Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007543.1 Hibiscus syriacus cultivar Beakdansim tig00021131_pilon, whole genome shotgun sequence
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: 103926
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:8891 original size:18 final size:19
Alignment explanation
Indices: 8863--8901 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
8853 CTCTTATATT
*
8863 TTTACTTTAATTGCTTTTA
1 TTTACTTTAATCGCTTTTA
*
8882 TTTA-TTTAATCGTTTTTA
1 TTTACTTTAATCGCTTTTA
8900 TT
1 TT
8902 ACTACTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTACTTTAATCGCTTTTA
Found at i:15495 original size:81 final size:81
Alignment explanation
Indices: 15360--15522 Score: 317
Period size: 81 Copynumber: 2.0 Consensus size: 81
15350 TAGATGTTTC
15360 TTTTCAACCATAATTTTCTTCAGGAGGTCACAATAATCCATCAACCAGCTCATCCAATAAGGTTT
1 TTTTCAACCATAATTTTCTTCAGGAGGTCACAATAATCCATCAACCAGCTCATCCAATAAGGTTT
15425 CATGTCCACTCCTTCT
66 CATGTCCACTCCTTCT
*
15441 TTTTCAACCATAATTTTCTTCAGGAGGTCACAATAATCCATCAACTAGCTCATCCAATAAGGTTT
1 TTTTCAACCATAATTTTCTTCAGGAGGTCACAATAATCCATCAACCAGCTCATCCAATAAGGTTT
15506 CATGTCCACTCCTTCT
66 CATGTCCACTCCTTCT
15522 T
1 T
15523 GTCTGACTGA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (81 bp):
TTTTCAACCATAATTTTCTTCAGGAGGTCACAATAATCCATCAACCAGCTCATCCAATAAGGTTT
CATGTCCACTCCTTCT
Found at i:16736 original size:6 final size:6
Alignment explanation
Indices: 16725--16764 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
16715 ACTAGACCCG
*
16725 TTGACT TTGACT TTGACT TTGACCCA TTGACT TTGACT TT
1 TTGACT TTGACT TTGACT TTGA--CT TTGACT TTGACT TT
16765 AACCCGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 25 0.83
8 5 0.17
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.47
Consensus pattern (6 bp):
TTGACT
Found at i:16756 original size:20 final size:20
Alignment explanation
Indices: 16731--16789 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
16721 CCCGTTGACT
16731 TTGACTTTGACTTTGACCCA
1 TTGACTTTGACTTTGACCCA
* *
16751 TTGACTTTGACTTTAACCCG
1 TTGACTTTGACTTTGACCCA
* *
16771 TTTACCGTTGACTTTGACC
1 TTGA-CTTTGACTTTGACC
16790 AAAAAAGTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 21 0.64
21 12 0.36
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (20 bp):
TTGACTTTGACTTTGACCCA
Found at i:21113 original size:20 final size:20
Alignment explanation
Indices: 21062--21102 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21052 CTTATCGAGT
*
21062 TAACTCGTTGACAGTTGCCC
1 TAACCCGTTGACAGTTGCCC
*
21082 TAACCCGTTGACAGTTTCCC
1 TAACCCGTTGACAGTTGCCC
21102 T
1 T
21103 GGACCGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.32, G:0.17, T:0.32
Consensus pattern (20 bp):
TAACCCGTTGACAGTTGCCC
Found at i:26723 original size:20 final size:20
Alignment explanation
Indices: 26672--26712 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
26662 CTTATCGAGT
*
26672 TAACTCGTTGACAGTTGCCC
1 TAACCCGTTGACAGTTGCCC
26692 TAACCCGTTGACAGTTGCCC
1 TAACCCGTTGACAGTTGCCC
26712 T
1 T
26713 GGACCGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.29
Consensus pattern (20 bp):
TAACCCGTTGACAGTTGCCC
Found at i:37101 original size:18 final size:18
Alignment explanation
Indices: 37078--37112 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
37068 TGATAAATTC
37078 GATCATAAAAAGGTACCA
1 GATCATAAAAAGGTACCA
37096 GATCATAAAAAGGTACC
1 GATCATAAAAAGGTACC
37113 TTCTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (18 bp):
GATCATAAAAAGGTACCA
Found at i:39774 original size:12 final size:13
Alignment explanation
Indices: 39759--39787 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
39749 AAAGGAAAAA
39759 GAAAAGAAAA-TT
1 GAAAAGAAAAGTT
39771 GAAAAGAAAAGTT
1 GAAAAGAAAAGTT
39784 GAAA
1 GAAA
39788 GAACAACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.14
Consensus pattern (13 bp):
GAAAAGAAAAGTT
Found at i:45875 original size:79 final size:79
Alignment explanation
