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 38 of 292
Found at i:10297041 original size:21 final size:21
Alignment explanation
Indices: 10297015--10297071 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
10297005 AACCCTTAAC
*
10297015 CCCAAATCCC-AAATCCCAAAT
1 CCCAAA-CCCTAAATCACAAAT
10297036 CCCAAACCCTAAATCACAAAT
1 CCCAAACCCTAAATCACAAAT
*
10297057 CCCAAACCATAAATC
1 CCCAAACCCTAAATC
10297072 TCAGACTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (21 bp):
CCCAAACCCTAAATCACAAAT
Found at i:10297774 original size:28 final size:29
Alignment explanation
Indices: 10297727--10297788 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
10297717 TTTTTTTGGG
* *
10297727 GTTTAGAGTTTTAAAGGTTATAGTTTAGT
1 GTTTAGAGGTTTAAAGGTTATAGATTAGT
*
10297756 GTTTAG-GGTTTAAGGGTTATAGATTAGT
1 GTTTAGAGGTTTAAAGGTTATAGATTAGT
10297784 GTTTA
1 GTTTA
10297789 TGTTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (29 bp):
GTTTAGAGGTTTAAAGGTTATAGATTAGT
Found at i:10297966 original size:40 final size:41
Alignment explanation
Indices: 10297828--10297985 Score: 194
Period size: 41 Copynumber: 3.9 Consensus size: 41
10297818 GTTATATGAC
** * *
10297828 TTTTAGCGGCGTTTTACCGGAAGCGCCGCTAATGCTTTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCACCACTAATGCTTTGGT
* * *
10297869 TTTTAGCGGCGTTTTA-CAGAAAGCGCCGCTAATTCTTTGGT
1 TTTTAGCGGCGTTTTACCA-AAAGCACCACTAATGCTTTGGT
* *
10297910 TTTTAGCGGCATTTTACCAAAAGCACCACTAATGC-CTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCACCACTAATGCTTTGGT
* *
10297950 TTTTAGCGGCGGTTTACCAAAAGAACCACTAATGCT
1 TTTTAGCGGCGTTTTACCAAAAGCACCACTAATGCT
10297986 CTAGCTTTTA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
40 37 0.36
41 64 0.62
42 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCACCACTAATGCTTTGGT
Found at i:10297982 original size:81 final size:82
Alignment explanation
Indices: 10297827--10298005 Score: 200
Period size: 81 Copynumber: 2.2 Consensus size: 82
10297817 GGTTATATGA
* ** * * * *
10297827 CTTTTAGCGGCGTTTTACCGGAAGCGCCGCTAATGCTTTGGTTTTTAGCGGCGTTTTACAGAAAG
1 CTTTTAGCGGCATTTTACCAAAAGCACCACTAATGCTCTGGTTTTTAGCGGCGGTTTACAGAAAG
** * * * *
10297892 CGCCGCTAATTCTTTGG
66 AACCACTAATGCTCTAG
*
10297909 TTTTTAGCGGCATTTTACCAAAAGCACCACTAATGC-CTGGTTTTTAGCGGCGGTTTACCA-AAA
1 CTTTTAGCGGCATTTTACCAAAAGCACCACTAATGCTCTGGTTTTTAGCGGCGGTTTA-CAGAAA
10297972 GAACCACTAATGCTCTAG
65 GAACCACTAATGCTCTAG
*
10297990 CTTTTAGCAGCATTTT
1 CTTTTAGCGGCATTTT
10298006 TGGTAAAACA
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 48 0.60
82 32 0.40
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (82 bp):
CTTTTAGCGGCATTTTACCAAAAGCACCACTAATGCTCTGGTTTTTAGCGGCGGTTTACAGAAAG
AACCACTAATGCTCTAG
Found at i:10298053 original size:30 final size:29
Alignment explanation
Indices: 10298002--10298064 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
10297992 TTTAGCAGCA
* *
10298002 TTTTTGGTAAAACACCACTATTGCTATGT
1 TTTTTGGAAAAACACCACTATTGCTATAT
* * *
10298031 TTTTTGGAAAAAACGCCGCTATTTCTATAT
1 TTTTTGG-AAAAACACCACTATTGCTATAT
10298061 TTTT
1 TTTT
10298065 AGCGTCGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (29 bp):
TTTTTGGAAAAACACCACTATTGCTATAT
Found at i:10299205 original size:14 final size:14
Alignment explanation
Indices: 10299167--10299234 Score: 82
Period size: 14 Copynumber: 4.8 Consensus size: 14
10299157 ACCTTAGACT
*
10299167 CTAACCCTTAAACC
1 CTAACCCTTAACCC
* *
10299181 ATAAACTCTTAACCC
1 CT-AACCCTTAACCC
*
10299196 CTAGCCCTTAACCC
1 CTAACCCTTAACCC
*
10299210 CTAATCCTTAACCC
1 CTAACCCTTAACCC
10299224 CTAACCCTTAA
1 CTAACCCTTAA
10299235 ATCTTAAACT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 33 0.75
15 11 0.25
ACGTcount: A:0.32, C:0.41, G:0.01, T:0.25
Consensus pattern (14 bp):
CTAACCCTTAACCC
Found at i:10299249 original size:28 final size:27
Alignment explanation
Indices: 10299167--10299249 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 27
10299157 ACCTTAGACT
10299167 CTAACCCTTAAACCATAAACTCTTAACCC
1 CTAACCCTTAAACCATAAA--CTTAACCC
* * * *
10299196 CTAGCCCTTAACCCCTAATCCTTAACCC
1 CTAACCCTTAAACCATAA-ACTTAACCC
* *
10299224 CTAACCCTTAAATCTTAAACTATAAC
1 CTAACCCTTAAACCATAAACT-TAAC
10299250 TGTTAAACCC
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
27 2 0.05
28 26 0.60
29 15 0.35
ACGTcount: A:0.35, C:0.37, G:0.01, T:0.27
Consensus pattern (27 bp):
CTAACCCTTAAACCATAAACTTAACCC
Found at i:10300775 original size:19 final size:19
Alignment explanation
Indices: 10300751--10300811 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
10300741 TTTTCTTTGT
10300751 TCTTTATTCTCCCCATCTC
1 TCTTTATTCTCCCCATCTC
10300770 TCTTTA-T-T---C-TCT-
1 TCTTTATTCTCCCCATCTC
10300782 TCTTTATTCTCCCCATCTC
1 TCTTTATTCTCCCCATCTC
10300801 TCTTTATTCTC
1 TCTTTATTCTC
10300812 TTCTTTATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
12 6 0.17
13 4 0.11
14 2 0.06
17 2 0.06
18 4 0.11
19 17 0.49
ACGTcount: A:0.10, C:0.36, G:0.00, T:0.54
Consensus pattern (19 bp):
TCTTTATTCTCCCCATCTC
Found at i:10300787 original size:12 final size:11
Alignment explanation
Indices: 10300766--10300837 Score: 60
Period size: 12 Copynumber: 6.4 Consensus size: 11
10300756 ATTCTCCCCA
10300766 TCTCTCTTTAT
1 TCTCTCTTTAT
10300777 TCTCTTCTTTAT
1 TCTC-TCTTTAT
**
10300789 TCTC-C-CCA-
1 TCTCTCTTTAT
10300797 TCTCTCTTTAT
1 TCTCTCTTTAT
10300808 TCTCTTCTTTATAT
1 TCTC-TC-TT-TAT
10300822 TCTCTTCTTTAT
1 TCTC-TCTTTAT
10300834 TCTC
1 TCTC
10300838 CTCATCTCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
8 4 0.08
9 2 0.04
10 2 0.04
11 8 0.16
12 20 0.40
13 4 0.08
14 10 0.20
ACGTcount: A:0.10, C:0.31, G:0.00, T:0.60
Consensus pattern (11 bp):
TCTCTCTTTAT
Found at i:10300788 original size:31 final size:31
Alignment explanation
Indices: 10300750--10300819 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
10300740 TTTTTCTTTG
10300750 TTCTTTATTCTCCCCATCTCTCTTTATTCTC
1 TTCTTTATTCTCCCCATCTCTCTTTATTCTC
10300781 TTCTTTATTCTCCCCATCTCTCTTTATTCTC
1 TTCTTTATTCTCCCCATCTCTCTTTATTCTC
10300812 TTCTTTAT
1 TTCTTTAT
10300820 ATTCTCTTCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.10, C:0.33, G:0.00, T:0.57
Consensus pattern (31 bp):
TTCTTTATTCTCCCCATCTCTCTTTATTCTC
Found at i:10300824 original size:14 final size:14
Alignment explanation
Indices: 10300805--10300833 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10300795 CATCTCTCTT
10300805 TATTCTCTTCTTTA
1 TATTCTCTTCTTTA
10300819 TATTCTCTTCTTTA
1 TATTCTCTTCTTTA
10300833 T
1 T
10300834 TCTCCTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTCTCTTCTTTA
Found at i:10303800 original size:2 final size:2
Alignment explanation
Indices: 10303793--10303838 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
10303783 TAATATAAGA
10303793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10303835 AT AT
1 AT AT
10303839 TCAACATAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10304375 original size:29 final size:29
Alignment explanation
Indices: 10304339--10304397 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
10304329 TAATTTTAAT
* *
10304339 AAATTATAAAATTTTTATAAACAACTAAA
1 AAATTATAAAATTTTTATAAAAAAATAAA
*
10304368 AAATTATATAATTTTTATAAAAAAATAAA
1 AAATTATAAAATTTTTATAAAAAAATAAA
10304397 A
1 A
10304398 CCCTATAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (29 bp):
AAATTATAAAATTTTTATAAAAAAATAAA
Found at i:10304404 original size:29 final size:29
Alignment explanation
Indices: 10304343--10304406 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
10304333 TTTAATAAAT
* * *
10304343 TATAAAATTTTTATAAACAACTAAAAAAT
1 TATAAAATTTTTATAAAAAAATAAAAAAC
* **
10304372 TATATAATTTTTATAAAAAAATAAAACCC
1 TATAAAATTTTTATAAAAAAATAAAAAAC
10304401 TATAAA
1 TATAAA
10304407 GGAGAAAATA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (29 bp):
TATAAAATTTTTATAAAAAAATAAAAAAC
Found at i:10305060 original size:20 final size:19
Alignment explanation
Indices: 10305011--10305050 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
10305001 TTATATTTTT
10305011 AAGAA-AATAAAAAAATTA
1 AAGAATAATAAAAAAATTA
10305029 AAGAATATATAAAGAAAATTA
1 AAGAATA-ATAAA-AAAATTA
10305050 A
1 A
10305051 TAATTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 1 0.05
20 5 0.26
21 8 0.42
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (19 bp):
AAGAATAATAAAAAAATTA
Found at i:10306238 original size:18 final size:18
Alignment explanation
