Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 74 of 335
Found at i:24949657 original size:20 final size:21
Alignment explanation
Indices: 24949619--24949657 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
24949609 ACAAGTCAAG
*
24949619 GTAAAATAAACTCATTTTTCT
1 GTAAAATAAACTCACTTTTCT
*
24949640 GTAAAAT-AACTTACTTTT
1 GTAAAATAAACTCACTTTT
24949658 TTGAAAAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (21 bp):
GTAAAATAAACTCACTTTTCT
Found at i:24949906 original size:20 final size:20
Alignment explanation
Indices: 24949852--24949907 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
24949842 TTTAGTCATA
24949852 TAATAAATTA-TTAATA---
1 TAATAAATTATTTAATATTT
24949868 TAATAAATATAATTT--TATTT
1 TAATAAAT-T-ATTTAATATTT
24949888 TAATAAATTATTTAATATTT
1 TAATAAATTATTTAATATTT
24949908 CAATTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
16 8 0.25
17 3 0.09
18 5 0.16
19 3 0.09
20 13 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TAATAAATTATTTAATATTT
Found at i:24951914 original size:40 final size:40
Alignment explanation
Indices: 24951860--24951979 Score: 156
Period size: 40 Copynumber: 3.0 Consensus size: 40
24951850 ATTTGATGTG
*
24951860 TATCCGGGC-TAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGAGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
24951899 TATCCGAGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGAGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
* *** *
24951939 TACTCGGA-CTT-AAGGTTCGCAGGCTATGTGCTGGAATTA
1 TA-TCCGAGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
24951978 TA
1 TA
24951980 ACTGGACTTA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 34 0.47
40 35 0.48
41 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
TATCCGAGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
Found at i:24951971 original size:39 final size:39
Alignment explanation
Indices: 24951876--24952003 Score: 170
Period size: 39 Copynumber: 3.3 Consensus size: 39
24951866 GGCTAAAGAC
* **
24951876 CCGCAGGCTATATGCTGGAATTATA-TCCGAGCTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATACTCGGA-CTT-AAGGT
24951916 CCGCAGGCTATATGCTGGAATTATACTCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATACTCGGACTTAAGGT
* *
24951955 TCGCAGGCTATGTGCTGGAATTATAACT-GGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTAT-ACTCGGACTTAAGGT
24951994 CCGCAGGCTA
1 CCGCAGGCTA
24952004 CGCGCTGGAA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 45 0.56
40 31 0.39
41 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (39 bp):
CCGCAGGCTATATGCTGGAATTATACTCGGACTTAAGGT
Found at i:24959828 original size:39 final size:39
Alignment explanation
Indices: 24959715--24959898 Score: 269
Period size: 39 Copynumber: 4.7 Consensus size: 39
24959705 ATTTGATGTG
24959715 TATCCGGGCTTAAAGACCTGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTTAAAGACC-GCAGGCTATATGCTGGAATTA
24959755 TATCCGGGCTTAAAGACCTGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTTAAAGACC-GCAGGCTATATGCTGGAATTA
24959795 TATCCGGGCTTAAAGACCGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTTAAAGACCGCAGGCTATATGCTGGAATTA
* * * * *
24959834 TACCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGGCTTAAAGACCGCAGGCTATATGCTGGAATTA
* * * *
24959873 TAACCGGACTTAAGGTCCGCAGGCTA
1 TATCCGGGCTTAAAGACCGCAGGCTA
24959899 CGCGCTGGAA
Statistics
Matches: 138, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 80 0.58
40 58 0.42
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
TATCCGGGCTTAAAGACCGCAGGCTATATGCTGGAATTA
Found at i:24960167 original size:2 final size:2
Alignment explanation
Indices: 24960160--24960190 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
24960150 TCAAAGAAGA
*
24960160 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24960191 AGTGTAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:24961510 original size:18 final size:18
Alignment explanation
Indices: 24961473--24961510 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
24961463 GTTCACCTCT
*
24961473 TTTCTTAGTATTTATTAG
1 TTTCTTAGTATTTATGAG
24961491 TTTC-TAGTATTATATGAG
1 TTTCTTAGTATT-TATGAG
24961509 TT
1 TT
24961511 GTGGGTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.58
Consensus pattern (18 bp):
TTTCTTAGTATTTATGAG
Found at i:24962182 original size:6 final size:6
Alignment explanation
Indices: 24962159--24962196 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
24962149 TTTTTAACTA
24962159 ATAATT ATAAATT A-AATT ATAATT ATAATT ATAATT AT
1 ATAATT AT-AATT ATAATT ATAATT ATAATT ATAATT AT
24962197 CACAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.17
6 20 0.67
7 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:24966143 original size:18 final size:19
Alignment explanation
Indices: 24966107--24966145 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
24966097 ACTAAATAAT
24966107 AAAATATAATAATTATTTA
1 AAAATATAATAATTATTTA
24966126 AAAATAT-AT-ATTACTTTA
1 AAAATATAATAATTA-TTTA
24966144 AA
1 AA
24966146 TTTTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 8 0.42
19 7 0.37
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATATAATAATTATTTA
Found at i:24967282 original size:28 final size:28
Alignment explanation
Indices: 24967242--24967299 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
24967232 GTTCTGAGTA
24967242 TAAGTTTCCCTATTCACTCTATTATCAT
1 TAAGTTTCCCTATTCACTCTATTATCAT
**
24967270 TAAGTTTCCCTATTCGTTCTATTATCAT
1 TAAGTTTCCCTATTCACTCTATTATCAT
24967298 TA
1 TA
24967300 TGAAATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.05, T:0.48
Consensus pattern (28 bp):
TAAGTTTCCCTATTCACTCTATTATCAT
Found at i:24967761 original size:50 final size:50
Alignment explanation
Indices: 24967687--24967822 Score: 256
Period size: 50 Copynumber: 2.7 Consensus size: 50
24967677 TATGAGTCAT
*
24967687 TGGTTGTGTTT-GAAGGGTATTAGCTATATGCTACACGTACGGGATATGC
1 TGGTTGTGTTTGGAAGGGTGTTAGCTATATGCTACACGTACGGGATATGC
24967736 TGGTTGTGTTTGGAAGGGTGTTAGCTATATGCTACACGTACGGGATATGC
1 TGGTTGTGTTTGGAAGGGTGTTAGCTATATGCTACACGTACGGGATATGC
24967786 TGGTTGTGTTTGGAAGGGTGTTAGCTATATGCTACAC
1 TGGTTGTGTTTGGAAGGGTGTTAGCTATATGCTACAC
24967823 ATTCATAGGA
Statistics
Matches: 85, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
49 11 0.13
50 74 0.87
ACGTcount: A:0.21, C:0.12, G:0.32, T:0.35
Consensus pattern (50 bp):
TGGTTGTGTTTGGAAGGGTGTTAGCTATATGCTACACGTACGGGATATGC
Found at i:24971995 original size:13 final size:13
Alignment explanation
Indices: 24971979--24972012 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24971969 TAAATTATAA
*
24971979 ATTATTATTAACT
1 ATTATTATTAAAT
24971992 ATTATTATTAAAT
1 ATTATTATTAAAT
*
24972005 AATATTAT
1 ATTATTAT
24972013 ATATATATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTATTATTAAAT
Found at i:24972064 original size:17 final size:17
Alignment explanation
Indices: 24972042--24972076 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
24972032 AAATGAAGAA
*
24972042 AAAGAATAAAAAGAAAC
1 AAAGAAGAAAAAGAAAC
*
24972059 AAAGAAGAATAAGAAAC
1 AAAGAAGAAAAAGAAAC
24972076 A
1 A
24972077 GAGAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.14, T:0.06
Consensus pattern (17 bp):
AAAGAAGAAAAAGAAAC
Found at i:24972686 original size:39 final size:39
Alignment explanation
Indices: 24972579--24972713 Score: 121
Period size: 39 Copynumber: 3.4 Consensus size: 39
24972569 GACCTCGAGT
* * * *
24972579 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAT-TATTACTTCGGCTAG-TC
** ** * *
24972620 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGGCTAGTC
*
24972658 CGATGAGACACTGGGTGTCAATTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAATTATTACTTCG-GCTAGTC
*
24972697 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
24972714 CCATATTGGT
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
38 18 0.24
39 36 0.49
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGGCTAGTC
Found at i:24988240 original size:26 final size:26
Alignment explanation
Indices: 24988209--24988261 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
24988199 CAAATAGAAG
24988209 TTACATGAGTTTACTTATTTGAATAA
1 TTACATGAGTTTACTTATTTGAATAA
24988235 TTACATGAGTTTACTTATTTGAATAA
1 TTACATGAGTTTACTTATTTGAATAA
24988261 T
1 T
24988262 AGACTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (26 bp):
TTACATGAGTTTACTTATTTGAATAA
Found at i:25003609 original size:51 final size:51
Alignment explanation
Indices: 25003476--25004218 Score: 827
Period size: 48 Copynumber: 14.9 Consensus size: 51
25003466 CTACTCCCAC
* * * * * *
25003476 CACCACCCAAGGAGCCTTACAAGTATAAGTCTCCACCACCTCCTCCACCAGT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCA-T
** * * * *
25003528 GCATTATCCACCA-CCCCCTTACGAGTACAAGTCTCCTCCACCACCCCCGCCAT
1 -CACCA-CC-CAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCAT
*
25003581 CACCACCTAAGCACCCTTACAAGTACAAG--T-CTCCACCACCCCCACCAT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCAT
* * * *
25003629 CACCACCCAAGCATCCC-TATAAGTACAAGTCTCCACCTCCACCTCCACCAT
1 CACCACCCAAGCA-CCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCAT
*
25003680 CACCACCCAAGCACCCTTACACGTACAAG--T-CTCCACCACCCCCACCAT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCAT
* *
25003728 CACCACCCAAGCACCCCTACAAGTACAAGTCTCCTCCACCACCTCCACCAT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCAT
* *
25003779 CACCACCCAAGCACCCCTACAAGTATAAG--T-CTCCACCACCCCCACCAT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCAT
* *
25003827 CACCACCCAAGCATCCTTACAAGTACAAG--T-CTCCACCACCACCACCAT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCAT
*
25003875 CACCACCCAAGCACCCCTACAAGTACAAGTCTCCT---CCACCCCCACCAT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCAT
* * *
25003923 CACCACCCAAGCATCCTTACAAGTACAAGTCTCCACCACCACCTCCACCAT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCAT
*
25003974 CACCACCCAAGCACCCCTACAAGTACAAG--T-CT---CCACCCCCACCAT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCAT
* *
25004019 CACCACCCAAGCATCCC-TACAAGTACAAGTCTCCACCCCACCCCCACCCCCACCCT
1 CACCACCCAAGCA-CCCTTACAAGTACAAGTCT-C-CTCCA---CCACCCCCACCAT
* * * * * *
25004075 CTCCACCCAAGCACCCGTACAAGTACAAGTCTCCACCGCC-GCCCCACCCT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCAT
* * * *
25004125 CACCGCCCAAGCACCCCTACAAGTACAAGTCTCCACC-CCACCCCCACCCT
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCAT
*
