Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 70 of 141
Found at i:20335068 original size:30 final size:32
Alignment explanation
Indices: 20335006--20335074 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
20334996 AACTAAAAAA
* *
20335006 AGTTGAAGTACTAACTTAAGAAAAAGGGGTAT
1 AGTTTAAGTACCAACTTAAGAAAAAGGGGTAT
*
20335038 AGTTTAAGTACCAATTTAAG-AAAA-GGGTAT
1 AGTTTAAGTACCAACTTAAGAAAAAGGGGTAT
*
20335068 AATTTAA
1 AGTTTAA
20335075 AAACTATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 12 0.36
31 4 0.12
32 17 0.52
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.29
Consensus pattern (32 bp):
AGTTTAAGTACCAACTTAAGAAAAAGGGGTAT
Found at i:20339168 original size:14 final size:14
Alignment explanation
Indices: 20339145--20339186 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
20339135 TGTATAGTTG
20339145 ATTCTGAAAAAATA
1 ATTCTGAAAAAATA
* *
20339159 ATTTTGAAAAGATA
1 ATTCTGAAAAAATA
*
20339173 GTTCTGAAAAAATA
1 ATTCTGAAAAAATA
20339187 TCCCGGGATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (14 bp):
ATTCTGAAAAAATA
Found at i:20339464 original size:127 final size:126
Alignment explanation
Indices: 20339217--20339531 Score: 461
Period size: 127 Copynumber: 2.5 Consensus size: 126
20339207 CTGATAGTTG
* * * ** *
20339217 GGTTTAAAAACGCTTCAAGTAGGATGCACTGTCAGCAAAAGTACTAAAAAAAGCTCTAAGCTGGA
1 GGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTAAAAAAAGCTCCCAGCTAGA
*
20339282 CGCTTTTTTTGTACAGTTGATTCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATA
66 CGCTTTTTTTGTACAGTTGATTCTGAAAAAATAAATTTGAGAAGATGGTTCTGAAAAAATA
* * * *
20339343 GGTTGAAAAACGCTTCAAGCAAGATGCATTATCAGTAAAAGTACTAAAAAAAGCTCCCAGCTAGA
1 GGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTAAAAAAAGCTCCCAGCTAGA
* *
20339408 C-CTTTTTTTTTGTACAGTTGTTTCTGAAAAAATAAATTTGAGAAGATGGTTTTGAAAAAATA
66 CGC--TTTTTTTGTACAGTTGATTCTGAAAAAATAAATTTGAGAAGATGGTTCTGAAAAAATA
* * *
20339470 GATTGAAAAACGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTGAAAAAAGCTTCCAGCT
1 GGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTAAAAAAAGCTCCCAGCT
20339532 GGATGCTCTT
Statistics
Matches: 168, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
125 1 0.01
126 57 0.34
127 110 0.65
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (126 bp):
GGTTGAAAAACGCTTCAAGCAGGATGCACTGTCAGAAAAAGTACTAAAAAAAGCTCCCAGCTAGA
CGCTTTTTTTGTACAGTTGATTCTGAAAAAATAAATTTGAGAAGATGGTTCTGAAAAAATA
Found at i:20339703 original size:25 final size:25
Alignment explanation
Indices: 20339631--20339692 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
20339621 TTACAGCAAG
*
20339631 AGAAGTTGAAGAAGTTCAGAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
*
20339656 AAAAATTGAAGAAGTTCAGAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
20339681 AGAAATTGAAGA
1 AGAAATTGAAGA
20339693 TGTTGATAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.53, C:0.03, G:0.24, T:0.19
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTCAGAAGAAT
Found at i:20342784 original size:59 final size:60
Alignment explanation
Indices: 20342655--20342785 Score: 196
Period size: 59 Copynumber: 2.2 Consensus size: 60
20342645 TGTATTGTCT
*
20342655 TATTCAAAAGAACTTCTATTTTATTAAATAAGACAAAATATAAAAATAATTTGTACAAAAA
1 TATTCAAAAAAACTTCTATTTTATTAAAT-AGACAAAATATAAAAATAATTTGTACAAAAA
* *
20342716 TATTCAAAAAAACTTCTATTTTATTAAAT-GA-AATAATATAAAAATAGTTTGTACAAATA
1 TATTCAAAAAAACTTCTATTTTATTAAATAGACAA-AATATAAAAATAATTTGTACAAAAA
20342775 TATT-AAAAAAA
1 TATTCAAAAAAA
20342786 TCAATGCATG
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
58 9 0.14
59 29 0.44
61 28 0.42
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (60 bp):
TATTCAAAAAAACTTCTATTTTATTAAATAGACAAAATATAAAAATAATTTGTACAAAAA
Found at i:20343795 original size:20 final size:21
Alignment explanation
Indices: 20343759--20343798 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
20343749 TTTGCCCGGG
*
20343759 CCCAAAACTAAATAAATAAAA
1 CCCAAAACTAAAAAAATAAAA
20343780 CCCAAAA-TAAAAAAATAAA
1 CCCAAAACTAAAAAAATAAA
20343799 CAGTTTATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.70, C:0.17, G:0.00, T:0.12
Consensus pattern (21 bp):
CCCAAAACTAAAAAAATAAAA
Found at i:20345007 original size:19 final size:19
Alignment explanation
Indices: 20344983--20345019 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
20344973 CGTGATCCGA
*
20344983 TTAAAACACGATATTTTTT
1 TTAAAACACGAGATTTTTT
20345002 TTAAAACACGAGATTTTT
1 TTAAAACACGAGATTTTT
20345020 GAAACACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (19 bp):
TTAAAACACGAGATTTTTT
Found at i:20345055 original size:19 final size:18
Alignment explanation
Indices: 20345036--20345103 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 18
20345026 CCATAATAAT
20345036 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
20345054 TTTTTG-AAACACGAGAATTT
1 TTTTTGAAAACACGA-AA--A
*
20345074 TATTTTGGAAACACGAAACA
1 T-TTTTGAAAACACGAAA-A
20345094 TTTTTGAAAA
1 TTTTTGAAAA
20345104 ATTACGAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
17 8 0.20
18 8 0.20
19 8 0.20
20 2 0.05
21 7 0.17
22 8 0.20
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:20345063 original size:17 final size:17
Alignment explanation
Indices: 20344999--20345102 Score: 66
Period size: 22 Copynumber: 5.5 Consensus size: 17
20344989 CACGATATTT
* *
20344999 TTTTTAAAACACG-AGA
1 TTTTTGAAACACGAAAA
*
20345015 TTTTTGAAACACCATAATAA
1 TTTTTGAAACA-C-GAA-AA
20345035 TTTTTTGAAAACACGAAAA
1 -TTTTTG-AAACACGAAAA
20345054 TTTTTGAAACACGAGAATTTTA
1 TTTTTGAAACACGA-AA----A
*
20345076 TTTTGGAAACACGAAACA
1 TTTTTGAAACACGAAA-A
20345094 TTTTTGAAA
1 TTTTTGAAA
20345103 AATTACGAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
16 10 0.14
17 9 0.13
18 17 0.24
19 3 0.04
20 3 0.04
21 9 0.13
22 19 0.27
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:20345080 original size:39 final size:37
Alignment explanation
Indices: 20344986--20345270 Score: 140
Period size: 39 Copynumber: 7.5 Consensus size: 37
20344976 GATCCGATTA
* *
20344986 AAACACGATATTTTTTTT-AAAACACG-AGATTTTTG
1 AAACACGAAATTTTTTTTGAAAACACGAAAATTTTTG
* *
20345021 AAACACCATAATAATTTTTTGAAAACACGAAAATTTTTG
1 AAACACGA-AAT-TTTTTTTGAAAACACGAAAATTTTTG
*
20345060 AAACACGAGAATTTTATTTTGGAAACACGAAACATTTTTGAAAAATTACG
1 AAACACGA-AATTTT-TTTTGAAAACACGAAA-A--TTT------TT--G
* *** * * *
20345110 AAACACGAGAATATTTTAAAAAAACAAGGATATTTTTTG
1 AAACACGA-AATTTTTTTTGAAAAC-ACGAAAATTTTTG
* * * *
20345149 AAACA-TAATTTTTTTTTGAAAGCACGAAGATTTTTG
1 AAACACGAAATTTTTTTTGAAAACACGAAAATTTTTG
* *
20345185 AAACACGAAA--ATTTTTGAAAACACGAAAATTTGTG
1 AAACACGAAATTTTTTTTGAAAACACGAAAATTTTTG
* * *
20345220 AAAATATG-AATTTTTTTTG-AAACACG--AATTGTTG
1 -AAACACGAAATTTTTTTTGAAAACACGAAAATTTTTG
20345254 AAAACAC-AAATTTTTTT
1 -AAACACGAAATTTTTTT
20345271 CTTAAGGGCG
Statistics
Matches: 188, Mismatches: 40, Indels: 45
0.69 0.15 0.16
Matches are distributed among these distances:
34 20 0.11
35 30 0.16
36 28 0.15
37 24 0.13
38 11 0.06
39 39 0.21
40 1 0.01
41 2 0.01
42 3 0.02
47 3 0.02
48 2 0.01
49 6 0.03
50 19 0.10
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (37 bp):
AAACACGAAATTTTTTTTGAAAACACGAAAATTTTTG
Found at i:20345223 original size:18 final size:18
Alignment explanation
Indices: 20345161--20345268 Score: 93
Period size: 18 Copynumber: 6.3 Consensus size: 18
20345151 ACATAATTTT
* *
20345161 TTTTTGAAAGCACGAAGA
1 TTTTTGAAAACACGAAAA
20345179 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
20345196 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * * **
20345214 TTTGTGAAAATATGAATTT
1 TTTTTGAAAACACGAA-AA
20345233 TTTTTG-AAACACG--AA
1 TTTTTGAAAACACGAAAA
*
20345248 TTGTTGAAAACAC--AAA
1 TTTTTGAAAACACGAAAA
20345264 TTTTT
1 TTTTT
20345269 TTCTTAAGGG
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
15 5 0.07
16 12 0.17
17 15 0.21
18 35 0.49
19 5 0.07
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:20345391 original size:16 final size:17
Alignment explanation
Indices: 20345370--20345406 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
20345360 CCTTATTTAT
20345370 TAAAATTTTAA-AAAA-A
1 TAAAA-TTTAAGAAAACA
20345386 TAAAATTTAAGAAAACA
1 TAAAATTTAAGAAAACA
20345403 TAAA
1 TAAA
20345407 TACAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 9 0.47
17 5 0.26
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (17 bp):
TAAAATTTAAGAAAACA
Found at i:20345789 original size:20 final size:19
Alignment explanation
Indices: 20345763--20345808 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
20345753 CGAGCTCCTC
20345763 TTTTTTTTCTTT-TTCCTTT
1 TTTTTTTTCTTTCTT-CTTT
20345782 TCTTTTTTTCTTTCTTCTTT
1 T-TTTTTTTCTTTCTTCTTT
20345802 TTTTTTT
1 TTTTTTT
20345809 CTGGTTGGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.28
20 16 0.64
21 2 0.08