Indices: 45744--45945 Score: 281
Period size: 79 Copynumber: 2.6 Consensus size: 79
45734 TGTTTGATTT
*
45744 AAATTCTATTTACTACTTTTACTTAAATCCTATCTTTCTATTTAAATAATAGTTTGATTTAAATT
1 AAATTCTATTTACTACTTTTACTTAAATCCCATCTTTCTATTTAAATAATAGTTTGATTTAAATT
45809 ACTAGTATTTATTC
66 ACTAGTATTTATTC
* *
45823 AAATTCTATTTACTACTTTTACTTTAA-CCACATCTTTTTATTT-AATCAATAGTTTGATTTAAA
1 AAATTCTATTTACTACTTTTACTTAAATCC-CATCTTTCTATTTAAAT-AATAGTTTGATTTAAA
*
45886 TTACTAGTATTTATTT
64 TTACTAGTATTTATTC
** *
45902 AAATTCTA-TT--TACTTTTACTTAAATCGTAT-TTTTTATTTAAATA
1 AAATTCTATTTACTACTTTTACTTAAATCCCATCTTTCTATTTAAATA
45946 TTATTTATTT
Statistics
Matches: 112, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
75 10 0.09
76 18 0.16
77 1 0.01
78 7 0.06
79 76 0.68
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.52
Consensus pattern (79 bp):
AAATTCTATTTACTACTTTTACTTAAATCCCATCTTTCTATTTAAATAATAGTTTGATTTAAATT
ACTAGTATTTATTC
Found at i:47108 original size:40 final size:40
Alignment explanation
Indices: 47048--47148 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
47038 GATGTAGCTT
* * * *
47048 ATTAAACTCATTACTTATTTAATGTTATATTCACTATTTCA
1 ATTAAA-TTATTATTTATTTAAGGTTATACTCACTATTTCA
* *
47089 ATTAAATTATTATTTATTTAAGGTTCTACTCATTATTTCA
1 ATTAAATTATTATTTATTTAAGGTTATACTCACTATTTCA
*
47129 ATT-AATTATATTTTTATTTA
1 ATTAAATTAT-TATTTATTTA
47149 TAGAATAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 6 0.12
40 40 0.77
41 6 0.12
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.53
Consensus pattern (40 bp):
ATTAAATTATTATTTATTTAAGGTTATACTCACTATTTCA
Found at i:47814 original size:18 final size:18
Alignment explanation
Indices: 47787--47821 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
47777 ACCGTTGACT
*
47787 ATTGATCGTTGACCGACC
1 ATTGACCGTTGACCGACC
47805 ATTGACCGTTGACCGAC
1 ATTGACCGTTGACCGAC
47822 ATTAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (18 bp):
ATTGACCGTTGACCGACC
Found at i:48676 original size:39 final size:39
Alignment explanation
Indices: 48590--48677 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 39
48580 TTGTAAGACA
* * * *
48590 TTACCGCATGCTCCTCTTCTTTATGTTAAGGGTAAGTCC
1 TTACCACATGCTCCTCTACTTTATGCTAAGGGTAAATCC
* * *
48629 TTGCCACATGCTCCTCTACTTTGTGCTCAGGGTAAATCC
1 TTACCACATGCTCCTCTACTTTATGCTAAGGGTAAATCC
*
48668 TTATCACATG
1 TTACCACATG
48678 TTCTTATGCT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.36
Consensus pattern (39 bp):
TTACCACATGCTCCTCTACTTTATGCTAAGGGTAAATCC
Found at i:51655 original size:18 final size:18
Alignment explanation
Indices: 51632--51666 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51622 GTTCACTGTT
51632 GACCATTGACCGTTGACC
1 GACCATTGACCGTTGACC
*
51650 GACCATTGACTGTTGAC
1 GACCATTGACCGTTGAC
51667 AGACGTCGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (18 bp):
GACCATTGACCGTTGACC
Found at i:53446 original size:23 final size:23
Alignment explanation
Indices: 53413--53460 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
53403 GAGTCGAGGG
*
53413 TTCTACGCGGTCCTTTGGGAAAT
1 TTCTACACGGTCCTTTGGGAAAT
* *
53436 TTCTACACGGTCTTTTGGGACAT
1 TTCTACACGGTCCTTTGGGAAAT
53459 TT
1 TT
53461 AAATGTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.40
Consensus pattern (23 bp):
TTCTACACGGTCCTTTGGGAAAT
Found at i:55747 original size:23 final size:23
Alignment explanation
Indices: 55721--55765 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
55711 CACCACAGCT
*
55721 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
55744 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
55766 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:56003 original size:149 final size:149
Alignment explanation
Indices: 55744--56047 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
55734 CGAAGTGCCC
* *
55744 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
55809 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
55874 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
