Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007608.1 Hibiscus syriacus cultivar Beakdansim tig00022381_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: 45351
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.21
Found at i:3565 original size:32 final size:32
Alignment explanation
Indices: 3526--3613 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
3516 GCGTGAGCCC
*
3526 CGGTCACCATCGGCAATCCCAGGC-GGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
3558 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
3590 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
3614 CATTGGTGAG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
32 43 0.93
33 3 0.07
ACGTcount: A:0.20, C:0.38, G:0.27, T:0.15
Consensus pattern (32 bp):
CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
Found at i:3701 original size:32 final size:32
Alignment explanation
Indices: 3660--3792 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
3650 GTGCGTGAGG
* *
3660 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
3692 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
3724 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
3756 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
3788 CTCGG
1 CTCGG
3793 CAACCCCAGG
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 83 0.87
33 12 0.13
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:3885 original size:32 final size:32
Alignment explanation
Indices: 3844--3948 Score: 103
Period size: 32 Copynumber: 3.4 Consensus size: 32
3834 GAGTTGGGTG
3844 CGGGT-CCTCGGTCACCATCGGCAACCCCCGA
1 CGGGTGCCTCGGTCACCATCGGCAACCCCCGA
* * ****
3875 CGGGTGCCTCGG-CAACC-CCAGGCCACGGGTG-
1 CGGGTGCCTCGGTC-ACCATC-GGCAACCCCCGA
3906 CGGG-GCCTCGGTCACCATCGGCAACCCCCGA
1 CGGGTGCCTCGGTCACCATCGGCAACCCCCGA
3937 CGGGTGCCTCGG
1 CGGGTGCCTCGG
3949 CAACCCCAGG
Statistics
Matches: 55, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
30 16 0.29
31 17 0.31
32 22 0.40
ACGTcount: A:0.13, C:0.42, G:0.33, T:0.11
Consensus pattern (32 bp):
CGGGTGCCTCGGTCACCATCGGCAACCCCCGA
Found at i:3915 original size:30 final size:31
Alignment explanation
Indices: 3875--3971 Score: 92
Period size: 30 Copynumber: 3.1 Consensus size: 31
3865 CAACCCCCGA
3875 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
* * ****
3906 CGGG-GCCTCGGTC-ACCATC-GGCAACCCCCG
1 CGGGTGCCTCGG-CAACC-CCAGGCCACGGGTG
3936 ACGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 -CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
3968 CGGG
1 CGGG
3972 AGTGCCGCAC
Statistics
Matches: 48, Mismatches: 12, Indels: 12
0.67 0.17 0.17
Matches are distributed among these distances:
30 16 0.33
31 16 0.33
32 16 0.33
ACGTcount: A:0.13, C:0.40, G:0.37, T:0.09
Consensus pattern (31 bp):
CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
Found at i:3936 original size:62 final size:62
Alignment explanation
Indices: 3839--3971 Score: 257
Period size: 62 Copynumber: 2.1 Consensus size: 62
3829 GCCGAGAGTT
*
3839 GGGTGCGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
3901 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
3963 GGGTGCGGG
1 GGGTGCGGG
3972 AGTGCCGCAC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 70 1.00
ACGTcount: A:0.14, C:0.40, G:0.36, T:0.11
Consensus pattern (62 bp):
GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:3947 original size:94 final size:94
Alignment explanation
Indices: 3724--3948 Score: 251
Period size: 94 Copynumber: 2.4 Consensus size: 94
3714 AGACGGGTGT
* *
3724 CTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
3789 TCGGCAACCCCAGGCCACGGGTGCGGGAG
66 TCGGCAACCCCAGGCCACGGGTGCGGGAG
* * * * * ***** *
3818 TTCCGGACA-GAGCCG-AGAGTTGGGTGCGGGT-CCTCGGTCACCATCGGCAACCCCCGACGGGT
1 CT-CGGTCACCATCGGCA-AACCCAG-ACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGT
3880 GCCTCGGCAACCCCAGGCCACGGGTGCGGG-G
63 GCCTCGGCAACCCCAGGCCACGGGTGCGGGAG
* *
3911 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
1 -CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGG
3949 CAACCCCAGG
Statistics
Matches: 100, Mismatches: 24, Indels: 14
0.72 0.17 0.10
Matches are distributed among these distances:
93 12 0.12
94 77 0.77
95 11 0.11
ACGTcount: A:0.16, C:0.37, G:0.34, T:0.12
Consensus pattern (94 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
TCGGCAACCCCAGGCCACGGGTGCGGGAG
Found at i:3984 original size:156 final size:157
Alignment explanation
Indices: 3756--4043 Score: 456
Period size: 156 Copynumber: 1.8 Consensus size: 157