Indices: 10306211--10306247 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10306201 GTTTGATAAA
*
10306211 TTATTAAAAATTTTCATT
1 TTATTAAAAATTTTAATT
*
10306229 TTATTGAAAATTTTAATT
1 TTATTAAAAATTTTAATT
10306247 T
1 T
10306248 GATTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TTATTAAAAATTTTAATT
Found at i:10306845 original size:2 final size:2
Alignment explanation
Indices: 10306838--10306867 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10306828 CAAACAAATC
10306838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10306868 TAGAAGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10313243 original size:21 final size:20
Alignment explanation
Indices: 10313204--10313243 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10313194 TTGGTCCATA
*
10313204 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCACTTTTG
*
10313224 GCCCATTGAGGCCCTCTTTT
1 GCCCATTG-GGCCCACTTTT
10313244 TTCGAAGTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.10, C:0.33, G:0.25, T:0.33
Consensus pattern (20 bp):
GCCCATTGGGCCCACTTTTG
Found at i:10315034 original size:48 final size:48
Alignment explanation
Indices: 10314982--10315152 Score: 207
Period size: 48 Copynumber: 3.6 Consensus size: 48
10314972 AAATCCCGTA
* * *
10314982 TAAGACCATATCTGGGATATGGCATCGGTATCAATATGAGATCCCTTG
1 TAAGACCATATCTGGGATATGACATCGGCATCAATATGAGATCCCATG
* ** * *
10315030 TAAGACCGTATCTGGGATATGACATAAGCATCGACATGAGATCCCATG
1 TAAGACCATATCTGGGATATGACATCGGCATCAATATGAGATCCCATG
* * * *
10315078 TAAGACCATATCTGGGATATGAAATTGGCATCAATATGAGGTCCCATA
1 TAAGACCATATCTGGGATATGACATCGGCATCAATATGAGATCCCATG
* * *
10315126 TAAGACCATGTCTGGGACATGGCATCG
1 TAAGACCATATCTGGGATATGACATCG
10315153 ACACTATTAT
Statistics
Matches: 102, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (48 bp):
TAAGACCATATCTGGGATATGACATCGGCATCAATATGAGATCCCATG
Found at i:10320587 original size:18 final size:19
Alignment explanation
Indices: 10320564--10320601 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
10320554 CCGAATGTAC
10320564 TTTTCATATACA-CATATA
1 TTTTCATATACATCATATA
*
10320582 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
10320601 T
1 T
10320602 AATTTGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTCATATACATCATATA
Found at i:10321839 original size:16 final size:15
Alignment explanation
Indices: 10321818--10321855 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
10321808 TTATAATAAC
*
10321818 ATATTTAACTTTTTAT
1 ATATTTAAC-CTTTAT
10321834 ATATTTAACCTTTAT
1 ATATTTAACCTTTAT
10321849 A-ATTTAA
1 ATATTTAA
10321856 TAACTAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 9 0.43
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTTAACCTTTAT
Found at i:10326026 original size:48 final size:48
Alignment explanation
Indices: 10325934--10326104 Score: 146
Period size: 48 Copynumber: 3.6 Consensus size: 48
10325924 AAATCCTGTA
* * *
10325934 TAAGACCATATCTGGGATATGGCATCGACATCAATATGAGATCCCTTG
1 TAAGACCATATCTGGGATATGACATCGACATCAACATGAGATCCCATG
* * * * *
10325982 TAAGGCCGTATCTGGGATATGACATACG-TATCGACATGATATCCCATG
1 TAAGACCATATCTGGGATATGACAT-CGACATCAACATGAGATCCCATG
* * * ** * * * *
10326030 TAAGACCATATCTGGGATATGGCATTGGCATTGATATGAGGTCCCGTA
1 TAAGACCATATCTGGGATATGACATCGACATCAACATGAGATCCCATG
* * *
10326078 TAAGACCATGTCTGGGACATGGCATCG
1 TAAGACCATATCTGGGATATGACATCG
10326105 GCACTGTTAT
Statistics
Matches: 99, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
47 1 0.01
48 96 0.97
49 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (48 bp):
TAAGACCATATCTGGGATATGACATCGACATCAACATGAGATCCCATG
Found at i:10350995 original size:6 final size:6
Alignment explanation
Indices: 10350984--10351042 Score: 57
Period size: 6 Copynumber: 9.5 Consensus size: 6
10350974 TCCTCCTATC
* *
10350984 TTTTTA TTTTTA TTTTTA TTTATT- TTATTTA TTTTATT TTTTTT TTTTTA
1 TTTTTA TTTTTA TTTTTA TTT-TTA TT-TTTA TTTT-TA TTTTTA TTTTTA
*
10351034 TTTTCA TTT
1 TTTTTA TTT
10351043 CAATTTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 36 0.78
7 10 0.22
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:10350999 original size:5 final size:5
Alignment explanation
Indices: 10350985--10351062 Score: 67
Period size: 5 Copynumber: 15.8 Consensus size: 5
10350975 CCTCCTATCT
*
10350985 TTTTA TTTTTA TTTT- TATTTA TTTTA -TTTA TTTTA TTTT- TTTTT TTTTA
1 TTTTA -TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
10351034 TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
10351063 GAAAGACATA
Statistics
Matches: 61, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
3 3 0.05
4 9 0.15
5 35 0.57
6 14 0.23
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:10351015 original size:25 final size:25
Alignment explanation
Indices: 10350986--10351061 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
10350976 CTCCTATCTT
10350986 TTTATTTTTATTTTTATTTATTTTA
1 TTTATTTTTATTTTTATTTATTTTA
*
10351011 TTTA-TTTTATTTTT-TTTTTTTTA
1 TTTATTTTTATTTTTATTTATTTTA
* *
10351034 TTT-TCATTTCAATTTTA-TTATTTTA
1 TTTAT--TTTTATTTTTATTTATTTTA
10351059 TTT
1 TTT
10351062 TGAAAGACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
23 11 0.26
24 10 0.23
25 22 0.51
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTATTTTTATTTTTATTTATTTTA
Found at i:10351016 original size:19 final size:18
Alignment explanation
Indices: 10350992--10351061 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 18
10350982 TCTTTTTATT
10350992 TTTATTTTTATTTATTTTA
1 TTTA-TTTTATTTATTTTA
* *
10351011 TTTATTTTATTTTTTTTTT
1 TTTATTTTA-TTTATTTTA
10351030 TTTATTTTCATTTCAATTTTA
1 TTTATTTT-ATTT--ATTTTA
10351051 -TTATTTTATTT
1 TTTATTTTATTT
10351062 TGAAAGACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 5 0.12
19 26 0.60
20 8 0.19
21 4 0.09
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTATTTTATTTATTTTA
Found at i:10356592 original size:11 final size:11
Alignment explanation
Indices: 10356576--10356601 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10356566 GTCAATACAC
10356576 TTTCATGACAT
1 TTTCATGACAT
10356587 TTTCATGACAT
1 TTTCATGACAT
10356598 TTTC
1 TTTC
10356602 TCCACCATTT
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:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCATGACAT
Found at i:10356774 original size:27 final size:27
Alignment explanation
Indices: 10356717--10356774 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
10356707 CAAAGATAAT
* * *
10356717 TTGATTAATGATTGATATTGTGCTTAT
1 TTGATTAATGATCGATATTATGCTTAA
*
10356744 TTGATTAATGATCGATATTATGTTTAA
1 TTGATTAATGATCGATATTATGCTTAA
10356771 TTGA
1 TTGA
10356775 CATTATGCAA
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:0.29, C:0.03, G:0.17, T:0.50
Consensus pattern (27 bp):
TTGATTAATGATCGATATTATGCTTAA
Found at i:10357724 original size:19 final size:20
Alignment explanation
Indices: 10357687--10357726 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
10357677 ATTATTTTTA
10357687 TAATTTAATAAAAATATAAT
1 TAATTTAATAAAAATATAAT
10357707 TAATTTAGA-AAAAA-ATAAT
1 TAATTTA-ATAAAAATATAAT
10357726 T
1 T
10357727 TATCAAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 12 0.63
21 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
TAATTTAATAAAAATATAAT
Found at i:10360368 original size:51 final size:49
Alignment explanation
Indices: 10360189--10360376 Score: 250
Period size: 49 Copynumber: 3.8 Consensus size: 49
10360179 GTAGCCAAGC
* * * * * *
10360189 TATCTGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
10360238 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
10360287 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * *
10360338 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
10360377 TGCGACCTCA
Statistics
Matches: 125, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
49 86 0.69
50 1 0.01
51 38 0.30
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:10362560 original size:15 final size:15
Alignment explanation
Indices: 10362512--10362580 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
10362502 TAAAGATAAC
*
10362512 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
10362526 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
10362541 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
* *
10362556 AAGAAACCTAGAGTA
1 AAGAAACCCAGAATA
*
10362571 AAAAAACCCA
1 AAGAAACCCA
10362581 AGATACAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
14 9 0.20
15 34 0.77
16 1 0.02