55893 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
55958 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
*
56023 CATATGTCTCGAAGAACCG
131 CATATGTCCCGAAGAACCG
56042 CGTAGA
1 CGTAGA
56048 CCCTCGACTC
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:57671 original size:21 final size:21
Alignment explanation
Indices: 57641--57685 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
57631 ATTCTGTCGT
* *
57641 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
57662 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
57683 TTG
1 TTG
57686 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:60976 original size:23 final size:23
Alignment explanation
Indices: 60950--60994 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
60940 CACCACAGCT
*
60950 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
60973 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
60995 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:61232 original size:149 final size:148
Alignment explanation
Indices: 60973--61275 Score: 561
Period size: 149 Copynumber: 2.0 Consensus size: 148
60963 CGAAGTGCCC
* *
60973 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACGTAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
61038 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
61103 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAA-CG
61122 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
61187 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCTAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
*
61252 CATATGTCTCGAAGAACG
131 CATATGTCCCGAAGAACG
61270 CGTAGA
1 CGTAGA
61276 CCCTCGACTC
Statistics
Matches: 150, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
148 8 0.05
149 142 0.95
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (148 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACG
Found at i:62284 original size:18 final size:18
Alignment explanation
Indices: 62261--62295 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
62251 TCCCATCTAG
62261 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
62279 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
62296 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:62905 original size:21 final size:21
Alignment explanation
Indices: 62875--62919 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
62865 ATTCTATCGT
* *
62875 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
62896 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
62917 TTG
1 TTG
62920 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:66865 original size:16 final size:16
Alignment explanation
Indices: 66844--66879 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
66834 TGGCAACACT
*
66844 ATTTGTTACCAAGGGA
1 ATTTGTCACCAAGGGA
*
66860 ATTTGTCAGCAAGGGA
1 ATTTGTCACCAAGGGA
66876 ATTT
1 ATTT
66880 TTCATACACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (16 bp):
ATTTGTCACCAAGGGA
Found at i:67049 original size:18 final size:18
Alignment explanation
Indices: 67022--67064 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
67012 ATTGTGGATG
*
67022 ATGTTCTTTCACGCAGGT
1 ATGTTTTTTCACGCAGGT
*
67040 ATGTTTTTTCACGCATGT
1 ATGTTTTTTCACGCAGGT
67058 ATGTTTT
1 ATGTTTT
67065 ACTTAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (18 bp):
ATGTTTTTTCACGCAGGT
Found at i:74277 original size:2 final size:2
Alignment explanation
Indices: 74270--74303 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
74260 CTAAAGTTTA
74270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
74304 TAAATTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75135 original size:20 final size:19
Alignment explanation
Indices: 75110--75163 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
75100 GCGAAATAAA
75110 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
75130 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
75150 AATCGCAACGCGAT
