Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3
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: 254902
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Found at i:4687 original size:23 final size:23
Alignment explanation
Indices: 4615--4680 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
4605 TATCAAATTT
* *
4615 TCATAATCAATCTCAGTTTCT-TTC
1 TCAT-ATCAATTTCA-TTTCTACTC
4639 TCATATCAATTTCATTTCTACTC
1 TCATATCAATTTCATTTCTACTC
* *
4662 TCATTTCCATTCTCATTTC
1 TCATATCAATT-TCATTTC
4681 AGTCTCAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.14
23 20 0.56
24 11 0.31
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (23 bp):
TCATATCAATTTCATTTCTACTC
Found at i:6850 original size:8 final size:8
Alignment explanation
Indices: 6808--6832 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6798 ATATAGACTA
6808 AATAAAAT
1 AATAAAAT
6816 AATAAAAT
1 AATAAAAT
6824 AATAAAAT
1 AATAAAAT
6832 A
1 A
6833 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:6884 original size:41 final size:41
Alignment explanation
Indices: 6806--6887 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
6796 ATATATAGAC
*
6806 TAAATAAAATAATAAAATAATAAAATATCTTATTAAAATAT
1 TAAATAAAATAATAAAATAATAAAATAACTTATTAAAATAT
*
6847 TAAAT-AAATAATAATTATATAATTAAATAAC-TA-TAAAATAT
1 TAAATAAAATAATAA--A-ATAATAAAATAACTTATTAAAATAT
6888 CACCAACATC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
40 9 0.25
41 13 0.36
42 3 0.08
43 11 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (41 bp):
TAAATAAAATAATAAAATAATAAAATAACTTATTAAAATAT
Found at i:7135 original size:29 final size:30
Alignment explanation
Indices: 7084--7152 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
7074 CCACCCTTAA
* * *
7084 AATATTTTCACTATTAGTCCTTCAACTTTT
1 AATATTTACACTATTAATCCTTCAAATTTT
*
7114 CATATTTACACT-TTAATCCTTCAAATTTT
1 AATATTTACACTATTAATCCTTCAAATTTT
7143 AAGTATTTAC
1 AA-TATTTAC
7153 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.30, C:0.19, G:0.03, T:0.48
Consensus pattern (30 bp):
AATATTTACACTATTAATCCTTCAAATTTT
Found at i:7890 original size:14 final size:15
Alignment explanation
Indices: 7864--7892 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7854 CACATTTCAT
7864 TATTTTAAATATATA
1 TATTTTAAATATATA
7879 TATTTT-AATATATA
1 TATTTTAAATATATA
7893 ACATGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTTTAAATATATA
Found at i:9914 original size:7 final size:7
Alignment explanation
Indices: 9904--9946 Score: 77
Period size: 7 Copynumber: 6.1 Consensus size: 7
9894 TAATATTGAC
9904 TTAAGTA
1 TTAAGTA
9911 TTAAGTA
1 TTAAGTA
*
9918 TTAAATA
1 TTAAGTA
9925 TTAAGTA
1 TTAAGTA
9932 TTAAGTA
1 TTAAGTA
9939 TTAAGTA
1 TTAAGTA
9946 T
1 T
9947 ATATTATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (7 bp):
TTAAGTA
Found at i:10948 original size:41 final size:40
Alignment explanation
Indices: 10892--11016 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
10882 GACTTTGAGT
*
10892 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTAATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATT-ATC
* * ** *
10933 CGATGA-ATCACTGGGT-ACCAA-T-TTACTTCGGTTTAGC
1 CGATGAGA-CACTGGGTGTCAAATTATTACTTCGAATTATC
*
10970 CGATGAGACACTGGGTGTCAAATTATTACTTCAAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
11010 CGATGAG
1 CGATGAG
11017 GTAATGGGTG
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
37 15 0.22
38 14 0.21
39 2 0.03
40 22 0.33
41 14 0.21
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
Found at i:11391 original size:17 final size:18
Alignment explanation
Indices: 11361--11395 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11351 AATGTGAATT
11361 TTAATTATTCAATTGTGC
1 TTAATTATTCAATTGTGC
*
11379 TTAA-TATTTAATTGTGC
1 TTAATTATTCAATTGTGC
11396 CTATTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (18 bp):
TTAATTATTCAATTGTGC
Found at i:24058 original size:23 final size:22
Alignment explanation
Indices: 24026--24081 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
24016 TAATTTTGGT
24026 ATATGATGAAGT-TATCTT-ATAA
1 ATATGATGAA-TCTATCTTGA-AA
24048 ATATGCATGAATCTATCTTGAAA
1 ATATG-ATGAATCTATCTTGAAA
*
24071 ATATGTTGAAT
1 ATATGATGAAT
24082 TGGATTGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 11 0.37
23 18 0.60
24 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (22 bp):
ATATGATGAATCTATCTTGAAA
Found at i:31464 original size:23 final size:24
Alignment explanation
Indices: 31438--31485 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
31428 GAAAGTAAAA
31438 AGAGAA-CGTGCCAAAAGGCAGAC
1 AGAGAACCGTGCCAAAAGGCAGAC
* *
31461 AGAGAATCCGTGCGAACAGGCAGAC
1 AGAGAA-CCGTGCCAAAAGGCAGAC
31486 TAATTTTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
25 15 0.71
ACGTcount: A:0.40, C:0.23, G:0.31, T:0.06
Consensus pattern (24 bp):
AGAGAACCGTGCCAAAAGGCAGAC
Found at i:32125 original size:25 final size:25
Alignment explanation
Indices: 32097--32154 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
32087 ATTCCCAATT
* *
32097 ATGGCTCGGATGAGCTTTCC-GTTAC
1 ATGGCTCGCATAAG-TTTCCAGTTAC
* *
32122 ATGGCTCACATAAGTTTCCAGTTAT
1 ATGGCTCGCATAAGTTTCCAGTTAC
32147 ATGGCTCG
1 ATGGCTCG
32155 AAAGAGTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (25 bp):
ATGGCTCGCATAAGTTTCCAGTTAC
Found at i:32162 original size:25 final size:24
Alignment explanation
Indices: 32096--32165 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 24
32086 GATTCCCAAT
* *
32096 TATGGCTCGGATGAGCTTTCCGTTA
1 TATGGCTCGAAAGAG-TTTCCGTTA
*
32121 CATGGCTC-ACATA-AGTTTCCAGTTA
1 TATGGCTCGA-A-AGAGTTTCC-GTTA
32146 TATGGCTCGAAAGAGTTTCC
1 TATGGCTCGAAAGAGTTTCC
32166 CGTTTACATG
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
24 6 0.17
25 29 0.81
26 1 0.03
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (24 bp):
TATGGCTCGAAAGAGTTTCCGTTA
Found at i:34837 original size:11 final size:12
Alignment explanation
Indices: 34821--34849 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34811 TGCAAATTAG
34821 AAAGAAA-AAAA
1 AAAGAAAGAAAA
34832 AAAGAAAGAAAA
1 AAAGAAAGAAAA
34844 AAAGAA
1 AAAGAA
34850 GAAGAAGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAGAAAGAAAA
Found at i:34839 original size:15 final size:15
Alignment explanation
Indices: 34819--34852 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
34809 CATGCAAATT
34819 AGAAAGAAAAAAAAA
1 AGAAAGAAAAAAAAA
*
34834 AGAAAGAAAAAAAGA
1 AGAAAGAAAAAAAAA
34849 AGAA
1 AGAA
34853 GAAGAACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAAAAAAA
Found at i:37413 original size:32 final size:32
Alignment explanation
Indices: 37377--37441 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
37367 TGTATGCATT
37377 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
37409 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
37441 T
1 T
37442 GGTAAGTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:38949 original size:26 final size:26
Alignment explanation
Indices: 38920--38972 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
38910 TTTACAGTTT
38920 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
38946 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
38972 T
1 T
38973 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:45430 original size:32 final size:32
Alignment explanation
Indices: 45394--45458 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
45384 TGTATGCATT
45394 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
45426 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
45458 T
1 T
45459 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:46965 original size:26 final size:26
Alignment explanation
Indices: 46936--46988 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
46926 TTTACAGTTT
46936 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
46962 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
46988 T
1 T
46989 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:48279 original size:48 final size:47
Alignment explanation
Indices: 48227--48556 Score: 209
Period size: 48 Copynumber: 6.9 Consensus size: 47
48217 GCCACATTAT
* *
48227 GAGAGCCATTGTAAGACCATGTCAGGGACATGGCATCGGCATTGAGA
1 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * * * * *
48274 CGAGAGCTAATGTAAGA-CATGTTTGGGACAT-ACATCTGCCTCGAGA
1 -GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * ** * ** *
48320 TATAAGCCAGGGTAAGATCATGTCTGGGACATGGCATCGGCACGGATA
1 GA-GAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * * * ** *
48368 GAGTTGTCAGTGTAAGACCATGTCTGGGACATGGTATCGGCACGGATATGT
1 GAG-AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTG--A-GA
* ** * * *
48419 GAGAGCCAATGTAAGACCATGCCTGGGACATGGCGCCGGCCTTAATCGT
1 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGA--GA
* ** * * *
48468 GATAGTTATTGTGAGACCATGTCTGGGACATGGCATCGAC-TTGATGTA
1 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-G-A