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTTTTCTTTCTTCTTT
Found at i:20346188 original size:21 final size:20
Alignment explanation
Indices: 20346159--20346207 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
20346149 TTTATCTCTA
*
20346159 CTTTATTCTTCTTCTTCTTT
1 CTTTTTTCTTCTTCTTCTTT
*
20346179 CTTTCTTTCTTCTTCTTTTTT
1 CTTT-TTTCTTCTTCTTCTTT
20346200 CTTTTTTC
1 CTTTTTTC
20346208 ACTTCTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (20 bp):
CTTTTTTCTTCTTCTTCTTT
Found at i:20346190 original size:18 final size:17
Alignment explanation
Indices: 20346167--20346203 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
20346157 TACTTTATTC
20346167 TTCTTCTTCTTTCTTTCT
1 TTCTTCTTCTTT-TTTCT
20346185 TTCTTCTTCTTTTTTCT
1 TTCTTCTTCTTTTTTCT
20346202 TT
1 TT
20346204 TTTCACTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTCTTCTTCTTTTTTCT
Found at i:20346336 original size:25 final size:26
Alignment explanation
Indices: 20346308--20346379 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
20346298 ATTCTCCTCC
*
20346308 CTTTCTTTTTTTTTTCTT-TT-TTCTT
1 CTTTCTTTTTTTTTGCTTCTTGTT-TT
*
20346333 CTTTTCTTTTTTCTTGCTTCTTGTTTT
1 C-TTTCTTTTTTTTTGCTTCTTGTTTT
*
20346360 -TTTCTTTTTTTTTACTTCTT
1 CTTTCTTTTTTTTTGCTTCTT
20346380 AGTTGCTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 19 0.47
26 15 0.38
27 4 0.10
28 2 0.05
ACGTcount: A:0.01, C:0.17, G:0.03, T:0.79
Consensus pattern (26 bp):
CTTTCTTTTTTTTTGCTTCTTGTTTT
Found at i:20346369 original size:7 final size:7
Alignment explanation
Indices: 20346313--20346347 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
20346303 CCTCCCTTTC
20346313 TTTT-TT
1 TTTTCTT
20346319 TTTTCTT
1 TTTTCTT
20346326 TTTTCTT
1 TTTTCTT
20346333 CTTTTCTT
1 -TTTTCTT
20346341 TTTTCTT
1 TTTTCTT
20346348 GCTTCTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 4 0.15
7 16 0.59
8 7 0.26
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTCTT
Found at i:20346735 original size:28 final size:29
Alignment explanation
Indices: 20346697--20346756 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
20346687 GATGTAACAA
* *
20346697 AAATTCTGGGGCCAAAGTGTAAATTTGGG
1 AAATTCTGGGGCCAAAATGTAAATTTGAG
* *
20346726 AAATT-TGGGGTCAAAATGTAATTTTGAG
1 AAATTCTGGGGCCAAAATGTAAATTTGAG
20346754 AAA
1 AAA
20346757 GATAAGAGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.30
Consensus pattern (29 bp):
AAATTCTGGGGCCAAAATGTAAATTTGAG
Found at i:20346779 original size:30 final size:30
Alignment explanation
Indices: 20346734--20346817 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
20346724 GGAAATTTGG
* *
20346734 GGTCAAAATGTAATTTTGAGAAAGA-TAAGA
1 GGTCAAAATGCAATTTTAAGAAA-ATTAAGA
* * *
20346764 GGTTAAAATGCAATTTTAAGAAAATTTAGG
1 GGTCAAAATGCAATTTTAAGAAAATTAAGA
*
20346794 GGTCAAAATGCAA-TTTAAAAAAAT
1 GGTCAAAATGCAATTTTAAGAAAAT
20346818 AAAATTCGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
29 11 0.24
30 35 0.76
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (30 bp):
GGTCAAAATGCAATTTTAAGAAAATTAAGA
Found at i:20347151 original size:78 final size:79
Alignment explanation
Indices: 20346986--20347659 Score: 761
Period size: 76 Copynumber: 8.6 Consensus size: 79
20346976 GCGACCCAAA
* * * *
20346986 GCTCAACTCACCTCTCGAATTATGAGTTGATTTTTTTTGAAAAAAACATAAA-TTGAAAAACACC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA---TTTTTGAAAAAAACAGAAATTTAAAAAATACC
*
20347050 TCGGCGTGTGACCCGAG
63 TCGGCATGTGACCCGAG
* * * *
20347067 GCTCAACTCACTTCTTGCATTATGAGTTGATTTTTGAAAAAAATAGAAATTTAAAAAGTACCTCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAATACCTCG
* * *
20347132 GCACGTG-TCTGAG
66 GCATGTGACCCGAG
*
20347145 GTTCAACTCACCTCTCGCATTATGAGTTGATTTTTG--AAAAACAGAAATTTAAAAAATACCTCG
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAATACCTCG
**
20347208 GCATGTG-TTCGAG
66 GCATGTGACCCGAG
* * * * *
20347221 GCTCAACTCACCTCTCGTATTACGAGTTGA--TTTAAAAAAAATAGAAATTTAAAAAATACCTCA
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAATACCTCG
* *
20347284 GCGTGTGACCTGAG
66 GCATGTGACCCGAG
* * *** *
20347298 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAAAAATACCTC
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGAAATT-TAAAAAATACCTC
*
20347363 GGCGTGTGACCCGAG
65 GGCATGTGACCCGAG
* * * *
20347378 ACTCAACTCACCTCTCGCAATATGAGTTGAGTTTTTG--AAAAATAGAAA-TTGAAAAATACCTC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAAAACAGAAATTTAAAAAATACCTC
20347440 AGG-ATGTGACCCGAG
65 -GGCATGTGACCCGAG
* * * *
20347455 GTTCAACTCACCTTTCGCAATATGAGTTGATTTTTTG--AAAAATAGAAA-TTAAAAAATACCTC
1 GCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAAAACAGAAATTTAAAAAATACCTC
*
20347517 GGCATGTG-TCCGAG
65 GGCATGTGACCCGAG
* * *
20347531 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAA-AAATAAATTGAAAAATACCTC
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGA-AATTTAAAAAATACCTC
20347595 GGCATGTG-CCCGAG
65 GGCATGTGACCCGAG
* * *
20347609 GCTCAACTCACCTCTCGCAATATGATTTGATTTTTGAAAAATACAGAAATT
1 GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGAAATT
20347660 GAAATGGTTT
Statistics
Matches: 513, Mismatches: 65, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
74 3 0.01
75 6 0.01
76 129 0.25
77 120 0.23
78 126 0.25
79 44 0.09
80 53 0.10
81 32 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (79 bp):
GCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAAACAGAAATTTAAAAAATACCTCG
GCATGTGACCCGAG
Found at i:20355920 original size:16 final size:17
Alignment explanation
Indices: 20355880--20355922 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
20355870 CGTGGTCCGA
*
20355880 TTGAAACACGATACTTTT
1 TTGAAACACGAGAC-TTT
*
20355898 TTTAAACACGAGA-TTT
1 TTGAAACACGAGACTTT
20355914 TTGAAACAC
1 TTGAAACAC
20355923 CATAATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
18 11 0.50
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (17 bp):
TTGAAACACGAGACTTT
Found at i:20355976 original size:39 final size:40
Alignment explanation
Indices: 20355910--20355998 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 40
20355900 TAAACACGAG
* *
20355910 ATTTTTGAAACACCATAATAATTTTTTGAAAATACGAAA-
1 ATTTTTGAAACACCAGAATAATTTTTTGAAAACACGAAAC
* * *
20355949 ATTTTTGAAACACGAGAAT-TTTATTTTGGAAACACGAAAC
1 ATTTTTGAAACACCAGAATAATT-TTTTGAAAACACGAAAC
*
20355989 TTTTTTGAAA
1 ATTTTTGAAA
20355999 AATTACGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.05
39 31 0.74
40 9 0.21
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (40 bp):
ATTTTTGAAACACCAGAATAATTTTTTGAAAACACGAAAC
Found at i:20355998 original size:18 final size:17
Alignment explanation
Indices: 20355880--20355998 Score: 69
Period size: 18 Copynumber: 6.4 Consensus size: 17
20355870 CGTGGTCCGA
*
20355880 TTGAAACACGATACTTTT
1 TTGAAACACGA-AATTTT
* *
20355898 TTTAAACACGAGA-TTT
1 TTGAAACACGAAATTTT
*
20355914 TTGAAACACCATAATAATTTT
1 TTGAAACA-C--GA-AATTTT
* *
20355935 TTGAAAATACGAAAATTT
1 TTG-AAACACGAAATTTT
20355953 TTGAAACACGAGAATTTTATT
1 TTGAAACACGA-AA--TT-TT
20355974 TTGGAAACACGAAACTTTT
1 TT-GAAACACGAAA-TTTT
20355993 TTGAAA
1 TTGAAA
20355999 AATTACGAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
16 10 0.13
17 8 0.10
18 24 0.31
19 6 0.08
20 4 0.05
21 13 0.17
22 13 0.17
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
TTGAAACACGAAATTTT
Found at i:20356062 original size:20 final size:22
Alignment explanation
Indices: 20356039--20356081 Score: 65
Period size: 19 Copynumber: 2.1 Consensus size: 22
20356029 AATAAGGATA
20356039 TTTTTTGAAA-CAC-AA-ATTT
1 TTTTTTGAAAGCACGAAGATTT
20356058 TTTTTTGAAAGCACGAAGATTT
1 TTTTTTGAAAGCACGAAGATTT
20356080 TT
1 TT
20356082 AAAACATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.48
20 3 0.14
21 2 0.10
22 6 0.29
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.47
Consensus pattern (22 bp):
TTTTTTGAAAGCACGAAGATTT
Found at i:20356098 original size:18 final size:18
Alignment explanation
Indices: 20356059--20356114 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
20356049 CACAAATTTT
* * *
20356059 TTTTTGAAAGCACGAAGA
1 TTTTTAAAAACACGAAAA
*
20356077 TTTTT-AAAACATGAAAA
1 TTTTTAAAAACACGAAAA
20356094 TTTTTAAAAACACGAAAA
1 TTTTTAAAAACACGAAAA
20356112 TTT
1 TTT
20356115 GTGAAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 14 0.42
18 19 0.58
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (18 bp):
TTTTTAAAAACACGAAAA
Found at i:20356121 original size:18 final size:17
Alignment explanation
Indices: 20356060--20356121 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
20356050 ACAAATTTTT
* *
20356060 TTTTGAAAGCACGAAGA
1 TTTTGAAAACACGAAAA
* *
20356077 TTTTTAAAACATGAAAA
1 TTTTGAAAACACGAAAA
*
20356094 TTTTTAAAAACACGAAAA
1 -TTTTGAAAACACGAAAA
20356112 TTTGTGAAAA
1 TTT-TGAAAA
20356122 TATGAATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 16 0.44