1 AATCGCAACGCGAT
75164 TATGAAGACT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:75225 original size:21 final size:21
Alignment explanation
Indices: 75110--75225 Score: 58
Period size: 21 Copynumber: 5.6 Consensus size: 21
75100 GCGAAATAAA
*
75110 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
75130 AATCGCAAATC-AGTTCCCAG
1 AATCGCAACGCGATTTTCCAG
* **
75150 AATCGCAACGCGATTATGAAG
1 AATCGCAACGCGATTTTCCAG
* * ** *
75171 ACTCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
* **
75191 AATTAGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
75213 AATCGCAACGCGA
1 AATCGCAACGCGA
75226 ACATATAAAT
Statistics
Matches: 66, Mismatches: 26, Indels: 7
0.67 0.26 0.07
Matches are distributed among these distances:
19 1 0.02
20 24 0.36
21 39 0.59
22 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.21
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:75303 original size:20 final size:21
Alignment explanation
Indices: 75254--75295 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
75244 GATTCTGACT
**
75254 ATCGCAACGAATATTCGTAAA
1 ATCGCAACGTGTATTCGTAAA
75275 ATCGCAACGTGTATTCGTAAA
1 ATCGCAACGTGTATTCGTAAA
75296 TCCAAACGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (21 bp):
ATCGCAACGTGTATTCGTAAA
Found at i:75335 original size:21 final size:21
Alignment explanation
Indices: 75269--75356 Score: 67
Period size: 20 Copynumber: 4.3 Consensus size: 21
75259 AACGAATATT
* * *
75269 CGTAAAATCGCAACGTGTATT
1 CGTAAAATCGAAACGCGTATC
* *
75290 CGT-AAATCCAAACGACAATAT-
1 CGTAAAATCGAAACG-C-GTATC
75311 -GTAAAATCGAAACGCGTATC
1 CGTAAAATCGAAACGCGTATC
* *
75331 CGT-AAATCGCAATGCGTATC
1 CGTAAAATCGAAACGCGTATC
75351 CGTAAA
1 CGTAAA
75357 TCACAATGCG
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
19 3 0.06
20 30 0.57
21 17 0.32
22 3 0.06
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.23
Consensus pattern (21 bp):
CGTAAAATCGAAACGCGTATC
Found at i:75363 original size:20 final size:20
Alignment explanation
Indices: 75314--75415 Score: 125
Period size: 20 Copynumber: 5.1 Consensus size: 20
75304 ACAATATGTA
* * *
75314 AAATCGAAACGCGTATCCGT
1 AAATCGCAATGCGTATACGT
*
75334 AAATCGCAATGCGTATCCGT
1 AAATCGCAATGCGTATACGT
* *
75354 AAATCACAATGCGAATACGT
1 AAATCGCAATGCGTATACGT
75374 AAATCGCAATGCG-ATTACGT
1 AAATCGCAATGCGTA-TACGT
*
75394 AAATCGCAATGCGAATACGT
1 AAATCGCAATGCGTATACGT
75414 AA
1 AA
75416 TCGTGTTGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 1 0.01
20 72 0.97
21 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (20 bp):
AAATCGCAATGCGTATACGT
Found at i:75435 original size:39 final size:40
Alignment explanation
Indices: 75331--75441 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
75321 AACGCGTATC
* *
75331 CGTAAATCGCAATGCG-TATCCGTAAATCACAATGCGAATA
1 CGTAAATCGCAATGCGAT-TACGTAAATCGCAATGCGAATA
75371 CGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATA
1 CGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATA
***
75411 CGT-AATCGTGTTGCGATTTA-GTAAATCGCAA
1 CGTAAATCGCAATGCGA-TTACGTAAATCGCAA
75442 CGAGATTCTG
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 21 0.33
40 42 0.66
41 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (40 bp):
CGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATA
Found at i:76329 original size:24 final size:24
Alignment explanation
Indices: 76302--76355 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
76292 GTATTCGAAA
76302 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
76326 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
76350 TTTGAT
1 TTTGAT
76356 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:78915 original size:33 final size:33
Alignment explanation
Indices: 78870--79036 Score: 181
Period size: 33 Copynumber: 4.8 Consensus size: 33
78860 GTTAATGTCT
*
78870 ATCGCAATGCGAAATAAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * * *
78903 ATTGCAATGCGAAATGAAAATCGCAGCGTGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * * *
78936 ATCGCAACGCGAATATGAATATCGTAACGTGGAAATGA
1 ATCGCAATGCGAA-ATGAAAATCGCAAC---GAGA-GA
78974 CTATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 --ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
79009 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
79037 CGAATTTAGT
Statistics
Matches: 109, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
33 66 0.61
34 11 0.10
35 2 0.02
36 3 0.03
37 2 0.02
38 1 0.01
39 12 0.11
40 12 0.11
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:79076 original size:19 final size:19
Alignment explanation
Indices: 79036--79081 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
79026 AAATCGCAAC
* *
79036 GCGAATTTAGTTTCGCGGT
1 GCGATTTTAGTTTCACGGT
*
79055 GCGATTTTAGTTTCACGTT
1 GCGATTTTAGTTTCACGGT
79074 GCGATTTT
1 GCGATTTT
79082 CATTTCGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.43
Consensus pattern (19 bp):
GCGATTTTAGTTTCACGGT
Found at i:79087 original size:19 final size:19
Alignment explanation
Indices: 79054--79130 Score: 67
Period size: 19 Copynumber: 4.3 Consensus size: 19
79044 AGTTTCGCGG
*
79054 TGCGATTTT-AGTTTCACGT
1 TGCGATTTTCA-TTTCACAT
*
79073 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCACAT
* *
79092 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCACAT
79106 TGCGATTTTCATTTCACAT
1 TGCGATTTTCATTTCACAT
79125 TGCGAT
1 TGCGAT
79131 AGTCATTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
14 9 0.20
16 3 0.07
17 3 0.07
19 30 0.65
20 1 0.02
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (19 bp):
TGCGATTTTCATTTCACAT
Found at i:80674 original size:21 final size:21
Alignment explanation
Indices: 80608--80677 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
80598 GTGAATCGGG
*
80608 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
80628 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
80650 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
80671 CTCTTGA
1 CTCTTGA
80678 GGAATGATAG
Statistics
Matches: 35, Mismatches: 13, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
21 33 0.94
22 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:80693 original size:42 final size:41
Alignment explanation
Indices: 80608--80730 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 41
80598 GTGAATCGGG
* * * *
80608 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTCTT-GAGGATGACAGGGGC
*
80650 CTCTTGAACGGTGGGAGGGGACTCTTGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTTGAGG-ATGACAGGGGC
* * * *
80692 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTTGA-GGATGACAGG
80731 CGAGTCAGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 60 0.88
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTTGAGGATGACAGGGGC
Found at i:81167 original size:19 final size:19
Alignment explanation
Indices: 81127--81233 Score: 89
Period size: 19 Copynumber: 5.8 Consensus size: 19
81117 TCTGGAACTT
*
81127 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
** *
81148 ACTATCGCAAGGCGAAATG
1 AAAATCGCAACGCGAAATG
*
81167 AAAATCGCAACGCGAAAAG
1 AAAATCGCAACGCGAAATG
81186 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* *
81200 AGAATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
*
81219 AAAATAGCAACGCGA
1 AAAATCGCAACGCGA
81234 TTATAGTTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 43 0.62
21 10 0.14
ACGTcount: A:0.48, C:0.19, G:0.22, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:81252 original size:19 final size:19
Alignment explanation
Indices: 81230--81273 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
81220 AAATAGCAAC
81230 GCGATTATAGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
* *
81249 GCGATTTTGGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
81268 GCGATT
1 GCGATT
81274 TTGTCGTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.30, T:0.43
Consensus pattern (19 bp):
GCGATTATAGTTTCGCGTT
Found at i:81287 original size:33 final size:33
