Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 184 of 311
Found at i:63150012 original size:53 final size:53
Alignment explanation
Indices: 63149842--63150041 Score: 228
Period size: 52 Copynumber: 3.8 Consensus size: 53
63149832 AATCGATAAT
*
63149842 ATGACTATTTTACCCTTATGGGGTAAAATGACTGTTTTGCCCTTATAGGGTAAA
1 ATGACTATTTTGCCCTTATGGGGTAAAATGACTGTTTTG-CCTTATAGGGTAAA
** *
63149896 ATGACTATTTACCCCTTATGGGGT--AATGATTGTTTTGCCCTTATAGGGTAAA
1 ATGACTATTTTGCCCTTATGGGGTAAAATGACTGTTTTG-CCTTATAGGGTAAA
* * * *
63149948 ATGACTGTTTTGCCCTTATGTGGTAAAATGACTATTTTG-CTTGAT-GTGGTAAG
1 ATGACTATTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCTT-ATAG-GGTAAA
** * *
63150001 ATGACTATTTTGCCCTTATATGGTAAGATGATTGTTTTGCC
1 ATGACTATTTTGCCCTTATGGGGTAAAATGACTGTTTTGCC
63150042 CTTTTGTGAT
Statistics
Matches: 126, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
52 51 0.40
53 41 0.33
54 34 0.27
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.40
Consensus pattern (53 bp):
ATGACTATTTTGCCCTTATGGGGTAAAATGACTGTTTTGCCTTATAGGGTAAA
Found at i:63150400 original size:18 final size:18
Alignment explanation
Indices: 63150377--63150426 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
63150367 GCATACTATT
*
63150377 ATTACTGTTACTGCACTG
1 ATTACTGTTACTGCACTA
*
63150395 ATTACTGTTATTGCACTA
1 ATTACTGTTACTGCACTA
63150413 ATTACTGTTACTGC
1 ATTACTGTTACTGC
63150427 CATGGGCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (18 bp):
ATTACTGTTACTGCACTA
Found at i:63154847 original size:47 final size:45
Alignment explanation
Indices: 63154729--63154853 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 45
63154719 GGATGGTTGA
*
63154729 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT--CCTA-GGATGCAAAG
* *
63154777 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGT-GAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTAG-GATGCAA--AG
63154822 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
63154854 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
42 1 0.01
43 6 0.09
44 2 0.03
45 2 0.03
46 28 0.41
47 29 0.42
48 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTAGGATGCAAAG
Found at i:63156280 original size:25 final size:26
Alignment explanation
Indices: 63156195--63156308 Score: 122
Period size: 27 Copynumber: 4.3 Consensus size: 26
63156185 CTAATGGATA
**
63156195 AAAATGACCATAACACCCCCGTAGGGT
1 AAAATGACCATAA-TGCCCCGTAGGGT
* *
63156222 GAAATGACCGTAATGCCTCCGTAGGGT
1 AAAATGACCATAATGCC-CCGTAGGGT
*
63156249 AAAATGACCATAATGCCCC-TAAGGT
1 AAAATGACCATAATGCCCCGTAGGGT
* * *
63156274 AAAATGATCATAATACCCCTGTAGGGC
1 AAAATGACCATAATGCCCC-GTAGGGT
63156301 AAAATGAC
1 AAAATGAC
63156309 GAGTATGCCC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
25 22 0.31
26 4 0.06
27 46 0.64
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (26 bp):
AAAATGACCATAATGCCCCGTAGGGT
Found at i:63156523 original size:27 final size:27
Alignment explanation
Indices: 63156443--63156523 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
63156433 AGGAAGTACT
* *
63156443 ATACTGGTGACTATGTCACATTCACTT
1 ATACTGGTGGCTATGTCACATTCACTG
* *
63156470 ATACTGGTGGCTATGCCAGAATT-ACTG
1 ATACTGGTGGCTATGTCA-CATTCACTG
*
63156497 ATACTGGTGGCTTTGTCACATTCACTG
1 ATACTGGTGGCTATGTCACATTCACTG
63156524 TTTCTGGTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 3 0.07
27 39 0.87
28 3 0.07
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (27 bp):
ATACTGGTGGCTATGTCACATTCACTG
Found at i:63160844 original size:40 final size:40
Alignment explanation
Indices: 63160759--63160934 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
63160749 ACCCAAGCAT
*
63160759 CTTCGGGAT-TTAG-CCGGATATAACAACTCG-ACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
63160797 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
63160837 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
63160877 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
63160917 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
63160935 TTATCATCCG
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.09
39 18 0.15
40 87 0.73
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:63164368 original size:45 final size:45
Alignment explanation
Indices: 63164302--63164459 Score: 207
Period size: 45 Copynumber: 3.6 Consensus size: 45
63164292 TTGCGTACTG
** *
63164302 TACTATTCGGGCCTTTAAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
63164347 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCAGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
63164392 TACTATTCAGGCCTTCGAGCCTAGCAGG-TATAATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
63164436 TGA-TA-TCGGG-CTTCGAGCCTAGCA
1 T-ACTATTCGGGCCTTCGAGCCTAGCA
63164460 AGCGAAATGT
Statistics
Matches: 102, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
42 14 0.14
43 4 0.04
44 16 0.16
45 68 0.67
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:63168785 original size:16 final size:16
Alignment explanation
Indices: 63168764--63168799 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
63168754 GGTAAATCCC
*
63168764 GAAATGTCGAAAAGCT
1 GAAATGCCGAAAAGCT
63168780 GAAATGCCGAAAAGCT
1 GAAATGCCGAAAAGCT
63168796 GAAA
1 GAAA
63168800 GTTTGACTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.14, G:0.25, T:0.14
Consensus pattern (16 bp):
GAAATGCCGAAAAGCT
Found at i:63169094 original size:28 final size:28
Alignment explanation
Indices: 63169012--63169101 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 28
63169002 TGAACACGAC
*
63169012 TATAAATGTGAATTGGGCCT-GATGGACCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
63169041 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
63169070 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
63169098 TATA
1 TATA
63169102 CAGGTATGTG
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
28 21 0.38
29 35 0.62
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:63170666 original size:45 final size:45
Alignment explanation
Indices: 63170592--63170677 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
63170582 CATCGATCCG
*
63170592 TCTTTCTTCTTAACAAGCAAGACTGGTGCTTCCCATGGAGACACA
1 TCTTTCTTCTTAACAAGCAAGACTGGTGCTCCCCATGGAGACACA
*
63170637 TCTTTCTTCTTAACAAGCAGGAC-GAGTGCTCCCCATGGAGA
1 TCTTTCTTCTTAACAAGCAAGACTG-GTGCTCCCCATGGAGA
63170678 TACACTCAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 1 0.03
45 37 0.97
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (45 bp):
TCTTTCTTCTTAACAAGCAAGACTGGTGCTCCCCATGGAGACACA
Found at i:63181857 original size:30 final size:30
Alignment explanation
Indices: 63181823--63181883 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
63181813 TCATTAACTC
63181823 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
63181853 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
63181883 A
1 A
63181884 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:63184145 original size:11 final size:11
Alignment explanation
Indices: 63184124--63184157 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
63184114 TTGGGAGTTC
63184124 TTTCAAGAAGAA
1 TTTC-AGAAGAA
63184136 TTTCAGAAGAA
1 TTTCAGAAGAA
*
63184147 ATTCAGAAGAA
1 TTTCAGAAGAA
63184158 ATACATCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.24
Consensus pattern (11 bp):
TTTCAGAAGAA
Found at i:63184166 original size:14 final size:11
Alignment explanation
Indices: 63184129--63184159 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
63184119 AGTTCTTTCA
*
63184129 AGAAGAATTTC
1 AGAAGAAATTC
63184140 AGAAGAAATTC
1 AGAAGAAATTC
63184151 AGAAGAAAT
1 AGAAGAAAT
63184160 ACATCAGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (11 bp):
AGAAGAAATTC
Found at i:63197965 original size:36 final size:36
Alignment explanation
Indices: 63197918--63197990 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
63197908 ACGATTATAC
63197918 AAGGTAGCAACGAAGCGCCACCATGATGCTCGTTTA
1 AAGGTAGCAACGAAGCGCCACCATGATGCTCGTTTA
*
63197954 AAGGTAGCAACGAAGCGCCGCCATGATGCTCGTTTA
1 AAGGTAGCAACGAAGCGCCACCATGATGCTCGTTTA
63197990 A
1 A
63197991 CACAAGCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (36 bp):
AAGGTAGCAACGAAGCGCCACCATGATGCTCGTTTA
Found at i:63197999 original size:36 final size:36
Alignment explanation
Indices: 63197923--63197999 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
63197913 TATACAAGGT
**
63197923 AGCAACGAAGCGCCACCATGATGCTCGTTTAAAGGT
1 AGCAACGAAGCGCCACCATGATGCTCGTTTAAAGCA
*
63197959 AGCAACGAAGCGCCGCCATGATGCTCGTTTAACA-CA
1 AGCAACGAAGCGCCACCATGATGCTCGTTTAA-AGCA
63197995 AGCAA
1 AGCAA
63198000 TTTGACGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 36 0.97
37 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.17
Consensus pattern (36 bp):
AGCAACGAAGCGCCACCATGATGCTCGTTTAAAGCA
Found at i:63199181 original size:28 final size:27
Alignment explanation
Indices: 63199100--63199196 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 27
63199090 AAAATTCTAG
*
63199100 CTACTTCTCCTTCTCTA-TTTTTCTTT
1 CTACTTCTCCTTCTCCATTTTTTCTTT
* *