25004175 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCCCCACCACCC
1 CACCACCCAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCC
25004219 ACTCCAGTCT
Statistics
Matches: 596, Mismatches: 62, Indels: 66
0.82 0.09 0.09
Matches are distributed among these distances:
45 37 0.06
46 3 0.01
47 1 0.00
48 215 0.36
49 9 0.02
50 94 0.16
51 150 0.25
52 3 0.01
53 4 0.01
54 35 0.06
55 6 0.01
56 39 0.07
ACGTcount: A:0.29, C:0.50, G:0.07, T:0.14
Consensus pattern (51 bp):
CACCACCCAAGCACCCTTACAAGTACAAGTCTCCTCCACCACCCCCACCAT
Found at i:25003692 original size:99 final size:98
Alignment explanation
Indices: 25003551--25004220 Score: 954
Period size: 99 Copynumber: 6.8 Consensus size: 98
25003541 CCCCCTTACG
* * * *
25003551 AGTACAAGTCTCCTCCACCACCCCCGCCATCACCACCTAAGCACCCTTACAAGTACAAGTCTCCA
1 AGTACAAGTCTCCACC-CCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCA
*
25003616 CCACCCCCACCATCACCACCCAAGCATCCCTATA
65 CCACCCCCACCATCACCACCCAAGCATCCCTACA
* * *
25003650 AGTACAAGTCTCCACCTCCACCTCCACCATCACCACCCAAGCACCCTTACACGTACAAGTCTCCA
1 AGTACAAGTCTCCACC-CCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCA
*
25003715 CCACCCCCACCATCACCACCCAAGCACCCCTACA
65 CCACCCCCACCATCACCACCCAAGCATCCCTACA
* * *
25003749 AGTACAAGTCTCCTCCACCACCTCCACCATCACCACCCAAGCACCCCTACAAGTATAAGTCTCCA
1 AGTACAAGTCTCCACC-CCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCA
*
25003814 CCACCCCCACCATCACCACCCAAGCATCCTTACA
65 CCACCCCCACCATCACCACCCAAGCATCCCTACA
* *
25003848 AGTACAAGTCTCCA--CCACCACCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCTC
1 AGTACAAGTCTCCACCCCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCAC
*
25003911 CACCCCCACCATCACCACCCAAGCATCCTTACA
66 CACCCCCACCATCACCACCCAAGCATCCCTACA
*
25003944 AGTACAAGTCTCCACCACCACCTCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCT---
1 AGTACAAGTCTCCACC-CCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCA
25004006 CCACCCCCACCATCACCACCCAAGCATCCCTACA
65 CCACCCCCACCATCACCACCCAAGCATCCCTACA
* *
25004040 AGTACAAGTCTCCACCCCACCCCCACCCCCACCCTCTCCACCCAAGCACCCGTACAAGTACAAGT
1 AGTACAAGTCTCCACCCCACCCCCA---CCA---TCACCACCCAAGCACCCCTACAAGTACAAGT
* * * *
25004105 CTCCACCGCCGCCCCACCCTCACCGCCCAAGCACCCCTACA
60 CTCCACC-AC-CCCCACCATCACCACCCAAGCATCCCTACA
* * *
25004146 AGTACAAGTCTCCACCCCACCCCCACCCTCACCACCCAAGCACCCTTACAAGTACAAGTCTCCCC
1 AGTACAAGTCTCCACCCCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCAC
25004211 CACCACCCAC
66 CACC-CCCAC
25004221 TCCAGTCTAC
Statistics
Matches: 523, Mismatches: 33, Indels: 30
0.89 0.06 0.05
Matches are distributed among these distances:
95 8 0.02
96 142 0.27
98 4 0.01
99 246 0.47
100 35 0.07
101 31 0.06
103 2 0.00
104 2 0.00
105 1 0.00
106 52 0.10
ACGTcount: A:0.29, C:0.51, G:0.07, T:0.13
Consensus pattern (98 bp):
AGTACAAGTCTCCACCCCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCAC
CACCCCCACCATCACCACCCAAGCATCCCTACA
Found at i:25003733 original size:147 final size:146
Alignment explanation
Indices: 25003476--25004220 Score: 903
Period size: 147 Copynumber: 5.0 Consensus size: 146
25003466 CTACTCCCAC
* * * * * ** * *
25003476 CACCACCCAAGGAGCCTTACAAGTATAAGTCTCCACCACCTCCTCCACCAGTGCATTATCC-ACC
1 CACCACCCAAGCATCCCTACAAGTACAAGTCTCCACC-CCACCTCCACCA-T-CACCACCCAAGC
* * * *
25003540 ACCCCCTTACGAGTACAAGTCTCCTCCACCACCCCCGCCATCACCACCTAAGCACCCTTACAAGT
63 A-CCCC-TACAAGTACAAG--T-CTCCACCACCCCCACCATCACCACCCAAGCACCCCTACAAGT
25003605 ACAAGTCTCCACCACCCCCACCAT
123 ACAAGTCTCCACCACCCCCACCAT
*
25003629 CACCACCCAAGCATCCCTATAAGTACAAGTCTCCACCTCCACCTCCACCATCACCACCCAAGCAC
1 CACCACCCAAGCATCCCTACAAGTACAAGTCTCCACC-CCACCTCCACCATCACCACCCAAGCAC
* *
25003694 CCTTACACGTACAAGTCTCCACCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTC
65 CCCTACAAGTACAAGTCTCCACCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAG--
*
25003759 TCCTCCACCACCTCCACCAT
128 T-CTCCACCACCCCCACCAT
* * * *
25003779 CACCACCCAAGCACCCCTACAAGTATAAGTCTCCA--CCACCCCCACCATCACCACCCAAGCATC
1 CACCACCCAAGCATCCCTACAAGTACAAGTCTCCACCCCACCTCCACCATCACCACCCAAGCACC
* *
25003842 CTTACAAGTACAAGTCTCCACCACCACCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCT
66 CCTACAAGTACAAGTCTCCACCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCT
*
25003907 CCTCCACCCCCACCAT
131 CCACCACCCCCACCAT
*
25003923 CACCACCCAAGCATCCTTACAAGTACAAGTCTCCACCACCACCTCCACCATCACCACCCAAGCAC
1 CACCACCCAAGCATCCCTACAAGTACAAGTCTCCACC-CCACCTCCACCATCACCACCCAAGCAC
*
25003988 CCCTACAAGTACAAGTCT---CCACCCCCACCATCACCACCCAAGCATCCCTACAAGTACAAGTC
65 CCCTACAAGTACAAGTCTCCACCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTC
25004050 TCCACCCCACCCCCACCCCCACCCT
130 TCCA--CCACCCCCA---CCA---T
* * * *
25004075 CTCCACCCAAGCA-CCCGTACAAGTACAAGTCTCCACCGCCGCC-CCACCCTCACCGCCCAAGCA
1 CACCACCCAAGCATCCC-TACAAGTACAAGTCTCCACC-CCACCTCCACCATCACCACCCAAGCA
* *
25004138 CCCCTACAAGTACAAGTCTCCACCCCACCCCCACCCTCACCACCCAAGCACCCTTACAAGTACAA
64 CCCCTACAAGTACAAGTCTCCA--CCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAA
*
25004203 GTCTCCCCCACCACCCAC
127 GTCTCCACCACC-CCCAC
25004221 TCCAGTCTAC
Statistics
Matches: 524, Mismatches: 46, Indels: 45
0.85 0.07 0.07
Matches are distributed among these distances:
144 93 0.18
145 1 0.00
146 9 0.02
147 172 0.33
148 1 0.00
149 4 0.01
150 59 0.11
151 47 0.09
152 42 0.08
153 43 0.08
154 5 0.01
155 4 0.01
156 44 0.08
ACGTcount: A:0.29, C:0.50, G:0.07, T:0.14
Consensus pattern (146 bp):
CACCACCCAAGCATCCCTACAAGTACAAGTCTCCACCCCACCTCCACCATCACCACCCAAGCACC
CCTACAAGTACAAGTCTCCACCACCCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCT
CCACCACCCCCACCAT
Found at i:25005383 original size:127 final size:126
Alignment explanation
Indices: 25005265--25005495 Score: 327
Period size: 127 Copynumber: 1.8 Consensus size: 126
25005255 AAGGTTTTTT
* * *
25005265 TACATTAATTATATAAAAAAATTACAAAAATGAGATAGAAAGTAAATTATTTATGAGATTAAATA
1 TACATTAATTATATAAAAAAATTACAAAAATAAGATAGAAAGTAAATTATTTATAAGAAT-AATA
* * *
25005330 GTTTTGAATAGTAAAAGGCAATGTCATCAATATATCAAATAATATCACCTATAAAAAAATAA
65 GTTTTAAACAGTAAAAAGCAATGTCATCAATATATCAAATAATATCACCTATAAAAAAATAA
** * *
25005392 TATTTTGATTATATAAAAAAATTACAAAAATAAGATAGAAAGTAAATTATTTATAAGAATGATAG
1 TACATTAATTATATAAAAAAATTACAAAAATAAGATAGAAAGTAAATTATTTATAAGAATAATAG
* * * *
25005457 TTTTAAACAGTAAAAAGTAGTGTCGTTAATATATCAAAT
66 TTTTAAACAGTAAAAAGCAATGTCATCAATATATCAAAT
25005496 GACATTATCT
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
126 36 0.40
127 54 0.60
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (126 bp):
TACATTAATTATATAAAAAAATTACAAAAATAAGATAGAAAGTAAATTATTTATAAGAATAATAG
TTTTAAACAGTAAAAAGCAATGTCATCAATATATCAAATAATATCACCTATAAAAAAATAA
Found at i:25005549 original size:126 final size:126
Alignment explanation
Indices: 25005277--25005550 Score: 327
Period size: 126 Copynumber: 2.2 Consensus size: 126
25005267 CATTAATTAT
* * * * *
25005277 ATAAAAAAATTACAAAAATGAGATAGAAAGTAAATTATTTATGAGATTAAATAGTTTTGAATAGT
1 ATAAAAAAATTACAAAAATAAGATAGAAAGTAAATTATTTATAAGAATAAATAGTTTTAAACAGT
* * * * *
25005342 AAAAGGCAATGTCATCAATATATCAAATAATATCACCTATAAAAAAATAATATTTTGATTAT
66 AAAAAGCAATGTCATCAATATATCAAATAACATCACCTAT-AAAAAATAATATTTTAATAAA
*
25005404 ATAAAAAAATTACAAAAATAAGATAGAAAGTAAATTATTTATAAGAAT-GATAGTTTTAAACAGT
1 ATAAAAAAATTACAAAAATAAGATAGAAAGTAAATTATTTATAAGAATAAATAGTTTTAAACAGT
* * * * * * *
25005468 AAAAAGTAGTGTCGTTAATATATCAAATGACATTATCTAT-AAAAATAATATTTTAATAAAA
66 AAAAAGCAATGTCATCAATATATCAAATAACATCACCTATAAAAAATAATATTTTAAT-AAA
* *
25005529 ATAAATAAAATAATAAAAATAA
1 ATAAA-AAAATTACAAAAATAA
25005551 CTTTAATTTC
Statistics
Matches: 125, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
124 16 0.13
125 6 0.05
126 58 0.46
127 45 0.36
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.31
Consensus pattern (126 bp):
ATAAAAAAATTACAAAAATAAGATAGAAAGTAAATTATTTATAAGAATAAATAGTTTTAAACAGT
AAAAAGCAATGTCATCAATATATCAAATAACATCACCTATAAAAAATAATATTTTAATAAA
Found at i:25005668 original size:14 final size:13
Alignment explanation
Indices: 25005644--25005687 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
25005634 TTTAAGCAAA
25005644 ATTTATATATTTTT
1 ATTT-TATATTTTT
*
25005658 AGTTTTATATTTAT
1 A-TTTTATATTTTT
25005672 ATTTTATAGTTTTT
1 ATTTTATA-TTTTT
25005686 AT
1 AT
25005688 ATTAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 7 0.27
14 16 0.62
15 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (13 bp):
ATTTTATATTTTT
Found at i:25005669 original size:22 final size:22
Alignment explanation
Indices: 25005649--25005690 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
25005639 GCAAAATTTA
25005649 TATATTTT-TAG-TTTTATATT
1 TATATTTTATAGTTTTTATATT
25005669 TATATTTTATAGTTTTTATATT
1 TATATTTTATAGTTTTTATATT
25005691 AATAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.40
21 3 0.15
22 9 0.45
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
TATATTTTATAGTTTTTATATT
Found at i:25007191 original size:84 final size:85
Alignment explanation
Indices: 25007050--25007233 Score: 237
Period size: 84 Copynumber: 2.2 Consensus size: 85
25007040 TTTCTTATAG
* * *
25007050 AAAACGCCGCTAAAGATCAGGACCTTTAGCGGTATTTCTTTAAGAAACGACGCTAAAGAACAGGA
1 AAAACGCCGCTAAAGACCAGGACCTTTAGCGGGATTTCTTTAAGAAACGACGCTAAAGAACAAGA
* *
25007115 CCTTTAGTGGCACTTTT-TA
66 CCTTTAGCGGCACTTTTCCA
* * * *
25007134 AAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTTTAA-AAACGCCGCTAAAGACCAAG
1 AAAACGCCGCTAAAGACCAGGACCTTTAGCGG-GATTTCTTTAAGAAACGACGCTAAAGAACAAG
*
25007198 ACCTTTAGCGGCGCTTTTCCCCA
65 ACCTTTAGCGGCACTTTT--CCA
25007221 AAAACGCCGCTAA
1 AAAACGCCGCTAA
25007234 CAACATGATC
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
84 64 0.74
85 8 0.09
87 14 0.16
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (85 bp):
AAAACGCCGCTAAAGACCAGGACCTTTAGCGGGATTTCTTTAAGAAACGACGCTAAAGAACAAGA
CCTTTAGCGGCACTTTTCCA
Found at i:25007210 original size:43 final size:43
Alignment explanation
Indices: 25007050--25007233 Score: 221
Period size: 43 Copynumber: 4.3 Consensus size: 43
25007040 TTTCTTATAG
* ** *
25007050 AAAACGCCGCTAAAGATCAGGACCTTTAGCGG-TATTTCTTTA
1 AAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTTTA
* * * *
25007092 AGAAACGACGCTAAAGAACAGGACCTTTAGTGGCAC--TTTTTA
1 A-AAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTTTA
25007134 AAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTTTA
1 AAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTTTA
* ***
25007177 AAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCCA
1 AAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTT-TTTA
25007221 AAAACGCCGCTAA
1 AAAACGCCGCTAA
25007234 CAACATGATC
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
41 30 0.24
42 7 0.06
43 72 0.59
44 14 0.11
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (43 bp):
AAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTTTA
Found at i:25007247 original size:43 final size:44
Alignment explanation
Indices: 25007050--25007281 Score: 187
Period size: 43 Copynumber: 5.4 Consensus size: 44
25007040 TTTCTTATAG
* * ***
25007050 AAAACGCCGCTAAAGATCAGGACCTTTAGC-G-G-TATTTCTTTA
1 AAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCT-TTTCCCCA
* * * * * *
25007092 AGAAACGACGCTAAAGAACAGGACCTTTAGTGGCACTTTT---TA
1 A-AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCCA
* ***
25007134 AAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTT-TTTA
1 AAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCCA
25007177 AAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCCA
1 AAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCCA
* * * *
25007221 AAAACGCCGCTAACA-A-CATGATCTTTAGCGACG-GTTTCCCCA
1 AAAACGCCGCTAA-AGACCAAGACCTTTAGCGGCGCTTTTCCCCA
*
25007263 AAAACGCCACTAAAGACCA
1 AAAACGCCGCTAAAGACCA
25007282 TATATATTTC
Statistics
Matches: 163, Mismatches: 17, Indels: 19
0.82 0.09 0.10
Matches are distributed among these distances:
41 35 0.21
42 25 0.15
43 82 0.50
44 16 0.10
45 4 0.02
46 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.22
Consensus pattern (44 bp):
AAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCCA
Found at i:25011429 original size:18 final size:18
Alignment explanation
Indices: 25011406--25011449 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
25011396 AGGGATTTTG
* *
25011406 GGGGAAATTTAG-GGATT
1 GGGGAAATGTAGAGAATT
25011423 AGGGGAAATGTAGAGAATT
1 -GGGGAAATGTAGAGAATT
25011442 GGGGAAAT
1 GGGGAAAT
25011450 CTGTTTTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.41, T:0.23
Consensus pattern (18 bp):
GGGGAAATGTAGAGAATT
Found at i:25011724 original size:73 final size:74
Alignment explanation
Indices: 25011579--25011876 Score: 526
Period size: 74 Copynumber: 4.0 Consensus size: 74
25011569 CGCCGTTTTC
25011579 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
1 ATAGTGTTTTTTGTGGCGTTTTTT-AAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
25011644 ATTTGTTATA
65 ATTTGTTATA
25011654 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAACGCCACTAATCTCTTAA-TTTCATATTTATTTTTA
1 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTTA
25011718 TTTGTTATA
66 TTTGTTATA
** *
25011727 ATAGTGTTTTTTGTGGCGTTTTTTTTAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTTA
1 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTTA
25011792 TTTGTTATA
66 TTTGTTATA
* *
25011801 ATAGTGTTTTTTGTGGCGTTTTTAAAAAAATGCCACTAATCTCTTAATTTTCATATTTATTTTTA
1 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTTA
*
25011866 TTTGATATA
66 TTTGTTATA
25011875 AT
1 AT
25011877 TTGGAAGCCA
Statistics
Matches: 213, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
73 70 0.33
74 119 0.56
75 24 0.11
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (74 bp):
ATAGTGTTTTTTGTGGCGTTTTTTAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTTA
TTTGTTATA
Found at i:25011847 original size:147 final size:149
Alignment explanation
Indices: 25011579--25011876 Score: 528
Period size: 147 Copynumber: 2.0 Consensus size: 149
25011569 CGCCGTTTTC
*
25011579 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATATTTATTTTT
1 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTT
*
25011644 ATTTGTTATAATAGTGTTTTTTGTGGCGTTTTTTAAAAAACGCCACTAATCTCTTAA-TTTCATA
66 ATTTGTTATAATAGTGTTTTTTGTGGCGTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATA
*
25011708 TTTATTTTTATTTGTTATA
131 TTTATTTTTATTTGATATA
**
25011727 ATAGTGTTTTTTGTGGCGTTTTTT-TTAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTT
1 ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTT
*
25011791 ATTTGTTATAATAGTGTTTTTTGTGGCGTTTTTAAAAAAATGCCACTAATCTCTTAATTTTCATA
66 ATTTGTTATAATAGTGTTTTTTGTGGCGTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATA
25011856 TTTATTTTTATTTGATATA
131 TTTATTTTTATTTGATATA
25011875 AT
1 AT
25011877 TTGGAAGCCA
Statistics
Matches: 143, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
147 92 0.64
148 51 0.36
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (149 bp):
ATAGTGTTTTTTGTGGCGTTTTTTAAAAAAACGCCACTAATCTCTCAATTTTCATATTTATTTTT
ATTTGTTATAATAGTGTTTTTTGTGGCGTTTTTAAAAAAACGCCACTAATCTCTTAATTTTCATA
TTTATTTTTATTTGATATA
Found at i:25012256 original size:21 final size:21
Alignment explanation
Indices: 25012230--25012381 Score: 117
Period size: 21 Copynumber: 6.9 Consensus size: 21
25012220 ACTCTTAAAC
*
25012230 CTTAAACCCTAAATCATATAT
1 CTTAAACCCTAAACCATATAT
* * *
25012251 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCCTA---AAC-CATATAT
*
25012276 CCTAAACCCTAAACCATATAT
1 CTTAAACCCTAAACCATATAT
*
25012297 CTTAAACCTTAAACCATATAT
1 CTTAAACCCTAAACCATATAT
* * *
25012318 CTTAAACCGAAGTTAACTCATA-AA
1 CTTAAACC---CTAAAC-CATATAT
*
25012342 CATTAAACCCCAAACCATATAT
1 C-TTAAACCCTAAACCATATAT
*
25012364 CTTAAACCATAAACCATA
1 CTTAAACCCTAAACCATA
25012382 AACTATAATG
Statistics
Matches: 102, Mismatches: 19, Indels: 20
0.72 0.13 0.14
Matches are distributed among these distances:
21 61 0.60
22 8 0.08
24 8 0.08
25 25 0.25
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.27
Consensus pattern (21 bp):
CTTAAACCCTAAACCATATAT
Found at i:25012265 original size:46 final size:46
Alignment explanation
Indices: 25012214--25012304 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
25012204 CTTCAAATAC
* * *
25012214 TAGTTAACTCTTAAACCTTAAACCCTAAATCATATATCTTAAACCA
1 TAGTTAACTCATAAACCCTAAACCCTAAACCATATATCTTAAACCA
25012260 TAGTTAACTCATAAACCCTAAACCCTAAACCATATATCTTAAACC
1 TAGTTAACTCATAAACCCTAAACCCTAAACCATATATCTTAAACC
25012305 TTAAACCATA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCATAAACCCTAAACCCTAAACCATATATCTTAAACCA
Found at i:25012319 original size:67 final size:67
Alignment explanation
Indices: 25012230--25012381 Score: 234
Period size: 67 Copynumber: 2.3 Consensus size: 67
25012220 ACTCTTAAAC
* * * *
25012230 CTTAAACCCTAAATCATATATCTTAAACC-ATAGTTAACTCATAAACCCTAAACCCTAAACCATA
1 CTTAAACCATAAACCATATATCTTAAACCGA-AGTTAACTCATAAACACTAAACCCCAAACCATA
25012294 TAT
65 TAT
* *
25012297 CTTAAACCTTAAACCATATATCTTAAACCGAAGTTAACTCATAAACATTAAACCCCAAACCATAT
1 CTTAAACCATAAACCATATATCTTAAACCGAAGTTAACTCATAAACACTAAACCCCAAACCATAT
25012362 AT
66 AT
25012364 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
25012382 AACTATAATG
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
67 77 0.99
68 1 0.01
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.27
Consensus pattern (67 bp):
CTTAAACCATAAACCATATATCTTAAACCGAAGTTAACTCATAAACACTAAACCCCAAACCATAT
AT
Found at i:25012607 original size:41 final size:41
Alignment explanation
Indices: 25012546--25012671 Score: 216
Period size: 41 Copynumber: 3.1 Consensus size: 41
25012536 GTTATATGAC
* *
25012546 TTTTAGCGGCGTTTTGCCAAAAGCGCCACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTAGT
*
25012587 TTTTAGCGGCGTTTTTCCAAAAGCGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTAGT
*
25012628 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCTAGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTAGT
25012669 TTT
1 TTT
25012672 AGTAGCGTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTAGT
Found at i:25013868 original size:15 final size:15
Alignment explanation
Indices: 25013844--25013873 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25013834 TCTTATCTCA
*
25013844 TTTAAGATAATATTT
1 TTTAAAATAATATTT
25013859 TTTAAAATAATATTT
1 TTTAAAATAATATTT
25013874 CATCCATTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
TTTAAAATAATATTT
Found at i:25015215 original size:11 final size:11
Alignment explanation
Indices: 25015199--25015224 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
25015189 TGGAAATTAG
25015199 TGTATATATAA
1 TGTATATATAA
25015210 TGTATATATAA
1 TGTATATATAA
25015221 TGTA
1 TGTA
25015225 ATGTAAATGG
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:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (11 bp):
TGTATATATAA
Found at i:25035088 original size:47 final size:47
Alignment explanation
Indices: 25034979--25035089 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
25034969 CCAGGATAAG
*
25034979 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
25035026 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
25035073 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
25035090 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:25036587 original size:29 final size:29
Alignment explanation
Indices: 25036521--25036591 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
25036511 TTACTAGTCA
* *
25036521 GGTCTCCATACTCATTAACAACCTGGTCG
1 GGTCACCATACTCATTAAAAACCTGGTCG
* * * * *
25036550 GATCGCCATATTCATTAAAAATCTGGTTG
1 GGTCACCATACTCATTAAAAACCTGGTCG
25036579 GGTCACCATACTC
1 GGTCACCATACTC
25036592 GTCAATAATC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (29 bp):
GGTCACCATACTCATTAAAAACCTGGTCG
Found at i:25036601 original size:29 final size:29
Alignment explanation
Indices: 25036569--25036639 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
25036559 ATTCATTAAA
* * * *
25036569 AATCTGGTTGGGTCACCATACTCGTCAAT
1 AATCTGGTCGGGTCACCACACCCGTCAAC
* *
25036598 AATCTAGTCAGGTCACCACACCCGTCAAC
1 AATCTGGTCGGGTCACCACACCCGTCAAC
*
25036627 AACCTGGTCGGGT
1 AATCTGGTCGGGT
25036640 TGCAATACCC
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (29 bp):
AATCTGGTCGGGTCACCACACCCGTCAAC
Found at i:25049775 original size:16 final size:16
Alignment explanation
Indices: 25049754--25049789 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
25049744 AGTTAAACCA
25049754 TTAA-TTTTCAATGGAT
1 TTAATTTTTCAAT-GAT
25049770 TTAATTTTTCAATGAT
1 TTAATTTTTCAATGAT
25049786 TTAA
1 TTAA
25049790 CAAAAAGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (16 bp):
TTAATTTTTCAATGAT
Found at i:25050354 original size:26 final size:27
Alignment explanation
Indices: 25050325--25050384 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
25050315 GTTACTTTGG
25050325 GTATGGGCTTCAGTTTTATCT-TTAAA
1 GTATGGGCTTCAGTTTTATCTATTAAA
* *