Alignment explanation
Indices: 81245--81369 Score: 191
Period size: 33 Copynumber: 3.8 Consensus size: 33
81235 TATAGTTTCG
** * *
81245 CGTTGCGATTTTGGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
81278 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
81311 CGTTGAGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
81344 CGTTGCGA--TTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
81370 AGTCATTTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
31 18 0.21
33 68 0.79
ACGTcount: A:0.10, C:0.21, G:0.25, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:81339 original size:19 final size:19
Alignment explanation
Indices: 81240--81409 Score: 95
Period size: 19 Copynumber: 9.7 Consensus size: 19
81230 GCGATTATAG
**
81240 TTTCGCGTTGCGATTTTGG
1 TTTCGCGTTGCGATTTTCA
81259 TTTCGCGTTGCGA-TTT--
1 TTTCGCGTTGCGATTTTCA
*
81275 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
81292 TTTCGCGTTGCGA--TTC-
1 TTTCGCGTTGCGATTTTCA
* *
81308 --TCTCGTTGAGATTTTCA
1 TTTCGCGTTGCGATTTTCA
81325 TTTCGCGTTGCGA--TTC-
1 TTTCGCGTTGCGATTTTCA
*
81341 --TCTCGTTGCGA--TTCA
1 TTTCGCGTTGCGATTTTCA
**
81356 TTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTTTCA
* *
81375 TTTTTCACGTTGCGATTTTAA
1 --TTTCGCGTTGCGATTTTCA
*
81396 GTTTCGTGTTGCGA
1 -TTTCGCGTTGCGA
81410 AAGTAAACTA
Statistics
Matches: 118, Mismatches: 16, Indels: 33
0.71 0.10 0.20
Matches are distributed among these distances:
14 30 0.25
15 3 0.03
16 5 0.04
17 18 0.15
18 3 0.03
19 33 0.28
20 11 0.09
21 15 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.45
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:81349 original size:14 final size:14
Alignment explanation
Indices: 81297--81354 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 14
81287 TTTCATTTCG
81297 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
81311 CGTTGAGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
81330 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
81344 CGTTGCGATTC
1 CGTTGCGATTC
81355 ATTTCGCGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:81603 original size:94 final size:94
Alignment explanation
Indices: 81457--81836 Score: 656
Period size: 94 Copynumber: 4.1 Consensus size: 94
81447 ATGGATTGCA
* * *
81457 TTAC-TTCAACCAAAAGACAAAACAAATACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
81521 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
81550 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAAT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
81615 TTAGCAGAATTGGCAGCAATCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
81644 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAATGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
81709 TTAGCAGAATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
81738 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
*
81802 TTTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
81832 TTACT
1 TTACT
81837 AAGCAATCTA
Statistics
Matches: 273, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
93 23 0.08
94 250 0.92
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:83562 original size:20 final size:20
Alignment explanation
Indices: 83539--83594 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
83529 TGAAATGAAA
83539 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
*
83559 ATCGCAACGCG-GAAATGACT
1 ATCGCAACGAGAG-AATGACT
83579 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
83595 CGCAACGCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.25, T:0.14
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:83633 original size:19 final size:19
Alignment explanation
Indices: 83592--83717 Score: 209
Period size: 19 Copynumber: 6.7 Consensus size: 19
83582 GCAACGAGAG
*
83592 AATCGCAACGCGAAA-TGA
1 AATCGCAACGCGAAATTAA
83610 AATCGCAACGCGAAATTAA
1 AATCGCAACGCGAAATTAA
83629 AATCGCAACGCGAAATTAA
1 AATCGCAACGCGAAATTAA