* *
48516 -TGAGCCACTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCAT
48557 CCTACCCTAT
Statistics
Matches: 212, Mismatches: 60, Indels: 20
0.73 0.21 0.07
Matches are distributed among these distances:
45 1 0.00
46 21 0.10
47 58 0.27
48 65 0.31
49 33 0.16
50 31 0.15
51 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
GAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
Found at i:54877 original size:47 final size:45
Alignment explanation
Indices: 54809--54981 Score: 156
Period size: 47 Copynumber: 3.7 Consensus size: 45
54799 TTTGTGTGCT
* * *
54809 AGTGTAAGACATGTCTGGGACATGCATGGGCCACGTTATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGG-CACGTTAAGAGAGCC
* *
54855 AGTGTAAGACCATGTCTAGGACATGGACTCGGCA--TTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTAGGACATGCA-TCGGCACGTT-A-A-GAGAGCC
54903 AGTGTAAGACATGTCTAGGACATGCATCGGC-C-TTAAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCACGTTAAGA-G--AGCC
* *
54949 TGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC
54982 CATGAGATAT
Statistics
Matches: 107, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
43 2 0.02
44 2 0.02
45 3 0.03
46 28 0.26
47 46 0.43
48 26 0.24
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCACGTTAAGAGAGCC
Found at i:54971 original size:94 final size:91
Alignment explanation
Indices: 54806--55070 Score: 258
Period size: 94 Copynumber: 2.9 Consensus size: 91
54796 CCATTTGTGT
* * * *
54806 GCTAGTGTAAGACATGTCTGGGACATGCATGGGCC-ACGTTATG-AGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTAAG--ATGTA-AGCCTGTGTAAGACCATG
*
54869 TCTAGGACATGG-ACTCGG-CATTGAGACGAGA
63 TCTGGGACATGGCA-TCGGCCA-TGAGA-GA-A
54900 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTTAAGATGTAAGCCTGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCC-TAAGATGTAAGCCTGTGTAAGACCATGTC
* *
54965 TGGGACATGGCATCGGCCATGAGATAT
65 TGGGACATGGCATCGGCCATGAGAGAA
* * * *
54992 G-TCAGTATAAGACCATGTCTAAGACATGGCATCGGCCATGAGATGT--G-TTAGTGTAAGACCA
1 GCT-AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCC-TAAGATGTAAGCCT-GTGTAAGACCA
55053 TGTCTGGGACATGGCATC
61 TGTCTGGGACATGGCATC
55071 TACATGGATA
Statistics
Matches: 150, Mismatches: 12, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
91 2 0.01
92 39 0.26
93 14 0.09
94 89 0.59
95 4 0.03
96 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (91 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTAAGATGTAAGCCTGTGTAAGACCATGTCT
GGGACATGGCATCGGCCATGAGAGAA
Found at i:55003 original size:46 final size:46
Alignment explanation
Indices: 54953--55070 Score: 191
Period size: 46 Copynumber: 2.6 Consensus size: 46
54943 TAAGCCTGTG
54953 TAAGACCATGTCTGGGACATGGCATCGGCCATGAGATATGTCAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCCATGAGATATGTCAGTA
** * * *
54999 TAAGACCATGTCTAAGACATGGCATCGGCCATGAGATGTGTTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCATGAGATATGTCAGTA
55045 TAAGACCATGTCTGGGACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
55071 TACATGGATA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCATGAGATATGTCAGTA
Found at i:55019 original size:140 final size:139
Alignment explanation
Indices: 54810--55070 Score: 318
Period size: 140 Copynumber: 1.9 Consensus size: 139
54800 TTGTGTGCTA
* * * *
54810 GTGTAAGACATGTCTGGGACATGCATGGGCCACGTTATGAGAGCCAGTGTAAGACCATGTCTAGG
1 GTGTAAGACATGTCTGGGACATGCATCGGCCAC-TGATGAGAGCCAGTATAAGACCATGTCTAAG
54875 ACATGG-ACTCGG-CATTGAGACGAGAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCT
65 ACATGGCA-TCGGCCA-TGAGA--AGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCT
54936 TAAGATGTAAGCCT
126 TAAGATGTAAGCCT
* *
54950 GTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TGA-GATATGTCAGTATAAGACCATGTCTA
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACTGATGAGA-GCCAGTATAAGACCATGTCTA
* * * *
55013 AGACATGGCATCGGCCATGAGATGTGTTAGTGTAAGACCATGTCTGGGACATGGCATC
63 AGACATGGCATCGGCCATGAGAAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATC
55071 TACATGGATA
Statistics
Matches: 104, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
138 12 0.12
139 16 0.15
140 50 0.48
141 17 0.16
142 9 0.09
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (139 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCACTGATGAGAGCCAGTATAAGACCATGTCTAAGA
CATGGCATCGGCCATGAGAAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTTAAGA
TGTAAGCCT
Found at i:55084 original size:46 final size:47
Alignment explanation
Indices: 54809--55172 Score: 182
Period size: 46 Copynumber: 7.7 Consensus size: 47
54799 TTTGTGTGCT
* * * * *
54809 AGTGTAAGA-CATGTCTGGGACAT-GCATGGGCCA-CGTTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGGATAT--GTGTC
* * * * * *
54855 AGTGTAAGACCATGTCTAGGACATGG-ACTCGG-CATTGAGACGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCGGCCATGGATATGTG-TC
* ** * *
54902 TAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCC-TTAAGATGTAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGGATATGT--GTC
*
54949 TGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGAGATA--TGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATG-GATATGTGTC
* ** * *
54995 AGTATAAGACCATGTCTAAGACATGGCATCGGCCAT-GAGATGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGGATATGTGTC
** *
55041 AGTGTAAGACCATGTCTGGGACATGGCATC-TACATGGATATGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGGATATGT----GTC
* * * *
55091 AGCGTAAAACCATGTTTGGGACATGGCGTCGGCCTTAATCGCGATA---GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCC---AT-G-GATATGTGTC
* * *
55140 ATTGTGAGACAATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
55173 ATCCTACCCT
Statistics
Matches: 246, Mismatches: 45, Indels: 51
0.72 0.13 0.15
Matches are distributed among these distances:
44 3 0.01
45 3 0.01
46 101 0.41
47 47 0.19
48 26 0.11
49 29 0.12
50 29 0.12
51 1 0.00
54 2 0.01
55 1 0.00
56 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGGATATGTGTC
Found at i:58028 original size:26 final size:26
Alignment explanation
Indices: 57993--58044 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
57983 ATGTGAAAAG
*
57993 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
58019 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
58045 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:58044 original size:104 final size:105
Alignment explanation
Indices: 57914--58148 Score: 445
Period size: 104 Copynumber: 2.2 Consensus size: 105
57904 TTGTATATAA
**
57914 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
57979 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
58018 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
58083 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
58123 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
58149 GTCGGGGGTT
Statistics
Matches: 128, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
104 97 0.76
105 31 0.24
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (105 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:58165 original size:29 final size:29
Alignment explanation
Indices: 58096--58179 Score: 129
Period size: 29 Copynumber: 3.0 Consensus size: 29
58086 AATGTGAAAA
*
58096 GGGGGTTGCTATGTGCTGATTCCCC---C
1 GGGGGTTGCTAAGTGCTGATTCCCCGGTC
58122 GAGGGGTTGCTAAGTGCTGATTCCCCGGTC
1 G-GGGGTTGCTAAGTGCTGATTCCCCGGTC
58152 GGGGGTTGCTAAGTGCTGATTCCCCGGT
1 GGGGGTTGCTAAGTGCTGATTCCCCGGT
58180 TCATTGGTGG
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
26 1 0.02
27 23 0.43
29 27 0.51
30 2 0.04
ACGTcount: A:0.11, C:0.24, G:0.37, T:0.29
Consensus pattern (29 bp):
GGGGGTTGCTAAGTGCTGATTCCCCGGTC
Found at i:58193 original size:134 final size:133
Alignment explanation
Indices: 57993--58284 Score: 534
Period size: 134 Copynumber: 2.2 Consensus size: 133
57983 ATGTGAAAAG
*
57993 GGGGTTGCTATGTGCTGATTCCCC-G-AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGG
1 GGGGTTGCTAAGTGCTGATTCCCCGGTAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGG
58056 TGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCC
66 TGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCC
58121 CGA
131 CGA
* *
58124 GGGGTTGCTAAGTGCTGATTCCCCGGTCGGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTG
1 GGGGTTGCTAAGTGCTGATTCCCCGGT-AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTG
58189 GTGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCC
65 GTGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCC
58254 CCGA
130 CCGA
58258 GGGGTTGCTAAGTGCTGATTCCCCGGT
1 GGGGTTGCTAAGTGCTGATTCCCCGGT
58285 TCATTGGTGG
Statistics
Matches: 155, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
131 23 0.15
132 1 0.01
134 131 0.85
ACGTcount: A:0.16, C:0.21, G:0.32, T:0.31
Consensus pattern (133 bp):
GGGGTTGCTAAGTGCTGATTCCCCGGTAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGG
TGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCC
CGA
Found at i:58285 original size:105 final size:104
Alignment explanation
Indices: 58124--58418 Score: 470
Period size: 105 Copynumber: 2.8 Consensus size: 104
58114 ATTCCCCCGA
*
58124 GGGGTTGCTAAGTGCTGATTCCCCGGTCG-GGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGT
1 GGGGTTGCTATGTGCTGATTCCCC---CGAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGT
*
58188 GGTGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAAAG
63 GGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTG-AAAG
58231 GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGT
1 GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGT
58296 GCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTGAAAG
66 GCTAAGTGCG-TGATCCACCATATCTTTGAAATGTGAAAG
* **
58335 GGGGTTGCTATGTGCTGATT-CCCCGAGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGT
1 GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGT
*
58399 GCTAAGTGCGAGATCCACCA
66 GCTAAGTGCGTGATCCACCA
58419 ATAACGGTTA
Statistics
Matches: 179, Mismatches: 6, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
103 59 0.33
104 26 0.15
105 70 0.39
106 1 0.01
107 23 0.13
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (104 bp):
GGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGT
GCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAAG
Found at i:58337 original size:238 final size:237
Alignment explanation
Indices: 57915--58385 Score: 856
Period size: 238 Copynumber: 2.0 Consensus size: 237
57905 TGTATATAAA
**
57915 GGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTTT
57980 GAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGA
66 GAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGA
*
58045 TTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAAAGGGGGTTGCTATGT
131 TTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAAAGGGGGTTGCTATGT
58110 GCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGGTCG
196 GCTGATT-CCCCGAGGGGTTGCTAAGTGCTGATTCCCCGGTCG
*
58153 GGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTTT
58218 GAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCG
66 GAAATGTGAAAAGGGGGTTGCTATGTGCTGATT-CCCCGAGGGGTTGCTAAGTGCTGATTCCCCG
*
58283 GTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTG-AAAGGGGGTTGCTAT
130 ATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCTTTGAAATGTGAAAAGGGGGTTGCTAT
58346 GTGCTGATTCCCCGAGGGGTTGCTAAGTGCTGATTCCCCG
194 GTGCTGATTCCCCGAGGGGTTGCTAAGTGCTGATTCCCCG
58386 ATTCAGCGGT
Statistics
Matches: 226, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
237 31 0.14
238 119 0.53
239 75 0.33
240 1 0.00
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (237 bp):
GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTTT
GAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGA
TTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAAAGGGGGTTGCTATGT
GCTGATTCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGGTCG
Found at i:58370 original size:26 final size:26
Alignment explanation
Indices: 58335--58386 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
58325 AATGTGAAAG
*
58335 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
58361 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
58387 TTCAGCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:65276 original size:26 final size:26
Alignment explanation
Indices: 65241--65292 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
65231 ATGTGAAAAG
*
65241 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
65267 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
65293 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:65380 original size:26 final size:26
Alignment explanation
Indices: 65345--65395 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
65335 ATGTGAAAAG
*
65345 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
65371 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
65396 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:65547 original size:105 final size:104
Alignment explanation
Indices: 65162--65635 Score: 828
Period size: 104 Copynumber: 4.6 Consensus size: 104
65152 TTGTATATAA
**
65162 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
65227 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
65266 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
65331 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
65370 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
65435 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
65475 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
65539 TTGAAATGTG-AAA-GGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
** * *
65577 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCA
65636 ATAACGGTTA
Statistics
Matches: 359, Mismatches: 8, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
102 59 0.16
103 20 0.06
104 203 0.57
105 76 0.21
106 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:65587 original size:26 final size:26
Alignment explanation
Indices: 65551--65603 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
65541 GAAATGTGAA
*
65551 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
65577 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
65603 A
1 A
65604 TTCAGCGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.28
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:66849 original size:21 final size:21
Alignment explanation
Indices: 66823--66864 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
66813 GGTAAGGAAT
66823 ACGGGTAAGGGGTGTTACAAC
1 ACGGGTAAGGGGTGTTACAAC
66844 ACGGGTAAGGGGTGTTACAAC
1 ACGGGTAAGGGGTGTTACAAC
66865 TTCAGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.38, T:0.19
Consensus pattern (21 bp):
ACGGGTAAGGGGTGTTACAAC
Found at i:69442 original size:41 final size:41
Alignment explanation
Indices: 69382--69949 Score: 744
Period size: 41 Copynumber: 13.9 Consensus size: 41
69372 AGTCGTGAAA
* * *
69382 TAGCGGCGTTTTCGGAAAAACGCTGCCAAAAGTCTGAGAAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * **
69423 TCGCGGCATTTCTCCAAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * *
69464 TAGCGGCATTTTTAGAAAAACACCGCCAAAAGTCTGAGCAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * *
69505 TAGCGGCGTTATTGGAAAAGCGCCGCTAAAAGTCTGAGCAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * *
69546 TAGCGGCGTTGTTGGAAAAGCGCCGCTAAAAGTCTGAGCAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* *
69587 TAGCGGCGTTGTTGGAAAAACGCCGCCAAAA-TACTGAGAAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGT-CTGAGCAT
* * *
69628 TAGAGGCGTTTGTCGAAAAACGCCGCCAAAA-TACTGAGCAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGT-CTGAGCAT
*** * * *
69669 TAGCGGCGTTTTCCCAAAAACACCGCCAAAACTCTGAGTAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* *
69710 TAGCGGCGTTTTTGGGAAAACGCCGCCAAAAGTCTGAGTAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* *
69751 TAGCGGCGTTTTTGGAAAAACTCCGCCAAAAGTCTGAGTAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
*
69792 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGTAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* *
69833 TCGCGGCGTTTTTGGAAAAACGCTGCCAAAAGTCTGAGCAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* *
69874 TAGCGACGTTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * *
69915 TAGCGGCGTTTTTGGAGAAACGCCGCTAAACGTCT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCT
69950 TTTTTGAATT
Statistics
Matches: 470, Mismatches: 55, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
40 1 0.00
41 468 1.00
42 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (41 bp):
TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
Found at i:70047 original size:41 final size:41
Alignment explanation
Indices: 69978--70057 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
69968 TTAGTTAAGT
** * *
69978 TTTAAGGTTTAGTTCTTATGTTTTGGGTTTACGATTTAATA
1 TTTAAGGTTTAGGGCTTATGTTTAGGGTTTAAGATTTAATA
70019 TTTAAGGTTTAGGGC-TATGGTTTAGGGTTTAAGATTTAA
1 TTTAAGGTTTAGGGCTTAT-GTTTAGGGTTTAAGATTTAA
70058 AATGTTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.09
41 31 0.91
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.49
Consensus pattern (41 bp):
TTTAAGGTTTAGGGCTTATGTTTAGGGTTTAAGATTTAATA
Found at i:70112 original size:7 final size:7
Alignment explanation
Indices: 70102--70127 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
70092 TGGGTTTGAG
70102 GTTTAGT
1 GTTTAGT
70109 GTTTAGT
1 GTTTAGT
70116 GTTTAGT
1 GTTTAGT
70123 GTTTA
1 GTTTA
70128 TAATCTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (7 bp):
GTTTAGT
Found at i:70166 original size:8 final size:8
Alignment explanation
Indices: 70153--70228 Score: 56
Period size: 8 Copynumber: 10.1 Consensus size: 8
70143 GCGGTATTAA
70153 GGGTTTAT
1 GGGTTTAT
