Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007561.1 Hibiscus syriacus cultivar Beakdansim tig00021388_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: 42430
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Found at i:670 original size:32 final size:31
Alignment explanation
Indices: 631--717 Score: 104
Period size: 31 Copynumber: 2.7 Consensus size: 31
621 GCGTGAGCCC
631 CGGTCACCATCGGCAATCCCAGGC-GGTGGCCT
1 CGGTCACCATCGGCAA-CCCAGGCGGGT-GCCT
* ** *
663 CGGTCACCATCGGCAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAACCCAGGCGGGTGCCT
694 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAA-CCCAGGC
718 CATTGGTGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 23 0.50
32 23 0.50
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.15
Consensus pattern (31 bp):
CGGTCACCATCGGCAACCCAGGCGGGTGCCT
Found at i:706 original size:63 final size:61
Alignment explanation
Indices: 631--874 Score: 169
Period size: 63 Copynumber: 3.8 Consensus size: 61
621 GCGTGAGCCC
631 CGGTCACCATCGGCAATCCCAGGCGGTGGCCTCGGTCACCATCGGCAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAA-CCCAGGCGGTGGCCTCGGTCACCATCGGCAAACCA-ACGGGTGTCT
** ** * * *
694 CGGTCACCATCGGCAACCCCAGGCCATTGG--T-GAGGGAGC--CGCACAGAACCGAGCGTTGGT
1 CGGTCACCATCGGCAA-CCCAGG-CGGTGGCCTCG-GTCACCATCG-GCA-AACC-AACG--GGT
754 GCGTGAGGCT
58 --GT----CT
764 CGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCT
1 CGGTCACCATCGGCAACCCAGGC-GGTGGCCTCGGTCACCATCGGCAAA-CCA-ACGGGTGTCT
* *
827 CGGTCACCATCGGCAAACCCAGACGG-GTGTCTCGGTCACCATCGGCAA
1 CGGTCACCATCGGC-AACCCAGGCGGTG-GCCTCGGTCACCATCGGCAA
875 CCCCCGACGG
Statistics
Matches: 141, Mismatches: 17, Indels: 46
0.69 0.08 0.23
Matches are distributed among these distances:
60 2 0.01
61 3 0.02
62 11 0.08
63 60 0.43
64 15 0.11
66 2 0.01
67 2 0.01
68 1 0.01
69 12 0.09
70 18 0.13
71 7 0.05
72 6 0.04
73 2 0.01
ACGTcount: A:0.20, C:0.34, G:0.31, T:0.15
Consensus pattern (61 bp):
CGGTCACCATCGGCAACCCAGGCGGTGGCCTCGGTCACCATCGGCAAACCAACGGGTGTCT
Found at i:832 original size:31 final size:32
Alignment explanation
Indices: 762--893 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
752 GTGCGTGAGG
* *
762 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
794 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
825 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
857 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
889 CTCGG
1 CTCGG
894 CAACCCCAGG
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
31 27 0.29
32 58 0.62
33 8 0.09
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:884 original size:63 final size:64
Alignment explanation
Indices: 760--893 Score: 200
Period size: 63 Copynumber: 2.1 Consensus size: 64
750 TGGTGCGTGA
*
760 GGCTCGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGAC-GGT
1 GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
* * * *
823 GTCTCGGTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAACCCCCGACGGGT
1 GGCTCGGTCACCATCGGC-AACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
887 GGCTCGG
1 GGCTCGG
894 CAACCCCAGG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
63 42 0.67
64 21 0.33
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (64 bp):
GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
Found at i:1013 original size:60 final size:62
Alignment explanation
Indices: 938--1068 Score: 239
Period size: 60 Copynumber: 2.1 Consensus size: 62
928 GAGCCGAGTT
*
938 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTC-GCAACCCCA-GCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCAC
998 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCAC
1060 GGGTGCGGG
1 GGGTGCGGG
1069 AGTGCCCGCA
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
60 45 0.66
61 9 0.13
62 14 0.21
ACGTcount: A:0.14, C:0.40, G:0.35, T:0.11
Consensus pattern (62 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCAC
Found at i:1082 original size:153 final size:153
Alignment explanation
Indices: 857--1138 Score: 412
Period size: 153 Copynumber: 1.8 Consensus size: 153
847 AGACGGGTGT
* *