63199126 C-CCGTT-T-CTTTTCCATTTCTCTTCTTT
1 CTAC-TTCTCCTTCTCCATTT-T-TTCTTT
63199153 CTTACTTCTCCTTCTCCATTTTTTCTTT
1 C-TACTTCTCCTTCTCCATTTTTTCTTT
63199181 CCTACTTCTCCTTCTC
1 -CTACTTCTCCTTCTC
63199197 TATTCCTCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
24 6 0.11
25 4 0.07
26 4 0.07
27 7 0.12
28 22 0.39
29 4 0.07
30 10 0.18
ACGTcount: A:0.06, C:0.35, G:0.01, T:0.58
Consensus pattern (27 bp):
CTACTTCTCCTTCTCCATTTTTTCTTT
Found at i:63200935 original size:17 final size:17
Alignment explanation
Indices: 63200905--63200951 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
63200895 TTATTTTTAC
**
63200905 TTTATTTTGCTTTTCCT
1 TTTATTTTTATTTTCCT
* *
63200922 TTTGTTTTTATTTTTCT
1 TTTATTTTTATTTTCCT
63200939 TTTATTTTTATTT
1 TTTATTTTTATTT
63200952 CTATTTCCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTTTCCT
Found at i:63200947 original size:11 final size:11
Alignment explanation
Indices: 63200894--63200957 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
63200884 TTTGAGTCCA
63200894 TTTATTTTTAC-
1 TTTATTTTT-CT
*
63200905 TTTATTTTGCT
1 TTTATTTTTCT
*
63200916 TTTCCTTTTGT-T
1 TTT-ATTTT-TCT
63200928 TTTATTTTTCT
1 TTTATTTTTCT
*
63200939 TTTATTTTTAT
1 TTTATTTTTCT
63200950 TTCTATTT
1 TT-TATTT
63200958 CCAATTTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 2 0.05
11 28 0.65
12 13 0.30
ACGTcount: A:0.11, C:0.09, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTATTTTTCT
Found at i:63200947 original size:23 final size:23
Alignment explanation
Indices: 63200905--63200957 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
63200895 TTATTTTTAC
* *
63200905 TTTATTTTGCTTTTCCTTTTGTT
1 TTTATTTTGCTTTTACTTTTATT
* *
63200928 TTTATTTTTCTTTTATTTTTATT
1 TTTATTTTGCTTTTACTTTTATT
*
63200951 TCTATTT
1 TTTATTT
63200958 CCAATTTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.77
Consensus pattern (23 bp):
TTTATTTTGCTTTTACTTTTATT
Found at i:63206684 original size:20 final size:21
Alignment explanation
Indices: 63206645--63206684 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63206635 GTTATAATGA
*
63206645 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
63206666 CCACACGGGCATG-TGCCCT
1 CCACACGGGCATGTTGCCCT
63206685 GTTTCAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:63209510 original size:23 final size:23
Alignment explanation
Indices: 63209484--63209530 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
63209474 TACAAAAGCT
63209484 TAACCATTGAACCAGCAAGCTCA
1 TAACCATTGAACCAGCAAGCTCA
63209507 TAACCATTGAACCAGCAAGCTCA
1 TAACCATTGAACCAGCAAGCTCA
63209530 T
1 T
63209531 TCTTAACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.30, G:0.13, T:0.19
Consensus pattern (23 bp):
TAACCATTGAACCAGCAAGCTCA
Found at i:63219241 original size:7 final size:7
Alignment explanation
Indices: 63219229--63219256 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
63219219 TGATATGAAG
63219229 TATACAA
1 TATACAA
63219236 TATACAA
1 TATACAA
63219243 TATACAA
1 TATACAA
63219250 TATACAA
1 TATACAA
63219257 GTCAAACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (7 bp):
TATACAA
Found at i:63220662 original size:31 final size:31
Alignment explanation
Indices: 63220627--63220691 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
63220617 GAAACAAGGA
* *
63220627 CAAGTTAGAAGGAATTGAAACTTCATTATTC
1 CAAGTCAGAAGAAATTGAAACTTCATTATTC
*
63220658 CAAGTCAGAAGAAATTGAAACTTCATTTTTC
1 CAAGTCAGAAGAAATTGAAACTTCATTATTC
63220689 CAA
1 CAA
63220692 AAATAGAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (31 bp):
CAAGTCAGAAGAAATTGAAACTTCATTATTC
Found at i:63222000 original size:15 final size:16
Alignment explanation
Indices: 63221980--63222018 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
63221970 TGTTTTTTGA
63221980 TTTCTTTTTTCT-TTT
1 TTTCTTTTTTCTGTTT
63221995 TTTC-TTTTTCTGTTT
1 TTTCTTTTTTCTGTTT
63222010 TTT-TTTTTT
1 TTTCTTTTTT
63222019 TGAGCGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTCTTTTTTCTGTTT
Found at i:63225600 original size:20 final size:20
Alignment explanation
Indices: 63225562--63225600 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
63225552 TGATCTTAAT
*
63225562 ATAATTTATTTTCTCATAAA
1 ATAATTTATTTTCTAATAAA
*
63225582 ATAATTTATTTTTTAATAA
1 ATAATTTATTTTCTAATAA
63225601 TTTTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATTTATTTTCTAATAAA
Found at i:63231890 original size:9 final size:9
Alignment explanation
Indices: 63231873--63231909 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
63231863 TGAGTTTTCG
63231873 AATTCGAAT
1 AATTCGAAT
*
63231882 AACTCGAAT
1 AATTCGAAT
*
63231891 AATTCAAAT
1 AATTCGAAT
63231900 AATTCGAAT
1 AATTCGAAT
63231909 A
1 A
63231910 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:63232157 original size:30 final size:31
Alignment explanation
Indices: 63232121--63232180 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
63232111 AACTTTTTAT
*
63232121 TTTCCCCCCAAAATTTTTAC-TCCCTCCCAC
1 TTTCCCCACAAAATTTTTACTTCCCTCCCAC
* *
63232151 TTTCCCCATAAAATTTTTACTTCCTTCCCA
1 TTTCCCCACAAAATTTTTACTTCCCTCCCA
63232181 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.22, C:0.40, G:0.00, T:0.38
Consensus pattern (31 bp):
TTTCCCCACAAAATTTTTACTTCCCTCCCAC
Found at i:63232757 original size:16 final size:17
Alignment explanation
Indices: 63232721--63232757 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
63232711 GTGATGAAAG
*
63232721 TTAATAAAAAATTTGTC
1 TTAATAAAAAATTTGTA
63232738 TTAATAAAAAATTTG-A
1 TTAATAAAAAATTTGTA
63232754 TTAA
1 TTAA
63232758 GGTGGACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (17 bp):
TTAATAAAAAATTTGTA
Found at i:63239518 original size:15 final size:15
Alignment explanation
Indices: 63239490--63239528 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
63239480 AACAATAATT
*
63239490 AAAATAAATTATTTAA
1 AAAATAAA-AATTTAA
*
63239506 AAATTAAAAATTTAA
1 AAAATAAAAATTTAA
63239521 AAAATAAA
1 AAAATAAA
63239529 TTTACATGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATAAAAATTTAA
Found at i:63240235 original size:5 final size:5
Alignment explanation
Indices: 63240225--63240285 Score: 122
Period size: 5 Copynumber: 12.2 Consensus size: 5
63240215 TATAGAATCA
63240225 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
63240275 ATAAT ATAAT A
1 ATAAT ATAAT A
63240286 ATGTTTTTAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 56 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:63240571 original size:25 final size:26
Alignment explanation
Indices: 63240525--63240579 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
63240515 AGATGTTTAG
63240525 TTACTATTATTTAATATCAATAGT-T
1 TTACTATTATTTAATATCAATAGTAT
* *
63240550 TTACTATTATTTGACT-TTAATAGTAT
1 TTACTATTATTT-AATATCAATAGTAT
63240576 TTAC
1 TTAC
63240580 ATAATTGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (26 bp):
TTACTATTATTTAATATCAATAGTAT
Found at i:63240922 original size:25 final size:25
Alignment explanation
Indices: 63240894--63240943 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
63240884 AATCTCAAGC
63240894 AATTTAGATGTCTTTTCTTTACTTT
1 AATTTAGATGTCTTTTCTTTACTTT
63240919 AATTTAGATGTCTTTTCTTTACTTT
1 AATTTAGATGTCTTTTCTTTACTTT
63240944 TTGTCAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (25 bp):
AATTTAGATGTCTTTTCTTTACTTT
Found at i:63243763 original size:13 final size:13
Alignment explanation
Indices: 63243745--63243776 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
63243735 ATAAAAATGA
63243745 TATATGAAAGAGT
1 TATATGAAAGAGT
*
63243758 TATATGAAATAGT
1 TATATGAAAGAGT
63243771 TATATG
1 TATATG
63243777 GAAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (13 bp):
TATATGAAAGAGT
Found at i:63243841 original size:21 final size:21
Alignment explanation
Indices: 63243801--63243841 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
63243791 ATATGGATTC
*
63243801 TTGAAATGAAAATGTGTGATG
1 TTGAAATGAAAATGTATGATG
63243822 TTGAAA-GAAAATGATATGAT
1 TTGAAATGAAAATG-TATGAT
63243842 TGAGTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (21 bp):
TTGAAATGAAAATGTATGATG
Found at i:63249455 original size:40 final size:40
Alignment explanation
Indices: 63249397--63249653 Score: 333
Period size: 40 Copynumber: 6.5 Consensus size: 40
63249387 CGGATGATAA
* * *
63249397 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
63249437 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
63249477 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
63249517 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
63249557 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
63249597 CCGGGCTATGTCTCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
63249636 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
63249654 TACTTGGCTT
Statistics
Matches: 191, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
38 14 0.07
39 16 0.08
40 161 0.84
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:63263403 original size:32 final size:32
Alignment explanation
Indices: 63263367--63263436 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