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:10362578 original size:30 final size:30
Alignment explanation
Indices: 10362504--10362580 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 30
10362494 TTACGGAATA
*
10362504 AAGATAACAAGAAAACC-GAATAAAGAAATCC
1 AAGATAA-AA-AAACCCAGAATAAAGAAATCC
* *
10362535 AAGATAGAGAAACCCAGAATAAAGAAA-CC
1 AAGATAAAAAAACCCAGAATAAAGAAATCC
*
10362564 TAGAGTAAAAAAACCCA
1 AAGA-TAAAAAAACCCA
10362581 AGATACAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 10 0.26
30 22 0.58
31 6 0.16
ACGTcount: A:0.60, C:0.17, G:0.14, T:0.09
Consensus pattern (30 bp):
AAGATAAAAAAACCCAGAATAAAGAAATCC
Found at i:10365633 original size:49 final size:49
Alignment explanation
Indices: 10365579--10365802 Score: 288
Period size: 49 Copynumber: 4.5 Consensus size: 49
10365569 CTGGTACGCA
* * * *
10365579 TAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
10365628 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTATACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
10365677 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-TGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
10365726 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
10365777 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
10365803 TGCGACCTCA
Statistics
Matches: 153, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
49 114 0.75
50 7 0.05
51 32 0.21
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:10377225 original size:13 final size:13
Alignment explanation
Indices: 10377187--10377228 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
10377177 ATTAAAAAAT
*
10377187 AAAAATAATTAGA
1 AAAAATAATTATA
10377200 AAAAATAATTTATA
1 AAAAATAA-TTATA
*
10377214 AAAAATTATTATA
1 AAAAATAATTATA
10377227 AA
1 AA
10377229 TTAATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (13 bp):
AAAAATAATTATA
Found at i:10378481 original size:14 final size:14
Alignment explanation
Indices: 10378462--10378489 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10378452 TTGTGTGTTC
10378462 TTTATTTTATTTTT
1 TTTATTTTATTTTT
10378476 TTTATTTTATTTTT
1 TTTATTTTATTTTT
10378490 CAAAAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTATTTTATTTTT
Found at i:10385157 original size:34 final size:34
Alignment explanation
Indices: 10385094--10385174 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
10385084 TTGCAAAGTG
* * *
10385094 AGGGTTCGCATGACATATAGGCTCTCATAGACCT
1 AGGGTTCGCATAACATATAAGCTCACATAGACCT
* * *
10385128 AGGGTTCACATAACATGTAAGCTCACATAGACTT
1 AGGGTTCGCATAACATATAAGCTCACATAGACCT
*
10385162 ATGGTTCGCATAA
1 AGGGTTCGCATAA
10385175 TACATAGGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (34 bp):
AGGGTTCGCATAACATATAAGCTCACATAGACCT
Found at i:10385417 original size:28 final size:28
Alignment explanation
Indices: 10385359--10385417 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
10385349 TTATGACTTA
* * ***
10385359 CATGTATTGACTCTCAAGTATTAATTTG
1 CATGTATTAACTCACAAGTATTAACCCG
*
10385387 CATGTATTAACTCACAAGTGTTAACCCG
1 CATGTATTAACTCACAAGTATTAACCCG
10385415 CAT
1 CAT
10385418 ATTTTGACTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (28 bp):
CATGTATTAACTCACAAGTATTAACCCG
Found at i:10388069 original size:46 final size:46
Alignment explanation
Indices: 10388002--10388180 Score: 178
Period size: 46 Copynumber: 3.9 Consensus size: 46
10387992 ATTTTTTCCC
* * * * * *
10388002 AGGTTCCGAGCTCTTGTATATGTTCCGGGCTCAAGAATATAGGAAT
1 AGGTTCTGAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAAT
* * *
10388048 AGGTTCTAAGCTCCTGCATATGTTGCAGACTCAAGAATACAGGAAC
1 AGGTTCTGAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAAT
* * * * * **
10388094 AAGTTTTGAGCTCCTGCATGTGTTGCAAACTCAAAAATATAGGTTT
1 AGGTTCTGAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAAT
* * * *
10388140 AGTTTCTGAGCTCTTGCATATGTTGGAGACTCGAGAATATA
1 AGGTTCTGAGCTCCTGCATATGTTGCAGACTCAAGAATATA
10388181 TCAATATTAA
Statistics
Matches: 105, Mismatches: 28, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
46 105 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (46 bp):
AGGTTCTGAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAAT
Found at i:10394638 original size:34 final size:32
Alignment explanation
Indices: 10394600--10394713 Score: 111
Period size: 34 Copynumber: 3.4 Consensus size: 32
10394590 GGTTCGCATC
10394600 TAGGGTTCACATAACATATAGGCTCGCATAGACT
1 TAGGGTTCACATAACATATAGGCTCGCA-A-ACT
** *
10394634 TAGGGTTTGCATAACATGTAGGCTCGCACAACCT
1 TAGGGTTCACATAACATATAGGCTCGCA-AA-CT
** * * *
10394668 TAGGGTTTGCATAATATATAGGCTTGCACACT
1 TAGGGTTCACATAACATATAGGCTCGCAAACT
10394700 TAGTGGTTCACATA
1 TAG-GGTTCACATA
10394714 GGTAGGGCAC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
32 5 0.07
33 10 0.15
34 53 0.78
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (32 bp):
TAGGGTTCACATAACATATAGGCTCGCAAACT
Found at i:10394910 original size:14 final size:14
Alignment explanation
Indices: 10394867--10394915 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
10394857 ATGTGATTTA
*
10394867 TGACTCGCAAGTAT
1 TGACTCGCATGTAT
* **
10394881 TGATTCGCATACAT
1 TGACTCGCATGTAT
10394895 TGACTCGCATGTAT
1 TGACTCGCATGTAT
10394909 TGACTCG
1 TGACTCG
10394916 TAGGTGTTGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (14 bp):
TGACTCGCATGTAT
Found at i:10394925 original size:14 final size:14
Alignment explanation
Indices: 10394867--10394928 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
10394857 ATGTGATTTA
*
10394867 TGACTCGCAAGTAT
1 TGACTCGCAGGTAT
* ***
10394881 TGATTCGCATACAT
1 TGACTCGCAGGTAT
*
10394895 TGACTCGCATGTAT
1 TGACTCGCAGGTAT
* *
10394909 TGACTCGTAGGTGT
1 TGACTCGCAGGTAT
10394923 TGACTC
1 TGACTC
10394929 ACATATACTA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (14 bp):
TGACTCGCAGGTAT
Found at i:10414561 original size:33 final size:34
Alignment explanation
Indices: 10414495--10414561 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
10414485 TTTTATTGAG
*
10414495 AACAAACAATAAATGAGAATTTTTTTAACTTAAA
1 AACAAACAATAAATGAGAATTTTTTTAAATTAAA
10414529 AACAAACAATAAATGAGAA-TTTTTTAAATTAAA
1 AACAAACAATAAATGAGAATTTTTTTAAATTAAA
10414562 GAATCTTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 13 0.41
34 19 0.59
ACGTcount: A:0.55, C:0.07, G:0.06, T:0.31
Consensus pattern (34 bp):
AACAAACAATAAATGAGAATTTTTTTAAATTAAA
Found at i:10415879 original size:2 final size:2
Alignment explanation
Indices: 10415872--10415919 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
10415862 AACAATTCTG
* *
10415872 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA T- TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10415913 TA TA TA T
1 TA TA TA T
10415920 GTTTTATGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:10415926 original size:17 final size:16
Alignment explanation
Indices: 10415874--10415941 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 16
10415864 CAATTCTGTA
* * *
10415874 TATATATATATATATA
1 TATATTTATATATTTT
*
10415890 TATATATATATATTTAT
1 TATATTTATATATTT-T
10415907 TATATTTATATATGTTT
1 TATATTTATATAT-TTT
* *
10415924 TATGTTTCTAATATTTT
1 TATATTTAT-ATATTTT
10415941 T
1 T
10415942 TATAAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
16 14 0.32
17 24 0.55
18 6 0.14
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.60
Consensus pattern (16 bp):
TATATTTATATATTTT
Found at i:10426665 original size:20 final size:18
Alignment explanation
Indices: 10426640--10426680 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
10426630 CCATTTATCA
10426640 TTTATTTTTATTGTTTTTAT
1 TTTATTTTTA--GTTTTTAT
10426660 TTTATTTTTAGTTTTTAT
1 TTTATTTTTAGTTTTTAT
10426678 TTT
1 TTT
10426681 TTATTGTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.52
20 10 0.48
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (18 bp):
TTTATTTTTAGTTTTTAT
Found at i:10426675 original size:18 final size:19
Alignment explanation
Indices: 10426640--10426697 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 19
10426630 CCATTTATCA
10426640 TTTATTTTTATTGTTTTTAT
1 TTTATTTTTA-TGTTTTTAT
10426660 TTTATTTTTA-GTTTTTATTT
1 TTTATTTTTATGTTTTTA--T
*
10426680 TTTATTGTTATGTTTTTA
1 TTTATTTTTATGTTTTTA
10426698 GACTTCCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 7 0.21
20 20 0.59
21 7 0.21
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.78
Consensus pattern (19 bp):
TTTATTTTTATGTTTTTAT
Found at i:10428692 original size:42 final size:43
