Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 378 of 433
Found at i:118137721 original size:40 final size:40
Alignment explanation
Indices: 118137636--118137786 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
118137626 AATTGAATGA
* * * *
118137636 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
118137676 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
118137717 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
118137756 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
118137787 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:118137800 original size:40 final size:40
Alignment explanation
Indices: 118137673--118137802 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
118137663 ATGCTGGAAA
* * *
118137673 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
118137713 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
118137753 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
118137793 TTATATCCGG
1 TTATATCCGG
118137803 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:118137801 original size:80 final size:80
Alignment explanation
Indices: 118137635--118137802 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
118137625 AAATTGAATG
* *
118137635 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
118137700 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
118137715 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
118137778 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
118137795 ATATCCGG
1 ATATCCGG
118137803 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:118145782 original size:40 final size:40
Alignment explanation
Indices: 118145656--118145783 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
118145646 AAATTGAATG
* * * * ***
118145656 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
* *
118145696 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
* *
118145736 ACATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTGGTT
118145776 ATATCCGG
1 ATATCCGG
118145784 TTATATTCCG
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
Found at i:118153818 original size:14 final size:14
Alignment explanation
Indices: 118153799--118153825 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
118153789 ATATTTGGCT
118153799 TGTTCTTAATTATG
1 TGTTCTTAATTATG
118153813 TGTTCTTAATTAT
1 TGTTCTTAATTAT
118153826 TGTCTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:118155714 original size:20 final size:20
Alignment explanation
Indices: 118155689--118155760 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
118155679 GGTATTGATC
*
118155689 AGGTATTGATACTTTTCTTA
1 AGGTATCGATACTTTTCTTA
118155709 AGGTATCGATACTTTTCTTA
1 AGGTATCGATACTTTTCTTA
* *
118155729 AGATATCGATA-TATTTCCTAA
1 AGGTATCGATACT-TTT-CTTA
118155750 AGGTATCGATA
1 AGGTATCGATA
118155761 TTCTTACCCC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
19 1 0.02
20 32 0.70
21 13 0.28
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (20 bp):
AGGTATCGATACTTTTCTTA
Found at i:118158042 original size:23 final size:26
Alignment explanation
Indices: 118158014--118158069 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
118158004 ATAGCCCGGA
118158014 TAAGCTTTCT-AAT-A-GGCTCTTTG
1 TAAGCTTTCTGAATAATGGCTCTTTG
* *
118158037 TGAGCTTTCTGATTAATGGCTCTTTG
1 TAAGCTTTCTGAATAATGGCTCTTTG
118158063 TAAGCTT
1 TAAGCTT
118158070 CCTGTTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 9 0.33
24 2 0.07
25 1 0.04
26 15 0.56
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.45
Consensus pattern (26 bp):
TAAGCTTTCTGAATAATGGCTCTTTG
Found at i:118158061 original size:26 final size:25
Alignment explanation
Indices: 118158023--118158083 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 25
118158013 ATAAGCTTTC
* *
118158023 TAATAGGCTCTTTGTGAGCTTTCTGAT
1 TAAT-GGCTCTTTGTAAGCTTCCTG-T
118158050 TAATGGCTCTTTGTAAGCTTCCTGT
1 TAATGGCTCTTTGTAAGCTTCCTGT
118158075 TATATGGCT
1 TA-ATGGCT
118158084 TGAGGGAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 3 0.10
26 24 0.77
27 4 0.13
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.44
Consensus pattern (25 bp):
TAATGGCTCTTTGTAAGCTTCCTGT
Found at i:118158840 original size:2 final size:2
Alignment explanation
Indices: 118158833--118158872 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
118158823 ACCCATTTCG
118158833 AT AT 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 AT AT
118158873 GGTAAATCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118160533 original size:34 final size:33
Alignment explanation
Indices: 118160495--118160613 Score: 152
Period size: 34 Copynumber: 3.5 Consensus size: 33
118160485 AGGTTTAAAA
118160495 TTTTAAAAAAATTAATTAAATTAGGTCTTAGGGT
1 TTTTAAAAAAATTAATTAAATTAGGT-TTAGGGT
**
118160529 TTTTAAGTAAATTAATTAAATTAGAGTTTAGGGTTT
1 TTTTAAAAAAATTAATTAAATTAG-GTTTAGGG--T
*
118160565 TTTTAAAAAAATTAATTAAATTAAGGTTTAAGG-
1 TTTTAAAAAAATTAATTAAATT-AGGTTTAGGGT
118160598 TTTTAAAAAAA-TAATT
1 TTTTAAAAAAATTAATT
118160614 TTGTGTTTAG
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
32 5 0.07
33 11 0.14
34 28 0.37
35 2 0.03
36 28 0.37
37 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.13, T:0.43
Consensus pattern (33 bp):
TTTTAAAAAAATTAATTAAATTAGGTTTAGGGT
Found at i:118160577 original size:36 final size:36
Alignment explanation
Indices: 118160495--118160601 Score: 141
Period size: 36 Copynumber: 3.0 Consensus size: 36
118160485 AGGTTTAAAA
118160495 TTTTAAAAAAATTAATTAAATTAG-GTCTTAGGG--T
1 TTTTAAAAAAATTAATTAAATTAGAGT-TTAGGGTTT
**
118160529 TTTTAAGTAAATTAATTAAATTAGAGTTTAGGGTTT
1 TTTTAAAAAAATTAATTAAATTAGAGTTTAGGGTTT
*
118160565 TTTTAAAAAAATTAATTAAATTA-AGGTTTAAGGTTT
1 TTTTAAAAAAATTAATTAAATTAGA-GTTTAGGGTTT
118160601 T
1 T
118160602 AAAAAAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
34 28 0.44
35 3 0.05
36 33 0.52
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (36 bp):
TTTTAAAAAAATTAATTAAATTAGAGTTTAGGGTTT
Found at i:118161071 original size:126 final size:125
Alignment explanation
Indices: 118160690--118161203 Score: 557
Period size: 126 Copynumber: 4.2 Consensus size: 125
118160680 AGAATGATTT
* * * *
118160690 TTTTTCTACAATAGTTTTTGAAAAATTAATTTTGAGAAGACGATTCTGAAAAAATAGTGACAAAA
1 TTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * * *
118160755 ACGTTTCAAGCAAGATACA-TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGATGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAACTCTCACATGGACGCTC
* * * * *
118160815 TTTTTCTACATTAGTT-TCTGAAAGAATAATTTTGAGAAGACAGTTCTAAAAAAATAATGTCAAA
1 TTTTTCTACAATAGTTCT-TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAA
* * * * *
118160879 AACGCTTCAAGCAGTATGCACTGTCAGCAAAATTACTAAACAAAAATCTCACGTGGATGCTT
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAA-AAAACTCTCACATGGACGCTC
* *
118160941 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAAAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * *
118161006 ACGCTTCAAGTAGGATGCACTGTAAGCAAAATTACTAAAAAAAGCTCTTACATGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAA-CTCTCACATGGACGCTC
*
118161067 -TTTT-T----T--TTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTC-AAA
1 TTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * * *
118161123 ACACTTCAAGTAGTATGCACTATCAGCAAAGTTACTGAAGAAAAATTC-CACATGAACGCTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AA-AAAAACTCTCACATGGACGCTC
*
118161184 TTTTTCTATAATAGTTCTTG
1 TTTTTCTACAATAGTTCTTG
118161204 CTTGGCCTTA
Statistics
Matches: 331, Mismatches: 43, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
117 44 0.13
118 53 0.16
119 6 0.02
120 1 0.00
123 1 0.00
124 2 0.01
125 86 0.26
126 137 0.41
127 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAACTCTCACATGGACGCTC
Found at i:118164771 original size:18 final size:18
Alignment explanation
Indices: 118164730--118164771 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
118164720 ATTAGGAAAA
*
118164730 AGAA-ACATATAAGGGTT
1 AGAATACATATAAGGGCT
118164747 A-AGATACATATAAGGGCT
1 AGA-ATACATATAAGGGCT
118164765 AGAATAC
1 AGAATAC
118164772 GCACCTGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 1 0.05
17 2 0.10
18 17 0.81
19 1 0.05
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (18 bp):
AGAATACATATAAGGGCT
Found at i:118172789 original size:7 final size:7
Alignment explanation
Indices: 118172779--118172803 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
118172769 TCTAAAGTAT
118172779 AAAAATA
1 AAAAATA
118172786 AAAAATA
1 AAAAATA
118172793 AAAAATA
1 AAAAATA
118172800 AAAA
1 AAAA
118172804 CAGCTCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:118178039 original size:3 final size:3
Alignment explanation
Indices: 118178031--118178081 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
118178021 AATTGGTCCA
118178031 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
118178079 ATT
1 ATT
118178082 TAAAAAATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:118183950 original size:19 final size:20
Alignment explanation
Indices: 118183926--118183963 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
118183916 ATGGTTAGGA
118183926 TTTGAGTTAAGG-TTTAAGT
1 TTTGAGTTAAGGATTTAAGT
*
118183945 TTTGAGTTTAGGATTTAAG
1 TTTGAGTTAAGGATTTAAG
