
1 CCCCTGAATGCACATACGTG
*
36080018 CCCATGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
* * * *
36080038 CCCCT-ATTTGTAC-TTCGGTA
1 CCCCTGA-ATGCACATAC-GTG
36080058 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
36080078 CCCCTGA
1 CCCCTGA
36080085 TTGTACTTTG
Statistics
Matches: 83, Mismatches: 38, Indels: 12
0.62 0.29 0.09
Matches are distributed among these distances:
19 4 0.05
20 75 0.90
21 4 0.05
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.29
Consensus pattern (20 bp):
CCCCTGAATGCACATACGTG
Found at i:36080101 original size:20 final size:20
Alignment explanation
Indices: 36079965--36080102 Score: 62
Period size: 20 Copynumber: 6.9 Consensus size: 20
36079955 GTGCCCCTAT
* *
36079965 TTGTACTTTGGTACCCCTAA
1 TTGTACTTAGGTACCCCTGA
* * * * * *
36079985 ATGCACATACGTGCCCCTGT
1 TTGTACTTAGGTACCCCTGA
* *
36080005 TTGTACTTTGGTACCCATGA
1 TTGTACTTAGGTACCCCTGA
* * * * *
36080025 ATGCACATACGTGCCCCT-A
1 TTGTACTTAGGTACCCCTGA
*
36080044 TTTGTACTTCGGTACCCCTGA
1 -TTGTACTTAGGTACCCCTGA
* * * * *
36080065 ATGCACATACGTGCCCCTGA
1 TTGTACTTAGGTACCCCTGA
*
36080085 TTGTACTTTGGTACCCCT
1 TTGTACTTAGGTACCCCT
36080103 AAATGCACAT
Statistics
Matches: 75, Mismatches: 41, Indels: 4
0.62 0.34 0.03
Matches are distributed among these distances:
19 1 0.01
20 73 0.97
21 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.33
Consensus pattern (20 bp):
TTGTACTTAGGTACCCCTGA
Found at i:36090552 original size:75 final size:74
Alignment explanation
Indices: 36090471--36090766 Score: 306
Period size: 75 Copynumber: 3.9 Consensus size: 74
36090461 CTAGTCGGGG
* * * * * * *
36090471 AAACCAACATATATAATGATGTTCCGAGCACTGGTCAGATAAACTGATGGAAGTTGTGGCCAATG
1 AAACCAACAAATATAATGATGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTG-GGCCAACG
36090536 CTAGTCAAAT
65 CTAGTCAAAT
* * * * *
36090546 AAACCAA-AAGATATAATGATGTGCCCAGCACTAGTTATATAAACTGATGAAAGTTGCGCCTAGC
1 AAACCAACAA-ATATAATGATGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTGGGCC-AAC
*
36090610 GCTAGTCAGAT
64 GCTAGTCAAAT
* * * * * *
36090621 AAATCAACAAATATAATGGTGTGCCCAACACTAATTAGATAAACTGACCAAAGTTGGGCCCAACG
1 AAACCAACAAATATAATGATGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTGGG-CCAACG
36090686 CTAGTCAAAT
65 CTAGTCAAAT
* * * * * * *
36090696 GAACCAACAAATATAAAGGTGTGCCAAGCACTAGTCACATAAACTGACGAAAATTTTGGCCAACG
1 AAACCAACAAATATAATGATGTGCCCAGCACTAGTCAGATAAACTGACG-AAAGTTGGGCCAACG
36090761 CTAGTC
65 CTAGTC
36090767 GCATAAATGG
Statistics
Matches: 184, Mismatches: 32, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
74 4 0.02
75 169 0.92
76 11 0.06
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (74 bp):
AAACCAACAAATATAATGATGTGCCCAGCACTAGTCAGATAAACTGACGAAAGTTGGGCCAACGC
TAGTCAAAT
Found at i:36115478 original size:23 final size:24
Alignment explanation
Indices: 36115434--36115478 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
36115424 AAAATCCTAC
*
36115434 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
36115458 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
36115479 GTGGGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.20
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:36118775 original size:51 final size:49
Alignment explanation
Indices: 36118610--36118795 Score: 171
Period size: 51 Copynumber: 3.7 Consensus size: 49
36118600 AGTGAAAGTG
* *
36118610 ATGGTCACGTGTGTATTACTATGTGCAGGCTACTACGTGTACGAGAATG-A
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACG-G-ATGTA
* * * * * *
36118660 CA-GGTCGCATGTGTAGTACTACGTGCAGGCTATTATGCGTACCAGATAGT-
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGGAT-GTA
* * * *
36118710 TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CGGAT-GTA
36118762 ATGGTCACATGTGTAGTACTATGTGCAGGCTACT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACT
36118796 GTGTGAACCG
Statistics
Matches: 106, Mismatches: 23, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
49 2 0.02
50 34 0.32
51 69 0.65
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACGGATGTA
Found at i:36118860 original size:45 final size:45
Alignment explanation
Indices: 36118809--36118895 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
36118799 TGAACCGAAT
* * * *
36118809 ATCATTGATTAGTAAGGTGGTTGTTATGTGTTGATTCCACCGGAC
1 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGGAC
36118854 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
36118896 AGTATATGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (45 bp):
ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGGAC
Found at i:36125355 original size:29 final size:30
Alignment explanation
Indices: 36125322--36125392 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
36125312 AAAAATAATT
36125322 TTTTTTAAATTTTGTT-AATAATT-TTA-A
1 TTTTTTAAATTTTGTTAAATAATTCTTATA
*
36125349 TGATTTTT-AATTTTTTTAAATAATTCTTATA
1 T--TTTTTAAATTTTGTTAAATAATTCTTATA
36125380 TTTTTTAAATTTT
1 TTTTTTAAATTTT
36125393 AAAAATTAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
27 1 0.03
28 8 0.22
29 17 0.46
30 9 0.24
31 2 0.05
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (30 bp):
TTTTTTAAATTTTGTTAAATAATTCTTATA
Found at i:36126993 original size:2 final size:2
Alignment explanation
Indices: 36126986--36127021 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
36126976 AAGAAGAATA
36126986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36127022 TGCGGAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36127656 original size:24 final size:24
Alignment explanation
Indices: 36127611--36127657 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
36127601 TTATCGGTTA
* *
36127611 AATTAGGCATATATATATTTTTTG
1 AATTAGGCATACATATAGTTTTTG
36127635 AATTAGGCATACA-AGTAGTTTTT
1 AATTAGGCATACATA-TAGTTTTT
36127658 AAAAAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (24 bp):
AATTAGGCATACATATAGTTTTTG
Found at i:36128126 original size:15 final size:16
Alignment explanation
Indices: 36128088--36128129 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
36128078 AATTTTCGTT
36128088 ATTTTTTATTAAGTTAA
1 ATTTTTT-TTAAGTTAA
*
36128105 ATTTTTTTTAATTTAA
1 ATTTTTTTTAAGTTAA
36128121 ATTTTTTTT
1 ATTTTTTTT
36128130 CATTACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
ATTTTTTTTAAGTTAA
Found at i:36128139 original size:17 final size:16
Alignment explanation
Indices: 36128088--36128139 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
36128078 AATTTTCGTT
36128088 ATTTTTTATTAAGTT-AA
1 ATTTTTT-TTAA-TTCAA
*
36128105 ATTTTTTTTAATTTAA
1 ATTTTTTTTAATTCAA
*
36128121 ATTTTTTTTCATTACAA
1 ATTTTTTTTAATT-CAA
36128138 AT
1 AT
36128140 AGGTGGATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 2 0.06
16 18 0.58
17 11 0.35
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTTTTTTTAATTCAA
Found at i:36130259 original size:16 final size:16
Alignment explanation
Indices: 36130238--36130274 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
36130228 TAGGTAACGG
36130238 TAATTTTGTAATTAGC
1 TAATTTTGTAATTAGC
*
36130254 TAATTTTGTAATTAGG
1 TAATTTTGTAATTAGC
36130270 TAATT
1 TAATT
36130275 AGTGTAAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (16 bp):
TAATTTTGTAATTAGC
Found at i:36132557 original size:24 final size:24
Alignment explanation
Indices: 36132488--36132575 Score: 65
Period size: 24 Copynumber: 3.7 Consensus size: 24
36132478 TCCGGGTTGT
*
36132488 ATAACGGGAAGCT-CATAAGAGCC-
1 ATAACGGGAAGCTCCGT-AGAGCCA
** *
36132511 ATAATCAAGAAGCTCATGT-GAGCCA
1 ATAA-CGGGAAGCTC-CGTAGAGCCA
* *
36132536 ATAACGGGTAGCTCCGTAGAGCTA
1 ATAACGGGAAGCTCCGTAGAGCCA
*
36132560 TTAACGGGAAGCTCCG
1 ATAACGGGAAGCTCCG
36132576 GGTAGACATA
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
23 6 0.12
24 38 0.78
25 4 0.08
26 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (24 bp):