3746 AGACGGGTGT
* *
3756 CTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTTC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
3821 CGGACAGAGCCGAGAGTTGGGTGCG-G-GTCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCC
66 CGCACAGAACCGAGAGTT-GGTGCGTGAG-CCTCGGTCACCATCGGCAACCCCAGACGGGTGGCC
3883 TCGGCAACCCCAGGCCACGGGTGCGGGGC
129 TCGGCAACCCCAGGCCACGGGTGCGGGGC
3912 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * * *
3977 CGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTC
66 CGCACAGAACCGAGAGTTGGTGCGTGAGCCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
4042 GG
131 GG
4044 TCACCATTGG
Statistics
Matches: 120, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
155 6 0.05
156 106 0.88
157 8 0.07
ACGTcount: A:0.16, C:0.36, G:0.36, T:0.12
Consensus pattern (157 bp):
CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
CGCACAGAACCGAGAGTTGGTGCGTGAGCCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
GGCAACCCCAGGCCACGGGTGCGGGGC
Found at i:4080 original size:32 final size:32
Alignment explanation
Indices: 4006--4139 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
3996 GTGCGTGAGG
* *
4006 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
4039 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
4071 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
4103 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
4135 CTCGG
1 CTCGG
4140 CAACCCCAGG
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
32 65 0.71
33 26 0.29
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:4238 original size:346 final size:346
Alignment explanation
Indices: 3599--4255 Score: 1190
Period size: 347 Copynumber: 1.9 Consensus size: 346
3589 TCGGTCACCA
**
3599 TCGGCAACCCCAGGCCATTGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
3664 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
66 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
*
3729 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGC
131 TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
* *
3794 AACCCCAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGTCCTCGGTCAC
196 AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGTCCTCGGTCAC
*
3859 CATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGCCTCGGTCACCAT
261 CATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGCCTCGGTCACCAT
3924 CGGCAACCCCCGACGGGTGCC
326 CGGCAACCCCCGACGGGTGCC
*
3945 TCGGCAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
* *
4010 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCG
66 GTCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCG
4075 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
130 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
4140 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGG-CCTCGGTCA
195 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGTCCTCGGTCA
* **
4204 CCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGG
260 CCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGG
4256 AGTGCCGCAC
Statistics
Matches: 298, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
346 133 0.45
347 165 0.55
ACGTcount: A:0.18, C:0.35, G:0.35, T:0.13
Consensus pattern (346 bp):
TCGGCAACCCCAGGCCACGGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
TCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGC
AACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGTCCTCGGTCAC
CATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGCCTCGGTCACCAT
CGGCAACCCCCGACGGGTGCC
Found at i:12510 original size:33 final size:31
Alignment explanation
Indices: 12473--12560 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 31
12463 GCGTGAGCCC
*
12473 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGC-GGT-GCCT
* ** *
12506 CGGTCACCATCGGCAAAACCATACGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGTGCCT
*
12537 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
12561 CATTGGTGAG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
31 23 0.50
32 3 0.07
33 20 0.43
ACGTcount: A:0.20, C:0.38, G:0.27, T:0.15
Consensus pattern (31 bp):
CGGTCACCATCGGCAAACCCAGGCGGTGCCT
Found at i:12549 original size:64 final size:63
Alignment explanation
Indices: 12473--12719 Score: 168
Period size: 64 Copynumber: 3.8 Consensus size: 63
12463 GCGTGAGCCC
12473 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAACCATACGGTGTCT
1 CGGTCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAACCATACGGTGTCT
*** ** * * *
12537 CGGTCACCATCGGCAACCCCAGGCCATTGG--T-GAGGGA--GTGCCGCACAGAACCGAGCGT-T
1 CGGTCACCATCGGCAA-CCCAGGCGGGTGGCCTCG-GTCACCAT-CGGCA-A-AACC-A---TAC
12596 GGTGCGTGAGGCT
57 GGT--GT----CT
* *
12609 C-GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCT
1 CGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAACCATAC-GGTGTCT
* *
12672 CGGTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAA
1 CGGTCACCATCGGC-AACCCAGGCGGGTGGCCTCGGTCACCATCGGCAA
12720 CCCCCGACGG
Statistics
Matches: 139, Mismatches: 21, Indels: 46
0.67 0.10 0.22
Matches are distributed among these distances:
60 1 0.01
61 5 0.04
62 4 0.03
63 7 0.05
64 58 0.42
65 12 0.09
66 3 0.02
67 3 0.02
68 2 0.01
69 3 0.02
70 11 0.08
71 17 0.12
72 7 0.05
73 5 0.04
74 1 0.01
ACGTcount: A:0.20, C:0.34, G:0.31, T:0.15
Consensus pattern (63 bp):
CGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAACCATACGGTGTCT
Found at i:12651 original size:32 final size:32
Alignment explanation
Indices: 12610--12737 Score: 188
Period size: 32 Copynumber: 4.0 Consensus size: 32
12600 CGTGAGGCTC
* *
12610 GTCACCATCGGC-AACCCAGGCGGGTGGCCTCG
1 GTCACCATCGGCAAACCCAGACGGGT-GTCTCG
12642 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
12674 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
* * *
12706 GTCACCATCGGCAACCCCCGAC-GGTGGCTCG
1 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
12737 G
1 G
12738 CAACCCCAGG
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
31 9 0.10
32 69 0.77
33 12 0.13
ACGTcount: A:0.19, C:0.37, G:0.30, T:0.14
Consensus pattern (32 bp):
GTCACCATCGGCAAACCCAGACGGGTGTCTCG
Found at i:12829 original size:32 final size:32
Alignment explanation
Indices: 12788--12892 Score: 103
Period size: 32 Copynumber: 3.4 Consensus size: 32
12778 GAGTTGGGTG
12788 CGGGT-CCTCGGTCACCATCGGCAACCCCCGA
1 CGGGTGCCTCGGTCACCATCGGCAACCCCCGA
* * ***
12819 CGGGTGCCTCGG-CAACC-CCAGGCCA-CGGTG-
1 CGGGTGCCTCGGTC-ACCATC-GGCAACCCCCGA
*
12849 CGGGGGCCTCGGTCACCATCGGCAACCCCCGA
1 CGGGTGCCTCGGTCACCATCGGCAACCCCCGA
12881 CGGGTGCCTCGG
1 CGGGTGCCTCGG
12893 CAACCCCAGG
Statistics
Matches: 55, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
30 18 0.33
31 13 0.24
32 24 0.44
ACGTcount: A:0.13, C:0.42, G:0.33, T:0.11
Consensus pattern (32 bp):
CGGGTGCCTCGGTCACCATCGGCAACCCCCGA
Found at i:12859 original size:30 final size:30
Alignment explanation
Indices: 12819--12914 Score: 88
Period size: 30 Copynumber: 3.1 Consensus size: 30
12809 CAACCCCCGA
12819 CGGGTGCCTCGGCAACCCCAGGCCACGGTG
1 CGGGTGCCTCGGCAACCCCAGGCCACGGTG
* * * ***
12849 CGGGGGCCTCGGTC-ACCATC-GGCAACCCCCG
1 CGGGTGCCTCGG-CAACC-CCAGGCCA-CGGTG
12880 ACGGGTGCCTCGGCAACCCCAGGCCACGGTG
1 -CGGGTGCCTCGGCAACCCCAGGCCACGGTG
12911 CGGG
1 CGGG
12915 AGTGCCGCAC
Statistics
Matches: 48, Mismatches: 12, Indels: 12
0.67 0.17 0.17
Matches are distributed among these distances:
30 22 0.46
31 8 0.17
32 18 0.38
ACGTcount: A:0.14, C:0.41, G:0.36, T:0.09
Consensus pattern (30 bp):
CGGGTGCCTCGGCAACCCCAGGCCACGGTG
Found at i:12880 original size:62 final size:62
Alignment explanation
Indices: 12784--12914 Score: 246
Period size: 62 Copynumber: 2.1 Consensus size: 62
12774 CCGAGAGTTG
*
12784 GGTGC-GGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
12845 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
12907 GGTGCGGG
1 GGTGCGGG
12915 AGTGCCGCAC
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 5 0.07
62 63 0.93
ACGTcount: A:0.14, C:0.40, G:0.35, T:0.11
Consensus pattern (62 bp):
GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:12885 original size:93 final size:92
Alignment explanation
Indices: 12670--12892 Score: 236
Period size: 93 Copynumber: 2.4 Consensus size: 92
12660 AGACGGGTGT
* *
12670 CTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGTGGCT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCT
12735 CGGCAACCCCAGGCCACGGTGCGGGAG
66 CGGCAACCCCAGGCCACGGTGCGGGAG
* * * * * ***** *
12762 TTCCGGACA-GAGCCG-AGAGTTGGGTGCGGGT-CCTCGGTCACCATCGGCAACCCCCGACGGGT
1 CT-CGGTCACCATCGGCA-AACCCAG-ACGGGTGCCTCGGTCACCATCGGCAACCCCCGAC-GGT
*
12824 GCCTCGGCAACCCCAGGCCACGGTGCGGGGG
62 GCCTCGGCAACCCCAGGCCACGGTGCGGGAG
* *
12855 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
1 -CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGG
12893 CAACCCCAGG
Statistics
Matches: 98, Mismatches: 25, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
91 1 0.01
92 32 0.33
93 52 0.53
94 12 0.12
95 1 0.01
ACGTcount: A:0.16, C:0.38, G:0.34, T:0.13