118183964 GTTCGTGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (20 bp):
TTTGAGTTAAGGATTTAAGT
Found at i:118191846 original size:18 final size:20
Alignment explanation
Indices: 118191823--118191867 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
118191813 TATGCAATCA
118191823 AAAACTTAAAATT-AAATT-
1 AAAACTTAAAATTGAAATTG
118191841 AAAAC-T-AAATTGAAATTG
1 AAAACTTAAAATTGAAATTG
118191859 AAAACTTAA
1 AAAACTTAA
118191868 GTTAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 5 0.22
17 6 0.26
18 10 0.43
19 1 0.04
20 1 0.04
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAACTTAAAATTGAAATTG
Found at i:118193688 original size:20 final size:19
Alignment explanation
Indices: 118193653--118193691 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
118193643 AATTTATTGT
118193653 AATATTATTTATATTTTAA
1 AATATTATTTATATTTTAA
118193672 AATATCTATTTCA-ATTTTAA
1 AATAT-TATTT-ATATTTTAA
118193692 TAGTGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 12 0.67
21 1 0.06
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATTATTTATATTTTAA
Found at i:118195802 original size:27 final size:26
Alignment explanation
Indices: 118195754--118195813 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
118195744 TTTTTTTTTT
*
118195754 AAATTTTGTTAAAAAGTTTAATGTAA
1 AAATTTTGTTAAAAAGTATAATGTAA
*
118195780 AAATATTTGTTGAAAAAG-ATAAT-TTA
1 AAAT-TTTGTT-AAAAAGTATAATGTAA
118195806 AAATTTTG
1 AAATTTTG
118195814 GGCATATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 4 0.13
26 10 0.33
27 10 0.33
28 6 0.20
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.42
Consensus pattern (26 bp):
AAATTTTGTTAAAAAGTATAATGTAA
Found at i:118196258 original size:31 final size:31
Alignment explanation
Indices: 118196215--118196313 Score: 105
Period size: 31 Copynumber: 3.3 Consensus size: 31
118196205 ATTAAGTATC
* * *
118196215 AAATTATG-AAAAACTGTGAAGTTTAGATGCT
1 AAATTA-GAAAAAACTATCAAGTTTAGATACT
118196246 AAATTAGAAAAAACTATCAAGTTTAGATACT
1 AAATTAGAAAAAACTATCAAGTTTAGATACT
* * * *
118196277 AAATTACAAAAAAGTGTCAA-ATTA-ATACT
1 AAATTAGAAAAAACTATCAAGTTTAGATACT
118196306 AAATTAGA
1 AAATTAGA
118196314 CTCAAAAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
29 12 0.20
30 4 0.07
31 43 0.73
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (31 bp):
AAATTAGAAAAAACTATCAAGTTTAGATACT
Found at i:118196984 original size:2 final size:2
Alignment explanation
Indices: 118196953--118197000 Score: 51
Period size: 2 Copynumber: 23.5 Consensus size: 2
118196943 AAACAATAAT
* * * *
118196953 TA TA TA CTA CA TA TA AA TA CA TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118196996 TA TA T
1 TA TA T
118197001 GCATGTCTCA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:118202364 original size:41 final size:43
Alignment explanation
Indices: 118202295--118202392 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 43
118202285 AAATCCTATT
* *
118202295 TATTTAATTAT-TTTCATATCTAATA-TTTTAAATAAATATAAA
1 TATTTATTTATATTT-AGATCTAATATTTTTAAATAAATATAAA
* * * *
118202337 TATTTATTT-TATTTAGATCTGATATTTTTACATCAATATAAC
1 TATTTATTTATATTTAGATCTAATATTTTTAAATAAATATAAA
*
118202379 TATTTGTTTATATT
1 TATTTATTTATATT
118202393 ATTTATTCAG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 9 0.20
42 33 0.72
43 4 0.09
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (43 bp):
TATTTATTTATATTTAGATCTAATATTTTTAAATAAATATAAA
Found at i:118214930 original size:6 final size:6
Alignment explanation
Indices: 118214919--118214944 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
118214909 TGGGAGAAAG
118214919 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
118214945 TTCAATTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:118221226 original size:3 final size:3
Alignment explanation
Indices: 118221220--118221319 Score: 59
Period size: 3 Copynumber: 33.3 Consensus size: 3
118221210 CTTATTTTCG
*
118221220 TTA TTA -TA TTA TTA TTA TTA TTA TTA -TA CTT- GTA CTTA -TA TTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TT-A
* * * *
118221264 TT- TTA TTC TAA TGCCA TTA TTA TTA CTA TT- TCTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
118221310 TTA TTA TTA T
1 TTA TTA TTA T
118221320 ATATATATAT
Statistics
Matches: 76, Mismatches: 9, Indels: 24
0.70 0.08 0.22
Matches are distributed among these distances:
2 10 0.13
3 57 0.75
4 7 0.09
5 2 0.03
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:118221473 original size:14 final size:15
Alignment explanation
Indices: 118221427--118221497 Score: 58
Period size: 14 Copynumber: 4.7 Consensus size: 15
118221417 TCTTTTATGT
*
118221427 TTATTTTTATTAAT-A
1 TTATTATTATT-ATCA
*
118221442 TTATTATTATAATCTCA
1 TTATTATTAT--TATCA
118221459 TT-TTATTATTATCA
1 TTATTATTATTATCA
* *
118221473 TTCTTATTAATA-CA
1 TTATTATTATTATCA
118221487 TTATTATTATT
1 TTATTATTATT
118221498 TTTACTATAC
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
14 17 0.37
15 17 0.37
16 8 0.17
17 4 0.09
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTATTATTATCA
Found at i:118221479 original size:28 final size:28
Alignment explanation
Indices: 118221431--118221497 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
118221421 TTATGTTTAT
* * *
118221431 TTTTATTAATATTATTATTA-TAATCTCA
1 TTTTATTATTATCATTATTATTAAT-ACA
*
118221459 TTTTATTATTATCATTCTTATTAATACA
1 TTTTATTATTATCATTATTATTAATACA
118221487 TTATTATTATT
1 TT-TTATTATT
118221498 TTTACTATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 21 0.64
29 12 0.36
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTTATTATTATCATTATTATTAATACA
Found at i:118221492 original size:23 final size:23
Alignment explanation
Indices: 118221462--118221516 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
118221452 AATCTCATTT
*
118221462 TATTATTATCATTCTTATTAATAC
1 TATTATTATCATTCTTACT-ATAC
* *
118221486 -ATTATTATTATTTTTACTATAC
1 TATTATTATCATTCTTACTATAC
118221508 TATTATTAT
1 TATTATTAT
118221517 TCCCTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTATTATCATTCTTACTATAC
Found at i:118221649 original size:20 final size:20
Alignment explanation
Indices: 118221566--118221658 Score: 68
Period size: 20 Copynumber: 4.5 Consensus size: 20
118221556 TTATTACTAT
*
118221566 TATTTTTATTTTTATT-AC-
1 TATTATTATTTTTATTAACA
118221584 TATTACTT-TTTTTATTATTACTA
1 TATTA-TTATTTTTATTA--AC-A
* *
118221607 CTACTGTTATTTTTATTAACA
1 -TATTATTATTTTTATTAACA
*
118221628 TATTATTATTATTT-TTACCA
1 TATTATTATT-TTTATTAACA
118221648 TATTATTATTT
1 TATTATTATTT
118221659 CCTATTTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
18 12 0.20
19 3 0.05
20 23 0.38
21 6 0.10
22 2 0.03
23 2 0.03
24 12 0.20
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.63
Consensus pattern (20 bp):
TATTATTATTTTTATTAACA
Found at i:118221657 original size:3 final size:3
Alignment explanation
Indices: 118221427--118221640 Score: 73
Period size: 3 Copynumber: 71.7 Consensus size: 3
118221417 TCTTTTATGT
* * * *
118221427 TTA TTT TTA TTA ATA TTA TTA TTA TAA TCTCA TT- TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA TTA TTA
* * * * * * *
118221473 TTC TTA TTA ATA -CA TTA TTA TTA TTT TTA CTA -TA CTA TTA TTA TTCCC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A
* ** * * *
118221521 TT- TTT TTA TATA TTA CAA TTA TTG TTA -TA TTA TCA TTA TTA CTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
118221565 TTA TTT TTA TTT TTA TTA CTA TTA CTT- TTT TTA TTA TTA CTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* * * **
118221610 CTG TTA TTT TTA TTA ACA -TA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
118221641 TTTACCATAT
Statistics
Matches: 153, Mismatches: 45, Indels: 26
0.68 0.20 0.12
Matches are distributed among these distances:
2 12 0.08
3 131 0.86
4 6 0.04
5 4 0.03
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:118233695 original size:44 final size:44
Alignment explanation
Indices: 118233559--118233791 Score: 120
Period size: 44 Copynumber: 5.3 Consensus size: 44
118233549 AGCCTTAACC
* * *
118233559 CCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAAATTTTGTCT
1 CCCTAAGCAGTAGGGTAACAGGATGAAAATTACAAATCTTGTCT
** * ** *** ** *
118233603 CCCTAAGCAGTAGTGG-AGTA-GATCGAAGACGA-AGGGCCTTAACC
1 CCCTAAGCAGTAG-GGTAACAGGAT-GAAAATTACA-AATCTTGTCT
*
118233647 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAAATCTTGTCT
1 CCCTAAGCAGTAGGGTAACAGGATGAAAATTACAAATCTTGTCT
* * * * ** ** *
118233691 CCCTAAGTAGTAGTGG-AGCA-GATCGAAGA--CCAAGGGCCTTAACC
1 CCCTAAGCAGTAG-GGTAACAGGAT-GAAAATTACAA--ATCTTGTCT
* *
118233735 CCCTAAGCAGTAGGGTAACAGGATGAAAATTACATATCTTGTTT
1 CCCTAAGCAGTAGGGTAACAGGATGAAAATTACAAATCTTGTCT
118233779 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
118233792 TGGAGTAGAT
Statistics
Matches: 128, Mismatches: 47, Indels: 28
0.63 0.23 0.14
Matches are distributed among these distances:
42 3 0.02
43 9 0.07
44 104 0.81
45 10 0.08
46 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAGGATGAAAATTACAAATCTTGTCT
Found at i:118233703 original size:88 final size:88
Alignment explanation
Indices: 118233550--118233801 Score: 432
Period size: 88 Copynumber: 2.9 Consensus size: 88
118233540 GAATTCGTAA
* *
118233550 GCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAAATTTTGTCTCCCTAAGCAGTA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAAATCTTGTCTCCCTAAGCAGTA
