Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007606.1 Hibiscus syriacus cultivar Beakdansim tig00022350_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: 42291
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Found at i:2745 original size:90 final size:94
Alignment explanation
Indices: 2565--2745 Score: 262
Period size: 90 Copynumber: 2.0 Consensus size: 94
2555 TGCGAGGCTG
* *
2565 CCGCACCCAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGCTCTGTGCGGCAC-CCCGCACCAATGGACTGGGGTTGCCGAGGCACCC
*
2630 GTCGGGTGTTGCCGATGGTGACCGAGGCCC
65 GTCGGGGGTTGCCGATGGTGACCGAGGCCC
* ** *
2660 CCGCACCCAACTCTCGGCTCTGTGCGGCA-CCC-CACCCGTGGCCT-GGGTTGCCG-GGCACCCG
1 CCGCACCCAACGCTCGGCTCTGTGCGGCACCCCGCACCAATGGACTGGGGTTGCCGAGGCACCCG
2721 TCGGGGGTTGCCGATGGTGACCGAG
66 TCGGGGGTTGCCGATGGTGACCGAG
2746 ACACCCGTCT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
90 32 0.41
91 9 0.11
92 9 0.11
93 3 0.04
95 26 0.33
ACGTcount: A:0.12, C:0.37, G:0.35, T:0.17
Consensus pattern (94 bp):
CCGCACCCAACGCTCGGCTCTGTGCGGCACCCCGCACCAATGGACTGGGGTTGCCGAGGCACCCG
TCGGGGGTTGCCGATGGTGACCGAGGCCC
Found at i:2764 original size:32 final size:32
Alignment explanation
Indices: 2715--2841 Score: 159
Period size: 32 Copynumber: 4.0 Consensus size: 32
2705 GGTTGCCGGG
* *
2715 CACCCGTCGGGGGTTGCCGATGGTGACCGAGA
1 CACCCGTCTGGGTTTGCCGATGGTGACCGAGA
2747 CACCCGTCTGGGTTTGCCGATGGTGACCGAGA
1 CACCCGTCTGGGTTTGCCGATGGTGACCGAGA
* * *
2779 CACCCGTCTGGCTTTGCCAAT-GTGACCGAGGC
1 CACCCGTCTGGGTTTGCCGATGGTGACCGA-GA
* *
2811 CACCCCGCCT-GGATTGCCGATGGTGACCGAG
1 CA-CCCGTCTGGGTTTGCCGATGGTGACCGAG
2842 CCTCACGCAC
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
31 8 0.10
32 61 0.73
33 14 0.17
ACGTcount: A:0.16, C:0.31, G:0.34, T:0.19
Consensus pattern (32 bp):
CACCCGTCTGGGTTTGCCGATGGTGACCGAGA
Found at i:2935 original size:31 final size:31
Alignment explanation
Indices: 2900--3002 Score: 95
Period size: 31 Copynumber: 3.4 Consensus size: 31
2890 CCTGGGGTTG
2900 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
* *** * * **
2931 CCGAGGCCCCCG-CACCCGTGGCCTG-GGGTTT
1 CCGAGGCACCCGTC-GGGGTTGCC-GATGGTGA
2962 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
2993 CCGAGG-ACCC
1 CCGAGGCACCC
3003 CGCACCCAAC
Statistics
Matches: 52, Mismatches: 16, Indels: 9
0.68 0.21 0.12
Matches are distributed among these distances:
30 6 0.12
31 44 0.85
32 2 0.04
ACGTcount: A:0.12, C:0.35, G:0.39, T:0.15
Consensus pattern (31 bp):
CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
Found at i:2953 original size:62 final size:62
Alignment explanation
Indices: 2877--3009 Score: 248
Period size: 62 Copynumber: 2.1 Consensus size: 62
2867 GTGCGGCACT
*
2877 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
*
2939 CCCGCACCCGTGGCCTGGGGTTTCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
3001 CCCGCACCC
1 CCCGCACCC
3010 AACTCTCGGC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 69 1.00
ACGTcount: A:0.11, C:0.38, G:0.38, T:0.14
Consensus pattern (62 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
Found at i:3122 original size:156 final size:156
Alignment explanation
Indices: 2741--3157 Score: 481
Period size: 156 Copynumber: 2.6 Consensus size: 156
2731 CCGATGGTGA
* *
2741 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGACACCCGTCTGGCTTTGCCAAT-GTGAC
1 CCGAGACACCCGTC-GGGGTTGCCGATGGTGACCGAGACCCCCGTCTGG-TTTGCC-ATGGTGAC
* *
2805 CGAGGCCACCCCGCCTGGATTGCCGATGGTGACCGA-GCCTCACGCACCAACGCTCGGTTTCTGT
63 CGAGG-CA-CCCGTCTGGATTGCCGATGGTGACCGAGGCCTCACGCACCAACGCTCGGTCTCTGT
* *
2869 GCGGCACTCCCGCACCCGTGGCCTGGGGTTG
126 CCGGAACTCCCGCACCCGTGGCCTGGGGTTG
* * * ** * **
2900 CCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGCCCCCGCACCCG-TGGCC-TGGGGTTTC
1 CCGAGACACCCGTCGGGGTTGCCGATGGTGACCGAGACCCCCG-TCTGGTTTGCCAT--GGTGAC
* * *
2963 CGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAACTCTCGG-CTCTGT
63 CGAGGCACCCGTCTGGATTGCCGATGGTGACCGAGG-CCTCACGCA-CCAACGCTCGGTCTCTGT
3025 CCGGAACTCCCGCACCCGTGGCCTGGGGTTG