Alignment explanation
Indices: 10428645--10428752 Score: 139
Period size: 42 Copynumber: 2.5 Consensus size: 43
10428635 ATATGTGTTA
* *
10428645 TCGTGTAAGACCACGTCTGGGACATTTGCATC-ATACTTGATT
1 TCGTGTAAGACCACGTCTGGGACAATGGCATCGATACTTGATT
*
10428687 TCGTGTAAGACC-CTGTCTGGGACAATGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCTGGGACAATGGCATCGATACTTGATT
* * *
10428730 ACATGTAAGAACACGTCTGGGAC
1 TCGTGTAAGACCACGTCTGGGAC
10428753 GTTGGCATTG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.02
42 28 0.49
43 27 0.47
44 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACAATGGCATCGATACTTGATT
Found at i:10428759 original size:43 final size:42
Alignment explanation
Indices: 10428648--10428760 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 42
10428638 TGTGTTATCG
* * * *
10428648 TGTAAGACCACGTCTGGGACATTTGCATCATACTTGATTTCG
1 TGTAAGAACACGTCTGGGACATTGGCATCATACTTGATTACA
* * *
10428690 TGTAAG-ACCCTGTCTGGGACAATGGCATCGATATTTGATTACA
1 TGTAAGAACAC-GTCTGGGACATTGGCATC-ATACTTGATTACA
*
10428733 TGTAAGAACACGTCTGGGACGTTGGCAT
1 TGTAAGAACACGTCTGGGACATTGGCAT
10428761 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.03
42 22 0.38
43 31 0.53
44 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGAACACGTCTGGGACATTGGCATCATACTTGATTACA
Found at i:10433175 original size:2 final size:2
Alignment explanation
Indices: 10433168--10433203 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
10433158 TAAGATAAAC
*
10433168 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10433204 TTCCTAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:10438909 original size:25 final size:25
Alignment explanation
Indices: 10438881--10438944 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
10438871 ACTAATATTA
10438881 GAACATAGAACTTAG-CTTAAGTTTG
1 GAACATAGAA-TTAGACTTAAGTTTG
* * **
10438906 GAACTTAGGATTAGACTTAAGTTAA
1 GAACATAGAATTAGACTTAAGTTTG
*
10438931 GAACTTAGAATTAG
1 GAACATAGAATTAG
10438945 GTTTAGTCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 4 0.12
25 29 0.88
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.31
Consensus pattern (25 bp):
GAACATAGAATTAGACTTAAGTTTG
Found at i:10438968 original size:31 final size:31
Alignment explanation
Indices: 10438910--10438969 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
10438900 AGTTTGGAAC
10438910 TTAGGATTAGACTTAAGTTAAGAACTTAGAA
1 TTAGGATTAGACTTAAGTTAAGAACTTAGAA
* * *
10438941 TTAGGTTTAGTCTTAGGATTAAG-ACTTAG
1 TTAGGATTAGACTTAAG-TTAAGAACTTAG
10438970 GACTTAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.37
Consensus pattern (31 bp):
TTAGGATTAGACTTAAGTTAAGAACTTAGAA
Found at i:10443946 original size:83 final size:83
Alignment explanation
Indices: 10443854--10444015 Score: 261
Period size: 83 Copynumber: 2.0 Consensus size: 83
10443844 ACATAACTTT
* * * *
10443854 TCTTATTTGTTGGCATGTTTGACCAAGATATTTTGGTTATTTGCTTGCACCTTTTTAAGAATCAT
1 TCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATGTACTTGCACCTTTTTAAGAATCAT
10443919 GTGCAGCCAATCTTCTTG
66 GTGCAGCCAATCTTCTTG
* * *
10443937 TCTTATTTGTTGGCATGTTTGACCAAGATATTTTTATGATGTACTTGCACCTTTTTAAGGATCTT
1 TCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATGTACTTGCACCTTTTTAAGAATCAT
10444002 GTGCAGCCAATCTT
66 GTGCAGCCAATCTT
10444016 GTGTTTATCA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 72 1.00
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (83 bp):
TCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATGTACTTGCACCTTTTTAAGAATCAT
GTGCAGCCAATCTTCTTG
Found at i:10446412 original size:17 final size:17
Alignment explanation
Indices: 10446392--10446453 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
10446382 CTTGCAGTTC
10446392 AGCAGAGCTCGCAATTT
1 AGCAGAGCTCGCAATTT
*
10446409 AGCAGAGCTCACACATATT
1 AGCAGAGCTCGCA-AT-TT
*
10446428 ---ATAGCTCGCAATTT
1 AGCAGAGCTCGCAATTT
10446442 AGCAGAGCTCGC
1 AGCAGAGCTCGC
10446454 GTAATAGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 2 0.06
15 2 0.06
16 8 0.22
17 20 0.56
18 2 0.06
19 2 0.06
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (17 bp):
AGCAGAGCTCGCAATTT
Found at i:10446527 original size:17 final size:17
Alignment explanation
Indices: 10446505--10446538 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10446495 GTTCACATTC
10446505 AACATAAATTGTATAAT
1 AACATAAATTGTATAAT
*
10446522 AACATAACTTGTATAAT
1 AACATAAATTGTATAAT
10446539 TAAAACATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (17 bp):
AACATAAATTGTATAAT
Found at i:10448452 original size:18 final size:18
Alignment explanation
Indices: 10448416--10448454 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10448406 GCATATTCAG
10448416 ATTCAGACACATAATCAA
1 ATTCAGACACATAATCAA
*
10448434 ATTCAGATACA-AATACAA
1 ATTCAGACACATAAT-CAA
10448452 ATT
1 ATT
10448455 TTGATACAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (18 bp):
ATTCAGACACATAATCAA
Found at i:10449823 original size:13 final size:13
Alignment explanation
Indices: 10449807--10449831 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10449797 TATTCTTTTT
10449807 TAATATCATAAAC
1 TAATATCATAAAC
10449820 TAATATCATAAA
1 TAATATCATAAA
10449832 ATTTCCAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
TAATATCATAAAC
Found at i:10453725 original size:102 final size:100
Alignment explanation
Indices: 10453606--10453793 Score: 313
Period size: 102 Copynumber: 1.9 Consensus size: 100
10453596 CCTATTTATA
*
10453606 TGAAATATGCTTTGGTAATTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
1 TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
* *
10453671 ATAAGGAAAAGAAAAGAAAAAAAACGATACCCATCAT
66 AT--CGAAAAAAAAAGAAAAAAAACGATACCCATCAT
* *
10453708 TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGATTTTTTGGAAATTTGATCATATAAT
1 TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
10453773 ATCGAAAAAAAAAGAAAAAAA
66 ATCGAAAAAAAAAGAAAAAAA
10453794 TAATAGCCGC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 17 0.21
102 64 0.79
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (100 bp):
TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
ATCGAAAAAAAAAGAAAAAAAACGATACCCATCAT
Found at i:10457456 original size:16 final size:18
Alignment explanation
Indices: 10457435--10457471 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10457425 TTCATCTCTT
10457435 TTAGTT-AT-TTAGAAAA
1 TTAGTTCATGTTAGAAAA
*
10457451 TTAGTTCATGTTTGAAAA
1 TTAGTTCATGTTAGAAAA
10457469 TTA
1 TTA
10457472 AAAAATATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 2 0.11
18 10 0.56
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.46
Consensus pattern (18 bp):
TTAGTTCATGTTAGAAAA
Found at i:10460720 original size:6 final size:6
Alignment explanation
Indices: 10460709--10460737 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
10460699 CCAATATGAT
10460709 TAATAC TAATAC TAATAC TAATAC TAATA
1 TAATAC TAATAC TAATAC TAATAC TAATA
10460738 AAAAGATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
TAATAC
Found at i:10460775 original size:26 final size:24
Alignment explanation
Indices: 10460721--10460793 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 24
10460711 ATACTAATAC
* * *
10460721 TAATACTAATACTAATAAAA-AGA
1 TAATAATAATAATAATAAAACAAA
10460744 TAATAATATTAGTAATAATAAAACAAA
1 TAATAATA--A-TAATAATAAAACAAA
*
10460771 T-ATAATAATAATAAAAAAACAAA
1 TAATAATAATAATAATAAAACAAA
10460794 AAGGGTGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
23 21 0.50
24 1 0.02
25 1 0.02
26 16 0.38
27 3 0.07
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (24 bp):
TAATAATAATAATAATAAAACAAA
Found at i:10465067 original size:3 final size:3
Alignment explanation
Indices: 10465061--10465085 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10465051 GCAGAAAAAA
10465061 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
10465086 TACCACCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10466465 original size:24 final size:24
Alignment explanation
Indices: 10466438--10466486 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
10466428 CTTTTCTGAT
*
10466438 ATTTCTTTCTTTAGATTACGCCAA
1 ATTTCTTTCTTTAAATTACGCCAA
*
10466462 ATTTCTTTCTTTAAATTAGGCCAA
1 ATTTCTTTCTTTAAATTACGCCAA
10466486 A
1 A
10466487 AGTCCAGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (24 bp):
ATTTCTTTCTTTAAATTACGCCAA
Found at i:10467323 original size:23 final size:25
Alignment explanation