ATAACGGGAAGCTCCGTAGAGCCA
Found at i:36138888 original size:9 final size:9
Alignment explanation
Indices: 36138874--36138898 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
36138864 GATCCAGTAA
36138874 AATTAAATG
1 AATTAAATG
36138883 AATTAAATG
1 AATTAAATG
36138892 AATTAAA
1 AATTAAA
36138899 ATCAATATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (9 bp):
AATTAAATG
Found at i:36139383 original size:48 final size:49
Alignment explanation
Indices: 36139320--36139439 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 49
36139310 CAAAAAGTAT
* * * *
36139320 TATTTTAATAGTTTAATATTTAATTTAAT-TGAATACTTATCTTAAT-AG
1 TATTTTATTAATTTAATATTAAATTTAATCT-AATACTTATCTTAATAAA
* **
36139368 TATTTTATTAATTTAATATTAAATTTAATCTAATATTTATCTTGTTAAA
1 TATTTTATTAATTTAATATTAAATTTAATCTAATACTTATCTTAATAAA
*
36139417 TATTATATTAATTTAATATTAAA
1 TATTTTATTAATTTAATATTAAA
36139440 GTGATTAAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
48 38 0.61
49 24 0.39
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (49 bp):
TATTTTATTAATTTAATATTAAATTTAATCTAATACTTATCTTAATAAA
Found at i:36149770 original size:24 final size:24
Alignment explanation
Indices: 36149700--36149770 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
36149690 AGGCTCTTTG
* ***
36149700 TGAGCTTCCCGTTATATTGCCCGGA
1 TGAGCTTCCCGTTATAGTG-CTTAA
* *
36149725 TAAGCTTCCCGTTACAAG-GCTTAA
1 TGAGCTTCCCGTTA-TAGTGCTTAA
36149749 TGAGCTTCCCGTTATAGTGCTT
1 TGAGCTTCCCGTTATAGTGCTT
36149771 GAGAGAGAGC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
23 2 0.06
24 19 0.53
25 14 0.39
26 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (24 bp):
TGAGCTTCCCGTTATAGTGCTTAA
Found at i:36153330 original size:20 final size:20
Alignment explanation
Indices: 36153307--36153349 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
36153297 AAAAATTTGT
36153307 AAAAATCGTAAAAAATATAA
1 AAAAATCGTAAAAAATATAA
* **
36153327 AAAAATTGTAAAATTTATAA
1 AAAAATCGTAAAAAATATAA
36153347 AAA
1 AAA
36153350 TCATAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAAATCGTAAAAAATATAA
Found at i:36153359 original size:20 final size:20
Alignment explanation
Indices: 36153298--36153368 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
36153288 AAAATATAAA
* *
36153298 AAAATTTGTAAAAATCGTA-
1 AAAATTTATAAAAATCATAG
* * *
36153317 AAAA-ATATAAAAA-AATTG
1 AAAATTTATAAAAATCATAG
36153335 TAAAATTTATAAAAATCATAG
1 -AAAATTTATAAAAATCATAG
*
36153356 AAAAGTTATAAAA
1 AAAATTTATAAAA
36153369 TGCATCAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 7
0.71 0.16 0.13
Matches are distributed among these distances:
17 1 0.03
18 7 0.18
19 8 0.21
20 20 0.51
21 3 0.08
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (20 bp):
AAAATTTATAAAAATCATAG
Found at i:36153509 original size:21 final size:20
Alignment explanation
Indices: 36153484--36153527 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
36153474 CATGCGAAGG
36153484 AAAATGATAAAAAAATCAATA
1 AAAATGATAAAAAAATC-ATA
* *
36153505 AAAATTATAGAAAAATCATA
1 AAAATGATAAAAAAATCATA
36153525 AAA
1 AAA
36153528 TACTTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAATGATAAAAAAATCATA
Found at i:36153597 original size:10 final size:10
Alignment explanation
Indices: 36153584--36153693 Score: 56
Period size: 10 Copynumber: 11.7 Consensus size: 10
36153574 ATTTCTTTAC
36153584 ATTTTTTATA
1 ATTTTTTATA
* *
36153594 ATTTTGTATG
1 ATTTTTTATA
*
36153604 A--CTTTATA
1 ATTTTTTATA
**
36153612 AAATTTTATA
1 ATTTTTTATA
36153622 A-TTTTTAT-
1 ATTTTTTATA
*
36153630 ATATTTTATA
1 ATTTTTTATA
*
36153640 A-TTTTTATG
1 ATTTTTTATA
36153649 A--TTTTATA
1 ATTTTTTATA
** *
36153657 AAATTTTACA
1 ATTTTTTATA
36153667 ATTTTTT-TA
1 ATTTTTTATA
*
36153676 CAATTTTTATA
1 -ATTTTTTATA
36153687 ATTTTTT
1 ATTTTTT
36153694 TCTTCTAATT
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
8 13 0.17
9 20 0.27
10 40 0.53
11 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:36153598 original size:9 final size:9
Alignment explanation
Indices: 36153586--36153692 Score: 76
Period size: 9 Copynumber: 11.6 Consensus size: 9
36153576 TTCTTTACAT
36153586 TTTTTATAA
1 TTTTTATAA
*
36153595 TTTTGTATGA
1 TTTT-TATAA
*
36153605 -CTTTATAAA
1 TTTTTAT-AA
*
36153614 ATTTTATAA
1 TTTTTATAA
36153623 TTTTTAT-A
1 TTTTTATAA
36153631 TATTTTATAA
1 T-TTTTATAA
*
36153641 TTTTTATGA
1 TTTTTATAA
36153650 -TTTTATAAA
1 TTTTTAT-AA
* *
36153659 ATTTTACAA
1 TTTTTATAA
*
36153668 TTTTTTTACAA
1 --TTTTTATAA
36153679 TTTTTATAA
1 TTTTTATAA
36153688 TTTTT
1 TTTTT
36153693 TTCTTCTAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
8 11 0.14
9 44 0.56
10 16 0.20
11 8 0.10
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:36153637 original size:28 final size:27
Alignment explanation
Indices: 36153587--36153653 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
36153577 TCTTTACATT
36153587 TTTTATAATTTTGTATGACTTTATAAAA
1 TTTTATAATTTTGTATGACTTTAT-AAA
* * *
36153615 TTTTATAATTTT-TATATATTTTATAAT
1 TTTTATAATTTTGTAT-GACTTTATAAA
*
36153642 TTTTATGATTTT
1 TTTTATAATTTT
36153654 ATAAAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.47
28 18 0.53
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (27 bp):
TTTTATAATTTTGTATGACTTTATAAA
Found at i:36153657 original size:45 final size:47
Alignment explanation
Indices: 36153581--36153692 Score: 156
Period size: 45 Copynumber: 2.4 Consensus size: 47
36153571 TATATTTCTT
* *
36153581 TACATTTTTTATAATTTTGTATGACTTTATAAAATTTTATAATTTTTA
1 TACAATTTTTATAATTTT-TATGACTTTATAAAATTTTACAATTTTTA
* * *
36153629 TA-TA-TTTTATAATTTTTATGATTTTATAAAATTTTACAATTTTTT
1 TACAATTTTTATAATTTTTATGACTTTATAAAATTTTACAATTTTTA
36153674 TACAATTTTTATAATTTTT
1 TACAATTTTTATAATTTTT
36153693 TTCTTCTAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
45 28 0.50
46 13 0.23
47 13 0.23
48 2 0.04
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (47 bp):
TACAATTTTTATAATTTTTATGACTTTATAAAATTTTACAATTTTTA
Found at i:36153693 original size:19 final size:19
Alignment explanation
Indices: 36153548--36153693 Score: 77
Period size: 18 Copynumber: 7.7 Consensus size: 19
36153538 GGTACAATAA
36153548 TTTTATAATTCTTTTACGAA-
1 TTTTATAATT-TTTTAC-AAT
** *
36153568 TGGTAT-ATTTCTTTACATT
1 TTTTATAATTT-TTTACAAT
* **
36153587 TTTTATAATTTTGTATGA-
1 TTTTATAATTTTTTACAAT
* ** *
36153605 CTTTATAAAATTTTATAAT
1 TTTTATAATTTTTTACAAT
* *
36153624 TTTTAT-ATATTTTATAAT
1 TTTTATAATTTTTTACAAT
* * *
36153642 TTTTATGATTTTATA-AAA
1 TTTTATAATTTTTTACAAT
*
36153660 TTTTACAATTTTTTTACAAT
1 TTTTATAA-TTTTTTACAAT
36153680 TTTTATAATTTTTT
1 TTTTATAATTTTTT
36153694 TCTTCTAATT
Statistics
Matches: 95, Mismatches: 24, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
18 40 0.42
19 38 0.40
20 17 0.18
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTATAATTTTTTACAAT
Found at i:36153744 original size:20 final size:20
Alignment explanation
Indices: 36153699--36153745 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
36153689 TTTTTTCTTC
*
36153699 TAATTTTTAATAAAATTTAA
1 TAATTTTTAATAAAATCTAA
*
36153719 -ATATTTTTATTAAAATCTAA
1 TA-ATTTTTAATAAAATCTAA
36153739 TAATTTT
1 TAATTTT
36153746 AGGTTATGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTTTTAATAAAATCTAA
Found at i:36154754 original size:51 final size:51
Alignment explanation
Indices: 36154675--36154774 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
36154665 TAAATACCCC
* * *
36154675 TTCCAAAATTCTCATAAATCCATTTTTAATTTCAATTTCCTCTCAATTTTA
1 TTCCAAAAATCTCATAAAGCCATATTTAATTTCAATTTCCTCTCAATTTTA
*
36154726 TTCCAAAAATCTC-TCAAAGCCATATTTAATTTCAATTTGCTCTCAATTT
1 TTCCAAAAATCTCAT-AAAGCCATATTTAATTTCAATTTCCTCTCAATTT
36154775 CCTTTTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 1 0.02
51 43 0.98
ACGTcount: A:0.32, C:0.22, G:0.02, T:0.44
Consensus pattern (51 bp):