126 CCGGAACTCCCGCACCCGTGGCCTGGGGTTG
*
3056 CCGAGCCACCCGTCGGGGTT-CCGATGGTGACCGAGACCCCCGTCTGGTTTGCCGATGGTGACCC
1 CCGAGACACCCGTCGGGGTTGCCGATGGTGACCGAGACCCCCGTCTGGTTTGCC-ATGGTGA-CC
* *
3120 GAGACACCCGTCTTGGTTTGCCGATGGTGACCGAGGCC
64 GAGGCACCCGTC-TGGATTGCCGATGGTGACCGAGGCC
3158 ACCCGCCTGG
Statistics
Matches: 218, Mismatches: 28, Indels: 27
0.80 0.10 0.10
Matches are distributed among these distances:
154 2 0.01
155 29 0.13
156 96 0.44
157 40 0.18
158 36 0.17
159 15 0.07
ACGTcount: A:0.13, C:0.35, G:0.33, T:0.18
Consensus pattern (156 bp):
CCGAGACACCCGTCGGGGTTGCCGATGGTGACCGAGACCCCCGTCTGGTTTGCCATGGTGACCGA
GGCACCCGTCTGGATTGCCGATGGTGACCGAGGCCTCACGCACCAACGCTCGGTCTCTGTCCGGA
ACTCCCGCACCCGTGGCCTGGGGTTG
Found at i:3142 original size:33 final size:31
Alignment explanation
Indices: 3056--3185 Score: 165
Period size: 31 Copynumber: 4.2 Consensus size: 31
3046 CCTGGGGTTG
* * *
3056 CCGAGCCACCCGTCGGGGTT-CCGATGGTGA
1 CCGAGACACCCGTCTGGTTTGCCGATGGTGA
*
3086 CCGAGACCCCCGTCTGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGTTTGCCGATGGTGA
3117 CCCGAGACACCCGTCTTGGTTTGCCGATGGTGA
1 -CCGAGACACCCGTC-TGGTTTGCCGATGGTGA
* *
3150 CCGAGGCCACCCGCCTGG-TTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGTTTGCCGATGGTGA
3181 CCGAG
1 CCGAG
3186 CCTCACGCAC
Statistics
Matches: 89, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
30 17 0.19
31 27 0.30
32 20 0.22
33 25 0.28
ACGTcount: A:0.14, C:0.33, G:0.34, T:0.19
Consensus pattern (31 bp):
CCGAGACACCCGTCTGGTTTGCCGATGGTGA
Found at i:3308 original size:32 final size:31
Alignment explanation
Indices: 3241--3319 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 31
3231 GGCCTGGGGT
* *
3241 TTGCCGATGGTGACCGAGACACCCTATGGTT
1 TTGCCGATGGTGACCGAGACACCCCATGGTA
* *
3272 TTGCCGATGGTGACCGAGGCCACCCGCCTGG-A
1 TTGCCGATGGTGACCGA-GACACCC-CATGGTA
3304 TTGCCGATGGTGACCG
1 TTGCCGATGGTGACCG
3320 GGCTCACGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 17 0.40
32 22 0.52
33 3 0.07
ACGTcount: A:0.16, C:0.29, G:0.33, T:0.22
Consensus pattern (31 bp):
TTGCCGATGGTGACCGAGACACCCCATGGTA
Found at i:11579 original size:95 final size:94
Alignment explanation
Indices: 11416--11802 Score: 379
Period size: 95 Copynumber: 4.1 Consensus size: 94
11406 GTGCGAGCTG
* ** *
11416 CCGCACCCAGCGCTCGGTTCTGTGCGGCACTCCCGCACCAATGGACTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
11481 GTCGGGTGTTGCCGATGGTGACCGAGGCCC
66 GTCGGG-GTTGCCGATGGTGACCGAGGCCC
* *
11511 CCGCACCCAACTCTCGGCTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
* *
11576 GTCGGGGTTGCCGATGGTGACCGAGACAC
66 GTCGGGGTTGCCGATGGTGACCGAGGCCC
******* * ** ** * *** * * ***
11605 CCGTCTGGGTTTGC-CGATGGTGACCGAG-ACACCCGTCTGGCTTTGCCAATGG-TGACCGAGGC
1 CCG-CACCCAACGCTCGGTTCTGTGCG-GCACTCCCG-CACCCGTGGCCTGGGGTTG-CCGAGG-
* *
11667 CACCCGCCTGGGATTGCCGATGGTGACCGA-GCCTC
61 CACCCGTC-GGGGTTGCCGATGGTGACCGAGGCC-C
*
11702 ACGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
1 CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
11766 GTCGGGGTTGCCGATGGTGACCGAGGCCC
66 GTCGGGGTTGCCGATGGTGACCGAGGCCC
11795 CCGCACCC
1 CCGCACCC
11803 GTGGCCTGGG
Statistics
Matches: 221, Mismatches: 59, Indels: 25
0.72 0.19 0.08
Matches are distributed among these distances:
93 25 0.11
94 50 0.23
95 99 0.45
96 24 0.11
97 23 0.10
ACGTcount: A:0.13, C:0.36, G:0.34, T:0.17
Consensus pattern (94 bp):
CCGCACCCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCC
GTCGGGGTTGCCGATGGTGACCGAGGCCC
Found at i:11624 original size:32 final size:32
Alignment explanation
Indices: 11565--11697 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
11555 CCTGGGGTTG
* *
11565 CCGAGGCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
11596 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
11628 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
11660 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
11693 CCGAG
1 CCGAG
11698 CCTCACGCAC
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
31 13 0.14
