Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 66 of 292
Found at i:19817332 original size:39 final size:39
Alignment explanation
Indices: 19817251--19817441 Score: 319
Period size: 39 Copynumber: 4.9 Consensus size: 39
19817241 TATGGTAACC
* * * *
19817251 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
19817291 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
19817330 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
19817369 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
19817408 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
19817442 CTCGAACATT
Statistics
Matches: 143, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 126 0.88
40 17 0.12
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:19824789 original size:40 final size:39
Alignment explanation
Indices: 19824745--19824913 Score: 212
Period size: 39 Copynumber: 4.3 Consensus size: 39
19824735 GTTCAAAACA
* * ** * *
19824745 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
19824785 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
19824825 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
19824864 CCTTCGGGCTTAGCCCGGATATCACAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
19824903 CCTTCGGGCTT
1 CCTTCGGGCTT
19824914 TGTGACACCC
Statistics
Matches: 115, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 75 0.65
40 40 0.35
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:19824856 original size:39 final size:39
Alignment explanation
Indices: 19824775--19824913 Score: 224
Period size: 39 Copynumber: 3.5 Consensus size: 39
19824765 TATGGTAACC
* * *
19824775 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAGCT
* *
19824815 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAGCT
19824854 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAGCT
19824893 CGCACAATTGCCTTCGGGCTT
1 CGCACAATTGCCTTCGGGCTT
19824914 TGTGACACCC
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 75 0.82
40 17 0.18
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAGCT
Found at i:19826660 original size:40 final size:40
Alignment explanation
Indices: 19826594--19826744 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
19826584 AAATTGAATG
* * *
19826594 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
19826633 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
19826673 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
19826713 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
19826745 ACGTGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:19826758 original size:40 final size:40
Alignment explanation
Indices: 19826631--19826760 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
19826621 ATGCTGGAAA
* * *
19826631 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
19826671 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
19826711 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
19826751 TTATATCCGG
1 TTATATCCGG
19826761 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:19829554 original size:40 final size:40
Alignment explanation
Indices: 19829362--19829547 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
19829352 TCGAATGATG
* * *
19829362 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
19829402 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19829442 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19829482 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19829523 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19829548 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19829554 original size:80 final size:80
Alignment explanation
Indices: 19829362--19829580 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 80
19829352 TCGAATGATG
* * **
19829362 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
19829426 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
19829442 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
*
19829505 TTGTGCGAGTTACTATAA
64 TCGTGCGAGTTACTA-AA
* **
19829523 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
19829581 TACGTGATTC
Statistics
Matches: 119, Mismatches: 12, Indels: 17
0.80 0.08 0.11
Matches are distributed among these distances:
79 17 0.14
80 92 0.77
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:19836900 original size:42 final size:42
Alignment explanation
Indices: 19836839--19836944 Score: 187
Period size: 42 Copynumber: 2.5 Consensus size: 42
19836829 TATTGGTCTC
19836839 GGCACTAAGTGTGC-GGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
19836880 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
19836922 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
19836945 ATTGTACAGC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
41 14 0.23
42 48 0.77
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.23
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:19837009 original size:27 final size:28
Alignment explanation
Indices: 19836952--19837021 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
19836942 AAAATTGTAC
**
19836952 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
19836980 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
19837007 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
19837022 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:19850021 original size:40 final size:40
Alignment explanation
Indices: 19849936--19850086 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
19849926 AATTGAATGA
* * *
19849936 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
19849976 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
19850017 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
19850056 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
19850087 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:19850100 original size:40 final size:40
Alignment explanation
Indices: 19849972--19850102 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
19849962 TATGCTGGAA
* * *
19849972 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
19850012 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
19850052 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
19850092 ATTATATCCGG
1 ATTATATCCGG
19850103 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:19858025 original size:40 final size:40
Alignment explanation
Indices: 19857940--19858090 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
19857930 AATTGAATGA
* * *
19857940 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
19857980 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
19858021 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
19858060 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
19858091 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:19858104 original size:40 final size:40
Alignment explanation
Indices: 19857976--19858106 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
19857966 TATGCTGGAA
* * *
19857976 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
19858016 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
19858056 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
19858096 ATTATATCCGG
1 ATTATATCCGG
19858107 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:19859506 original size:22 final size:23
Alignment explanation
Indices: 19859478--19859521 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
19859468 TTATCCCCAC
*
19859478 ATGGAGTGTAAGGT-TGGATGGA
1 ATGGAGTGTAAAGTATGGATGGA
19859500 ATGGAGTGTAAAGTATGGATGG
1 ATGGAGTGTAAAGTATGGATGG
19859522 GTAGGATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.43, T:0.27
Consensus pattern (23 bp):
ATGGAGTGTAAAGTATGGATGGA
Found at i:19859641 original size:34 final size:34
Alignment explanation
Indices: 19859543--19859646 Score: 108
Period size: 34 Copynumber: 3.1 Consensus size: 34
19859533 TTATGCATTT
*
19859543 CTGATACTGTACTGAAATGGGC-TAAGGCCCACA
1 CTGATACTGTACTGATATGGGCTTAAGGCCCACA
* *
19859576 CTGATACTGTTACTG-TGTTAGG-TTAAGGCCCACA
1 CTGATACTG-TACTGAT-ATGGGCTTAAGGCCCACA
* *
19859610 CTGATACTGCAACTGATATGGGCTTAA-GCCCAGA
1 CTGATACTG-TACTGATATGGGCTTAAGGCCCACA
19859644 CTG
1 CTG
19859647 TTCAACACTG
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
33 9 0.16
34 44 0.76
35 5 0.09
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (34 bp):
CTGATACTGTACTGATATGGGCTTAAGGCCCACA
Found at i:19861016 original size:45 final size:45
Alignment explanation
Indices: 19860921--19861085 Score: 233
Period size: 45 Copynumber: 3.7 Consensus size: 45
19860911 AGGATTATGC
* * *
19860921 TATGTGTTTTCGTGTAAGACCATGT-TTGGACGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTAGGATGTTGGCATCGATA
* *
19860965 TATGTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTAGGATGTTGGCATCGATA
*
19861010 TATGTGTTTTCGTGTAAGACCACGTCTAGGATGTCGGCATCGATA
1 TATGTGTTTTCGTGTAAGACCACGTCTAGGATGTTGGCATCGATA
* * * *
19861055 TATGTGGTTACGAGTAAGACCATGTCTAGGA
1 TATGTGTTTTCGTGTAAGACCACGTCTAGGA
19861086 CATCAGCATC
Statistics
Matches: 109, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 23 0.21
45 86 0.79
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (45 bp):
TATGTGTTTTCGTGTAAGACCACGTCTAGGATGTTGGCATCGATA
Found at i:19863098 original size:27 final size:26
Alignment explanation
Indices: 19863054--19863105 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
19863044 CTCACTGCAA
*
19863054 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