63263357 CCTGTGGAAG
*
63263367 ATGACGCTCCCTTTCTCTTCTTCGAGGCAGGT
1 ATGACGCTCCATTTCTCTTCTTCGAGGCAGGT
*
63263399 ATGACGCTCCATTTCTCTTCTTCGAGGTAGGT
1 ATGACGCTCCATTTCTCTTCTTCGAGGCAGGT
63263431 ATGACG
1 ATGACG
63263437 ACCTTTTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (32 bp):
ATGACGCTCCATTTCTCTTCTTCGAGGCAGGT
Found at i:63269815 original size:54 final size:54
Alignment explanation
Indices: 63269733--63269861 Score: 240
Period size: 54 Copynumber: 2.4 Consensus size: 54
63269723 TTGGCAGGAT
*
63269733 TACCAGTCCAGGCTAAATCCCCCATATCATAAACTCATAAGGTGATGTTGGGAC
1 TACCAGTCCAGGCTAAATCCCCCATATCATAAACTCATAAGGTGATGTCGGGAC
*
63269787 TACCAGTCCAGGCTAAATCCCCCATATCATAAACTCATAAGGTGATGTCGGGAT
1 TACCAGTCCAGGCTAAATCCCCCATATCATAAACTCATAAGGTGATGTCGGGAC
63269841 TACCAGTCCAGGCTAAATCCC
1 TACCAGTCCAGGCTAAATCCC
63269862 TTATAGCGAC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (54 bp):
TACCAGTCCAGGCTAAATCCCCCATATCATAAACTCATAAGGTGATGTCGGGAC
Found at i:63279201 original size:40 final size:40
Alignment explanation
Indices: 63279045--63279206 Score: 256
Period size: 40 Copynumber: 4.0 Consensus size: 40
63279035 GATGATAACG
63279045 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* *
63279085 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
63279125 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
63279165 GGGCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
63279205 GG
1 GG
63279207 TTAAATCTCG
Statistics
Matches: 114, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 2 0.02
40 112 0.98
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:63285109 original size:13 final size:13
Alignment explanation
Indices: 63285091--63285123 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
63285081 GGTTGTTTAT
63285091 TAAACTAATTAAC
1 TAAACTAATTAAC
63285104 TAAACTAATTAAC
1 TAAACTAATTAAC
63285117 T-AACTAA
1 TAAACTAA
63285124 ACTAAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:63286183 original size:10 final size:11
Alignment explanation
Indices: 63286157--63286182 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
63286147 GTTTAATCCC
63286157 TTTTTGGCTCG
1 TTTTTGGCTCG
63286168 TTTTTGGCTCG
1 TTTTTGGCTCG
63286179 TTTT
1 TTTT
63286183 GACTCTTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.23, T:0.62
Consensus pattern (11 bp):
TTTTTGGCTCG
Found at i:63291256 original size:42 final size:42
Alignment explanation
Indices: 63291062--63291263 Score: 172
Period size: 42 Copynumber: 4.6 Consensus size: 42
63291052 AAATGCCAAT
* *
63291062 GCCATATCCTAGATATGGTCTTACATGGGATCACATATCGAT
1 GCCATATCCCAGATATGGTCTTACATGGGATCACATATCGAG
* * *** * *
63291104 GCCAATAGCCCAGCTATGGTCTTACACAATG-TCTCATATCGAT
1 GCC-ATATCCCAGATATGGTCTTACA-TGGGATCACATATCGAG
* * * * ** *
63291147 GCCATGTCCCACACATGGTCTTACACGAAATCACATATTGATG
1 GCCATATCCCAGATATGGTCTTACATGGGATCACATATCGA-G
63291190 CTAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATCGAG
1 -----GCCATATCCCAGATATGGTCTTACATGGGATCACATATCGAG
*
63291237 GTCATATCCCAGATATGGTCTTACATG
1 GCCATATCCCAGATATGGTCTTACATG
63291264 AAACCATACA
Statistics
Matches: 124, Mismatches: 27, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
42 55 0.44
43 33 0.27
44 1 0.01
47 1 0.01
48 34 0.27
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACATGGGATCACATATCGAG
Found at i:63292455 original size:21 final size:19
Alignment explanation
Indices: 63292421--63292461 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
63292411 ACAAATATTT
*
63292421 TTACTTTGGATTTGTTGAAA
1 TTACTTTAGATTTGTT-AAA
63292441 TTACTTATAGATTTGTTAAA
1 TTACTT-TAGATTTGTTAAA
63292461 T
1 T
63292462 CAATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (19 bp):
TTACTTTAGATTTGTTAAA
Found at i:63309283 original size:13 final size:13
Alignment explanation
Indices: 63309265--63309290 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63309255 CCTAAGGTTT
63309265 CCATAGAAATTTA
1 CCATAGAAATTTA
63309278 CCATAGAAATTTA
1 CCATAGAAATTTA
63309291 GGGAAGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
CCATAGAAATTTA
Found at i:63311164 original size:46 final size:45
Alignment explanation
Indices: 63311111--63311286 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
63311101 TAATTGGGCA
63311111 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
** *** * *
63311157 TCCGAACTCGTTGAGTTGAGTATGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
63311204 TCCGAGCTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
63311250 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63311287 GCGAGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.63
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:63311277 original size:93 final size:93
Alignment explanation
Indices: 63311107--63311278 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
63311097 AGGATAATTG
* * *
63311107 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
63311172 TTGAGTATGAGTTCGAGAGATGTAACTA
66 TTGAGTACGAGTTCGAGAGATGTAACTA
* *
63311200 GGCATCCGAGCTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
63311265 TTGAGTCCGAGTTC
66 TTGAGTACGAGTTC
63311279 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGACTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTACGAGTTCGAGAGATGTAACTA
Found at i:63316261 original size:58 final size:59
Alignment explanation
Indices: 63316212--63316327 Score: 155
Period size: 61 Copynumber: 2.0 Consensus size: 59
63316202 ATCACATTAA
* *
63316212 TATTAAAATCATATAATACTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAAGC
1 TATTAAAATAATAGAATACTTACTACAAGATAAATATTAGATTAAATTTAATATTAAA-C
* * *
63316270 TATTAAATTAATAGAATACTTATCTACAAGATAAATATTAAATTTAATTTAATATTAA
1 TATTAAAATAATAGAATACTTA-CTACAAGATAAATATTAGATTAAATTTAATATTAA
63316328 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 19 0.38
60 1 0.02
61 30 0.60
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (59 bp):
TATTAAAATAATAGAATACTTACTACAAGATAAATATTAGATTAAATTTAATATTAAAC
Found at i:63316366 original size:25 final size:25
Alignment explanation
Indices: 63316312--63316366 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
63316302 AAATATTAAA
*
63316312 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
63316337 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
63316361 TATTAA
1 T-TTAA
63316367 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:63324094 original size:20 final size:23
Alignment explanation
Indices: 63324053--63324095 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
63324043 TAGATGTTAA
63324053 AATTGGCTTGGTTATAATGTTTG
1 AATTGGCTTGGTTATAATGTTTG
63324076 AATTGGC-TGG-TAT-ATGTTTG
1 AATTGGCTTGGTTATAATGTTTG
63324096 CAAGTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 3 0.15
22 3 0.15
23 7 0.35
ACGTcount: A:0.21, C:0.05, G:0.28, T:0.47
Consensus pattern (23 bp):
AATTGGCTTGGTTATAATGTTTG
Found at i:63341055 original size:42 final size:43
Alignment explanation
Indices: 63340954--63341066 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 43
63340944 CAATGCCGAC
* *
63340954 GTCTCAGACATGGTCTTACATGTAATTCAGTATCGATGCCTCT
1 GTCTCAGACATGGTCTTACATGTAAATCAGTATCGATGCCTAT
* *
63340997 GTC-CTAGATA-GTGTCTTACATG-AAATCAG-ATACGATGCTTAT
1 GTCTC-AGACATG-GTCTTACATGTAAATCAGTAT-CGATGCCTAT
*
63341039 GTCTCAGACATGGTCTTACACGTAAATC
1 GTCTCAGACATGGTCTTACATGTAAATC
63341067 TCAAATCGAG
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
41 2 0.03
42 32 0.55
43 24 0.41
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (43 bp):
GTCTCAGACATGGTCTTACATGTAAATCAGTATCGATGCCTAT
Found at i:63353236 original size:43 final size:43
Alignment explanation
Indices: 63353175--63353267 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
63353165 TCCTAATTGG
63353175 AAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-
1 AAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAT
* *
63353217 AGAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAAT
1 A-AAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAT
63353261 AAAAATA
1 AAAAATA
63353268 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 1 0.02
43 45 0.96
44 1 0.02
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (43 bp):
AAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAT
Found at i:63357969 original size:43 final size:44
Alignment explanation
Indices: 63357908--63358005 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 44
63357898 TCCTAATTGG
*
63357908 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCTCTTATTCTAATAAACTACTAAAACATAAAATA
* *
63357951 GAAAATAGTTCTCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCTCTTATTCTAATAAACTACTAAAACATAAAATA
*
63357995 -AAAATATTTCT
1 GAAAATAGTTCT
63358006 AGAATATGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 49 0.98
44 1 0.02
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (44 bp):
GAAAATAGTTCTCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:63362348 original size:5 final size:5
Alignment explanation