32 51 0.56
33 27 0.30
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:11685 original size:65 final size:63
Alignment explanation
Indices: 11565--11697 Score: 185
Period size: 65 Copynumber: 2.1 Consensus size: 63
11555 CCTGGGGTTG
* * * * *
11565 CCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGACACCCGCCTGGGATTGCCGATGGTGA
* *
11628 CCGAGACACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGAGACACCCGTC-GGCGTTGCCAATGGTGACCGA-GACACCCGCCTGGGATTGCCGATGGTGA
11693 CCGAG
1 CCGAG
11698 CCTCACGCAC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 13 0.21
64 18 0.30
65 30 0.49
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (63 bp):
CCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGACACCCGCCTGGGATTGCCGATGGTGA
Found at i:11790 original size:31 final size:31
Alignment explanation
Indices: 11755--11857 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 31
11745 CCTGGGGTTG
11755 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
* *** * *
11786 CCGAGGCCCCCG-CACCCGTGGCCTG-GGGTTG-
1 CCGAGGCACCCGTC-GGGGTTGCC-GATGG-TGA
11817 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
11848 CCGAGG-ACCC
1 CCGAGGCACCC
11858 CGCACCCAAC
Statistics
Matches: 54, Mismatches: 12, Indels: 13
0.68 0.15 0.16
Matches are distributed among these distances:
30 8 0.15
31 42 0.78
32 4 0.07
ACGTcount: A:0.12, C:0.35, G:0.40, T:0.14
Consensus pattern (31 bp):
CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
Found at i:11808 original size:62 final size:62
Alignment explanation
Indices: 11732--11864 Score: 257
Period size: 62 Copynumber: 2.1 Consensus size: 62
11722 GTGCGGCACT
*
11732 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
11794 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
11856 CCCGCACCC
1 CCCGCACCC
11865 AACTCTCGGC
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:0.11, C:0.38, G:0.38, T:0.14
Consensus pattern (62 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
Found at i:11889 original size:156 final size:157
Alignment explanation
Indices: 11660--11946 Score: 456
Period size: 156 Copynumber: 1.8 Consensus size: 157
11650 CCAATGGTGA
* *
11660 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCTGTG
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
* *
11725 CGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGA
66 CGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATGGTGACCGA
11790 GGCCCCCGCACCCGTGGCCTGGGGTTG
131 GGCCCCCGCACCCGTGGCCTGGGGTTG
* * *
11817 CCGAGG-CACCCGTC-GGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAACTCTCGGCTCT
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGA-G-CCTCACGCA-CCAACGCTCGGCTCT
11878 GTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATGGTGAC
63 GTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATGGTGAC
11943 CGAG
128 CGAG
11947 ACACCCGTCT
Statistics
Matches: 120, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
155 24 0.20
156 88 0.73
157 8 0.07
ACGTcount: A:0.12, C:0.37, G:0.35, T:0.16
Consensus pattern (157 bp):
CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
CGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGTTGCCGATGGTGACCGA
GGCCCCCGCACCCGTGGCCTGGGGTTG
Found at i:11970 original size:32 final size:32
Alignment explanation
Indices: 11911--12042 Score: 205
Period size: 32 Copynumber: 4.2 Consensus size: 32
11901 CCTGGGGTTG
* *
11911 CCGAGCCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
11942 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
11974 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
12006 CCGAGGCCACCCGCCTGGG-TTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
12038 CCGAG
1 CCGAG
12043 CCTCACGCAC
Statistics
Matches: 95, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
31 14 0.15
32 69 0.73
33 12 0.13
ACGTcount: A:0.14, C:0.31, G:0.36, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:12166 original size:33 final size:32
Alignment explanation