TTCCAAAAATCTCATAAAGCCATATTTAATTTCAATTTCCTCTCAATTTTA
Found at i:36155907 original size:7 final size:7
Alignment explanation
Indices: 36155891--36155921 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
36155881 TGCAAATAGA
*
36155891 TATTTTG
1 TATTTAG
36155898 TATTTAG
1 TATTTAG
36155905 TATTTAG
1 TATTTAG
36155912 TATTTAG
1 TATTTAG
36155919 TAT
1 TAT
36155922 ATAACTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (7 bp):
TATTTAG
Found at i:36156592 original size:18 final size:18
Alignment explanation
Indices: 36156565--36156604 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
36156555 CAGGTGCGTT
*
36156565 TCCTATCCCTTATATGTA
1 TCCTAACCCTTATATGTA
36156583 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
36156601 TCCT
1 TCCT
36156605 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:36157111 original size:70 final size:70
Alignment explanation
Indices: 36157037--36157214 Score: 340
Period size: 70 Copynumber: 2.5 Consensus size: 70
36157027 TTGAAGTTTG
36157037 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAA-AAAAATTTAAATTTTTTTGAGTTATTTTG
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTT-AATTTTTTTGAGTTATTTTG
36157101 ATATTA
65 ATATTA
36157107 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAATTTTTTTGAGTTATTTTGA
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAATTTTTTTGAGTTATTTTGA
36157172 TATTA
66 TATTA
36157177 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAA
1 TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAA
36157215 GTTGAAAACC
Statistics
Matches: 107, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
70 99 0.93
71 8 0.07
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (70 bp):
TTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAATTTTTTTGAGTTATTTTGA
TATTA
Found at i:36157139 original size:25 final size:25
Alignment explanation
Indices: 36157027--36157214 Score: 107
Period size: 25 Copynumber: 7.9 Consensus size: 25
36157017 TTTGAATATT
36157027 TTGAAGTTTGT-TTGATGTAATAAAA
1 TTGAAGTTT-TATTGATGTAATAAAA
* *
36157052 TAGAAGTTTTATTGATGTAAAAAAA
1 TTGAAGTTTTATTGATGTAATAAAA
* * * **
36157077 TTTAAATTTTTTTGA-GT--T-ATT
1 TTGAAGTTTTATTGATGTAATAAAA
*
36157098 TTG-A-TATTATTTGATGTAATAAAA
1 TTGAAGTTTTA-TTGATGTAATAAAA
*
36157122 TAGAAGTTTTATTGATGTAATAAAAA
1 TTGAAGTTTTATTGATGTAAT-AAAA
* * **
36157148 TTTAA-TTTTTTTGA-GT--T-ATT
1 TTGAAGTTTTATTGATGTAATAAAA
*
36157168 TTG-A-TATTATTTGATGTAATAAAA
1 TTGAAGTTTTA-TTGATGTAATAAAA
*
36157192 TAGAAGTTTTATTGATGTAATAA
1 TTGAAGTTTTATTGATGTAATAA
36157215 GTTGAAAACC
Statistics
Matches: 119, Mismatches: 28, Indels: 32
0.66 0.16 0.18
Matches are distributed among these distances:
19 7 0.06
20 12 0.10
21 7 0.06
22 1 0.01
23 2 0.02
24 11 0.09
25 64 0.54
26 15 0.13
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (25 bp):
TTGAAGTTTTATTGATGTAATAAAA
Found at i:36157238 original size:23 final size:23
Alignment explanation
Indices: 36157212--36157482 Score: 438
Period size: 23 Copynumber: 11.8 Consensus size: 23
36157202 ATTGATGTAA
36157212 TAAGTTGAAAACCCTAACCTAAT
1 TAAGTTGAAAACCCTAACCTAAT
36157235 TAAGTTGAAAACCCTAACCTAAT
1 TAAGTTGAAAACCCTAACCTAAT
* * *
36157258 TAAATTAAAAACCCTAACCTATT
1 TAAGTTGAAAACCCTAACCTAAT
36157281 TAAGTTGAAAACCCTAATCC-AAT
1 TAAGTTGAAAACCCTAA-CCTAAT
36157304 TAAGTTGAAAACCCTAACCTAAT
1 TAAGTTGAAAACCCTAACCTAAT
* *
36157327 TAAATT-AAAACCCTAACCTATT
1 TAAGTTGAAAACCCTAACCTAAT
36157349 TAAGTTGAAAACCCTAACCTAAT
1 TAAGTTGAAAACCCTAACCTAAT
* *
36157372 TAAGTTAAAAACCCTGACCTAAT
1 TAAGTTGAAAACCCTAACCTAAT
*
36157395 TAAGTTGAAAACCCTAACCTATT
1 TAAGTTGAAAACCCTAACCTAAT
36157418 TAAGTTGAAAACCCTAACCTAAT
1 TAAGTTGAAAACCCTAACCTAAT
36157441 TAAGTTGAAAACCCTAACCTAAT
1 TAAGTTGAAAACCCTAACCTAAT
*
36157464 TACGTTGAAAACCCTAACC
1 TAAGTTGAAAACCCTAACC
36157483 CTAAACTTAA
Statistics
Matches: 228, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
22 22 0.10
23 204 0.89
24 2 0.01
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (23 bp):
TAAGTTGAAAACCCTAACCTAAT
Found at i:36161019 original size:124 final size:123
Alignment explanation
Indices: 36160644--36161007 Score: 561
Period size: 124 Copynumber: 2.9 Consensus size: 123
36160634 CCCAAACAGG
* *
36160644 CTACTGTAGCAAAAGCGCGTCCCCAAGGGCGCGATTTTCACAAA-TTCTTCTCAAATAGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA-TTTCA-AAATTTCTTCTCAAATAGCATCCT
*
36160708 GCTAGAAGCGAA-TTTATACTATTTGCTCAGAAATGTCAAAAAAATTTATTTCATCCATGAC
64 GCTAGAAGC-AATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-TTATTTCATCCATGAC
* *
36160769 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACAATTTCAAAATTTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTGC
* *
36160834 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTTAAAAAAAATTATTTCATCCATGAC
66 TAGAAGCAATTTTATACTATTTGCTCAGAAACG-TCAAAAAAATTATTTCATCCATGAC
* *
36160893 CTACTGTAGCAAGAGTGCGTCCACGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTGC
* *
36160958 TAAAAGCAATTTTATACTATTTGCTCAGAAAGGTCAAAAGAAATTATTTC
66 TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAAAA-AAATTATTTC
36161008 TTCCCGGACC
Statistics
Matches: 220, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
123 9 0.04
124 173 0.79
125 38 0.17
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (123 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCAAAATTTCTTCTCAAATAGCATCCTGC
TAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTATTTCATCCATGAC
Found at i:36166885 original size:20 final size:20
Alignment explanation
Indices: 36166860--36166902 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
36166850 AGGAACTATC
* *
36166860 CTAGAATTAGGGGATTACAA
1 CTAGAATTAGGGAATCACAA
36166880 CTAGAATTAGGGAATCACAA
1 CTAGAATTAGGGAATCACAA
36166900 CTA
1 CTA
36166903 ATTATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (20 bp):
CTAGAATTAGGGAATCACAA
Found at i:36171265 original size:28 final size:28
Alignment explanation
Indices: 36171225--36171296 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
36171215 TAATGAGATT
* *
36171225 AGCACTAAATGTGCGAGTTTAATGGTAA
1 AGCACTAAGTGTGCGAGTTTAATGATAA
* * * *
36171253 AGCACTAAGTGTGCTAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATGATAA
36171281 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
36171297 ACTTATTAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAATGATAA
Found at i:36174152 original size:29 final size:30
Alignment explanation
Indices: 36174090--36174161 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 30
36174080 AAATTATAAA
36174090 CTTTTGAAAATTTTAAGATTTTATATATAT
1 CTTTTGAAAATTTTAAGATTTTATATATAT
* * *
36174120 -TTTTTAAAATGTTTGAGATTTTA-AT-TTT
1 CTTTTGAAAAT-TTTAAGATTTTATATATAT
36174148 CTTTT--AAATTTTAA
1 CTTTTGAAAATTTTAA
36174162 TAATTTTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
26 4 0.11
27 4 0.11
28 2 0.06
29 15 0.42
30 11 0.31
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (30 bp):
CTTTTGAAAATTTTAAGATTTTATATATAT
Found at i:36174188 original size:23 final size:23
Alignment explanation
Indices: 36174139--36174190 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
36174129 TGTTTGAGAT
36174139 TTTAA-TTTTCTTTTAAATTTTA
1 TTTAATTTTTCTTTTAAATTTTA
*
36174161 -ATAATTTTTCCTTTT-AATTTTA
1 TTTAATTTTT-CTTTTAAATTTTA
36174183 TTTAATTT
1 TTTAATTT
36174191 CTTTGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 3 0.12
22 11 0.44
23 11 0.44
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTAATTTTTCTTTTAAATTTTA
Found at i:36175225 original size:6 final size:6
Alignment explanation
Indices: 36175214--36175243 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
36175204 ATCATAGTTC
36175214 TAATAT TAATAT TAATAT TAATAT TAATAT
1 TAATAT TAATAT TAATAT TAATAT TAATAT