Indices: 63362338--63362384 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
63362328 TATCCAACTC
*
63362338 GAATT GAATT GAATT GCATT GAATT GAATT GAATT GAATT GAATT GA
1 GAATT GAATT GAATT GAATT GAATT GAATT GAATT GAATT GAATT GA
63362385 GTTTCGCAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (5 bp):
GAATT
Found at i:63374775 original size:21 final size:22
Alignment explanation
Indices: 63374737--63374807 Score: 81
Period size: 21 Copynumber: 3.2 Consensus size: 22
63374727 TCAATTGTTT
63374737 AATTAGGGTCTAGCGTTTATTA
1 AATTAGGGTCTAGCGTTTATTA
**
63374759 AATTAGGG-CTATTGTTTATTA
1 AATTAGGGTCTAGCGTTTATTA
* *
63374780 AATTAAGGGTTTAGCGTTTTATTT
1 AATT-AGGGTCTAGCG-TTTATTA
63374804 AATT
1 AATT
63374808 TTTAAGTGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 15 0.38
22 12 0.30
23 3 0.08
24 10 0.25
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.46
Consensus pattern (22 bp):
AATTAGGGTCTAGCGTTTATTA
Found at i:63374878 original size:21 final size:21
Alignment explanation
Indices: 63374853--63374917 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
63374843 GGAAAAATAA
63374853 TTATTATTAGGGTTTTGGGTT
1 TTATTATTAGGGTTTTGGGTT
*
63374874 TTATTATTAAGGTTTTGGG-T
1 TTATTATTAGGGTTTTGGGTT
* *
63374894 TTA-T-TTAGAGTTTAGGGTT
1 TTATTATTAGGGTTTTGGGTT
63374913 TTATT
1 TTATT
63374918 GTTATAGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
18 10 0.26
19 5 0.13
20 5 0.13
21 18 0.47
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.57
Consensus pattern (21 bp):
TTATTATTAGGGTTTTGGGTT
Found at i:63389374 original size:46 final size:46
Alignment explanation
Indices: 63389226--63389584 Score: 232
Period size: 46 Copynumber: 7.7 Consensus size: 46
63389216 TGACTTGTGC
* * * ** *
63389226 GCCAGTGTAAGATATGTCTGGGACATGCATCGGCCACATTATTATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACGATGATA
* * * * **
63389272 GCCAATGTAAGACTATGTCTGGGACATGGCATC-GACATCCAGACGAGG
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCCATAC-GATGATA
* * *
63389320 GCTAGTGTAAGACATATCTGGGACATGCATCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACGATGATA
* * *
63389366 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCACAGA-GATGAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CATACGATGA-TA
* ** *
63389414 GCTAGTGTAAGACATGTCTAAGACATGCATCA-CCTTGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAT-AC-GATGATA
* * * * * *
63389460 GCCAGTGTAAGACGTGTCTGGGACACGCAT-TGGC-TAAGA-GATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACGATGAT-A
* * *
63389504 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCATA-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACGATGATA
*
63389552 GCCAGTGGAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
63389585 GGCAATATAT
Statistics
Matches: 241, Mismatches: 50, Indels: 40
0.73 0.15 0.12
Matches are distributed among these distances:
43 5 0.02
44 29 0.12
45 5 0.02
46 63 0.26
47 60 0.25
48 52 0.22
49 22 0.09
50 5 0.02
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACGATGATA
Found at i:63389392 original size:94 final size:93
Alignment explanation
Indices: 63389229--63389588 Score: 394
Period size: 94 Copynumber: 3.9 Consensus size: 93
63389219 CTTGTGCGCC
* * * * * * *
63389229 AGTGTAAGATATGTCTGGGACATGCATCGGCCACATTATTATAGCCAATGTAAGACTATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
* * *
63389294 GACATGGCATCGACATCCAGACGAGGGCT
66 GACATGGCATCGGCATCAAGA-GAGTGCT
* *
63389323 AGTGTAAGACATATCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGA
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
63389388 GACATGGCATCGGCA-CAGAGATGAGTGCT
66 GACATGGCATCGGCATCA-AGA-GAGTGCT
** * * *
63389417 AGTGTAAGACATGTCTAAGACATGCATCA-CCTTGAC-AGAGATAGCCAGTGTAAGA-CGTGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT-ACTA-TGATAGCCAGTGTAAGACCATGTCT
* *
63389479 GGGACA-CGCATTGGC-T-AAGAGATGTGCT
64 GGGACATGGCATCGGCATCAAGAGA-GTGCT
* *
63389507 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATA-TATGAGAGCCAGTGGAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTATGATAGCCAGTGTAAGACCATGTC
63389571 TGGGACATGGCATCGGCA
63 TGGGACATGGCATCGGCA
63389589 ATATATCCCA
Statistics
Matches: 222, Mismatches: 31, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
89 2 0.01
90 35 0.16
91 1 0.00
92 21 0.09
93 31 0.14
94 132 0.59
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCATCAAGAGAGTGCT
Found at i:63391709 original size:80 final size:80
Alignment explanation
Indices: 63391598--63391778 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
63391588 CTCATTCAAT
* * *
63391598 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
63391661 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
63391677 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
63391741 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
63391758 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
63391779 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:63391738 original size:40 final size:40
Alignment explanation
Indices: 63391595--63391778 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
63391585 TAACTCATTC
* *
63391595 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
63391635 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
63391675 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
63391715 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
63391756 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
63391779 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:63399551 original size:80 final size:80
Alignment explanation
Indices: 63399440--63399620 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
63399430 CTCATTCAAT
* * *
63399440 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
63399503 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
63399519 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
63399583 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
63399600 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
63399621 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:63399580 original size:40 final size:40
Alignment explanation
Indices: 63399437--63399620 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
63399427 TAACTCATTC
* *
63399437 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
63399477 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
63399517 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
63399557 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
63399598 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
63399621 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:63485244 original size:37 final size:39
Alignment explanation
Indices: 63485171--63485310 Score: 116
Period size: 37 Copynumber: 3.7 Consensus size: 39
63485161 AGCTCCTCGT
* * *
63485171 TCAAGTGCCTTCGGGACATAGCCCGG-TTTATTAACT-CA
1 TCAA-TGCCTTCGGGACTTAACCCGGATTTATAAACTCCA
63485209 TCAATGCCTTCGGGACTTAACCCGGATTTA-AAACTCGCA
1 TCAATGCCTTCGGGACTTAACCCGGATTTATAAACTC-CA
* * *
63485248 -CGATGCCTTC-GGACTTAACCCGGAATTAGT-ATCTCGCA
1 TCAATGCCTTCGGGACTTAACCCGGATTTA-TAAACTC-CA
*
63485286 -CAAAGGCCTTCGGG-CTTAACCCGGA
1 TC-AATGCCTTCGGGACTTAACCCGGA
63485311 ATTGTATCTC
Statistics
Matches: 87, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
37 40 0.46
38 25 0.29
39 20 0.23
40 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (39 bp):
TCAATGCCTTCGGGACTTAACCCGGATTTATAAACTCCA
Found at i:63485305 original size:39 final size:37
Alignment explanation
Indices: 63485214--63485334 Score: 147
Period size: 38 Copynumber: 3.2 Consensus size: 37
63485204 ACTCATCAAT
* * * *
63485214 GCCTTCGGGACTTAACCCGGATTTA-AAACTCGCACGAT
1 GCCTTCGGG-CTTAACCCGGAATTAGTATCTCGCAC-AA
*
63485252 GCCTTCGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 GCCTTCGGGCTTAACCCGGAATTAGTATCTCGCAC-AA
63485290 GGCCTTCGGGCTTAACCCGGAATT-GTATCTCGCACAA
1 -GCCTTCGGGCTTAACCCGGAATTAGTATCTCGCACAA
63485327 GCCTTCGG
1 GCCTTCGG
63485335 ATCTTAGTCC
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
36 8 0.11
37 16 0.22
38 28 0.38
39 22 0.30
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (37 bp):
GCCTTCGGGCTTAACCCGGAATTAGTATCTCGCACAA
Found at i:63485322 original size:76 final size:77
Alignment explanation
Indices: 63485214--63485387 Score: 196
Period size: 76 Copynumber: 2.3 Consensus size: 77
63485204 ACTCATCAAT
* *
63485214 GCCTTCGGGACTTAACCCGGATTTAAAACTCGCACGATGCCTTCGGA-CTTAACCCGGA-ATTAG
1 GCCTTCGGGACTTAACCCGGAATTAAAACTCGCAC-AAGCCTTCGGATCTTAACCCGGATA-TAG
*
63485277 T-A-TCTCGCACAAA
64 TCACT-TAGCACAAA
** * **
63485290 GGCCTTCGGG-CTTAACCCGGAATTGTATCTCGCACAAGCCTTCGGATCTTAGTCCGGATATAGT
1 -GCCTTCGGGACTTAACCCGGAATTAAAACTCGCACAAGCCTTCGGATCTTAACCCGGATATAGT
63485354 CACTTAGCACAAA
65 CACTTAGCACAAA
*
63485367 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
63485388 CAGCATTCAA
Statistics
Matches: 83, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
75 10 0.12
76 43 0.52
77 29 0.35
78 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (77 bp):