Indices: 12089--12177 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
12079 CTCACCAATG
*
12089 GCCTGGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGATTGCCGATGGTGACCGAGACACCC
** ** *
12121 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGGGATTGCCGATGGTGACCGA-GACACCC
12154 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGGATTGCCGATGGTGACCG
12178 GGGCTCACGC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 21 0.45
33 26 0.55
ACGTcount: A:0.15, C:0.28, G:0.37, T:0.20
Consensus pattern (32 bp):
GCCTGGGATTGCCGATGGTGACCGAGACACCC
Found at i:20516 original size:32 final size:32
Alignment explanation
Indices: 20457--20589 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
20447 CCTGGGGTTG
* *
20457 CCGAGGCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
20488 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
20520 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
20552 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
20585 CCGAG
1 CCGAG
20590 CCTCACGCAC
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
31 13 0.14
32 51 0.56
33 27 0.30
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:20577 original size:65 final size:63
Alignment explanation
Indices: 20457--20589 Score: 185
Period size: 65 Copynumber: 2.1 Consensus size: 63
20447 CCTGGGGTTG
* * * * *
20457 CCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGACACCCGCCTGGGATTGCCGATGGTGA
* *
20520 CCGAGACACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGAGACACCCGTC-GGCGTTGCCAATGGTGACCGA-GACACCCGCCTGGGATTGCCGATGGTGA
20585 CCGAG
1 CCGAG
20590 CCTCACGCAC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 13 0.21
64 18 0.30
65 30 0.49
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (63 bp):
CCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGACACCCGCCTGGGATTGCCGATGGTGA
Found at i:20682 original size:31 final size:31
Alignment explanation
Indices: 20647--20748 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 31
20637 CCTGGGGTTG
20647 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
* *** *
20678 CCGAGGCCCCCG-CACCCG-TGCCTG-GGGTTG-
1 CCGAGGCACCCGTC-GGGGTTGCC-GATGG-TGA
20708 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
20739 CCGAGG-ACCC
1 CCGAGGCACCC
20749 CGCACCCAAC
Statistics
Matches: 54, Mismatches: 10, Indels: 15
0.68 0.13 0.19
Matches are distributed among these distances:
30 26 0.48
31 28 0.52
ACGTcount: A:0.12, C:0.35, G:0.39, T:0.14
Consensus pattern (31 bp):
CCGAGGCACCCGTCGGGGTTGCCGATGGTGA
Found at i:20720 original size:61 final size:62
Alignment explanation
Indices: 20624--20755 Score: 248
Period size: 61 Copynumber: 2.1 Consensus size: 62
20614 GTGCGGCACT
*
20624 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
20686 CCCGCACCCGT-GCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
20747 CCCGCACCC
1 CCCGCACCC
20756 AACTCTCGGC
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 58 0.84
62 11 0.16
ACGTcount: A:0.11, C:0.38, G:0.38, T:0.14
Consensus pattern (62 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGGAC
Found at i:20780 original size:155 final size:155
Alignment explanation
Indices: 20552--20836 Score: 443
Period size: 155 Copynumber: 1.8 Consensus size: 155
20542 CCAATGGTGA
* *
20552 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCTGTG
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
* *
20617 CGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGA
66 CGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTC-GGGTTGCCGATGGTGACCGA
20682 GGCCCCCGCACCCGTGCCTGGGGTTG
130 GGCCCCCGCACCCGTGCCTGGGGTTG
* * *
20708 CCGAGG-CACCCGTC-GGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAACTCTCGGCTCT
1 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGA-G-CCTCACGCA-CCAACGCTCGGCTCT
20769 GTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGTTGCCGATGGTGACC
63 GTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGTTGCCGATGGTGACC
20834 GAG
128 GAG
20837 ACACCCGTCT