25050351 GTATGGGCTTGAGTTTTATTTATTAAA
1 GTATGGGCTTCAGTTTTATCTATTAAA
25050378 -TATGGGC
1 GTATGGGC
25050385 CTGTACTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 26 0.84
27 5 0.16
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.45
Consensus pattern (27 bp):
GTATGGGCTTCAGTTTTATCTATTAAA
Found at i:25061454 original size:18 final size:19
Alignment explanation
Indices: 25061421--25061460 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
25061411 TATTATTTTT
25061421 TATATCTTATAAATAATAA
1 TATATCTTATAAATAATAA
25061440 TATATCTTA-AAATAATAA
1 TATATCTTATAAATAATAA
25061458 TAT
1 TAT
25061461 TTAAATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
TATATCTTATAAATAATAA
Found at i:25064171 original size:47 final size:48
Alignment explanation
Indices: 25064112--25064263 Score: 160
Period size: 47 Copynumber: 3.3 Consensus size: 48
25064102 ATCAGCTTTG
25064112 CCGAAGTAAACAGTAGTAGTACAGTACTTAGTACCTTATCGGATTAAA
1 CCGAAGTAAACAGTAGTAGTACAGTACTTAGTACCTTATCGGATTAAA
* * * * * **
25064160 CCGAAGT-AACAGTACG-A-CACA-TA---AGGTGCCTCATCAGCTT-TG
1 CCGAAGTAAACAGTA-GTAGTACAGTACTTA-GTACCTTATCGGATTAAA
25064202 CCGAAGTAAACAGTAGTAGTACAGTACTTAGTACCTTATCGGATTAAA
1 CCGAAGTAAACAGTAGTAGTACAGTACTTAGTACCTTATCGGATTAAA
25064250 CCGAAGT-AACAGTA
1 CCGAAGTAAACAGTA
25064264 CGACACATAA
Statistics
Matches: 80, Mismatches: 14, Indels: 21
0.70 0.12 0.18
Matches are distributed among these distances:
42 9 0.11
43 19 0.24
44 3 0.04
45 4 0.05
46 3 0.04
47 26 0.32
48 16 0.20
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (48 bp):
CCGAAGTAAACAGTAGTAGTACAGTACTTAGTACCTTATCGGATTAAA
Found at i:25064248 original size:90 final size:90
Alignment explanation
Indices: 25064095--25064283 Score: 378
Period size: 90 Copynumber: 2.1 Consensus size: 90
25064085 ACAGCACTCA
25064095 GTGCCTCATCAGCTTTGCCGAAGTAAACAGTAGTAGTACAGTACTTAGTACCTTATCGGATTAAA
1 GTGCCTCATCAGCTTTGCCGAAGTAAACAGTAGTAGTACAGTACTTAGTACCTTATCGGATTAAA
25064160 CCGAAGTAACAGTACGACACATAAG
66 CCGAAGTAACAGTACGACACATAAG
25064185 GTGCCTCATCAGCTTTGCCGAAGTAAACAGTAGTAGTACAGTACTTAGTACCTTATCGGATTAAA
1 GTGCCTCATCAGCTTTGCCGAAGTAAACAGTAGTAGTACAGTACTTAGTACCTTATCGGATTAAA
25064250 CCGAAGTAACAGTACGACACATAAG
66 CCGAAGTAACAGTACGACACATAAG
25064275 GTGCCTCAT
1 GTGCCTCAT
25064284 TGACTCGAAG
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 99 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (90 bp):
GTGCCTCATCAGCTTTGCCGAAGTAAACAGTAGTAGTACAGTACTTAGTACCTTATCGGATTAAA
CCGAAGTAACAGTACGACACATAAG
Found at i:25064345 original size:44 final size:44
Alignment explanation
Indices: 25064253--25064345 Score: 102
Period size: 44 Copynumber: 2.1 Consensus size: 44
25064243 GATTAAACCG
** *
25064253 AAGTAACAGTACGACACATAAGGTGCCTCATTGACTCGAAGTCG
1 AAGTAACAAAACGACACATAAGGTGCCTCATTGACTCGAAGTCA
*
25064297 AAGTAACAAAACGACACTTATA-GTGCCTCATCT-ACTC-AAGGTCA
1 AAGTAACAAAACGACACATA-AGGTGCCTCAT-TGACTCGAA-GTCA
25064341 AAGTA
1 AAGTA
25064346 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
43 2 0.05
44 38 0.90
45 2 0.05
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.22
Consensus pattern (44 bp):
AAGTAACAAAACGACACATAAGGTGCCTCATTGACTCGAAGTCA
Found at i:25071044 original size:18 final size:18
Alignment explanation
Indices: 25071021--25071077 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
25071011 TTGTTTATTT
25071021 TTATTCAATAACAATCAG
1 TTATTCAATAACAATCAG
* * *
25071039 TTATTCAGTATCAAACA-
1 TTATTCAATAACAATCAG
25071056 --A-TCAATAACAATCAG
1 TTATTCAATAACAATCAG
25071071 TTATTCA
1 TTATTCA
25071078 GTCCAGTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 10 0.34
15 1 0.03
17 1 0.03
18 17 0.59
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (18 bp):
TTATTCAATAACAATCAG
Found at i:25071302 original size:44 final size:44
Alignment explanation
Indices: 25071252--25071335 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
25071242 TCGGATTAAA
** *
25071252 TCGAAGTAACAGTACGACACATA-AGGTGCCTCATTGACTCGAAG
1 TCGAAGTAACAAAACGACACATATA-GTGCCTCATCGACTCGAAG
* *
25071296 TCGAAGTAATAAAACGACACTTATAGTGCCTCATCGACTC
1 TCGAAGTAACAAAACGACACATATAGTGCCTCATCGACTC
25071336 AAGGTCAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 33 0.97
45 1 0.03
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (44 bp):
TCGAAGTAACAAAACGACACATATAGTGCCTCATCGACTCGAAG
Found at i:25072233 original size:3 final size:3
Alignment explanation
Indices: 25072225--25072264 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
25072215 ATATACATAT
25072225 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
25072265 AACATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25075051 original size:14 final size:14
Alignment explanation
Indices: 25075032--25075058 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25075022 TTATCTAAAA
25075032 AATTCAATAAGAAG
1 AATTCAATAAGAAG
25075046 AATTCAATAAGAA
1 AATTCAATAAGAA
25075059 AAACGAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.22
Consensus pattern (14 bp):
AATTCAATAAGAAG
Found at i:25075946 original size:21 final size:22
Alignment explanation
Indices: 25075917--25075965 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
25075907 AATTTTTAAA
*
25075917 AAAAGTAATTTTTTATA-CTTTT
1 AAAA-TAATTTTATATATCTTTT
*
25075939 AAAATAATTTTATATATTTTTT
1 AAAATAATTTTATATATCTTTT
25075961 AAAAT
1 AAAAT
25075966 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
AAAATAATTTTATATATCTTTT
Found at i:25077773 original size:22 final size:21
Alignment explanation
Indices: 25077748--25077789 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
25077738 AAAAAAAAAT
*
25077748 TATAAAAAAATTCTAAAAATTG
1 TATAAAAAAAGT-TAAAAATTG
*
25077770 TATAAAGAAAGTTAAAAATT
1 TATAAAAAAAGTTAAAAATT
25077790 TTAAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (21 bp):
TATAAAAAAAGTTAAAAATTG
Found at i:25085068 original size:19 final size:18
Alignment explanation
Indices: 25085031--25085072 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
25085021 GGGGAGAGTG
*
25085031 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
25085049 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
25085068 TTATT
1 TTATT
25085073 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:25085131 original size:33 final size:39
Alignment explanation
Indices: 25085057--25085138 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 39
25085047 TATTATTTTC
*
25085057 TATTATTATTATTATTACTAATACCACTATTATCATCAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
*
25085096 TATTACTATTA-TATTA-TAATA-C-CT-TT-TCATTAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
25085129 TATTACTATT
1 TATTACTATT
25085139 GTGTTTTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 2 0.05
36 1 0.02
37 5 0.12
38 5 0.12
39 10 0.24
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.52
Consensus pattern (39 bp):
TATTACTATTATTATTACTAATACCACTATTATCATCAT
Found at i:25085168 original size:23 final size:23
Alignment explanation
Indices: 25085084--25085168 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
25085074 CTAATACCAC
* *
25085084 TATTATCATCATTATTACTATTA-
1 TATTATTAT-ATTTTTACTATTAT
* * *
25085107 TATTATAATACCTTTTCATTATTAT
1 TATTATTATA--TTTTTACTATTAT
* * *
25085132 TACTATTGTGTTTTTACTATTAT
1 TATTATTATATTTTTACTATTAT
25085155 TATTATTATATTTT
1 TATTATTATATTTT
25085169 CTTTTTTGTA
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
22 1 0.02
23 30 0.65
24 9 0.20
25 6 0.13
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTATTATATTTTTACTATTAT
Found at i:25095445 original size:38 final size:38
Alignment explanation
Indices: 25095366--25095690 Score: 344
Period size: 38 Copynumber: 8.4 Consensus size: 38
25095356 AAACCCAAAC
* * * * * *
25095366 ATAACACCAACACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACAAAGCCTGCGGGA-TTT-AACCCGGAT
* * *
25095406 ATAATACCAGCACTAGGCCTGCGGGATTCAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* *
25095444 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
*
25095482 ATATTACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* * * *
25095520 ATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGG-ATTTAA-CCCGGAT
* *
25095560 ATATTACCAGCACAAAGCCTGCGGGATTTAACCCGAAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* * *
25095598 ATATTACCAGCACAAAGCCTGTGGGATTTAACCCGAAT
1 ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
* * * *
25095636 ATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACAAAGCCTGCGGG-ATTTAA-CCCGGAT
* **
25095676 ACAATTTCAGCACAA
1 ATAATACCAGCACAA
25095691 TTTATTTTAT
Statistics
Matches: 243, Mismatches: 38, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
38 160 0.66
39 17 0.07
40 66 0.27
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (38 bp):
ATAATACCAGCACAAAGCCTGCGGGATTTAACCCGGAT
Found at i:25095462 original size:78 final size:78
Alignment explanation
Indices: 25095366--25095676 Score: 348
Period size: 78 Copynumber: 4.0 Consensus size: 78
25095356 AAACCCAAAC
* * * * * * *
25095366 ATAACACCAACACGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTAGGCCTGCGGG
1 ATAATACCAGCACGAAGCCTGCGGGACTTTAAACCCAGATATATTACCAGCACAAAGCCTGCGGG
*
25095431 ATTCAACCCGGAT
66 ATTTAACCCGGAT
25095444 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCAGATATATTACCAGCACAAAGCCTGCGGG
1 ATAATACCAGCACGAAGCCTGCGGGACTTTAAACCCAGATATATTACCAGCACAAAGCCTGCGGG
25095507 ATTTAACCCGGAT
66 ATTTAACCCGGAT
* * * * *
25095520 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATATATTACCAGCACAAAGCCTGCGG
1 ATAATACCAGCACGA-AGCCTGCGGGACTTTAAACCCAGATATATTACCAGCACAAAGCCTGCGG
*
25095584 GATTTAACCCGAAT
65 GATTTAACCCGGAT
* * * * *
25095598 ATATTACCAGCACAAAGCCTGTGGGA-TTT-AACCC-GAATATAATT-CCAGCATATAGCCTGCG
1 ATAATACCAGCACGAAGCCTGCGGGACTTTAAACCCAG-ATAT-ATTACCAGCACAAAGCCTGCG
*
25095659 GGTCTTTAAGCCCGGAT
64 GG-ATTTAA-CCCGGAT
25095676 A
1 A
25095677 CAATTTCAGC
Statistics
Matches: 201, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
75 2 0.01
76 88 0.44
77 17 0.08
78 93 0.46
79 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (78 bp):
ATAATACCAGCACGAAGCCTGCGGGACTTTAAACCCAGATATATTACCAGCACAAAGCCTGCGGG
ATTTAACCCGGAT
Found at i:25095561 original size:116 final size:116
Alignment explanation
Indices: 25095371--25095690 Score: 432
Period size: 116 Copynumber: 2.8 Consensus size: 116
25095361 CAAACATAAC
* * * * * * * *