Indices: 10467297--10467348 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
10467287 GAACCTTGGC
*
10467297 TTAAATT-ATTTTAAATATTT-TAA
1 TTAAATTAATTTTAAAAATTTCTAA
*
10467320 TT-AATTAATTTTAAAAATTTCTAT
1 TTAAATTAATTTTAAAAATTTCTAA
10467344 TTAAA
1 TTAAA
10467349 AACTATTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 4 0.17
23 14 0.58
24 4 0.17
25 2 0.08
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
TTAAATTAATTTTAAAAATTTCTAA
Found at i:10470268 original size:13 final size:13
Alignment explanation
Indices: 10470238--10470270 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
10470228 AAAGAAAGAG
*
10470238 AAAGAAAGAAGCT
1 AAAGCAAGAAGCT
10470251 AAAGCAAGAAGCT
1 AAAGCAAGAAGCT
10470264 AAAGCAA
1 AAAGCAA
10470271 AACAGAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.61, C:0.12, G:0.21, T:0.06
Consensus pattern (13 bp):
AAAGCAAGAAGCT
Found at i:10471050 original size:2 final size:2
Alignment explanation
Indices: 10471006--10471039 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10470996 GATTGAATTG
10471006 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10471040 TATGAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10471303 original size:41 final size:40
Alignment explanation
Indices: 10471213--10471347 Score: 161
Period size: 41 Copynumber: 3.4 Consensus size: 40
10471203 GACTTCGAGT
* * *
10471213 CGATGAGGCACTGGGTGCCAATTTAC--TTCGG-TTTAAC
1 CGATGAGACACTGGGTGTCAATTTACTATTCGGATTTATC
* *
10471250 CAATGAGACACTGGGTGTCAATTTACTATTTCGGATTTATT
1 CGATGAGACACTGGGTGTCAATTTACTA-TTCGGATTTATC
*
10471291 CGATGAGACACTGGGTGTCAATTTACTACTTC-GAATTATC
1 CGATGAGACACTGGGTGTCAATTTACTA-TTCGGATTTATC
*
10471331 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
10471348 CCAAACTTGT
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
37 23 0.27
40 27 0.32
41 34 0.40
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTTACTATTCGGATTTATC
Found at i:10475234 original size:15 final size:13
Alignment explanation
Indices: 10475205--10475231 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10475195 GCTCAGCAGG
10475205 GACACGCCCGTGT
1 GACACGCCCGTGT
10475218 GACACGCCCGTGT
1 GACACGCCCGTGT
10475231 G
1 G
10475232 TGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:10490282 original size:27 final size:27
Alignment explanation
Indices: 10490228--10490284 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
10490218 AAGAGAAAGA
* * *
10490228 AAAAGTAAATTAATTAGTAATAATAAT
1 AAAAGTAAATTAATTAGCAAGAAAAAT
* *
10490255 AAAATTAAATTAATTTGCAAGAAAAAT
1 AAAAGTAAATTAATTAGCAAGAAAAAT
10490282 AAA
1 AAA
10490285 TGGCTAAAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAAGTAAATTAATTAGCAAGAAAAAT
Found at i:10491396 original size:13 final size:13
Alignment explanation
Indices: 10491378--10491403 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10491368 GTTTAGCAGG
10491378 GACACGCCCGTGT
1 GACACGCCCGTGT
10491391 GACACGCCCGTGT
1 GACACGCCCGTGT
10491404 TCGATTACTT
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:10496894 original size:32 final size:30
Alignment explanation
Indices: 10496820--10496896 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 30
10496810 ATAAGGTGTA
*
10496820 ATAT-TATTATAAAATTTAAGTTAAAATAT
1 ATATATATTATAAAACTTAAGTTAAAATAT
* *
10496849 ATATTATAATATAAAACCTTAAGAATT-AAATGT
1 ATA-TATATTATAAAA-CTTAAG--TTAAAATAT
10496882 ATATATATTATAAAA
1 ATATATATTATAAAA
10496897 TTATAATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 3 0.08
30 1 0.03
31 9 0.23
32 16 0.41
33 8 0.21
34 2 0.05
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (30 bp):
ATATATATTATAAAACTTAAGTTAAAATAT
Found at i:10497941 original size:68 final size:68
Alignment explanation
Indices: 10497832--10497968 Score: 256
Period size: 68 Copynumber: 2.0 Consensus size: 68
10497822 ATGGCATGGT
*
10497832 ATGAGAAATGGAATTGAGATAGTGAACTAAAAATATAATGTGAAATATGTTGTAAATACATGGAA
1 ATGAGAAATGGAATTGAGATAGTGAACTAAAAATAGAATGTGAAATATGTTGTAAATACATGGAA
10497897 TAC
66 TAC
*
10497900 ATGAGAAATGGAATTGAGATAGTGAACTGAAAATAGAATGTGAAATATGTTGTAAATACATGGAA
1 ATGAGAAATGGAATTGAGATAGTGAACTAAAAATAGAATGTGAAATATGTTGTAAATACATGGAA
10497965 TAC
66 TAC
10497968 A
1 A
10497969 CGAGTTATAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (68 bp):
ATGAGAAATGGAATTGAGATAGTGAACTAAAAATAGAATGTGAAATATGTTGTAAATACATGGAA
TAC
Found at i:10498441 original size:2 final size:2
Alignment explanation
Indices: 10498434--10498461 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10498424 GTTGGCTTAG
10498434 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10498462 ACATGTGCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10500362 original size:50 final size:50
Alignment explanation
Indices: 10500243--10500575 Score: 351
Period size: 50 Copynumber: 6.6 Consensus size: 50
10500233 TTTGTGAGAA
* * *** *
10500243 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT--TGTTAGGT
10500295 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * * *
10500345 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* * * *
10500396 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** * * * * *
10500446 CATGTGTATAGTACTAAGTGTAGGCTACTACGCGTATCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * *
10500496 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTTCTAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * *
10500546 CACATTTTTAGTTCTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
10500576 TGCGTACTAG
Statistics
Matches: 236, Mismatches: 44, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
50 159 0.67
51 40 0.17
52 37 0.16
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:10500523 original size:151 final size:153
Alignment explanation
Indices: 10500247--10500525 Score: 400
Period size: 151 Copynumber: 1.8 Consensus size: 153
10500237 TGAGAACACA
* ** * * *
10500247 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATAAGATAGTGTTAGGTCACATGTATAGTACTAA
* * * *
10500312 GTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
66 GTGCAGGCTACTACGCGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTACAGGCTACTATG
10500377 CGTACCTGATAGCTTCGATCACG
131 CGTACCTGATAGCTTCGATCACG
* **
10500400 TGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGAT-G-GTTAGGTCATGTGTATAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATAAGATAGTGTTAGGTCACATGTATAGTACTAA
* * *
10500463 GTGTAGGCTACTACGCGTATCAGATAGTTAGGTCACGTGTGTAGTACTAAGTACAGGCTACTA
66 GTGCAGGCTACTACGCGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTACAGGCTACTA
10500526 CGTGTTCTAG
Statistics
Matches: 110, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
151 76 0.69
152 1 0.01
153 33 0.30
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (153 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTATAAGATAGTGTTAGGTCACATGTATAGTACTAA
GTGCAGGCTACTACGCGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTACAGGCTACTATG
CGTACCTGATAGCTTCGATCACG
Found at i:10501997 original size:12 final size:13
Alignment explanation
Indices: 10501969--10502001 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
10501959 TTATTTCTTT
10501969 TTCTCCATCTACC
1 TTCTCCATCTACC
*
10501982 TTCTCC-TCTTCC
1 TTCTCCATCTACC
10501994 TTCTCCAT
1 TTCTCCAT
10502002 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:10503091 original size:28 final size:28
Alignment explanation
Indices: 10503059--10503123 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
10503049 ATTTACTAGA
*
10503059 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
10503087 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
10503115 ATACCCCTA
1 ATACCCCTA
10503124 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:10503286 original size:27 final size:27
Alignment explanation
Indices: 10503228--10503317 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
10503218 AGGAAGCGTC
10503228 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
10503256 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
10503283 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
10503312 CTGGTG
1 CTGGTG
10503318 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:10503804 original size:19 final size:19
Alignment explanation
Indices: 10503780--10503818 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10503770 TTTTAATTAT
* *
10503780 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
10503799 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