Statistics
Matches: 119, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
154 45 0.38
155 66 0.55
156 8 0.07
ACGTcount: A:0.12, C:0.37, G:0.35, T:0.16
Consensus pattern (155 bp):
CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
CGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGTTGCCGATGGTGACCGAG
GCCCCCGCACCCGTGCCTGGGGTTG
Found at i:20860 original size:32 final size:31
Alignment explanation
Indices: 20802--20932 Score: 201
Period size: 32 Copynumber: 4.2 Consensus size: 31
20792 CCTGGGGTTG
*
20802 CCGAGCCACCCGTC-GGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTGCCGATGGTGA
20832 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGG-TTGCCGATGGTGA
20864 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGG-TTGCCGATGGTGA
* *
20896 CCGAGGCCACCCGCCTGGGTTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTGCCGATGGTGA
20928 CCGAG
1 CCGAG
20933 CCTCACGCAC
Statistics
Matches: 95, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
30 13 0.14
31 4 0.04
32 66 0.69
33 12 0.13
ACGTcount: A:0.15, C:0.31, G:0.36, T:0.18
Consensus pattern (31 bp):
CCGAGACACCCGTCTGGGTTGCCGATGGTGA
Found at i:21062 original size:34 final size:32
Alignment explanation
Indices: 20979--21068 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 32
20969 CTCACCAATG
*
20979 GCCTGGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGATTGCCGATGGTGACCGAGACACCC
** ** *
21011 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGGGATTGCCGATGGTGACCGA-GACACCC
21044 GCCCTGGGATTGCCGATGGTGACCG
1 G-CCTGGGATTGCCGATGGTGACCG
21069 GGCTCACGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
32 21 0.45
33 7 0.15
34 19 0.40
ACGTcount: A:0.14, C:0.29, G:0.37, T:0.20
Consensus pattern (32 bp):
GCCTGGGATTGCCGATGGTGACCGAGACACCC
Found at i:21085 original size:34 final size:34
Alignment explanation
Indices: 20981--21085 Score: 99
Period size: 34 Copynumber: 3.1 Consensus size: 34
20971 CACCAATGGC
* * **
20981 CTGGGGTTGCCGATGGTGACCGA-GACACCCGTA
1 CTGGGATTGCCGATGGTGACCGAGGCCACCCACA
** * *
21014 -TGGTTTTGCCGATGGTGACCGAGGCCACCCGCC
1 CTGGGATTGCCGATGGTGACCGAGGCCACCCACA
*
21047 CTGGGATTGCCGATGGTGACCG-GGCTCACGCACA
1 CTGGGATTGCCGATGGTGACCGAGGC-CACCCACA
21081 CTGGG
1 CTGGG
21086 GCCTGATGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
32 20 0.34
33 10 0.17
34 29 0.49
ACGTcount: A:0.15, C:0.30, G:0.36, T:0.19
Consensus pattern (34 bp):
CTGGGATTGCCGATGGTGACCGAGGCCACCCACA
Found at i:29439 original size:32 final size:32
Alignment explanation
Indices: 29380--29512 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
29370 CCTGGGGTTG
* *
29380 CCGAGGCACCCGTC-GGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
29411 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
29443 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
29475 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
29508 CCGAG
1 CCGAG
29513 CCTCACGCAC
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
31 13 0.14
32 51 0.56
33 27 0.30
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:29500 original size:65 final size:63
Alignment explanation
Indices: 29380--29512 Score: 185
Period size: 65 Copynumber: 2.1 Consensus size: 63
29370 CCTGGGGTTG
* * * * *
29380 CCGAGGCACCCGTCGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGACACCCGCCTGGGATTGCCGATGGTGA
* *
29443 CCGAGACACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGAGACACCCGTC-GGCGTTGCCAATGGTGACCGA-GACACCCGCCTGGGATTGCCGATGGTGA
29508 CCGAG
1 CCGAG
29513 CCTCACGCAC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 13 0.21
64 18 0.30
65 30 0.49
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (63 bp):
CCGAGACACCCGTCGGCGTTGCCAATGGTGACCGAGACACCCGCCTGGGATTGCCGATGGTGA
Found at i:29600 original size:94 final size:93
Alignment explanation
Indices: 29276--29617 Score: 303
Period size: 94 Copynumber: 3.6 Consensus size: 93
29266 CACCAATGGA
* * *
29276 CTGGGGTTGCCGAGGCACCCGTCGGGTGTTGCCGATGGTGACCGAGGCCCCCGCACCCAACTCTC