83648 AATCGCAACGCGAAATTAA
1 AATCGCAACGCGAAATTAA
83667 AATCGCAACGCGAAATTAA
1 AATCGCAACGCGAAATTAA
**
83686 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAATTAA
*
83705 AATCGCAATGCGA
1 AATCGCAACGCGA
83718 TTTTGGTTTC
Statistics
Matches: 103, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
18 15 0.15
19 88 0.85
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAATTAA
Found at i:83799 original size:20 final size:19
Alignment explanation
Indices: 83730--83801 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
83720 TTGGTTTCGC
83730 GTTGCGATTTTCATTTCTCT
1 GTTGCGATTTTCATTT-TCT
* **
83750 CGTTGCGGTAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTC-T
83771 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTC-T
83791 GTTGCGATTTT
1 GTTGCGATTTT
83802 AAGTTTAGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
20 29 0.67
21 14 0.33
ACGTcount: A:0.11, C:0.17, G:0.21, T:0.51
Consensus pattern (19 bp):
GTTGCGATTTTCATTTTCT
Found at i:84394 original size:20 final size:20
Alignment explanation
Indices: 84356--84551 Score: 147
Period size: 20 Copynumber: 9.7 Consensus size: 20
84346 CGCTTTAAAA
84356 ATCG-CGTTGCGATTTTACGT
1 ATCGTCGTTGCGA-TTTACGT
* *
84376 ATTGTCGTTGCGATTTACGG
1 ATCGTCGTTGCGATTTACGT
*
84396 ATACG-CATTGCGATTTACGT
1 AT-CGTCGTTGCGATTTACGT
*
84416 ATTC-TCGTTGCGATTTACCT
1 A-TCGTCGTTGCGATTTACGT
* *
84436 ATTCGT-ATTGCGATTTACGA
1 A-TCGTCGTTGCGATTTACGT
*
84456 ATACGT-GTTGCGATTTACGG
1 AT-CGTCGTTGCGATTTACGT
*
84476 ATACG-CGTTGCGATTTTACAT
1 AT-CGTCGTTGCGA-TTTACGT
* *
84497 ATTGTCGTTGCGATTTACGA
1 ATCGTCGTTGCGATTTACGT
*
84517 ATACG-CGTTGCGATTTTACGG
1 AT-CGTCGTTGCGA-TTTACGT
84538 ATAC-TCGTTGCGAT
1 AT-CGTCGTTGCGAT
84552 AGTCAGAATC
Statistics
Matches: 145, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.01
20 99 0.68
21 45 0.31
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (20 bp):
ATCGTCGTTGCGATTTACGT
Found at i:84546 original size:41 final size:41
Alignment explanation
Indices: 84358--84612 Score: 229
Period size: 40 Copynumber: 6.3 Consensus size: 41
84348 CTTTAAAAAT
* *
84358 CGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGAATA
* ** *
84399 CGCATTGCGA-TTTACGTATTCTCGTTGCGATTTACCTATT
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGAATA
** * * *
84439 CGTATTGCGA-TTTACGAATACGT-GTTGCGATTTACGGATA
1 CGCGTTGCGATTTTACGTATTC-TCGTTGCGATTTACGAATA
* *
84479 CGCGTTGCGATTTTACATATTGTCGTTGCGATTTACGAATA
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGAATA
* * *
84520 CGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGAAT-
1 CGCGTTGCGATTTTACGTATTCTCGTTGCGAT-TTAC-GAATA
* * * *
84561 CGCGTTGCGATTTATA--TGTTCGCGTTGCGATTTTC-ATATT
1 CGCGTTGCGATTT-TACGTATTCTCGTTGCGATTTACGA-ATA
84601 CGCGTTGCGATT
1 CGCGTTGCGATT
84613 CTGGAAAATC
Statistics
Matches: 177, Mismatches: 28, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 3 0.02
40 91 0.51
41 75 0.42
42 7 0.04
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (41 bp):
CGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACGAATA
Found at i:84583 original size:20 final size:20
Alignment explanation
Indices: 84560--84612 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
84550 ATAGTCAGAA
*
84560 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
84580 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
84600 TCGCGTTGCGATT
1 TCGCGTTGCGATT
84613 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:84727 original size:19 final size:19
Alignment explanation
Indices: 84703--84755 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
84693 ATTCTAGAGA
84703 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
84722 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
*
84741 TCGCATTGCGATTTT
1 TCGCGTTGCGATTTT
84756 GTTGGTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.11, C:0.17, G:0.21, T:0.51
Consensus pattern (19 bp):
TCGCGTTGCGATTTTTATT
Found at i:89423 original size:79 final size:79