18 20 0.56
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:20356127 original size:36 final size:35
Alignment explanation
Indices: 20356059--20356157 Score: 85
Period size: 36 Copynumber: 2.8 Consensus size: 35
20356049 CACAAATTTT
* * * *
20356059 TTTTTGAAAGCACGAAGATTTTTAAAACATGAAAA
1 TTTTTAAAAACACGAAAATTTTGAAAACATGAAAA
* **
20356094 TTTTTAAAAACACGAAAATTTGTGAAAATATGAATT
1 TTTTTAAAAACACGAAAATTT-TGAAAACATGAAAA
**
20356130 TTTTTTGAAACACG--AATTGTTGAAAACA
1 TTTTTAAAAACACGAAAATT-TTGAAAACA
20356158 CAAATTTTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
34 11 0.21
35 19 0.37
36 22 0.42
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (35 bp):
TTTTTAAAAACACGAAAATTTTGAAAACATGAAAA
Found at i:20356691 original size:17 final size:16
Alignment explanation
Indices: 20356654--20356699 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
20356644 CTCGAGCTCC
20356654 TCTTTTTTTTCTTT-TT
1 TCTTTTTTTT-TTTCTT
*
20356670 CCTTTTCTTTTTTTCTT
1 TCTTTT-TTTTTTTCTT
20356687 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
20356700 TCTGGTTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TCTTTTTTTTTTTCTT
Found at i:20356700 original size:17 final size:17
Alignment explanation
Indices: 20356654--20356702 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
20356644 CTCGAGCTCC
*
20356654 TCTTTTTTTTCTTT-TT
1 TCTTTTTTTTTTTTCTT
* *
20356670 CCTTTTCTTTTTTTCTT
1 TCTTTTTTTTTTTTCTT
20356687 TCTTTTTTTTTTTTCT
1 TCTTTTTTTTTTTTCT
20356703 GGTTGGGCTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TCTTTTTTTTTTTTCTT
Found at i:20357054 original size:14 final size:14
Alignment explanation
Indices: 20357032--20357113 Score: 71
Period size: 14 Copynumber: 5.7 Consensus size: 14
20357022 CTGTTTTAGA
20357032 TTTTT-TTCTTTTT
1 TTTTTCTTCTTTTT
20357045 TTTTTCTTCTTTTT
1 TTTTTCTTCTTTTT
* * *
20357059 TATCTCTTC-TTTC
1 TTTTTCTTCTTTTT
20357072 TTTTTCTTTCTTTCTT
1 TTTTTC-TTCTTT-TT
20357088 TCTTCTTCTTCTTTTT
1 T-TT-TTCTTCTTTTT
20357104 TCTTTT-TTCT
1 T-TTTTCTTCT
20357114 CTTCTCCTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
13 12 0.21
14 22 0.39
15 4 0.07
16 8 0.14
17 8 0.14
18 3 0.05
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTCTTCTTTTT
Found at i:20357069 original size:28 final size:31
Alignment explanation
Indices: 20357037--20357118 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 31
20357027 TTAGATTTTT
20357037 TTCTTTTTTTTTTCTTCTTT-TTT-ATC-TC
1 TTCTTTTTTTTTTCTTCTTTCTTTCATCTTC
* *
20357065 TTC-TTTCTTTTTCTTTCTTTCTTTCTTCTTC
1 TTCTTTTTTTTTTC-TTCTTTCTTTCATCTTC
20357096 TTCTTTTTTCTTTT-TTCTCTTCT
1 TTCTTTTTT-TTTTCTTCT-TTCT
20357119 CCTTCGGCAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
27 9 0.20
28 9 0.20
29 3 0.07
30 2 0.05
31 9 0.20
32 8 0.18
33 4 0.09
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.77
Consensus pattern (31 bp):
TTCTTTTTTTTTTCTTCTTTCTTTCATCTTC
Found at i:20357123 original size:28 final size:25
Alignment explanation
Indices: 20357038--20357119 Score: 87
Period size: 28 Copynumber: 3.1 Consensus size: 25
20357028 TAGATTTTTT
20357038 TCTT-TTTTTTTTCTTCTTTT-TTATC
1 TCTTCTTTTTTTTCTT-TTTTCTT-TC
20357063 TCTTCTTTCTTTTTCTTTCTTTCTTTC
1 TCTTCTTT-TTTTTCTTT-TTTCTTTC
20357090 TTCTTCTTCTTTTTTCTTTTTTCTCTTC
1 -TCTTCTT-TTTTTTCTTTTTTCT-TTC
20357118 TC
1 TC
20357120 CTTCGGCAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
25 4 0.08
26 4 0.08
27 20 0.40
28 21 0.42
29 1 0.02
ACGTcount: A:0.01, C:0.23, G:0.00, T:0.76
Consensus pattern (25 bp):
TCTTCTTTTTTTTCTTTTTTCTTTC
Found at i:20357703 original size:30 final size:30
Alignment explanation
Indices: 20357669--20357725 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
20357659 GAGAAAGACA
* * *
20357669 AGGGGTTAAAATGAAATTTTAAGAAAATTT
1 AGGGGTCAAAAAGAAATTTTAAAAAAATTT
*
20357699 AGGGGTCAAAAAGCAATTTTAAAAAAA
1 AGGGGTCAAAAAGAAATTTTAAAAAAA
20357726 AAACGAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.26
Consensus pattern (30 bp):
AGGGGTCAAAAAGAAATTTTAAAAAAATTT
Found at i:20360118 original size:10 final size:10
Alignment explanation
Indices: 20360105--20360131 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
20360095 ACATAAATGA
20360105 AAAAAATATT
1 AAAAAATATT
20360115 AAAAAATATT
1 AAAAAATATT
20360125 AAAAAAT
1 AAAAAAT
20360132 TGTAATTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAAATATT
Found at i:20368645 original size:38 final size:38
Alignment explanation
Indices: 20368594--20368668 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
20368584 ATCAATTCAA
20368594 ATTCATTATGCATTTAAAGGCATAATAAATTAGCATTT
1 ATTCATTATGCATTTAAAGGCATAATAAATTAGCATTT
20368632 ATTCATTATGCATTTAAAGGCATAATAAATTAGCATT
1 ATTCATTATGCATTTAAAGGCATAATAAATTAGCATT
20368669 CTTGTTGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.39
Consensus pattern (38 bp):
ATTCATTATGCATTTAAAGGCATAATAAATTAGCATTT
Found at i:20369663 original size:13 final size:13
Alignment explanation
Indices: 20369645--20369669 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20369635 TTAAGTTAGC
20369645 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
20369658 TTTTTCTTTTTC
1 TTTTTCTTTTTC
20369670 AAAGTTCAAA
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTCTTTTTCT
Found at i:20370073 original size:20 final size:20
Alignment explanation
Indices: 20370048--20370112 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
20370038 ACAAATATTA
20370048 CAAAATAATTTTTAAAAATT
1 CAAAATAATTTTTAAAAATT
*
20370068 CAAAATAATTTTTAAAACTT
1 CAAAATAATTTTTAAAAATT
*
20370088 -AAAAT-ATTTATAAAAATT
1 CAAAATAATTTTTAAAAATT
20370106 CTAAAAT
1 C-AAAAT
20370113 TTATATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
18 11 0.28
19 5 0.12
20 24 0.60
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
CAAAATAATTTTTAAAAATT
Found at i:20371611 original size:19 final size:21
Alignment explanation
Indices: 20371569--20371613 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
20371559 TTTTTTTGGT
*
20371569 ATTTTAAAAATAAATTTAATA
1 ATTTTAAAAATAAATTTAAGA
*
20371590 ATTTTATAAA-AAA-TTAAGA
1 ATTTTAAAAATAAATTTAAGA
20371609 ATTTT
1 ATTTT
20371614 CCAATTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 3 0.14
21 9 0.41
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTTTAAAAATAAATTTAAGA
Found at i:20371773 original size:18 final size:18
Alignment explanation
Indices: 20371746--20371790 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
20371736 TTTTCAAAGT
20371746 TTTTAGATTTTT-TTGGACA
1 TTTTA-ATTTTTCTT-GACA
20371765 TTTTAATTTTTCCTTGACA
1 TTTTAATTTTT-CTTGACA
20371784 TTTTAAT
1 TTTTAAT
20371791 CAAATATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.25
19 16 0.67
20 2 0.08
ACGTcount: A:0.22, C:0.09, G:0.09, T:0.60
Consensus pattern (18 bp):
TTTTAATTTTTCTTGACA
Found at i:20372861 original size:6 final size:7
Alignment explanation
Indices: 20372835--20372860 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20372825 TTATAAAGTC
20372835 TAAAAAT
1 TAAAAAT
20372842 TAAAAAT
1 TAAAAAT
20372849 TAAAAAT
1 TAAAAAT
20372856 TAAAA
1 TAAAA
20372861 TCCCAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAAAT
Found at i:20377449 original size:45 final size:44
Alignment explanation
Indices: 20377400--20377486 Score: 129
Period size: 45 Copynumber: 2.0 Consensus size: 44
20377390 TTTTTGGCTA
* *
20377400 AATATAAATAATTAATAATCAATACTATGTAATTTAGTTTAAATT
1 AATATAAATAATTAATAATAAATACTATATAATTTA-TTTAAATT
* *
20377445 AATATAAATAATTTATAATAAATATTATATAATTTATTTAAA
1 AATATAAATAATTAATAATAAATACTATATAATTTATTTAAA
20377487 AATTTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
44 6 0.16
45 32 0.84
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (44 bp):
AATATAAATAATTAATAATAAATACTATATAATTTATTTAAATT
Found at i:20379845 original size:8 final size:8
Alignment explanation
Indices: 20379832--20379856 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
20379822 GGAGTTCAAA
20379832 TATAATTT
1 TATAATTT
20379840 TATAATTT
1 TATAATTT
20379848 TATAATTT
1 TATAATTT
20379856 T
1 T
20379857 TAAAAGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATAATTT
Found at i:20384064 original size:4 final size:4
Alignment explanation
Indices: 20384055--20384080 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
20384045 ACAACAGAAC
20384055 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
20384081 AGATGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:20384164 original size:4 final size:4
Alignment explanation
Indices: 20384155--20384191 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
20384145 TGATGAACAC
20384155 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
20384192 AGATAAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:20384642 original size:3 final size:3
Alignment explanation