36175244 ATTATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATAT
Found at i:36175753 original size:2 final size:2
Alignment explanation
Indices: 36175741--36175772 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
36175731 CTCGTATTAC
36175741 TA TA GTA TA 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
36175773 GATTAGATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36176490 original size:22 final size:22
Alignment explanation
Indices: 36176455--36176508 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
36176445 GTTGAAGTGG
*
36176455 TTTAATAATT-TTTATGAATT-
1 TTTAGTAATTGTTTATGAATTA
* *
36176475 TTTAGTTAATTGTTTATTATTTA
1 TTTAG-TAATTGTTTATGAATTA
36176498 TTTAGTAATTG
1 TTTAGTAATTG
36176509 AACTGATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 4 0.14
21 5 0.18
22 14 0.50
23 5 0.18
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTAGTAATTGTTTATGAATTA
Found at i:36177255 original size:16 final size:16
Alignment explanation
Indices: 36177234--36177269 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
36177224 TTTGGTTCGC
*
36177234 TGTATTTGATTAGAGG
1 TGTATTGGATTAGAGG
36177250 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
36177266 TGTA
1 TGTA
36177270 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:36178044 original size:10 final size:10
Alignment explanation
Indices: 36178029--36178062 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
36178019 ACCTGTTGAG
36178029 TTTTTTTATT
1 TTTTTTTATT
36178039 TTTTTTTA--
1 TTTTTTTATT
36178047 TTTTTTTATT
1 TTTTTTTATT
36178057 TTTTTT
1 TTTTTT
36178063 CTCATTCGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.36
10 14 0.64
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:36178677 original size:22 final size:22
Alignment explanation
Indices: 36178652--36178693 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
36178642 TTTATTTTCA
36178652 TATTTT-TTTAATATATTATACT
1 TATTTTATTT-ATATATTATACT
*
36178674 TATTTTATTTATATTTTATA
1 TATTTTATTTATATATTATA
36178694 AAGTACATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTATTTATATATTATACT
Found at i:36179769 original size:18 final size:17
Alignment explanation
Indices: 36179748--36179782 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36179738 TTATTATTAA
*
36179748 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
36179766 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
36179783 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:36179823 original size:156 final size:157
Alignment explanation
Indices: 36179642--36179950 Score: 557
Period size: 156 Copynumber: 2.0 Consensus size: 157
36179632 CCCTTAACAT
* * *
36179642 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAG
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATAAA
* *
36179707 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTGTAATTAAAATATATAA
36179772 TTTAATAAAATTCTT-ATAATTAGCAG
131 TTTAATAAAATTCTTAATAATTAGCAG
*
36179798 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATAAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATAAA
36179863 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTGTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTGTAATTAAAATATATAA
36179928 TTTAATAAAATTCTTAATAATTA
131 TTTAATAAAATTCTTAATAATTA
36179951 ATATTCTTAT
Statistics
Matches: 146, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
156 139 0.95
157 7 0.05
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (157 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATAAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTGTAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTAGCAG
Found at i:36180052 original size:14 final size:15
Alignment explanation
Indices: 36180003--36180174 Score: 62
Period size: 15 Copynumber: 11.6 Consensus size: 15
36179993 GTAAAATATA
36180003 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
36180018 TATTAAATATATTAT
1 AATTAAATATATTAT
*
36180033 AATTAAAATATATAATTT
1 AATT-AAATATAT--TAT
* *
36180051 AATAAAAT-TCTTAAT
1 AATTAAATATATT-AT
*
36180066 AATT-AATATTCTTAT
1 AATTAAATA-TATTAT
* *
36180081 -A-TGAATTTACTTA-
1 AATTAAATATA-TTAT
* *
36180094 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
36180110 ACTGTAAA-ATA-TA-
1 AAT-TAAATATATTAT
36180123 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
36180138 TATTAAATATATTAT
1 AATTAAATATATTAT
36180153 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
36180166 AATTTAATA
1 AATTAAATA
36180175 AAATTCTTAA
Statistics
Matches: 117, Mismatches: 20, Indels: 41
0.66 0.11 0.23
Matches are distributed among these distances:
12 3 0.03
13 15 0.13
14 26 0.22
15 40 0.34
16 23 0.20
17 5 0.04
18 5 0.04
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:36180310 original size:120 final size:120
Alignment explanation
Indices: 36179887--36180292 Score: 717
Period size: 120 Copynumber: 3.4 Consensus size: 120
36179877 ATCATATTTA
*
36179887 AACATAATTATTATTAAATATATTGTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
36179952 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
36180007 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
36180072 TATTCTTATATGAATTTACTTAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
36180127 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
36180192 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGAAAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAAATT
* * *
36180247 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAA
36180293 AATAATTTAA
Statistics
Matches: 276, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
119 4 0.01
120 270 0.98
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:36180386 original size:24 final size:25
Alignment explanation
Indices: 36180340--36180387 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
36180330 CATGAATTTG
36180340 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
36180366 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
36180388 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:36186424 original size:42 final size:42
Alignment explanation
Indices: 36186376--36186466 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
36186366 TTTCTTGTTA
36186376 ATTTTTAATATTTATT-TTT-TATTTTTAACTAATAAATATATT
1 ATTTTTAA-ATTT-TTATTTATATTTTTAACTAATAAATATATT
* * * *
36186418 ATTTTTAAATTTTTATTTATATTTTTAATTAATAACTCTTTT
1 ATTTTTAAATTTTTATTTATATTTTTAACTAATAAATATATT
36186460 ATTTTTA
1 ATTTTTA
36186467 TAAATAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
40 2 0.05
41 7 0.16
42 34 0.79
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (42 bp):
ATTTTTAAATTTTTATTTATATTTTTAACTAATAAATATATT
Found at i:36187953 original size:43 final size:43
Alignment explanation
Indices: 36187868--36187954 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
36187858 CAAAGGAAAG
* *
36187868 CATGCATGGGACGGCATTAATGGAGCTGTTGATTTCTCCTTTT
1 CATGCATGGGACGACATTAAAGGAGCTGTTGATTTCTCCTTTT
* * **
36187911 CATGCATGGGGCGACATTAAAAGGAGTTGTTTTTTTCT-CTTTT
1 CATGCATGGGACGACATT-AAAGGAGCTGTTGATTTCTCCTTTT
36187954 C
1 C
36187955 TATGTGCCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
43 22 0.59
44 15 0.41
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (43 bp):
CATGCATGGGACGACATTAAAGGAGCTGTTGATTTCTCCTTTT
Found at i:36189799 original size:104 final size:104
Alignment explanation
Indices: 36189590--36189813 Score: 317
Period size: 104 Copynumber: 2.2 Consensus size: 104
36189580 CACGTACATA
* * * * *
36189590 TCCCTGGTCATGTGGTCCTAAATCATAAACAGTGAGTTACACGCCCTGGACATATGCTCATGTCC
1 TCCCTGGTCATGTGGTCCTAAATCATAAACAGTGAGTTACACGACCTGAACACACGCCCATGTCC
* *
36189655 TTGCCTGTTTGGCTCACACGGCCTAGGCACACACCTATG
66 TTACCTGTTTGGCTCACACGGCCTAGGCACACACCCATG
*
36189694 TCCTTGG-CAGTGTGGTCCTAAATCATAAACAGTGAGTTACACGACCTGAACACACGCCCATGTC