Consensus pattern (92 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCT
CGGCAACCCCAGGCCACGGTGCGGGAG
Found at i:12920 original size:32 final size:31
Alignment explanation
Indices: 12820--12920 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 31
12810 AACCCCCGAC
12820 GGGTGCCTCGGCAACCCCAGGCCACGGTGCG
1 GGGTGCCTCGGCAACCCCAGGCCACGGTGCG
* * ***
12851 GGG-GCCTCGGTC-ACCATC-GGCAAC-CCCCG
1 GGGTGCCTCGG-CAACC-CCAGGCCACGGTGCG
12880 ACGGGTGCCTCGGCAACCCCAGGCCACGGTGCG
1 --GGGTGCCTCGGCAACCCCAGGCCACGGTGCG
12913 GGAGTGCC
1 GG-GTGCC
12921 GCACAGAACC
Statistics
Matches: 51, Mismatches: 10, Indels: 17
0.65 0.13 0.22
Matches are distributed among these distances:
29 2 0.04
30 15 0.29
31 12 0.24
32 20 0.39
33 2 0.04
ACGTcount: A:0.14, C:0.40, G:0.37, T:0.10
Consensus pattern (31 bp):
GGGTGCCTCGGCAACCCCAGGCCACGGTGCG
Found at i:12927 original size:155 final size:155
Alignment explanation
Indices: 12702--12986 Score: 441
Period size: 155 Copynumber: 1.8 Consensus size: 155
12692 AGACGGGTGT
* *
12702 CTCGGTCACCATCGGCAACCCCCGACGGTGGCTCGGCAACCCCAGGCCACGGTGCGGGAGTTCCG
1 CTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGTGCGGGAGTGCCG
* * *
12767 GACAGAGCCGAGAGTTGGGTGCG-G-GTCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTC
66 CACAGAACCGAGAGTT-GGTGCGTGAG-CCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTC
12829 GGCAACCCCAGGCCACGGTGCGGGGGC
129 GGCAACCCCAGGCCACGGTGCGGGGGC
12856 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGTGCGGGAGTGCC
1 CTCGGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACGGTGCGGGAGTGCC
* * * *
12921 GCACAGAACCGAGCGTTGGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCG
65 GCACAGAACCGAGAGTTGGTGCGTGAGCCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTCG
12986 G
130 G
12987 TCACCATTGG
Statistics
Matches: 118, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
154 32 0.27
155 78 0.66
156 8 0.07
ACGTcount: A:0.16, C:0.36, G:0.35, T:0.12
Consensus pattern (155 bp):
CTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGTGCGGGAGTGCCG
CACAGAACCGAGAGTTGGTGCGTGAGCCTCGGTCACCATCGGCAACCCCAGACGGGTGGCCTCGG
CAACCCCAGGCCACGGTGCGGGGGC
Found at i:13023 original size:32 final size:32
Alignment explanation
Indices: 12949--13082 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
12939 GTGCGTGAGG
* *
12949 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
12982 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
13014 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
13046 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
13078 CTCGG
1 CTCGG
13083 CAACCCCAGG
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
32 65 0.71
33 26 0.29
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:13165 original size:95 final size:95
Alignment explanation
Indices: 12845--13231 Score: 358
Period size: 95 Copynumber: 4.1 Consensus size: 95
12835 CCCAGGCCAC
12845 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC-GG
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
* *
12909 TGCGGGAGTGCCGCACAGAACCGAGCG-TT
66 TGCGGGAGTGCCGCACAGAACCGAGAGCTG
* * * * *** * *
12938 GGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATTGGCAAA
1 GGTGCG-GGGGCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG-CAACCCCAGGCCAC
*** * * * * * **
13001 GCCAGACGGGTGT-CTCGGTCAC-CATCGGCA-AACCC
63 GGGTG-CGGGAGTGC-C-G-CACAGAACCG-AGAGCTG
* * * *
13036 AG-ACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
* *
13100 TGCGGGAGTGCCGCACAGAGCCGAGAGTTG
66 TGCGGGAGTGCCGCACAGAACCGAGAGCTG
* * **
13130 GGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGG
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
*
13195 TGCGGGAGTGCCGCACAGAACCGAGCGCTG
66 TGCGGGAGTGCCGCACAGAACCGAGAGCTG
13225 GGTGCGG
1 GGTGCGG
13232 CAGCCTCGCA
Statistics
Matches: 224, Mismatches: 54, Indels: 30
0.73 0.18 0.10
Matches are distributed among these distances:
93 37 0.17
94 23 0.10
95 100 0.45
96 26 0.12
97 33 0.15
98 5 0.02
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (95 bp):
GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
TGCGGGAGTGCCGCACAGAACCGAGAGCTG
Found at i:21442 original size:33 final size:32
Alignment explanation
Indices: 21402--21488 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 32
21392 CGTGAGCCCC
*
21402 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCG
1 GTCACCATCGGCAAACCCAGGCGGGT-GCCTCG
* ** *
21435 GTCACCATCGGCAAAACCATACGGGTGTCTCG
1 GTCACCATCGGCAAACCCAGGCGGGTGCCTCG
*