GCCTTCGGGACTTAACCCGGAATTAAAACTCGCACAAGCCTTCGGATCTTAACCCGGATATAGTC
ACTTAGCACAAA
Found at i:63488565 original size:39 final size:38
Alignment explanation
Indices: 63488482--63488603 Score: 151
Period size: 39 Copynumber: 3.2 Consensus size: 38
63488472 GGACTAAGAT
* *
63488482 CGAAGGCATT-TGTCGATTACTAATTCCGGGCTAAG-CC
1 CGAAGGCATTGTG-CGAGTACTAAATCCGGGCTAAGTCC
*
63488519 CGAAGGCATTGTGCGAGTATCTAAATCCGGGTTAAGTCC
1 CGAAGGCATTGTGCGAGTA-CTAAATCCGGGCTAAGTCC
* *
63488558 CGAAGGCATTGTGCGAGTACTATAAACCGGGCTATGT-C
1 CGAAGGCATTGTGCGAGTACTA-AATCCGGGCTAAGTCC
63488596 CGAAGGCA
1 CGAAGGCA
63488604 CTTGAACGAG
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
37 15 0.20
38 28 0.37
39 32 0.43
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (38 bp):
CGAAGGCATTGTGCGAGTACTAAATCCGGGCTAAGTCC
Found at i:63488623 original size:77 final size:76
Alignment explanation
Indices: 63488482--63488624 Score: 164
Period size: 77 Copynumber: 1.9 Consensus size: 76
63488472 GGACTAAGAT
* ** ** * *
63488482 CGAAGGCATTTGTCGATTACTAATTCCGGGCTAAGCCCGAAGGCATTGTGCGAGTATCTAAATCC
1 CGAAGGCATTTGTCGAGTACTAAAACCGGGCTAAGCCCGAAGGCATTGAACGAGGAGCTAAATCC
63488547 GGGTTAAGTCC
66 GGGTTAAGTCC
* *
63488558 CGAAGGCA-TTGTGCGAGTACTATAAACCGGGCTATGTCCGAAGGCACTTGAACGAGGAGCT-AA
1 CGAAGGCATTTGT-CGAGTACTA-AAACCGGGCTAAGCCCGAAGGCA-TTGAACGAGGAGCTAAA
63488621 TCCG
63 TCCG
63488625 TTCAATTCCG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
75 4 0.07
76 16 0.29
77 25 0.45
78 10 0.18
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (76 bp):
CGAAGGCATTTGTCGAGTACTAAAACCGGGCTAAGCCCGAAGGCATTGAACGAGGAGCTAAATCC
GGGTTAAGTCC
Found at i:63490008 original size:14 final size:14
Alignment explanation
Indices: 63489989--63490042 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
63489979 CAATGAATTT
63489989 ATTGAATTATATTG
1 ATTGAATTATATTG
*
63490003 ATTGAATTATTTTG
1 ATTGAATTATATTG
63490017 A-TGAATTTATATTG
1 ATTGAA-TTATATTG
63490031 ATTGAATTATAT
1 ATTGAATTATAT
63490043 AATATTATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
13 4 0.11
14 28 0.78
15 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (14 bp):
ATTGAATTATATTG
Found at i:63490468 original size:21 final size:21
Alignment explanation
Indices: 63490442--63490493 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
63490432 TTTCAGCAAC
*
63490442 CGTGTGTCGTATCAGGCACCT
1 CGTGTGTCGTATCAGACACCT
63490463 CGTGTGTCGTATCAGACACCT
1 CGTGTGTCGTATCAGACACCT
63490484 CGTGTGTCGT
1 CGTGTGTCGT
63490494 TTAGCACTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.13, C:0.27, G:0.29, T:0.31
Consensus pattern (21 bp):
CGTGTGTCGTATCAGACACCT
Found at i:63490692 original size:19 final size:20
Alignment explanation
Indices: 63490670--63490713 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
63490660 AATTAGAAAC
63490670 GAAAAATT-GA-ATGAGAATT
1 GAAAAATTAGATATGA-AATT
*
63490689 GAAAATTTAGATATGAAATT
1 GAAAAATTAGATATGAAATT
63490709 GAAAA
1 GAAAA
63490714 TTATGAACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 11 0.50
21 4 0.18
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (20 bp):
GAAAAATTAGATATGAAATT
Found at i:63492314 original size:39 final size:39
Alignment explanation
Indices: 63492262--63492428 Score: 189
Period size: 39 Copynumber: 4.3 Consensus size: 39
63492252 GGACTAAGAT
*
63492262 CCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGTTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGTTAAGC
* *
63492301 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGC
* *
63492340 CCGAAGGCATTCGTGCGAG-TATTAAATCC-GGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAG-C
* * * * * *
63492378 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGC
63492416 CCGAAGGCATTTG
1 CCGAAGGCATTTG
63492429 AACGAGGAGC
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
37 14 0.13
38 35 0.32
39 58 0.53
40 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGC
Found at i:63492382 original size:38 final size:38
Alignment explanation
Indices: 63492209--63492428 Score: 177
Period size: 39 Copynumber: 5.7 Consensus size: 38
63492199 TTGAATGCTG
* * *
63492209 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGT--ATAAA
**
63492249 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-ATACAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTATA-AA
*
63492287 GTTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAA
1 --TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TA-TAAA
*
63492328 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTA-TAAA
*
63492366 TCC-GGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TA-TAAA
* * *
63492404 ACCGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
63492429 AACGAGGAGC
Statistics
Matches: 151, Mismatches: 15, Indels: 29
0.77 0.08 0.15
Matches are distributed among these distances:
37 18 0.12
38 36 0.24
39 55 0.36
40 29 0.19
41 11 0.07
42 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTATAAA
Found at i:63492403 original size:76 final size:77
Alignment explanation
Indices: 63492208--63492426 Score: 239
Period size: 76 Copynumber: 2.8 Consensus size: 77
63492198 ATTGAATGCT
* * * * * *
63492208 GTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 GTCCGGGTTAAGTCCCGAAGGCTTTGTG-TGAGTTACTAAATCCGGGCTAAG-TCCGAAGGCATT
*
63492273 TGTGCGAGATACAA
64 CGTGCGAGATACAA
* * *
63492287 GTTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATT
1 G-TCCGGGTTAAGTCCCGAAGG-CTTTGTGTGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATT
63492351 CGTGCGAGTATTA-AA
64 CGTGCGAG-A-TACAA
* * *
63492366 -TCC-GGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCGAAGGCATT
1 GTCCGGGTTAAGTCCCGAAGGCTTTGTGTGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATT
63492427 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
76 43 0.36
77 11 0.09
78 19 0.16
79 27 0.23
80 19 0.16
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (77 bp):
GTCCGGGTTAAGTCCCGAAGGCTTTGTGTGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTCG
TGCGAGATACAA
Found at i:63498513 original size:23 final size:21
Alignment explanation
Indices: 63498471--63498524 Score: 51
Period size: 23 Copynumber: 2.5 Consensus size: 21
63498461 AGATTCACTC
63498471 ATATTATTTTTTTTAAAAATATT
1 ATATTATTTTTTTT-AAAAT-TT
63498494 ATATTATTTTTAATTT-AAATTT
1 ATATTATTTTT--TTTAAAATTT
63498516 A-A-TATTTTT
1 ATATTATTTTT
63498525 GTATGTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 7 0.24
21 1 0.03
22 3 0.10
23 15 0.52
25 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
ATATTATTTTTTTTAAAATTT
Found at i:63499575 original size:11 final size:11
Alignment explanation
Indices: 63499561--63499589 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
63499551 ATAAGTATAT
63499561 AATAATTTAAA
1 AATAATTTAAA
63499572 AATAA-TTAAA
1 AATAATTTAAA
63499582 AATAATTT
1 AATAATTT
63499590 TTTAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATAATTTAAA
Found at i:63501269 original size:20 final size:22
Alignment explanation
Indices: 63501241--63501286 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
63501231 ATAATGTAAC
**
63501241 AAATGTT-AACTTTTTGTAAAA
1 AAATGTTAAACTTTAAGTAAAA
63501262 AAAT-TTAAACTTTAAGTAAAA
1 AAATGTTAAACTTTAAGTAAAA
63501283 AAAT
1 AAAT
63501287 ATAAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (22 bp):
AAATGTTAAACTTTAAGTAAAA
Found at i:63502265 original size:31 final size:30
Alignment explanation
Indices: 63502204--63502261 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
63502194 AAGATCAATC
63502204 GGTCAAGAGTTGGGAAAAAGGGAAAAAATA
1 GGTCAAGAGTTGGGAAAAAGGGAAAAAATA
63502234 GGTCAAGAGTTGGGAAAAAGGGAAAAAA
1 GGTCAAGAGTTGGGAAAAAGGGAAAAAA
63502262 ATAGCTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.34, T:0.12
Consensus pattern (30 bp):
GGTCAAGAGTTGGGAAAAAGGGAAAAAATA
Found at i:63502471 original size:46 final size:46
Alignment explanation
Indices: 63502399--63502503 Score: 187
Period size: 46 Copynumber: 2.3 Consensus size: 46
63502389 TAGATTATGA
63502399 ATGTT-ATTTTT-TTTGTTTTTGATTTATTTTACAAATAGTTCTTT
1 ATGTTGATTTTTATTTGTTTTTGATTTATTTTACAAATAGTTCTTT
*
63502443 ATGTTGATTTTTATTTGTTTTTTATTTATTTTACAAATAGTTCTTT
1 ATGTTGATTTTTATTTGTTTTTGATTTATTTTACAAATAGTTCTTT
63502489 ATGTTGATTTTTATT
1 ATGTTGATTTTTATT
63502504 GAGATTTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
44 5 0.09
45 6 0.10
46 47 0.81
ACGTcount: A:0.21, C:0.04, G:0.10, T:0.66
Consensus pattern (46 bp):
ATGTTGATTTTTATTTGTTTTTGATTTATTTTACAAATAGTTCTTT
Found at i:63504713 original size:43 final size:45
Alignment explanation
Indices: 63504645--63504772 Score: 167
Period size: 45 Copynumber: 2.9 Consensus size: 45
63504635 CTTTTATTCA
* * * *
63504645 TTCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCCGGTATCAT-
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGGAATAATG
63504687 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCC-GAATAATG
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGGAATAATG
*
63504731 TCTCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCC-GAATA