857 CTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGTTC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTCC
* * *
922 CGGACAGAGCCGA-GTTGGGTGCG-G-GGTCCTCGGTCACCATCGGCAACCCCCGACGGT-GCCT
66 CGCACAGAACCGACGTT-GGTGCGTGAGG--CTC-GTCACCATCGGCAACCCCAGACGGTGGCCT
983 CGCAACCCCAGCCACGGGTGCGGGGGC
127 CGCAACCCCAGCCACGGGTGCGGGGGC
1010 CTCGGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTGC
1 CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGT-C
* *
1074 CCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCGTCACCATCGGCAATCCCAGGCGGTGGCCTCG
65 CCGCACAGAACCGA-CGTTGGTGCGTGAGGCTCGTCACCATCGGCAACCCCAGACGGTGGCCTCG
1139 GTCACCATTG
Statistics
Matches: 116, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
152 35 0.30
153 60 0.52
154 15 0.13
155 4 0.03
156 2 0.02
ACGTcount: A:0.16, C:0.37, G:0.35, T:0.12
Consensus pattern (153 bp):
CTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGTCC
CGCACAGAACCGACGTTGGTGCGTGAGGCTCGTCACCATCGGCAACCCCAGACGGTGGCCTCGCA
ACCCCAGCCACGGGTGCGGGGGC
Found at i:1119 original size:93 final size:92
Alignment explanation
Indices: 999--1377 Score: 279
Period size: 93 Copynumber: 4.1 Consensus size: 92
989 CCCAGCCACG
*
999 GGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACGGG
1 GGTGCGTGGG-CTCGGTCACCATC-GCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
1063 TGCGGGAGTGCCCGCACAGAACCGAGCGTT
64 TGCGGGAGTG-CCGCACAGAACCGAGCGTT
* * * * *
1093 GGTGCGTGAGGCTC-GTCACCATCGGCAATCCCAGGC-GGTGGCCTCGGTC-ACCATTGCAAAGC
1 GGTGCGTG-GGCTCGGTCACCATC-GCAACCCCCGACGGGT-GCCTCGG-CAACC----CCAGGC
** * *
1155 CA-GACGGTGTCTCG-GT-CAC-CATCGGCAAACCCAGACG--
58 CACG--GGTG-CGGGAGTGC-CGCA-CAG--AACCGAG-CGTT
1192 GGT--GT---CTCGGTCACCATCGCAACCCCCGACGGGTGCCTCGGCAACCCCA-GCCACGGGTG
1 GGTGCGTGGGCTCGGTCACCATCGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTG
* *
1251 CGGGAGTGCCGCACAGAGCCGAGAGTT
66 CGGGAGTGCCGCACAGAACCGAGCGTT
* * * **
1278 GGTGCGGGGGGCCTCGGTCACCATCGCAACACCCG-CGGGTGCCTCGGCAACCCCAGTCCATTGG
1 GGTGC-GTGGG-CTCGGTCACCATCGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
*
1342 TGCGGGAGTGCCGCACAGAACCGAGCGCTG
64 TGCGGGAGTGCCGCACAGAACCGAGCG-TT
1372 GGTGCG
1 GGTGCG
1378 GCAGCCTCGC
Statistics
Matches: 224, Mismatches: 28, Indels: 67
0.70 0.09 0.21
Matches are distributed among these distances:
84 1 0.00
85 5 0.02
86 5 0.02
87 9 0.04
88 7 0.03
89 4 0.02
92 21 0.09
93 97 0.43
94 38 0.17
95 3 0.01
97 6 0.03
98 9 0.04
99 9 0.04
100 8 0.04
101 2 0.01
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.13
Consensus pattern (92 bp):
GGTGCGTGGGCTCGGTCACCATCGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTG
CGGGAGTGCCGCACAGAACCGAGCGTT
Found at i:1201 original size:32 final size:31
Alignment explanation
Indices: 1107--1232 Score: 139
Period size: 31 Copynumber: 4.0 Consensus size: 31
1097 CGTGAGGCTC
* *
1107 GTCACCATCGGCAATCCCAGGCGGTGGCCTCG
1 GTCACCATCGGCAAACCCAGACGGT-GCCTCG
* * *
1139 GTCACCAT-TGCAAAGCCAGACGGTGTCTCG
1 GTCACCATCGGCAAACCCAGACGGTGCCTCG
*
1169 GTCACCATCGGCAAACCCAGACGGGTGTCTCG
1 GTCACCATCGGCAAACCCAGAC-GGTGCCTCG
* *
1201 GTCACCATC-GCAACCCCCGACGGGTGCCTCG
1 GTCACCATCGGCAAACCCAGAC-GGTGCCTCG
1232 G
1 G
1233 CAACCCCAGC
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
30 13 0.16
31 43 0.52
32 26 0.32
ACGTcount: A:0.19, C:0.37, G:0.29, T:0.16
Consensus pattern (31 bp):
GTCACCATCGGCAAACCCAGACGGTGCCTCG
Found at i:1223 original size:62 final size:63
Alignment explanation
Indices: 1107--1232 Score: 157
Period size: 62 Copynumber: 2.0 Consensus size: 63
1097 CGTGAGGCTC
* * * * *
1107 GTCACCATCGGCAATCCCAGGCGGTGGCCTCGGTCACCATTGCAAAGCCAGAC-GGTGTCTCG
1 GTCACCATCGGCAAACCCAGACGGTGGCCTCGGTCACCATCGCAAACCCAGACGGGTGCCTCG
* * *
1169 GTCACCATCGGCAAACCCAGACGG-GTGTCTCGGTCACCATCGCAACCCCCGACGGGTGCCTCG
1 GTCACCATCGGCAAACCCAGACGGTG-GCCTCGGTCACCATCGCAAACCCAGACGGGTGCCTCG
1232 G
1 G
1233 CAACCCCAGC
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
61 1 0.02
62 44 0.81
63 9 0.17
ACGTcount: A:0.19, C:0.37, G:0.29, T:0.16
Consensus pattern (63 bp):
GTCACCATCGGCAAACCCAGACGGTGGCCTCGGTCACCATCGCAAACCCAGACGGGTGCCTCG
Found at i:9521 original size:33 final size:31