1 TCCCTGGTCA-TGTGGTCCTAAATCATAAACAGTGAGTTACACGACCTGAACACACGCCCATGTC
* **
36189758 CTTACCTGTGTT-GCTCACACGGCCTGGGCACATGCCCATG
65 CTTACCTGT-TTGGCTCACACGGCCTAGGCACACACCCATG
36189798 TCCCTGGTCATGTGGT
1 TCCCTGGTCATGTGGT
36189814 GTCAACAGCC
Statistics
Matches: 105, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
103 2 0.02
104 99 0.94
105 4 0.04
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (104 bp):
TCCCTGGTCATGTGGTCCTAAATCATAAACAGTGAGTTACACGACCTGAACACACGCCCATGTCC
TTACCTGTTTGGCTCACACGGCCTAGGCACACACCCATG
Found at i:36191805 original size:15 final size:15
Alignment explanation
Indices: 36191776--36191820 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
36191766 ACGGAATGGT
*
36191776 ACAGGGCAGAGTAGA
1 ACAGGGCAGAATAGA
* *
36191791 GCAGGGTAGAATAGA
1 ACAGGGCAGAATAGA
*
36191806 ACAGAGCAGAATAGA
1 ACAGGGCAGAATAGA
36191821 TCATGTATGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.11, G:0.36, T:0.09
Consensus pattern (15 bp):
ACAGGGCAGAATAGA
Found at i:36192729 original size:104 final size:104
Alignment explanation
Indices: 36192549--36192787 Score: 318
Period size: 104 Copynumber: 2.3 Consensus size: 104
36192539 AAATAGTGAG
* * * *
36192549 TCACACAACCTAGGCACACGCCCATGTCCCTGATCGTGTGGTTCTAAATCATAAACAGTGAGTTA
1 TCACACAGCCTGGGCACACACCCATGTCCCTGATCGTGTGGTCCTAAATCATAAACAGTGAGTTA
* * * *
36192614 CACGGCCTGGACACAGGCCTATGTCTTTGCCCATGTGGC
66 CACGACCTGGACACACGCCCATGTCCTTGCCCATGTGGC
* *
36192653 TCACACAGCCTGGGCACACACCCATGTTCCTG-GCTGTGTGGTCCTAAATCATAAACAGTGAGTT
1 TCACACAGCCTGGGCACACACCCATGTCCCTGATC-GTGTGGTCCTAAATCATAAACAGTGAGTT
* *
36192717 ACATGACCTGGACACACGCCCATGTCCTTGCCCGTGTGGC
65 ACACGACCTGGACACACGCCCATGTCCTTGCCCATGTGGC
* * **
36192757 TCACACGGTCTGGGCACACGTCCATGTCCCT
1 TCACACAGCCTGGGCACACACCCATGTCCCT
36192788 AGCCATATGA
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
103 1 0.01
104 116 0.99
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.23
Consensus pattern (104 bp):
TCACACAGCCTGGGCACACACCCATGTCCCTGATCGTGTGGTCCTAAATCATAAACAGTGAGTTA
CACGACCTGGACACACGCCCATGTCCTTGCCCATGTGGC
Found at i:36195830 original size:16 final size:16
Alignment explanation
Indices: 36195817--36195862 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
36195807 GTTAGTTATT
* *
36195817 TTATTTATTTGTTAG-
1 TTATTTATTTATTTGC
36195832 TTATTTTATTTATTTGC
1 TTA-TTTATTTATTTGC
36195849 TTATTTATTTATTT
1 TTATTTATTTATTT
36195863 TGATTGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 3 0.11
16 21 0.78
17 3 0.11
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.72
Consensus pattern (16 bp):
TTATTTATTTATTTGC
Found at i:36195831 original size:20 final size:20
Alignment explanation
Indices: 36195806--36195862 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
36195796 TTATTCATGA
36195806 TGTTAGTTATTTTATTTATT
1 TGTTAGTTATTTTATTTATT
36195826 TGTTAGTTATTTTATTTATT
1 TGTTAGTTATTTTATTTATT
*
36195846 TGCTTATTTA-TTTATTT
1 TG-TTAGTTATTTTATTT
36195863 TGATTGTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
20 29 0.83
21 6 0.17
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.70
Consensus pattern (20 bp):
TGTTAGTTATTTTATTTATT
Found at i:36195854 original size:12 final size:11
Alignment explanation
Indices: 36195817--36195858 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 11
36195807 GTTAGTTATT
36195817 TTATTTATTTG
1 TTATTTATTTG
*
36195828 TTAGTTA-TT-
1 TTATTTATTTG
36195837 TTATTTATTTG
1 TTATTTATTTG
36195848 CTTATTTATTT
1 -TTATTTATTT
36195859 ATTTTGATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 6 0.23
10 4 0.15
11 6 0.23
12 10 0.38
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (11 bp):
TTATTTATTTG
Found at i:36209502 original size:143 final size:143
Alignment explanation
Indices: 36209296--36209598 Score: 473
Period size: 143 Copynumber: 2.1 Consensus size: 143
36209286 GCCACTAATT
* ** *
36209296 TTATTTCCCTGAAGTTGCAGTAGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCATTGCAG
1 TTATCTCCCTGAAGTTGCAACAGAACAGACTGAAGACAGCGAATCTTATTTCCCTGGCATTGCAG
*
36209361 TGGAATAGATTAAAGCTACAAATTAT-GCTAGATCTTATCTTCCTGAAGTGGCAGTAGAGCAGAT
66 TGGAATAGATTAAAGCTACAAATTATAGC-AGATCTTATCTTCCTAAAGTGGCAGTAGAGCAGAT
36209425 TGAAGCCACCAGCC
130 TGAAGCCACCAGCC
* * *
36209439 TTATCTCCCTGAAGTTGCAACGGAACAGACTGAAGACAGCGAATCTTATTTCTCTGGCGTTGCAG
1 TTATCTCCCTGAAGTTGCAACAGAACAGACTGAAGACAGCGAATCTTATTTCCCTGGCATTGCAG
* * * * *
36209504 TGGAATAGATTAAAGCTACAAATTATAGCGGATCTTATCTTCCTAAAGTTGCTGTGGAGCATATT
66 TGGAATAGATTAAAGCTACAAATTATAGCAGATCTTATCTTCCTAAAGTGGCAGTAGAGCAGATT
36209569 GAAGCCACCAGCC
131 GAAGCCACCAGCC
36209582 TTATCTCCCTGAAGTTG
1 TTATCTCCCTGAAGTTG
36209599 TGGTGGAGTA
Statistics
Matches: 146, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
143 144 0.99
144 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (143 bp):
TTATCTCCCTGAAGTTGCAACAGAACAGACTGAAGACAGCGAATCTTATTTCCCTGGCATTGCAG
TGGAATAGATTAAAGCTACAAATTATAGCAGATCTTATCTTCCTAAAGTGGCAGTAGAGCAGATT
GAAGCCACCAGCC
Found at i:36209633 original size:44 final size:44
Alignment explanation
Indices: 36209580--36209697 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 44
36209570 AAGCCACCAG
** * *
36209580 CCTTATCTCCCTGAAGTTGTGGTGGAGTAGATCGAAGTTACAAAT
1 CCTTATCTCCCTGAAGTTGCAGTGGAGTAGAACGAAGTCAC-AAT
* * *
36209625 -CTCT-TCTCCCTAAAATTACAGTGGAGTAGAACGAAGTCACAAT
1 CCT-TATCTCCCTGAAGTTGCAGTGGAGTAGAACGAAGTCACAAT
*
36209668 CCTTATCTCCCTGAAGTTGCAGTGAAGTAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGTAG
36209698 GATAAAAATA
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
43 4 0.07
44 54 0.92
45 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAGTAGAACGAAGTCACAAT
Found at i:36211590 original size:20 final size:19
Alignment explanation
Indices: 36211565--36211621 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
36211555 TTATTCATGA
36211565 TGTTAGTTAGTTTATTTAGT
1 TGTTAGTTA-TTTATTTAGT
*
36211585 TGTTAGTTATTTTATTTATT
1 TGTTAGTTA-TTTATTTAGT
*
36211605 TGCTTATTTATTTATTT
1 TG-TTAGTTATTTATTT
36211622 TGATTGTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 27 0.82
21 6 0.18
ACGTcount: A:0.19, C:0.02, G:0.12, T:0.67
Consensus pattern (19 bp):
TGTTAGTTATTTATTTAGT
Found at i:36212411 original size:17 final size:19
Alignment explanation
Indices: 36212389--36212427 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
36212379 AATAATGATA
*
36212389 TATATAA-TATAT-TTTAT
1 TATATAATTACATATTTAT
36212406 TATATAATTACATATTTAT
1 TATATAATTACATATTTAT
36212425 TAT
1 TAT
36212428 TTTATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATAATTACATATTTAT
Found at i:36213221 original size:29 final size:30
Alignment explanation
Indices: 36213184--36213247 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
36213174 TAAAAAATTC
*
36213184 AAAAATATAAAAATTATT-ATAAT-TTTTT
1 AAAAATATAAAAATTATTAAAAATATTTTT
*
36213212 AAAAAGTATATAAATTATTAAAAATATTTTT
1 AAAAA-TATAAAAATTATTAAAAATATTTTT
36213243 AAAAA
1 AAAAA
36213248 ATTAATTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 5 0.16
29 12 0.39
30 4 0.13
31 10 0.32
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (30 bp):
AAAAATATAAAAATTATTAAAAATATTTTT
Found at i:36213223 original size:19 final size:20
Alignment explanation
Indices: 36213191--36213239 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
36213181 TTCAAAAATA
* * *
36213191 TAAAAATTATTATAATTTTT
1 TAAAAAGTATTATAAATTAT
36213211 TAAAAAGTA-TATAAATTAT
1 TAAAAAGTATTATAAATTAT
36213230 TAAAAA-TATT
1 TAAAAAGTATT
36213240 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.60
20 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAAAAGTATTATAAATTAT
Found at i:36216395 original size:21 final size:22
Alignment explanation
Indices: 36216365--36216405 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