19863081 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
19863106 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:19863107 original size:21 final size:21
Alignment explanation
Indices: 19863081--19863146 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
19863071 ATATATCTGT
19863081 TCTGGTGACTTCGTCACAATA
1 TCTGGTGACTTCGTCACAATA
* *
19863102 TCTGGT-AGCCTCG-CTGC-A-A
1 TCTGGTGA-CTTCGTC-ACAATA
*
19863121 TCTGGTGGCTTCGTCACAATA
1 TCTGGTGACTTCGTCACAATA
19863142 TCTGG
1 TCTGG
19863147 CAACCTCGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
19 12 0.35
20 5 0.15
21 17 0.50
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (21 bp):
TCTGGTGACTTCGTCACAATA
Found at i:19863136 original size:40 final size:40
Alignment explanation
Indices: 19863081--19863161 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
19863071 ATATATCTGT
* * *
19863081 TCTGGTGACTTCGTCACAATATCTGGTAGCCTCGCTGCAA
1 TCTGGTGACTTCGTCACAATATCTGGCAACCTCGCTACAA
*
19863121 TCTGGTGGCTTCGTCACAATATCTGGCAACCTCGCTACAA
1 TCTGGTGACTTCGTCACAATATCTGGCAACCTCGCTACAA
19863161 T
1 T
19863162 TTCTGTGGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TCTGGTGACTTCGTCACAATATCTGGCAACCTCGCTACAA
Found at i:19863140 original size:19 final size:19
Alignment explanation
Indices: 19863081--19863140 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 19
19863071 ATATATCTGT
*
19863081 TCTGGTGACTTCGTCACAATA
1 TCTGGTGGCTTCGTCAC-A-A
* * *
19863102 TCTGGTAGCCTCG-CTGCAA
1 TCTGGTGGCTTCGTC-ACAA
19863121 TCTGGTGGCTTCGTCACAA
1 TCTGGTGGCTTCGTCACAA
19863140 T
1 T
19863141 ATCTGGCAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
19 16 0.53
20 3 0.10
21 11 0.37
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (19 bp):
TCTGGTGGCTTCGTCACAA
Found at i:19870284 original size:27 final size:26
Alignment explanation
Indices: 19870240--19870291 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
19870230 CTCGCTGCAA
*
19870240 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
19870267 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
19870292 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:19870390 original size:27 final size:26
Alignment explanation
Indices: 19870338--19870397 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
19870328 ATATATATAT
*
19870338 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
19870364 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
19870391 ATATCTG
1 ATATCTG
19870398 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:19876799 original size:43 final size:42
Alignment explanation
Indices: 19876738--19876886 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 42
19876728 AATGCTAACA
* *
19876738 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAATCAAATAT-GATGCCACTG
* * * * *
19876781 TCCCAGACAAGGTCTTACACGAAATCATATATGATGCCAATA
1 TCCCAGACATGGTCTTACACGTAATCAAATATGATGCCACTG
*
19876823 TCCTAGACATGGTCTTACACGTAAATCACAA-ATTGATGCCAAC-G
1 TCCCAGACATGGTCTTACACGT-AATCA-AATA-TGATGCC-ACTG
* *
19876867 TCCCAAACGTGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
19876887 AATAACACAT
Statistics
Matches: 86, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 27 0.31
43 33 0.38
44 25 0.29
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGTAATCAAATATGATGCCACTG
Found at i:19880201 original size:40 final size:40
Alignment explanation
Indices: 19880152--19880299 Score: 212
Period size: 40 Copynumber: 3.7 Consensus size: 40
19880142 ATCACGATTT
*
19880152 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
19880192 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
* *
19880232 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTC
*
19880272 GCAC-AATTGCCTTCGGGTCTTAACCCGG
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGG
19880300 TTATAATTTC
Statistics
Matches: 101, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 96 0.95
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
Found at i:19880283 original size:80 final size:80
Alignment explanation
Indices: 19880120--19880299 Score: 213
Period size: 80 Copynumber: 2.2 Consensus size: 80
19880110 CCGCACCAAG
* * ** * * *
19880120 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGA
1 GCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAGA
*
19880185 ATGACTCGCACGAAT
66 ATGACTAGCACGAAT
* * *
19880200 GCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GT
1 GCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAGA
19880264 A-GCCACTAGCAC-AATT
66 ATG--ACTAGCACGAA-T
19880280 GCCTTCGGGTCTTAACCCGG
1 GCCTTCGGGTCTTAACCCGG
19880300 TTATAATTTC
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 4 0.05
80 80 0.94
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (80 bp):
GCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAGA
ATGACTAGCACGAAT
Found at i:19891527 original size:28 final size:28
Alignment explanation
Indices: 19891466--19891563 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
19891456 TCACAAATTG
** * *
19891466 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
19891495 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
19891523 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
19891551 GCACTAAGTGTGC
1 GCACTAAGTGTGC
19891564 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:19903838 original size:28 final size:28
Alignment explanation
Indices: 19903777--19903874 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
19903767 TCACAAATTG
** * *
19903777 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
19903806 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
19903834 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
19903862 GCACTAAGTGTGC
1 GCACTAAGTGTGC
19903875 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:19906730 original size:40 final size:39
Alignment explanation
Indices: 19906666--19906993 Score: 333
Period size: 40 Copynumber: 8.2 Consensus size: 39
19906656 TCATCGGAAT
* **
19906666 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAA-TGCCTTCGGGTC
* * *** *
19906705 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
19906745 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
* *
19906785 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAT-
1 TTAGCCCGGATATAA-CAACTCGCA-CAATGCCTTCGGG-TC
*
19906825 TTAGCCCGGGTATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
* * *
19906865 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTC
*
19906905 TTAGCCCGGGTATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
* * *
19906945 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTC
*
19906985 ATAGCCCGG
1 TTAGCCCGG
19906994 GTATCATTCA
Statistics
Matches: 242, Mismatches: 33, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
39 6 0.02
40 230 0.95
41 6 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTC
Found at i:19906895 original size:120 final size:121
Alignment explanation
Indices: 19906666--19906993 Score: 382
Period size: 120 Copynumber: 2.7 Consensus size: 121
19906656 TCATCGGAAT
* * * * * ** *
19906666 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT-AACTTGCA
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCAACTAGCA
* * *
19906729 CAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
66 CAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGAC
* * *
19906785 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAT-TTAGCCCGGGTATAA-CAACTCG
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGG-TCTTAGCCCGGATATAATCAACTAG
* *
19906847 CACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
64 CACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGAC
* * *
19906905 TTAGCCCGGGTATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCA
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCAACTAGCA
* * *
19906969 TAAATGCCTTCGGGACATAGCCCGG
66 CAAATGCCTTCGGGTCTTAGCCCGG
19906994 GTATCATTCA
Statistics
Matches: 177, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
119 6 0.03
120 167 0.94
121 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (121 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCAACTAGCA
CAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGAC
Found at i:19906994 original size:80 final size:80
Alignment explanation
Indices: 19906693--19906997 Score: 511
Period size: 80 Copynumber: 3.8 Consensus size: 80
19906683 CAAGCACAAT
* * ** * * * * *
19906693 TGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
19906758 AACAACTCGCACGAA
66 AACAACTCGCACGAA
*
19906773 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGATTTAGCCCGGGTAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
19906838 AACAACTCGCACGAA
66 AACAACTCGCACGAA
19906853 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
19906918 AACAACTCGCACGAA
66 AACAACTCGCACGAA
*
19906933 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGGTAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
19906998 CATTCAAATG
Statistics
Matches: 213, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 213 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
AACAACTCGCACGAA
Found at i:19911653 original size:47 final size:47
Alignment explanation
Indices: 19911595--19912220 Score: 1027
Period size: 47 Copynumber: 13.3 Consensus size: 47
19911585 GTATGAGATA
* *
19911595 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
19911642 CATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
19911689 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