Alignment explanation
Indices: 9482--9567 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
9472 CGTGAGCCCC
*
9482 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCG
1 GTCACCATCGGCAAACCCAGGC-GGT-GCCTCG
* ** *
9515 GTCACCATCGGCAAAACCATACGGTGTCTCG
1 GTCACCATCGGCAAACCCAGGCGGTGCCTCG
*
9546 GTCACCATCGGCAACCCCAGGC
1 GTCACCATCGGCAAACCCAGGC
9568 CATTGGTGAG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 23 0.52
32 3 0.07
33 18 0.41
ACGTcount: A:0.21, C:0.37, G:0.27, T:0.15
Consensus pattern (31 bp):
GTCACCATCGGCAAACCCAGGCGGTGCCTCG
Found at i:9553 original size:64 final size:63
Alignment explanation
Indices: 9482--9726 Score: 164
Period size: 64 Copynumber: 3.7 Consensus size: 63
9472 CGTGAGCCCC
9482 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAACCATACGGTGTCTCG
1 GTCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAACCATACGGTGTCTCG
*** ** * * *
9546 GTCACCATCGGCAACCCCAGGCCATTGG--T-GAGGGA--GTGCCGCACAGAACCGAGCGT-TGG
1 GTCACCATCGGCAA-CCCAGGCGGGTGGCCTCG-GTCACCAT-CGGCA-A-AACC-A---TACGG
9605 TGCGTGAGGCTCG
57 T--GT----CTCG
* *
9618 GTCACCATC-GCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCG
1 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAACCATAC-GGTGTCTCG
* *
9681 GTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAA
1 GTCACCATCGGC-AACCCAGGCGGGTGGCCTCGGTCACCATCGGCAA
9727 CCCCCGACGG
Statistics
Matches: 137, Mismatches: 21, Indels: 46
0.67 0.10 0.23
Matches are distributed among these distances:
60 1 0.01
61 5 0.04
62 4 0.03
63 17 0.12
64 46 0.34
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 7 0.05
72 17 0.12
73 5 0.04
74 1 0.01
ACGTcount: A:0.20, C:0.33, G:0.31, T:0.16
Consensus pattern (63 bp):
GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAAACCATACGGTGTCTCG
Found at i:9686 original size:32 final size:32
Alignment explanation
Indices: 9614--9745 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
9604 GTGCGTGAGG
* *
9614 CTCGGTCACCATC-GC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
9645 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
9677 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
9709 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
9741 CTCGG
1 CTCGG
9746 CAACCCCAGG
Statistics
Matches: 94, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
31 13 0.14
32 69 0.73
33 12 0.13
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:9891 original size:62 final size:63
Alignment explanation
Indices: 9793--9925 Score: 250
Period size: 62 Copynumber: 2.1 Consensus size: 63
9783 CCGAGAGTTT
*
9793 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
9856 GGGTGCGGGGGCCT-GGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
9918 GGGTGCGG
1 GGGTGCGG
9926 AGTGCCGCAC
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 56 0.81
63 13 0.19
ACGTcount: A:0.14, C:0.39, G:0.37, T:0.11
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:9973 original size:93 final size:92
Alignment explanation
Indices: 9857--10237 Score: 297
Period size: 93 Copynumber: 4.1 Consensus size: 92
9847 CCAGGCCACG
*
9857 GGTGCGGGGGC-CTGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
1 GGTGCGTGGGCTC-GGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACGGG
9921 TGC-GGAGTGCCGCACAGAACCGAGCGTT
64 TGCGGGAGTGCCGCACAGAACCGAGCGTT
* * * * *
9949 GGTGCGTGAGGCTCGGTCACCATCGGCAATCCCAGGCGGTGGCCTCGGTC-ACCATTGGCAAAGC
1 GGTGCGTG-GGCTCGGTCACCATCGGCAACCCCCGACGGT-GCCTCGG-CAACC-----CCAGGC
** * *
10013 CAGACGGGTGTCTCG-GT-CAC-CATCGGCAAACCCAGACG--
58 C--ACGGGTG-CGGGAGTGC-CGCA-CAG--AACCGAG-CGTT
10051 GGT--GT---CTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTG
1 GGTGCGTGGGCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTG
* *
10111 CGGGAGTGCCGCACAGAGCCGAGAGTT
66 CGGGAGTGCCGCACAGAACCGAGCGTT
* * * **
10138 GGGTGCGGGGGCCTCGGTCACCATC-GCAACACCCGACGGGTGCCTCGGCAACCCCAGTCC-TTG
1 -GGTGCGTGGG-CTCGGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACGG
*
10201 GTGCGGGAGTGCCGCACAGAACCGAGCGCTG
63 GTGCGGGAGTGCCGCACAGAACCGAGCG-TT
10232 GGTGCG
1 GGTGCG
10238 GCAGCCTCGC
Statistics
Matches: 228, Mismatches: 28, Indels: 65