*
118233615 GTGGAGTAGATCGAAGACGAAGG
66 GTGGAGTAGATCGAAGACCAAGG
*
118233638 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAAATCTTGTCTCCCTAAGTAGTA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAAATCTTGTCTCCCTAAGCAGTA
*
118233703 GTGGAGCAGATCGAAGACCAAGG
66 GTGGAGTAGATCGAAGACCAAGG
* * *
118233726 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGATGAAAATTACATATCTTGTTTCCCTAAGCAGTA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAAATCTTGTCTCCCTAAGCAGTA
118233791 GTGGAGTAGAT
66 GTGGAGTAGAT
118233802 TTAAGCCACC
Statistics
Matches: 154, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 154 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (88 bp):
GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAAATCTTGTCTCCCTAAGCAGTA
GTGGAGTAGATCGAAGACCAAGG
Found at i:118233936 original size:44 final size:44
Alignment explanation
Indices: 118233888--118234031 Score: 114
Period size: 44 Copynumber: 3.3 Consensus size: 44
118233878 GCGGAGTAGA
* *
118233888 TCGAAGCTACAAATCTCTTCTCCTTAAAATGGCACTGGGGAGGC
1 TCGAAGCCACAAATCTCTTCTCCTTGAAATGGCACTGGGGAGGC
* * ** * * *
118233932 TCGAAGCCAC-AAT-TCGTATCTCTTTGAAGTTCCAGCAGGGTA-GA
1 TCGAAGCCACAAATCTC-T-TCTCCTTGAAATGGCA-CTGGGGAGGC
* * * *
118233976 TCGAAGCTACAAATCTCTTCTCCCTGAAATGGCACTGGAGCGGC
1 TCGAAGCCACAAATCTCTTCTCCTTGAAATGGCACTGGGGAGGC
*
118234020 TCAAAGCCACAA
1 TCGAAGCCACAA
118234032 TTCGTATCTC
Statistics
Matches: 72, Mismatches: 22, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
42 2 0.03
43 7 0.10
44 52 0.72
45 9 0.12
46 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (44 bp):
TCGAAGCCACAAATCTCTTCTCCTTGAAATGGCACTGGGGAGGC
Found at i:118234104 original size:88 final size:88
Alignment explanation
Indices: 118233853--118234105 Score: 371
Period size: 88 Copynumber: 2.9 Consensus size: 88
118233843 TTGAAATCAT
* ** * * *
118233853 CAATTCGTATCTCCTTGAAGTTTTAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTAAAAT
1 CAATTCGTATCTCATTGAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
* * *
118233918 GGCACTGGGGAGGCTCGAAGCCA
66 GGCACTGGAGCGGCTCAAAGCCA
* *
118233941 CAATTCGTATCTCTTTGAAGTTCCAGCAGGGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
1 CAATTCGTATCTCATTGAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
118234006 GGCACTGGAGCGGCTCAAAGCCA
66 GGCACTGGAGCGGCTCAAAGCCA
* * *
118234029 CAATTCGTATCTCATTGAAGTTCCAGCATAGTGGATTGAAGCTACAAATCTCTTCTCCCTGAAAT
1 CAATTCGTATCTCATTGAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
*
118234094 GGCATTGGAGCG
66 GGCACTGGAGCG
118234106 ATTAAAGCTA
Statistics
Matches: 149, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 149 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (88 bp):
CAATTCGTATCTCATTGAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
GGCACTGGAGCGGCTCAAAGCCA
Found at i:118234536 original size:22 final size:23
Alignment explanation
Indices: 118234503--118234563 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
118234493 ACAGCCCTAA
118234503 CCCAAAC--AAATCAAACCCAAG
1 CCCAAACTAAAATCAAACCCAAG
* * *
118234524 CCC-AACTAAAATCTAGCCCCAG
1 CCCAAACTAAAATCAAACCCAAG
118234546 CCCAAACTAACAATCAAA
1 CCCAAACTAA-AATCAAA
118234564 AAGAAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.10
21 3 0.10
22 14 0.45
23 6 0.19
24 5 0.16
ACGTcount: A:0.48, C:0.38, G:0.05, T:0.10
Consensus pattern (23 bp):
CCCAAACTAAAATCAAACCCAAG
Found at i:118235000 original size:5 final size:6
Alignment explanation
Indices: 118234983--118235013 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
118234973 ATAGATATAT
*
118234983 ATAAAA ATAAAA ATAAAA ATAAAA ACAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
118235014 AAATACCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (6 bp):
ATAAAA
Found at i:118235076 original size:12 final size:13
Alignment explanation
Indices: 118235048--118235076 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
118235038 ACCGTGTGCT
118235048 GTGGCCGACGATG
1 GTGGCCGACGATG
118235061 GTGGCCGACG-TG
1 GTGGCCGACGATG
118235073 GTGG
1 GTGG
118235077 TGACAGGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.10, C:0.21, G:0.52, T:0.17
Consensus pattern (13 bp):
GTGGCCGACGATG
Found at i:118235798 original size:3 final size:3
Alignment explanation
Indices: 118235790--118236068 Score: 98
Period size: 3 Copynumber: 94.3 Consensus size: 3
118235780 TCCATACATA
* * * *
118235790 TAT TAT TAT T-T ATAG TAT TAC TAT TAT TAC TAT T-T CTTT TAT GT-T
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT
* * * *
118235835 TAT TTT TAT TAA TAT TAT TAT TAT CTCAT T-T TAT TAT TAT CAT TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT -T-AT TAT TAT TAT TAT TAT TAT
* * * * * *
118235881 TAT TAA TA- CAT TAT TAT TAT TTT TAC TA- TAC TAT TAT TAT TCCCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T--AT
* * * * *
118235926 T-T T-T TAT ATAT TAC TAT TAT TGT TA- TAT TAT CAT TAT TAC CAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
118235969 TAT TTT TAT TTT TAT TTT TAT TAC TAT TACT TTT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * * * * *
118236015 TAC TAC TGT TAT TTT TAT TAA CA- TAT TAT TAT TAT T-T T-T TAT CA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
118236059 TAT TAT TAT T
1 TAT TAT TAT T
118236069 TCCTATTTTT
Statistics
Matches: 202, Mismatches: 54, Indels: 40
0.68 0.18 0.14
Matches are distributed among these distances:
2 20 0.10
3 169 0.84
4 9 0.04
5 4 0.02
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:118235892 original size:14 final size:14
Alignment explanation
Indices: 118235838--118235899 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
118235828 TTATGTTTAT
118235838 TTTTATTAATAT--
1 TTTTATTAATATCA
* *
118235850 TATTATT-ATCTCA
1 TTTTATTAATATCA
*
118235863 TTTTATTATTATCA
1 TTTTATTAATATCA
118235877 TTCTTATTAATA-CA
1 TT-TTATTAATATCA
118235891 TTATTATTA
1 TT-TTATTA
118235900 TTTTTACTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
11 3 0.08
12 6 0.15
13 6 0.15
14 16 0.41
15 8 0.21
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTATTAATATCA
Found at i:118235921 original size:23 final size:24
Alignment explanation
Indices: 118235866--118235921 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
118235856 TATCTCATTT
* *
118235866 TATTATTATCATTCTTATTAATAC
1 TATTATTATTATTCTTACTAATAC
*
118235890 -ATTATTATTATTTTTACT-ATAC
1 TATTATTATTATTCTTACTAATAC
118235912 TATTATTATT
1 TATTATTATT
118235922 CCCTTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (24 bp):
TATTATTATTATTCTTACTAATAC
Found at i:118236004 original size:16 final size:15
Alignment explanation
Indices: 118235959--118236013 Score: 62
Period size: 16 Copynumber: 3.8 Consensus size: 15
118235949 TATATTATCA
*
118235959 TTATTACCATTATTT
1 TTATTACTATTATTT
118235974 TTATT--T-TTATTT
1 TTATTACTATTATTT
118235986 TTATTACTATTACTTT
1 TTATTACTATTA-TTT
*
118236002 TTATTATTATTA
1 TTATTACTATTA
118236014 CTACTACTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 11 0.32
14 1 0.03
15 8 0.24
16 14 0.41
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATTACTATTATTT
Found at i:118236005 original size:22 final size:22
Alignment explanation
Indices: 118235977--118236053 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
118235967 ATTATTTTTA
118235977 TTTTTATTTTTATTACTATTAC
1 TTTTTATTTTTATTACTATTAC
* *
118235999 TTTTTATTATTATTACTACTAC
1 TTTTTATTTTTATTACTATTAC
*
118236021 -TGTTATTTTTATTAACATATTA-
1 TTTTTATTTTTATT-AC-TATTAC
*
118236043 TTATTATTTTT
1 TTTTTATTTTT
118236054 TATCATATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
21 11 0.24
22 22 0.48
23 13 0.28
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.65
Consensus pattern (22 bp):
TTTTTATTTTTATTACTATTAC
Found at i:118236065 original size:75 final size:76
Alignment explanation
Indices: 118235871--118236086 Score: 182
Period size: 75 Copynumber: 2.9 Consensus size: 76
118235861 CATTTTATTA
* * * * *
118235871 TTATCATTCTTATTAATACATTATTATTATTTTTA-CTATACTATTATTATTCCCTTTTTTATAT
1 TTAT-ATTATTATTAACACATTATTATTATTTTTATC-ATATTATTACTATTACCTTTTTTATAT
* *
118235935 ATTACTATTATTG
64 ATTACTACTACTG
* * * *
118235948 TTATATTATCATTATTAC-CATTATTTTTATTTTTAT--TTTTATTACTATTACTTTTTATTAT-
1 TTATATTATTATTA--ACACATTATTATTATTTTTATCATATTATTACTATTACCTTTT-TTATA
118236009 TATTACTACTACTG
63 TATTACTACTACTG
*
118236023 TTAT-TT-TTATTAACATATTATTATTATTTTTTATCATATTATTA-T-TT-CCTATTTTTTATA
1 TTATATTATTATTAACACATTATTATTA-TTTTTATCATATTATTACTATTACC--TTTTTTATA
118236083 TATT
63 TATT
118236087 TTTATTGATA
Statistics
Matches: 112, Mismatches: 16, Indels: 25
0.73 0.10 0.16
Matches are distributed among these distances:
71 2 0.02
72 10 0.09
73 18 0.16
74 11 0.10
75 38 0.34
76 12 0.11
77 20 0.18
78 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.01, T:0.62
Consensus pattern (76 bp):
TTATATTATTATTAACACATTATTATTATTTTTATCATATTATTACTATTACCTTTTTTATATAT
TACTACTACTG
Found at i:118236067 original size:24 final size:23
Alignment explanation
Indices: 118236038--118236092 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
118236028 TTTATTAACA
118236038 TATTATTAT-TATTTTTTATCATAT
1 TATTATT-TCTATTTTTTAT-ATAT
118236062 TATTATTTCCTATTTTTTATATAT
1 TATTATTT-CTATTTTTTATATAT
*
118236086 TTTTATT
1 TATTATT
118236093 GATATTAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 1 0.04