19911736 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
19911783 TATATATGTGAGAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
19911830 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
19911877 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
19911924 TATATATGTTACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
19911971 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
19912018 CATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
19912065 TATATATGTGACAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
19912112 CATATATGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
19912159 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
19912206 TATAAATGTGATAAG
1 TATATATGTGATAAG
19912221 TCCCGAAGGG
Statistics
Matches: 544, Mismatches: 35, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 544 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:19912397 original size:37 final size:37
Alignment explanation
Indices: 19912341--19912420 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
19912331 AGCTCTAAAC
* *
19912341 ACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAG
1 ACCCGATGACCACGGGTGGAGATTATGTCCGGGTAAG
*
19912378 ACCCGATGACCACGGGTGGAGATTTTGTCCGGGTAAG
1 ACCCGATGACCACGGGTGGAGATTATGTCCGGGTAAG
*
19912415 CCCCGA
1 ACCCGA
19912421 ACTAAAGGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.23, C:0.24, G:0.33, T:0.21
Consensus pattern (37 bp):
ACCCGATGACCACGGGTGGAGATTATGTCCGGGTAAG
Found at i:19915634 original size:46 final size:44
Alignment explanation
Indices: 19915570--19915747 Score: 119
Period size: 46 Copynumber: 3.9 Consensus size: 44
19915560 GGAATCAGCA
*
19915570 TTGAGACGAGAGCAAGTGTAAGACATGTTTGGGACATGCATTGGCC
1 TTGAGACGAGAGCTAGTGTAAGACATGTTTGGGACATGCATT-G-C
* * *
19915616 TTGAGACGTA-AGCTAGTGTAAGACTTGTCTGGGACATGCATCAGC
1 TTGAGACG-AGAGCTAGTGTAAGACATGTTTGGGACATGCAT-TGC
* * * * *
19915661 TACGAGATGATAG-TCAGTATAAGACCATGTTCGGGACATGGCATTGAC
1 T-TGAGACGAGAGCT-AGTGTAAGA-CATGTTTGGGACAT-GCATTG-C
* * * *
19915709 TTGACATGTA-AGCCAGTGTAAGGCCATGTTTGGGACATG
1 TTGAGACG-AGAGCTAGTGTAA-GACATGTTTGGGACATG
19915748 GCATCGACAC
Statistics
Matches: 104, Mismatches: 17, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
45 4 0.04
46 53 0.51
47 39 0.38
48 8 0.08
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (44 bp):
TTGAGACGAGAGCTAGTGTAAGACATGTTTGGGACATGCATTGC
Found at i:19919030 original size:39 final size:39
Alignment explanation
Indices: 19918983--19919165 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
19918973 AATGTTCGAG
19918983 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
19919022 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
19919061 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
19919100 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
19919140 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
19919166 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:19926490 original size:47 final size:43
Alignment explanation
Indices: 19926379--19926506 Score: 148
Period size: 47 Copynumber: 2.8 Consensus size: 43
19926369 GTTGATGTTG
* *
19926379 GCTAGTGTAAGACATGTCTAGGACATGCATCTGGCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GG--CATTACGAGA
* *
19926425 GCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATT---ACGAGA
19926473 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
19926507 CCAGAGAGGA
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
45 4 0.06
46 19 0.27
47 27 0.38
48 21 0.30
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (43 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTACGAGA
Found at i:19926603 original size:47 final size:47
Alignment explanation
Indices: 19926529--19926661 Score: 191
Period size: 47 Copynumber: 2.9 Consensus size: 47
19926519 GCCACGACAC
*
19926529 GTAAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGAT
1 GTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGAT
* * *
19926575 G-ATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGAGAT
1 GTA-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGAT
19926622 GTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 GTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
19926662 ACCTTACCTA
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
45 1 0.01
46 13 0.17
47 55 0.71
48 8 0.10
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGAT
Found at i:19937944 original size:38 final size:38
Alignment explanation
Indices: 19937885--19937992 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
19937875 TCAATCATGC
*
19937885 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
19937924 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
19937962 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
19937993 ACTGGGCCGA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 55 0.83
39 11 0.17
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:19937950 original size:31 final size:31
Alignment explanation
Indices: 19937908--19938009 Score: 132
Period size: 31 Copynumber: 3.1 Consensus size: 31
19937898 CCTTTTCATA
19937908 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
19937945 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
19937977 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
19938008 TT
1 TT
19938010 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
31 32 0.51
32 1 0.02
33 1 0.02
37 1 0.02
38 28 0.44
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:19938246 original size:24 final size:24
Alignment explanation
Indices: 19938200--19938318 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
19938190 GCTTTATCAT
*
19938200 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
19938225 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
19938249 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
19938272 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
19938296 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
19938319 TCACTTCCTT
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.28
24 48 0.56
25 13 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:19938279 original size:47 final size:48
Alignment explanation
Indices: 19938200--19938318 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
19938190 GCTTTATCAT
*
19938200 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
19938249 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
19938296 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
19938319 TCACTTCCTT
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 2 0.03
47 43 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:19938394 original size:20 final size:20
Alignment explanation
Indices: 19938369--19938407 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
19938359 TATGATTACA
19938369 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATT
19938389 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
19938408 ACCATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATT
Found at i:19938483 original size:25 final size:25
Alignment explanation
Indices: 19938451--19938498 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19938441 ATACATAAAC
* * *
19938451 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
19938476 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
19938499 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:19940778 original size:46 final size:46
Alignment explanation
Indices: 19940725--19940900 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
19940715 TATTTGGGCA
19940725 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
19940771 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
19940818 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
19940864 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19940901 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:19940880 original size:93 final size:93
Alignment explanation
Indices: 19940721--19940892 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
19940711 GGGATATTTG
* *
19940721 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19940786 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
19940814 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19940879 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
19940893 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:19943870 original size:15 final size:15
Alignment explanation
Indices: 19943850--19943918 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
19943840 GTATCTTGGG
19943850 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
19943865 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
19943880 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
19943895 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
19943910 TTTCTTTAT
1 TTTCTTTAT
19943919 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:19943919 original size:30 final size:30
Alignment explanation
Indices: 19943841--19943928 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
19943831 CATAGTATCG
* * * *
19943841 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
19943871 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
19943901 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
19943929 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:19946365 original size:46 final size:46
Alignment explanation
Indices: 19946312--19946487 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