0.71 0.09 0.20
Matches are distributed among these distances:
85 1 0.00
86 5 0.02
87 2 0.01
88 15 0.07
89 3 0.01
90 6 0.03
92 10 0.04
93 77 0.34
94 38 0.17
95 10 0.04
96 26 0.11
98 5 0.02
100 12 0.05
101 6 0.03
102 4 0.02
103 6 0.03
104 2 0.01
ACGTcount: A:0.17, C:0.34, G:0.35, T:0.13
Consensus pattern (92 bp):
GGTGCGTGGGCTCGGTCACCATCGGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCACGGGTG
CGGGAGTGCCGCACAGAACCGAGCGTT
Found at i:10001 original size:32 final size:32
Alignment explanation
Indices: 9960--10091 Score: 169
Period size: 32 Copynumber: 4.2 Consensus size: 32
9950 GTGCGTGAGG
* *
9960 CTCGGTCACCATCGGCAATCCCAGGC-GGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GC
* * *
9992 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
*
10024 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
* *
10056 CTCGGTCACCATCGGCAACCCCCGAC-GGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGC
10087 CTCGG
1 CTCGG
10092 CAACCCCAGG
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
31 9 0.10
32 77 0.87
33 3 0.03
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGC
Found at i:18399 original size:33 final size:32
Alignment explanation
Indices: 18362--18450 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
18352 GCGTGAGCCC
*
18362 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAAACCCAGGCGGGT-GCCT
* ** *
18395 CGGTCACCATCGGCAAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGGTGCCT
*
18427 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
18451 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:18567 original size:31 final size:32
Alignment explanation
Indices: 18497--18628 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
18487 GTGCGTGAGG
* *
18497 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
18529 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
18560 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
18592 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
18624 CTCGG
1 CTCGG
18629 CAACCCCAGG
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
31 27 0.29
32 58 0.62
33 8 0.09
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.14
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:18596 original size:63 final size:64
Alignment explanation
Indices: 18495--18628 Score: 200
Period size: 63 Copynumber: 2.1 Consensus size: 64
18485 TGGTGCGTGA
*
18495 GGCTCGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGAC-GGT
1 GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
* * * *
18558 GTCTCGGTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAACCCCCGACGGGT
1 GGCTCGGTCACCATCGGC-AACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
18622 GGCTCGG
1 GGCTCGG
18629 CAACCCCAGG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
63 42 0.67
64 21 0.33
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (64 bp):
GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
Found at i:18774 original size:63 final size:63
Alignment explanation
Indices: 18675--18808 Score: 252
Period size: 63 Copynumber: 2.1 Consensus size: 63
18665 GCCGAGAGTT
*
18675 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
18738 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
18801 -GGTGCGGG
1 GGGTGCGGG
18809 AGTGCCGCAC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 8 0.11
63 62 0.89
ACGTcount: A:0.13, C:0.40, G:0.37, T:0.10
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:18785 original size:95 final size:94
Alignment explanation
Indices: 18560--18786 Score: 244
Period size: 95 Copynumber: 2.4 Consensus size: 94
18550 CAGACGGTGT
* *
18560 CTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
18625 TCGGCAACCCCAGGCCACGGGTGCGGGAG
66 TCGGCAACCCCAGGCCACGGGTGCGGGAG
* * * * * ***** *
18654 TTCCGGACA-GAGCCG-AGAGTTGGGTGCGGG-GTCCTCGGTCACCATCGGCAACCCCCGACGGG
1 CT-CGGTCACCATCGGCA-AACCCAG-ACGGGTG-CCTCGGTCACCATCGGCAACCCCCGACGGG
*
18716 TGCCTCGGCAACCCCAGGCCACGGGTGCGGGGG
62 TGCCTCGGCAACCCCAGGCCACGGGTGCGGGAG
* *
18749 CCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