24 17 0.61
25 10 0.36
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTATTTCTATTTTTTATATAT
Found at i:118237307 original size:16 final size:15
Alignment explanation
Indices: 118237288--118237338 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
118237278 TATTGATATC
118237288 AATTAAAAAACTTTAA
1 AATTAAAAAA-TTTAA
**
118237304 AATTAATTTAATTTAA
1 AATTAA-AAAATTTAA
118237320 AA-TAAATAAATTTAA
1 AATTAAA-AAATTTAA
118237335 AATT
1 AATT
118237339 TTTCCTTACC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 12 0.43
16 14 0.50
17 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTAAAAAATTTAA
Found at i:118237333 original size:15 final size:15
Alignment explanation
Indices: 118237299--118237337 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
118237289 ATTAAAAAAC
* *
118237299 TTTAAAATTAATTTAA
1 TTTAAAA-TAAATAAA
118237315 TTTAAAATAAATAAA
1 TTTAAAATAAATAAA
118237330 TTTAAAAT
1 TTTAAAAT
118237338 TTTTCCTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TTTAAAATAAATAAA
Found at i:118239647 original size:20 final size:21
Alignment explanation
Indices: 118239624--118239677 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
118239614 AAAAATCTTT
118239624 AAAATTCTAAAAAT-AACTTA
1 AAAATTCTAAAAATCAACTTA
** * *
118239644 AAAAAACTAAAAATCAATTTT
1 AAAATTCTAAAAATCAACTTA
*
118239665 AAAATTTTAAAAA
1 AAAATTCTAAAAA
118239678 AGGACTTGGA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATTCTAAAAATCAACTTA
Found at i:118243378 original size:46 final size:47
Alignment explanation
Indices: 118243318--118243416 Score: 134
Period size: 46 Copynumber: 2.1 Consensus size: 47
118243308 TTACACTGAC
* *
118243318 ACGTCTCGTAGCCGAT-ACATGTCTCATACATGTCTTACACTAGCT-T
1 ACGTCTCGTAGCCGATGA-ATGTCTCAGACACGTCTTACACTAGCTCT
118243364 ACGTCTCG-AGGCCGATGAATGTCTCAGACACGTCTTACACTAGCTCT
1 ACGTCTCGTA-GCCGATGAATGTCTCAGACACGTCTTACACTAGCTCT
118243411 -CGTCTC
1 ACGTCTC
118243417 AATATGAATG
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
45 1 0.02
46 45 0.94
47 2 0.04
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
ACGTCTCGTAGCCGATGAATGTCTCAGACACGTCTTACACTAGCTCT
Found at i:118250380 original size:95 final size:95
Alignment explanation
Indices: 118250175--118250400 Score: 241
Period size: 95 Copynumber: 2.4 Consensus size: 95
118250165 GGGGTAGAAT
* *
118250175 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCGAGTCGATACCATACCCAGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAGTCGATACCATACCCACA
*
118250240 CATGGTCTTATACTGACTATCGTCATCTAG
66 CATGGTCTTACACTGACTATCGTCATCTAG
* * * * * ** *
118250270 GCTGACGCCACGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-CGTGTCGATGTCATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCT--CATATCTCGAGTCGATACCAT-AC
118250334 CCACACATGGTCTTACACTGAC-A-CGTC-TCGTA-
61 CCACACATGGTCTTACACTGACTATCGTCATC-TAG
*
118250366 GCCGATG-CATGTCCCATACAT-GTCTTACACTGGCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
118250401 TACGTTTTAA
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
92 2 0.02
93 1 0.01
94 10 0.09
95 42 0.39
96 8 0.07
97 8 0.07
98 12 0.11
99 26 0.24
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.27
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCGAGTCGATACCATACCCACA
CATGGTCTTACACTGACTATCGTCATCTAG
Found at i:118250462 original size:46 final size:48
Alignment explanation
Indices: 118250372--118250495 Score: 128
Period size: 46 Copynumber: 2.6 Consensus size: 48
118250362 CGTAGCCGAT
* * * * *
118250372 GCATGTCCCATACATGTCTTACACTGGCT-TACGTTTTAAGGCCAAT-
1 GCATCTCCCAAACATGTCTTACACTAGCTCTACGTCTCAAGGCCAATG
* *
118250418 GCATCTCTCAAACATGTCTTACACTAGCTCT-CGTCTCAATGCCAATG
1 GCATCTCCCAAACATGTCTTACACTAGCTCTACGTCTCAAGGCCAATG
* * *
118250465 GCATGTCCCAGACATGGTTTTACACTAGCTC
1 GCATCTCCCAAACAT-GTCTTACACTAGCTC
118250496 ATAATAACCC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 37 0.58
47 13 0.20
48 14 0.22
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (48 bp):
GCATCTCCCAAACATGTCTTACACTAGCTCTACGTCTCAAGGCCAATG
Found at i:118250862 original size:30 final size:30
Alignment explanation
Indices: 118250826--118250906 Score: 135
Period size: 30 Copynumber: 2.7 Consensus size: 30
118250816 AATATTGGGA
118250826 AAAATGACCATTTTGCCCCTAAACATTCAC
1 AAAATGACCATTTTGCCCCTAAACATTCAC
*
118250856 AAAATGACCATTTTGCCCCTAAACTTTCAC
1 AAAATGACCATTTTGCCCCTAAACATTCAC
* *
118250886 AAAATAACCATTTTACCCCTA
1 AAAATGACCATTTTGCCCCTA
118250907 TACTCGAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.37, C:0.30, G:0.05, T:0.28
Consensus pattern (30 bp):
AAAATGACCATTTTGCCCCTAAACATTCAC
Found at i:118254288 original size:13 final size:13
Alignment explanation
Indices: 118254270--118254294 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118254260 CATCACACGG
118254270 CCGTGTCATGCGT
1 CCGTGTCATGCGT
118254283 CCGTGTCATGCG
1 CCGTGTCATGCG
118254295 CGCACGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.32, T:0.28
Consensus pattern (13 bp):
CCGTGTCATGCGT
Found at i:118260415 original size:18 final size:18
Alignment explanation
Indices: 118260392--118260427 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
118260382 ACAGCCTTTC
118260392 CCTACAAGTTTAGTTCTA
1 CCTACAAGTTTAGTTCTA
118260410 CCTACAAGTTTAGTTCTA
1 CCTACAAGTTTAGTTCTA
118260428 TGTATTTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (18 bp):
CCTACAAGTTTAGTTCTA
Found at i:118262338 original size:43 final size:42
Alignment explanation
Indices: 118262290--118262435 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 42
118262280 ATCAAGATGT
*
118262290 GATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATTG
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATTG
* *
118262332 AGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATT-
1 -GATTACATGTAAGACCATGTCTAGGACATTGGCATCG-T-ATTG
* * * * *
118262376 GATTTCATGTAAGACCCTATCCAGGACAGTGGCATCG-ATATG
1 GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT-TG
*
118262418 TGATAACATGTAAGACCA
1 -GATTACATGTAAGACCA
118262436 CATATGGGAT
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
43 78 0.92
44 1 0.01
45 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTAGGACATTGGCATCGTATTG
Found at i:118262444 original size:86 final size:85
Alignment explanation
Indices: 118262289--118262452 Score: 186
Period size: 86 Copynumber: 1.9 Consensus size: 85
118262279 TATCAAGATG
* * * * * * ** *
118262289 TGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATTGAGATTACGTGTAAGACCATGTC
1 TGATTACATGTAAGACCATATCCAGGACAGTGGCATCGTATTGAGATAACATGTAAGACCACATA
118262354 TGGGACATTGGCATCGTTAAT
66 TGGGACA-TGGCATCGTTAAT
* * *
118262375 TGATTTCATGTAAGACCCTATCCAGGACAGTGGCATCG-ATATGTGATAACATGTAAGACCACAT
1 TGATTACATGTAAGACCATATCCAGGACAGTGGCATCGTAT-TGAGATAACATGTAAGACCACAT
*
118262439 ATGGGATATGGCAT
65 ATGGGACATGGCAT
118262453 TGTCCGAGCT
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
85 8 0.12
86 56 0.88
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (85 bp):
TGATTACATGTAAGACCATATCCAGGACAGTGGCATCGTATTGAGATAACATGTAAGACCACATA
TGGGACATGGCATCGTTAAT
Found at i:118269527 original size:17 final size:17
Alignment explanation
Indices: 118269490--118269527 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
118269480 ATCAATAAGC
*
118269490 CATTCAAATCCAAATTC
1 CATTCAAATCCAAATTA
118269507 CATTCAAAT-CATAATTA
1 CATTCAAATCCA-AATTA
118269524 CATT
1 CATT
118269528 TATGAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (17 bp):
CATTCAAATCCAAATTA
Found at i:118273206 original size:266 final size:267
Alignment explanation
Indices: 118272704--118273221 Score: 720
Period size: 266 Copynumber: 1.9 Consensus size: 267
118272694 CTGAAATTCG
* * * * ** *
118272704 TGTCCATAATGTGTGAAAAATGAGCCTATTGATTGTGCGGGCCATAACTCTTATTAACTCATGTT
1 TGTCCATAATGTGTGAAAAATGAGCCCATTGATTGTGCGGACCAAAACGCCCACTAACTCATGTT
* * * * * *
118272769 AATTCTCATCCAGAGTTGATGTTGTGACACATCAGTACCAGTGTCGTGACATAGGAGTCAGTATA
66 AACTCCCATCCAGAGTCGATGTCGTGACACATCAGTACCAGTGCCGTGACATAGGACTCAGTATA
118272834 TTCCTCTCGGGATATCTTTAAGGGTATGTTGCAACACCCTTCATCAGTGTTGCAACGTTGAATGC
131 TTCCTCTCGGGATATCTTTAAGGGTATGTTGCAACACCCTTCATCAGTGTTGCAACGTTGAATGC
* * * *
118272899 GGTCTGAAGATTTTTCCATTCTACTCCCTATGTTGCGATATCTAACCCTCCATGTTTCAACACAA
196 AGTCTGAAGATTTCTCCATTCTACTCCCTATGTTACGATATCAAACCCTCCATGTTTCAACACAA
118272964 AAATTAA
261 AAATTAA
* *
118272971 TGTCCATAATGTG-GACAAATGAGCCCATTGATTGTGCGGACCAAAACGCCCACTAACTCGTGTT
1 TGTCCATAATGTGTGAAAAATGAGCCCATTGATTGTGCGGACCAAAACGCCCACTAACTCATGTT
*
118273035 AACTCCCATCCAGAGTCGATGTCGTGACACATTAGTACCTA-TGCCGTGACATAGGACTCAGTAT
66 AACTCCCATCCAGAGTCGATGTCGTGACACATCAGTACC-AGTGCCGTGACATAGGACTCAGTAT
* * * * *
118273099 ATTCCTCTTGGGATATCTTTAGGGGTATGTTGCGAC-CCCTTTTATCAGTGTTGCGACGTTGAAT
130 ATTCCTCTCGGGATATCTTTAAGGGTATGTTGCAACACCC-TTCATCAGTGTTGCAACGTTGAAT
* * * *
118273163 GCAGTTTCG-AGATTTCTCTATTCTACTCCCTCTGTTACGATATCAAATCCTCCATGTTT
194 GCAGTCT-GAAGATTTCTCCATTCTACTCCCTATGTTACGATATCAAACCCTCCATGTTT
118273222 TGACATAGTG
Statistics
Matches: 219, Mismatches: 29, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
265 3 0.01
266 201 0.92
267 15 0.07
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (267 bp):
TGTCCATAATGTGTGAAAAATGAGCCCATTGATTGTGCGGACCAAAACGCCCACTAACTCATGTT