21467 GTCACCATCGGCAACCCCAGGC
1 GTCACCATCGGCAAACCCAGGC
21489 CATTGGTGAG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 23 0.51
33 22 0.49
ACGTcount: A:0.21, C:0.37, G:0.28, T:0.15
Consensus pattern (32 bp):
GTCACCATCGGCAAACCCAGGCGGGTGCCTCG
Found at i:21472 original size:32 final size:33
Alignment explanation
Indices: 21402--21480 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
21392 CGTGAGCCCC
** *
21402 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCG
1 GTCACCATCGGCAAAACCAGACGGGTGGCCTCG
* *
21435 GTCACCATCGGCAAAACCATACGGGT-GTCTCG
1 GTCACCATCGGCAAAACCAGACGGGTGGCCTCG
21467 GTCACCATCGGCAA
1 GTCACCATCGGCAA
21481 CCCCAGGCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 19 0.46
33 22 0.54
ACGTcount: A:0.22, C:0.34, G:0.28, T:0.16
Consensus pattern (33 bp):
GTCACCATCGGCAAAACCAGACGGGTGGCCTCG
Found at i:21576 original size:32 final size:31
Alignment explanation
Indices: 21534--21664 Score: 178
Period size: 30 Copynumber: 4.2 Consensus size: 31
21524 GGTGCGTGAG
*
21534 GCTCGGTCACCATCGGC-AACCCAGGCGGGT
1 GCTCGGTCACCATCGGCAAACCCAGACGGGT
21564 GGCCTCGGTCACCATCGGCAAACCCAGAC-GGT
1 -G-CTCGGTCACCATCGGCAAACCCAGACGGGT
21596 GTCTCGGTCACCATCGGCAAACCCAGACGGGT
1 G-CTCGGTCACCATCGGCAAACCCAGACGGGT
* *
21628 -CTCGGTCACCATCGGCAACCCCCGACGGGT
1 GCTCGGTCACCATCGGCAAACCCAGACGGGT
21658 GGCTCGG
1 -GCTCGG
21665 CAACCCCAGG
Statistics
Matches: 91, Mismatches: 4, Indels: 9
0.88 0.04 0.09
Matches are distributed among these distances:
30 28 0.31
31 28 0.31
32 27 0.30
33 8 0.09
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (31 bp):
GCTCGGTCACCATCGGCAAACCCAGACGGGT
Found at i:21605 original size:31 final size:32
Alignment explanation
Indices: 21535--21664 Score: 178
Period size: 31 Copynumber: 4.2 Consensus size: 32
21525 GTGCGTGAGG
* *
21535 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
21567 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
21598 CTCGGTCACCATCGGCAAACCCAGAC-GG-GT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
21628 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
21660 CTCGG
1 CTCGG
21665 CAACCCCAGG
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
30 26 0.29
31 31 0.34
32 25 0.28
33 8 0.09
ACGTcount: A:0.18, C:0.38, G:0.30, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:21809 original size:62 final size:63
Alignment explanation
Indices: 21711--21843 Score: 252
Period size: 62 Copynumber: 2.1 Consensus size: 63
21701 GCCGAGAGTT
21711 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
21774 GGGTGCGGGG-CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
21836 -GGTGCGGG
1 GGGTGCGGG
21844 AGTGCCGCAC
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 8 0.11
62 52 0.74
63 10 0.14
ACGTcount: A:0.14, C:0.40, G:0.36, T:0.11
Consensus pattern (63 bp):
GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:21946 original size:157 final size:156
Alignment explanation
Indices: 21564--21978 Score: 509
Period size: 157 Copynumber: 2.7 Consensus size: 156
21554 CCAGGCGGGT
* * *
21564 GGCCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GGCCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATAGGCAAAGCCAGACGGGT
* *
21628 CTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTTC
66 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* *
21693 CGGACAGAGCCGAGAGTTGGGTGCGG
131 CGCACAGAACCGAGAGTTGGGTGCGG
* * ** * * ***
21719 GGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG-CAACCCCAGGCCACGGGTG-CGG
1 GG-CCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTC-ACCATAGGCAAAGCCAGAC-G
*
21782 GGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC-GGTGCGGGAG
63 GGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAG
*
21846 TGCCGCACAGAACCGAGCGTT-GGTGCGTG
128 TGCCGCACAGAACCGAGAGTTGGGTGCG-G
* * *
21875 AGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGG
1 -GGCCTCGGTCACCATCGGCAAACCCAGACGGGT-GCCTCGGTCACCATAGGCAAAGCCAGACGG
* * *
21939 TGTCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
64 -GTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
21979 TCACCATCGG
Statistics
Matches: 217, Mismatches: 33, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
155 35 0.16
156 73 0.34
157 109 0.50
ACGTcount: A:0.18, C:0.35, G:0.34, T:0.13
Consensus pattern (156 bp):
GGCCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATAGGCAAAGCCAGACGGGT
CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
CGCACAGAACCGAGAGTTGGGTGCGG
Found at i:21978 original size:32 final size:32