1 -CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGG
18787 CAACCCCAGG
Statistics
Matches: 100, Mismatches: 25, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
93 1 0.01
94 7 0.07
95 84 0.84
96 7 0.07
97 1 0.01
ACGTcount: A:0.16, C:0.37, G:0.35, T:0.12
Consensus pattern (94 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCC
TCGGCAACCCCAGGCCACGGGTGCGGGAG
Found at i:18912 original size:158 final size:158
Alignment explanation
Indices: 18526--18944 Score: 526
Period size: 158 Copynumber: 2.7 Consensus size: 158
18516 CCAGGCGGGT
* * *
18526 GGCCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GGCCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATAGGCAAAGCCAGACGGGT
*
18590 GTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCAACCCCAGGCCACGGGTGCGGGAGT
66 GTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGT
* * *
18655 TCCGGACAGAGCCGAGAGTTGGGTGCGG
131 GCCGCACAGAACCGAGAGTTGGGTGCGG
* * ** * * ***
18683 GGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG-CAACCCCAGGCCACGGGTG-CGG
1 GG-CCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTC-ACCATAGGCAAAGCCAGACGG
* *
18746 GGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC-GGTGCGGGA
64 GTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGA
*
18810 GTGCCGCACAGAACCGAGCGTT-GGTGCGTG
129 GTGCCGCACAGAACCGAGAGTTGGGTGCG-G
* * *
18840 AGG-CTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGG
1 -GGCCTCGGTCACCATCGGCAAACCCAGACGGGT-GCCTCGGTCACCATAGGCAAAGCCAGACGG
* * *
18904 GTGTCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG
64 GTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
18945 TCACCATCGC
Statistics
Matches: 219, Mismatches: 35, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
156 33 0.15
157 46 0.21
158 123 0.56
159 17 0.08
ACGTcount: A:0.17, C:0.35, G:0.34, T:0.13
Consensus pattern (158 bp):
GGCCTCGGTCACCATCGGCAAACCCAGACGGGTGCCTCGGTCACCATAGGCAAAGCCAGACGGGT
GTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGAGT
GCCGCACAGAACCGAGAGTTGGGTGCGG
Found at i:18917 original size:32 final size:32
Alignment explanation
Indices: 18843--18975 Score: 178
Period size: 32 Copynumber: 4.2 Consensus size: 32
18833 GTGCGTGAGG
* * *
18843 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
* *
18876 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
18908 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
18940 CTCGGTCACCATC-GCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
18971 CTCGG
1 CTCGG
18976 CAACCCCAGG
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 20 0.22
32 44 0.49
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:19071 original size:347 final size:347
Alignment explanation
Indices: 18436--19093 Score: 1176
Period size: 347 Copynumber: 1.9 Consensus size: 347
18426 TCGGTCACCA
*
18436 TCGGCAACCCCAGGCCATTGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCATCGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
18501 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGT
66 GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGT
*
18566 CACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGGCTCGGCA
131 CACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCA
* * *
18631 ACCCCAGGCCACGGGTGCGGGAGTTCCGGACAGAGCCGAGAGTTGGGTGCGGGGTCCTCGGTCAC
196 ACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCAC
*
18696 CATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCA
261 CATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCA
18761 TCGGCAACCCCCGACGGGTGCC
326 TCGGCAACCCCCGACGGGTGCC
*
18783 TCGGCAACCCCAGGCCA-CGGTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
1 TCGGCAACCCCAGGCCATCGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
* *
18847 GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATTGGCAAAGCCAGACGGGTGTCTCG
66 GTCACCATCGGCAA-CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCG
18912 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATC-GCAACCCCCGACGGGTGCCTCGG
129 GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGG
18976 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