AACTCCCATCCAGAGTCGATGTCGTGACACATCAGTACCAGTGCCGTGACATAGGACTCAGTATA
TTCCTCTCGGGATATCTTTAAGGGTATGTTGCAACACCCTTCATCAGTGTTGCAACGTTGAATGC
AGTCTGAAGATTTCTCCATTCTACTCCCTATGTTACGATATCAAACCCTCCATGTTTCAACACAA
AAATTAA
Found at i:118274648 original size:42 final size:43
Alignment explanation
Indices: 118274590--118274703 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
118274580 TATAATTTAT
* *
118274590 GTGTAAGACCATGTCTGGGGCA-TCGGCATCG-TATTTGATTTC
1 GTGTAAGACCAGGTCTGGGACAGT-GGCATCGATATTTGATTTC
* *
118274632 GTGTAAGACCCGGTCTGGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCAGGTCTGGGACAGTGGCATCGATATTTGATTTC
* * *
118274675 ATGTATGACCACGTCTGGGAC-GTTGGCAT
1 GTGTAAGACCAGGTCTGGGACAG-TGGCAT
118274704 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCAGGTCTGGGACAGTGGCATCGATATTTGATTTC
Found at i:118277989 original size:14 final size:14
Alignment explanation
Indices: 118277970--118277996 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
118277960 CTGAGAAGAT
118277970 AAAAATAAATACTC
1 AAAAATAAATACTC
118277984 AAAAATAAATACT
1 AAAAATAAATACT
118277997 TAAGAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATAAATACTC
Found at i:118281506 original size:36 final size:37
Alignment explanation
Indices: 118281459--118281532 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 37
118281449 AGTGTGGGCT
* *
118281459 TAAACCAATTAAACCAAAACACATAACTA-AAAAAAA
1 TAAACCAATTAAACCAAAACAAAGAACTAGAAAAAAA
118281495 TAAACCAATTAAACCAAAACAAAGAACTAGAAAAAAA
1 TAAACCAATTAAACCAAAACAAAGAACTAGAAAAAAA
118281532 T
1 T
118281533 TTCTTTTTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 27 0.77
37 8 0.23
ACGTcount: A:0.66, C:0.18, G:0.03, T:0.14
Consensus pattern (37 bp):
TAAACCAATTAAACCAAAACAAAGAACTAGAAAAAAA
Found at i:118282055 original size:27 final size:25
Alignment explanation
Indices: 118281992--118282065 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
118281982 TCTCTCGTCT
*
118281992 CAATTTTACTCTCG-TAAAATTTGGA
1 CAATTTTAC-CCCGATAAAATTTGGA
* *
118282017 CGATTTTACCCCTGATAAAATTTTGA
1 CAATTTTACCCC-GATAAAATTTGGA
118282043 CAATTTTATCCCCGATAAAATTT
1 CAATTTTA-CCCCGATAAAATTT
118282066 CGAGAAAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 2 0.05
25 9 0.21
26 27 0.64
27 4 0.10
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.39
Consensus pattern (25 bp):
CAATTTTACCCCGATAAAATTTGGA
Found at i:118292693 original size:21 final size:23
Alignment explanation
Indices: 118292663--118292717 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 23
118292653 TATAAAAATT
*
118292663 ATTTTTTAAAAAAAA-CATAA-A
1 ATTTTATAAAAAAAATCATAACA
*
118292684 ATTTTATAAAAAAAATTATAACA
1 ATTTTATAAAAAAAATCATAACA
118292707 ATATTTATAAA
1 AT-TTTATAAA
118292718 TAAACGAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 14 0.48
22 4 0.14
23 3 0.10
24 8 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (23 bp):
ATTTTATAAAAAAAATCATAACA
Found at i:118295649 original size:54 final size:54
Alignment explanation
Indices: 118295565--118295696 Score: 246
Period size: 54 Copynumber: 2.4 Consensus size: 54
118295555 TCATTATAAT
*
118295565 GGATTTAGCCTGGACTGGTAATCCCAACATCATCGTATGAGTTCATGATATGGG
1 GGATTTAGCCTGGACTGGTAATCCCAACATCACCGTATGAGTTCATGATATGGG
*
118295619 GGATTTAGCCTGGACTGGTAATCCCGACATCACCGTATGAGTTCATGATATGGG
1 GGATTTAGCCTGGACTGGTAATCCCAACATCACCGTATGAGTTCATGATATGGG
118295673 GGATTTAGCCTGGACTGGTAATCC
1 GGATTTAGCCTGGACTGGTAATCC
118295697 AGCCATGAGA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (54 bp):
GGATTTAGCCTGGACTGGTAATCCCAACATCACCGTATGAGTTCATGATATGGG
Found at i:118301842 original size:13 final size:13
Alignment explanation
Indices: 118301824--118301851 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
118301814 TTTTTACATT
118301824 AAAAATTAATATA
1 AAAAATTAATATA
118301837 AAAAATTAATATA
1 AAAAATTAATATA
118301850 AA
1 AA
118301852 TGGGTCAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAATTAATATA
Found at i:118302731 original size:22 final size:23
Alignment explanation
Indices: 118302700--118302762 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
118302690 ATATAATATC
118302700 CAAATAATAACAACAAAATAGTAG
1 CAAAT-ATAACAACAAAATAGTAG
* * *
118302724 -AAATATAATAGCAAAATGGTAG
1 CAAATATAACAACAAAATAGTAG
*
118302746 CAAA-ACAACAACAAAAT
1 CAAATATAACAACAAAAT
118302763 GACAACAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
22 25 0.78
23 7 0.22
ACGTcount: A:0.62, C:0.13, G:0.10, T:0.16
Consensus pattern (23 bp):
CAAATATAACAACAAAATAGTAG
Found at i:118308534 original size:31 final size:31
Alignment explanation
Indices: 118308499--118308564 Score: 116
Period size: 31 Copynumber: 2.1 Consensus size: 31
118308489 AAAAAAAAAT
118308499 AAATCA-TCTATTAATGATATTGAAAAGTGAC
1 AAATCAGTC-ATTAATGATATTGAAAAGTGAC
118308530 AAATCAGTCATTAATGATATTGAAAAGTGAC
1 AAATCAGTCATTAATGATATTGAAAAGTGAC
118308561 AAAT
1 AAAT
118308565 TAATCATCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (31 bp):
AAATCAGTCATTAATGATATTGAAAAGTGAC
Found at i:118308578 original size:35 final size:34
Alignment explanation
Indices: 118308495--118308578 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 34
118308485 TTTTAAAAAA
118308495 AAATAAATCATCTATTAATGATATTGAAAAGTGAC
1 AAAT-AATCATCTATTAATGATATTGAAAAGTGAC
118308530 --A-AATCAGTC-ATTAATGATATTGAAAAGTGAC
1 AAATAATCA-TCTATTAATGATATTGAAAAGTGAC
118308561 AAATTAATCATCTATTAA
1 AAA-TAATCATCTATTAA
118308579 CATTTTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
31 27 0.63
32 2 0.05
33 2 0.05
34 2 0.05
35 10 0.23
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.32
Consensus pattern (34 bp):
AAATAATCATCTATTAATGATATTGAAAAGTGAC
Found at i:118308974 original size:21 final size:22
Alignment explanation
Indices: 118308948--118309006 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
118308938 GTTTTAAGAA
*
118308948 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
118308969 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
118308991 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
118309007 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:118309021 original size:26 final size:24
Alignment explanation
Indices: 118308977--118309026 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
118308967 ATTTGTTTTA
*
118308977 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
118309001 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
118309027 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:118310688 original size:36 final size:31
Alignment explanation
Indices: 118310613--118310678 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
118310603 TTTTGCAGTT
*
118310613 ATCTCATATATCTGCTCTGCTTTTTTAATCG
1 ATCTCATATATCTGCTCTGCTTTTTTAATCA
118310644 ATCTCATATATCTGCTCTGCTTTTTTAATCA
1 ATCTCATATATCTGCTCTGCTTTTTTAATCA
118310675 ATCT
1 ATCT
118310679 TTGTGCATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.21, C:0.23, G:0.08, T:0.48
Consensus pattern (31 bp):
ATCTCATATATCTGCTCTGCTTTTTTAATCA
Found at i:118310909 original size:20 final size:20
Alignment explanation
Indices: 118310884--118310923 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
118310874 GGGCCCAACA
118310884 ACCTAGGTCTAAATTGACTT
1 ACCTAGGTCTAAATTGACTT
118310904 ACCTAGGTCTAAATTGACTT
1 ACCTAGGTCTAAATTGACTT
118310924 GGCTGGATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (20 bp):
ACCTAGGTCTAAATTGACTT
Found at i:118311031 original size:14 final size:14
Alignment explanation
Indices: 118311012--118311072 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
118311002 GCATCTCTAT
118311012 TTTTTCTCTTTTTC
1 TTTTTCTCTTTTTC
*
118311026 TTTTTCTC-TTCTC
1 TTTTTCTCTTTTTC
118311039 TTTTT-T-TTTCTTC
1 TTTTTCTCTTT-TTC
* * *
118311052 TTTTCCCCTTCTTC
1 TTTTTCTCTTTTTC
118311066 TTTTTCT
1 TTTTTCT
118311073 AATACTTAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
12 3 0.08
13 15 0.42
14 16 0.44
15 2 0.06
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTCTCTTTTTC
Found at i:118311048 original size:17 final size:19
Alignment explanation
Indices: 118311015--118311072 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
118311005 TCTCTATTTT
118311015 TTCTCTTTTTCTTTTTCTC
1 TTCTCTTTTTCTTTTTCTC
* *
118311034 TTCTCTTTTTTTTTCTTCTT
1 TTCTCTTTTTCTTT-TTCTC
* *
118311054 TTCCCCTTCTTCTTTTTCT
1 TT-CTCTTTTTCTTTTTCT
118311073 AATACTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 13 0.41
20 10 0.31
21 9 0.28
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
TTCTCTTTTTCTTTTTCTC
Found at i:118311858 original size:26 final size:26
Alignment explanation
Indices: 118311822--118311874 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
118311812 AATTCACGAT
118311822 CTAGTTTGGTTGAGACATGGATGCGC
1 CTAGTTTGGTTGAGACATGGATGCGC
118311848 CTAGTTTGGTTGAGACATGGATGCGC
1 CTAGTTTGGTTGAGACATGGATGCGC
118311874 C
1 C
118311875 ATGACCATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (26 bp):
CTAGTTTGGTTGAGACATGGATGCGC
Found at i:118314702 original size:31 final size:31
Alignment explanation
Indices: 118314667--118314728 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
118314657 TTAAATTAAA
118314667 AAGTAAATTGATCTTTTTAATAATAATTTTT
1 AAGTAAATTGATCTTTTTAATAATAATTTTT
118314698 AAGTAAATTGATCTTTTTAATAATAATTTTT
1 AAGTAAATTGATCTTTTTAATAATAATTTTT