Indices: 20384628--20384720 Score: 53
Period size: 3 Copynumber: 31.0 Consensus size: 3
20384618 AAATGGAAAT
* * * * * * *
20384628 ATA ATA ACA ATA ATA TTG ATA ATA ATA CTA ATA CTA ATA CTA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
20384676 ATA AT- ATA TTA GTT TTA ATA ATA ATA TATG ATA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
20384721 GCCCATATTA
Statistics
Matches: 64, Mismatches: 24, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
2 2 0.03
3 60 0.94
4 2 0.03
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:20385699 original size:11 final size:11
Alignment explanation
Indices: 20385683--20385708 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20385673 TGTTTTTTCC
20385683 TTCTCATCTTG
1 TTCTCATCTTG
20385694 TTCTCATCTTG
1 TTCTCATCTTG
20385705 TTCT
1 TTCT
20385709 AAGCTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.27, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCATCTTG
Found at i:20386053 original size:12 final size:12
Alignment explanation
Indices: 20386036--20386060 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20386026 AGACCTGATA
20386036 AAATAAGAAAAC
1 AAATAAGAAAAC
20386048 AAATAAGAAAAC
1 AAATAAGAAAAC
20386060 A
1 A
20386061 TCTCCTGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (12 bp):
AAATAAGAAAAC
Found at i:20387994 original size:29 final size:29
Alignment explanation
Indices: 20387961--20388021 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
20387951 GATTCAATCA
20387961 AAATTTCTCCAACCCAAATAATTTTTTTT
1 AAATTTCTCCAACCCAAATAATTTTTTTT
20387990 AAATTTCTCCAACCCAAATAATTTTTTTT
1 AAATTTCTCCAACCCAAATAATTTTTTTT
20388019 AAA
1 AAA
20388022 ATTATTATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.43
Consensus pattern (29 bp):
AAATTTCTCCAACCCAAATAATTTTTTTT
Found at i:20388272 original size:5 final size:5
Alignment explanation
Indices: 20388262--20388286 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
20388252 ATTAAAAAAT
20388262 AAACA AAACA AAACA AAACA AAACA
1 AAACA AAACA AAACA AAACA AAACA
20388287 GATAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:20392555 original size:21 final size:21
Alignment explanation
Indices: 20392525--20392577 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
20392515 CATTGTTTCT
* *
20392525 AATCTTACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
20392546 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
20392567 AATCTCACCGC
1 AATCTCACCGC
20392578 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:20393640 original size:21 final size:21
Alignment explanation
Indices: 20393614--20393669 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
20393604 GGCACTGTGC
*
20393614 TCCAATCTTACCGCTACAGTA
1 TCCAATCTCACCGCTACAGTA
20393635 TCCAATCTCACCGCTACAGTA
1 TCCAATCTCACCGCTACAGTA
* *
20393656 ACTAATCTCACCGC
1 TCCAATCTCACCGC
20393670 CACCGCTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.38, G:0.09, T:0.25
Consensus pattern (21 bp):
TCCAATCTCACCGCTACAGTA
Found at i:20399494 original size:20 final size:20
Alignment explanation
Indices: 20399469--20399508 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
20399459 CAGAAAATGA
*
20399469 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
20399489 TTTCTGAAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
20399509 GAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:20399579 original size:32 final size:32
Alignment explanation
Indices: 20399499--20399584 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
20399489 TTTCTGAAAA
*
20399499 ATGATTTACTGAAAATATTTTTTGGTGTTTGG
1 ATGATTTCCTGAAAATATTTTTTGGTGTTTGG
* * *
20399531 ATGA-ATCTGTGTAAAATATTTTTTGTTGTTTGG
1 ATGATTTC-CTG-AAAATATTTTTTGGTGTTTGG
20399564 CA-GATTTCCTGAAAATATTTT
1 -ATGATTTCCTGAAAATATTTT
20399585 CCGGAAAAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
31 1 0.02
32 16 0.36
33 24 0.55
34 3 0.07
ACGTcount: A:0.27, C:0.06, G:0.19, T:0.49
Consensus pattern (32 bp):
ATGATTTCCTGAAAATATTTTTTGGTGTTTGG
Found at i:20403089 original size:35 final size:36
Alignment explanation
Indices: 20403029--20403110 Score: 112
Period size: 35 Copynumber: 2.3 Consensus size: 36
20403019 TATTTAACAT
* *
20403029 ATTATTTATAAAAAAAGTATGCATTAATAGAAATTTG
1 ATTATTTAT-AAAAAAGTATACATTAACAGAAATTTG
*
20403066 TTTATTTATAAAAAA-TATACATTAACAGAAATTTG
1 ATTATTTATAAAAAAGTATACATTAACAGAAATTTG
*
20403101 ATTATATATA
1 ATTATTTATA
20403111 TGAGTTAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 26 0.65
36 6 0.15
37 8 0.20
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (36 bp):
ATTATTTATAAAAAAGTATACATTAACAGAAATTTG
Found at i:20406382 original size:5 final size:5
Alignment explanation
Indices: 20406372--20406400 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
20406362 GTTGATAGAG
20406372 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
20406401 ATAGAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:20408124 original size:51 final size:51
Alignment explanation
Indices: 20408048--20408183 Score: 218
Period size: 51 Copynumber: 2.7 Consensus size: 51
20408038 TGAGATAGTA
* *
20408048 TAAGACCATGTGAGTGAGGCTCCATGATATCCATAGATATGATATGAGGTG
1 TAAGACCATGTGAGTGAGGCTCCATGACATCCATAAATATGATATGAGGTG
* * *
20408099 TAAGACCATGTGAGTGACGTTCCATGGCATCCATAAATATGATATGAGGTG
1 TAAGACCATGTGAGTGAGGCTCCATGACATCCATAAATATGATATGAGGTG
*
20408150 TAAGACCATGTGAGTGAGGCTCCATGGCATCCAT
1 TAAGACCATGTGAGTGAGGCTCCATGACATCCAT
20408184 TGTGTTAGTC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 78 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (51 bp):
TAAGACCATGTGAGTGAGGCTCCATGACATCCATAAATATGATATGAGGTG
Found at i:20410308 original size:36 final size:37
Alignment explanation
Indices: 20410239--20410338 Score: 107
Period size: 36 Copynumber: 2.7 Consensus size: 37
20410229 ATATGTGTGG
* *
20410239 AATTGAAATGAATAT-TGACTTGAAAATGGAAAAGT-A
1 AATTGAATTGAAT-TGTGACTTGAAAATGAAAAAGTGA
*
20410275 AATTTGAATTGAATTGTGA-TTGAAAGTGAAAAAGTGA
1 AA-TTGAATTGAATTGTGACTTGAAAATGAAAAAGTGA
* *
20410312 AATTGAATTGAAATGTGAATTTGAAAA
1 AATTGAATTGAATTGTG-ACTTGAAAA
20410339 GTATGTGTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
36 31 0.57
37 17 0.31
38 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.21, T:0.31
Consensus pattern (37 bp):
AATTGAATTGAATTGTGACTTGAAAATGAAAAAGTGA
Found at i:20410610 original size:20 final size:21
Alignment explanation
Indices: 20410542--20410614 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
20410532 CAGGCACTTT
* *
20410542 ATGTGTCGTACCAGGCACCTC
1 ATGTGTCGTATCAAGCACCTC
*
20410563 GTGTGTCGTATCAAGCACCTC
1 ATGTGTCGTATCAAGCACCTC
* * *
20410584 GTGTGTCGTTTCAAGCA-CTT
1 ATGTGTCGTATCAAGCACCTC
20410604 ATGTGTCGTAT
1 ATGTGTCGTAT
20410615 ACTGATCAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 11 0.24
21 34 0.76
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (21 bp):
ATGTGTCGTATCAAGCACCTC
Found at i:20414695 original size:21 final size:21
Alignment explanation
Indices: 20414669--20414710 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
20414659 TAATATAAAC
20414669 TATATATTAATAGATAAAATT
1 TATATATTAATAGATAAAATT
* *
20414690 TATATATTAATTGATAGAATT
1 TATATATTAATAGATAAAATT
20414711 GTATGAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (21 bp):
TATATATTAATAGATAAAATT
Found at i:20415271 original size:55 final size:57
Alignment explanation
Indices: 20415201--20415354 Score: 186
Period size: 57 Copynumber: 2.7 Consensus size: 57
20415191 ACGTGCTACG
* * * * *
20415201 TAACAATCGAGTTAAATATATAAACAATCAATTCAAAAGAAGCGGTA-T-TCCAACA
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCGATATTATACAACA
* * * *
20415256 TAACAACCGATTTAAACATATAAACATTCGATTCAAAAAAAGCGATATTATACAATA
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCGATATTATACAACA
* * *
20415313 TGACAATCGATTTAAACATACAAACAATTGATTCAAAAGAAG
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAG
20415355 TAGTATTCAC
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
55 40 0.49
56 1 0.01
57 41 0.50
ACGTcount: A:0.50, C:0.16, G:0.10, T:0.25
Consensus pattern (57 bp):
TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCGATATTATACAACA
Found at i:20415332 original size:57 final size:55
Alignment explanation
Indices: 20415201--20415350 Score: 167
Period size: 55 Copynumber: 2.7 Consensus size: 55
20415191 ACGTGCTACG
* * * * * * *
20415201 TAACAATCGAGTTAAATATATAAACAATCAATTCAAAAGAAGCGGTATTCCAACA
1 TAACAATCGATTTAAACATATAAACATTCGATTCAAAAAAAGCGATATTACAACA
* *
20415256 TAACAACCGATTTAAACATATAAACATTCGATTCAAAAAAAGCGATATTATACAATA
1 TAACAATCGATTTAAACATATAAACATTCGATTCAAAAAAAGCGATA-T-TACAACA
* *
20415313 TGACAATCGATTTAAACATACAAACAATT-GATTCAAAA
1 TAACAATCGATTTAAACATATAAAC-ATTCGATTCAAAA
20415351 GAAGTAGTAT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