Alignment explanation
Indices: 21878--22010 Score: 178
Period size: 32 Copynumber: 4.2 Consensus size: 32
21868 GTGCGTGAGG
* *
21878 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
21911 CTCGGTCACCATTGGCAAAGCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
21942 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
21974 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
22006 CTCGG
1 CTCGG
22011 CAACCCCAGG
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
31 25 0.28
32 42 0.47
33 22 0.25
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:22133 original size:92 final size:94
Alignment explanation
Indices: 21774--22156 Score: 316
Period size: 92 Copynumber: 4.1 Consensus size: 94
21764 CCCAGGCCAC
*
21774 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC-GG
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
*
21838 TGCGGGAGTGCCGCACAGAACCGAGCG-T
66 TGCGGGAGTGCCGCACAGAACCGAGAGCT
* * * *
21866 TGGTGCGTGAGG-CTCGGTCACCATCGGCAATC-CCAGGCGGGTGGCCTCGGTC-ACCATTGGCA
1 GGGTGCG-G-GGCCTCGGTCACCATCGGCAA-CACCCGACGGGT-GCCTCGG-CAACC-----CC
* ** * *
21928 AAGCCA-GACGGTGTCTCG-GT-CAC-CATCGGCAAACCCAGA-C-
56 AGGCCACG--GGTG-CGGGAGTGC-CGCA-CAG--AACCGAGAGCT
* *
21968 GGGT-----GTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
* *
22028 TGCGGGAGTGCCGCACAGAGCCGAGAGTT
66 TGCGGGAGTGCCGCACAGAACCGAGAGCT
* **
22057 GGGTGCGGGGCCTCGGTCACCATCGGCAACACCCGAC-GG-GCCTCGGCAACCCCAGTCCATTGG
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
*
22120 TGCGGGAGTGCCGCACAGAACCGAGCGCT
66 TGCGGGAGTGCCGCACAGAACCGAGAGCT
22149 GGGTGCGG
1 GGGTGCGG
22157 CAGCCTCGCA
Statistics
Matches: 229, Mismatches: 29, Indels: 66
0.71 0.09 0.20
Matches are distributed among these distances:
87 6 0.03
88 2 0.01
89 13 0.06
90 9 0.04
91 1 0.00
92 61 0.27
93 29 0.13
94 40 0.17
95 13 0.06
96 26 0.11
99 6 0.03
100 3 0.01
101 9 0.04
102 5 0.02
103 6 0.03
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (94 bp):
GGGTGCGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
TGCGGGAGTGCCGCACAGAACCGAGAGCT
Found at i:30364 original size:33 final size:32
Alignment explanation
Indices: 30327--30415 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
30317 GCGTGAGCCC
*
30327 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
30360 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
30392 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
30416 CATTGGTGAG
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 23 0.49
33 24 0.51
ACGTcount: A:0.20, C:0.37, G:0.28, T:0.15
Consensus pattern (32 bp):
CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
Found at i:30532 original size:31 final size:32
Alignment explanation
Indices: 30462--30592 Score: 187
Period size: 31 Copynumber: 4.2 Consensus size: 32
30452 GTGCGTGAGG
* *
30462 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
30494 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
30525 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
30556 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
30588 CTCGG
1 CTCGG
30593 CAACCCCAGG
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
31 56 0.61
32 28 0.30
33 8 0.09
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.15
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:30592 original size:63 final size:63
Alignment explanation
Indices: 30460--30592 Score: 189
Period size: 63 Copynumber: 2.1 Consensus size: 63
30450 TGGTGCGTGA
*
30460 GGCTCGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGT
1 GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGT
* * * *
30523 GTCTCGGTCACCATCGGCAAACCCAGAC-GGT-GTCTCGGTCACCATCGGCAACCCCCGACGGGT
1 GGCTCGGTCACCATCGGC-AACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGAC-GGT
30586 GGCTCGG
1 GGCTCGG
30593 CAACCCCAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 25 0.40
63 29 0.47
64 8 0.13
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (63 bp):
GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGT
Found at i:30715 original size:61 final size:62
Alignment explanation
Indices: 30639--30770 Score: 239
Period size: 63 Copynumber: 2.1 Consensus size: 62
30629 GCCGAGAGTT
*
30639 GGTGCGGGGTCCTCGGTCACCATCGGCAACCCCC-CGGGTGCCTCGGCAACCCCAGGCCACG
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCACGGGTGCCTCGGCAACCCCAGGCCACG
30700 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACG
1 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCC-ACGGGTGCCTCGGCAACCCCAGGCCACG