118314729 CTTGTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (31 bp):
AAGTAAATTGATCTTTTTAATAATAATTTTT
Found at i:118314716 original size:18 final size:18
Alignment explanation
Indices: 118314667--118314717 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
118314657 TTAAATTAAA
118314667 AAGTAAATTGATCTTTTT
1 AAGTAAATTGATCTTTTT
*
118314685 AA-T-AA-T-A-ATTTTT
1 AAGTAAATTGATCTTTTT
118314698 AAGTAAATTGATCTTTTT
1 AAGTAAATTGATCTTTTT
118314716 AA
1 AA
118314718 TAATAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 7 0.27
14 2 0.08
15 3 0.12
16 3 0.12
17 2 0.08
18 9 0.35
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (18 bp):
AAGTAAATTGATCTTTTT
Found at i:118314918 original size:46 final size:47
Alignment explanation
Indices: 118314862--118314956 Score: 174
Period size: 46 Copynumber: 2.0 Consensus size: 47
118314852 AAAGAGAATG
*
118314862 ATACAACAAGAGTTTTGACTACGTCTATTTAAAGGTTAAAAAA-CAT
1 ATACAACAAGAGTTTCGACTACGTCTATTTAAAGGTTAAAAAATCAT
118314908 ATACAACAAGAGTTTCGACTACGTCTATTTAAAGGTTAAAAAATCAT
1 ATACAACAAGAGTTTCGACTACGTCTATTTAAAGGTTAAAAAATCAT
118314955 AT
1 AT
118314957 TCTAATCAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 42 0.89
47 5 0.11
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.31
Consensus pattern (47 bp):
ATACAACAAGAGTTTCGACTACGTCTATTTAAAGGTTAAAAAATCAT
Found at i:118315003 original size:11 final size:11
Alignment explanation
Indices: 118314987--118315013 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
118314977 AGAAGTGTAG
118314987 TTCTATACGAA
1 TTCTATACGAA
118314998 TTCTATACGAA
1 TTCTATACGAA
118315009 TTCTA
1 TTCTA
118315014 CTTTTGCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (11 bp):
TTCTATACGAA
Found at i:118315196 original size:14 final size:14
Alignment explanation
Indices: 118315158--118315197 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
118315148 AATCAATGTC
118315158 AAATATATTATGCT
1 AAATATATTATGCT
118315172 -AATA-A--ATGCT
1 AAATATATTATGCT
118315182 AAATATATTATGCT
1 AAATATATTATGCT
118315196 AA
1 AA
118315198 TAAATACTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
10 5 0.23
11 4 0.18
12 2 0.09
13 4 0.18
14 7 0.32
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (14 bp):
AAATATATTATGCT
Found at i:118316934 original size:14 final size:15
Alignment explanation
Indices: 118316913--118316947 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
118316903 AAAGAATTAA
118316913 AGAAACAAAAGAAAC
1 AGAAACAAAAGAAAC
*
118316928 A-AAACAAAATAAAC
1 AGAAACAAAAGAAAC
118316942 AGAAAC
1 AGAAAC
118316948 GAAGCAGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.74, C:0.14, G:0.09, T:0.03
Consensus pattern (15 bp):
AGAAACAAAAGAAAC
Found at i:118318010 original size:39 final size:40
Alignment explanation
Indices: 118317901--118318010 Score: 91
Period size: 38 Copynumber: 2.8 Consensus size: 40
118317891 ACCTCGAGTT
* **
118317901 GATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATTC
1 GATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGCC
** * ** *
118317942 GATGAGGTACTGCGTACCAACT-TTACTTCGGCTAG-GCC
1 GATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGCC
*
118317980 GATGAGACACTGGGTGTCAACTATTGCTTCG
1 GATGAGACACTGGGTGTCAACTATTACTTCG
118318011 AACTATCTGA
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
38 18 0.35
39 18 0.35
40 1 0.02
41 13 0.25
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGCC
Found at i:118318292 original size:3 final size:3
Alignment explanation
Indices: 118318286--118318338 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
118318276 GATGAAAGAA
118318286 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
118318334 AAT AA
1 AAT AA
118318339 AGTATAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:118324599 original size:14 final size:15
Alignment explanation
Indices: 118324578--118324612 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
118324568 AAAGAATTAA
118324578 AGAAACAAAAGAAAC
1 AGAAACAAAAGAAAC
118324593 A-AAACAAAAGAAAC
1 AGAAACAAAAGAAAC
118324607 AGAAAC
1 AGAAAC
118324613 GAAGTAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.74, C:0.14, G:0.11, T:0.00
Consensus pattern (15 bp):
AGAAACAAAAGAAAC
Found at i:118325674 original size:39 final size:40
Alignment explanation
Indices: 118325565--118325674 Score: 91
Period size: 38 Copynumber: 2.8 Consensus size: 40
118325555 ACCTCGAGTT
* **
118325565 GATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATTC
1 GATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGCC
** * ** *
118325606 GATGAGGTACTGCGTACCAACT-TTACTTCGGCTAG-GCC
1 GATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGCC
*
118325644 GATGAGACACTGGGTGTCAACTATTGCTTCG
1 GATGAGACACTGGGTGTCAACTATTACTTCG
118325675 AACTATCTGA
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
38 18 0.35
39 18 0.35
40 1 0.02
41 13 0.25
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGCC
Found at i:118325955 original size:3 final size:3
Alignment explanation
Indices: 118325949--118325999 Score: 93
Period size: 3 Copynumber: 16.7 Consensus size: 3
118325939 GATGAAAGAA
118325949 AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
118325995 AAT AA
1 AAT AA
118326000 ATAAGTATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:118332261 original size:14 final size:15
Alignment explanation
Indices: 118332240--118332274 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
118332230 AAAGAATTAA
118332240 AGAAACAAAAGAAAC
1 AGAAACAAAAGAAAC
118332255 A-AAACAAAAGAAAC
1 AGAAACAAAAGAAAC
118332269 AGAAAC
1 AGAAAC
118332275 GAAGTAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.74, C:0.14, G:0.11, T:0.00
Consensus pattern (15 bp):
AGAAACAAAAGAAAC
Found at i:118333339 original size:39 final size:40
Alignment explanation
Indices: 118333230--118333339 Score: 91
Period size: 38 Copynumber: 2.8 Consensus size: 40
118333220 ACCTCGAGTT
* **
118333230 GATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATTC
1 GATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGCC
** * ** *
118333271 GATGAGGTACTGCGTACCAACT-TTACTTCGGCTAG-GCC
1 GATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGCC
*
118333309 GATGAGACACTGGGTGTCAACTATTGCTTCG
1 GATGAGACACTGGGTGTCAACTATTACTTCG
118333340 AACTATCTGA
Statistics
Matches: 52, Mismatches: 15, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
38 18 0.35
39 18 0.35
40 1 0.02
41 13 0.25
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGCC
Found at i:118333620 original size:3 final size:3
Alignment explanation
Indices: 118333614--118333651 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
118333604 GATGAAAGAA
118333614 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
118333652 AGTATAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:118334204 original size:4 final size:4
Alignment explanation
Indices: 118334195--118334219 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
118334185 ATTTTTACAA
118334195 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
118334220 CGAAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:118337850 original size:24 final size:24
Alignment explanation
Indices: 118337799--118337855 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
118337789 GAACCTAATT
* * *
118337799 CTAATCAATGTCAAATATATCGTG
1 CTAATAAATGTCAAATATATCATA
* *
118337823 CTAATAAATGTTAAATATATTATA
1 CTAATAAATGTCAAATATATCATA
118337847 CTAATAAAT
1 CTAATAAAT
118337856 ACTAAATCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATCATA
Found at i:118343924 original size:21 final size:21
Alignment explanation
Indices: 118343899--118343944 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
118343889 CTCATAGCTG
* * * *
118343899 ATTTAGATTTAAACTTTGGAA
1 ATTTAGAGTCAAAATTTGAAA
118343920 ATTTAGAGTCAAAATTTGAAA
1 ATTTAGAGTCAAAATTTGAAA
118343941 ATTT
1 ATTT
118343945 TAAGTTAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.41
Consensus pattern (21 bp):
ATTTAGAGTCAAAATTTGAAA
Found at i:118345893 original size:40 final size:39
Alignment explanation
Indices: 118345838--118346000 Score: 186
Period size: 40 Copynumber: 4.1 Consensus size: 39
118345828 TGAATGATAC
* * *
118345838 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TTATAT
*
118345878 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTTATAT
* * *
118345918 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT--TATAT
* *
118345958 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
118345997 CCGG
1 CCGG
118346001 TTAAATCCCG
Statistics
Matches: 105, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
38 1 0.01
39 10 0.10
40 88 0.84
41 6 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
Found at i:118352094 original size:45 final size:45
Alignment explanation
Indices: 118352022--118352413 Score: 471
Period size: 45 Copynumber: 8.7 Consensus size: 45
118352012 ATGAAATGAA
* ** * **
118352022 TAAGACCATAGTTGAAAGACACTATGGCATCA-TATTGGGAACGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATT-TTAACGAG
* * * *
118352067 TAAGACTATAGCTGTAAGGCGTTATGGCATCACGATTTTAATGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTTAACGAG
* * * *
118352112 TAAGACCATAGCTGTAGGGCGTTATAGCATCACGATTTTAACGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTTAACGAG
* * *