10503818 T
1 T
10503819 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:10504431 original size:11 final size:10
Alignment explanation
Indices: 10504403--10504436 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10504393 AGCCTGCAAG
10504403 TATTCTGAAT
1 TATTCTGAAT
*
10504413 TTTTCTGAAT
1 TATTCTGAAT
10504423 ATATTCTGAAT
1 -TATTCTGAAT
10504434 TAT
1 TAT
10504437 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:10510668 original size:17 final size:18
Alignment explanation
Indices: 10510630--10510676 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
10510620 GGCCCAGAAC
*
10510630 CCCACAAGCCTGTGTGGG
1 CCCACAAGCCCGTGTGGG
*
10510648 CCCACATGCCCGTGT-GG
1 CCCACAAGCCCGTGTGGG
10510665 CCCACACAGCCC
1 CCCACA-AGCCC
10510677 AAATCGGTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.17, C:0.45, G:0.26, T:0.13
Consensus pattern (18 bp):
CCCACAAGCCCGTGTGGG
Found at i:10514057 original size:12 final size:12
Alignment explanation
Indices: 10514040--10514140 Score: 52
Period size: 12 Copynumber: 8.3 Consensus size: 12
10514030 AATATGATTT
10514040 TATTAAATTTAA
1 TATTAAATTTAA
10514052 TATTAAATTTAA
1 TATTAAATTTAA
*
10514064 T-TTAATACTT-A
1 TATTAA-ATTTAA
10514075 TATTGATAGTATTT--
1 TATT-A-A--ATTTAA
10514089 TATT-AATTTAA
1 TATTAAATTTAA
*
10514100 TATTAAA-GTAA
1 TATTAAATTTAA
* *
10514111 TTATCTTAATATAA
1 -TAT-TAAATTTAA
*
10514125 AATTAAATTTAA
1 TATTAAATTTAA
10514137 TATT
1 TATT
10514141 TATCTTATAG
Statistics
Matches: 69, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
9 4 0.06
11 14 0.20
12 33 0.48
13 6 0.09
14 8 0.12
15 4 0.06
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (12 bp):
TATTAAATTTAA
Found at i:10514199 original size:61 final size:58
Alignment explanation
Indices: 10514116--10514231 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 58
10514106 AGTAATTATC
* *
10514116 TTAATATAAAATTAAATTTAATATTTATCTTATAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATAAAATTAAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAGAT
* * *
10514177 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATAAAATTAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
10514232 TTAATGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 22 0.44
59 1 0.02
60 1 0.02
61 26 0.52
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (58 bp):
TTAATATAAAATTAAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:10519314 original size:6 final size:6
Alignment explanation
Indices: 10519285--10519346 Score: 70
Period size: 6 Copynumber: 10.2 Consensus size: 6
10519275 AGAGGAAAAC
* * * *
10519285 AAAATA AACATA ACAAGA AGAATA AAAATA AAAATA AAAGATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA
*
10519334 AACATA AAAATA A
1 AAAATA AAAATA A
10519347 TCAGACTCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
6 40 0.87
7 6 0.13
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:10522745 original size:5 final size:5
Alignment explanation
Indices: 10522735--10522763 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
10522725 TTTTCTTGCG
10522735 ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
10522764 TACTATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:10528934 original size:23 final size:23
Alignment explanation
Indices: 10528908--10528951 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
10528898 TTTTTATTAG
10528908 ACTTATTAATTTCGTCTATTTTT
1 ACTTATTAATTTCGTCTATTTTT
10528931 ACTTATTAATTTCGTCTATTT
1 ACTTATTAATTTCGTCTATTT
10528952 CTTTTTGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.59
Consensus pattern (23 bp):
ACTTATTAATTTCGTCTATTTTT
Found at i:10538543 original size:46 final size:46
Alignment explanation
Indices: 10538476--10538789 Score: 416
Period size: 46 Copynumber: 6.8 Consensus size: 46
10538466 AGTGTGCTCT
* *
10538476 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
10538522 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
10538568 GTGATATGAAATGTA-TAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATG-AGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
10538614 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
10538660 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCCTGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
10538706 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
10538753 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
10538790 TATGACATCA
Statistics
Matches: 246, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.00
46 204 0.83
47 41 0.17
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:10544951 original size:15 final size:15
Alignment explanation
Indices: 10544931--10544961 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10544921 ATGAAGGAAA
10544931 AGAAAAGAAAAGAAG
1 AGAAAAGAAAAGAAG
*
10544946 AGAAAAGAGAAGAAG
1 AGAAAAGAAAAGAAG
10544961 A
1 A
10544962 TAGGGGAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AGAAAAGAAAAGAAG
Found at i:10545328 original size:20 final size:19
Alignment explanation
Indices: 10545295--10545347 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
10545285 GTTGCTCGCT
10545295 TCTCCCAC-GCCCGTGTGG
1 TCTCCCACAGCCCGTGTGG
10545313 TCTCCCACATGCCCGTGTGG
1 TCTCCCACA-GCCCGTGTGG
*
10545333 TCTCCTACACGCCCG
1 TCTCCCACA-GCCCG
10545348 CGTGTTCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.26
20 23 0.74
ACGTcount: A:0.09, C:0.45, G:0.23, T:0.23
Consensus pattern (19 bp):
TCTCCCACAGCCCGTGTGG
Found at i:10555581 original size:43 final size:42
Alignment explanation
Indices: 10555534--10555628 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
10555524 TCCCGGACGT
* * ** *
10555534 GGTCTTATATGTAATTCA-ATATCGATGCCTCTGTCCCAAACAG
1 GGTCTTATACG-AAATCAGATAT-GATGCCAATGTCCCAAACAA
* *
10555577 GGTCTTACACGAAATCAGATATGATGCCAATGTCCCAGACAA
1 GGTCTTATACGAAATCAGATATGATGCCAATGTCCCAAACAA
10555619 GGTCTTATAC
1 GGTCTTATAC
10555629 ATAAATCACA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
42 30 0.70
43 13 0.30
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (42 bp):
GGTCTTATACGAAATCAGATATGATGCCAATGTCCCAAACAA
Found at i:10564846 original size:40 final size:39
Alignment explanation
Indices: 10564801--10564930 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
10564791 CGGAATATAA
10564801 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
10564841 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
10564881 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
10564921 CCGGATATAA
1 CCGGATATAA
10564931 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:10564945 original size:40 final size:40
Alignment explanation
Indices: 10564817--10564968 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
10564807 ATAACCATGT
* * *
10564817 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
10564857 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
10564897 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
10564937 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
10564969 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:10564951 original size:80 final size:80
Alignment explanation
Indices: 10564817--10564966 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
10564807 ATAACCATGT
*
10564817 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
10564881 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
10564897 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
10564960 CCCGGAT
64 CCCGGAT
10564967 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:10567781 original size:40 final size:40
Alignment explanation
Indices: 10567720--10567887 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
10567710 CAATTGAATG
* * *
10567720 ATATCCGGGTTAAGACTCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
10567761 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
10567800 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
10567840 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
10567880 ATATCCGG
1 ATATCCGG
10567888 TTGTATCCGA
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 97 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:10567853 original size:80 final size:79
Alignment explanation
Indices: 10567720--10567887 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
10567710 CAATTGAATG
* * *
10567720 ATATCCGGGTTAAGACTCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