30763 GGTGCGGG
1 GGTGCGGG
30771 AGTGCCGCAC
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
61 33 0.49
63 35 0.51
ACGTcount: A:0.13, C:0.40, G:0.36, T:0.11
Consensus pattern (62 bp):
GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCACGGGTGCCTCGGCAACCCCAGGCCACG
Found at i:30879 original size:32 final size:32
Alignment explanation
Indices: 30805--30938 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
30795 GTGCGTGAGG
* *
30805 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
30838 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
30870 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
30902 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
30934 CTCGG
1 CTCGG
30939 CAACCCCAGG
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
32 65 0.71
33 26 0.29
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:31020 original size:94 final size:94
Alignment explanation
Indices: 30699--31085 Score: 352
Period size: 93 Copynumber: 4.1 Consensus size: 94
30689 CCCAGGCCAC
30699 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGC-GGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
30764 GTGCGGGAGTGCCGCACAGAACCGAGCG-T
65 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* * * * *
30793 TGGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTC-ACCATTGGCAA
1 GGGTGCG-G-GGCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG-CAACC-----CCA
* ** * *
30856 AGCCAGACGGGTGTCTCG-GT-CAC-CATCGGCAAACCCAGA-C-
57 GGCC--ACGGGTG-CGGGAGTGC-CGCA-CAG--AACCGAGAGCT
*
30896 GGGT-----GTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
* *
30956 TGCGGGAGTGCCGCACAGAGCCGAGAGTT
66 TGCGGGAGTGCCGCACAGAACCGAGAGCT
* * **
30985 GGGTGCGGGGCCTCGGTCACCATCGGCAACACCCGAC-GGTGCCTCGGCAACCCCAGTCCATTGG
1 GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
*
31049 TGCGGGAGTGCCGCACAGAACCGAGCGCT
66 TGCGGGAGTGCCGCACAGAACCGAGAGCT
31078 GGGTGCGG
1 GGGTGCGG
31086 CAGCCTCGCA
Statistics
Matches: 233, Mismatches: 31, Indels: 59
0.72 0.10 0.18
Matches are distributed among these distances:
87 6 0.03
88 2 0.01
89 16 0.07
90 3 0.01
91 5 0.02
93 59 0.25
94 59 0.25
95 13 0.06
96 12 0.05
97 27 0.12
100 5 0.02
101 3 0.01
102 12 0.05
103 5 0.02
104 6 0.03
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (94 bp):
GGGTGCGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
TGCGGGAGTGCCGCACAGAACCGAGAGCT
Found at i:39251 original size:32 final size:31
Alignment explanation
Indices: 39212--39297 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 31
39202 GCGTGAGCCC
*
39212 CGGTCACCATCGGCAATCCCAGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGCGGGT-GCCT
* * *
39244 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCA-GCGGGTGCCT
*
39276 CGGTCACCATCGGCAACCCCAG
1 CGGTCACCATCGGCAAACCCAG
39298 GCCATTGGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
32 41 0.89
33 5 0.11
ACGTcount: A:0.21, C:0.37, G:0.27, T:0.15
Consensus pattern (31 bp):
CGGTCACCATCGGCAAACCCAGCGGGTGCCT
Found at i:39440 original size:31 final size:31
Alignment explanation
Indices: 39346--39473 Score: 172
Period size: 31 Copynumber: 4.2 Consensus size: 31
39336 GTGCGTGAGG
* *
39346 CTCGGTCACCATCGGC-AACCCAGGC-GTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGT-GT
39376 CTC-GTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
39407 CTCGGTCACCATCGGCAAACCCAGACGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGTGT
* * *
39438 CTCGGTCACCATCGGCAACCCCCGACGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGTGT
39469 CTCGG
1 CTCGG
39474 CAACCCCAGG
Statistics
Matches: 89, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
29 12 0.13
30 11 0.12
31 42 0.47
32 24 0.27
ACGTcount: A:0.19, C:0.38, G:0.28, T:0.15
Consensus pattern (31 bp):
CTCGGTCACCATCGGCAAACCCAGACGGTGT
Found at i:39596 original size:31 final size:31
Alignment explanation
Indices: 39556--39653 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
39546 CAACCCCCGA
39556 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
* * * ****
39587 CGGGGGCCTCGGTC-ACCATC-GGCAACCCCCG
1 CGGGTGCCTCGG-CAACC-CCAGGCCACGGGTG
39618 ACGGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 -CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
39650 CGGG
1 CGGG
39654 AGTGCCGCAC
Statistics
Matches: 48, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
31 26 0.54
32 22 0.46
ACGTcount: A:0.13, C:0.40, G:0.38, T:0.09
Consensus pattern (31 bp):
CGGGTGCCTCGGCAACCCCAGGCCACGGGTG