25095371 ACCAACACGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTA-GGCCTGCGGG-ATT
1 ACCAGCACAAAGCCTGCGGGA-TTT-AACCCGGATATAATTCCAGCA-TATAGCCTGCGGGTCTT
* *
25095434 CAA-CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCC-AGATATATT
63 TAAGCCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGA-ATATATT
25095487 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAA
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAA
*
25095552 GCCCGGATATATTACCAGCACAAAGCCTGCGGGATTTAACCCGAATATATT
66 GCCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGAATATATT
* *
25095603 ACCAGCACAAAGCCTGTGGGATTTAACCCGAATATAATTCCAGCATATAGCCTGCGGGTCTTTAA
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAA
* **
25095668 GCCCGGATACAATTTCAGCACAA
66 GCCCGGATATAATACCAGCACAA
25095691 TTTATTTTAT
Statistics
Matches: 183, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
113 2 0.01
114 27 0.15
115 7 0.04
116 146 0.80
117 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (116 bp):
ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAA
GCCCGGATATAATACCAGCACAAAGCCTGCGGGATTTAACCCGAATATATT
Found at i:25095638 original size:154 final size:156
Alignment explanation
Indices: 25095403--25095687 Score: 407
Period size: 154 Copynumber: 1.8 Consensus size: 156
25095393 TTTAAACTCA
* * * *
25095403 GATATAATACCAGCACTAGGCCTGCGGGATTCAACCCGGATATAATACCAGCACGAAGCCTGCGG
1 GATATAATACCAGCACAAAGCCTGCGGGATTCAACCCGAATATAATACCAGCACAAAGCCTGCGG
*
25095468 GATTTAACCCAGATAT-ATTACCAGCACAAAGCCTGCGGG-ATTTAA-CCCGGATATAATTCCAG
66 GATTTAACCCAGATATAATT-CCAGCACAAAGCCTGCGGGTATTTAAGCCCGGATACAATTCCAG
25095530 CATATAGCCTGCGGGTCTTTAAGCCCG
130 CATATAGCCTGCGGGTCTTTAAGCCCG
* * * *
25095557 GATATATTACCAGCACAAAGCCTGCGGGATTTAACCCGAATATATTACCAGCACAAAGCCTGTGG
1 GATATAATACCAGCACAAAGCCTGCGGGATTCAACCCGAATATAATACCAGCACAAAGCCTGCGG
* * * *
25095622 GATTTAACCC-GAATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTTCAG
66 GATTTAACCCAG-ATATAATTCCAGCACAAAGCCTGCGGGTATTTAAGCCCGGATACAATTCCAG
25095686 CA
130 CA
25095688 CAATTTATTT
Statistics
Matches: 114, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
153 1 0.01
154 88 0.77
155 8 0.07
156 17 0.15
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (156 bp):
GATATAATACCAGCACAAAGCCTGCGGGATTCAACCCGAATATAATACCAGCACAAAGCCTGCGG
GATTTAACCCAGATATAATTCCAGCACAAAGCCTGCGGGTATTTAAGCCCGGATACAATTCCAGC
ATATAGCCTGCGGGTCTTTAAGCCCG
Found at i:25099639 original size:206 final size:206
Alignment explanation
Indices: 25099281--25099746 Score: 826
Period size: 206 Copynumber: 2.3 Consensus size: 206
25099271 GATCTGACTA
* *
25099281 AAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
1 AAGCAAGATCCAATATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
25099345 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
* *
25099410 ACAAGTCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCAAAGTCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
*
25099475 TGTTTATACTG
196 TGTTTATACCG
*
25099486 AAGCAAGATCCAATATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGATATAGCTGAT
1 AAGCAAGATCCAATATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
* * *
25099551 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATTTCTGTATTGTTAGATA
66 TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
*
25099616 ACAAGTCAAAGTCTGGCATCTCCATTTCGACAGATAGCAGATACATAGCAGATCTGGCCTTCAGA
131 ACAAGTCAAAGTCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
25099681 TGTTTATACCG
196 TGTTTATACCG
*
25099692 AAGCAAGATCCAATATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA
1 AAGCAAGATCCAATATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGA
25099747 AGCAGATTTG
Statistics
Matches: 249, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
205 4 0.02
206 245 0.98
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (206 bp):
AAGCAAGATCCAATATGATTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGAT
TTGGCTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
ACAAGTCAAAGTCTGGCATCTCCATTTCGACAGAGAGCAGATACATAGCAGATCTGGCCTTCAGA
TGTTTATACCG
Found at i:25099866 original size:44 final size:45
Alignment explanation
Indices: 25099816--25099906 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
25099806 CATGAGTTTG
* * *
25099816 CAAGGAGTAAATTGACGAAG-CAAATTTGGCGTCTCTGTATTAGA
1 CAAGGAGCAAATCGAAGAAGACAAATTTGGCGTCTCTGTATTAGA
* *
25099860 CAAGGAGCAAATCGAAGATGACAGATTTGGCGTCTCTGTATTAGA
1 CAAGGAGCAAATCGAAGAAGACAAATTTGGCGTCTCTGTATTAGA
25099905 CA
1 CA
25099907 GAGAACATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (45 bp):
CAAGGAGCAAATCGAAGAAGACAAATTTGGCGTCTCTGTATTAGA
Found at i:25099930 original size:45 final size:45
Alignment explanation
Indices: 25099834--25099930 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
25099824 AAATTGACGA
* * *
25099834 AGCAAATTTGGCGTCTCTGTATTAGACAAGGAGCAAATCGAAGAT
1 AGCAGATTTGGCGTCTCTGTATTAGACAAGGAACAAATCAAAGAT
*
25099879 -GACAGATTTGGCGTCTCTGTATTAGAC-AGAGAACATATCAAAGAT
1 AG-CAGATTTGGCGTCTCTGTATTAGACAAG-GAACAAATCAAAGAT
25099924 AGCAGAT
1 AGCAGAT
25099931 ATCGCTTTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
44 3 0.07
45 41 0.91
46 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (45 bp):
AGCAGATTTGGCGTCTCTGTATTAGACAAGGAACAAATCAAAGAT
Found at i:25100271 original size:22 final size:22
Alignment explanation
Indices: 25100246--25100288 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
25100236 TCTTTACTCT
25100246 AACCACCCCAACCACCCCACTA
1 AACCACCCCAACCACCCCACTA
* *
25100268 AACCATCCCAACCACTCCACT
1 AACCACCCCAACCACCCCACT
25100289 TGCCTACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.56, G:0.00, T:0.09
Consensus pattern (22 bp):
AACCACCCCAACCACCCCACTA
Found at i:25100705 original size:19 final size:18
Alignment explanation
Indices: 25100668--25100709 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
25100658 GGGGAGAGTG
*
25100668 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
25100686 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
25100705 TTATT
1 TTATT
25100710 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:25100768 original size:33 final size:39
Alignment explanation
Indices: 25100694--25100775 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 39
25100684 TATTATTTTC
*
25100694 TATTATTATTATTATTACTAATACCACTATTATCATCAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
*
25100733 TATTACTATTA-TATTA-TAATA-C-CT-TT-TCATTAT
1 TATTACTATTATTATTACTAATACCACTATTATCATCAT
25100766 TATTACTATT
1 TATTACTATT
25100776 GTGTTTTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
33 16 0.39
34 2 0.05
35 2 0.05
36 1 0.02
37 5 0.12
38 5 0.12
39 10 0.24
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.52
Consensus pattern (39 bp):
TATTACTATTATTATTACTAATACCACTATTATCATCAT
Found at i:25108320 original size:12 final size:13
Alignment explanation
Indices: 25108269--25108320 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
25108259 TAATTCTTTT
*
25108269 ATTTTTTCTTTTA
1 ATTTTTTCTTCTA
*
25108282 CATTATTTCTCTCTA
1 -ATTTTTTCT-TCTA
*
25108297 ATTTTTTTTTCT-
1 ATTTTTTCTTCTA
25108309 ATTTTTTCTTCT
1 ATTTTTTCTTCT
25108321 TCTTTTATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
12 11 0.34
13 3 0.09
14 15 0.47
15 3 0.09
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTTTCTTCTA
Found at i:25110261 original size:44 final size:43
Alignment explanation
Indices: 25110191--25110276 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 43
25110181 TGTTTTTAAT
*
25110191 TTTCCACTTAAACTCTGATTAATGTAGGTTATTTTAATATTAG
1 TTTCCACTTAAACTCTAATTAATGTAGGTTATTTTAATATTAG
*
25110234 TTTCTCACTTAAACTCTAATTAGTGTAGGTTATTTTAATATTA
1 TTTC-CACTTAAACTCTAATTAATGTAGGTTATTTTAATATTA
25110277 TTTGACCTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 4 0.10
44 36 0.90
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (43 bp):
TTTCCACTTAAACTCTAATTAATGTAGGTTATTTTAATATTAG
Found at i:25112238 original size:44 final size:44
Alignment explanation
Indices: 25112157--25112247 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
25112147 AATTCTGTTT
* * * *
25112157 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAAATCTGATCAGTGGAGATTATTTTAATA
* *
25112201 TTAGTTTTCCACTTAAAATTTGATCAGTGGAGATTATTTTAATA
1 TTAGTTTCCCACTTAAAATCTGATCAGTGGAGATTATTTTAATA
25112245 TTA
1 TTA
25112248 TTTGACGTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAAATCTGATCAGTGGAGATTATTTTAATA
Found at i:25112995 original size:21 final size:20
Alignment explanation
Indices: 25112969--25113011 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
25112959 AGAGATAGGC
25112969 ATATAAAAAAATAATTTTAAA
1 ATAT-AAAAAATAATTTTAAA
* *
25112990 ATATAAAATATTATTTTAAA
1 ATATAAAAAATAATTTTAAA
25113010 AT
1 AT
25113012 TTATTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATAAAAAATAATTTTAAA
Found at i:25136299 original size:16 final size:15
Alignment explanation
Indices: 25136274--25136303 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
25136264 TTATTTAATT
25136274 ATAATCAATTAAATA
1 ATAATCAATTAAATA
25136289 ATAATTCAATTAAAT
1 ATAA-TCAATTAAAT
25136304 TAAATGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATCAATTAAATA
Found at i:25140918 original size:25 final size:25
Alignment explanation
Indices: 25140886--25140934 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
25140876 TGTTAAATAA
25140886 GTTAAATATGCGGTTTTTTTAATTG
1 GTTAAATATGCGGTTTTTTTAATTG
***
25140911 GTTAAATATGTTTTTTTTTTAATT
1 GTTAAATATGCGGTTTTTTTAATT
25140935 TAAAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.59
Consensus pattern (25 bp):
GTTAAATATGCGGTTTTTTTAATTG
Found at i:25141945 original size:28 final size:30
Alignment explanation
Indices: 25141899--25141956 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
25141889 AACTTTTAAA
*
25141899 TTATTTTCACTATCGT-AAATATGAAAATT
1 TTATTTTCACTATCATAAAATATGAAAATT
* *
25141928 TTATTTTTA-TATCATAAAATATTAAAATT
1 TTATTTTCACTATCATAAAATATGAAAATT
25141957 AATTATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.48
Consensus pattern (30 bp):
TTATTTTCACTATCATAAAATATGAAAATT
Found at i:25145548 original size:6 final size:6
Alignment explanation
Indices: 25145539--25145566 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
25145529 CGGCAATGAC
25145539 GAAGAT GAAGAT GAAGAT GAAGAT GAAG
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAG
25145567 GGGGTGAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.36, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:25149063 original size:3 final size:3
Alignment explanation
Indices: 25149055--25149091 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
25149045 AGTATCCCCA
25149055 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
25149092 GGATGTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:25152333 original size:19 final size:20
Alignment explanation
Indices: 25152309--25152350 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
25152299 TTAACGAAAA
25152309 TTTTTAAATATTTAAA-ATT
1 TTTTTAAATATTTAAAGATT
* *
25152328 TTTTTATATTTTTAAAGATT
1 TTTTTAAATATTTAAAGATT
25152348 TTT
1 TTT
25152351 GTAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTAAATATTTAAAGATT
Found at i:25152357 original size:19 final size:19
Alignment explanation
Indices: 25152319--25152383 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 19
25152309 TTTTTAAATA
*
25152319 TTTAAA-ATTTTTTTATATT
1 TTTAAAGATTTTTGTA-ATT
25152338 TTTAAAGATTTTTGTAATT
1 TTTAAAGATTTTTGTAATT
* * *
25152357 TTTATGAAGTTTTTTGAAAAT
1 TTTA--AAGATTTTTGTAATT
25152378 TTTAAA
1 TTTAAA
25152384 ATAATATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 15 0.38
20 8 0.21
21 16 0.41
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTAAAGATTTTTGTAATT
Found at i:25152370 original size:21 final size:19
Alignment explanation
Indices: 25152319--25152383 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
25152309 TTTTTAAATA
*
25152319 TTTAAAATTTTTT-TATATT
1 TTTAAAGTTTTTTGTA-ATT
*
25152338 TTTAAAGATTTTTGTAATT
1 TTTAAAGTTTTTTGTAATT
* *
25152357 TTTATGAAGTTTTTTGAAAAT
1 TTTA--AAGTTTTTTGTAATT
25152378 TTTAAA
1 TTTAAA
25152384 ATAATATATG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 20 0.53
20 2 0.05
21 16 0.42
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTAAAGTTTTTTGTAATT
Found at i:25154670 original size:7 final size:7
Alignment explanation
Indices: 25154660--25154685 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
25154650 TAAAATTTTA
25154660 AAAATTC
1 AAAATTC
25154667 AAAATTC
1 AAAATTC
25154674 AAAATTC
1 AAAATTC
25154681 AAAAT
1 AAAAT
25154686 ATATTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTC
Found at i:25156906 original size:33 final size:33
Alignment explanation
Indices: 25156848--25156919 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
25156838 ACTCCAAACT
* * *
25156848 TAAACCTTGAACTTAAAACCATGAACCTTAACCC
1 TAAA-CTTCAACTCAAAACCATGAACCTAAACCC
*
25156882 TAAACTTCAACTCAAAACCTTGAACCTAAACCC
1 TAAACTTCAACTCAAAACCATGAACCTAAACCC
25156915 -AAACT
1 TAAACT
25156920 CAAACTTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 5 0.15
33 25 0.74
34 4 0.12
ACGTcount: A:0.43, C:0.31, G:0.04, T:0.22
Consensus pattern (33 bp):
TAAACTTCAACTCAAAACCATGAACCTAAACCC
Found at i:25158316 original size:2 final size:2
Alignment explanation
Indices: 25158309--25158344 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
25158299 TACATACACT
25158309 TA TA TA TA 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 TA TA TA TA
25158345 AAAGTGAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25161865 original size:3 final size:3
Alignment explanation
Indices: 25161857--25161890 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
25161847 TCTAACTTCT
25161857 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
25161891 AAAGCTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25163852 original size:16 final size:16
Alignment explanation
Indices: 25163831--25163869 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
25163821 AGATTCGACT
25163831 CATTTAATTTATGAAC
1 CATTTAATTTATGAAC
*
25163847 CATTTAATTTATGAAT
1 CATTTAATTTATGAAC
25163863 CATTTAA
1 CATTTAA
25163870 CTCTAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (16 bp):
CATTTAATTTATGAAC
Found at i:25163965 original size:22 final size:23
Alignment explanation
Indices: 25163940--25163991 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
25163930 GTTTAAGTTC
*
25163940 TAAAATTTTAAAAAAAAT-AAAA
1 TAAAATTATAAAAAAAATCAAAA
* *
25163962 TAAAA-AATAAAAAAATTCAAAA
1 TAAAATTATAAAAAAAATCAAAA
25163984 TAAAATTA
1 TAAAATTA
25163992 CATCTTAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 9 0.38
22 14 0.58
23 1 0.04
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAAATTATAAAAAAAATCAAAA
Found at i:25164042 original size:29 final size:31
Alignment explanation
Indices: 25163985--25164056 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 31
25163975 AATTCAAAAT
*
25163985 AAAATTACATCTTAGACCCCTAAACTTTCCT-
1 AAAATTACATTTTAGACCCCTAAACTTT-CTA
* *
25164016 TAAATTACATTTTA-A-CCCTAAATTTTCTA
1 AAAATTACATTTTAGACCCCTAAACTTTCTA
25164045 AAAATTACATTT
1 AAAATTACATTT
25164057 AGCCCCAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.06
29 21 0.58
30 1 0.03
31 12 0.33
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.39
Consensus pattern (31 bp):
AAAATTACATTTTAGACCCCTAAACTTTCTA
Found at i:25164307 original size:13 final size:13
Alignment explanation
Indices: 25164291--25164315 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25164281 AAAGTTCCAG
25164291 CAAAAAAAAAATC
1 CAAAAAAAAAATC
25164304 CAAAAAAAAAAT
1 CAAAAAAAAAAT
25164316 AGCAATCAAG
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:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (13 bp):
CAAAAAAAAAATC
Found at i:25164545 original size:20 final size:21
Alignment explanation
Indices: 25164520--25164562 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
25164510 TGTTTTCATA
*
25164520 TTTTCTTTCCTT-GGTTTTTT
1 TTTTCTTTCCTTAGATTTTTT
*
25164540 TTTTCTTTCTTTAGATTTTTT
1 TTTTCTTTCCTTAGATTTTTT
25164561 TT
1 TT
25164563 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.77
Consensus pattern (21 bp):
TTTTCTTTCCTTAGATTTTTT
Found at i:25169095 original size:46 final size:46
Alignment explanation
Indices: 25169045--25169217 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
25169035 TGGTTGAGCA
*
25169045 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
25169091 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
25169138 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
25169184 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
25169218 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:25169201 original size:93 final size:93
Alignment explanation
Indices: 25169042--25169212 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
25169032 GGATGGTTGA
* *
25169042 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
25169107 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
25169135 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
25169200 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
25169213 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25169479 original size:19 final size:20
Alignment explanation
Indices: 25169442--25169479 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
25169432 ATAAGGTGGT
25169442 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
25169462 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
25169480 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:25176661 original size:46 final size:46
Alignment explanation
Indices: 25176611--25176783 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
25176601 TGGTTGAGCA
*
25176611 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
25176657 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
25176704 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
25176750 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
25176784 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:25176767 original size:93 final size:93
Alignment explanation
Indices: 25176608--25176778 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
25176598 GGATGGTTGA
* *
25176608 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
25176673 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
25176701 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
25176766 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
25176779 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:25177043 original size:19 final size:20
Alignment explanation
Indices: 25177006--25177043 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
25176996 ATAAGGTGGT
25177006 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
25177026 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
25177044 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:25181937 original size:23 final size:23
Alignment explanation
Indices: 25181910--25181954 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
25181900 TTCGCCCTCT
25181910 ACTCCTACCAAACATCAGTCAGA
1 ACTCCTACCAAACATCAGTCAGA
*
25181933 ACTCCTACCGAACATCAGTCAG
1 ACTCCTACCAAACATCAGTCAG
25181955 GCAAAACCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.36, G:0.11, T:0.18
Consensus pattern (23 bp):
ACTCCTACCAAACATCAGTCAGA
Found at i:25184071 original size:93 final size:93
Alignment explanation
Indices: 25183959--25184130 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
25183949 GCCCATAAGT
* *
25183959 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25184024 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
25184052 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25184117 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
25184131 CAAATATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:25184126 original size:46 final size:46
Alignment explanation
Indices: 25183951--25184126 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
25183941 TGTAACCCGC
* * *
25183951 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
25183997 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
25184047 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
25184090 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25184127 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:25186553 original size:30 final size:30
Alignment explanation
Indices: 25186509--25186597 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
25186499 CAAAGATAAC
*
25186509 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
25186538 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
25186568 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