19946302 TATTTGGGCA
19946312 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
19946358 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
19946405 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
19946451 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19946488 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:19946467 original size:93 final size:93
Alignment explanation
Indices: 19946308--19946479 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
19946298 GGGATATTTG
* *
19946308 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19946373 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
19946401 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
19946466 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
19946480 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:19954590 original size:38 final size:38
Alignment explanation
Indices: 19954531--19954638 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
19954521 TCAATCATGC
*
19954531 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
19954570 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
19954608 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
19954639 ACTGGGCCGA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 55 0.83
39 11 0.17
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:19954596 original size:31 final size:31
Alignment explanation
Indices: 19954554--19954655 Score: 132
Period size: 31 Copynumber: 3.1 Consensus size: 31
19954544 CCTTTTCATA
19954554 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
19954591 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
19954623 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
19954654 TT
1 TT
19954656 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
31 32 0.51
32 1 0.02
33 1 0.02
37 1 0.02
38 28 0.44
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:19954893 original size:24 final size:24
Alignment explanation
Indices: 19954847--19954940 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
19954837 GCTTTATCAT
*
19954847 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
19954872 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
19954896 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
19954918 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
19954941 TCACTTCCTC
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
22 19 0.31
23 7 0.11
24 23 0.37
25 13 0.21
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:19954924 original size:22 final size:23
Alignment explanation
Indices: 19954868--19954939 Score: 112
Period size: 22 Copynumber: 3.1 Consensus size: 23
19954858 CCTAGCCTCT
19954868 TTTAATAACTGGGGCCA-AAGCCC
1 TTTAATAACTGGGG-CATAAGCCC
19954891 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
19954915 TTT-ATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
19954937 TTT
1 TTT
19954940 TTCACTTCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
22 22 0.47
23 5 0.11
24 20 0.43
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:19955016 original size:20 final size:20
Alignment explanation
Indices: 19954991--19955029 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
19954981 TATGATTACA
19954991 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATT
19955011 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
19955030 ACCATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATT
Found at i:19955105 original size:25 final size:25
Alignment explanation
Indices: 19955073--19955120 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19955063 ATACATAAAC
* * *
19955073 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
19955098 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
19955121 CATTATAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:19961447 original size:40 final size:40
Alignment explanation
Indices: 19961320--19961449 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
19961310 TATGCTGAAA
* *
19961320 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
19961360 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
19961400 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
19961440 TTATATCCGG
1 TTATATCCGG
19961450 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:19967225 original size:28 final size:26
Alignment explanation
Indices: 19967194--19967245 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
19967184 AAATTATTTA
19967194 AAATTAAATATGTTAATAATTTAAGTGT
1 AAATTAAATAT-TTAATAA-TTAAGTGT
* *
19967222 AAATTAATTATTTTATAATTAAGT
1 AAATTAAATATTTAATAATTAAGT
19967246 ATGAATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 6 0.27
28 10 0.45
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (26 bp):
AAATTAAATATTTAATAATTAAGTGT
Found at i:19969821 original size:55 final size:55
Alignment explanation
Indices: 19969760--19969883 Score: 149
Period size: 55 Copynumber: 2.3 Consensus size: 55
19969750 GGCATACATA
** * * * *
19969760 CTGACTTATTCACACAGCCATAAGACACGCCCGTGTGTCTAGCCCGTGTAACTCT
1 CTGACTTACCCACACAGCCACAAGACACGCCCGTCTATCTAGCCCGTGCAACTCT
* * * *
19969815 TTGACTTGCCCACACGGCCACAAGACAGGCCCGTCTATCTAGCCCGTGCAACTCT
1 CTGACTTACCCACACAGCCACAAGACACGCCCGTCTATCTAGCCCGTGCAACTCT
*
19969870 CTGACTTGCCCACA
1 CTGACTTACCCACA
19969884 TGGCTTGAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.23
Consensus pattern (55 bp):
CTGACTTACCCACACAGCCACAAGACACGCCCGTCTATCTAGCCCGTGCAACTCT
Found at i:19983830 original size:86 final size:87
Alignment explanation
Indices: 19983684--19983845 Score: 210
Period size: 86 Copynumber: 1.9 Consensus size: 87
19983674 CAATGTTAAC
* *
19983684 GTCCCAGACATGGTCTTACATGTAATAAAATGTCGATGCCACTGTCCCAGACCGGGTCTTACACG
1 GTCCCAGACATGGTCTTACATGTAATAAAATGTCGATGCCACTGGCCCAGACCGAGTCTTACACG
19983749 A-AAC-CATATACGACACCGAT
66 ATAACACATATACGACACCGAT
*
19983769 GTCCCAGACATGGTCTTACATGTAAATCTCAAAT-T-GATGCCAAC-GGCCCAGA-CGTAGTCTT
1 GTCCCAGACATGGTCTTACATGT-AA--TAAAATGTCGATGCC-ACTGGCCCAGACCG-AGTCTT
19983830 ACACGATAACACATAT
61 ACACGATAACACATAT
19983846 TGGAATCCTA
Statistics
Matches: 67, Mismatches: 3, Indels: 11
0.83 0.04 0.14
Matches are distributed among these distances:
85 25 0.37
86 26 0.39
87 6 0.09
88 10 0.15
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (87 bp):
GTCCCAGACATGGTCTTACATGTAATAAAATGTCGATGCCACTGGCCCAGACCGAGTCTTACACG
ATAACACATATACGACACCGAT
Found at i:19996290 original size:28 final size:28
Alignment explanation
Indices: 19996258--19996341 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
19996248 AACTGTGATC
19996258 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
19996286 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
19996308 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
19996336 ACGTGT
1 ACGTGT
19996342 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:19996376 original size:49 final size:49
Alignment explanation
Indices: 19996212--19996435 Score: 304
Period size: 49 Copynumber: 4.5 Consensus size: 49
19996202 AGGTCGCATA
* * * * *
19996212 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTG
* * **
19996263 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACGTG
*
19996313 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCATGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTG
* *
19996362 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTG
*
19996411 TGTAGTACTATGTGCAGGCTACTAC
1 TGTAGTACTAAGTGCAGGCTACTAC
19996436 CAGATAGCTT
Statistics
Matches: 155, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 79 0.51
50 45 0.29
51 31 0.20
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTG
Found at i:20000861 original size:27 final size:28
Alignment explanation
Indices: 20000805--20000874 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
20000795 AAACTTGTAC
20000805 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
20000833 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
20000860 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
20000875 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:20000885 original size:27 final size:27
Alignment explanation
Indices: 20000805--20000886 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
20000795 AAACTTGTAC
* *
20000805 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
20000833 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
20000860 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
20000887 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:20007721 original size:40 final size:40
Alignment explanation
Indices: 20007630--20007740 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
20007620 ATAACCACGT
* *
20007630 GCACGAATGCCTTCGGGTCTTAGCCCAGATAGAATGACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
20007670 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
*
20007710 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
20007741 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 58 0.92
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:20007758 original size:40 final size:40
Alignment explanation
Indices: 20007614--20007777 Score: 136
Period size: 40 Copynumber: 4.1 Consensus size: 40
20007604 CGGAATACAA
**
20007614 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* * **
20007654 CCAGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
20007694 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * * *
20007734 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