55 40 0.50
56 1 0.01
57 36 0.45
58 3 0.04
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (55 bp):
TAACAATCGATTTAAACATATAAACATTCGATTCAAAAAAAGCGATATTACAACA
Found at i:20418215 original size:26 final size:25
Alignment explanation
Indices: 20418173--20418226 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
20418163 TTGAGTTAAT
20418173 AAAATTCTCTTTAAGTTTTCTTTTTA
1 AAAATTCTCTTTAAGTTTTC-TTTTA
*
20418199 AAAACTTCTC-TTGAGTTTTCTTTTA
1 AAAA-TTCTCTTTAAGTTTTCTTTTA
20418224 AAA
1 AAA
20418227 GAGTTTTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.31
26 13 0.50
27 5 0.19
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.52
Consensus pattern (25 bp):
AAAATTCTCTTTAAGTTTTCTTTTA
Found at i:20418623 original size:42 final size:43
Alignment explanation
Indices: 20418522--20418623 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 43
20418512 TGGCACATGT
* * *
20418522 AGTG-CATCGTCGAATAAACCGAAGCAAATATACTGACACGTA
1 AGTGACATCATCGAATATACCAAAGCAAATATACTGACACGTA
* * * *
20418564 AGTGA-ACCATC-AGATATACCAAAGTAAATATATTGGCACGTA
1 AGTGACATCATCGA-ATATACCAAAGCAAATATACTGACACGTA
20418606 AGT-ACATCATCGAATATA
1 AGTGACATCATCGAATATA
20418624 TTGAAGTATA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.04
42 45 0.94
43 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.23
Consensus pattern (43 bp):
AGTGACATCATCGAATATACCAAAGCAAATATACTGACACGTA
Found at i:20420265 original size:23 final size:22
Alignment explanation
Indices: 20420238--20420286 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
20420228 ACTTTAGTCC
20420238 TTAGT-TTTGAATTGATTGTAAAT
1 TTAGTCTTTGAA-TG-TTGTAAAT
*
20420261 TTAGTCCTTTGAATGTTGTAATT
1 TTAGT-CTTTGAATGTTGTAAAT
20420284 TTA
1 TTA
20420287 ATGCGATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 15 0.65
24 2 0.09
25 6 0.26
ACGTcount: A:0.27, C:0.04, G:0.16, T:0.53
Consensus pattern (22 bp):
TTAGTCTTTGAATGTTGTAAAT
Found at i:20420548 original size:13 final size:13
Alignment explanation
Indices: 20420532--20420556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20420522 TTAAGATATA
20420532 TTATTATTTTTAG
1 TTATTATTTTTAG
20420545 TTATTATTTTTA
1 TTATTATTTTTA
20420557 ATTTATCATA
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTATTTTTAG
Found at i:20427043 original size:3 final size:3
Alignment explanation
Indices: 20427035--20427060 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20427025 GATAAAACAG
20427035 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
20427061 ACTATTACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:20432305 original size:38 final size:38
Alignment explanation
Indices: 20432254--20432329 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
20432244 TAGAAAAATA
20432254 TGGATTTACAAACCCCAAAAGACTATCACCATAATTAG
1 TGGATTTACAAACCCCAAAAGACTATCACCATAATTAG
20432292 TGGATTTACAAACCCCAAAAGACTATCACCATAATTAG
1 TGGATTTACAAACCCCAAAAGACTATCACCATAATTAG
20432330 AGGAGAATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.24
Consensus pattern (38 bp):
TGGATTTACAAACCCCAAAAGACTATCACCATAATTAG
Found at i:20435023 original size:14 final size:14
Alignment explanation
Indices: 20435006--20435033 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20434996 ATACTTTTAA
20435006 AAAATATTTTTTTT
1 AAAATATTTTTTTT
20435020 AAAATATTTTTTTT
1 AAAATATTTTTTTT
20435034 GTGTTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AAAATATTTTTTTT
Found at i:20435031 original size:13 final size:13
Alignment explanation
Indices: 20434989--20435032 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
20434979 TATTTTTTAA
*
20434989 TTTTAAAATACTT
1 TTTTAAAATATTT
**
20435002 TTAAAAAATATTTT
1 TTTTAAAATA-TTT
20435016 TTTTAAAATATTT
1 TTTTAAAATATTT
20435029 TTTT
1 TTTT
20435033 TGTGTTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (13 bp):
TTTTAAAATATTT
Found at i:20435669 original size:14 final size:14
Alignment explanation
Indices: 20435641--20435680 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
20435631 ATATATACGT
*
20435641 ATATGCATATAAAA
1 ATATGTATATAAAA
20435655 ACTATGTATATAAAA
1 A-TATGTATATAAAA
*
20435670 ATATATATATA
1 ATATGTATATA
20435681 CAAGTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (14 bp):
ATATGTATATAAAA
Found at i:20435688 original size:14 final size:14
Alignment explanation
Indices: 20435647--20435691 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
20435637 ACGTATATGC
*
20435647 ATATAAAAACTATGT
1 ATATAAAAA-TATAT
20435662 ATATAAAAATATAT
1 ATATAAAAATATAT
* *
20435676 ATATACAAGTATAT
1 ATATAAAAATATAT
20435690 AT
1 AT
20435692 CTATATTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 18 0.67
15 9 0.33
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (14 bp):
ATATAAAAATATAT
Found at i:20435711 original size:4 final size:4
Alignment explanation
Indices: 20435702--20435728 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
20435692 CTATATTCAT
20435702 GAAA GAAA GAAA GAAA GAAA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAA
20435729 TATGTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:20437171 original size:66 final size:65
Alignment explanation
Indices: 20437084--20437227 Score: 182
Period size: 66 Copynumber: 2.2 Consensus size: 65
20437074 CATCATTTAT
* * * *
20437084 GAGCTTGGAAAGAATCGATATCTCGTTTAGGATCTTGG-GATTGAGAAGACCTAGTATCTCATTC
1 GAGCTTGGGAAGAATCAATATCGCGTTTAGGA-CTTGGAGATTGAGAAGACCTAATATCT-ATTC
20437148 AA
64 AA
* * * *
20437150 GAGCTTGGGAAGACTCAATATCGCGTTTAGGAGTTGGAGATTGAGAAGACCTAATATCTGTTCAG
1 GAGCTTGGGAAGAATCAATATCGCGTTTAGGACTTGGAGATTGAGAAGACCTAATATCTATTCAA
*
20437215 GAGCTTAGGAAGA
1 GAGCTTGGGAAGA
20437228 TCCGATATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
65 20 0.29
66 48 0.71
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (65 bp):
GAGCTTGGGAAGAATCAATATCGCGTTTAGGACTTGGAGATTGAGAAGACCTAATATCTATTCAA
Found at i:20443787 original size:4 final size:4
Alignment explanation
Indices: 20443778--20443805 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
20443768 GTGGGTGATT
20443778 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
20443806 GACATCTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:20444886 original size:21 final size:20
Alignment explanation
Indices: 20444843--20444886 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
20444833 AAATGAATTG
* *
20444843 ATTTACTATTTAAAAGATATA
1 ATTTGCTATTTAATAGAT-TA
20444864 ATTTGCTATTTAATAGAGTTA
1 ATTTGCTATTTAATAGA-TTA
20444885 AT
1 AT
20444887 ATTTTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (20 bp):
ATTTGCTATTTAATAGATTA
Found at i:20462136 original size:110 final size:110
Alignment explanation
Indices: 20461756--20462215 Score: 644
Period size: 109 Copynumber: 4.2 Consensus size: 110
20461746 TAAACGGTCG
* *
20461756 TTCAACCAAATGGTTTAATATCCTTTTAAAAAATTTT-AAAATAAGGCAATGTTTTGCGTTTGGA
1 TTCAACCAAATGGCTAAATATCCTTTT-AAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGA
** *
20461820 AATTCGAGAAAATGTGCCCTAATGTGCTGGGTGTCGATTTTTCTCA
65 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCA
20461866 TTCAACCAAATGGCTAAATATCCTTTTAAAAA-TTTCAAAATAAGGCAATGTTTTGCGTTTGGAA
1 TTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAA
*
20461930 ATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCG
66 ATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCA
* * *
20461975 TTCAACCAAACGGCTTAATATCCTTTTAAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGA
1 TTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTCAAAATAAGGCAATGTTTTGCGTTT-GGA
*
20462040 AATTCGAGAAAACATGCCTTAAGGTGCTGGGTGTCGATTTTTCTCA
65 AATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCA
* * * *
20462086 TTCAACCAAATAGCTAAATATTCTTTT-AAAATTTTCAAAATAAGGTAATGTTTTGCGTTTGAAA
1 TTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAA
* * * * * * *
20462150 ATTTGAG-GAACGTACCCTAAGGTGCTGGGTTTC--TATTTCTCG
66 ATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCA
* * *
20462192 TTTAACCAAATAGCCAAATATCCT
1 TTCAACCAAATGGCTAAATATCCT
20462216 CTCGAATTTC
Statistics
Matches: 318, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
106 28 0.09
108 24 0.08
109 113 0.36
110 83 0.26
111 70 0.22
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (110 bp):
TTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAA
ATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCA
Found at i:20462138 original size:220 final size:216
Alignment explanation
Indices: 20461753--20462201 Score: 691
Period size: 220 Copynumber: 2.1 Consensus size: 216
20461743 AGCTAAACGG
* *
20461753 TCGTTCAACCAAATGGTTTAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTG
1 TCGTTCAACCAAACGGCTTAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTG
** * *
20461818 GAAATTCGAGAAAATGTGCCCTAATGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAA
66 GAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAA
* *
20461883 ATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCC
131 ATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAG-AAACATACCC
*
20461948 TAAGGTGCTGGGTGTCGATTTTTC
195 TAAGGTGCTGGGTGTC--TATTTC
*
20461972 TCGTTCAACCAAACGGCTTAATATCCTTTTAAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTG
1 TCGTTCAACCAAACGGCTTAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGCGTTT-
*
20462037 GGAAATTCGAGAAAACATGCCTTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATAGCTA
65 GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATAGCTA
* * * * * *
20462102 AATATTCTTTTAAAATTTTCAAAATAAGGTAATGTTTTGCGTTTGAAAATTTGAGGAACGTACCC
130 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAACATACCC
*
20462167 TAAGGTGCTGGGTTTCTATTTC
195 TAAGGTGCTGGGTGTCTATTTC
*
20462189 TCGTTTAACCAAA
1 TCGTTCAACCAAA
20462202 TAGCCAAATA
Statistics
Matches: 210, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
217 17 0.08
219 83 0.40
220 110 0.52
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (216 bp):
TCGTTCAACCAAACGGCTTAATATCCTTTTAAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTG
GAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAA
ATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAACATACCCT
AAGGTGCTGGGTGTCTATTTC
Found at i:20462454 original size:51 final size:51
Alignment explanation
Indices: 20462378--20462475 Score: 187
Period size: 51 Copynumber: 1.9 Consensus size: 51
20462368 ACCGACTCCC
20462378 GAACCCGTTTTTCTGAATTTCGTGGACCAAAATCGTTATTTTAATAAGATT
1 GAACCCGTTTTTCTGAATTTCGTGGACCAAAATCGTTATTTTAATAAGATT
*
20462429 GAACCCGTTTTTCTGAATTTCGTGGACCAAAATCGTTGTTTTAATAA
1 GAACCCGTTTTTCTGAATTTCGTGGACCAAAATCGTTATTTTAATAA
20462476 AATTAAATCG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (51 bp):
GAACCCGTTTTTCTGAATTTCGTGGACCAAAATCGTTATTTTAATAAGATT
Found at i:20462920 original size:23 final size:23
Alignment explanation
Indices: 20462887--20462932 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
20462877 AGTTCCAATT
* **
20462887 TTCTTCGTTGAATTTAAATAATC
1 TTCTTCATTGAAACTAAATAATC
20462910 TTCTTCATTGAAACTAAATAATC
1 TTCTTCATTGAAACTAAATAATC
20462933 GAGAATGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (23 bp):
TTCTTCATTGAAACTAAATAATC
Found at i:20463165 original size:98 final size:98
Alignment explanation
Indices: 20463046--20463241 Score: 347
Period size: 98 Copynumber: 2.0 Consensus size: 98
20463036 GAGGATTTTT
* * *
20463046 TCTAAAAAATAATAAAGGCAATATTAAATGTTTAGAATTTTGAGAAATTGTGCCCTAACGTATTG
1 TCTAAAAAATAATAAAGGCAATATTAAAGGTTTAGAATTTTGAGAAATTATGCCCTAACATATTG
20463111 GGCTGCGATTTCTTCATCTGACTTAAACAATTA
66 GGCTGCGATTTCTTCATCTGACTTAAACAATTA
*
20463144 TCTAAAAAATAATAAAGGCAATATTCAAGGTTTAGAATTTTGAGAAATTATGCCCTAACATATTG
1 TCTAAAAAATAATAAAGGCAATATTAAAGGTTTAGAATTTTGAGAAATTATGCCCTAACATATTG
*
20463209 GGCTGCGATTTCTTCATCTGATTTAAACAATTA
66 GGCTGCGATTTCTTCATCTGACTTAAACAATTA
20463242 AATATCCTTT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (98 bp):
TCTAAAAAATAATAAAGGCAATATTAAAGGTTTAGAATTTTGAGAAATTATGCCCTAACATATTG
GGCTGCGATTTCTTCATCTGACTTAAACAATTA
Found at i:20470419 original size:47 final size:48
Alignment explanation
Indices: 20470366--20470460 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 48
20470356 AAAATGATGT
* *
20470366 CAATTTATTTTCATTTGCAGTTTAATTTTAAAT-AAAATAATTATAAA
1 CAATTTATTTTCATTTGCAATTTAACTTTAAATAAAAATAATTATAAA
20470413 CAATTTATTTTCATTTGCAATTTAACTTTAAATAAAAATAATTATAAA
1 CAATTTATTTTCATTTGCAATTTAACTTTAAATAAAAATAATTATAAA
20470461 AACTTTAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 31 0.69
48 14 0.31
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.45
Consensus pattern (48 bp):
CAATTTATTTTCATTTGCAATTTAACTTTAAATAAAAATAATTATAAA
Found at i:20470500 original size:23 final size:21
Alignment explanation
Indices: 20470469--20470512 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
20470459 AAAACTTTAA
*
20470469 AAATATTAACTTTGTTATAAAAT
1 AAATATTAA-TTT-TGATAAAAT
*
20470492 AAATGTTAATTTTGATAAAAT
1 AAATATTAATTTTGATAAAAT
20470513 TTAACCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (21 bp):
AAATATTAATTTTGATAAAAT
Found at i:20471004 original size:31 final size:30
Alignment explanation
Indices: 20470968--20471036 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 30
20470958 GATTAAATAA
*
20470968 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAGTTTCAAGTATATAATTGAACC
* * *
20470998 ACAATTAGAGTTTCACGTATATAATTGCACC
1 A-AATTAAAGTTTCAAGTATATAATTGAACC
20471029 AAATTAAA
1 AAATTAAA
20471037 ATTCATGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 7 0.21
31 26 0.79
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATATAATTGAACC
Found at i:20471041 original size:29 final size:29
Alignment explanation
Indices: 20470968--20471052 Score: 80
Period size: 31 Copynumber: 2.8 Consensus size: 29
20470958 GATTAAATAA
*
20470968 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAA-TTTCAAGTATATAATTGAACC
* * *
20470998 ACAATTAGAGTTTCACGTATATAATTGCACC
1 A-AATTA-AATTTCAAGTATATAATTGAACC
* * *
20471029 AAATTAAAATTCATGTATACAATT
1 AAATTAAATTTCAAGTATATAATT
20471053 ATACATTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
29 14 0.31
30 6 0.13
31 24 0.53
32 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.35
Consensus pattern (29 bp):
AAATTAAATTTCAAGTATATAATTGAACC
Found at i:20473661 original size:30 final size:30
Alignment explanation
Indices: 20473625--20473685 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
20473615 TTTTAATACA
20473625 AAATTTAGAAGTTCATTTTGAATGTGATGT
1 AAATTTAGAAGTTCATTTTGAATGTGATGT
20473655 AAATTTAGAAGTTCATTTTGAATGTGATGT
1 AAATTTAGAAGTTCATTTTGAATGTGATGT
20473685 A
1 A
20473686 GCTATCTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (30 bp):
AAATTTAGAAGTTCATTTTGAATGTGATGT
Found at i:20477743 original size:27 final size:27
Alignment explanation
Indices: 20477713--20477801 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
20477703 ATGATGTTCA
*
20477713 TGGTGTTGGTCATGCAGGTGTTCGTGG
1 TGGTGTTGGTCATGCAAGTGTTCGTGG
*
20477740 TGGTGGTGGTGGTCATGCAAGTGTTCATGG
1 TGGT-GT--TGGTCATGCAAGTGTTCGTGG
* * *
20477770 TGGTGGTGGTCATGCAAGAGTTCGTCG
1 TGGTGTTGGTCATGCAAGTGTTCGTGG
20477797 TGGTG
1 TGGTG
20477802 GTGATCGTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
27 27 0.51
28 2 0.04
29 1 0.02
30 23 0.43
ACGTcount: A:0.11, C:0.11, G:0.44, T:0.34
Consensus pattern (27 bp):
TGGTGTTGGTCATGCAAGTGTTCGTGG
Found at i:20477753 original size:30 final size:29
Alignment explanation
Indices: 20477713--20477804 Score: 116
Period size: 30 Copynumber: 3.2 Consensus size: 29
20477703 ATGATGTTCA
* *
20477713 TGGTGTTGGTCATGCAGGTGTTCGTGGTGG
1 TGGTGGTGGTCATGCAAGTGTTCGT-GTGG
*
20477743 TGGTGGTGGTCATGCAAGTGTTC--ATGG
1 TGGTGGTGGTCATGCAAGTGTTCGTGTGG
*
20477770 TGGTGGTGGTCATGCAAGAGTTCGTCGTGG
1 TGGTGGTGGTCATGCAAGTGTTCGT-GTGG
20477800 TGGTG
1 TGGTG
20477805 ATCGTTCCCG
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
27 25 0.46
30 29 0.54
ACGTcount: A:0.11, C:0.11, G:0.45, T:0.34
Consensus pattern (29 bp):
TGGTGGTGGTCATGCAAGTGTTCGTGTGG
Found at i:20480544 original size:58 final size:58
Alignment explanation
Indices: 20480447--20480594 Score: 176
Period size: 58 Copynumber: 2.5 Consensus size: 58
20480437 CCGAATTTGA
* *
20480447 CATTTTTT-TTCCTAATTTGGTACCTAAACTTGATACTTTTTCCTAAGTTGACACTTAAT
1 CATTTTTTGGTCC-AATTTGGTA-CTCAACTTGATACTTTTTCCTAAGTTGACACTTAAT
*
20480506 C-TTTTTTGGATCCAATTTGGTACTCAACTTGACT-CTTTTTCCTAATTTGACACTTAAT
1 CATTTTTTGG-TCCAATTTGGTACTCAACTTGA-TACTTTTTCCTAAGTTGACACTTAAT
* * *
20480564 CATTTTTTTGTTCTATTTGGTACTTCAACTT
1 CATTTTTTGGTCCAATTTGGTAC-TCAACTT
20480595 ATCAAACATT
Statistics
Matches: 78, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
58 50 0.64
59 25 0.32
60 3 0.04
ACGTcount: A:0.22, C:0.19, G:0.09, T:0.49
Consensus pattern (58 bp):
CATTTTTTGGTCCAATTTGGTACTCAACTTGATACTTTTTCCTAAGTTGACACTTAAT
Found at i:20480852 original size:28 final size:28
Alignment explanation
Indices: 20480713--20480852 Score: 120
Period size: 29 Copynumber: 4.9 Consensus size: 28
20480703 ATTTAATAAA
*
20480713 TTTAGGTACCAAATT-GAACCTAAAAAAAG
1 TTTAGGTACCAAATTAGAA--AAAAAAAAG
* *
20480742 TTTAAGTACCAAATTAGGAAAAAAACCAAG
1 TTTAGGTACCAAATTA-GAAAAAAA-AAAG
***
20480772 TTTAGGTACCAAATTAAGAAAAACTGAAG
1 TTTAGGTACCAAATT-AGAAAAAAAAAAG
* * ***
20480801 TTTAGGTACCAATTTGGGCCAAAAAAAG
1 TTTAGGTACCAAATTAGAAAAAAAAAAG
*
20480829 TTTAGGTACGAAATTAGAAAAAAA
1 TTTAGGTACCAAATTAGAAAAAAA
20480853 TGTCAAGTTC
Statistics
Matches: 86, Mismatches: 21, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
28 24 0.28
29 35 0.41
30 23 0.27
31 4 0.05
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (28 bp):