25186598 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:25186557 original size:15 final size:14
Alignment explanation
Indices: 25186509--25186591 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
25186499 CAAAGATAAC
*
25186509 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
25186523 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
25186538 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
25186553 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
25186568 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
25186583 AAGAAACCC
1 AAGAAACCC
25186592 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:25186597 original size:15 final size:15
Alignment explanation
Indices: 25186520--25186597 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
25186510 AGAAAACCGA
25186520 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
25186535 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
25186549 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
25186564 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
25186580 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
25186595 ATA
1 ATA
25186598 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:25189657 original size:93 final size:93
Alignment explanation
Indices: 25189545--25189716 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
25189535 GCCCATAAGT
* *
25189545 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25189610 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
25189638 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25189703 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
25189717 CAAATATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:25189712 original size:46 final size:46
Alignment explanation
Indices: 25189537--25189712 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
25189527 TGTAACCCGC
* * *
25189537 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
25189583 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
25189633 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
25189676 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25189713 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:25191632 original size:44 final size:44
Alignment explanation
Indices: 25191582--25191665 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
25191572 CAGTAAATTC
* * *
25191582 ACAAATCCTATCTCTCTAAATAGTAGTGGAGCAGATCGAATATG
1 ACAAATCCTATATCTCTAAACAGCAGTGGAGCAGATCGAATATG
* * * *
25191626 ACAAATCTTGTATCTCTAAGCAGCAGTGGAGCAGGTCGAA
1 ACAAATCCTATATCTCTAAACAGCAGTGGAGCAGATCGAA
25191666 GCCATAATTC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (44 bp):
ACAAATCCTATATCTCTAAACAGCAGTGGAGCAGATCGAATATG
Found at i:25191710 original size:44 final size:44
Alignment explanation
Indices: 25191661--25192060 Score: 197
Period size: 44 Copynumber: 9.1 Consensus size: 44
25191651 GTGGAGCAGG
* *
25191661 TCGAAGCCATAATTCTTATCTCCTTGAAGTTTCAGCAGAGTAGA
1 TCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGTAGAGTAGA
** * * * * * * ** *
25191705 TCGAAGTTACAAATCTCT-TCTACTTGAAATGAT-ATTGGAGCGGC
1 TCGAAGCCACAATTCT-TATCTCCTTGAAGT-TTCAGTAGAGTAGA
* * *
25191749 TCGAAGCCACAAGTCTTATCTACTTGAAGTTTCAGTGGAGTAGA
1 TCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGTAGAGTAGA
* * * * * ** * * * *
25191793 TCGAAGCTACAAATCTCT-TCTCCCTAAAATGACATTGGAGCAGC
1 TCGAAGCCACAATTCT-TATCTCCTTGAAGTTTCAGTAGAGTAGA
* **
25191837 TCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGA
1 TCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGTAGAGTAGA
* * * * * ** * ** *
25191881 TCGAAGCTAGAAATCTCT-TCTCCCTGAAATGGCATTAGAGCGGC
1 TCGAAGCCACAATTCT-TATCTCCTTGAAGTTTCAGTAGAGTAGA
* * *
25191925 TCGAAGCCACAATTCTTATCTTCTTGAAGTTCCAG-CGAGTAGA
1 TCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGTAGAGTAGA
* * * ** * * *
25191968 TCGAAGCTACAAATCTCTT-T-TCCCTGAAATGGCATTGGAG-ATGT
1 TCGAAGCCAC-AAT-TCTTATCTCCTTGAAGTTTCAGTAGAGTA-GA
25192012 TCGAAGCCACAATTCTTATCTCCTTGAAG-TTCTAGTAGAGTAGA
1 TCGAAGCCACAATTCTTATCTCCTTGAAGTTTC-AGTAGAGTAGA
25192056 TCGAA
1 TCGAA
25192061 ACTATAAATC
Statistics
Matches: 253, Mismatches: 87, Indels: 32
0.68 0.23 0.09
Matches are distributed among these distances:
42 4 0.02
43 32 0.13
44 208 0.82
45 9 0.04
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
TCGAAGCCACAATTCTTATCTCCTTGAAGTTTCAGTAGAGTAGA
Found at i:25192055 original size:175 final size:176
Alignment explanation
Indices: 25191652--25192097 Score: 655
Period size: 175 Copynumber: 2.5 Consensus size: 176
25191642 TAAGCAGCAG
* * *
25191652 TGGAGCAGGTCGAAGCCATAATTCTTATCTCCTTGAAGTT-TCAGCAGAGTAGATCGAAGTTACA
1 TGGAGCAGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTCT-AGCAGAGTAGATCGAAGCTACA
* * * *
25191716 AATCTCTTCTACTTGAAATGATATTGGAGCGGCTCGAAGCCACAAGTCTTATCTACTTGAAGTTT
65 AATCTCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGCCACAAGTCTTATCTACTTGAAGTTC
*
25191781 CAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATGACAT
130 CAGTCGAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATGACAT
* * *
25191828 TGGAGCAGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTAGAA
1 TGGAGCAGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTCTAGCAGAGTAGATCGAAGCTACAA
* * * *
25191893 ATCTCTTCTCCCTGAAATGGCATTAGAGCGGCTCGAAGCCACAATTCTTATCTTCTTGAAGTTCC
66 ATCTCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGCCACAAGTCTTATCTACTTGAAGTTCC
* * *
25191958 AG-CGAGTAGATCGAAGCTACAAATCTCTTTTCCCTGAAATGGCAT
131 AGTCGAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATGACAT
* * * *
25192003 TGGAG-ATGTTCGAAGCCACAATTCTTATCTCCTTGAAGTTCTAGTAGAGTAGATCGAAACTATA
1 TGGAGCA-GCTCGAAGCCACAATTCTTATCTCCTTGAAGTTCTAGCAGAGTAGATCGAAGCTACA
25192067 AATCTCTTCTCCCTGAAATGACATTGGAGCG
65 AATCTCTTCTCCCTGAAATGACATTGGAGCG
25192098 ATTGAAGACA
Statistics
Matches: 242, Mismatches: 26, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
174 1 0.00
175 124 0.51
176 117 0.48
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (176 bp):
TGGAGCAGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTCTAGCAGAGTAGATCGAAGCTACAA
ATCTCTTCTCCCTGAAATGACATTGGAGCGGCTCGAAGCCACAAGTCTTATCTACTTGAAGTTCC
AGTCGAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAATGACAT
Found at i:25192147 original size:88 final size:88
Alignment explanation
Indices: 25191652--25192158 Score: 605
Period size: 88 Copynumber: 5.8 Consensus size: 88
25191642 TAAGCAGCAG
* ** *
25191652 TGGAGCAGG-TCGAAGCCATAATTCTTATCTCCTTGAAGTT-TCAGCAGAGTAGATCGAAGTTAC
1 TGGAGC-GGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTCT-AGTGGAGTAGATCGAAGCTAC
* * *
25191715 AAATCTCTTCTACTTGAAATGATAT
64 AAATCTCTTCTCCCTGAAATGACAT
* *
25191740 TGGAGCGGCTCGAAGCCACAAGTCTTATCTACTTGAAGTT-TCAGTGGAGTAGATCGAAGCTACA
1 TGGAGCGGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTCT-AGTGGAGTAGATCGAAGCTACA
*
25191804 AATCTCTTCTCCCTAAAATGACAT
65 AATCTCTTCTCCCTGAAATGACAT
* * * *
25191828 TGGAGCAGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTAGAA
1 TGGAGCGGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTCTAGTGGAGTAGATCGAAGCTACAA
*
25191893 ATCTCTTCTCCCTGAAATGGCAT
66 ATCTCTTCTCCCTGAAATGACAT
* * * *
25191916 TAGAGCGGCTCGAAGCCACAATTCTTATCTTCTTGAAGTTCCAG-CGAGTAGATCGAAGCTACAA
1 TGGAGCGGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTCTAGTGGAGTAGATCGAAGCTACAA
* *
25191980 ATCTCTTTTCCCTGAAATGGCAT
66 ATCTCTTCTCCCTGAAATGACAT
** * * * *
25192003 TGGAGATGTTCGAAGCCACAATTCTTATCTCCTTGAAGTTCTAGTAGAGTAGATCGAAACTATAA
1 TGGAGCGGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTCTAGTGGAGTAGATCGAAGCTACAA
25192068 ATCTCTTCTCCCTGAAATGACAT
66 ATCTCTTCTCCCTGAAATGACAT
* * * * * * *
25192091 TGGAGC-GATTGAAGACACCAA-TCTTTATCTCCCTGAAGTTGTAGTGGGGCCA-ATCGAAGCTA
1 TGGAGCGGCTCGAAGCCA-CAATTC-TTATCTCCTTGAAGTTCTAGTGGAG-TAGATCGAAGCTA
25192153 CAAATC
63 CAAATC
25192159 ACAAACCTTA
Statistics
Matches: 367, Mismatches: 46, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
87 90 0.25
88 276 0.75
89 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (88 bp):
TGGAGCGGCTCGAAGCCACAATTCTTATCTCCTTGAAGTTCTAGTGGAGTAGATCGAAGCTACAA
ATCTCTTCTCCCTGAAATGACAT
Found at i:25192149 original size:263 final size:264
Alignment explanation
Indices: 25191661--25192158 Score: 673
Period size: 263 Copynumber: 1.9 Consensus size: 264
25191651 GTGGAGCAGG
* * *
25191661 TCGAAGCCATAATTCTTATCTCCTTGAAGTTTCAGCAGAGTAGATCGAAGTTACAAATCTCTTCT
1 TCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCT
* * * *
25191726 ACTTGAAATGATATTGGAGCGGCTCGAAGCCACAAGTCTTATCTACTTGAAGTTTCAGTGGAGTA
66 ACCTGAAATGACATTGGAGAGGCTCGAAGCCACAAGTCTTATCTACTTGAAGTTTCAGTAGAGTA
* * *
25191791 GATCGAAGCTACAAATCTCTTCTCCCTAAAATGACATTGGAGCAGCTCGAAGCCACAATTCTTAT
131 GATCGAAACTACAAATCTCTTCTCCCTAAAATGACATTGGAGCAGATCGAAGACACAATTCTTAT
* * *
25191856 CTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTAGAAATCTCTTCTCCCTGAAATGGCATTAGAG
196 CTCCCTGAAGTTCCAGCGGAGCAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCATTAGAG
25191921 CGGC
261 CGGC
* *
25191925 TCGAAGCCACAATTCTTATCTTCTTGAAGTTCCAGC-GAGTAGATCGAAGCTACAAATCTCTTTT
1 TCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCT
* * * * * *
25191989 CCCTGAAATGGCATTGGAGATGTTCGAAGCCACAATTCTTATCTCCTTGAAG-TTCTAGTAGAGT
66 ACCTGAAATGACATTGGAGAGGCTCGAAGCCACAAGTCTTATCTACTTGAAGTTTC-AGTAGAGT
* * *
25192053 AGATCGAAACTATAAATCTCTTCTCCCTGAAATGACATTGGAGC-GATTGAAGACACCAA-TCTT
130 AGATCGAAACTACAAATCTCTTCTCCCTAAAATGACATTGGAGCAGATCGAAGACA-CAATTC-T
** * *
25192116 TATCTCCCTGAAGTTGTAGTGGGGCCA-ATCGAAGCTACAAATC
193 TATCTCCCTGAAGTTCCAGCGGAG-CAGATCGAAGCTACAAATC
25192159 ACAAACCTTA
Statistics
Matches: 202, Mismatches: 28, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
262 13 0.06
263 155 0.77
264 34 0.17
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (264 bp):
TCGAAGCCACAATTCTTATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCT
ACCTGAAATGACATTGGAGAGGCTCGAAGCCACAAGTCTTATCTACTTGAAGTTTCAGTAGAGTA
GATCGAAACTACAAATCTCTTCTCCCTAAAATGACATTGGAGCAGATCGAAGACACAATTCTTAT
CTCCCTGAAGTTCCAGCGGAGCAGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCATTAGAG
CGGC
Found at i:25192232 original size:44 final size:43
Alignment explanation
Indices: 25192165--25192401 Score: 199
Period size: 44 Copynumber: 5.3 Consensus size: 43
25192155 AATCACAAAC
*
25192165 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAA-T