70161 GGGTTTA-
1 GGGTTTAT
*
70168 -GGTTTAA
1 GGGTTTAT
*
70175 GGGTTCAT
1 GGGTTTAT
70183 -GGTTTAT
1 GGGTTTAT
*
70190 --GTTTTT
1 GGGTTTAT
70196 GTGGTTTA-
1 G-GGTTTAT
*
70204 GGGTTTAG
1 GGGTTTAT
*
70212 GGGTTCAT
1 GGGTTTAT
70220 GGGTTTAT
1 GGGTTTAT
70228 G
1 G
70229 TTTTTTTTGC
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
6 11 0.20
7 12 0.22
8 27 0.50
9 4 0.07
ACGTcount: A:0.13, C:0.03, G:0.37, T:0.47
Consensus pattern (8 bp):
GGGTTTAT
Found at i:70176 original size:22 final size:22
Alignment explanation
Indices: 70149--70212 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
70139 TTTAGCGGTA
70149 TTAAGGGTTTATGGGTTTAGGT
1 TTAAGGGTTTATGGGTTTAGGT
* *
70171 TTAAGGGTTCAT-GGTTTATGT
1 TTAAGGGTTTATGGGTTTAGGT
**
70192 TTTTGTGGTTTA-GGGTTTAGG
1 TTAAG-GGTTTATGGGTTTAGG
70213 GGTTCATGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 11 0.32
22 23 0.68
ACGTcount: A:0.16, C:0.02, G:0.34, T:0.48
Consensus pattern (22 bp):
TTAAGGGTTTATGGGTTTAGGT
Found at i:70216 original size:37 final size:37
Alignment explanation
Indices: 70162--70233 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 37
70152 AGGGTTTATG
70162 GGTTTAGGTTTAAGGGTTCAT-GGTTTATGTTTTTGT
1 GGTTTAGGTTTAAGGGTTCATGGGTTTATGTTTTTGT
*
70198 GGTTTAGGGTTTAGGGGTTCATGGGTTTATGTTTTT
1 GGTTTA-GGTTTAAGGGTTCATGGGTTTATGTTTTT
70234 TTTGCAATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
36 6 0.18
37 14 0.42
38 13 0.39
ACGTcount: A:0.12, C:0.03, G:0.33, T:0.51
Consensus pattern (37 bp):
GGTTTAGGTTTAAGGGTTCATGGGTTTATGTTTTTGT
Found at i:71412 original size:14 final size:15
Alignment explanation
Indices: 71390--71464 Score: 61
Period size: 14 Copynumber: 5.2 Consensus size: 15
71380 ATTTAGTATC
71390 TAGA-ATTTAGGGTT
1 TAGAGATTTAGGGTT
* *
71404 TA-ATGTTTATAAGGT-
1 TAGA-GATT-TAGGGTT
* *
71419 TAGAGGTTTATGGTT
1 TAGAGATTTAGGGTT
71434 TAGAG-TTTAGGGTT
1 TAGAGATTTAGGGTT
71448 TA-AGATTTAGGGTT
1 TAGAGATTTAGGGTT
71462 TAG
1 TAG
71465 GGTCTGATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
13 3 0.06
14 28 0.57
15 12 0.24
16 6 0.12
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (15 bp):
TAGAGATTTAGGGTT
Found at i:71433 original size:7 final size:7
Alignment explanation
Indices: 71418--71467 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
71408 GTTTATAAGG
71418 TTAGAGGT
1 TTAG-GGT
*
71426 TTATGGT
1 TTAGGGT
*
71433 TTAGAGT
1 TTAGGGT
71440 TTAGGGT
1 TTAGGGT
* *
71447 TTAAGAT
1 TTAGGGT
71454 TTAGGGT
1 TTAGGGT
71461 TTAGGGT
1 TTAGGGT
71468 CTGATTTTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
7 31 0.91
8 3 0.09
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (7 bp):
TTAGGGT
Found at i:71449 original size:21 final size:21
Alignment explanation
Indices: 71390--71467 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
71380 ATTTAGTATC
*
71390 TAGAATTTAGGGTTTAAT-GTT
1 TAGAGTTTAGGGTTT-ATGGTT
* *
71411 TATAAGGTTAGAGGTTTATGGTT
1 TA-GAGTTTAG-GGTTTATGGTT
* *
71434 TAGAGTTTAGGGTTTAAGATT
1 TAGAGTTTAGGGTTTATGGTT
*
71455 TAGGGTTTAGGGT
1 TAGAGTTTAGGGT
71468 CTGATTTTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 23 0.50
22 13 0.28
23 10 0.22
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (21 bp):
TAGAGTTTAGGGTTTATGGTT
Found at i:74859 original size:9 final size:9
Alignment explanation
Indices: 74818--74954 Score: 112
Period size: 9 Copynumber: 14.6 Consensus size: 9
74808 ATTGATCATT
*
74818 ACTTAAATA
1 ACTTACATA
*
74827 AGTTACATA
1 ACTTACATA
* *
74836 ACTCACGTA
1 ACTTACATA
74845 ACTTACATA
1 ACTTACATA
*
74854 ATTTACATAACA
1 ACTTACAT---A
*
74866 ACCTACATA
1 ACTTACATA
74875 ACTTACATA
1 ACTTACATA
74884 ACTTACATA
1 ACTTACATA
* *
74893 ATTTATATA
1 ACTTACATA
*
74902 ACTCACATA
1 ACTTACATA
* *
74911 ACGTATATAACA
1 AC-T-TA-CATA
74923 ACTTACATA
1 ACTTACATA
*
74932 ACTCACATA
1 ACTTACATA
74941 ACTTACATA
1 ACTTACATA
74950 ACTTA
1 ACTTA
74955 ACTAATACAT
Statistics
Matches: 99, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
9 83 0.84
10 3 0.03
11 2 0.02
12 11 0.11
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:74892 original size:57 final size:57
Alignment explanation
Indices: 74818--74952 Score: 162
Period size: 57 Copynumber: 2.4 Consensus size: 57
74808 ATTGATCATT
* * * * **
74818 ACTTAAATAAGTTACATAACTCACGTAACTTACATAATTTACATAACAACCTACATA
1 ACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACCTACATA
* * * * *
74875 ACTTACATAACTTACATAATTTATATAACTCACATAACGTATATAACAACTTACATA
1 ACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACCTACATA
*
74932 ACTCACATAACTTACATAACT
1 ACTTACATAACTTACATAACT
74953 TAACTAATAC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 65 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (57 bp):
ACTTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACCTACATA
Found at i:74910 original size:48 final size:48
Alignment explanation
Indices: 74823--74952 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 48
74813 TCATTACTTA
* * * * *
74823 AATAAGTTACATAACTCACGTAACTTACATAATTTACATAAC-AACCT
1 AATAACTTACATAACTCACATAACTTACATAACTCACATAACGAACAT
* * * * *
74870 ACATAACTTACATAACTTACATAATTTATATAACTCACATAACGTATAT
1 A-ATAACTTACATAACTCACATAACTTACATAACTCACATAACGAACAT
*
74919 AACAACTTACATAACTCACATAACTTACATAACT
1 AATAACTTACATAACTCACATAACTTACATAACT
74953 TAACTAATAC
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
47 1 0.01
48 63 0.94
49 3 0.04
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (48 bp):
AATAACTTACATAACTCACATAACTTACATAACTCACATAACGAACAT
Found at i:80575 original size:21 final size:21
Alignment explanation
Indices: 80525--80583 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
80515 TCTAGCCGAT
*
80525 GCAGCAGAGAGGGAGGCAGCG
1 GCAGCAGCGAGGGAGGCAGCG
80546 GCAGCAGCGAGGGAGGCAGCG
1 GCAGCAGCGAGGGAGGCAGCG
* *
80567 GCAGTAGCGAGAGAGGC
1 GCAGCAGCGAGGGAGGC
80584 GGAGCAAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.51, T:0.02
Consensus pattern (21 bp):
GCAGCAGCGAGGGAGGCAGCG
Found at i:81004 original size:44 final size:43
Alignment explanation
Indices: 80915--81086 Score: 182
Period size: 44 Copynumber: 4.0 Consensus size: 43
80905 TGTAAATTTA
* * *
80915 GCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGACTCTACTTTTG
1 GCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTGTACTTTTG
*
80958 GCGGCATTTGTGGAAAAAGCGCCGCTAAAAGGTCTGTACTTTTG
1 GCGGCGTTTGTGGAAAAAGCGCCGCT-AAAGGTCTGTACTTTTG
* *** * ** *
81002 GCGGCGTTTTTGGTGTAAGCGCCGCTATAGGTCTGTAAATTTA
1 GCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTGTACTTTTG
* * * *
81045 GCGGCTTTTTTGGGCAAAAGCTCCGCTAAAGGTCTGTACTTT
1 GCGGCGTTTGT-GGAAAAAGCGCCGCTAAAGGTCTGTACTTT
81087 ATGTTAAATC
Statistics
Matches: 106, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
43 47 0.44
44 59 0.56
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (43 bp):
GCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTGTACTTTTG
Found at i:81049 original size:43 final size:43
Alignment explanation
Indices: 80903--81082 Score: 173
Period size: 43 Copynumber: 4.1 Consensus size: 43
80893 ACGATTTCAA
80903 TCTGTAAATTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGG
1 TCTGTAAATTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGG
* * ** * * *
80946 ACTCTACTTTTGGCGGCATTTGTGGAAAAAGCGCCGCTAAAAGG
1 TCTGTAAATTTAGCGGCGTTTGTGGAGAAAGCGCCGCT-AAAGG
** * * * * *
80990 TCTGTACTTTTGGCGGCGTTTTTGGTGTAAGCGCCGCTATAGG
1 TCTGTAAATTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGG
* * *
81033 TCTGTAAATTTAGCGGCTTTTTTGG-GCAAAAGCTCCGCTAAAGG
1 TCTGTAAATTTAGCGGCGTTTGTGGAG--AAAGCGCCGCTAAAGG
81077 TCTGTA
1 TCTGTA
81083 CTTTATGTTA
Statistics
Matches: 112, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 56 0.50
44 55 0.49
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
TCTGTAAATTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGG
Found at i:81049 original size:87 final size:87
Alignment explanation
Indices: 80915--81086 Score: 211
Period size: 87 Copynumber: 2.0 Consensus size: 87
80905 TGTAAATTTA
** *
80915 GCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGACTCTACTTTTGGCGGCATTTGT-GGAAAAAGCG
1 GCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGACTCTAAATTTAGCGGCATTTGTGGGAAAAAGCG
80979 CCGCTAAAAGGTCTGTACTTTTG
66 CCGCT-AAAGGTCTGTACTTTTG
* * * * * * * * * *
81002 GCGGCGTTTTTGGTGTAAGCGCCGCTATAGGTCTGTAAATTTAGCGGCTTTTTTGGGCAAAAGCT
1 GCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGACTCTAAATTTAGCGGCATTTGTGGGAAAAAGCG
81067 CCGCTAAAGGTCTGTACTTT
66 CCGCTAAAGGTCTGTACTTT
81087 ATGTTAAATC
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
87 58 0.82
88 13 0.18
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (87 bp):
GCGGCGTTTGTGGAGAAAGCGCCGCTAAAGGACTCTAAATTTAGCGGCATTTGTGGGAAAAAGCG
CCGCTAAAGGTCTGTACTTTTG
Found at i:84015 original size:34 final size:33
Alignment explanation
Indices: 83932--84016 Score: 82