36216355 TAATTAAATG
36216365 TTAAACTAAATAA-TTAAAATAT
1 TTAAACTAAA-AATTTAAAATAT
36216387 TTAAA-TAAAAATTTAAAAT
1 TTAAACTAAAAATTTAAAAT
36216406 TATAAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 11 0.61
22 5 0.28
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAAACTAAAAATTTAAAATAT
Found at i:36218319 original size:11 final size:10
Alignment explanation
Indices: 36218301--36218392 Score: 61
Period size: 9 Copynumber: 9.4 Consensus size: 10
36218291 AAATTAAAAC
36218301 AAAA-ATTTA
1 AAAATATTTA
36218310 AAAAGTATTTTA
1 AAAA-TA-TTTA
36218322 AAAATATTT-
1 AAAATATTTA
* *
36218331 TAAA-ATTAA
1 AAAATATTTA
* *
36218340 AAAAAAATTA
1 AAAATATTTA
36218350 AAAAGTATTTTA
1 AAAA-TA-TTTA
*
36218362 AAAAAATTT-
1 AAAATATTTA
36218371 AAAAT-TTTA
1 AAAATATTTA
36218380 AAAA-ATTTA
1 AAAATATTTA
36218389 AAAA
1 AAAA
36218393 AAGTATTTTA
Statistics
Matches: 65, Mismatches: 9, Indels: 18
0.71 0.10 0.20
Matches are distributed among these distances:
8 6 0.09
9 26 0.40
10 13 0.20
11 5 0.08
12 15 0.23
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAATATTTA
Found at i:36218321 original size:12 final size:11
Alignment explanation
Indices: 36218306--36218416 Score: 62
Period size: 11 Copynumber: 10.6 Consensus size: 11
36218296 AAAACAAAAA
36218306 TTTAAAAAGTAT
1 TTTAAAAA-TAT
36218318 TTTAAAAATAT
1 TTTAAAAATAT
36218329 TTT--AAA-A-
1 TTTAAAAATAT
* *
36218336 -TTAAAAAAAA
1 TTTAAAAATAT
*
36218346 ATTAAAAAGTAT
1 TTTAAAAA-TAT
*
36218358 TTTAAAAA-AA
1 TTTAAAAATAT
36218368 TTT--AAA-AT
1 TTTAAAAATAT
36218376 TTTAAAAA-AT
1 TTTAAAAATAT
*
36218386 TTAAAAAAAGTAT
1 TT-TAAAAA-TAT
*
36218399 TTTAAAAGTAT
1 TTTAAAAATAT
36218410 TTTAAAA
1 TTTAAAA
36218417 TTAAAAAAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
6 2 0.03
8 11 0.14
9 4 0.05
10 11 0.14
11 28 0.35
12 20 0.25
13 4 0.05
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:36218366 original size:41 final size:40
Alignment explanation
Indices: 36218283--36218425 Score: 189
Period size: 42 Copynumber: 3.5 Consensus size: 40
36218273 ACCAAAAATT
36218283 TATTTTAAAAATTAAAACAAAAATTTAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAA-AAAAA-TTAAAAAGTATTTTAAAAA
36218326 TATTTTAAAATTAAAAAAAAATTAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAAATTAAAAAGTATTTTAAAAA
* ** * *
36218366 -AATTTAAAATTTTAAAAAATTTAAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAAAAATT--AAAAAGTATTTTAAAAA
36218407 TATTTTAAAATTAAAAAAA
1 TATTTTAAAATTAAAAAAA
36218426 TAAAAATATT
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
39 18 0.20
40 19 0.21
41 21 0.24
42 25 0.28
43 6 0.07
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAAAATTAAAAAGTATTTTAAAAA
Found at i:36218384 original size:17 final size:18
Alignment explanation
Indices: 36218316--36218391 Score: 73
Period size: 17 Copynumber: 4.1 Consensus size: 18
36218306 TTTAAAAAGT
*
36218316 ATTTTAAAAATATTTTAAA
1 ATTTTAAAAA-AATTTAAA
** *
36218335 ATTAAAAAAAAATTAAAAA
1 ATTTTAAAAAAATT-TAAA
36218354 GTATTTTAAAAAAATTTAAA
1 --ATTTTAAAAAAATTTAAA
36218374 ATTTT-AAAAAATTTAAA
1 ATTTTAAAAAAATTTAAA
36218391 A
1 A
36218392 AAAGTATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
17 13 0.28
18 8 0.17
19 11 0.23
20 3 0.06
21 12 0.26
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (18 bp):
ATTTTAAAAAAATTTAAA
Found at i:36218426 original size:41 final size:39
Alignment explanation
Indices: 36218283--36218425 Score: 178
Period size: 39 Copynumber: 3.5 Consensus size: 39
36218273 ACCAAAAATT
36218283 TATTTTAAAAATTAAAACAAAAATTTAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT-AAA-AAAAATTTAAAAAGTATTTT-AAAA
*
36218326 TATTTTAAAATTAAAAAAAAATTAAAAAGTATTTTAAAA
1 TATTTTAAAATTAAAAAAAATTTAAAAAGTATTTTAAAA
* * **
36218365 AAATTTAAAATTTTAAAAAATTTAAAAAAAGTATTTTAAAA
1 TATTTTAAAATTAAAAAAAATTT--AAAAAGTATTTTAAAA
36218406 GTATTTTAAAATTAAAAAAA
1 -TATTTTAAAATTAAAAAAA
36218426 TAAAAATATT
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
39 22 0.25
40 19 0.22
41 19 0.22
42 21 0.24
43 6 0.07
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (39 bp):
TATTTTAAAATTAAAAAAAATTTAAAAAGTATTTTAAAA
Found at i:36226551 original size:114 final size:114
Alignment explanation
Indices: 36226382--36227170 Score: 1174
Period size: 114 Copynumber: 6.9 Consensus size: 114
36226372 GTGGCAGTAA
*
36226382 CGGCGTTTGTTTGTAAGCGCCGC-AACAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATA
1 CGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATA
*
36226446 GTAGAATTGGTGGCGTTTCTGTAAAAACACCGCTGAAGTGGATCATTAG
66 GTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCATTAG
36226495 CGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATA
1 CGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATA
*
36226560 GTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGTATCATTAG
66 GTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCATTAG
* * * * * *
36226609 CGCCGTTTTTTTATAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGTTTGAGATAGA
1 CGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATA
* *** *** * *
36226674 GT-GCACATAGGCACCCG--TC-GTACATGCTCGCCGATGAAGTGTATCATTAG
66 GTAG-A-ATTGG-TGGCGTTTCTGTA-A-AAACGCCGCTGAAGTGGATCATTAG
* *
36226724 CGGTGTTTGTTTGTAAGCGCCGCAAAAAAATGTTAAACAAAACGCAGCGTACAGGATTGAGGTAT
1 CGGCGTTTGTTTGTAAGCGCCGC-AAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTAT
*
36226789 AGTAGAATTGGTGGCGTTTCTGTCAAAACGCCGCTGAAGTGGATCATTAG
65 AGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCATTAG
* *
36226839 CAGCGTTTGCTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATA
1 CGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATA
* *
36226904 GTAGAATTAGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGTATCATTAG
66 GTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCATTAG
* * *
36226953 CGGCGTTTGTTTGTAAGCACCGCAAAAAATGTTAAACAAAATGCAGCGTACAAGATTGATGTATA
1 CGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATA
* * * * *
36227018 GTTGAATTTGTGGCGTTTCTATAGAAACGCAGCTGAAGTGGATCATTAG
66 GTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCATTAG
36227067 CGGCGTTTGTTTGTAAGCGCCGCAAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTAT
1 CGGCGTTTGTTTGTAAGCGCCGC-AAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTAT
*
36227132 AGTAGAATTGGTGGCGTTTCTATAAAAACGCCGCTGAAG
65 AGTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAG
36227171 CACATTATTA
Statistics
Matches: 604, Mismatches: 60, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
113 27 0.04
114 366 0.61
115 162 0.27
116 46 0.08
117 3 0.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (114 bp):
CGGCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATA
GTAGAATTGGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCATTAG
Found at i:36226809 original size:230 final size:227
Alignment explanation
Indices: 36226384--36227140 Score: 1038
Period size: 230 Copynumber: 3.3 Consensus size: 227
36226374 GGCAGTAACG
* * *
36226384 GCGTTTGTTTGTAAGCGCCGC-AACAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATAGT
1 GCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGATAGAGT
* * *** * * *
36226448 AGAATTGGTGGCGTTTCTGTAAAAACACCGCTGAAGTGGATCATTAGCGGCGTTTGTTTGTAAGC
66 AGAATTAGTGACCCGTCTGTAAAAACGCCGATGAAGTGTATCATTAGCGGCGTTTGTTTGTAAGC
36226513 GCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATAGTAGAATTGGTGGCGTTT
131 GCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATAGTAGAATTGGTGGCGTTT
*
36226578 CTGTAAAAACGCCGCTGAAGTGTATCATTAGC
196 CTGTAAAAACGCCGCTGAAGTGGATCATTAGC
* * *
36226610 GCCGTTTTTTTATAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGTTTGAGATAGAG
1 G-CGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGATAGAG
*** *
36226675 T-GCACA-TAG-GCACCCGTC-GTACATGCTCGCCGATGAAGTGTATCATTAGCGGTGTTTGTTT
65 TAG-A-ATTAGTG-ACCCGTCTGTA-A-AAACGCCGATGAAGTGTATCATTAGCGGCGTTTGTTT
*
36226736 GTAAGCGCCGCAAAAAAATGTTAAACAAAACGCAGCGTACAGGATTGAGGTATAGTAGAATTGGT
125 GTAAGCGCCGC-AAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATAGTAGAATTGGT
*
36226801 GGCGTTTCTGTCAAAACGCCGCTGAAGTGGATCATTAGC
189 GGCGTTTCTGTAAAAACGCCGCTGAAGTGGATCATTAGC
* * *
36226840 AGCGTTTGCTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATAG
1 -GCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGATAGAG
* *** *
36226905 TAGAATTAGTGGCGTTTCTGTAAAAACGCCGCTGAAGTGTATCATTAGCGGCGTTTGTTTGTAAG
65 TAGAATTAGTGACCCGTCTGTAAAAACGCCGATGAAGTGTATCATTAGCGGCGTTTGTTTGTAAG
* * * * *
36226970 CACCGCAAAAAATGTTAAACAAAATGCAGCGTACAAGATTGATGTATAGTTGAATTTGTGGCGTT
130 CGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATAGTAGAATTGGTGGCGTT
* * *
36227035 TCTATAGAAACGCAGCTGAAGTGGATCATTAGC
195 TCTGTAAAAACGCCGCTGAAGTGGATCATTAGC
* *
36227068 GGCGTTTGTTTGTAAGCGCCGCAAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATA
1 -GCGTTTGTTTGTAAGCGCCGC-AAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGATAGA
36227133 GTAGAATT
64 GTAGAATT
36227141 GGTGGCGTTT
Statistics
Matches: 469, Mismatches: 48, Indels: 25
0.87 0.09 0.05
Matches are distributed among these distances:
226 1 0.00
227 23 0.05
228 149 0.32
229 135 0.29
230 155 0.33
231 6 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (227 bp):
GCGTTTGTTTGTAAGCGCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGATAGAGT
AGAATTAGTGACCCGTCTGTAAAAACGCCGATGAAGTGTATCATTAGCGGCGTTTGTTTGTAAGC
GCCGCAAAAAATGTTAAACAAAACGCAGCGTACAAGATTGAGGTATAGTAGAATTGGTGGCGTTT
CTGTAAAAACGCCGCTGAAGTGGATCATTAGC
Found at i:36227978 original size:25 final size:26
Alignment explanation
Indices: 36227930--36227978 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
36227920 TTGTTTGTGG
* * *
36227930 TTTACGGGTTTAATATTTATGGTTGA
1 TTTACGGGTTTAAGATCTACGGTTGA
36227956 TTTA-GGGTTTAAGATCTACGGTT
1 TTTACGGGTTTAAGATCTACGGTT
36227979 AATGTTTACG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.22, C:0.06, G:0.24, T:0.47
Consensus pattern (26 bp):
TTTACGGGTTTAAGATCTACGGTTGA
Found at i:36229927 original size:24 final size:24
Alignment explanation
Indices: 36229895--36229945 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
36229885 GGTTCCTAGT
36229895 TGTCTATATGTGCAGATATATGTG
1 TGTCTATATGTGCAGATATATGTG
*
36229919 TGTCTATATGTGCAGATATGTGTG
1 TGTCTATATGTGCAGATATATGTG
36229943 TGT
1 TGT
36229946 GTTAGTGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.43
Consensus pattern (24 bp):
TGTCTATATGTGCAGATATATGTG
Found at i:36231852 original size:9 final size:9
Alignment explanation
Indices: 36231811--36232222 Score: 372
Period size: 9 Copynumber: 45.8 Consensus size: 9
36231801 TACAAGCTTA
*
36231811 TACATAAAT
1 TACATAACT
* *
36231820 TAAATTACT
1 TACATAACT
36231829 TACATAACT
1 TACATAACT
*
36231838 TGA-ATAAAT
1 T-ACATAACT
* *
36231847 TAAATAAGT
1 TACATAACT
36231856 TACATAACT
1 TACATAACT
*
36231865 TACATAACC
1 TACATAACT
*
36231874 TACATAAAT
1 TACATAACT
*
36231883 TAAATAACT
1 TACATAACT
36231892 TACATAACT
1 TACATAACT
36231901 TACATAA--
1 TACATAACT
* *
36231908 -A-TTAACC
1 TACATAACT
36231915 TACATAACT
1 TACATAACT
36231924 TACATAAACT
1 TACAT-AACT
* *
36231934 TGCATAAAT
1 TACATAACT
*
36231943 TAAATAACT
1 TACATAACT
*
36231952 TACATAACC
1 TACATAACT
*
36231961 TACATAAAT
1 TACATAACT
*
36231970 TAAATAACT
1 TACATAACT
36231979 TACATAACT
1 TACATAACT
*
36231988 TACATAAAT
1 TACATAACT
36231997 TA-AGTAACT
1 TACA-TAACT
36232006 TACATAACT
1 TACATAACT
36232015 TACATAAACT
1 TACAT-AACT
* *
36232025 TGCATAAAT
1 TACATAACT
*
36232034 TAAATAACT
1 TACATAACT
*
36232043 TACATAACC
1 TACATAACT
*
36232052 TACATAAAT
1 TACATAACT
*
36232061 TAAATAACT
1 TACATAACT
36232070 TACATAACT
1 TACATAACT
*
36232079 TACATAAAT
1 TACATAACT
*
36232088 TA-AGTAACC
1 TACA-TAACT
36232097 TACATAACT
1 TACATAACT
36232106 TACATAACCT
1 TACATAA-CT
* *
36232116 TGCATAAAT
1 TACATAACT
*
36232125 TAAATAACT
1 TACATAACT
*
36232134 TACATAACC
1 TACATAACT
*
36232143 TACATAAAT
1 TACATAACT
* *
36232152 TAAATAACG
1 TACATAACT
36232161 TACATAACT
1 TACATAACT
*
36232170 TACATAAAT
1 TACATAACT
*
36232179 TA-AGTAACC
1 TACA-TAACT
36232188 TACATAACT
1 TACATAACT
36232197 TACATAAACT
1 TACAT-AACT
*
36232207 TGCATAACT
1 TACATAACT
36232216 TACATAA
1 TACATAA
36232223 AAATATATCA
Statistics
Matches: 319, Mismatches: 68, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
5 3 0.01
6 1 0.00
8 5 0.02
9 274 0.86
10 36 0.11
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.31
Consensus pattern (9 bp):
TACATAACT
Found at i:36231918 original size:23 final size:22
Alignment explanation
Indices: 36231883--36231931 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 22
36231873 CTACATAAAT
*
36231883 TAAATAACTTACATAACTTACA
1 TAAATAACCTACATAACTTACA
36231905 TAAATTAACCTACATAACTTACA
1 TAAA-TAACCTACATAACTTACA
36231928 TAAA
1 TAAA
36231932 CTTGCATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAATAACCTACATAACTTACA
Found at i:36232243 original size:91 final size:91
Alignment explanation
Indices: 36231811--36232222 Score: 665
Period size: 91 Copynumber: 4.6 Consensus size: 91
36231801 TACAAGCTTA
* * * ** * *
36231811 TACATAAATTAAATTACTTACATAACTTGA-ATAAA-TTAAATAAGTTACATAACTTACATAACC
1 TACATAAATTAAGTAACCTACATAACTT-ACATAAACTTGCATAAATTAAATAACTTACATAACC
36231874 TACATAAATTAAATAACTTACATAACT
65 TACATAAATTAAATAACTTACATAACT
36231901 TACATAAA-T---TAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
1 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
36231962 ACATAAATTAAATAACTTACATAACT
66 ACATAAATTAAATAACTTACATAACT
*
36231988 TACATAAATTAAGTAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
1 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
36232053 ACATAAATTAAATAACTTACATAACT
66 ACATAAATTAAATAACTTACATAACT
*
36232079 TACATAAATTAAGTAACCTACATAACTTACATAACCTTGCATAAATTAAATAACTTACATAACCT
1 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
*
36232144 ACATAAATTAAATAACGTACATAACT
66 ACATAAATTAAATAACTTACATAACT
* *
36232170 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAACTTACATAA
1 TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAA
36232223 AAATATATCA
Statistics
Matches: 303, Mismatches: 13, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
85 1 0.00
86 18 0.06
87 59 0.19
88 1 0.00
89 1 0.00
90 8 0.03
91 215 0.71
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.31
Consensus pattern (91 bp):
TACATAAATTAAGTAACCTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACCT
ACATAAATTAAATAACTTACATAACT
Found at i:36237753 original size:21 final size:21
Alignment explanation
Indices: 36237727--36237795 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
36237717 NNNNAACTTA
*
36237727 AAGCAGAGGCGACAGCGAGGG
1 AAGCAGAGGCGACAGCGAGAG
*
36237748 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCGACAGCGAGAG
36237769 AAGCAGAGGTCG-CAGCGAGAG
1 AAGCAGAGG-CGACAGCGAGAG
36237790 AAGCAG
1 AAGCAG
36237796 CGATAGAAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 43 0.98
22 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCGACAGCGAGAG
Found at i:36238352 original size:42 final size:42
Alignment explanation
Indices: 36238294--36238606 Score: 366
Period size: 42 Copynumber: 7.4 Consensus size: 42
36238284 TTTGTGAAAT
**
36238294 AAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTAAAC
1 AAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTAC
* * * ** *
36238336 AAGCGCCGCTATAGAACATTA-CTTTTAGAGGCGTTTTCCTCC
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTTTTAC
*
36238378 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCC
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTAC
*