20007774 CCGG
1 CCGG
20007778 GTATCATTCA
Statistics
Matches: 98, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
39 2 0.02
40 96 0.98
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:20015190 original size:40 final size:40
Alignment explanation
Indices: 20015145--20015274 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
20015135 CGGAATACAA
20015145 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
20015185 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
20015225 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
20015265 CCGGATATAA
1 CCGGATATAA
20015275 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:20015289 original size:40 final size:40
Alignment explanation
Indices: 20015145--20015311 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
20015135 CGGAATACAA
* **
20015145 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
20015185 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
20015225 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
20015265 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
20015304 CCGGATAT
1 CCGGATAT
20015312 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 15 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:20019644 original size:39 final size:38
Alignment explanation
Indices: 20019522--20019650 Score: 159
Period size: 40 Copynumber: 3.3 Consensus size: 38
20019512 CGGAATATAA
*
20019522 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCA-CTGCAC-AATGCCTTCGGGTCTTAGC
* **
20019562 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-GCAC-AATGCCTTCGGGTCTTAGC
* *
20019602 CCGGATATAGCCACTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTGCACAA-TGCCTTCGGGTCTTAGC
20019641 CCGGATATAA
1 CCGGATATAA
20019651 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.03
39 30 0.39
40 44 0.58
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
CCGGATATAACCACTGCACAATGCCTTCGGGTCTTAGC
Found at i:20019671 original size:79 final size:79
Alignment explanation
Indices: 20019522--20019687 Score: 203
Period size: 79 Copynumber: 2.1 Consensus size: 79
20019512 CGGAATATAA
* *
20019522 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATCTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
20019587 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
20019602 CCGGATATAGCCA-CTGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAAT
1 CCGGATATAACCATCTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-
*
20019664 TGTCTTCGGGCTTAGC
64 TGCCTTCGGGCTTAGC
20019680 CCGGATAT
1 CCGGATAT
20019688 CATTCAATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 17 0.23
79 46 0.61
80 12 0.16
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATCTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:20019683 original size:39 final size:38
Alignment explanation
Indices: 20019538--20019687 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 38
20019528 ATAACCATGT
* * * *
20019538 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATA-TA-GCCAC
20019578 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCAC
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCCAC
* *
20019616 TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA-
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT-A--GCCAC
* *
20019657 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
20019688 CATTCAATTT
Statistics
Matches: 96, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
38 5 0.05
39 42 0.44
40 44 0.46
41 2 0.02
42 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (38 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCCAC
Found at i:20022786 original size:27 final size:28
Alignment explanation
Indices: 20022730--20022800 Score: 117
Period size: 27 Copynumber: 2.6 Consensus size: 28
20022720 AAACTTGTAC
*
20022730 AGCATTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
20022758 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
20022785 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
20022801 ACTCACTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 25 0.61
28 16 0.39
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:20022810 original size:27 final size:27
Alignment explanation
Indices: 20022754--20022811 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
20022744 GAGTTTGATC
** * *
20022754 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAACTCACT
20022781 ATATAGCACTAAGTGTGCGAACTCACT
1 ATATAGCACTAAGTGTGCGAACTCACT
20022808 ATAT
1 ATAT
20022812 GCTTTTGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAACTCACT
Found at i:20024605 original size:15 final size:15
Alignment explanation
Indices: 20024585--20024640 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
20024575 GTATATTGGG
20024585 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
20024600 TTTCTTTATTATGGG
1 TTTCTTTATTCTGGA
20024615 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
20024630 TTTCTTTATTC
1 TTTCTTTATTC
20024641 CGCTTTCTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
14 3 0.09
15 26 0.79
16 4 0.12
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:20026931 original size:17 final size:17
Alignment explanation
Indices: 20026909--20026942 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
20026899 TAAGTGCAGG
20026909 CTACTACGTGTACCAGA
1 CTACTACGTGTACCAGA
20026926 CTACTACGTGTACCAGA
1 CTACTACGTGTACCAGA
20026943 TAATTGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (17 bp):
CTACTACGTGTACCAGA
Found at i:20026964 original size:66 final size:67
Alignment explanation
Indices: 20026859--20026988 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 67
20026849 TAAGTACAGG
* **
20026859 CTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
1 CTACTACGTGTACCAGATAATTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
20026924 GA
66 GA
20026926 CTACTACGTGTACCAGATAATT-GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
1 CTACTACGTGTACCAGATAATTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
20026989 GGATAATTGG
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
66 41 0.68
67 19 0.32
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (67 bp):
CTACTACGTGTACCAGATAATTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
GA
Found at i:20026985 original size:49 final size:49
Alignment explanation
Indices: 20026926--20027042 Score: 180
Period size: 49 Copynumber: 2.4 Consensus size: 49
20026916 GTGTACCAGA
*
20026926 CTACTACGTGTACCAGATAATTGGTCACGTGTGTAGTACTAAGTGCAGG
1 CTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGCAGG
* * *
20026975 CTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTATGTGCAGG
1 CTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGCAGG
* *
20027024 CTACTATGCGTACCAGATA
1 CTACTACGTGTACCAGATA
20027043 GCTTTGGCTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 61 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (49 bp):
CTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACTAAGTGCAGG
Found at i:20031888 original size:65 final size:65
Alignment explanation
Indices: 20031808--20031937 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
20031798 TTTAAATAAA
*
20031808 ATCAGGCCATATCATCTCAATTTTGGGTTTCAAGGGATAAATATTCGTTAAGGTTGGCTTGAAAG
1 ATCAGGCCATATCATCTCAAATTTGGGTTTCAAGGGATAAATATTCGTTAAGGTTGGCTTGAAAG
20031873 ATCAGGCCATATCATCTCAAATTTGGGTTTCAAGGGATAAATATTCGTTAAGGTTGGCTTGAAAG
1 ATCAGGCCATATCATCTCAAATTTGGGTTTCAAGGGATAAATATTCGTTAAGGTTGGCTTGAAAG
20031938 GCTCAAATAG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (65 bp):
ATCAGGCCATATCATCTCAAATTTGGGTTTCAAGGGATAAATATTCGTTAAGGTTGGCTTGAAAG
Found at i:20035454 original size:55 final size:55
Alignment explanation
Indices: 20035384--20035487 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
20035374 TGGGACGTTA
* * *
20035384 GCATCGATATTTGATT-TCGACATCTGTGTGCGTGTAAGACCACGTTTAATACTTG
1 GCATCGATATGTGATTCT-GACATCTGTGCGCGAGTAAGACCACGTTTAATACTTG
* *
20035439 GCATCGATATGTGATTCTGATATGTGTGCGCGAGTAAGACCACGTTTAA
1 GCATCGATATGTGATTCTGACATCTGTGCGCGAGTAAGACCACGTTTAA
20035488 GACCACGTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
55 42 0.98
56 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (55 bp):
GCATCGATATGTGATTCTGACATCTGTGCGCGAGTAAGACCACGTTTAATACTTG
Found at i:20035549 original size:56 final size:56
Alignment explanation
Indices: 20035485--20035769 Score: 367
Period size: 56 Copynumber: 5.1 Consensus size: 56
20035475 AGACCACGTT
* * * *
20035485 TAAGACCACGTCTAATACGTTGGCATCGATATGTGATTTCGATATGTGTGTGTGAG
1 TAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGTGCGAG
* * * * *
20035541 TAAGACCACATTTAATACATTGGAATCGATATGTGATTCCAATATGTGTGTGCGAG
1 TAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGTGCGAG
* * *
20035597 TAAGACCACATTTCATACGTTGGCATCAAT-TGTGATTCCGATATGTGTGTTCGAG
1 TAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGTGCGAG
* * * *
20035652 TAAGAGCATGTTTAATACATTGACATCAATATGTGATTCCGATATGTGTGTGCGAG
1 TAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGTGCGAG
* * * * *
20035708 TAAGACCATGTTTAATA-GTTGGCATCAATAGGTGATTCCAATATGTGTTTACGAG
1 TAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGTGCGAG
20035763 TAAGACC
1 TAAGACC
20035770 TGTCTAGGAC
Statistics
Matches: 201, Mismatches: 27, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
55 86 0.43
56 115 0.57
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (56 bp):
TAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGTGCGAG
Found at i:20035653 original size:111 final size:112
Alignment explanation
Indices: 20035485--20035769 Score: 391
Period size: 111 Copynumber: 2.6 Consensus size: 112
20035475 AGACCACGTT
* * *
20035485 TAAGACCACGTCTAATACGTTGGCATCGATATGTGATTTCGATATGTGTGTGT-GAGTAAGACCA
1 TAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGT-TCGAGTAAGACCA
*
20035549 CATTTAATACATTGGA-ATCGATATGTGATTCCAATATGTGTGTGCGAG
65 CATTTAATACATT-GACATCAATATGTGATTCCAATATGTGTGTGCGAG
* * * *
20035597 TAAGACCACATTTCATACGTTGGCATCAAT-TGTGATTCCGATATGTGTGTTCGAGTAAGAGCAT
1 TAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGTTCGAGTAAGACCAC
* *
20035661 GTTTAATACATTGACATCAATATGTGATTCCGATATGTGTGTGCGAG
66 ATTTAATACATTGACATCAATATGTGATTCCAATATGTGTGTGCGAG
* * *
20035708 TAAGACCATGTTTAATA-GTTGGCATCAATAGGTGATTCCAATATGTGT-TTACGAGTAAGACC
1 TAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGTT-CGAGTAAGACC
20035770 TGTCTAGGAC
Statistics
Matches: 153, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
110 17 0.11
111 110 0.72
112 26 0.17
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (112 bp):
TAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGTTCGAGTAAGACCAC
ATTTAATACATTGACATCAATATGTGATTCCAATATGTGTGTGCGAG
Found at i:20036298 original size:20 final size:20
Alignment explanation
Indices: 20036273--20036313 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
20036263 AATTAAGCAT
20036273 AATTTA-AAATATATTAAAAC
1 AATTTATAAATATA-TAAAAC
*
20036293 AATTTATACATATATAAAAC
1 AATTTATAAATATATAAAAC
20036313 A
1 A
20036314 TGTAACACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (20 bp):
AATTTATAAATATATAAAAC
Found at i:20041292 original size:40 final size:39
Alignment explanation
Indices: 20041142--20041294 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
20041132 GAATGTTCGA
* *
20041142 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
20041181 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
20041220 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
20041259 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
20041295 GGTTACCATA
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 90 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:20041310 original size:40 final size:39
Alignment explanation
Indices: 20041143--20041325 Score: 249
Period size: 39 Copynumber: 4.6 Consensus size: 39
20041133 AATGTTCGAG
* * *
20041143 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
20041182 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
20041221 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
20041260 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
20041300 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
20041326 GTTTGAACGA
Statistics
Matches: 130, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 89 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:20041361 original size:79 final size:79
Alignment explanation
Indices: 20041149--20041363 Score: 186
Period size: 78 Copynumber: 2.7 Consensus size: 79
20041139 CGAGTGATAT
** * * * * *
20041149 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCT-AA-GCCCGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCC-GGATAAACTCCCGAAGGCAATTG
** *
20041212 TGCGAGTTATGATAT
65 TGCGAGTTACCATAA
** * * * * *
20041227 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
*
20041292 GCGGGTTACCATAA
66 GCGAGTTACCATAA
* **
20041306 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGATAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGATAAACTCCCGAAGG
20041364 TATGTGATTC
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
77 3 0.03
78 41 0.36
79 40 0.35
80 30 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
GCGAGTTACCATAA
Found at i:20044449 original size:39 final size:38
Alignment explanation
Indices: 20044401--20044549 Score: 176
Period size: 39 Copynumber: 3.9 Consensus size: 38
20044391 TAATGTTCGA
*
20044401 GTGATATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AATT
* *
20044440 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAATT
* *
20044478 ATG--ATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AATT
* * * *
20044515 GTGATATCCAGGTTAAGTTCCGAAGGCATTTGTGC
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGC
20044550 GGGTTACCAT
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
36 29 0.31
37 4 0.04
38 5 0.05
39 42 0.44
40 15 0.16
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (38 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAATT
Found at i:20044472 original size:30 final size:32
Alignment explanation
Indices: 20044436--20044508 Score: 87
Period size: 36 Copynumber: 2.2 Consensus size: 32
20044426 CAATTGTGCA
20044436 AATTGTG-A-CATCCGGGCTAAGCCCGAAGGC
1 AATTGTGTATCATCCGGGCTAAGCCCGAAGGC
*
20044466 AATTGTGCGATTATGATCCGGGCTAAGCCCGAAGGC
1 AATTGT--G--TATCATCCGGGCTAAGCCCGAAGGC
20044502 AATTGTG
1 AATTGTG
20044509 CGAGTTGTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
30 6 0.17
32 1 0.03
34 1 0.03
35 1 0.03
36 27 0.75
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (32 bp):
AATTGTGTATCATCCGGGCTAAGCCCGAAGGC
Found at i:20044492 original size:75 final size:76
Alignment explanation
Indices: 20044406--20044550 Score: 211
Period size: 75 Copynumber: 1.9 Consensus size: 76
20044396 TTCGAGTGAT
*
20044406 ATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATTGTGACATCCGGGCTAAG-CCCGAAGGCAATT
1 ATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATTGTGACATCCAGGCTAAGTCCCGAAGGCAATT
20044470 GTGCGATTATG
66 GTGCGATTATG
* * * * * * *
20044481 ATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCAGGTTAAGTTCCGAAGGCATTT
1 ATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATTGTGACATCCAGGCTAAGTCCCGAAGGCAATT
20044546 GTGCG
66 GTGCG
20044551 GGTTACCATA
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
75 45 0.74
76 16 0.26
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (76 bp):
ATCCGGGCTAAGCCCAAAGGCAATTGTGCAAATTGTGACATCCAGGCTAAGTCCCGAAGGCAATT
GTGCGATTATG
Found at i:20052547 original size:40 final size:39
Alignment explanation
Indices: 20052397--20052549 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
20052387 AAATGTTCGA
* *
20052397 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
20052436 GTGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
20052475 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
20052514 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
20052550 GGTTACCATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:20052565 original size:40 final size:39
Alignment explanation
Indices: 20052398--20052580 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
20052388 AATGTTCGAG
* * *
20052398 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
20052437 TGACATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
20052476 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
20052515 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
20052555 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
20052581 GTTTGAACGA
Statistics
Matches: 128, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.68
40 41 0.32
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:20052616 original size:79 final size:79
Alignment explanation
Indices: 20052404--20052618 Score: 177
Period size: 78 Copynumber: 2.7 Consensus size: 79
20052394 CGAGTGATAT
** * * * * * *
20052404 CCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCCGGGCT-AA-GCCCGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCC-GGATAAACTCCCGAAGGCAATTG
** *
20052467 TGCGAGTTATGATAT
65 TGCGAGTTACCATAA
** * * * * *
20052482 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
*
20052547 GCGGGTTACCATAA
66 GCGAGTTACCATAA
* **
20052561 CCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT-ATATCCGGATAAACT-CCGAAGG
1 CCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-TGATATCCGGATAAACTCCCGAAGG
20052619 TATGTGATTC
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 40 0.35
79 40 0.35
80 30 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.22
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGATATCCGGATAAACTCCCGAAGGCAATTGT
GCGAGTTACCATAA
Found at i:20059030 original size:27 final size:28
Alignment explanation
Indices: 20058987--20059042 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
20058977 ATAAAAATAA
*
20058987 TGAAAATTCAATATGTTAATAATTTAAG
1 TGAAAATTCAATATGTTAATAATTAAAG
* *
20059015 TGAAAATT-AATTTGTTTATAATTAAAG
1 TGAAAATTCAATATGTTAATAATTAAAG
20059042 T
1 T
20059043 ATGAATTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.43
Consensus pattern (28 bp):
TGAAAATTCAATATGTTAATAATTAAAG
Found at i:20068005 original size:28 final size:28
Alignment explanation
Indices: 20067945--20068020 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
20067935 TGAATGTGTT
* * *
20067945 TTGGGCCTAATGGACCACATAAATGTAA
1 TTGGGCCTAATGGGCCATATAAAAGTAA
*
20067973 ATGGGCCTAATGGGCCATATAAAAG-AGA
1 TTGGGCCTAATGGGCCATATAAAAGTA-A
*
20068001 TTGGGCCTAGTGGGCCATAT
1 TTGGGCCTAATGGGCCATAT
20068021 CATGTATGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.24
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATAAAAGTAA
Found at i:20069866 original size:58 final size:58
Alignment explanation
Indices: 20069776--20069891 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
20069766 ACGTGCATGA
20069776 ATGGTGTTCTGAAGAGGAAAATAAGTTAACTTTCTAATTTTGGTATAATTACCCTTTT