Period size: 34 Copynumber: 2.5 Consensus size: 33
83922 AATGCATAAA
* *
83932 AAGCATTATTTTTGCTACTGAGTTGATCTGTCAC
1 AAGCA-TATTTTTGCTACTGAATCGATCTGTCAC
* * *
83966 AAGCATATTAATTGCTACTGAATCGAAT-TGTTAT
1 AAGCATATT-TTTGCTACTGAATCG-ATCTGTCAC
84000 AAGCATATTGTTTGCTA
1 AAGCATATT-TTTGCTA
84017 TCGTATTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
33 4 0.10
34 36 0.86
35 2 0.05
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.40
Consensus pattern (33 bp):
AAGCATATTTTTGCTACTGAATCGATCTGTCAC
Found at i:91201 original size:33 final size:33
Alignment explanation
Indices: 91164--91230 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
91154 GTCCACCTAG
91164 TTTGATCCCTTTTATCTCATAATCACCGATGTA
1 TTTGATCCCTTTTATCTCATAATCACCGATGTA
**
91197 TTTGATCTTTTTTATCTCATAATCACCGATGTA
1 TTTGATCCCTTTTATCTCATAATCACCGATGTA
91230 T
1 T
91231 CTTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.46
Consensus pattern (33 bp):
TTTGATCCCTTTTATCTCATAATCACCGATGTA
Found at i:93123 original size:23 final size:22
Alignment explanation
Indices: 93091--93157 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 22
93081 AGTTGTGCTA
93091 TTTTATCACTTTAATATTTGAAG
1 TTTT-TCACTTTAATATTTGAAG
93114 TTATTTCACTTTAATA-TTGAAG
1 TT-TTTCACTTTAATATTTGAAG
**
93136 TTTTT-TTTTTAA-ATTTGAAG
1 TTTTTCACTTTAATATTTGAAG
93156 TT
1 TT
93158 GTGCCCACGC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 1 0.03
20 13 0.32
21 3 0.08
22 8 0.20
23 13 0.32
24 2 0.05
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (22 bp):
TTTTTCACTTTAATATTTGAAG
Found at i:93366 original size:10 final size:10
Alignment explanation
Indices: 93345--93381 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
93335 TTTTAAGAAA
93345 ATTTTTAA-T
1 ATTTTTAATT
93354 ATTTTTAATT
1 ATTTTTAATT
93364 ATTTTTAATT
1 ATTTTTAATT
93374 ATTTTTAA
1 ATTTTTAA
93382 AATACATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTTAATT
Found at i:94631 original size:21 final size:22
Alignment explanation
Indices: 94607--94656 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
94597 ATTTGCTTAT
*
94607 TTGAATTGATTATTT-TGTTGA
1 TTGAATCGATTATTTATGTTGA
* * *
94628 TTGACTCGATTCTTTATGTTGT
1 TTGAATCGATTATTTATGTTGA
94650 TTGAATC
1 TTGAATC
94657 AATTCTTTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.20, C:0.08, G:0.18, T:0.54
Consensus pattern (22 bp):
TTGAATCGATTATTTATGTTGA
Found at i:94653 original size:22 final size:21
Alignment explanation
Indices: 94614--94679 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 21
94604 TATTTGAATT
* *
94614 GATTATTTTGTTGATTGACTC
1 GATTCTTTTGTTGTTTGACTC
*
94635 GATTCTTTATGTTGTTTGAATC
1 GATTCTTT-TGTTGTTTGACTC
* *
94657 AATTC-TTTGTTGTTTAACTC
1 GATTCTTTTGTTGTTTGACTC
94677 GAT
1 GAT
94680 CCAAATGCCA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 13 0.35
21 9 0.24
22 15 0.41
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.53
Consensus pattern (21 bp):
GATTCTTTTGTTGTTTGACTC
Found at i:97201 original size:16 final size:18
Alignment explanation
Indices: 97180--97220 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
97170 CTAATTTAAT
*
97180 ATAAAATCA-AAAT-AAA
1 ATAAAATAATAAATAAAA
97196 ATAAAA-AATAAATAAAA
1 ATAAAATAATAAATAAAA
97213 ATAAAATA
1 ATAAAATA
97221 GAAATTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 10 0.48
17 9 0.43
18 1 0.05
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (18 bp):
ATAAAATAATAAATAAAA
Found at i:98006 original size:19 final size:19
Alignment explanation
Indices: 97982--98024 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
97972 TTTTATTCAT
97982 TTATTTATGTACAAGCAAA
1 TTATTTATGTACAAGCAAA
98001 TTATTTATGTACAAGCAAA
1 TTATTTATGTACAAGCAAA
98020 -TATTT
1 TTATTT
98025 TTTTCAAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (19 bp):
TTATTTATGTACAAGCAAA
Found at i:102602 original size:21 final size:19
Alignment explanation
Indices: 102576--102618 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
102566 AGAGCATGGG
102576 AAAGAAAGAAAGAAAAAGAGA
1 AAAGAAAG-AAGAAAAAG-GA
*
102597 AAAGAAAGATGAAAAAGGA
1 AAAGAAAGAAGAAAAAGGA
102616 AAA
1 AAA
102619 TTGAAGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (19 bp):
AAAGAAAGAAGAAAAAGGA
Found at i:103206 original size:12 final size:12
Alignment explanation
Indices: 103176--103206 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
103166 TCCCGACTAT
*
103176 TGTTACAGTTAC
1 TGTTACCGTTAC
103188 TGTTACCGTTAC
1 TGTTACCGTTAC
103200 TGTTACC
1 TGTTACC
103207 AATTCGGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (12 bp):
TGTTACCGTTAC
Found at i:103308 original size:53 final size:53
Alignment explanation
Indices: 103251--103353 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
103241 TATTGTTTCG
* * *
103251 GATTTGTTCCGATGAGGCACTCTGTGTACCTTACTGTTACTGTTACTGTTCTA
1 GATTTATTCCGATGAAGCACTCTGTGTACCGTACTGTTACTGTTACTGTTCTA
* * * *
103304 GATTTATTCTGATGAAGTACTCTGTGTATCGTACTGTTACTGTTATTGTT
1 GATTTATTCCGATGAAGCACTCTGTGTACCGTACTGTTACTGTTACTGTT
103354 ACTGCTACTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (53 bp):
GATTTATTCCGATGAAGCACTCTGTGTACCGTACTGTTACTGTTACTGTTCTA
Found at i:103589 original size:18 final size:18
Alignment explanation
Indices: 103565--103628 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
103555 AATTGATTGA
103565 TACTGAATAACTGATTAT
1 TACTGAATAACTGATTAT
* * * *
103583 TATTGAATAATTTATTGT
1 TACTGAATAACTGATTAT
*
103601 TACTGAATAACTGACTAT
1 TACTGAATAACTGATTAT
*
103619 TACTAAATAA
1 TACTGAATAA
103629 ATAATTGTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:103628 original size:36 final size:36
Alignment explanation
Indices: 103555--103641 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 36
103545 ATAACCAATC
* * * * *
103555 AATTGATTGATACTGAATAACTGATTATTATTGAAT
1 AATTAATTGTTACTGAATAACTGACTATTACTAAAT
*
103591 AATTTATTGTTACTGAATAACTGACTATTACTAAAT
1 AATTAATTGTTACTGAATAACTGACTATTACTAAAT
*
103627 AAATAATTGTT-CTGA
1 AATTAATTGTTACTGA
103642 TTGACTGATC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
35 4 0.09
36 40 0.91
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.41
Consensus pattern (36 bp):
AATTAATTGTTACTGAATAACTGACTATTACTAAAT
Found at i:106786 original size:122 final size:122
Alignment explanation
Indices: 106569--106808 Score: 462
Period size: 122 Copynumber: 2.0 Consensus size: 122
106559 TAAAATAGAA
106569 ATTTCTATTTTTGGCTTTTTACAAAGTCAAAAATTCTAATGAGTCCTTGGCTTTCTCCATATTTT
1 ATTTCTATTTTTGGCTTTTTACAAAGTCAAAAATTCTAATGAGTCCTTGGCTTTCTCCATATTTT
106634 TGATTCGGCATCATTTTGTTGATTTTGTTTTAATTTGGTCCTCTTCTGCTCATGCTC
66 TGATTCGGCATCATTTTGTTGATTTTGTTTTAATTTGGTCCTCTTCTGCTCATGCTC
106691 ATTTCTATTTTTGGCTTTTTACAAAGTCAAAAATTCTAATGAGTCCTTGGCTTTCTCCATATTTT
1 ATTTCTATTTTTGGCTTTTTACAAAGTCAAAAATTCTAATGAGTCCTTGGCTTTCTCCATATTTT
* *
106756 TTATTCGGCATCATTTTGTTGATTTTGTTTTAATTTGGTCCTTTTCTGCTCAT
66 TGATTCGGCATCATTTTGTTGATTTTGTTTTAATTTGGTCCTCTTCTGCTCAT
106809 TTTTATCTCT
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 116 1.00
ACGTcount: A:0.19, C:0.17, G:0.13, T:0.50
Consensus pattern (122 bp):
ATTTCTATTTTTGGCTTTTTACAAAGTCAAAAATTCTAATGAGTCCTTGGCTTTCTCCATATTTT
TGATTCGGCATCATTTTGTTGATTTTGTTTTAATTTGGTCCTCTTCTGCTCATGCTC
Found at i:107076 original size:26 final size:26
Alignment explanation
Indices: 107037--107092 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
107027 GATTTGGCAG
107037 TGCACAAGTCGACTT-GTTAATTCCC
1 TGCACAAGTCGACTTGGTTAATTCCC
* *
107062 TGCACAGATTCGACTTGGTTAATTTCC
1 TGCACA-AGTCGACTTGGTTAATTCCC
107089 TGCA
1 TGCA
107093 TAGTTCAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 6 0.22
26 8 0.30
27 13 0.48
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (26 bp):
TGCACAAGTCGACTTGGTTAATTCCC
Found at i:113604 original size:35 final size:33
Alignment explanation
Indices: 113540--113604 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 33
113530 CCTGTAAATT
* *
113540 TAATTATAAATTATATAAAATATTAGAATAAAA
1 TAATTATAAATAATATAAAATACTAGAATAAAA
113573 TAATTATTAAATAATGATAAAA-ACTATGAATA
1 TAATTA-TAAATAAT-ATAAAATACTA-GAATA
113605 TGTTCAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 6 0.22
34 10 0.37
35 11 0.41
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (33 bp):
TAATTATAAATAATATAAAATACTAGAATAAAA
Found at i:113941 original size:15 final size:16
Alignment explanation
Indices: 113921--113950 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
113911 AAAATTATTT
113921 TATAC-TAATATTTTA
1 TATACTTAATATTTTA
113936 TATACTTAATATTTT
1 TATACTTAATATTTT
113951 TGATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (16 bp):
TATACTTAATATTTTA
Found at i:116344 original size:50 final size:51
Alignment explanation
Indices: 116163--116355 Score: 153
Period size: 50 Copynumber: 3.8 Consensus size: 51
116153 ATCTTGTATT
* * *
116163 TATTCGGCCACATAGGTATGTACATATGTGACGTTATA-TTGAATCTTGAA