* * * *
25192209 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGATTGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TTAC-AAT
* * ** * *
25192254 CTTATCTCTCTGAAGTTGCAGTAGG-GCAGATGGAAGCCATTAAC
1 CTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGTTA-CAAT
* * * * * *
25192298 CTTATCTCTCTGAAGTTGCAGTAGAACAGGTTAAAATTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAA-T
* *
25192342 CTTATCCCCCTGAAGTTGCAGTGG-GACAGATTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGTTA-C-AAT
*
25192387 CTTATGTCCCTGAAG
1 CTTATCTCCCTGAAG
25192402 CTGTAGTGTA
Statistics
Matches: 149, Mismatches: 35, Indels: 17
0.74 0.17 0.08
Matches are distributed among these distances:
43 3 0.02
44 93 0.62
45 47 0.32
46 6 0.04
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (43 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAT
Found at i:25192318 original size:133 final size:133
Alignment explanation
Indices: 25192162--25192401 Score: 347
Period size: 133 Copynumber: 1.8 Consensus size: 133
25192152 ACAAATCACA
* * * * *
25192162 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTG
1 AACCTTATCTCCCTGAAGTTGCAGTAGAACAGGTTAAAATTACAAGTCTTATCCCCCTGAAGTTG
* * * *
25192227 TAGT-GGAGCAGACTAAAGATTGCGAATCTTATCTCTCTGAAGTTGCAGTAGGGCAGATGGAAGC
66 CAGTGGGA-CAGACTAAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGGGCAGATGGAAGC
25192291 CATT
130 CATT
*
25192295 AACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTAAAATTACAAGTCTTATCCCCCTGAAGTTG
1 AACCTTATCTCCCTGAAGTTGCAGTAGAACAGGTTAAAATTACAAGTCTTATCCCCCTGAAGTTG
* * *
25192360 CAGTGGGACAGATTGAAGATAGCAAATCTTATGTCCCTGAAG
66 CAGTGGGACAGACTAAAGATAGCAAATCTTATCTCCCTGAAG
25192402 CTGTAGTGTA
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
133 90 0.97
134 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (133 bp):
AACCTTATCTCCCTGAAGTTGCAGTAGAACAGGTTAAAATTACAAGTCTTATCCCCCTGAAGTTG
CAGTGGGACAGACTAAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTAGGGCAGATGGAAGCC
ATT
Found at i:25194209 original size:16 final size:16
Alignment explanation
Indices: 25194190--25194220 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25194180 CTTCTTCACT
25194190 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
25194206 TACTTACTTACTTAA
1 TACTCACTTACTTAA
25194221 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:25194226 original size:20 final size:20
Alignment explanation
Indices: 25194187--25194226 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25194177 AAACTTCTTC
* *
25194187 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
25194207 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
25194227 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:25194336 original size:23 final size:24
Alignment explanation
Indices: 25194299--25194343 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
25194289 TTTGCTCTTC
25194299 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTTGTCTTACCTTTT
*
25194323 TAGCAT-ACCTTGTCTTACCTT
1 TAGCATGAACTTGTCTTACCTT
25194344 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.20, C:0.24, G:0.11, T:0.44
Consensus pattern (24 bp):
TAGCATGAACTTGTCTTACCTTTT
Found at i:25194593 original size:55 final size:53
Alignment explanation
Indices: 25194470--25194666 Score: 182
Period size: 55 Copynumber: 3.6 Consensus size: 53
25194460 ACTTACCTTT
*
25194470 CCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATGAACTCACCAATG
* * * * * *
25194523 CCATGCCTTGGCATGGTTTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTACCTTAT-G-AACTCACCAATG
*** * * *
25194578 CCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTA-GAAACCTTACCAATTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATG-AA-CTCACCAA-TG
* * *
25194633 CCATGCCTTGGCATGGTCTTACATGGTATCCTTA
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTA
25194667 AACCTAATGT
Statistics
Matches: 116, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
52 2 0.02
53 35 0.30
54 8 0.07
55 69 0.59
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATGAACTCACCAATG
Found at i:25197840 original size:26 final size:27
Alignment explanation
Indices: 25197756--25197842 Score: 92
Period size: 26 Copynumber: 3.3 Consensus size: 27
25197746 TTAATTTGTG
* *
25197756 TATTA-TTTATTT-TAATTTATTTAACA
1 TATTATTTTATTTCAAATTTATTT-ATA
*
25197782 TATTA-TTTATTTGAAATTTACTTTATA
1 TATTATTTTATTTCAAATTTA-TTTATA
25197809 TATTATTTTATTTCAAATTT-TTTATA
1 TATTATTTTATTTCAAATTTATTTATA
*
25197835 TTTTATTT
1 TATTATTT
25197843 ATGTTAAATC
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
26 25 0.46
27 13 0.24
28 16 0.30
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
TATTATTTTATTTCAAATTTATTTATA
Found at i:25199223 original size:25 final size:25
Alignment explanation
Indices: 25199164--25199223 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
25199154 ATGAATTTTT
*
25199164 ATCAAATAAAGAAAATGAGAATTATA
1 ATCAAA-AAAGAAAATGAGAATCATA
* *
25199190 TTCAAAAAAGAAAGTGAGAATCA-A
1 ATCAAAAAAGAAAATGAGAATCATA
25199214 ATCAACAAAA
1 ATCAA-AAAA
25199224 TTAAAAGACA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 5 0.17
25 19 0.66
26 5 0.17
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.18
Consensus pattern (25 bp):
ATCAAAAAAGAAAATGAGAATCATA
Found at i:25202706 original size:3 final size:3
Alignment explanation
Indices: 25202698--25202872 Score: 51
Period size: 3 Copynumber: 57.7 Consensus size: 3
25202688 ATTTGCCATT
**
25202698 TTA TTA TTA AAA TTGA TTAA TTA -TA TTTA TTTA TTAA TT- TTA TTA
1 TTA TTA TTA TTA TT-A TT-A TTA TTA T-TA T-TA TT-A TTA TTA TTA
* * * * * * *
25202743 TTA TTG CTA TTA TTA TTA TTA TCA TTA TTT TTA TT- CTG TTA TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
25202790 TTA TT- TCTC TTG TTG TT- TTCA TTA TTA TT- TATA TTA TTG TTA GTA
1 TTA TTA T-TA TTA TTA TTA TT-A TTA TTA TTA T-TA TTA TTA TTA TTA
* * *
25202835 TTA TTA GTA CTCT- TTA GT- TTA TTA TTA TTA TTA CTA TT
1 TTA TTA TTA -T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT
25202873 TCGTCATTAT
Statistics
Matches: 127, Mismatches: 29, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
2 11 0.09
3 95 0.75
4 20 0.16
5 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:25203055 original size:3 final size:3
Alignment explanation
Indices: 25203047--25203101 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
25203037 ATATATTTAC
**
25203047 ATT ATT ATT GCT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
25203095 ATT ATT A
1 ATT ATT A
25203102 GACATAATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:25218887 original size:46 final size:46
Alignment explanation
Indices: 25218825--25219145 Score: 439
Period size: 46 Copynumber: 7.0 Consensus size: 46
25218815 AGTGTGCTCT
*
25218825 CTGATA-GAAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
25218871 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
25218917 CTGATATGAAACGTGTAATACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
25218963 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
25219009 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
25219055 GTGACGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
25219102 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
25219146 TCATGTCGAA
Statistics
Matches: 251, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 210 0.84
47 40 0.16
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:25221510 original size:22 final size:21
Alignment explanation
Indices: 25221471--25221511 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
25221461 ACTTTATTTA
**
25221471 TTTTTTAAATTATTTTTTACT
1 TTTTTTAAATTAAATTTTACT
25221492 TTTTTTATAATTAAATTTTA
1 TTTTTTA-AATTAAATTTTA
25221512 AATGCACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTTAAATTAAATTTTACT
Found at i:25224318 original size:17 final size:18
Alignment explanation
Indices: 25224277--25224318 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
25224267 CATTTCAAAA
* *
25224277 AATTTTAATATCACTTTT
1 AATTTTTATATCACATTT
*
25224295 AAATTTTATAT-ACATTT
1 AATTTTTATATCACATTT
25224312 AATTTTT
1 AATTTTT
25224319 TATTAAGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTTTATATCACATTT
Found at i:25224871 original size:26 final size:26
Alignment explanation
Indices: 25224837--25224887 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
25224827 TCTTCTGAAT
* * *
25224837 TTTTTAAATATAAAATAATATTTTTA
1 TTTTAAAATAAAAAATAAAATTTTTA
25224863 TTTTAAAATAAAAAATAAAATTTTT
1 TTTTAAAATAAAAAATAAAATTTTT
25224888 CTTAGATACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTTAAAATAAAAAATAAAATTTTTA
Found at i:25229407 original size:24 final size:25
Alignment explanation
Indices: 25229354--25229417 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
25229344 AATTATACAG
* *
25229354 TTTAATATGTAATTTTATATAT-AATT
1 TTTAAT-T-TAATTTTATAAATAAAAT
**
25229380 TTTTTTTTAATTTTATAAATAAAAT
1 TTTAATTTAATTTTATAAATAAAAT
25229405 TTTAATTTAATTT
1 TTTAATTTAATTT
25229418 AATTTTCATA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 12 0.39
25 15 0.48
26 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTAATTTAATTTTATAAATAAAAT
Found at i:25231319 original size:23 final size:22
Alignment explanation
Indices: 25231280--25231337 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
25231270 AAGAAATAGA
* *
25231280 AAAATTGTAAAAGTATAAAAAT
1 AAAATTCTAAAAATATAAAAAT
* **
25231302 AAAATTTTAAAATATATAATTAT
1 AAAATTCTAAAA-ATATAAAAAT
25231325 AAAATTCTAAAAA
1 AAAATTCTAAAAA
25231338 GATATTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (22 bp):
AAAATTCTAAAAATATAAAAAT
Found at i:25231327 original size:15 final size:15
Alignment explanation
Indices: 25231287--25231329 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25231277 AGAAAAATTG
*
25231287 TAAAAGTATAAAA-A
1 TAAAATTATAAAATA
*
25231301 TAAAATTTTAAAATA
1 TAAAATTATAAAATA
*
25231316 TATAATTATAAAAT
1 TAAAATTATAAAAT
25231330 TCTAAAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
TAAAATTATAAAATA
Found at i:25231637 original size:15 final size:15
Alignment explanation
Indices: 25231617--25231647 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25231607 ATCAAAAGTG
*
25231617 TATTTAATATTTTAA
1 TATTTAATATTATAA
25231632 TATTTAATATTATAA
1 TATTTAATATTATAA
25231647 T
1 T
25231648 TTTCTATTTT
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTAATATTATAA
Done.