1 ATGGTGTTCTGAAGAGGAAAATAAGTTAACTTTCTAATTTTGGTATAATTACCCTTTT
* *
20069834 ATGGTGTTGTGAAGAGGAAAATAAGTTAACTTTCTAATTTTGGTATGATTACCCTTTT
1 ATGGTGTTCTGAAGAGGAAAATAAGTTAACTTTCTAATTTTGGTATAATTACCCTTTT
20069892 TCTACTCTTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.41
Consensus pattern (58 bp):
ATGGTGTTCTGAAGAGGAAAATAAGTTAACTTTCTAATTTTGGTATAATTACCCTTTT
Found at i:20074326 original size:27 final size:27
Alignment explanation
Indices: 20074281--20074625 Score: 269
Period size: 27 Copynumber: 12.9 Consensus size: 27
20074271 AGACACTCGG
* **
20074281 TTTGTAAAATTATCGAAATACCTTCAA
1 TTTGTAAAATTATCAAAATACCCCCAA
* * *
20074308 ATTGTAAAATTACCAAAATACCCTCAA
1 TTTGTAAAATTATCAAAATACCCCCAA
**
20074335 TTTGTAAAATTATCAAAATACCCTCGGA
1 TTTGTAAAATTATCAAAATACCC-CCAA
* * *
20074363 -TTGTAAAATTAAT-GAAATACTCCCGA
1 TTTGTAAAATT-ATCAAAATACCCCCAA
* ** *
20074389 TTTTTAAAATTATTGAAATACCCTCGAA
1 TTTGTAAAATTATCAAAATACCC-CCAA
*
20074417 -TTGTAAAATTATCAAAACA-CCCCAA
1 TTTGTAAAATTATCAAAATACCCCCAA
*
20074442 GTTTGTAAAATTAT-AGAAATACCCCCGA
1 -TTTGTAAAATTATCA-AAATACCCCCAA
*****
20074470 TTTGTAAAATTATCAAAATACGAGGGA
1 TTTGTAAAATTATCAAAATACCCCCAA
* * *
20074497 TTT-TAAAATTACCGAAATA-CCCCAG
1 TTTGTAAAATTATCAAAATACCCCCAA
* *
20074522 TTTGTAAAATTATCGAAATACCCTCAAA
1 TTTGTAAAATTATCAAAATACCC-CCAA
*
20074550 TTT-TAAAATTACCAAAATACCCCCAA
1 TTTGTAAAATTATCAAAATACCCCCAA
* * *
20074576 TTTATAAAATTA-CTGAAATACCACCAA
1 TTTGTAAAATTATC-AAAATACCCCCAA
20074603 TTTGTAAAATTA-CTAAAATACCC
1 TTTGTAAAATTATC-AAAATACCC
20074626 TTGTAGTACA
Statistics
Matches: 257, Mismatches: 46, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
25 6 0.02
26 44 0.17
27 191 0.74
28 16 0.06
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (27 bp):
TTTGTAAAATTATCAAAATACCCCCAA
Found at i:20074411 original size:81 final size:79
Alignment explanation
Indices: 20074280--20074625 Score: 315
Period size: 81 Copynumber: 4.3 Consensus size: 79
20074270 AAGACACTCG
* * * * * *
20074280 GTTTGTAAAATTATCGAAATACCTTCAAATTGTAAAATTACCAAAATACCCTCAATTTGTAAAAT
1 GTTTGTAAAATTATAGAAATACC-CCGATTTTTAAAATTATCAAAATACCCTCAATTTGTAAAAT
*
20074345 TATCAAAATACCCTCG
65 TATCAAAATACCC-CA
* **
20074361 GATTGTAAAATTA-ATGAAATACTCCCGATTTTTAAAATTATTGAAATACCCTCGAA-TTGTAAA
1 GTTTGTAAAATTATA-GAAATAC-CCCGATTTTTAAAATTATCAAAATACCCTC-AATTTGTAAA
*
20074424 ATTATCAAAACACCCCAA
63 ATTATCAAAATACCCC-A
* *****
20074442 GTTTGTAAAATTATAGAAATACCCCCGATTTGTAAAATTATCAAAATACGAGGGATTT-TAAAAT
1 GTTTGTAAAATTATAGAAATA-CCCCGATTTTTAAAATTATCAAAATACCCTCAATTTGTAAAAT
* *
20074506 TACCGAAATACCCCA
65 TATCAAAATACCCCA
* * * * * *
20074521 GTTTGTAAAATTATCGAAATACCCTCAAATTTTAAAATTACCAAAATACCCCCAATTTATAAAAT
1 GTTTGTAAAATTATAGAAATACCC-CGATTTTTAAAATTATCAAAATACCCTCAATTTGTAAAAT
*
20074586 TA-CTGAAATACCACCA
65 TATC-AAAATACC-CCA
*
20074602 ATTTGTAAAATTACTA-AAATACCC
1 GTTTGTAAAATTA-TAGAAATACCC
20074626 TTGTAGTACA
Statistics
Matches: 218, Mismatches: 35, Indels: 24
0.79 0.13 0.09
Matches are distributed among these distances:
78 3 0.01
79 46 0.21
80 35 0.16
81 128 0.59
82 6 0.03
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (79 bp):
GTTTGTAAAATTATAGAAATACCCCGATTTTTAAAATTATCAAAATACCCTCAATTTGTAAAATT
ATCAAAATACCCCA
Found at i:20077121 original size:27 final size:27
Alignment explanation
Indices: 20077083--20077159 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 27
20077073 CAAATTGATG
* *
20077083 AAATGATTGTTATAGCCCTATGAAGTA
1 AAATGACTGTTATAACCCTATGAAGTA
* *
20077110 AAATGACTGTTATAACCCTCTGAGGTA
1 AAATGACTGTTATAACCCTATGAAGTA
** *
20077137 AAATGACTAATATACCCCTATGA
1 AAATGACTGTTATAACCCTATGA
20077160 TATGTATAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (27 bp):
AAATGACTGTTATAACCCTATGAAGTA
Found at i:20078712 original size:43 final size:43
Alignment explanation
Indices: 20078600--20078719 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 43
20078590 AATCATATAT
* * * * ** *
20078600 CGATGCTAATGTCCCAGACATGGTC-TGACATGTAATCACTTAT
1 CGATGCCAATGTCCCAGACATGGTCTTG-CACGAAACCACAGAA
20078643 CGATGCCAATGTCCCAGACATGGTCTTGCACGAAACCACAGAA
1 CGATGCCAATGTCCCAGACATGGTCTTGCACGAAACCACAGAA
*
20078686 CGATGCCAATGTCCCAGACATGGTCTTACACGAA
1 CGATGCCAATGTCCCAGACATGGTCTTGCACGAA
20078720 TCATGTACTA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 66 0.97
44 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTGCACGAAACCACAGAA
Found at i:20090250 original size:40 final size:40
Alignment explanation
Indices: 20090201--20090407 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
20090191 TCTTCGGAAT
* * *
20090201 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
20090240 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
20090280 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
20090320 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
20090360 TTAGCCCGGATAT-ATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
20090399 TTAGCCCGG
1 TTAGCCCGG
20090408 GTATTATTCA
Statistics
Matches: 145, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
39 38 0.26
40 106 0.73
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:20098394 original size:40 final size:40
Alignment explanation
Indices: 20098345--20098550 Score: 245
Period size: 40 Copynumber: 5.2 Consensus size: 40
20098335 TCTTCGGAAT
* * *
20098345 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
20098384 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
20098424 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
20098464 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
20098504 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
20098544 TTAGCCC
1 TTAGCCC
20098551 AGGTATTATT
Statistics
Matches: 143, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 139 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:20101016 original size:33 final size:33
Alignment explanation
Indices: 20100974--20101051 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
20100964 CTTACTCATC
** * *
20100974 TTTACTATCCTGGTGGACTATCTTTTTTCTATG
1 TTTACTATCCCAGTGGACTATCTTTGTTCTATA
20101007 TTTACTATCCCAGTGGACTATCTTTGTTCTATA
1 TTTACTATCCCAGTGGACTATCTTTGTTCTATA
*
20101040 TTTACTGTCCCA
1 TTTACTATCCCA
20101052 ACAGACGATC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.18, C:0.22, G:0.13, T:0.47
Consensus pattern (33 bp):
TTTACTATCCCAGTGGACTATCTTTGTTCTATA
Found at i:20102832 original size:38 final size:38
Alignment explanation
Indices: 20102788--20102863 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
20102778 ACAAAGGTTT
*
20102788 CCTGCGTTATTCAAAAAGGTTTGTTACTGAACATCCTA
1 CCTGCGTTACTCAAAAAGGTTTGTTACTGAACATCCTA
*
20102826 CCTGCGTTACTCAAAGAGGTTTGTTACTGAACATCCTA
1 CCTGCGTTACTCAAAAAGGTTTGTTACTGAACATCCTA
20102864 TTTCTGGTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (38 bp):
CCTGCGTTACTCAAAAAGGTTTGTTACTGAACATCCTA
Found at i:20109096 original size:45 final size:45
Alignment explanation
Indices: 20109032--20109163 Score: 221
Period size: 45 Copynumber: 2.9 Consensus size: 45
20109022 ATCGTACGAC
20109032 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
* *
20109077 ACTATTCGGGCCTTTGAGCCTAGCAAGCTACAATGCCGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
*
20109122 ACTATTCGGG-CTATCGAGCCTAGCAGGCTATAATGCCGGTGA
1 ACTATTCGGGCCT-TTGAGCCTAGCAGGCTATAATGCCGGTGA
20109164 AAGGATATCG
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 2 0.02
45 79 0.98
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (45 bp):
ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
Found at i:20110563 original size:6 final size:6
Alignment explanation
Indices: 20110552--20110578 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
20110542 TCAATCGGCC
20110552 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
20110579 GGAAAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:20112604 original size:30 final size:31
Alignment explanation
Indices: 20112563--20112625 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
20112553 CAACCTACTA
* *
20112563 TCAAGCTAAGGCTATTTGGCCTCTCAAC-TG
1 TCAAGCCAAGGCAATTTGGCCTCTCAACATG
*
20112593 TCAAGCCAAGGCAATTTGGCCTCTGAACATG
1 TCAAGCCAAGGCAATTTGGCCTCTCAACATG
20112624 TC
1 TC
20112626 TTTAAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 25 0.86
31 4 0.14
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (31 bp):
TCAAGCCAAGGCAATTTGGCCTCTCAACATG
Found at i:20116783 original size:21 final size:20
Alignment explanation
Indices: 20116745--20116783 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20116735 TAGGCCCGTA
* *
20116745 AGCCTATTGGGCCTAATTTT
1 AGCCTATCGGGCCCAATTTT
20116765 AGCCTATCGAGGCCCAATT
1 AGCCTATCG-GGCCCAATT
20116784 ACCGAAGTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (20 bp):
AGCCTATCGGGCCCAATTTT
Found at i:20137291 original size:40 final size:39
Alignment explanation
Indices: 20137126--20137293 Score: 133
Period size: 40 Copynumber: 4.2 Consensus size: 39
20137116 AAATTGAATG
* * *
20137126 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
20137166 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
20137206 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
20137246 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
20137285 GATATCCGG
1 -ATATCCGG
20137294 TTAAGTCCCG
Statistics
Matches: 100, Mismatches: 23, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 91 0.91
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:20143608 original size:46 final size:47
Alignment explanation
Indices: 20143517--20143626 Score: 152