Found at i:39618 original size:63 final size:62
Alignment explanation
Indices: 39520--39653 Score: 250
Period size: 63 Copynumber: 2.1 Consensus size: 62
39510 GCCGAGAGTT
*
39520 GGGTGCGGGGTCCTCGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
39582 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTC-GTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
39645 GGGTGCGGG
1 GGGTGCGGG
39654 AGTGCCGCAC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 14 0.20
63 56 0.80
ACGTcount: A:0.13, C:0.40, G:0.37, T:0.10
Consensus pattern (62 bp):
GGGTGCGGGGGCCTCGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:39629 original size:94 final size:92
Alignment explanation
Indices: 39407--39629 Score: 211
Period size: 94 Copynumber: 2.4 Consensus size: 92
39397 AGACGGGTGT
* *
39407 CTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAACCCCCGACGGTGGCT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTC-GTCACCATCGGCAACCCCCGACGGTGCCT
39471 CGGCAACCCCAGGCCACGGGTGCGGGAG
65 CGGCAACCCCAGGCCACGGGTGCGGGAG
* * * * * ***** *
39499 TTCCGGACA-GAGCCG-AGAGTTGGGTGCGGG-GTCCTCGTCACCATCGGCAACCCCCGACGGGT
1 CT-CGGTCACCATCGGCA-AACCCAG-ACGGGTG-CCTCGTCACCATCGGCAACCCCCGAC-GGT
*
39561 GCCTCGGCAACCCCAGGCCACGGGTGCGGGGG
61 GCCTCGGCAACCCCAGGCCACGGGTGCGGGAG
* *
39593 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCG
1 -CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCG
39630 GCAACCCCAG
Statistics
Matches: 96, Mismatches: 25, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
91 1 0.01
92 6 0.06
93 29 0.30
94 52 0.54
95 7 0.07
96 1 0.01
ACGTcount: A:0.16, C:0.38, G:0.34, T:0.13
Consensus pattern (92 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGTCACCATCGGCAACCCCCGACGGTGCCTC
GGCAACCCCAGGCCACGGGTGCGGGAG
Found at i:39704 original size:157 final size:156
Alignment explanation
Indices: 39438--39725 Score: 438
Period size: 157 Copynumber: 1.8 Consensus size: 156
39428 CAGACGGTGT
* *
39438 CTCGGTCACCATCGGCAACCCCCGACGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTTCC
1 CTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
* * *
39503 GGACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGTCACCATCGGCAACCCCCGACGGGT-GCCTCG
66 GCACAGAACCGAGAGTTGGGTGCGGGG-CCTCGTCACCATCGGCAACCCCAGACGGGTGGCCTCG
39567 GCAACCCCAGGCCACGGGTGCGGGGGC
130 GCAACCCCAGGCCACGGGTGCGGGGGC
39594 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
* * *
39659 CGCACAGAACCGAGCGTT-GGTGCGTGAGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCC
65 CGCACAGAACCGAGAGTTGGGTGCG-G-GGCCTC-GTCACCATCGGCAACCCCAGACGGGTGGCC
39722 TCGG
127 TCGG
39726 TCACCATTGG
Statistics
Matches: 119, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
156 35 0.29
157 75 0.63
158 9 0.08
ACGTcount: A:0.16, C:0.36, G:0.36, T:0.12
Consensus pattern (156 bp):
CTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
GCACAGAACCGAGAGTTGGGTGCGGGGCCTCGTCACCATCGGCAACCCCAGACGGGTGGCCTCGG
CAACCCCAGGCCACGGGTGCGGGGGC
Found at i:39762 original size:32 final size:32
Alignment explanation
Indices: 39688--39820 Score: 178
Period size: 32 Copynumber: 4.2 Consensus size: 32
39678 GTGCGTGAGG
* * *
39688 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
* *
39721 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
39753 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
39785 CTCGGTCACCATCGGCAACCCCCGAC-GGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
39816 CTCGG
1 CTCGG
39821 CAACCCCAGG
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 9 0.10
32 55 0.61
33 26 0.29
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:39976 original size:95 final size:94
Alignment explanation
Indices: 39785--39977 Score: 296
Period size: 95 Copynumber: 2.0 Consensus size: 94
39775 AGACGGGTGT
*
39785 CTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
1 CTCGGTCACCATCGGCAACACCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
* * **
39850 GCACAGAGCCGAGAGTTGGGTGCGGGGGC
66 GCACAGAACCGAGAGCTGGGTGCGGCAGC
* **
39879 CTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACACCCGAC-GGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
*
39944 CGCACAGAACCGAGCGCTGGGTGCGGCAGC
65 CGCACAGAACCGAGAGCTGGGTGCGGCAGC
39974 CTCG
1 CTCG
39978 CACAGCGTCG
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
94 25 0.28
95 64 0.72
ACGTcount: A:0.17, C:0.36, G:0.36, T:0.12
Consensus pattern (94 bp):
CTCGGTCACCATCGGCAACACCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGCC
GCACAGAACCGAGAGCTGGGTGCGGCAGC
Done.