1 TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * * * *
116213 TATTTGACCATGA-AGGTATGCACAAAAGTGATATTATATTTGAAT-TTGTA
1 TATTCGGCCAT-ATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * * * * *
116263 TATTCAGCCATAT-GAGTAAGTACTTAGGTGATGTTAAATTTG-ATCTTGCA
1 TATTCGGCCATATAG-GTATGCACATATGTGATGTTATATTTGAATCTTGAA
* * * *
116313 TATTTGGCCATATAGGTATGCACATTTGTGATATTATCTTTGA
1 TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGA
116356 TTCTCTATAA
Statistics
Matches: 106, Mismatches: 30, Indels: 13
0.71 0.20 0.09
Matches are distributed among these distances:
49 4 0.04
50 94 0.89
51 8 0.08
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (51 bp):
TATTCGGCCATATAGGTATGCACATATGTGATGTTATATTTGAATCTTGAA
Found at i:118224 original size:28 final size:29
Alignment explanation
Indices: 118188--118263 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
118178 ATTTTAATTA
118188 TATAAATTAAATTTTAATTAGATATT-AT
1 TATAAATTAAATTTTAATTAGATATTGAT
* *
118216 T-TATTATTAAA-TTTATATAAGATATTGAT
1 TATA-AATTAAATTTTA-ATTAGATATTGAT
*
118245 TATAAAATAAATTTTAATT
1 TATAAATTAAATTTTAATT
118264 GTTAAAATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
27 6 0.16
28 16 0.42
29 10 0.26
30 6 0.16
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (29 bp):
TATAAATTAAATTTTAATTAGATATTGAT
Found at i:118345 original size:14 final size:13
Alignment explanation
Indices: 118326--118359 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
118316 TTGTTTAATT
118326 AAAAATAACTTTTA
1 AAAAATAA-TTTTA
118340 AAAAATAATTTTA
1 AAAAATAATTTTA
118353 AGAAAAT
1 A-AAAAT
118360 TTGTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (13 bp):
AAAAATAATTTTA
Found at i:123984 original size:5 final size:5
Alignment explanation
Indices: 123974--124006 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
123964 TTCCCTAGTT
123974 TTTTG TTTTG TTTTG TTTTG TTTTG TTTT- TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
124007 CTGGTTATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (5 bp):
TTTTG
Found at i:127883 original size:18 final size:18
Alignment explanation
Indices: 127862--127979 Score: 78
Period size: 19 Copynumber: 6.3 Consensus size: 18
127852 AAAATTAGAA
127862 AAAAATTATAAATTTTAT
1 AAAAATTATAAATTTTAT
*
127880 AAAAGTTACTAAATTTTAAT
1 AAAAATTA-TAAATTTT-AT
127900 AAAAA-TATAAAATATATTA-
1 AAAAATTAT-AAAT-T-TTAT
**
127919 AAAAATTATATTTTTTTAT
1 AAAAATTATA-AATTTTAT
* *** *
127938 AAAAATTGTAAAAACTAA
1 AAAAATTATAAATTTTAT
*
127956 AAAAATTGTAAAATTTTAT
1 AAAAATTAT-AAATTTTAT
127975 AAAAA
1 AAAAA
127980 CCATAAAAAT
Statistics
Matches: 76, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
18 22 0.29
19 40 0.53
20 12 0.16
21 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (18 bp):
AAAAATTATAAATTTTAT
Found at i:128758 original size:4 final size:4
Alignment explanation
Indices: 128749--128774 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
128739 GGTGCTCCTT
128749 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
128775 AGACAATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:129036 original size:27 final size:28
Alignment explanation
Indices: 129006--129080 Score: 100
Period size: 27 Copynumber: 2.7 Consensus size: 28
128996 AAACATTCAA
129006 AAAAAATATTATAATTTTTTA-AAAAAT
1 AAAAAATATTATAATTTTTTATAAAAAT
*
129033 AAAAAATATTATAAGTTTTCTATAAAAAT
1 AAAAAATATTATAA-TTTTTTATAAAAAT
*
129062 ACTAAAA-ATTATAATTTTT
1 A-AAAAATATTATAATTTTT
129081 AATTGTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 14 0.33
28 10 0.24
29 14 0.33
30 4 0.10
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (28 bp):
AAAAAATATTATAATTTTTTATAAAAAT
Found at i:129966 original size:21 final size:19
Alignment explanation
Indices: 129931--129978 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
129921 TCTTAAACTT
129931 TTTTAAAAAATTAAATTAA
1 TTTTAAAAAATTAAATTAA
*
129950 TTTTAAAAACATATAAATTTA
1 TTTTAAAAA-AT-TAAATTAA
129971 -TTTAAAAA
1 TTTTAAAAA
129979 TTCATTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 9 0.35
20 10 0.38
21 7 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTTAAAAAATTAAATTAA
Found at i:133185 original size:14 final size:15
Alignment explanation
Indices: 133148--133197 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
133138 TCTATTTCTA
*
133148 TTCTCTGTTTGTTT-C
1 TTCTTTGTTT-TTTGC
133163 TTCTTTGTTTTTTGC
1 TTCTTTGTTTTTTGC
*
133178 TT-TTTGTTTTCTGC
1 TTCTTTGTTTTTTGC
133192 TTCTTT
1 TTCTTT
133198 TTTGTTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 16 0.52
15 15 0.48
ACGTcount: A:0.00, C:0.16, G:0.12, T:0.72
Consensus pattern (15 bp):
TTCTTTGTTTTTTGC
Found at i:135381 original size:147 final size:147
Alignment explanation
Indices: 135186--135481 Score: 574
Period size: 147 Copynumber: 2.0 Consensus size: 147
135176 TTAATCATCT
135186 AATTTACCGAGTTCATTTTTTTGTCATTTCTCCATCACTTACGATTAAGACTTAGATGATAGAAG
1 AATTTACCGAGTTCATTTTTTTGTCATTTCTCCATCACTTACGATTAAGACTTAGATGATAGAAG
135251 GCGTATAAGTTTAAAAATGATATAATAATATATTTAGTCCTTAATAATTACATATTTTATTAATT
66 GCGTATAAGTTTAAAAATGATATAATAATATATTTAGTCCTTAATAATTACATATTTTATTAATT
135316 TGATTATGATTATAAAA
131 TGATTATGATTATAAAA
* *
135333 AATTTACCGAGTTCATTTTTTTGTCATTTTTCCATCACTTACGATTAAGACTTGGATGATAGAAG
1 AATTTACCGAGTTCATTTTTTTGTCATTTCTCCATCACTTACGATTAAGACTTAGATGATAGAAG
135398 GCGTATAAGTTTAAAAATGATATAATAATATATTTAGTCCTTAATAATTACATATTTTATTAATT
66 GCGTATAAGTTTAAAAATGATATAATAATATATTTAGTCCTTAATAATTACATATTTTATTAATT
135463 TGATTATGATTATAAAA
131 TGATTATGATTATAAAA
135480 AA
1 AA
135482 ATTAACTCTC
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 147 1.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (147 bp):
AATTTACCGAGTTCATTTTTTTGTCATTTCTCCATCACTTACGATTAAGACTTAGATGATAGAAG
GCGTATAAGTTTAAAAATGATATAATAATATATTTAGTCCTTAATAATTACATATTTTATTAATT
TGATTATGATTATAAAA
Found at i:139803 original size:11 final size:11
Alignment explanation
Indices: 139789--139827 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
139779 AATATAATAG
139789 CAAAATTACAT
1 CAAAATTACAT
* * *
139800 CAAAATGATAG
1 CAAAATTACAT
139811 CAAAATTACAT
1 CAAAATTACAT
139822 CAAAAT
1 CAAAAT
139828 GGTAGCAAAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.23
Consensus pattern (11 bp):
CAAAATTACAT
Found at i:139810 original size:22 final size:22
Alignment explanation
Indices: 139785--139836 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
139775 TAACAATATA
139785 ATAGCAAAATTACATCAAAATG
1 ATAGCAAAATTACATCAAAATG
139807 ATAGCAAAATTACATCAAAATG
1 ATAGCAAAATTACATCAAAATG
*
139829 GTAGCAAA
1 ATAGCAAA
139837 CAACAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.54, C:0.13, G:0.12, T:0.21
Consensus pattern (22 bp):
ATAGCAAAATTACATCAAAATG
Found at i:139965 original size:19 final size:20
Alignment explanation
Indices: 139918--139965 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
139908 AAAATAGACC
*
139918 TTAT-TTTTTATTCGAACTT
1 TTATATTTTTATTCGAAATT
139937 TTATATTTTTATTC-AAATT
1 TTATATTTTTATTCGAAATT
*
139956 TTCTATTTTT
1 TTATATTTTT
139966 TAAGTGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (20 bp):
TTATATTTTTATTCGAAATT
Found at i:139966 original size:20 final size:19
Alignment explanation
Indices: 139918--139967 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
139908 AAAATAGACC
*
139918 TTATTTTTTATTCGAACTT
1 TTATTTTTTATTCAAACTT
*
139937 TTATATTTTTATTCAAATTT
1 TTAT-TTTTTATTCAAACTT
139957 TCTATTTTTTA
1 T-TATTTTTTA
139968 AGTGAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 4 0.15
20 20 0.74
21 3 0.11
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (19 bp):
TTATTTTTTATTCAAACTT
Found at i:152337 original size:22 final size:22
Alignment explanation
Indices: 152312--152387 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
152302 AGATATGTAT
152312 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
152334 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
152358 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
152381 ATGTGAT
1 ATGTGAT
152388 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:152362 original size:25 final size:25
Alignment explanation
Indices: 152334--152412 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
152324 CGAATGGCCA
152334 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * ***
152359 ATGTGAT-AAGGCCG-AA-TGGCCA-
1 ATGTGATGAATG-TGAAAGTGTATAT
152381 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
152406 ATGTGAT
1 ATGTGAT
152413 AAGGCCGGGT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 15 0.38
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:152362 original size:47 final size:47
Alignment explanation
Indices: 152309--152603 Score: 466
Period size: 47 Copynumber: 6.3 Consensus size: 47
152299 ACAAGATATG
152309 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
152356 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