118352157 TAAGACCATATCTGAAAGACATTATGGCATCACGATTTTAATGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTTAACGAG
* * *
118352202 TAAGATCATAGCTGAAAGACGTTATGGAATCATGATTTTAACGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTTAACGAG
* * *
118352247 TAAGACCATAGCTAAAAGACGTTATGGCATCACAATTTTAATGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTTAACGAG
* * * *
118352292 TAAGACCATAACTGAAAGACGTTATGGTATCATGATTCTAACGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTTAACGAG
* * * *
118352337 TAAGACCATAGTTGAAATACGCTATGGCATCACGATTCTAACGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTTAACGAG
**
118352382 TAAGACCATAGCTGAAAGACACTATGGCATCA
1 TAAGACCATAGCTGAAAGACGTTATGGCATCA
118352414 TGAATTAGAC
Statistics
Matches: 297, Mismatches: 49, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
45 294 0.99
46 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTTAACGAG
Found at i:118352830 original size:35 final size:35
Alignment explanation
Indices: 118352784--118352852 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
118352774 TGAGTTGTGA
118352784 TTGGCAAAAATTATAATAATAACCTCGTTGACAAT
1 TTGGCAAAAATTATAATAATAACCTCGTTGACAAT
*
118352819 TTGGCAGAAATTATAATAATAACCTCGTTGACAA
1 TTGGCAAAAATTATAATAATAACCTCGTTGACAA
118352853 GAACTCTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (35 bp):
TTGGCAAAAATTATAATAATAACCTCGTTGACAAT
Found at i:118357756 original size:2 final size:2
Alignment explanation
Indices: 118357749--118357787 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
118357739 TAGCTTCTCT
118357749 TA TA TA TA TA TA TA 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 TA TA TA TA T
118357788 CACGTTTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:118358692 original size:40 final size:38
Alignment explanation
Indices: 118358648--118358913 Score: 237
Period size: 38 Copynumber: 6.9 Consensus size: 38
118358638 GAATCCAGTC
* **
118358648 ACCAGCAC-AGAACCTGCGGGACTTTAAGCTCAAATATAAT
1 ACCAGCACTA-AACCTGCGGGA-TTTAA-CACGGATATAAT
* *
118358688 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACTAAACCTGCGGGATTTAACACGGATATAAT
* *
118358726 ACCAGCACTAAGCCTGCAGGATTTAACACGGATATAAT
1 ACCAGCACTAAACCTGCGGGATTTAACACGGATATAAT
* * ** *
118358764 ACCAGCACGAAGCCTGCGGGATAAAACCCGGATATAAT
1 ACCAGCACTAAACCTGCGGGATTTAACACGGATATAAT
* * * * ** * *
118358802 ACCAGTACGAAGCCTGTGGGATAAAACCCGAATATAAT
1 ACCAGCACTAAACCTGCGGGATTTAACACGGATATAAT
* * * ** *
118358840 ACCAGCACGAAGCCTACGGGATAAAACCCGGATATAAT
1 ACCAGCACTAAACCTGCGGGATTTAACACGGATATAAT
* * *
118358878 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
1 ACCAGCACTAAACCTGCGGGATTTAACACGGATATA
118358914 CATCAAATAT
Statistics
Matches: 204, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 180 0.88
39 5 0.02
40 18 0.09
41 1 0.00
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (38 bp):
ACCAGCACTAAACCTGCGGGATTTAACACGGATATAAT
Found at i:118358732 original size:38 final size:38
Alignment explanation
Indices: 118358681--118358913 Score: 340
Period size: 38 Copynumber: 6.1 Consensus size: 38
118358671 TTAAGCTCAA
* **
118358681 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* * ** *
118358719 ATATAATACCAGCACTAAGCCTGCAGGATTTAACACGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
118358757 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* * *
118358795 ATATAATACCAGTACGAAGCCTGTGGGATAAAACCCGA
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
*
118358833 ATATAATACCAGCACGAAGCCTACGGGATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
**
118358871 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
118358909 ATATA
1 ATATA
118358914 CATCAAATAT
Statistics
Matches: 178, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 178 1.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.18
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
Found at i:118358770 original size:76 final size:76
Alignment explanation
Indices: 118358648--118358913 Score: 363
Period size: 76 Copynumber: 3.5 Consensus size: 76
118358638 GAATCCAGTC
* ** * **
118358648 ACCAGCACAGAA-CCTGCGGGACTTTAAGCTCAAATATAATACCAGCACTAAGCCTGCGGGATTT
1 ACCAGCAC-GAAGCCTGCGGGA-TTTAA-CCCGGATATAATACCAGCACGAAGCCTGCGGGATAA
118358712 AACCCGGATATAAT
63 AACCCGGATATAAT
* * *
118358726 ACCAGCACTAAGCCTGCAGGATTTAACACGGATATAATACCAGCACGAAGCCTGCGGGATAAAAC
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATAAAAC
118358791 CCGGATATAAT
66 CCGGATATAAT
* * ** * *
118358802 ACCAGTACGAAGCCTGTGGGATAAAACCCGAATATAATACCAGCACGAAGCCTACGGGATAAAAC
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATAAAAC
118358867 CCGGATATAAT
66 CCGGATATAAT
118358878 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
118358914 CATCAAATAT
Statistics
Matches: 165, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
76 142 0.86
77 7 0.04
78 16 0.10
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (76 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATAAAAC
CCGGATATAAT
Found at i:118362880 original size:25 final size:25
Alignment explanation
Indices: 118362850--118362899 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
118362840 GCTATAGGTT
* *
118362850 AAACATCCCTCCAAAAGCACACTTG
1 AAACATACCTCCAAAAACACACTTG
* *
118362875 AAACATAGCTTCAAAAACACACTTG
1 AAACATACCTCCAAAAACACACTTG
118362900 GGCACTAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.30, G:0.08, T:0.18
Consensus pattern (25 bp):
AAACATACCTCCAAAAACACACTTG
Found at i:118363163 original size:45 final size:45
Alignment explanation
Indices: 118363113--118363201 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
118363103 TCTTTAATTT
118363113 AGGCACAATTTACACATCAATATCCTTTATTACAATTCATTCCAC
1 AGGCACAATTTACACATCAATATCCTTTATTACAATTCATTCCAC
*
118363158 AGGCACAATTTATACATCAATATCCTTTATTACAATTCATTCCA
1 AGGCACAATTTACACATCAATATCCTTTATTACAATTCATTCCA
118363202 TTCCTAACAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (45 bp):
AGGCACAATTTACACATCAATATCCTTTATTACAATTCATTCCAC
Found at i:118363607 original size:15 final size:15
Alignment explanation
Indices: 118363587--118363616 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
118363577 CTCCTATTTC
118363587 TTGATTAAATTCCAA
1 TTGATTAAATTCCAA
*
118363602 TTGATTTAATTCCAA
1 TTGATTAAATTCCAA
118363617 ATATATGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (15 bp):
TTGATTAAATTCCAA
Found at i:118368951 original size:45 final size:47
Alignment explanation
Indices: 118368864--118368952 Score: 110
Period size: 45 Copynumber: 1.9 Consensus size: 47
118368854 TGAGTCATGT
* * *
118368864 AACAAGAAGCTTATCTGGGCTAAATCAGGAAACTCATAAGAGTTTAG
1 AACAAGAAGCTAATCTGAGCTAAATCAGGAAACTCAGAAGAGTTTAG
* * *
118368911 AACAAGAAGCTAAT-TGAGCTTAA-CAGGTAACTCCGAAGAGTT
1 AACAAGAAGCTAATCTGAGCTAAATCAGGAAACTCAGAAGAGTT
118368953 ATTATTAGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
45 16 0.44
46 7 0.19
47 13 0.36
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.22
Consensus pattern (47 bp):
AACAAGAAGCTAATCTGAGCTAAATCAGGAAACTCAGAAGAGTTTAG
Found at i:118380596 original size:21 final size:20
Alignment explanation
Indices: 118380568--118380607 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
118380558 CAAAACTTGT
118380568 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
118380588 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
118380608 AAAACTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:118385711 original size:13 final size:13
Alignment explanation
Indices: 118385693--118385717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118385683 AAGGGAAAAA
118385693 ATAATAACAAATG
1 ATAATAACAAATG
118385706 ATAATAACAAAT
1 ATAATAACAAAT
118385718 AAAAACTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.04, T:0.24
Consensus pattern (13 bp):
ATAATAACAAATG
Found at i:118403636 original size:46 final size:46
Alignment explanation
Indices: 118403583--118403758 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
118403573 TGGTTGAGCA
118403583 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
118403629 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
118403674 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
118403722 -CCCAAGCTCGTTGAGTTGAGTCCTAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
118403759 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.06
46 58 0.53
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:118403739 original size:93 final size:93
Alignment explanation
Indices: 118403580--118403751 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
118403570 GAATGGTTGA
* *
118403580 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
118403645 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
118403673 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
*
118403737 TTGAGTCCTAGTTCG
65 TTGAGTCCGAGTTCG
118403752 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:118405115 original size:15 final size:15
Alignment explanation
Indices: 118405097--118405153 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
118405087 ATAAGTCTTC
118405097 AAAAATAAATAAAAG
1 AAAAATAAATAAAAG
118405112 AAAAATAAAAATAAAAG
1 AAAAAT--AAATAAAAG
* *
118405129 TAAAATTAATAATAA-
1 AAAAATAAATAA-AAG
*
118405144 TAAAATAAAT
1 AAAAATAAAT
118405154 TGACTCAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 20 0.56