Alignment explanation
Indices: 89292--89496 Score: 308
Period size: 79 Copynumber: 2.6 Consensus size: 79
89282 TGTTTGATTT
*
89292 AAATTCTATTTACTACTTTTACTTAAATCCTATCTTTCTATTTAAATAATAGTTTGATTTAAATT
1 AAATTCTATTTACTACTTTTACTTAAATCCCATCTTTCTATTTAAATAATAGTTTGATTTAAATT
89357 ACTAGTATTTATTC
66 ACTAGTATTTATTC
* *
89371 AAATTCTATTTACTACTTTTACTTTAA-CCACATCTTTTTATTT-AATCAATAGTTTGATTTAAA
1 AAATTCTATTTACTACTTTTACTTAAATCC-CATCTTTCTATTTAAAT-AATAGTTTGATTTAAA
*
89434 TTACTAGTATTTATTT
64 TTACTAGTATTTATTC
** *
89450 AAATTCTATTTACTACTTTTACTTAAATCGTAT-TTTTTATTTAAATA
1 AAATTCTATTTACTACTTTTACTTAAATCCCATCTTTCTATTTAAATA
89497 TTATTTATTT
Statistics
Matches: 115, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
78 15 0.13
79 99 0.86
80 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.52
Consensus pattern (79 bp):
AAATTCTATTTACTACTTTTACTTAAATCCCATCTTTCTATTTAAATAATAGTTTGATTTAAATT
ACTAGTATTTATTC
Found at i:90669 original size:43 final size:41
Alignment explanation
Indices: 90615--90709 Score: 111
Period size: 43 Copynumber: 2.3 Consensus size: 41
90605 TATTAAACTC
* * * *
90615 ATTACTTATTTAATGTTATATTCACTATTTCAATTAAATTATT
1 ATTATTTATTTAAGGTTATACTCACTATTTAAATT-AATTA-T
* *
90658 ATTATTTATTTAAGGTTCTACTCATTATTTAAATTAATTAT
1 ATTATTTATTTAAGGTTATACTCACTATTTAAATTAATTAT
90699 ATT-TTTATTTA
1 ATTATTTATTTA
90710 TAGAATAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 8 0.17
41 4 0.09
42 5 0.11
43 29 0.63
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (41 bp):
ATTATTTATTTAAGGTTATACTCACTATTTAAATTAATTAT
Found at i:91374 original size:18 final size:18
Alignment explanation
Indices: 91347--91381 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91337 ACCGTTGACT
* *
91347 ATTGATCGTTGATCGACC
1 ATTGACCGTTGACCGACC
91365 ATTGACCGTTGACCGAC
1 ATTGACCGTTGACCGAC
91382 ATTAATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (18 bp):
ATTGACCGTTGACCGACC
Found at i:96207 original size:20 final size:20
Alignment explanation
Indices: 96170--96207 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
96160 TTTGGGTTTG
*
96170 AGTATCGATACTAGAAGAAT
1 AGTATCGATACCAGAAGAAT
*
96190 AGTATCGATACCATAAGA
1 AGTATCGATACCAGAAGA
96208 TGAAATTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (20 bp):
AGTATCGATACCAGAAGAAT
Found at i:96995 original size:23 final size:23
Alignment explanation
Indices: 96962--97009 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
96952 GAGTCGAGGG
*
96962 TTCTACGCGGTCCTTTGGGAAAT
1 TTCTACACGGTCCTTTGGGAAAT
* *
96985 TTCTACACGGTCTTTTGGGACAT
1 TTCTACACGGTCCTTTGGGAAAT
97008 TT
1 TT
97010 AAATGTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.40
Consensus pattern (23 bp):
TTCTACACGGTCCTTTGGGAAAT
Found at i:97084 original size:24 final size:24
Alignment explanation
Indices: 97028--97084 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
97018 TCCTTGGGAC
*
97028 ATTTATACGTAGCACTTCGGTGCA
1 ATTTATATGTAGCACTTCGGTGCA
* * *
97052 AATTCTATGTGGCACTTCGGTGCA
1 ATTTATATGTAGCACTTCGGTGCA
97076 ATTTATATG
1 ATTTATATG
97085 AGCTTTGGTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (24 bp):
ATTTATATGTAGCACTTCGGTGCA
Found at i:101781 original size:16 final size:16
Alignment explanation
Indices: 101769--101811 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
101759 TATTTGTTAC
101769 CAAGGGAATTTGTCAG
1 CAAGGGAATTTGTCAG
101785 CAAGGGAATTTGTCAG
1 CAAGGGAATTTGTCAG
101801 CAAGGGAATTT
1 CAAGGGAATTT
101812 TTCATACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.26
Consensus pattern (16 bp):
CAAGGGAATTTGTCAG
Found at i:101973 original size:18 final size:18
Alignment explanation
Indices: 101950--101990 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
101940 ATTGTGGATG
101950 ATGTTCTTTCACGCAGGT
1 ATGTTCTTTCACGCAGGT
*
101968 ATGTTCTTTCACGCATGT
1 ATGTTCTTTCACGCAGGT
101986 ATGTT
1 ATGTT
101991 TTACTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.44
Consensus pattern (18 bp):
ATGTTCTTTCACGCAGGT
Done.