1 CTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGA-GCCCACGCA-CCAACGCTC
*
29341 GGCTCTGTGCGGCACTCCCGCACCCGTGGC
64 GGTTCTGTGCGGCACTCCCGCACCCGTGGC
*
29371 CTGGGGTTGCCGAGGCACCCGTC-GGGGTTGCCGATGGTGACCGAG---A--CACC--CGTCTGG
1 CTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGCCCACGCACCAACG-CTCG
* **
29428 GTTTGCCGATG-GTG-AC-CGAGACACCCGTCTGGC
65 G-TT-CTG-TGCG-GCACTCCCG-CACCCG--TGGC
* * * * *
29461 TTTGCCAATGG-TGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCA
1 -CTG----GGGTTG-CCGAGG-CACCCGTCGGGGGTTGCCGATGGTGACCGAGCC-CACGCACCA
29525 ACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGC
58 ACGCTCGGTTCTGTGCGGCACTCCCGCACCCGTGGC
*
29561 CTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCCCCCGCACC
1 CTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGA-GCCCACGCACC
29618 CGTGGCCTGG
Statistics
Matches: 196, Mismatches: 22, Indels: 59
0.71 0.08 0.21
Matches are distributed among these distances:
85 1 0.01
86 4 0.02
87 5 0.03
88 13 0.07
89 3 0.02
90 4 0.02
91 2 0.01
93 1 0.01
94 56 0.29
95 42 0.21
96 9 0.05
97 21 0.11
99 2 0.01
100 4 0.02
101 4 0.02
102 11 0.06
103 8 0.04
104 4 0.02
105 2 0.01
ACGTcount: A:0.13, C:0.35, G:0.35, T:0.17
Consensus pattern (93 bp):
CTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGCCCACGCACCAACGCTCGG
TTCTGTGCGGCACTCCCGCACCCGTGGC
Found at i:29606 original size:32 final size:32
Alignment explanation
Indices: 29570--29673 Score: 101
Period size: 31 Copynumber: 3.3 Consensus size: 32
29560 CCTGGGGTTG
29570 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
* **** *
29602 CCGAGGCCCCCG-CACCCGTGGCC--TGGGTTG-
1 CCGAGGCACCCGTCGGGGGTTGCCGAT-GG-TGA
29632 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
29664 CCGAGG-ACCC
1 CCGAGGCACCC
29674 CGCACCCAAC
Statistics
Matches: 54, Mismatches: 12, Indels: 13
0.68 0.15 0.16
Matches are distributed among these distances:
29 1 0.02
30 13 0.24
31 20 0.37
32 19 0.35
33 1 0.02
ACGTcount: A:0.12, C:0.35, G:0.40, T:0.13
Consensus pattern (32 bp):
CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
Found at i:29645 original size:62 final size:63
Alignment explanation
Indices: 29547--29680 Score: 252
Period size: 62 Copynumber: 2.1 Consensus size: 63
29537 GTGCGGCACT
*
29547 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
29610 CCCGCACCCGTGGCCT-GGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
29672 CCCGCACCC
1 CCCGCACCC
29681 AACTCTCGGC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 54 0.77
63 16 0.23
ACGTcount: A:0.10, C:0.37, G:0.39, T:0.13
Consensus pattern (63 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGAC
Found at i:29709 original size:157 final size:157
Alignment explanation
Indices: 29475--29763 Score: 458
Period size: 157 Copynumber: 1.8 Consensus size: 157
29465 CCAATGGTGA
* * *
29475 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGTTCTGTG
1 CCGAGGCCACCCGCCGGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
* *
29540 CGGCACTCCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCG
66 CGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCG
29605 AGGCCCCCGCACCCGTGGCCTGGGTTG
131 AGGCCCCCGCACCCGTGGCCTGGGTTG
* * *
29632 CCGAGG-CACCCGTCGGGGGTTGCCGATGGTGACCGAGGACC-C-CGCACCCAACTCTCGGCTCT
1 CCGAGGCCACCCGCCGGGGATTGCCGATGGTGACCGA-G-CCTCACGCA-CCAACGCTCGGCTCT
29694 GTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
63 GTCCGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
29759 CCGAG
128 CCGAG
29764 ACACCCGTCT
Statistics
Matches: 121, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
156 31 0.26
157 88 0.73
158 2 0.02
ACGTcount: A:0.12, C:0.37, G:0.36, T:0.16
Consensus pattern (157 bp):
CCGAGGCCACCCGCCGGGGATTGCCGATGGTGACCGAGCCTCACGCACCAACGCTCGGCTCTGTC
CGGAACTCCCGCACCCGTGGCCTGGGGTTGCCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCG
AGGCCCCCGCACCCGTGGCCTGGGTTG
Found at i:29769 original size:32 final size:32
Alignment explanation
Indices: 29727--29859 Score: 196