TTTAGGTACCAAATTAGAAAAAAAAAAG
Found at i:20480869 original size:88 final size:88
Alignment explanation
Indices: 20480713--20480873 Score: 218
Period size: 88 Copynumber: 1.8 Consensus size: 88
20480703 ATTTAATAAA
* *
20480713 TTTAGGTACCAAATTGAACCTAAAAAAAGTTTAAGTACCAAATTAGGAAAAAAACCAAGTTTAGG
1 TTTAGGTACCAAATTGAACCTAAAAAAAGTTTAAGTACCAAATTAGGAAAAAAACCAAGTTCAAG
20480778 TACCAAATTAAGAAAAACTGAAG
66 TACCAAATTAAGAAAAACTGAAG
* ** * * *
20480801 TTTAGGTACCAATTTGGGCC-AAAAAAAGTTTAGGTACGAAATTA-GAAAAAAATGTCAAGTTCA
1 TTTAGGTACCAAATTGAACCTAAAAAAAGTTTAAGTACCAAATTAGGAAAAAAA--CCAAGTTCA
20480864 AGTACCAAAT
64 AGTACCAAAT
20480874 GTTATATTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
86 8 0.13
87 22 0.35
88 33 0.52
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.24
Consensus pattern (88 bp):
TTTAGGTACCAAATTGAACCTAAAAAAAGTTTAAGTACCAAATTAGGAAAAAAACCAAGTTCAAG
TACCAAATTAAGAAAAACTGAAG
Found at i:20486062 original size:7 final size:7
Alignment explanation
Indices: 20486050--20486074 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20486040 AACGCTACTC
20486050 AGATGGT
1 AGATGGT
20486057 AGATGGT
1 AGATGGT
20486064 AGATGGT
1 AGATGGT
20486071 AGAT
1 AGAT
20486075 TTGATGGAGG
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:0.32, C:0.00, G:0.40, T:0.28
Consensus pattern (7 bp):
AGATGGT
Found at i:20489758 original size:21 final size:21
Alignment explanation
Indices: 20489732--20489772 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20489722 AGACGAGCAA
* *
20489732 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
20489753 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
20489773 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:20492553 original size:36 final size:36
Alignment explanation
Indices: 20492512--20492584 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
20492502 GGTGTTGCAT
20492512 ACTGGTATGGATATTTTAGACTTAAATTCAAATAAA
1 ACTGGTATGGATATTTTAGACTTAAATTCAAATAAA
20492548 ACTGGTATGGATATTTTAGACTTAAATTCAAATAAA
1 ACTGGTATGGATATTTTAGACTTAAATTCAAATAAA
20492584 A
1 A
20492585 TTCCAACTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (36 bp):
ACTGGTATGGATATTTTAGACTTAAATTCAAATAAA
Found at i:20494036 original size:18 final size:18
Alignment explanation
Indices: 20494015--20494063 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
20494005 TTTAAAAGAT
20494015 AAAAGGAAAAAAATTAGA
1 AAAAGGAAAAAAATTAGA
* ** **
20494033 AAAATGAAATTAATTCTA
1 AAAAGGAAAAAAATTAGA
20494051 AAAAGGAAAAAAA
1 AAAAGGAAAAAAA
20494064 AATAAAGGGA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.69, C:0.02, G:0.12, T:0.16
Consensus pattern (18 bp):
AAAAGGAAAAAAATTAGA
Found at i:20494451 original size:29 final size:30
Alignment explanation
Indices: 20494396--20494461 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
20494386 ATCTCAAAAT
* *
20494396 TATACGTGAACTTTGATTTAATGTGCAATTG
1 TATACATGAACTTTAATTTAATGTGCAA-TG
20494427 TATACATGAACTTTAATTT-A-GTGCAATG
1 TATACATGAACTTTAATTTAATGTGCAATG
20494455 -ATACATG
1 TATACATG
20494462 TGAAACTCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 7 0.21
28 2 0.06
29 6 0.18
30 1 0.03
31 17 0.52
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAATGTGCAATG
Found at i:20494465 original size:29 final size:30
Alignment explanation
Indices: 20494396--20494490 Score: 81
Period size: 31 Copynumber: 3.1 Consensus size: 30
20494386 ATCTCAAAAT
*
20494396 TATAC-GTGAACTTTGATTTAATGTGCAATTG
1 TATACAGTGAACTTTAATTT-A-GTGCAATTG
20494427 TATACA-TGAACTTTAATTTAGTGCAA-TG
1 TATACAGTGAACTTTAATTTAGTGCAATTG
* * *
20494455 -ATACATGTGAAACTCTAATTGTAGTTCAAATG
1 TATACA-GTG-AACTTTAATT-TAGTGCAATTG
20494487 TATA
1 TATA
20494491 TTTAAAACTT
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
27 5 0.09
28 2 0.04
29 8 0.15
30 10 0.19
31 24 0.44
32 2 0.04
33 3 0.06
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.39
Consensus pattern (30 bp):
TATACAGTGAACTTTAATTTAGTGCAATTG
Found at i:20498980 original size:21 final size:22
Alignment explanation
Indices: 20498954--20499000 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
20498944 CTCTGCTCAA
*
20498954 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
20498975 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
20498997 ACTC
1 ACTC
20499001 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:20510197 original size:42 final size:42
Alignment explanation
Indices: 20510149--20510258 Score: 154
Period size: 42 Copynumber: 2.6 Consensus size: 42
20510139 CATAGTTCAA
* *
20510149 CTATGGTCTTACACATCTTCACATA-CTGATGCCATAGCCCGG
1 CTATGGTCTTACACATATTCACATATC-GATGCCATAGCCCAG
*
20510191 CTATGGTCTTACACATATTCATATATCGATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACATATCGATGCCATAGCCCAG
20510233 CTATGGTCTTACACGA-A-TCACATATC
1 CTATGGTCTTACAC-ATATTCACATATC
20510259 TCATTGATGC
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
41 8 0.13
42 52 0.84
43 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (42 bp):
CTATGGTCTTACACATATTCACATATCGATGCCATAGCCCAG
Found at i:20510361 original size:31 final size:31
Alignment explanation
Indices: 20510318--20510497 Score: 274
Period size: 31 Copynumber: 5.8 Consensus size: 31
20510308 CTTGTCACTT
*
20510318 GTAGCCGAAGCTACCACTATTT-ATTGATCAG
1 GTAGCCGAAGCTACCACT-TTTCACTGATCAG
* *
20510349 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
20510380 GTAGCCGAAGCTACCACTTTTTACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
20510411 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
20510442 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
20510473 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
20510498 TGTCATTTGT
Statistics
Matches: 137, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
30 6 0.04
31 128 0.93
32 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:20517058 original size:40 final size:40
Alignment explanation
Indices: 20516969--20517048 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
20516959 AACAAGTGAC
* **
20516969 CAGCAACAGCTCATCAAGCAGACCAACATTTTTTGCTGAA
1 CAGCAGCAGCTCATCAAGCAGACCAACATTTGGTGCTGAA
*
20517009 CAGCAGCAGCTCATCAAGCAGACCAGCA-TTGGTGCTGAA
1 CAGCAGCAGCTCATCAAGCAGACCAACATTTGGTGCTGAA
20517048 C
1 C
20517049 CGAGTGCAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 10 0.28
40 26 0.72
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.19
Consensus pattern (40 bp):
CAGCAGCAGCTCATCAAGCAGACCAACATTTGGTGCTGAA
Found at i:20517398 original size:12 final size:11
Alignment explanation
Indices: 20517374--20517407 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
20517364 CTTCAGTTCT
20517374 TTTTGTTTTGC
1 TTTTGTTTTGC
20517385 TTTTGTTTTAGC
1 TTTTGTTTT-GC
20517397 -TTTGTTTTGC
1 TTTTGTTTTGC
20517407 T
1 T
20517408 GCATTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 2 0.10
11 17 0.81
12 2 0.10
ACGTcount: A:0.03, C:0.09, G:0.18, T:0.71
Consensus pattern (11 bp):
TTTTGTTTTGC
Found at i:20520732 original size:23 final size:22
Alignment explanation
Indices: 20520694--20520754 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
20520684 GACACATAAA
*
20520694 GTGCCT-AAAACGACACACGAG
1 GTGCCTGAATACGACACACGAG
20520715 GTGCCTG-ATACGACACACGAG
1 GTGCCTGAATACGACACACGAG
20520736 GTGCCTGAAATACGACACA
1 GTGCCTG-AATACGACACA
20520755 TAAAGTGCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 26 0.72
23 10 0.28
ACGTcount: A:0.34, C:0.28, G:0.25, T:0.13
Consensus pattern (22 bp):
GTGCCTGAATACGACACACGAG
Found at i:20520762 original size:23 final size:23
Alignment explanation
Indices: 20520682--20520766 Score: 88
Period size: 21 Copynumber: 3.9 Consensus size: 23
20520672 TGATCAGTAC
*
20520682 ACGACACATAAAGTGCCT-AAA-
1 ACGACACACAAAGTGCCTGAAAT
* *
20520703 ACGACACACGAGGTGCCTG--AT
1 ACGACACACAAAGTGCCTGAAAT
* *
20520724 ACGACACACGAGGTGCCTGAAAT
1 ACGACACACAAAGTGCCTGAAAT
*
20520747 ACGACACATAAAGTGCCTGA
1 ACGACACACAAAGTGCCTGA
20520767 TCGGTAAAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
23 19 0.35
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.14
Consensus pattern (23 bp):
ACGACACACAAAGTGCCTGAAAT
Found at i:20523360 original size:35 final size:35
Alignment explanation
Indices: 20523260--20523490 Score: 268
Period size: 35 Copynumber: 6.6 Consensus size: 35
20523250 TCCTTATTGA
* *
20523260 AATACCATACCTACATTTCACAACTTGGTATGG-T
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
** * ** *
20523294 AAATGTCATACCTATG-TTCTTAACTCAGTATGGAT
1 -AATACCATACCTACGTTTCACAACTCGGTATGGAT
20523329 AATACCATACCTACGTTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* * * * *
20523364 GATTCTATACCTACGTTTCACAACTTGGTATGGTT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
*
20523399 AATACCATACTTACGTTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* * *