1 T-TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGGAATA
63504773 TAATACCAGC
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
42 12 0.16
43 19 0.25
44 7 0.09
45 39 0.51
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.23
Consensus pattern (45 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGGAATAATG
Found at i:63504812 original size:38 final size:38
Alignment explanation
Indices: 63504765--63504914 Score: 210
Period size: 38 Copynumber: 3.9 Consensus size: 38
63504755 GGCTCAAAGG
* * * *
63504765 CCCGAATATAATACCAGCACTAGGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
63504803 CCCGGATATAATACCAGTACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
63504841 CCTGGATATATTACCAGTACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
63504879 CCCGGTTATATTACCAGCACGAAGCCTGCGGGATTT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
63504915 TAAGCCCAGA
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 102 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:63516059 original size:21 final size:22
Alignment explanation
Indices: 63516019--63516059 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
63516009 ATATTTTCTA
* *
63516019 AATTATTAAAATTTTTAATTAG
1 AATTATTAAAATATTAAATTAG
63516041 AATT-TTAAAATATTAAATT
1 AATTATTAAAATATTAAATT
63516060 TTATGTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AATTATTAAAATATTAAATTAG
Found at i:63516501 original size:263 final size:262
Alignment explanation
Indices: 63515972--63516501 Score: 997
Period size: 262 Copynumber: 2.0 Consensus size: 262
63515962 ACATATAAAT
*
63515972 TTATTTAAATTATTTTAATATTTTAAATTTAAAAATAATATTTTCTAAATTATTAAAATTTTTAA
1 TTATTTAAATTATTTTAATATTTTAAATTTAAAAATAATATTTTCTAAATTATTAAAAATTTTAA
*
63516037 TTAGAATTTTAAAATATTAAATTTTATGTAAATATGTTTATTTAAAAATTATTATACAAAAAATT
66 TTAGAATTTTAAAATATTAAATTTTATGTAAATATGTTTATTTAAAAAATATTATACAAAAAATT
* *
63516102 CTAGAATAGTCTGCCTCATGGCACGTCTTTGTCTGCTCTGAAGTAGCACAATTTTAGAGTTTTTT
131 CTAGAATAGTCTACCTCATGGCACGTCTCTGTCTGCTCTGAAGTAGCACAATTTTAGAGTTTTTT
63516167 TTTTAAAGTTTTCCTGTCATTAGTTCTAGGGTTTTTGTTATCTAGTTTCTAGATCTCACATCTCC
196 TTTTAAAGTTTTCCTGTCATTAGTTCTAGGGTTTTTGTTATCTAGTTTCTAGATCTCACATCTCC
63516232 CA
261 CA
63516234 TTATTTAAATTATTTTAATATTTTAAATTTAAAAATAATATTTTCTAAATTATTAAAAATTTTAA
1 TTATTTAAATTATTTTAATATTTTAAATTTAAAAATAATATTTTCTAAATTATTAAAAATTTTAA
63516299 TTAGAATTTTAAAATATTAAATTTTATGTAAATATGTTTATTTAAAAAATATTATACAAAAAATT
66 TTAGAATTTTAAAATATTAAATTTTATGTAAATATGTTTATTTAAAAAATATTATACAAAAAATT
63516364 CTAGAATAGTCTACCTCATGGCACGTCTCTGTCTGCTCTGAAGTAGCACAATTTTAGAGTTTTTT
131 CTAGAATAGTCTACCTCATGGCACGTCTCTGTCTGCTCTGAAGTAGCACAATTTTAGAG-TTTTT
* *
63516429 TTTTTAAAGTTTTCCTGTCATTAGTTCTAGGGTTTTTGTTATCTAGTTTCTAGATCTTACGTCTC
195 TTTTTAAAGTTTTCCTGTCATTAGTTCTAGGGTTTTTGTTATCTAGTTTCTAGATCTCACATCTC
63516494 CCA
260 CCA
63516497 TTATT
1 TTATT
63516502 CTATTGTGTC
Statistics
Matches: 261, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
262 185 0.71
263 76 0.29
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (262 bp):
TTATTTAAATTATTTTAATATTTTAAATTTAAAAATAATATTTTCTAAATTATTAAAAATTTTAA
TTAGAATTTTAAAATATTAAATTTTATGTAAATATGTTTATTTAAAAAATATTATACAAAAAATT
CTAGAATAGTCTACCTCATGGCACGTCTCTGTCTGCTCTGAAGTAGCACAATTTTAGAGTTTTTT
TTTTAAAGTTTTCCTGTCATTAGTTCTAGGGTTTTTGTTATCTAGTTTCTAGATCTCACATCTCC
CA
Found at i:63521472 original size:46 final size:46
Alignment explanation
Indices: 63521419--63521594 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
63521409 TATTTGGGCA
63521419 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
63521465 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
63521512 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
63521558 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63521595 GCAGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.60
47 32 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:63521574 original size:93 final size:93
Alignment explanation
Indices: 63521415--63521587 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
63521405 GGGATATTTG
* * *
63521415 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
63521480 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
63521508 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
63521573 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
63521588 CTTATGGGCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:63523594 original size:17 final size:19
Alignment explanation
Indices: 63523565--63523600 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
63523555 TTAGCATTCT
63523565 TACCAAGAGTTCAT-CTCA
1 TACCAAGAGTTCATACTCA
63523583 TACCAA-AGTTCATACTCA
1 TACCAAGAGTTCATACTCA
63523601 CGAGTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (19 bp):
TACCAAGAGTTCATACTCA
Found at i:63537412 original size:25 final size:24
Alignment explanation
Indices: 63537379--63537432 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
63537369 AATAAAAATT
*
63537379 ATTAATAATTCAAT-GAATTAAAAA
1 ATTAATAATTCAATAAAATT-AAAA
*
63537403 ATTAATTAATTGAATAAAATTAAAA
1 ATTAA-TAATTCAATAAAATTAAAA
63537428 ATTAA
1 ATTAA
63537433 GAGAAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.19
25 17 0.65
26 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (24 bp):
ATTAATAATTCAATAAAATTAAAA
Found at i:63538132 original size:22 final size:21
Alignment explanation
Indices: 63538103--63538146 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
63538093 TGCTAAGTTG
63538103 ATAAAGAT-TAATATATAAATT
1 ATAAAGATATAAT-TATAAATT
*
63538124 ATAATAGATATAATTATAGATT
1 ATAA-AGATATAATTATAAATT
63538146 A
1 A
63538147 GAGATTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 12 0.60
23 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (21 bp):
ATAAAGATATAATTATAAATT
Found at i:63538503 original size:41 final size:41
Alignment explanation
Indices: 63538456--63538545 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
63538446 AAATCAAAGA
63538456 TTAAAATCTCTACTTAGAGAATAATTTTTAGGAAAATTATG
1 TTAAAATCTCTACTTAGAGAATAATTTTTAGGAAAATTATG
*
63538497 TTAAAATCTCTATTTAGAGAATAATTTTTAGGAAAATTATG
1 TTAAAATCTCTACTTAGAGAATAATTTTTAGGAAAATTATG
63538538 TTAAAATC
1 TTAAAATC
63538546 AATTCTCGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (41 bp):
TTAAAATCTCTACTTAGAGAATAATTTTTAGGAAAATTATG
Found at i:63552657 original size:22 final size:22
Alignment explanation
Indices: 63552643--63552686 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
63552633 TTAAAAGATG
63552643 GTCAAAAACTATTTAAAAACTA
1 GTCAAAAACTATTTAAAAACTA
63552665 GTCAAAAACTATTTAAAAACTA
1 GTCAAAAACTATTTAAAAACTA
63552687 AGTAGATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.27
Consensus pattern (22 bp):
GTCAAAAACTATTTAAAAACTA
Found at i:63552660 original size:11 final size:11
Alignment explanation
Indices: 63552646--63552686 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
63552636 AAAGATGGTC
63552646 AAAAACTATTT
1 AAAAACTATTT
* *
63552657 AAAAACTAGTC
1 AAAAACTATTT
63552668 AAAAACTATTT
1 AAAAACTATTT
63552679 AAAAACTA
1 AAAAACTA
63552687 AGTAGATGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (11 bp):
AAAAACTATTT
Found at i:63553195 original size:29 final size:29
Alignment explanation
Indices: 63553153--63553209 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
63553143 AAGAATAAAC
63553153 ATGCACTGATTAAGTACTGTGTTAATTAT
1 ATGCACTGATTAAGTACTGTGTTAATTAT
*
63553182 ATGCACTGATTAAGTACTTTGTTAATTA
1 ATGCACTGATTAAGTACTGTGTTAATTA
63553210 ATTACAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.42
Consensus pattern (29 bp):
ATGCACTGATTAAGTACTGTGTTAATTAT
Found at i:63561558 original size:46 final size:46
Alignment explanation
Indices: 63561502--63561627 Score: 216
Period size: 46 Copynumber: 2.7 Consensus size: 46
63561492 TGGTTGAGCA
*
63561502 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
63561548 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
63561594 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
63561628 GGGGCGGGTT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:63562574 original size:37 final size:37
Alignment explanation
Indices: 63562515--63562623 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
63562505 AGCTCAGAAG
* *
63562515 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
63562552 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
63562589 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
63562624 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:63562894 original size:48 final size:48
Alignment explanation
Indices: 63562770--63563160 Score: 622
Period size: 48 Copynumber: 8.1 Consensus size: 48
63562760 GCACATCACC
* *
63562770 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATGTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
63562820 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
63562868 TACATATTTCACATTAGCCATTCGGCTTTACCACATACACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