36238422 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCC
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAC
* * * *
36238464 TAAGCGCCACTAAATAACATGATCTTTAGCGGCGTTTGTCT-C
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAC
*
36238506 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAC
*
36238549 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAC
*
36238591 AAGCGCCGCTATAGAA
1 AAGCGCCGCTAAAGAA
36238607 NNNNNNNNNN
Statistics
Matches: 243, Mismatches: 22, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.00
42 168 0.69
43 32 0.13
44 42 0.17
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAC
Found at i:36238483 original size:129 final size:126
Alignment explanation
Indices: 36238292--36238606 Score: 401
Period size: 129 Copynumber: 2.5 Consensus size: 126
36238282 CGTTTGTGAA
* * *
36238292 ATAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTAAAC-AAGCGCCGCTATAGAACA
1 ATAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TACTAAGCGCCACTAAAGAACA
*
36238354 TTA-CTTTTAGAGGCGTTT-TCCTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
63 TGATC-TTTAGAGGCGTTTGT-CT-CAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
36238417 TT
125 TT
* *
36238419 -TCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCTAAGCGCCACTAAATAACA
1 AT---AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACTAAGCGCCACTAAAGAACA
* *
36238483 TGATCTTTAGCGGCGTTTGTCTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
63 TGATCTTTAGAGGCGTTTGTCTCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
* *
36238547 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTA-TAAGCGCCGCTATAGAA
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTACTAAGCGCCACTAAAGAA
36238607 NNNNNNNNNN
Statistics
Matches: 166, Mismatches: 12, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
126 48 0.29
127 6 0.04
128 43 0.26
129 66 0.40
130 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (126 bp):
ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTACTAAGCGCCACTAAAGAACATGA
TCTTTAGAGGCGTTTGTCTCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
Found at i:36238815 original size:43 final size:42
Alignment explanation
Indices: 36238707--36238859 Score: 279
Period size: 42 Copynumber: 3.6 Consensus size: 42
36238697 NNNNNNNNNN
*
36238707 AACATGATCTTTAGCGGCGTTTTTTTATAAGCGCCGCTATAG
1 AACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTATAG
36238749 AACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTATAG
1 AACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTATAG
*
36238791 AACATGATCTTTAGCGGCGTTTTTTTTCTAAGCGCCGCTAAAG
1 AACATGATCTTTAGCGGCG-TTTTTTTCTAAGCGCCGCTATAG
36238834 AACATGATCTTTAGCGGCGTTTTTTT
1 AACATGATCTTTAGCGGCGTTTTTTT
36238860 ATGTAAGCGC
Statistics
Matches: 108, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
42 67 0.62
43 41 0.38
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (42 bp):
AACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTATAG
Found at i:36243835 original size:21 final size:21
Alignment explanation
Indices: 36243809--36243859 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
36243799 TATAGTTTAG
36243809 GGTTTAGGGGATAAGGGTTGT
1 GGTTTAGGGGATAAGGGTTGT
*
36243830 GGTTTAGGCGATAAGGGTTGT
1 GGTTTAGGGGATAAGGGTTGT
36243851 GGTTTAGGG
1 GGTTTAGGG
36243860 TCTAGGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.02, G:0.47, T:0.33
Consensus pattern (21 bp):
GGTTTAGGGGATAAGGGTTGT
Found at i:36244580 original size:251 final size:251
Alignment explanation
Indices: 36244171--36244666 Score: 685
Period size: 251 Copynumber: 2.0 Consensus size: 251
36244161 TTGGCTAAAG
* * * * *
36244171 GAATTTGAATTTTAGTGGCATTTTTAATAAAAACGTCACTGAAGGTATGCTATAGTGGCGTTTTA
1 GAATTTGAAATTTAGTGGCATTTGTAATAAAAACGCCACAGAAGGTATACTATAGTGGCGTTTTA
* *
36244236 TATTGAAACGCCGCAAATACATAAATGTTTCTCTGTACGAAAACGGCGTCGTTTTCTTAAATGAT
66 TATAGAAACGCCGCAAATACATAAATGTTTCTCTGAACGAAAACGGCGTCGTTTTCTTAAATGAT
* * * *
36244301 TTGAACTCCTTACTGGCATTTTTATTTAAAACGCCGCAAAATGTTATCTTTAGCGGCGTTTGGTA
131 TTGAACTCCTTACTGGCATTTGTATTTAAAACGCCGC-AAATGTAAGCTTTAGCGGCGTTTAGTA
* *
36244366 T-AGAAACGCCACAAATGTGTATTACAAAATGTTCAGAACGTCACTGTTTCGTTACAT
195 TGA-AAACGCCACAAATGTGTATTAAAAAATGTTCAGAACGTCACCGTTTCGTTACAT
* *
36244423 GAATTTGAAATTTAGTGGCGTTTGT-ATGAAAAATGCCACAGAAGGTATAC-AGTAGTGGCGTTT
1 GAATTTGAAATTTAGTGGCATTTGTAAT-AAAAACGCCACAGAAGGTATACTA-TAGTGGCGTTT
* * * * * *
36244486 T-TATAGAAACGCCGCAAATCCGTATATGTTTTTGTGAACGAAAACGGCGTCGTTTTCTTGAATG
64 TATATAGAAACGCCGCAAATACATAAATGTTTCTCTGAACGAAAACGGCGTCGTTTTCTTAAATG
* * * *
36244550 ATTTGAACTCTTTAGTGGCGTTTGTATTTAAAACGCCGCAACTGTAAGCTTTAGCGGCGTTTAGT
129 ATTTGAACTCCTTACTGGCATTTGTATTTAAAACGCCGCAAATGTAAGCTTTAGCGGCGTTTAGT
* *
36244615 ATGAAAACGCCACAAATGTGTATTAAAAAATTTTCAGAACGTCGCCGTTTCG
194 ATGAAAACGCCACAAATGTGTATTAAAAAATGTTCAGAACGTCACCGTTTCG
36244667 GTTGAGGAAC
Statistics
Matches: 214, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
250 68 0.32
251 94 0.44
252 52 0.24
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (251 bp):
GAATTTGAAATTTAGTGGCATTTGTAATAAAAACGCCACAGAAGGTATACTATAGTGGCGTTTTA
TATAGAAACGCCGCAAATACATAAATGTTTCTCTGAACGAAAACGGCGTCGTTTTCTTAAATGAT
TTGAACTCCTTACTGGCATTTGTATTTAAAACGCCGCAAATGTAAGCTTTAGCGGCGTTTAGTAT
GAAAACGCCACAAATGTGTATTAAAAAATGTTCAGAACGTCACCGTTTCGTTACAT
Found at i:36245729 original size:22 final size:22
Alignment explanation
Indices: 36245702--36245748 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
36245692 GTCTTTCTAC
36245702 TTAGGTTTAATCAGTATAAAAT
1 TTAGGTTTAATCAGTATAAAAT
*
36245724 TTAGGTTTAATCAGTATTAAAT
1 TTAGGTTTAATCAGTATAAAAT
36245746 TTA
1 TTA
36245749 AGAAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (22 bp):
TTAGGTTTAATCAGTATAAAAT
Found at i:36246877 original size:19 final size:19
Alignment explanation
Indices: 36246855--36246895 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
36246845 TTTATTAGTA
36246855 AACAATTTTTAAATTACAT
1 AACAATTTTTAAATTACAT
*
36246874 AACAATTTTTAAATTATAT
1 AACAATTTTTAAATTACAT
36246893 AAC
1 AAC
36246896 TTACATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
AACAATTTTTAAATTACAT
Found at i:36246989 original size:25 final size:25
Alignment explanation
Indices: 36246961--36247011 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
36246951 ATTTTTTTCA
36246961 AAATTTATCAATCATAGCATAACTT
1 AAATTTATCAATCATAGCATAACTT
*
36246986 AAATTTATCAATCATATCATAACTT
1 AAATTTATCAATCATAGCATAACTT
36247011 A
1 A
36247012 TATATAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATTTATCAATCATAGCATAACTT
Found at i:36247104 original size:19 final size:19
Alignment explanation
Indices: 36247080--36247123 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
36247070 TATAAACTTG
36247080 CATAACAATTTTTAAATTA
1 CATAACAATTTTTAAATTA
36247099 CATAACAATTTTTAAATTA
1 CATAACAATTTTTAAATTA
*
36247118 TATAAC
1 CATAAC
36247124 TTACATAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (19 bp):
CATAACAATTTTTAAATTA
Found at i:36247179 original size:17 final size:18
Alignment explanation
Indices: 36247159--36247192 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36247149 ACATTTTTAA
36247159 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
36247176 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
36247193 TTATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Found at i:36247217 original size:25 final size:25
Alignment explanation
Indices: 36247189--36247239 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
36247179 ATTTTTTTCA
36247189 AAATTTATCAATCATAGCATAACTT
1 AAATTTATCAATCATAGCATAACTT
*
36247214 AAATTTATCAATCATATCATAACTT
1 AAATTTATCAATCATAGCATAACTT
36247239 A
1 A
36247240 TATATAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATTTATCAATCATAGCATAACTT
Done.