10567785 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
10567800 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
10567864 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
10567880 ATATCCGG
1 ATATCCGG
10567888 TTGTATCCGA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:10576229 original size:40 final size:40
Alignment explanation
Indices: 10576173--10576340 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
10576163 CAATTGAATG
* * *
10576173 ATATCCGGGTTAAGACCCGAAGACAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
10576214 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
10576253 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
10576293 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
10576333 ATATCCGG
1 ATATCCGG
10576341 TTGTATCCGA
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 97 0.89
41 4 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:10576306 original size:80 final size:79
Alignment explanation
Indices: 10576173--10576340 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 79
10576163 CAATTGAATG
* *
10576173 ATATCCGGGTTAAGACCCGAAGACAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
10576238 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* * *
10576253 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
10576317 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
10576333 ATATCCGG
1 ATATCCGG
10576341 TTGTATCCGA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.03
80 75 0.96
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGACAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:10594335 original size:20 final size:20
Alignment explanation
Indices: 10594310--10594351 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10594300 ATACTCCAAG
*
10594310 GAAGCC-GATTGATTCATCAA
1 GAAGCCGGATTCA-TCATCAA
10594330 GAAGCCGGATTCATCATCAA
1 GAAGCCGGATTCATCATCAA
10594350 GA
1 GA
10594352 CTGAAGATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
GAAGCCGGATTCATCATCAA
Found at i:10594414 original size:47 final size:47
Alignment explanation
Indices: 10594345--10594434 Score: 180
Period size: 47 Copynumber: 1.9 Consensus size: 47
10594335 CGGATTCATC
10594345 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTAGGT
1 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTAGGT
10594392 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTT
1 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTT
10594435 GGGTTTTCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (47 bp):
ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTAGGT
Found at i:10595538 original size:43 final size:43
Alignment explanation
Indices: 10595408--10595553 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
10595398 CAATACCGAC
* * *
10595408 GTCCCAGACGTGGTCTTATATGT-AATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTATATGTAAATTC-AGATCGATGCCTAT
* * * * *
10595451 GTCCTAGAGAGGGTCTTACATG-AAA-TCAGATACGATGCCAAT
1 GTCCCAGACATGGTCTTATATGTAAATTCAGAT-CGATGCCTAT
*
10595493 GTCCCAGACATGGTCTTATATGTAAATCTCA-ATCGAGGCCTAT
1 GTCCCAGACATGGTCTTATATGTAAAT-TCAGATCGATGCCTAT
*
10595536 GTCCCAGACACGGTCTTA
1 GTCCCAGACATGGTCTTA
10595554 CACGATGTCT
Statistics
Matches: 83, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 3 0.04
42 28 0.34
43 47 0.57
44 2 0.02
45 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTATATGTAAATTCAGATCGATGCCTAT
Found at i:10599162 original size:225 final size:225
Alignment explanation
Indices: 10598872--10599323 Score: 771
Period size: 225 Copynumber: 2.0 Consensus size: 225
10598862 GGAAAAACTA
* *
10598872 GTTTAAGCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTGTTTGTAGAC
1 GTTTAAGCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTATTGGTAGAC
* * *
10598937 ACTATTTATAGTGTTAATTGGGAGCTTAGGAATAGCCTAAACCCCTAT-CTTAAGTTCTAAACAT
66 ACTATTCATAATGTTAATTGGGAGCTTAGGAATAGCCTAAACCCCTATGC-TAAGTTCCAAACAT
* *
10599001 AAGCTTCCTTATACCCTTTGTTTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTA
130 AAGCTTCCTTATACCCTTTGTCTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTAAGTATTA
10599066 AGTTGTGATAATGTGACATGTAATATATATT
195 AGTTGTGATAATGTGACATGTAATATATATT
* *
10599097 GTTTAAGCTTTCAGCAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATCGCTATTGGTAGAC
1 GTTTAAGCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTATTGGTAGAC
* *
10599162 ACTATTCATAATGTTAATTGGGAGCTTAGGAATAGCCTAAACCCCTATGCTAAGTTCCGAACGTA
66 ACTATTCATAATGTTAATTGGGAGCTTAGGAATAGCCTAAACCCCTATGCTAAGTTCCAAACATA
*
10599227 AGCTTCCTTATACCCTTTGTCTAATTTCAAAAGTATGTGATTGTGTGATGCGCACTAAGTATTAA
131 AGCTTCCTTATACCCTTTGTCTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTAAGTATTAA
*
10599292 GTTGTGATAATGTGACATGTGATATATATT
196 GTTGTGATAATGTGACATGTAATATATATT
10599322 GT
1 GT
10599324 GATAGCTCTT
Statistics
Matches: 213, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
225 212 1.00
226 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (225 bp):
GTTTAAGCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTATTGGTAGAC
ACTATTCATAATGTTAATTGGGAGCTTAGGAATAGCCTAAACCCCTATGCTAAGTTCCAAACATA
AGCTTCCTTATACCCTTTGTCTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTAAGTATTAA
GTTGTGATAATGTGACATGTAATATATATT
Found at i:10601811 original size:16 final size:16
Alignment explanation
Indices: 10601790--10601823 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10601780 GTGAAAAAAA
*
10601790 AAATATCGGATTAATG
1 AAATATCGGATAAATG
*
10601806 AAATATCTGATAAATG
1 AAATATCGGATAAATG
10601822 AA
1 AA
10601824 TCGGTAACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (16 bp):
AAATATCGGATAAATG
Found at i:10602045 original size:7 final size:7
Alignment explanation
Indices: 10602032--10602085 Score: 72
Period size: 7 Copynumber: 7.7 Consensus size: 7
10602022 AAGTACTCAC
10602032 CTTTGTG
1 CTTTGTG
*
10602039 TTTTGTG
1 CTTTGTG
*
10602046 TTTTGTG
1 CTTTGTG
*
10602053 TTTTGTG
1 CTTTGTG
*
10602060 CTTTATG
1 CTTTGTG
10602067 CTTTGTG
1 CTTTGTG
10602074 CTTTGTG
1 CTTTGTG
10602081 CTTTG
1 CTTTG
10602086 GCCAATGAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.02, C:0.09, G:0.26, T:0.63
Consensus pattern (7 bp):
CTTTGTG
Found at i:10608464 original size:28 final size:28
Alignment explanation
Indices: 10608420--10608488 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
10608410 TTTAAAACCC
* *
10608420 TAGGGGT-ATATCTGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
10608447 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
10608475 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
10608489 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:10610316 original size:19 final size:18
Alignment explanation
Indices: 10610279--10610322 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
10610269 ATACATACAG
10610279 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
10610296 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
10610315 TACTAATT
1 TAATAATT
10610323 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:10614639 original size:29 final size:29
Alignment explanation
Indices: 10614596--10614687 Score: 112
Period size: 29 Copynumber: 3.1 Consensus size: 29
10614586 TCTGCCATGT
* * *
10614596 AGGCATTCCTTTTGATAGATATAGCCACAC
1 AGGCA-TCCTTTTGATAGAGATAGACACAA
* *
10614626 AGGCATCCTTTTGATAGAGATAGGCATAA
1 AGGCATCCTTTTGATAGAGATAGACACAA
* *
10614655 ATGCATCCTTTTGACAGAGATAGACACAA
1 AGGCATCCTTTTGATAGAGATAGACACAA
10614684 AGGC
1 AGGC
10614688 TTTCTTATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 48 0.91
30 5 0.09
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (29 bp):
AGGCATCCTTTTGATAGAGATAGACACAA
Found at i:10620409 original size:21 final size:21
Alignment explanation
Indices: 10620385--10620435 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
10620375 ATCTCAACTT
**
10620385 TAATAAAATACAAAT-AACTCC
1 TAATAAAATA-AAATCAAAACC
**
10620406 TAATTCAATAAAATCAAAACC
1 TAATAAAATAAAATCAAAACC
10620427 TAATAAAAT
1 TAATAAAAT
10620436 CGAAATTGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.25
Consensus pattern (21 bp):
TAATAAAATAAAATCAAAACC
Found at i:10628107 original size:3 final size:3
Alignment explanation
Indices: 10628099--10628242 Score: 60
Period size: 3 Copynumber: 47.7 Consensus size: 3
10628089 AGTTTTATAT
* *
10628099 TTA TTA TTA TT- TTA TTTA TTA TTA TTT TTA GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * * * *** *