194 CAACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTC
* **
19041 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGG
259 ACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGG
19094 AGTGCCGCAC
Statistics
Matches: 297, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
346 59 0.20
347 188 0.63
348 50 0.17
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.13
Consensus pattern (347 bp):
TCGGCAACCCCAGGCCATCGGTGAGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGTGAGGCTCG
GTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGTGTCTCGGT
CACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCA
ACCCCAGGCCACGGGTGCGGGAGTGCCGCACAGAGCCGAGAGTTGGGTGCGGGGGCCTCGGTCAC
CATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGGTGCGGGGGCCTCGGTCACCA
TCGGCAACCCCCGACGGGTGCC
Found at i:19102 original size:95 final size:94
Alignment explanation
Indices: 18738--19124 Score: 315
Period size: 95 Copynumber: 4.1 Consensus size: 94
18728 CCCAGGCCAC
*
18738 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC-G
1 GGGTGCGGGGGCCTCGGTCACCATC-GCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
18802 GTGCGGGAGTGCCGCACAGAACCGAGCG-T
65 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* * * * *** *
18831 TGGTGCGTGAGG-CTCGGTCACCATCGGCAATC-CCAGGCGGGTGGCCTCGGTC-ACCATTGGCA
1 GGGTGCG-GGGGCCTCGGTCACCATC-GCAA-CACCCGACGGGT-GCCTCGG-CAACCCCAGGCC
* *** * * * * * *
18893 AAGCCAGACGGGTGT-CTCGGTCAC-CATCGGCA-AACC
61 ACGGGTG-CGGGAGTGC-C-G-CACAGAACCG-AGAGCT
** * * * *
18929 CAG-ACGGGTGTCTCGGTCACCATCGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
1 GGGTGCGGGGGCCTCGGTCACCATCGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
* *
18993 TGCGGGAGTGCCGCACAGAGCCGAGAGTT
66 TGCGGGAGTGCCGCACAGAACCGAGAGCT
* **
19022 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTG
1 GGGTGCGGGGGCCTCGGTCACCATC-GCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
19087 GTGCGGGAGTGCCGCACAGAACCGAGCGCT
65 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
19117 GGGTGCGG
1 GGGTGCGG
19125 CAGCCTCGCA
Statistics
Matches: 222, Mismatches: 53, Indels: 36
0.71 0.17 0.12
Matches are distributed among these distances:
92 4 0.02
93 38 0.17
94 44 0.20
95 91 0.41
96 21 0.09
97 19 0.09
98 5 0.02
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (94 bp):
GGGTGCGGGGGCCTCGGTCACCATCGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGGG
TGCGGGAGTGCCGCACAGAACCGAGAGCT
Found at i:27326 original size:33 final size:31
Alignment explanation
Indices: 27289--27376 Score: 113
Period size: 31 Copynumber: 2.7 Consensus size: 31
27279 GCGTGAGCCC
27289 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCT
1 CGGTCACCATCGGCAA-CCCAGGCGGGT-GCCT
* ** *
27322 CGGTCACCATCGGCAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAACCCAGGCGGGTGCCT
27353 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAA-CCCAGGC
27377 CATTGGTGAG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
31 19 0.40
32 12 0.26
33 16 0.34
ACGTcount: A:0.19, C:0.38, G:0.28, T:0.15
Consensus pattern (31 bp):
CGGTCACCATCGGCAACCCAGGCGGGTGCCT
Found at i:27365 original size:64 final size:61
Alignment explanation
Indices: 27289--27534 Score: 180
Period size: 64 Copynumber: 3.8 Consensus size: 61
27279 GCGTGAGCCC
27289 CGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCATACGGGTGTCT
1 CGGTCACCATCGGCAA-CCCAGGCGGGT-GCCTCGGTCACCATCGGCAAACCA-ACGGGTGTCT
* *** * *
27353 CGGTCACCATCGGCAACCCCAGGCCATTGGTG-AGGGAGTGC-CGCA-CAG--AACCGAGCGTTG
1 CGGTCACCATCGGCAA-CCCAGG-C--GGGTGCCTCG-GT-CAC-CATCGGCAAACC-AACG--G
27413 GTGCGTGAGGCT
56 GT--GT----CT
27425 CGGTCACCATC-GCAACCCAGGCGGGTGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCT
1 CGGTCACCATCGGCAACCCAGGCGGGTGCCTCGGTCACCATCGGCAAA-CCA-ACGGGTGTCT
* *
27487 CGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAA
1 CGGTCACCATCGGC-AACCCAGGCGGGTGCCTCGGTCACCATCGGCAA
27535 CCCCCGACGG
Statistics
Matches: 143, Mismatches: 15, Indels: 48
0.69 0.07 0.23
Matches are distributed among these distances:
62 13 0.09
63 2 0.01
64 59 0.41
65 3 0.02
66 14 0.10
67 15 0.10
68 6 0.04
69 4 0.03
70 10 0.07
71 4 0.03