Period size: 46 Copynumber: 2.4 Consensus size: 47
20143507 CCCCTCGGGA
* * *
20143517 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
20143564 CTTATCACTTATATACAC-TTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
20143610 CTTATCACATATATACA
1 CTTATCACTTATATACA
20143627 TCTCATACAT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
46 42 0.74
47 15 0.26
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.35
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:20143650 original size:46 final size:45
Alignment explanation
Indices: 20143626--20143809 Score: 307
Period size: 46 Copynumber: 4.0 Consensus size: 45
20143616 ACATATATAC
*
20143626 ATCTCATAC-ATTTCATACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACAATTTCACACTAGCCATTTGGCTTTACCACACATAT
20143670 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACA-ATTTCACACTAGCCATTTGGCTTTACCACACATAT
*
20143716 ATCACATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACA-ATTTCACACTAGCCATTTGGCTTTACCACACATAT
*
20143762 ATCACATACATATTTCACACTAGCCATTTGGCTTTACCACACATAT
1 ATCTCATACA-ATTTCACACTAGCCATTTGGCTTTACCACACATAT
20143808 AT
1 AT
20143810 ATATTTAACT
Statistics
Matches: 136, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
44 9 0.07
46 127 0.93
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (45 bp):
ATCTCATACAATTTCACACTAGCCATTTGGCTTTACCACACATAT
Found at i:20143670 original size:92 final size:91
Alignment explanation
Indices: 20143600--20143809 Score: 287
Period size: 92 Copynumber: 2.3 Consensus size: 91
20143590 CATCACATCG
* * * *
20143600 GCCATTCGGCCTTATCACATATATACATCTCATAC-ATTTCATACTAGCCATTTGGCTTTACCAC
1 GCCATTCGGCCTTACCACACATAT--ATCACATACAATTTCACACTAGCCATTTGGCTTTACCAC
* *
20143664 ACATATATCTCATACATATTTCACACTA
64 ACATATATCACATACATATATCACACTA
* *
20143692 GCCATTTGGCTTTACCACACATATATCACATACATATTTCACACTAGCCATTTGGCTTTACCACA
1 GCCATTCGGCCTTACCACACATATATCACATACA-ATTTCACACTAGCCATTTGGCTTTACCACA
*
20143757 CATATATCACATACATATTTCACACTA
65 CATATATCACATACATATATCACACTA
* *
20143784 GCCATTTGGCTTTACCACACATATAT
1 GCCATTCGGCCTTACCACACATATAT
20143810 ATATTTAACT
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
90 8 0.07
92 101 0.93
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (91 bp):
GCCATTCGGCCTTACCACACATATATCACATACAATTTCACACTAGCCATTTGGCTTTACCACAC
ATATATCACATACATATATCACACTA
Found at i:20146633 original size:15 final size:15
Alignment explanation
Indices: 20146613--20146681 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
20146603 GTATCTTGGG
20146613 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
20146628 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
20146643 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
20146658 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
20146673 TTTCTTTAT
1 TTTCTTTAT
20146682 TCGGGTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:20146682 original size:30 final size:30
Alignment explanation
Indices: 20146604--20146691 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
20146594 CATAGTATCG
* * * * *
20146604 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGGTTTCTC
20146634 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGGTTTCTC
20146664 TATCTTGGATTTCTTTATTC-GGGTTTCT
1 TATCTTGGATTTCTTTATTCTGGGTTTCT
20146692 TGTTATCTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
29 9 0.18
30 41 0.80
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.17, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGGTTTCTC
Found at i:20149126 original size:46 final size:46
Alignment explanation
Indices: 20149073--20149248 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
20149063 TATTTGGGCA
20149073 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
20149119 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
20149166 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
20149212 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20149249 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:20149228 original size:93 final size:93
Alignment explanation
Indices: 20149069--20149240 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
20149059 GGGATATTTG
* *
20149069 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
20149134 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
20149162 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
20149227 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
20149241 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:20157360 original size:38 final size:38
Alignment explanation
Indices: 20157301--20157408 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
20157291 TCAATCATGC
*
20157301 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
20157340 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
20157378 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
20157409 ACTGGGCCGA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 55 0.83
39 11 0.17
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:20157366 original size:31 final size:31
Alignment explanation
Indices: 20157324--20157425 Score: 132
Period size: 31 Copynumber: 3.1 Consensus size: 31
20157314 CCTTTTCATA
20157324 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
20157361 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
20157393 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
20157424 TT
1 TT
20157426 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
31 32 0.51
32 1 0.02
33 1 0.02
37 1 0.02
38 28 0.44
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:20157662 original size:24 final size:24
Alignment explanation
Indices: 20157616--20157710 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
20157606 GCTTTATCAT
*
20157616 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
20157641 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
20157665 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
20157688 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
20157711 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:20157695 original size:47 final size:49
Alignment explanation
Indices: 20157616--20157709 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
20157606 GCTTTATCAT
*
20157616 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
20157665 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
20157710 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:20157786 original size:20 final size:20
Alignment explanation
Indices: 20157761--20157799 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
20157751 TATGATTACA
20157761 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATT
20157781 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
20157800 ACCATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (20 bp):
TCATGTGCATATCATACATT
Found at i:20160338 original size:46 final size:46
Alignment explanation
Indices: 20160271--20160433 Score: 211
Period size: 46 Copynumber: 3.5 Consensus size: 46
20160261 GGAATCTATA
* *
20160271 GGCTACAATACAGTGGTAGCTTCGGTTGCATCTCAGTGGTAGCTTT
1 GGCTACAATACAGTGGTAGCTTCGGTTACATCTCAGTGGTAGCTTC
*
20160317 GGCTACAATACAGTGGTAGCTTCGCTTACATCTCAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTCGGTTACATCTCAGTGGTAGCTTC
* * * * *
20160363 GGCTACAACACAATGGTAGCTTTGGCTACAAT-ACAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTCGGTTAC-ATCTCAGTGGTAGCTTC
** *
20160409 GGCTACGTTACAGTGATAGCTTCGG
1 GGCTACAATACAGTGGTAGCTTCGG
20160434 CTATATTATA
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
46 99 0.98
47 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
GGCTACAATACAGTGGTAGCTTCGGTTACATCTCAGTGGTAGCTTC
Found at i:20160392 original size:69 final size:69
Alignment explanation
Indices: 20160271--20160436 Score: 228
Period size: 69 Copynumber: 2.4 Consensus size: 69
20160261 GGAATCTATA
* * * * * *
20160271 GGCTACAATACAGTGGTAGCTTCGGTTGCATCTCAGTGGTAGCTTTGGCTACAATACAGTGGTAG
1 GGCTACATTACAGTGGTAGCTTCGGCTACAACACAATGGTAGCTTTGGCTACAATACAGTGGTAG
20160336 CTTC
66 CTTC
20160340 -GCTTACATCT-CAGTGGTAGCTTCGGCTACAACACAATGGTAGCTTTGGCTACAATACAGTGGT
1 GGC-TACAT-TACAGTGGTAGCTTCGGCTACAACACAATGGTAGCTTTGGCTACAATACAGTGGT
20160403 AGCTTC
64 AGCTTC
* *
20160409 GGCTACGTTACAGTGATAGCTTCGGCTA
1 GGCTACATTACAGTGGTAGCTTCGGCTA
20160437 TATTATAGTG
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
68 3 0.04
69 79 0.93
70 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (69 bp):
GGCTACATTACAGTGGTAGCTTCGGCTACAACACAATGGTAGCTTTGGCTACAATACAGTGGTAG
CTTC
Found at i:20160434 original size:23 final size:23
Alignment explanation
Indices: 20160271--20160436 Score: 185
Period size: 23 Copynumber: 7.2 Consensus size: 23
20160261 GGAATCTATA
20160271 GGCTACAATACAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
* * * *
20160294 GGTTGC-ATCTCAGTGGTAGCTTT
1 GGCTACAAT-ACAGTGGTAGCTTC
20160317 GGCTACAATACAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
*
20160340 -GCTTAC-ATCTCAGTGGTAGCTTC
1 GGC-TACAAT-ACAGTGGTAGCTTC
* * *
20160363 GGCTACAACACAATGGTAGCTTT
1 GGCTACAATACAGTGGTAGCTTC
20160386 GGCTACAATACAGTGGTAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
** *
20160409 GGCTACGTTACAGTGATAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
20160432 GGCTA
1 GGCTA
20160437 TATTATAGTG
Statistics
Matches: 118, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
22 6 0.05
23 107 0.91
24 5 0.04
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (23 bp):
GGCTACAATACAGTGGTAGCTTC
Done.