10628144 TCG TTA TTGCC TCTA TTA TTG TTC TT- TTA TCA CTA CCG TCA TTA TTA
1 TTA TTA TT--A T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * *
10628191 TTA -TA GTA TTA TTA GTA TTA TTA TTA CCA TTA TTT TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10628238 TTA TT
1 TTA TT
10628243 TTTTAAACCA
Statistics
Matches: 103, Mismatches: 31, Indels: 14
0.70 0.21 0.09
Matches are distributed among these distances:
2 6 0.06
3 91 0.88
4 4 0.04
5 1 0.01
6 1 0.01
ACGTcount: A:0.26, C:0.09, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:10628116 original size:15 final size:15
Alignment explanation
Indices: 10628096--10628142 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 15
10628086 TTGAGTTTTA
10628096 TATTTATTATTATTT
1 TATTTATTATTATTT
10628111 TATTTATTATTATTTT
1 TATTTATTATTA-TTT
10628127 TAGTATTATTATTATT
1 TA-T-TTATTATTATT
10628143 ATCGTTATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 12 0.41
16 5 0.17
17 3 0.10
18 9 0.31
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TATTTATTATTATTT
Found at i:10628370 original size:20 final size:21
Alignment explanation
Indices: 10628333--10628374 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
10628323 ATTTCCTTTG
10628333 TTATTTCATTTATTATTTTAT
1 TTATTTCATTTATTATTTTAT
*
10628354 TTATTTCGTTT-TTATTTTAT
1 TTATTTCATTTATTATTTTAT
10628374 T
1 T
10628375 CTTGTCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (21 bp):
TTATTTCATTTATTATTTTAT
Found at i:10628407 original size:15 final size:14
Alignment explanation
Indices: 10628379--10628417 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
10628369 TTTATTCTTG
10628379 TCCTCATTATTATTA
1 TCCT-ATTATTATTA
*
10628394 TCTTATTATATATTA
1 TCCTATTAT-TATTA
10628409 TCCTATTAT
1 TCCTATTAT
10628418 GTACCTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TCCTATTATTATTA
Found at i:10639813 original size:45 final size:45
Alignment explanation
Indices: 10639694--10639987 Score: 177
Period size: 45 Copynumber: 6.6 Consensus size: 45
10639684 TGAATATGGT
* * * * *
10639694 AGATCTTATCTTCCTGAAGTAGCAGTAGAGCAGA-TCAAAGA-CGG
1 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAGATAGC
* * ** ** * * *
10639738 TGAATCTTATCTCCATTTAGCGGCAATGGAGCAGACTAAAAATAGT
1 AG-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGC
*
10639784 AGATCTTATCTCCCTGGAGTTGCAGTGGAGCAGA-TCAAAGATAGC
1 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAGATAGC
* * * * * * ** * *
10639829 AAACCATATCTCTCTGAAGTTACAG-AGAGCAGGTTTAAGTTA-C
1 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGC
* * *
10639872 AGGTCTCATCTCCCTGAAGTTGCAGTTGGAGCAGACTGAAGATAGC
1 AGATCTTATCTCCCTGAAGTTGCAG-TGGAGCAGACTAAAGATAGC
* * * *
10639918 AGATCTTATCTCCTTGAAGTTGCAGCGGAGCAGATCGAAA-ATGGC
1 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAAGATAGC
* * * *
10639963 AAACCTTATCTCTCTAAAGTTGCAG
1 AGATCTTATCTCCCTGAAGTTGCAG
10639988 AGAGCATGTT
Statistics
Matches: 186, Mismatches: 55, Indels: 17
0.72 0.21 0.07
Matches are distributed among these distances:
43 19 0.10
44 13 0.07
45 125 0.67
46 29 0.16
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (45 bp):
AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGC
Found at i:10639858 original size:134 final size:133
Alignment explanation
Indices: 10639707--10639993 Score: 294
Period size: 134 Copynumber: 2.1 Consensus size: 133
10639697 TCTTATCTTC
* * **
10639707 CTGAAG-TAGCAGTAGAGCAGATCAAAG-ACGGTGAATCTTATCTCCATTTAGCGGCA-ATGGAG
1 CTGAAGTTA-CAG-AGAGCAGATCAAAGTACAG-G--TCTCATCTCCATGAAGCGGCAGATGGAG
* * *
10639769 CAGACTAAAAATAGTAGATCTTATCTCCCTGGAGTTGCAGTGGAGCAGATC-AAAGATAGCAAAC
61 CAGACTAAAAATAGCAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAA-ATAGCAAAC
10639833 CATATCTCT
125 CATATCTCT
* ** * ** *
10639842 CTGAAGTTACAGAGAGCAGGTTTAAGTTACAGGTCTCATCTCCCTGAAGTTGCAGTTGGAGCAGA
1 CTGAAGTTACAGAGAGCAGATCAAAG-TACAGGTCTCATCTCCATGAAGCGGCAGATGGAGCAGA
* * * * *
10639907 CTGAAGATAGCAGATCTTATCTCCTTGAAGTTGCAGCGGAGCAGATCGAAAATGGCAAACCTTAT
65 CTAAAAATAGCAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAAATAGCAAACCATAT
10639972 CTCT
130 CTCT
* *
10639976 CTAAAGTTGCAGAGAGCA
1 CTGAAGTTACAGAGAGCA
10639994 TGTTGAAATT
Statistics
Matches: 126, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
133 15 0.12
134 93 0.74
135 13 0.10
136 5 0.04
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (133 bp):
CTGAAGTTACAGAGAGCAGATCAAAGTACAGGTCTCATCTCCATGAAGCGGCAGATGGAGCAGAC
TAAAAATAGCAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAAATAGCAAACCATATC
TCT
Found at i:10641344 original size:3 final size:3
Alignment explanation
Indices: 10641336--10641524 Score: 107
Period size: 3 Copynumber: 63.7 Consensus size: 3
10641326 GAGTTTATGT
* * *
10641336 TTA TTA TTA -TA TTTA TTA TTA TTT TTA GTA TTA TTA TT- TCTG TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * * * *
10641381 TTA TTG TTA CTA TTA TTT TTA TTA GTA TTA TTA TTA TTG TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *** * * *
10641429 CTA TTA TTG TT- TCA CTA CCG TCA TTA TTA TTA -TA GTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
10641475 TTA TTA TTG CTA TTA TTT TTA TTA TCA TTA TTT TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10641523 TT
1 TT
10641525 TTTTTAAACC
Statistics
Matches: 137, Mismatches: 43, Indels: 12
0.71 0.22 0.06
Matches are distributed among these distances:
2 6 0.04
3 128 0.93
4 3 0.02
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:10641653 original size:20 final size:21
Alignment explanation
Indices: 10641616--10641657 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
10641606 ATTTCCTTTG
10641616 TTATTTCATTTATTATTTTAT
1 TTATTTCATTTATTATTTTAT
*
10641637 TTATTTCGTTT-TTATTTTAT
1 TTATTTCATTTATTATTTTAT
10641657 T
1 T
10641658 CTTGTCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (21 bp):
TTATTTCATTTATTATTTTAT
Found at i:10641690 original size:15 final size:14
Alignment explanation
Indices: 10641662--10641700 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
10641652 TTTATTCTTG
10641662 TCCTCATTATTATTA
1 TCCT-ATTATTATTA
*
10641677 TCTTATTATATATTA
1 TCCTATTAT-TATTA
10641692 TCCTATTAT
1 TCCTATTAT
10641701 GTACCTATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (14 bp):
TCCTATTATTATTA
Found at i:10644656 original size:13 final size:14
Alignment explanation
Indices: 10644632--10644660 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10644622 AATTATAAAA
10644632 AATATGTAATATAT
1 AATATGTAATATAT
10644646 AATAT-TAATATAT
1 AATATGTAATATAT
10644659 AA
1 AA
10644661 ACAGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
AATATGTAATATAT
Found at i:10645168 original size:16 final size:15
Alignment explanation
Indices: 10645133--10645168 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
10645123 CTTAACAAAT
10645133 ATTTTTACAAGATTC
1 ATTTTTACAAGATTC
*
10645148 ATTTTTACAATATTC
1 ATTTTTACAAGATTC
10645163 ATTTTT
1 ATTTTT
10645169 CTTAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTTTTACAAGATTC
Found at i:10646321 original size:6 final size:6
Alignment explanation
Indices: 10646306--10646348 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
10646296 GCCCAACTCT
* *
10646306 CCGCCG CCGCCA CCGCCA CCGCAA CCGCCA CCGCCA CCGCCA C
1 CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA CCGCCA C
10646349 AGATCCAAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.16, C:0.65, G:0.19, T:0.00
Consensus pattern (6 bp):
CCGCCA
Found at i:10648283 original size:25 final size:25
Alignment explanation
Indices: 10648247--10648299 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
10648237 TAATAAACAG
10648247 ATTAGACATTTTTTTACTATATTAT
1 ATTAGACATTTTTTTACTATATTAT
* *
10648272 ATTAGACTTTTTTTTCCTATATTAT
1 ATTAGACATTTTTTTACTATATTAT
10648297 ATT
1 ATT
10648300 CAAGGATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.58
Consensus pattern (25 bp):
ATTAGACATTTTTTTACTATATTAT
Found at i:10649266 original size:17 final size:18
Alignment explanation
Indices: 10649244--10649279 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10649234 AATAAACACG
10649244 AAACCAAG-AGCAAAAGA
1 AAACCAAGAAGCAAAAGA
*
10649261 AAACCAAGAAGCAGAAGA
1 AAACCAAGAAGCAAAAGA
10649279 A
1 A
10649280 GAGGAAGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.64, C:0.17, G:0.19, T:0.00
Consensus pattern (18 bp):
AAACCAAGAAGCAAAAGA
Done.