72 13 0.09
ACGTcount: A:0.20, C:0.34, G:0.31, T:0.15
Consensus pattern (61 bp):
CGGTCACCATCGGCAACCCAGGCGGGTGCCTCGGTCACCATCGGCAAACCAACGGGTGTCT
Found at i:27482 original size:32 final size:32
Alignment explanation
Indices: 27423--27553 Score: 203
Period size: 32 Copynumber: 4.2 Consensus size: 32
27413 GTGCGTGAGG
* *
27423 CTCGGTCACCATC-GC-AACCCAGGCGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
27453 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
27485 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
27517 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
27549 CTCGG
1 CTCGG
27554 CAACCCCAGG
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 13 0.14
31 2 0.02
32 79 0.84
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.15
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:27724 original size:61 final size:63
Alignment explanation
Indices: 27600--27732 Score: 243
Period size: 61 Copynumber: 2.1 Consensus size: 63
27590 GCCGAGAGTT
*
27600 GGGTGCGGGGTCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
27663 GGGTGCGGGGGCCTCGGTCACCATC-GCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCAC
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
27724 GGGTGCGGG
1 GGGTGCGGG
27733 AGTGCCGCAC
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
61 33 0.48
62 12 0.17
63 24 0.35
ACGTcount: A:0.14, C:0.40, G:0.36, T:0.11
Consensus pattern (63 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCAC
Found at i:27808 original size:32 final size:32
Alignment explanation
Indices: 27767--27899 Score: 178
Period size: 32 Copynumber: 4.2 Consensus size: 32
27757 GTGCGTGAGG
* * *
27767 CTCGGTCACCATCGGCAATCCCAGGC-GGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
* *
27799 CTCGGTCACCATTGGCAAAGCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
27831 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
27863 CTCGGTCACCATCGGCAACCCCCGACGGGTGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
27895 CTCGG
1 CTCGG
27900 CAACCCCAGG
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
32 87 0.97
33 3 0.03
ACGTcount: A:0.18, C:0.36, G:0.30, T:0.16
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:28025 original size:94 final size:95
Alignment explanation
Indices: 27663--28047 Score: 317
Period size: 94 Copynumber: 4.1 Consensus size: 95
27653 CCCAGGCCAC
*
27663 GGGTGCGGGGGCCTCGGTCACCATC-GCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
27726 GTGCGGGAGTGCCGCACAGAACCGAGCG-T
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* * * * *** *
27755 TGGTGCGTGAGG-CTCGGTCACCATCGGCAA-TCCC-AGGCGGTGGCCTCGGTC-ACCATTGGCA
1 GGGTGCG-GGGGCCTCGGTCACCATCGGCAACACCCGACG-GGT-GCCTCGG-CAACCCCAGGCC
* *** * * * * * *
27816 AAGCCAGACGGGTGT-CTCGGTCAC-CATCGGCA-AACC
62 ACGGGTG-CGGGAGTGC-C-G-CACAGAACCG-AGAGCT
** * * * *
27852 CAG-ACGGGTGTCTCGGTCACCATCGGCAACCCCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
* *
27916 GTGCGGGAGTGCCGCACAGAGCCGAGAGTT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
* **
27946 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGAC-GGTGCCTCGGCAACCCCAGTCCATTG
1 GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
*
28010 GTGCGGGAGTGCCGCACAGAACCGAGCGCT
66 GTGCGGGAGTGCCGCACAGAACCGAGAGCT
28040 GGGTGCGG
1 GGGTGCGG
28048 CAGCCTCGCA
Statistics
Matches: 220, Mismatches: 53, Indels: 38
0.71 0.17 0.12
Matches are distributed among these distances:
91 1 0.00
92 22 0.10
93 14 0.06
94 81 0.37
95 48 0.22
96 41 0.19
97 11 0.05
98 2 0.01
ACGTcount: A:0.17, C:0.34, G:0.36, T:0.13
Consensus pattern (95 bp):
GGGTGCGGGGGCCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCACGG
GTGCGGGAGTGCCGCACAGAACCGAGAGCT
Found at i:36206 original size:30 final size:31
Alignment explanation
Indices: 36170--36253 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 31
36160 GCGTGAGCCC
*
36170 CGGTCACCATCGGCAATCCCAGGCGG-GCCT
1 CGGTCACCATCGGCAAACCCAGGCGGTGCCT
* ** *
36200 CGGTCACCATC-GCAAAACCATACGGTGTCT
1 CGGTCACCATCGGCAAACCCAGGCGGTGCCT
*
36230 CGGTCACCATCGGCAACCCCAGGC
1 CGGTCACCATCGGCAAACCCAGGC
36254 CATTGGTGAG