Period size: 32 Copynumber: 4.2 Consensus size: 32
29717 CCTGGGGTTG
* *
29727 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
*
29759 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
*
29791 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
* *
29823 CCGAGGCCACCCGCCT-GGGTTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGGTTGCCGATGGTGA
29855 CCGAG
1 CCGAG
29860 CCTCACGCAC
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
31 1 0.01
32 84 0.89
33 9 0.10
ACGTcount: A:0.14, C:0.31, G:0.37, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGGTTGCCGATGGTGA
Found at i:29846 original size:64 final size:65
Alignment explanation
Indices: 29727--29993 Score: 217
Period size: 64 Copynumber: 4.0 Consensus size: 65
29717 CCTGGGGTTG
* * * * * *
29727 CCGAGCCACCCGTCGGGGGTTGCCGATGGTGACCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
29791 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGG-TTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
* * **** ***
29855 CCGAGCCTCACGCACCAACG-CTCGG-TT-CTG-TGCG-GCACTCCCTCACCAATGGCCTGGG-T
1 CCGAG----A--CACC--CGTCTGGGTTTGCCGATG-GTG-A--CCGAGGCCACCCGCCTGGGAT
29914 TGCCGATGGTGA
54 TGCCGATGGTGA
* *
29926 CCGAGACACCCGTATGGTTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
29991 CCG
1 CCG
29994 GGGCTCACGC
Statistics
Matches: 159, Mismatches: 25, Indels: 37
0.72 0.11 0.17
Matches are distributed among these distances:
63 2 0.01
64 65 0.41
65 34 0.21
66 4 0.03
67 4 0.03
68 4 0.03
69 4 0.03
70 6 0.04
71 34 0.21
72 2 0.01
ACGTcount: A:0.15, C:0.32, G:0.34, T:0.19
Consensus pattern (65 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGACCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
Found at i:29982 original size:33 final size:31
Alignment explanation
Indices: 29906--29993 Score: 113
Period size: 33 Copynumber: 2.7 Consensus size: 31
29896 CTCACCAATG
29906 GCCTGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGTTGCCGATGGTGACCGAGACACCC
** * *
29937 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGG-GTTGCCGATGGTGACCGA-GACACCC
29970 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGG-TTGCCGATGGTGACCG
29994 GGGCTCACGC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 4 0.09
32 17 0.36
33 26 0.55
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.20
Consensus pattern (31 bp):
GCCTGGGTTGCCGATGGTGACCGAGACACCC
Found at i:38316 original size:32 final size:32
Alignment explanation
Indices: 38280--38413 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
38270 GCCTGGGTTG
* * *
38280 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
38312 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
38344 CCGAGACACCCGTCTGGCTTTGCCAATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* * *
38376 CCGAGGCCACCCGCCTGGGATTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
38409 CCGAG
1 CCGAG
38414 CCTCACGCAC
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
32 64 0.70
33 27 0.30
ACGTcount: A:0.16, C:0.31, G:0.36, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:38507 original size:32 final size:32
Alignment explanation
Indices: 38471--38568 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 32
38461 CCTGGGGTTG
38471 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
* **** * *
38503 CCGAGGCCCCCG-CACCCGTGGCCTG-GGGTTG-
1 CCGAGGCACCCGTCGGGGGTTGCC-GATGG-TGA
38534 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
1 CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
38566 CCG
1 CCG
38569 GGACCCCGCA
Statistics
Matches: 47, Mismatches: 14, Indels: 10
0.66 0.20 0.14
Matches are distributed among these distances:
31 22 0.47
32 25 0.53
ACGTcount: A:0.10, C:0.34, G:0.42, T:0.14
Consensus pattern (32 bp):
CCGAGGCACCCGTCGGGGGTTGCCGATGGTGA
Found at i:38526 original size:63 final size:62
Alignment explanation
Indices: 38448--38581 Score: 250
Period size: 63 Copynumber: 2.1 Consensus size: 62
38438 GTGCGGCACT
*
38448 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCG-GGAC