63562916 TACATATTTCACATTAGCCATTTGGCTTTACCATATATACATATCTCG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
63562964 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
63563012 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCC
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
63563060 TAAATATTTCACATTAGCCATTTGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
63563108 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
63563156 TACAT
1 TACAT
63563161 CAATTTCAGC
Statistics
Matches: 317, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
48 274 0.86
49 2 0.01
50 41 0.13
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:63572821 original size:46 final size:45
Alignment explanation
Indices: 63572771--63572942 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 45
63572761 TGGTTGAGCA
63572771 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * * *
63572817 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
*
63572863 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
63572909 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTA
63572943 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 94 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:63572925 original size:92 final size:92
Alignment explanation
Indices: 63572768--63572937 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
63572758 GGATGGTTGA
* * *
63572768 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
63572833 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
* *
63572860 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
63572925 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
63572938 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:63581528 original size:21 final size:21
Alignment explanation
Indices: 63581502--63581544 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
63581492 GCTTTCCATA
63581502 ATATTATTTCATATTACATGT
1 ATATTATTTCATATTACATGT
63581523 ATATTATTTCATATTACATGT
1 ATATTATTTCATATTACATGT
63581544 A
1 A
63581545 CACTTTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (21 bp):
ATATTATTTCATATTACATGT
Found at i:63581846 original size:25 final size:23
Alignment explanation
Indices: 63581814--63581864 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
63581804 AAGGGAAACC
* *
63581814 TCACAAGAGCCATAATCGGGAAGT
1 TCACAAGAACCAT-ATCGAGAAGT
*
63581838 TCACAAAGAACCATGTCGAGAAGT
1 TCAC-AAGAACCATATCGAGAAGT
63581862 TCA
1 TCA
63581865 AGCGAGCACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (23 bp):
TCACAAGAACCATATCGAGAAGT
Found at i:63587652 original size:40 final size:40
Alignment explanation
Indices: 63587414--63587638 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
63587404 TTGAATGATG
* * * *
63587414 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
63587454 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
63587494 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
63587533 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
63587573 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
63587614 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
63587639 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:63587660 original size:119 final size:119
Alignment explanation
Indices: 63587414--63587661 Score: 290
Period size: 119 Copynumber: 2.1 Consensus size: 119
63587404 TTGAATGATG
* *
63587414 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
63587479 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
63587533 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
63587596 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
63587653 TCC-GGTTAA
1 TCCGGGTTAA
63587662 ATTCGAAGGT
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 76 0.69
120 31 0.28
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:63594573 original size:40 final size:40
Alignment explanation
Indices: 63594342--63594566 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
63594332 TTGAATGATG
* * * *
63594342 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
63594382 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
63594422 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
63594461 TCCGGGTTAAATCTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
63594501 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
63594542 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
63594567 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 32 0.20
40 117 0.74
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:63598860 original size:22 final size:22
Alignment explanation
Indices: 63598816--63598860 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
63598806 ATCAAAAATC
*
63598816 CTACCCAACCAGCCTCTATACT
1 CTACCCAACCAGCCTCTACACT
63598838 CTACTCCAACCAGCC-CTACACT
1 CTAC-CCAACCAGCCTCTACACT
63598860 C
1 C
63598861 CATGTGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.27, C:0.49, G:0.04, T:0.20
Consensus pattern (22 bp):
CTACCCAACCAGCCTCTACACT
Found at i:63602079 original size:29 final size:29
Alignment explanation
Indices: 63602038--63602119 Score: 114
Period size: 29 Copynumber: 2.9 Consensus size: 29
63602028 GACTGTAAAA
63602038 GTGATTGGGCCTAGTGGGCCATATAG-AT
1 GTGATTGGGCCTAGTGGGCCATATAGAAT
*
63602066 GTGATTTGGGCCTAATGGGCCATAT-GAAT
1 GTGA-TTGGGCCTAGTGGGCCATATAGAAT
* *
63602095 GAGATTGGGCCTAGTTGGCCATATA
1 GTGATTGGGCCTAGTGGGCCATATA
63602120 CAAATATGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 23 0.49
29 24 0.51
ACGTcount: A:0.23, C:0.15, G:0.33, T:0.29
Consensus pattern (29 bp):
GTGATTGGGCCTAGTGGGCCATATAGAAT
Found at i:63610429 original size:55 final size:53
Alignment explanation
Indices: 63610363--63610494 Score: 138
Period size: 53 Copynumber: 2.5 Consensus size: 53
63610353 GCAAGGAAAT
* * *
63610363 CATGAAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCC
1 CATGTAAGACCATGTCAAGACATGGCAATGAT-AACTAC-ATAAGGCAAAGATAC
* ** * * * *
63610418 CATGTAAGACCATGCCAAGGTATGGCAATGATGAGTTCATAAGGCAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAAGATAC
* *
63610471 CACGTAAGACCATTTCAAGACATG
1 CATGTAAGACCATGTCAAGACATG
63610495 AAAATGGTAA
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
53 32 0.52
54 3 0.05
55 27 0.44
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCAATGATAACTACATAAGGCAAAGATAC
Found at i:63613494 original size:31 final size:31
Alignment explanation
Indices: 63613454--63613563 Score: 202
Period size: 31 Copynumber: 3.5 Consensus size: 31
63613444 TTTAACGGTT
63613454 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
63613485 ATTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
63613516 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
63613547 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
63613564 ACTGTAAATG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:63613634 original size:42 final size:42
Alignment explanation
Indices: 63613587--63613678 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
63613577 TGGCCCATAG
* ** *
63613587 GCCCATTTCAATATCACATGTAATGTCAATGCATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
63613629 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
63613671 GCCCATTT
1 GCCCATTT
63613679 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:63613888 original size:26 final size:26
Alignment explanation
Indices: 63613811--63613972 Score: 215
Period size: 26 Copynumber: 6.3 Consensus size: 26
63613801 CTGGAGGCCT
63613811 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
* **
63613835 AGCCCTTTCCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
*
63613860 AGCCATTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** *
63613886 AGCCCTTTTCGGTAAACTGGAGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
63613912 AGCCCTTTTCAATAAATTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
63613938 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
63613964 AGCCCTTTT
1 AGCCCTTTT
63613973 GCACTTCTTC
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
23 4 0.03
24 5 0.04
25 31 0.26
26 79 0.66
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:63614051 original size:20 final size:20
Alignment explanation
Indices: 63614022--63614108 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
63614012 TTATGAATAC
63614022 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
63614042 ATCATATGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
63614062 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
63614082 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
63614102 ATCATGT
1 ATCATGT
63614109 ATATTATATC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:63614877 original size:27 final size:27
Alignment explanation
Indices: 63614816--63614879 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
63614806 GGCGTATTCA
63614816 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
63614843 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
63614870 TCTTTTTACC
1 TCATTTTACC