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
29 10 0.23
30 25 0.58
31 8 0.19
ACGTcount: A:0.21, C:0.39, G:0.25, T:0.14
Consensus pattern (31 bp):
CGGTCACCATCGGCAAACCCAGGCGGTGCCT
Found at i:36370 original size:31 final size:32
Alignment explanation
Indices: 36300--36430 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
36290 GTGCGTGAGG
* *
36300 CTCGGTCACCATCGGC-AACCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGT-GT
36332 CTCGGTCACCATC-GCAAACCCAGACGGGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
36363 CTCGGTCACCATCGGCAAACCCAGAC-GGTGT
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
* * *
36394 CTCGGTCACCATCGGCAACCCCCGACGGGTGG
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGT
36426 CTCGG
1 CTCGG
36431 CAACCCCAGG
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
31 45 0.49
32 46 0.51
ACGTcount: A:0.18, C:0.37, G:0.30, T:0.15
Consensus pattern (32 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGT
Found at i:36421 original size:63 final size:63
Alignment explanation
Indices: 36298--36430 Score: 189
Period size: 63 Copynumber: 2.1 Consensus size: 63
36288 TGGTGCGTGA
*
36298 GGCTCGGTCACCATCGGCAACCCAGGCGGGTGGCCTCGGTCACCATCGCAAACCCAGACGGGT
1 GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGCAAACCCAGACGGGT
* * * *
36361 GTCTCGGTCACCATCGGCAAACCCAGAC-GGT-GTCTCGGTCACCATCGGCAACCCCCGACGGGT
1 GGCTCGGTCACCATCGGC-AACCCAGACGGGTGGCCTCGGTCACCATC-GCAAACCCAGACGGGT
36424 GGCTCGG
1 GGCTCGG
36431 CAACCCCAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 14 0.23
63 40 0.65
64 8 0.13
ACGTcount: A:0.18, C:0.37, G:0.31, T:0.14
Consensus pattern (63 bp):
GGCTCGGTCACCATCGGCAACCCAGACGGGTGGCCTCGGTCACCATCGCAAACCCAGACGGGT
Found at i:36551 original size:59 final size:59
Alignment explanation
Indices: 36478--36603 Score: 227
Period size: 59 Copynumber: 2.1 Consensus size: 59
36468 CCGAGAGTTG
*
36478 GGTGCGGGTCCTCGGTCACCATCGCAACCCCCGACGGGTGCCTCGGCAACCCCA-GCCAC
1 GGTGCGGGGCCTCGGTCACCATCGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCAC
36537 GGTGCGGGGCCTCGGTCACCATCGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCAC
1 GGTGCGGGGCCTCGGTCACCATCGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCAC
36596 GGTGCGGG
1 GGTGCGGG
36604 AGTGCCGCAC
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
58 18 0.28
59 47 0.72
ACGTcount: A:0.14, C:0.42, G:0.33, T:0.11
Consensus pattern (59 bp):
GGTGCGGGGCCTCGGTCACCATCGCAACCCCCGACGGTGCCTCGGCAACCCCAGGCCAC
Found at i:36725 original size:38 final size:33
Alignment explanation
Indices: 36638--36743 Score: 92
Period size: 32 Copynumber: 3.2 Consensus size: 33
36628 GTGCGTGAGG
* *
36638 CTCGGTCACCATCGGCAATCCCAGGCGGGTGGC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGGC
* *
36671 CTC-GTCACCATTGGCAAAGCCAGACGGGTGGTCACCC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGG-----C
* *
36708 CTCGGTCACCATCGGCAACCCCCGAC-GGT-GC
1 CTCGGTCACCATCGGCAAACCCAGACGGGTGGC
36739 CTCGG
1 CTCGG
36744 CAACCCCAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
31 6 0.10
32 24 0.41
33 3 0.05
36 1 0.02
37 7 0.12
38 18 0.31
ACGTcount: A:0.17, C:0.39, G:0.29, T:0.15
Consensus pattern (33 bp):
CTCGGTCACCATCGGCAAACCCAGACGGGTGGC
Found at i:36814 original size:92 final size:94
Alignment explanation
Indices: 36707--36890 Score: 300
Period size: 94 Copynumber: 2.0 Consensus size: 94
36697 GGTGGTCACC
*
36707 CCTCGGTCACCATCGGCAACCCCCGAC-GGTGCCTCGGCAACCCCAGGCCA-CGGTGCGGGAGTG
1 CCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCATCGGTGCGGGAGTG
* *
36770 CCGCACAGAGCCGAGAGTTGGGTGCGGGG
66 CCGCACAGAACCGAGAGCTGGGTGCGGGG
* *
36799 CCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGTCCATTGGTGCGGGAGTG
1 CCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCATCGGTGCGGGAGTG
*
36864 CCGCACAGAACCGAGCGCTGGGTGCGG
66 CCGCACAGAACCGAGAGCTGGGTGCGG
36891 CAGCCTCGCA
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 26 0.31
93 22 0.26
94 36 0.43
ACGTcount: A:0.17, C:0.36, G:0.35, T:0.12
Consensus pattern (94 bp):
CCTCGGTCACCATCGGCAACACCCGACGGGTGCCTCGGCAACCCCAGGCCATCGGTGCGGGAGTG
CCGCACAGAACCGAGAGCTGGGTGCGGGG
Done.