16 2 0.06
17 14 0.39
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (15 bp):
AAAAATAAATAAAAG
Found at i:118412263 original size:22 final size:22
Alignment explanation
Indices: 118412204--118412255 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
118412194 AGCTCAAGGT
*
118412204 CGTAAACAGGATAGCACATAGC
1 CGTAAACAGGACAGCACATAGC
118412226 CGTAAACAGGACAGCACATAGC
1 CGTAAACAGGACAGCACATAGC
118412248 CGTAAACA
1 CGTAAACA
118412256 TTGCAGCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.42, C:0.25, G:0.21, T:0.12
Consensus pattern (22 bp):
CGTAAACAGGACAGCACATAGC
Found at i:118412492 original size:22 final size:22
Alignment explanation
Indices: 118412458--118412522 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
118412448 GCAAATACGT
*
118412458 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
118412480 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
118412502 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
118412523 AATAATTGGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:118412787 original size:41 final size:41
Alignment explanation
Indices: 118412676--118412787 Score: 179
Period size: 41 Copynumber: 2.7 Consensus size: 41
118412666 TTGGATATAT
* *
118412676 GGTCGTCAAGCAACCATGCGATCCTGAATCGGTGGATCCAC
1 GGTCGTCAAGCAACCATGCGATCCTCAATTGGTGGATCCAC
* *
118412717 GATCATCAAGCAACCATGCGATCCTCAATTGGTGGATCCAC
1 GGTCGTCAAGCAACCATGCGATCCTCAATTGGTGGATCCAC
*
118412758 GGTCGTCAAGCATCCATGCGATCCTCAATT
1 GGTCGTCAAGCAACCATGCGATCCTCAATT
118412788 TCTTCCTTCG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (41 bp):
GGTCGTCAAGCAACCATGCGATCCTCAATTGGTGGATCCAC
Found at i:118413076 original size:27 final size:27
Alignment explanation
Indices: 118413024--118413343 Score: 218
Period size: 27 Copynumber: 11.9 Consensus size: 27
118413014 TTTCACCCTA
* * * *
118413024 CAAGGGTGTTTTGGTAAATCTACAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * *
118413050 CTAAGGGTATTTGGGTAATTTTGCAAAC
1 C-AAGGGTATTTCGGTAATTTTACAAAT
* **
118413078 CAATGGTATTTTTGTAATTTTTA-AAAGT
1 CAAGGGTATTTCGGTAA-TTTTACAAA-T
** **
118413106 CAAGGGTATTTCTATAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * *
118413133 CAGGGGTATTTCTGTAATTTTCCAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * *
118413160 -TAGAGGTATTTTGGTAATTTTATAAAT
1 CAAG-GGTATTTCGGTAATTTTACAAAT
* * *
118413187 CGAGGGTATTTCGATAATTTTACAAGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* **
118413214 CAAGGGTATTTCGGTAATTTTAGAGGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* ** *
118413241 CGAGGGTATTTTAGTAATTTCACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
118413268 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *** *
118413294 CTAAGGGTATTT-AGTAATTTCGTAAAC
1 C-AAGGGTATTTCGGTAATTTTACAAAT
*
118413321 CAAGGGTATTTCAGTAATTTTAC
1 CAAGGGTATTTCGGTAATTTTAC
118413344 CCTACAAGGG
Statistics
Matches: 232, Mismatches: 52, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
26 23 0.10
27 185 0.80
28 24 0.10
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:118413351 original size:27 final size:27
Alignment explanation
Indices: 118413321--118413391 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
118413311 TTTCGTAAAC
*
118413321 CAAGGGTATTTCAGTAATTTTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* *
118413348 CAAGGGCATTTCAGTAATTCTACTCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
*
118413375 CAGGGGTATTTCAGTAA
1 CAAGGGTATTTCAGTAA
118413392 CACTAGCTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:118413403 original size:27 final size:27
Alignment explanation
Indices: 118413345--118413404 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
118413335 TAATTTTACC
* **
118413345 CTACAAGGGCATTTCAGTAATTCTACT
1 CTACAGGGGCATTTCAGTAACACTACT
*
118413372 CTACAGGGGTATTTCAGTAACACTAGCT
1 CTACAGGGGCATTTCAGTAACACTA-CT
118413400 -TACAG
1 CTACAG
118413405 ATATGAGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.93
28 2 0.07
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (27 bp):
CTACAGGGGCATTTCAGTAACACTACT
Found at i:118430441 original size:94 final size:94
Alignment explanation
Indices: 118430280--118430465 Score: 293
Period size: 94 Copynumber: 2.0 Consensus size: 94
118430270 GTAACACGCT
*
118430280 TATTAACACCAGATACTAAATGAGTTGTGTCACCAATACCACTAGAGGAGAATAAATCATTAAAA
1 TATTAACAACAGATACTAAATGAGTTGTGTCACCAATACCACTAGAGGAGAATAAATCATTAAAA
*
118430345 TAATTCCTGGCCACTCTTTCTATATCATC
66 TAATCCCTGGCCACTCTTTCTATATCATC
* * * *
118430374 TATTAACAATAGATAGTAAATGGGTTGTGTCACTAATACC-CTTAGAGGAGAATAAATCATTAAA
1 TATTAACAACAGATACTAAATGAGTTGTGTCACCAATACCAC-TAGAGGAGAATAAATCATTAAA
*
118430438 ATAATCCCTGGCCACTCTTTCTTTATCA
65 ATAATCCCTGGCCACTCTTTCTATATCA
118430466 GCAGAATCAA
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
93 1 0.01
94 83 0.99
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (94 bp):
TATTAACAACAGATACTAAATGAGTTGTGTCACCAATACCACTAGAGGAGAATAAATCATTAAAA
TAATCCCTGGCCACTCTTTCTATATCATC
Found at i:118432367 original size:53 final size:52
Alignment explanation
Indices: 118432194--118432438 Score: 230
Period size: 55 Copynumber: 4.6 Consensus size: 52
118432184 AAGGATACTG
* * *
118432194 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAATCA
1 TGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGCAAGG-TACCA
* * * *
118432249 TGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAAGTCCCA
1 TGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC-AAGGTACCA
* *
118432304 TGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGCTACCA
1 TGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAGG-TACCA
* * *
118432357 TGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTCAAAAGG--A--TACCA
1 TGTAAGACCATGCCAAGACATGGCATTGGTAAG-TTCATAAGGCAAGGTACCA
* * * *
118432406 CGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 TGTAAGACCATGCCAAGACATGGCATTGGTAAG
118432439 GTACCCGTGT
Statistics
Matches: 163, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
49 35 0.21
52 6 0.04
53 42 0.26
54 16 0.10
55 61 0.37
56 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (52 bp):
TGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAGGTACCA
Found at i:118432390 original size:108 final size:110
Alignment explanation
Indices: 118432194--118432391 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
118432184 AAGGATACTG
*
118432194 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
118432259 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAAGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAAGTCCCA
* **
118432304 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
118432366 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
118432392 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 7 0.09
110 24 0.30
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAAGTCCCA
Found at i:118432651 original size:16 final size:16
Alignment explanation
Indices: 118432630--118432660 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
118432620 ATAAATTTGA
118432630 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
118432646 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
118432661 GGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:118435704 original size:10 final size:9
Alignment explanation
Indices: 118435676--118435722 Score: 51
Period size: 10 Copynumber: 5.0 Consensus size: 9
118435666 AGTATTAATA
118435676 TATAGTATAT
1 TATA-TATAT
118435686 TATAT-TAT
1 TATATATAT
118435694 TATATTATAT
1 TATA-TATAT
*
118435704 TATATATAA
1 TATATATAT
118435713 TATAATATAT
1 TAT-ATATAT
118435723 AAAACATAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 7 0.22
9 9 0.28
10 16 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATATATAT
Found at i:118436939 original size:22 final size:22
Alignment explanation
Indices: 118436910--118436966 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
118436900 TAGCACGTTA
118436910 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCAC-TCT
* *
118436933 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTTTAGCACTCT
118436954 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
118436967 CGTTTGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTCT
Found at i:118439840 original size:31 final size:31
Alignment explanation
Indices: 118439805--118439866 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
118439795 TAATTTGATC
118439805 ATTGAACTATTTGAAAA-TTTTCATTTAAGTA
1 ATTGAACTATTT-AAAAGTTTTCATTTAAGTA
*
118439836 ATTGAACTATTTAAAAGTTTTTTATTTAAGT
1 ATTGAACTATTTAAAAG-TTTTCATTTAAGT
118439867 CACTAGGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 4 0.14
31 12 0.43
32 12 0.43
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (31 bp):
ATTGAACTATTTAAAAGTTTTCATTTAAGTA
Found at i:118440799 original size:39 final size:39
Alignment explanation
Indices: 118440766--118440841 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
118440756 TTAGTTTGTG
118440766 TCTTTAACTATGTCATAGTTTGAACATCATTAGTATGAC
1 TCTTTAACTATGTCATAGTTTGAACATCATTAGTATGAC
* *
118440805 TCTTTAATTATGTCATAGTTTGAACATCATTAATATG
1 TCTTTAACTATGTCATAGTTTGAACATCATTAGTATG
118440842 TGTTCTGCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (39 bp):
TCTTTAACTATGTCATAGTTTGAACATCATTAGTATGAC
Done.