63614880 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:63614979 original size:54 final size:54
Alignment explanation
Indices: 63614913--63615043 Score: 165
Period size: 54 Copynumber: 2.4 Consensus size: 54
63614903 CATCCTACAA
* * * * *** *
63614913 GGGTGTTTTGGTAAATCTACAAATT-AAGGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAATTGAA-GGTATTTCGGTAATTTCACAAACCAG
63614967 GGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAACCAG
*
63615021 TGGTATTTTGGTAATTTTACAAA
1 GGGTATTTTGGTAATTTTACAAA
63615044 CTAGGAGTGT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
54 65 0.97
55 2 0.03
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCGGTAATTTCACAAACCAG
Found at i:63615044 original size:27 final size:26
Alignment explanation
Indices: 63614912--63615063 Score: 108
Period size: 27 Copynumber: 5.7 Consensus size: 26
63614902 TCATCCTACA
* * * **
63614912 AGGGTGTTTTGGTAAATCTACAAATTA
1 AGGGTATTTTGGTAATTTTACAAA-CC
** *
63614939 AGGGTATTTCT-GTAATTTTGTAAATC
1 AGGGTATTT-TGGTAATTTTACAAACC
**
63614965 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTACAAA-CC
* * *
63614993 AAGGTATTTCGGTAATTTCACAAACC
1 AGGGTATTTTGGTAATTTTACAAACC
*
63615019 AGTGGTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAACC
*
63615046 AGGAGTGTTTTGGTAATT
1 AGG-GTATTTTGGTAATT
63615064 CTACCGTATA
Statistics
Matches: 100, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
26 5 0.05
27 92 0.92
28 3 0.03
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACC
Found at i:63615103 original size:27 final size:27
Alignment explanation
Indices: 63614961--63615103 Score: 94
Period size: 27 Copynumber: 5.3 Consensus size: 27
63614951 TAATTTTGTA
*
63614961 AATC-AGGGGTATTTTGGTAATTTTAC
1 AATCGAGGGGTATTTTGGTAATTTCAC
* * *
63614987 AAATTGA-AGGTATTTCGGTAATTTCAC
1 -AATCGAGGGGTATTTTGGTAATTTCAC
* * * *
63615014 AAACCAGTGGTATTTTGGTAATTTTAC
1 AATCGAGGGGTATTTTGGTAATTTCAC
* * * *
63615041 AAACTAGGAGTGTTTTGGTAA-TTCTAC
1 AATCGAGGGGTATTTTGGTAATTTC-AC
** ** *
63615068 CGTATAGGGGTATTTTAGTAATTTCAC
1 AATCGAGGGGTATTTTGGTAATTTCAC
63615095 AATCGAGGG
1 AATCGAGGG
63615104 TAAAACAGTA
Statistics
Matches: 86, Mismatches: 26, Indels: 8
0.72 0.22 0.07
Matches are distributed among these distances:
26 5 0.06
27 77 0.90
28 4 0.05
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (27 bp):
AATCGAGGGGTATTTTGGTAATTTCAC
Found at i:63615125 original size:27 final size:27
Alignment explanation
Indices: 63615095--63615186 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
63615085 GTAATTTCAC
* *
63615095 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
* *
63615122 AATCAAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
* *
63615149 AATCGAGAGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
63615176 AATCGAGGGTA
1 AATCGAGGGTA
63615187 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.46, C:0.09, G:0.18, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:63615196 original size:27 final size:27
Alignment explanation
Indices: 63615111--63615386 Score: 101
Period size: 27 Copynumber: 10.1 Consensus size: 27
63615101 GGGTAAAACA
* * * ** *
63615111 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAATTTG
* ****
63615138 GTAATTCTATAAATCGAGAGTAAAACA
1 GTAATTCTATAAATCGAGGGTAATTTG
* *
63615165 ATAATTCTATAAATCGAGGGTACTTTG
1 GTAATTCTATAAATCGAGGGTAATTTG
* *
63615192 GTAATT-TTTACAAGTCGAGGGT-ATTTCA
1 GTAATTCTATA-AA-TCGAGGGTAATTT-G
* * * * * *
63615220 GTAATTTTACAAGTCAGGGGGTATTTTA
1 GTAATTCTATAAATC-GAGGGTAATTTG
* * * * *
63615248 GTAATTTTACAAA-CTAGGGGTATTTTA
1 GTAATTCTATAAATCGA-GGGTAATTTG
* * **
63615275 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAATTTG
* * * **
63615302 ATAATTCTATAAATTGATGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAATTTG
* **
63615329 GTAATTCTATAAATCGAGCGTAGA-ACG
1 GTAATTCTATAAATCGAGGGTA-ATTTG
* * *
63615356 GTAATTCTGTAAATCGGGGGTACTTTG
1 GTAATTCTATAAATCGAGGGTAATTTG
63615383 GTAA
1 GTAA
63615387 ACTAAAGTAT
Statistics
Matches: 192, Mismatches: 47, Indels: 20
0.74 0.18 0.08
Matches are distributed among these distances:
26 3 0.02
27 148 0.77
28 36 0.19
29 5 0.03
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAATTTG
Found at i:63615210 original size:28 final size:26
Alignment explanation
Indices: 63615178--63615296 Score: 105
Period size: 27 Copynumber: 4.3 Consensus size: 26
63615168 ATTCTATAAA
*
63615178 TCGAGGGTACTTTGGTAATTTTTACAAG
1 TCGAGGGTA-TTTAGTAA-TTTTACAAG
63615206 TCGAGGGTATTTCAGTAATTTTACAAG
1 TCGAGGGTATTT-AGTAATTTTACAAG
*
63615233 TCAGGGGGTATTTTAGTAATTTTACAA-
1 TC-GAGGGTA-TTTAGTAATTTTACAAG
* * ** *
63615260 ACTAGGGGTATTTTAGTAATTTTGTAAA
1 TCGA-GGGTA-TTTAGTAATTTTACAAG
63615288 TCGAGGGTA
1 TCGAGGGTA
63615297 AAATGATAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
27 40 0.52
28 34 0.44
29 3 0.04
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (26 bp):
TCGAGGGTATTTAGTAATTTTACAAG
Found at i:63628229 original size:40 final size:40
Alignment explanation
Indices: 63628155--63628256 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
63628145 AACCCAAGTA
* *
63628155 CCTTCGGGAT-TTAG-CCGGATATAGCAACTCGCACACATG
1 CCTTCGGG-TCTTAGCCCGGATATAGCAACTAGCACAAATG
63628194 CCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAATG
*
63628234 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
63628257 CATCCGAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
38 1 0.02
39 12 0.21
40 43 0.75
41 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATG
Found at i:63630960 original size:40 final size:39
Alignment explanation
Indices: 63630901--63631121 Score: 248
Period size: 40 Copynumber: 5.6 Consensus size: 39
63630891 CATTTGAATG
* *
63630901 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TT
* * *
63630941 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TT
* * *
63630981 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTT
* *
63631021 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTT
* * * *
63631061 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GTT
63631101 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
63631122 AAACTTGGGT
Statistics
Matches: 160, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 13 0.08
40 144 0.90
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTT
Found at i:63637940 original size:27 final size:27
Alignment explanation
Indices: 63637897--63637967 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 27
63637887 TAAAACATGT
* *
63637897 CATGAAAGAGAAGCCTTCCTGGAGAGA
1 CATGAAAGGGAAGCCTTCCTGGAGAAA
* *
63637924 CATGAAAGGGTAA-CCTTCGTGGTGAAA
1 CATGAAAGGG-AAGCCTTCCTGGAGAAA
*
63637951 TATGAAA-GGAATGCCTT
1 CATGAAAGGGAA-GCCTT
63637968 TTTGGAAAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
25 2 0.06
26 2 0.06
27 30 0.83
28 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.21
Consensus pattern (27 bp):
CATGAAAGGGAAGCCTTCCTGGAGAAA
Found at i:63641093 original size:17 final size:16
Alignment explanation
Indices: 63641059--63641093 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
63641049 ATGTAGCAAA
*
63641059 GAAAATTTTGGGGATG
1 GAAAATTTTGGAGATG
63641075 GAAAATTTTGAGAGATG
1 GAAAATTTTG-GAGATG
63641092 GA
1 GA
63641094 CATTTAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.34, T:0.29
Consensus pattern (16 bp):
GAAAATTTTGGAGATG
Found at i:63651569 original size:16 final size:16
Alignment explanation
Indices: 63651550--63651580 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63651540 CTTCTTCACT
63651550 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
63651566 TACTTACTTACTTAA
1 TACTCACTTACTTAA
63651581 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:63651586 original size:20 final size:20
Alignment explanation
Indices: 63651547--63651586 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
63651537 AAACTTCTTC
* *
63651547 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
63651567 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
63651587 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:63652513 original size:41 final size:41
Alignment explanation
Indices: 63652458--63652684 Score: 305
Period size: 41 Copynumber: 5.5 Consensus size: 41
63652448 TCAGTGAAAT
63652458 TCAGGCTTTATTGCCTAGCAGGCTTTGTACCGGTGTATTATA
1 TCAGGC-TTATTGCCTAGCAGGCTTTGTACCGGTGTATTATA
* * *
63652500 TCAGGCTTATTGCCTAGCAGGCTTTGTGCTGGTGTATTAAA
1 TCAGGCTTATTGCCTAGCAGGCTTTGTACCGGTGTATTATA
* *
63652541 TTAGGCTTATTGCCTAGCAGGCTTTATACCGGTGTATTATA
1 TCAGGCTTATTGCCTAGCAGGCTTTGTACCGGTGTATTATA
* *
63652582 TCAGGCTTATTGCCTAGCAGGCTTTATATGCCAGTGTATTATA
1 TCAGGCTTATTGCCTAGCAGGCTTTGTA--CCGGTGTATTATA
* * *
63652625 TCAGGCTTATTGCCTAGTAGGCTCTGTGCCGGTGTATTATA
1 TCAGGCTTATTGCCTAGCAGGCTTTGTACCGGTGTATTATA
63652666 -CTAGGCTT-TATGCCTAGCA
1 TC-AGGCTTAT-TGCCTAGCA
63652685 AATTTTATGT
Statistics
Matches: 165, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
40 2 0.01
41 121 0.73
42 6 0.04
43 36 0.22
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (41 bp):
TCAGGCTTATTGCCTAGCAGGCTTTGTACCGGTGTATTATA
Done.