20523434 GATATCATACCTACATTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* *
20523469 GATACCATACCTATGTTTCACA
1 AATACCATACCTACGTTTCACA
20523491 CTTTGCCATG
Statistics
Matches: 162, Mismatches: 32, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
34 25 0.15
35 137 0.85
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCGGTATGGAT
Found at i:20523416 original size:70 final size:70
Alignment explanation
Indices: 20523260--20523490 Score: 297
Period size: 70 Copynumber: 3.3 Consensus size: 70
20523250 TCCTTATTGA
* * * * * ** *
20523260 AATACCATACCTACATTTCACAACTTGGTATGG-TAAATGTCATACCTATG-TTCTTAACTCAGT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT-GATATCATACCTACGTTTCACAACTCGGT
20523323 ATGGAT
65 ATGGAT
*
20523329 AATACCATACCTACGTTTCACAACTCGGTATGGATGAT-TCTATACCTACGTTTCACAACTTGGT
1 AATACCATACCTACGTTTCACAACTCGGTATGGATGATATC-ATACCTACGTTTCACAACTCGGT
*
20523393 ATGGTT
65 ATGGAT
* *
20523399 AATACCATACTTACGTTTCACAACTCGGTATGGATGATATCATACCTACATTTCACAACTCGGTA
1 AATACCATACCTACGTTTCACAACTCGGTATGGATGATATCATACCTACGTTTCACAACTCGGTA
20523464 TGGAT
66 TGGAT
* *
20523469 GATACCATACCTATGTTTCACA
1 AATACCATACCTACGTTTCACA
20523491 CTTTGCCATG
Statistics
Matches: 142, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
68 2 0.01
69 41 0.29
70 97 0.68
71 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (70 bp):
AATACCATACCTACGTTTCACAACTCGGTATGGATGATATCATACCTACGTTTCACAACTCGGTA
TGGAT
Found at i:20523458 original size:105 final size:104
Alignment explanation
Indices: 20523261--20523490 Score: 316
Period size: 105 Copynumber: 2.2 Consensus size: 104
20523251 CCTTATTGAA
* ** * **
20523261 ATACCATACCTACATTTCACAACTTGGTATGGTAAATGTCATACCTATGTTCTTAACTCAGTATG
1 ATACCATACCTACGTTTCACAACTTGGTATGGTAAATACCATACCTACGTTCACAACTCAGTATG
*
20523326 GATAATACCATACCTACGTTTCACAACTCGGTATGGATG
66 GATAATACCATACCTACATTTCACAACTCGGTATGGATG
* * * * *
20523365 ATTCTATACCTACGTTTCACAACTTGGTATGGTTAATACCATACTTACGTTTCACAACTCGGTAT
1 ATACCATACCTACGTTTCACAACTTGGTATGGTAAATACCATACCTACG-TTCACAACTCAGTAT
* *
20523430 GGATGATATCATACCTACATTTCACAACTCGGTATGGATG
65 GGATAATACCATACCTACATTTCACAACTCGGTATGGATG
*
20523470 ATACCATACCTATGTTTCACA
1 ATACCATACCTACGTTTCACA
20523491 CTTTGCCATG
Statistics
Matches: 108, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
104 41 0.38
105 67 0.62
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (104 bp):
ATACCATACCTACGTTTCACAACTTGGTATGGTAAATACCATACCTACGTTCACAACTCAGTATG
GATAATACCATACCTACATTTCACAACTCGGTATGGATG
Found at i:20527539 original size:12 final size:11
Alignment explanation
Indices: 20527515--20527548 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
20527505 CTTTAGTTAT
20527515 TTTTGTTTTGC
1 TTTTGTTTTGC
20527526 TTTTGTTTTAGC
1 TTTTGTTTT-GC
20527538 -TTTGTTTTGC
1 TTTTGTTTTGC
20527548 T
1 T
20527549 ACTTTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 2 0.10
11 17 0.81
12 2 0.10
ACGTcount: A:0.03, C:0.09, G:0.18, T:0.71
Consensus pattern (11 bp):
TTTTGTTTTGC
Found at i:20528979 original size:53 final size:53
Alignment explanation
Indices: 20528913--20529021 Score: 193
Period size: 53 Copynumber: 2.1 Consensus size: 53
20528903 TTTTGGCTTA
*
20528913 GTTTGTTTGCACAAAACGCACCGTTTTAAGTAACCGTTGCCAGGCTGTTAAGG
1 GTTTGTTTGCACAAAACGCACCGTTTTAAGTAACCATTGCCAGGCTGTTAAGG
20528966 GTTT-TTTCGCACAAAACGCACCGTTTTAAGTAACCATTGCCAGGCTGTTAAGG
1 GTTTGTTT-GCACAAAACGCACCGTTTTAAGTAACCATTGCCAGGCTGTTAAGG
20529019 GTT
1 GTT
20529022 GTTATTCTCT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
52 3 0.06
53 51 0.94
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (53 bp):
GTTTGTTTGCACAAAACGCACCGTTTTAAGTAACCATTGCCAGGCTGTTAAGG
Found at i:20529950 original size:15 final size:15
Alignment explanation
Indices: 20529932--20529962 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20529922 TATCATTTTA
20529932 AGCACTAAATTGAAT
1 AGCACTAAATTGAAT
20529947 AGCACTAAATTGAAT
1 AGCACTAAATTGAAT
20529962 A
1 A
20529963 ATTAACTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (15 bp):
AGCACTAAATTGAAT
Found at i:20537590 original size:21 final size:21
Alignment explanation
Indices: 20537564--20537607 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
20537554 ATTTAATGAG
*
20537564 CTATGTGAATGGGATAAGACT
1 CTATGTGAATAGGATAAGACT
* *
20537585 CTATGTGATTAGGATAGGACT
1 CTATGTGAATAGGATAAGACT
20537606 CT
1 CT
20537608 TAGTGTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (21 bp):
CTATGTGAATAGGATAAGACT
Found at i:20542866 original size:19 final size:19
Alignment explanation
Indices: 20542815--20542886 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
20542805 AAATTACAAA
* *
20542815 AAAAAATCAAAATAATTTTC
1 AAAAATTCAAAAT-ATTTTT
** *
20542835 AAATTTTCCAAATATTTTT
1 AAAAATTCAAAATATTTTT
*
20542854 TAAAATTCAAAAT-TTTTAT
1 AAAAATTCAAAATATTTT-T
20542873 AAAAATTTCAAAAT
1 AAAAA-TTCAAAAT
20542887 TTATATTTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
18 4 0.10
19 19 0.47
20 17 0.43
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTCAAAATATTTTT
Found at i:20542884 original size:20 final size:17
Alignment explanation
Indices: 20542843--20542888 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
20542833 TCAAATTTTC
20542843 CAAATATTTTTTAAAATT
1 CAAA-ATTTTTTAAAATT
20542861 CAAAATTTTTATAAAAATTT
1 CAAAATTTTT-T-AAAA-TT
20542881 CAAAATTT
1 CAAAATTT
20542889 ATATTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 4 0.16
20 10 0.40
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (17 bp):
CAAAATTTTTTAAAATT
Found at i:20542885 original size:27 final size:27
Alignment explanation
Indices: 20542855--20542915 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
20542845 AATATTTTTT
*
20542855 AAAATTCAAAATTTTTATAAAAATT-TC
1 AAAATTCAAAATTTTTA-AAAAATTATA
* * *
20542882 AAAATTTATATTTTTTAAAAAATTATA
1 AAAATTCAAAATTTTTAAAAAATTATA
20542909 AAAATTC
1 AAAATTC
20542916 TAAGAAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (27 bp):
AAAATTCAAAATTTTTAAAAAATTATA
Found at i:20544436 original size:13 final size:13
Alignment explanation
Indices: 20544418--20544442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20544408 TTTAATTAAT
20544418 ATTAATTAAATCA
1 ATTAATTAAATCA
20544431 ATTAATTAAATC
1 ATTAATTAAATC
20544443 TCAATCTAAA
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTAATTAAATCA
Found at i:20546413 original size:27 final size:26
Alignment explanation
Indices: 20546365--20546458 Score: 98
Period size: 26 Copynumber: 3.6 Consensus size: 26
20546355 AAAGTAAACA
*
20546365 ATAAAACAATTTAAAATGAATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
**
20546391 ATAAAACAAGTTTAAAATAAATAATGT
1 ATAAAACAA-TTTAAAATAAATAATAC
* * *
20546418 ATAAAGCATTTTAAAATCAATAATAC
1 ATAAAACAATTTAAAATAAATAATAC
* * *
20546444 ACAAAGCAAATTAAA
1 ATAAAACAATTTAAA
20546459 GAATGACATA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 35 0.62
27 21 0.38
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.27
Consensus pattern (26 bp):
ATAAAACAATTTAAAATAAATAATAC
Found at i:20546527 original size:26 final size:26
Alignment explanation
Indices: 20546479--20546528 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
20546469 TATGAATAGT
*
20546479 TTTAAAATAAATAATATATAAGTTAA
1 TTTAAAATAAATAATATAGAAGTTAA
*
20546505 TTTAAAAGTAATTAATA-AGAAGTT
1 TTTAAAA-TAAATAATATAGAAGTT
20546529 TAGAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (26 bp):
TTTAAAATAAATAATATAGAAGTTAA
Found at i:20548477 original size:4 final size:4
Alignment explanation
Indices: 20548468--20548506 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
20548458 GAACAATTTC
20548468 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
20548507 AGCACATAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:20550734 original size:12 final size:12
Alignment explanation
Indices: 20550709--20550742 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
20550699 ATGCTATAAG
20550709 TATTAAATTTTAA
1 TATTAAA-TTTAA
20550722 TATTAAATTTAA
1 TATTAAATTTAA
20550734 TATTAAATT
1 TATTAAATT
20550743 ATTTTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TATTAAATTTAA
Found at i:20550918 original size:25 final size:23
Alignment explanation
Indices: 20550876--20550921 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
20550866 TTAATGTTAA
*
20550876 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
20550899 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
20550922 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:20552184 original size:2 final size:2
Alignment explanation
Indices: 20552177--20552202 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20552167 ATGATGGATA
20552177 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
20552203 TTTCCCCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Done.