38511 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGGGAC
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGGGAC
38573 CCCGCACCC
1 CCCGCACCC
38582 AACTCTCGGC
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
62 12 0.17
63 58 0.83
ACGTcount: A:0.10, C:0.37, G:0.40, T:0.13
Consensus pattern (62 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGGGAC
Found at i:38540 original size:31 final size:31
Alignment explanation
Indices: 38448--38545 Score: 92
Period size: 31 Copynumber: 3.1 Consensus size: 31
38438 GTGCGGCACT
38448 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
**** * * *
38479 CCCGTCGGGGGTTGCC-GATGG-TGACCGAGGCC
1 CCCG-CACCCGTGGCCTG-GGGTTG-CCGAGGCA
38511 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
1 CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
38542 CCCG
1 CCCG
38546 TCGGGGGTTG
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:0.09, C:0.38, G:0.40, T:0.13
Consensus pattern (31 bp):
CCCGCACCCGTGGCCTGGGGTTGCCGAGGCA
Found at i:38546 original size:190 final size:190
Alignment explanation
Indices: 38206--38568 Score: 495
Period size: 190 Copynumber: 1.9 Consensus size: 190
38196 CCGTCGGGTG
* *
38206 TTGCCGATGGTGACCGAGGCCCCCGCACCCAACTCTCGCTCTGTGCGGCACTCCCGCACCCGTGG
1 TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGCTCTGTGCGGCACTCCCGCACCCGTGG
*** *
38271 CCTGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCTGGGTTTGCC
66 CCTGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCCCCGTTGGCC
* * *
38336 GATGGTGACCGAGACACCCGTCTGGCTTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
131 GAGGGTGACCGAGACACCCGTCGGGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
*
38396 TTGCCGATGGTGACCGA-GCCTCACGCA-CCAACGCTCGGTTCTGTGCGGCACTCCCGCACCCGT
1 TTGCCGATGGTGACCGAGGCC-CACGCACCCAACGCTC-GCTCTGTGCGGCACTCCCGCACCCGT
* *
38459 GGCCTGGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGGCCCCCG-CACCCG-T
64 GGCCT-GGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTC-CCCGTT
* * *
38522 GGCCTG-GGGTTG-CCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCG
127 GGCC-GAGGG-TGACCGAGACACCCGTCGGGCGTTGCCAATGGTGACCG
38569 GGACCCCGCA
Statistics
Matches: 152, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
189 11 0.07
190 89 0.59
191 52 0.34
ACGTcount: A:0.12, C:0.35, G:0.35, T:0.17
Consensus pattern (190 bp):
TTGCCGATGGTGACCGAGGCCCACGCACCCAACGCTCGCTCTGTGCGGCACTCCCGCACCCGTGG
CCTGGGTTGCCGAGGCACCCGTCGGGGGTTGCCGATGGTGACCGAGACACCCGTCCCCGTTGGCC
GAGGGTGACCGAGACACCCGTCGGGCGTTGCCAATGGTGACCGAGGCCACCCGCCTGGGA
Found at i:38697 original size:32 final size:32
Alignment explanation
Indices: 38628--38758 Score: 187
Period size: 32 Copynumber: 4.2 Consensus size: 32
38618 CCTGGGGTTG
* * *
38628 CCGAGCCACCCGTCGGGGGTTGCCGAT-G-GA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
38658 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
38690 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
1 CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
* *
38722 CCGAGGCCACCCGCCTGGG-TTGCCGATGGTGA
1 CCGA-GACACCCGTCTGGGTTTGCCGATGGTGA
38754 CCGAG
1 CCGAG
38759 CCTCACGCAC
Statistics
Matches: 93, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
30 24 0.26
31 2 0.02
32 55 0.59
33 12 0.13
ACGTcount: A:0.15, C:0.31, G:0.37, T:0.18
Consensus pattern (32 bp):
CCGAGACACCCGTCTGGGTTTGCCGATGGTGA
Found at i:38882 original size:33 final size:32
Alignment explanation
Indices: 38805--38893 Score: 115
Period size: 33 Copynumber: 2.8 Consensus size: 32
38795 CTCACCAATG
*
38805 GCCTGGGGTTGCCGATGGTGACCGAGACACCC
1 GCCTGGGATTGCCGATGGTGACCGAGACACCC
** ** *
38837 GTATGGTTTTGCCGATGGTGACCGAGGCCACCC
1 GCCTGGGATTGCCGATGGTGACCGA-GACACCC
38870 GCCTGGGATTGCCGATGGTGACCG
1 GCCTGGGATTGCCGATGGTGACCG
38894 GGGCTCACGC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 21 0.45
33 26 0.55
ACGTcount: A:0.15, C:0.28, G:0.37, T:0.20
Consensus pattern (32 bp):
GCCTGGGATTGCCGATGGTGACCGAGACACCC
Done.