** * *
152403 TATATGTGATAAGGCCGGGTGGCCAACGTGATGAATGTGAAAGTGTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
152450 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
152497 TATATTTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * *
152544 TATATGAT-ATAAGACCTAATGGCTATTGTGATGGATGTGAAAGTGTA
1 TATATG-TGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
152591 TAAATGTGATAAG
1 TATATGTGATAAG
152604 TCCCGAAGGG
Statistics
Matches: 228, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 1 0.00
47 226 0.99
48 1 0.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:156306 original size:19 final size:20
Alignment explanation
Indices: 156251--156309 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 20
156241 ATTGGGTGTA
156251 TCAGTTCTTACGAGCTTCTGT
1 TCAGTT-TTACGAGCTTCTGT
*
156272 TTAGCTTTTACGAGCTTCTGT
1 TCAG-TTTTACGAGCTTCTGT
156293 TCAGTTTT-CGAGCTTCT
1 TCAGTTTTACGAGCTTCT
156310 ATTGGTGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.26
20 4 0.11
21 20 0.57
22 2 0.06
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (20 bp):
TCAGTTTTACGAGCTTCTGT
Found at i:164700 original size:29 final size:29
Alignment explanation
Indices: 164601--164700 Score: 87
Period size: 31 Copynumber: 3.3 Consensus size: 29
164591 CCTTAAAAAG
* *
164601 TAAAATTTTAATTTAATTCCTTTAAAAATAA
1 TAAAATTAT-ATTTAATTTC-TTAAAAATAA
* *
164632 TAAAATTATGTTTTAAATTTCTTAAATATAA
1 TAAAATTAT-ATTT-AATTTCTTAAAAATAA
* *
164663 -AAAAATATATTT-ATTTTTTCAAAAATAA
1 TAAAATTATATTTAATTTCTT-AAAAATAA
164691 TAAAATTATA
1 TAAAATTATA
164701 AATTAATATA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
27 6 0.11
28 7 0.12
29 11 0.20
30 7 0.12
31 20 0.36
32 5 0.09
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (29 bp):
TAAAATTATATTTAATTTCTTAAAAATAA
Found at i:171898 original size:16 final size:17
Alignment explanation
Indices: 171877--171920 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
171867 TGTTTACTTA
171877 ATTTTATTTA-TTAAAC
1 ATTTTATTTATTTAAAC
* *
171893 ATTTTATTAATTTAAAT
1 ATTTTATTTATTTAAAC
171910 ATTTTAGTTTA
1 ATTTTA-TTTA
171921 GAATAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 9 0.39
17 11 0.48
18 3 0.13
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTTTATTTATTTAAAC
Found at i:172488 original size:22 final size:22
Alignment explanation
Indices: 172455--172536 Score: 94
Period size: 22 Copynumber: 3.6 Consensus size: 22
172445 ATATAATGTG
172455 AATTCTAATTTTAAAAAATTATT
1 AATT-TAATTTTAAAAAATTATT
*
172478 AATTTAATTTTAAATAAAATATT
1 AATTTAATTTTAAA-AAATTATT
* *
172501 AAAATT-ATTTTATAAAATTATT
1 -AATTTAATTTTAAAAAATTATT
*
172523 AATTTAAGTTTAAA
1 AATTTAATTTTAAA
172537 TAAAAGTGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
21 4 0.08
22 23 0.47
23 18 0.37
24 4 0.08
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (22 bp):
AATTTAATTTTAAAAAATTATT
Found at i:172539 original size:24 final size:23
Alignment explanation
Indices: 172455--172541 Score: 83
Period size: 23 Copynumber: 3.8 Consensus size: 23
172445 ATATAATGTG
*
172455 AATTCTAATTTTAA-AAAATTATT
1 AATT-TAATTTAAATAAAATTATT
172478 AATTTAATTTTAAATAAAA-TATT
1 AATTTAA-TTTAAATAAAATTATT
* *
172501 AAAATT-ATTT-TATAAAATTATT
1 -AATTTAATTTAAATAAAATTATT
172523 AATTTAAGTTTAAATAAAA
1 AATTTAA-TTTAAATAAAA
172542 GTGGTTAGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
21 10 0.19
22 11 0.21
23 17 0.33
24 14 0.27
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (23 bp):
AATTTAATTTAAATAAAATTATT
Found at i:174586 original size:2 final size:2
Alignment explanation
Indices: 174579--174615 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
174569 CAAAGTAAAA
*
174579 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
174616 TCAAAAAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:175678 original size:21 final size:21
Alignment explanation
Indices: 175644--175685 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
175634 GAAATATAAG
**
175644 TATAAATATTATAATTAAAAA
1 TATAAATAACATAATTAAAAA
*
175665 TATAAATAACATAATTCAAAA
1 TATAAATAACATAATTAAAAA
175686 CTTGATTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
TATAAATAACATAATTAAAAA
Found at i:185062 original size:46 final size:47
Alignment explanation
Indices: 184980--185162 Score: 109
Period size: 53 Copynumber: 3.6 Consensus size: 47
184970 TTGCACATAG
* ** * *
184980 TCACATATCACATACCGAGGCCATAGCCTTGCCATGGTCTTACACGGT
1 TCACATAT-ACATACCGAAGCCATAGCCCAGACATGGTATTACACGGT
* * *
185028 TCACATAT-CATACCGAAGCCATATCCCAGACATGGTATTATACGGAA
1 TCACATATACATACCGAAGCCATAGCCCAGACATGGTATTACACGG-T
* * * *
185075 TCACATTATCACATTATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAG
1 TCACA-TAT-AC---ATACCGAAGCCATAGCCCAGAC-ATGGTATTACACGG-T
*
185128 TCACATTATCACATTGCACCGATGCCATAGCCCAG
1 TCACA-TAT-ACA-T--ACCGAAGCCATAGCCCAG
185163 CTATGGTCTT
Statistics
Matches: 112, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
46 30 0.27
47 5 0.04
48 11 0.10
50 2 0.02
51 1 0.01
52 1 0.01
53 62 0.55
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (47 bp):
TCACATATACATACCGAAGCCATAGCCCAGACATGGTATTACACGGT
Found at i:185109 original size:53 final size:53
Alignment explanation
Indices: 185028--185178 Score: 196
Period size: 53 Copynumber: 2.8 Consensus size: 53
185018 CTTACACGGT
* *
185028 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTATTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTATTATACGGAATCACATTA
* *
185083 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTATTATACGGAATCACATTA
** * *
185136 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTATTATACGG
185179 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTATTATACGGAATCACATTA
Found at i:192392 original size:46 final size:47
Alignment explanation
Indices: 192310--192402 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 47
192300 TTGCACATAG
* ** * *
192310 TCACATATCATATACCGAGGCCATAGCCTTGCCATGGTCTTACACGGT
1 TCACATATCA-ATACCGAAGCCATAGCCCAGACATGGTATTACACGGT
* *
192358 TCACATATC-ATACCGAAGCCATATCCCAGACATGGTATTATACGG
1 TCACATATCAATACCGAAGCCATAGCCCAGACATGGTATTACACGG
192403 AATCACATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 29 0.76
48 9 0.24
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (47 bp):
TCACATATCAATACCGAAGCCATAGCCCAGACATGGTATTACACGGT
Found at i:192500 original size:53 final size:53
Alignment explanation
Indices: 192369--192503 Score: 182
Period size: 53 Copynumber: 2.5 Consensus size: 53
192359 CACATATCAT
* * * *
192369 ACCGAAGCCATATCCCAGAC-ATGGTATTATACGGAATCACATTATCACATTAT
1 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTATCACATTAC
* * *
192422 ACCGATGCCATAGCCTAGCTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
*
192475 ATCGATGCCATAGCCCAGCTATGGTCTTA
1 ACCGATGCCATAGCCCAGCTATGGTCTTA
192504 AACGAGCGCA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 1 0.01
53 71 0.99
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
Found at i:194747 original size:23 final size:23
Alignment explanation
Indices: 194653--194758 Score: 91
Period size: 21 Copynumber: 4.9 Consensus size: 23
194643 TGATCAATAG
194653 ACGACACAT-AAGTGCCTGA-A-
1 ACGACACATAAAGTGCCTGATAT
** *
194673 ACGACACACGAGGTGCCT-A-AT
1 ACGACACATAAAGTGCCTGATAT
* ** * *
194694 ACGAAACACGAGGTGCGTGATAT
1 ACGACACATAAAGTGCCTGATAT
194717 --GACACATAAAGTGCCTGATAT
1 ACGACACATAAAGTGCCTGATAT
194738 ACGACACATAAAGTGCCTGAT
1 ACGACACATAAAGTGCCTGAT
194759 CGGCAAAGCC
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.14
21 39 0.55
22 1 0.01
23 21 0.30
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (23 bp):
ACGACACATAAAGTGCCTGATAT
Found at i:195038 original size:103 final size:103
Alignment explanation
Indices: 194859--195071 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
194849 ATTACTTTTC
*
194859 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTTAATTCACTTTTCAATA
1 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
*
194924 ACAAATATTCGATTTCACAATAGTCACTTATTTATACT
66 ACAAATATTCGATTTCACAATAGTCACTTATTCATACT
* *
194962 AATTTCGATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCATTTTTCAATA
1 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
*
195027 ACAAATATTCGATTTCACAATAGTCATTTATTCATACT
66 ACAAATATTCGATTTCACAATAGTCACTTATTCATACT
195065 AATTTCA
1 AATTTCA
195072 TCACGTTTCT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (103 bp):
AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
ACAAATATTCGATTTCACAATAGTCACTTATTCATACT
Found at i:205785 original size:18 final size:19
Alignment explanation
Indices: 205757--205810 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
205747 ATAATATAAT
205757 TATTTAATTAATAAATATC
1 TATTTAATTAATAAATATC
* *
205776 T-TTTACTTAATAATTATC
1 TATTTAATTAATAAATATC
205794 TATTTAA-TAACTAAATA
1 TATTTAATTAA-TAAATA
205811 GAAGTATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTTAATTAATAAATATC
Found at i:206023 original size:20 final size:20
Alignment explanation
Indices: 205983--206019 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
205973 TTACAAATGT
205983 ATGTATAATATTTATTACAC
1 ATGTATAATATTTATTACAC
*
206003 ATGTAT-ATTTTTATTAC
1 ATGTATAATATTTATTAC
206020 CACACATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.51
Consensus pattern (20 bp):
ATGTATAATATTTATTACAC
Found at i:206303 original size:28 final size:28
Alignment explanation
Indices: 206268--206323 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
206258 AATTTAAGCT
206268 AATTCACCTTATTAAACTCTAATTAATC
1 AATTCACCTTATTAAACTCTAATTAATC
206296 AATTCACCTTATTAAACTCTAATTAATC
1 AATTCACCTTATTAAACTCTAATTAATC
206324 GCTCAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (28 bp):
AATTCACCTTATTAAACTCTAATTAATC
Found at i:207435 original size:20 final size:20
Alignment explanation
Indices: 207398--207436 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
207388 ATTTCATGCA
*
207398 GAATCTTCTGTATAAGCTTT
1 GAATCTTCAGTATAAGCTTT
207418 GAATCCTTCAGTAT-AGCTT
1 GAAT-CTTCAGTATAAGCTT
207437 CTTTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (20 bp):
GAATCTTCAGTATAAGCTTT
Found at i:210727 original size:21 final size:21
Alignment explanation
Indices: 210703--210750 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
210693 TGCTTGAAAC
*
210703 GACACACGAGGTGCCTAATAT
1 GACACACGAGGTACCTAATAT
* *
210724 GACACACGAGGTACGTGATAT
1 GACACACGAGGTACCTAATAT
210745 GACACA
1 GACACA
210751 TAAAGTGCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (21 bp):
GACACACGAGGTACCTAATAT
Found at i:210979 original size:17 final size:17
Alignment explanation
Indices: 210959--211004 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
210949 TAGTCACTTA
210959 TTCATACT-AATTTCAAT
1 TTCATACTCAATTT-AAT
*
210976 TTCATTCTCAATTTAAT
1 TTCATACTCAATTTAAT
*
210993 TACA-ACTCAATT
1 TTCATACTCAATT
211005 CAATATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 7 0.28
17 13 0.52
18 5 0.20
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.46
Consensus pattern (17 bp):
TTCATACTCAATTTAAT
Found at i:211027 original size:103 final size:103
Alignment explanation
Indices: 210864--211076 Score: 417
Period size: 103 Copynumber: 2.1 Consensus size: 103
210854 ATTACTTTTC
210864 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
1 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
210929 ACAAATATTCGATTTCACAATAGTCACTTATTCATACT
66 ACAAATATTCGATTTCACAATAGTCACTTATTCATACT
*
210967 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCATTTTTCAATA
1 AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
211032 ACAAATATTCGATTTCACAATAGTCACTTATTCATACT
66 ACAAATATTCGATTTCACAATAGTCACTTATTCATACT
211070 AATTTCA
1 AATTTCA
211077 TCACATTTCT
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (103 bp):
AATTTCAATTTCATTCTCAATTTAATTACAACTCAATTCAATATAATTCAATTCACTTTTCAATA
ACAAATATTCGATTTCACAATAGTCACTTATTCATACT
Found at i:211065 original size:49 final size:49
Alignment explanation
Indices: 210909--211065 Score: 108
Period size: 49 Copynumber: 3.1 Consensus size: 49
210899 ATTCAATATA
*
210909 ATTCAATTCACTTTTCAATAACAAATATTCGATTTCACAATAGTCACTT
1 ATTCAATTCATTTTTCAATAACAAATATTCGATTTCACAATAGTCACTT
* * ** * * * *
210958 ATTC-ATAC-TAATTTCAATTTC--AT-TCTCAATTTAATTACAACTCAATTCAATAT
1 ATTCAATTCAT-TTTTCAATAACAAATAT-TCGA-TT--TCACAA-T--AGTCACT-T
211011 AATTCAATTCATTTTTCAATAACAAATATTCGATTTCACAATAGTCACTT
1 -ATTCAATTCATTTTTCAATAACAAATATTCGATTTCACAATAGTCACTT
211061 ATTCA
1 ATTCA
211066 TACTAATTTC
Statistics
Matches: 76, Mismatches: 17, Indels: 30
0.62 0.14 0.24
Matches are distributed among these distances:
45 1 0.01
46 5 0.07
47 2 0.03
48 11 0.14
49 14 0.18
50 2 0.03
51 5 0.07
52 5 0.07
53 2 0.03
54 9 0.12
55 11 0.14
56 3 0.04
57 5 0.07
58 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.41
Consensus pattern (49 bp):
ATTCAATTCATTTTTCAATAACAAATATTCGATTTCACAATAGTCACTT
Found at i:212022 original size:19 final size:18
Alignment explanation
Indices: 211974--212029 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
211964 TTATTTACTT
211974 TATTTAATTAATATACAATAA
1 TATTT-ATTAATAT--AATAA
*
211995 TACTT-TTAATATAATAA
1 TATTTATTAATATAATAA
212012 TATTTACTTAA-ATAATAA
1 TATTTA-TTAATATAATAA
212030 GTAAATACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 9 0.29
18 7 0.23
19 11 0.35
21 4 0.13
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTTATTAATATAATAA
Found at i:216805 original size:13 final size:13
Alignment explanation
Indices: 216787--216817 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
216777 CATGCATTTG
*
216787 ATTTATTTTATTA
1 ATTTATTTTACTA
216800 ATTTATTTTACTA
1 ATTTATTTTACTA
216813 ATTTA
1 ATTTA
216818 CAAAACTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTTATTTTACTA
Found at i:218986 original size:18 final size:19
Alignment explanation
Indices: 218947--218985 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
218937 CTCAAAAATA
*
218947 TTTATGAAAATAGATTGAT
1 TTTATGAAAATAGATTAAT
218966 TTTATGAAAA-AG-TTAAT
1 TTTATGAAAATAGATTAAT
218983 TTT
1 TTT
218986 TTTGGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (19 bp):
TTTATGAAAATAGATTAAT
Found at i:221046 original size:46 final size:46
Alignment explanation
Indices: 220994--221169 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
220984 TGGTTGAGCA
220994 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
221040 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
221085 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
221133 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
221170 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 64 0.58
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:221150 original size:93 final size:93
Alignment explanation
Indices: 220991--221161 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
220981 GGATGGTTGA
* **
220991 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
221056 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
221084 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
221149 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
221162 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:222816 original size:19 final size:19
Alignment explanation
Indices: 222792--222841 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
222782 CGGGTTTGGG
222792 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
222811 ACACGGGCGTGTCCCTAGC
1 ACACGGGCGTGTCCCTAGC
222830 ACACGGGCGTGT
1 ACACGGGCGTGT
222842 GCTCTATACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (19 bp):
ACACGGGCGTGTCCCTAGC
Found at i:225710 original size:35 final size:34
Alignment explanation
Indices: 225654--225750 Score: 122
Period size: 35 Copynumber: 2.8 Consensus size: 34
225644 TTTCCTTATT
* *
225654 GAAATACCATACCTACATTTCACAACTCGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTAT-G
* *
225689 GAAATGCCATATCTACGTTTCACAACTCAGTATG
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
* *
225723 GATGATACCATACCTATGTTTCACAACT
1 GA-AATACCATACCTACGTTTCACAACT
225751 TTGCCATGGA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
34 3 0.06
35 50 0.94
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATG
Found at i:234572 original size:10 final size:10
Alignment explanation
Indices: 234557--234588 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
234547 TAAATACAAT
234557 TAATTAAAGA
1 TAATTAAAGA
234567 TAATTAAAGA
1 TAATTAAAGA
234577 TAATTAAA-A
1 TAATTAAAGA
234586 TAA
1 TAA
234589 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:234614 original size:27 final size:26
Alignment explanation
Indices: 234584--234645 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
234574 AGATAATTAA
234584 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
234611 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
234638 AATAAAAT
1 AATAAAAT
234646 AGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:236230 original size:8 final size:8
Alignment explanation
Indices: 236209--236263 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
236199 TTAATATATG
236209 AAAATAAT
1 AAAATAAT
236217 -AAATAAT
1 AAAATAAT
236224 AAAATAAT
1 AAAATAAT
*
236232 AAGATAA-
1 AAAATAAT
*
236239 AATAATAAA
1 AA-AATAAT
*
236248 AATAAAAAT
1 AA-AATAAT
236257 AAAATAA
1 AAAATAA
236264 AAATTGGGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
7 9 0.23
8 21 0.54
9 9 0.23
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (8 bp):
AAAATAAT
Found at i:236257 original size:15 final size:14
Alignment explanation
Indices: 236209--236265 Score: 68
Period size: 13 Copynumber: 4.3 Consensus size: 14
236199 TTAATATATG
236209 AAAATAATAAATAAT
1 AAAATAATAAA-AAT
*
236224 AAAATAAT-AAGAT
1 AAAATAATAAAAAT
236237 AAAATAATAAAAAT
1 AAAATAATAAAAAT
236251 -AAA-AAT-AAAAT
1 AAAATAATAAAAAT
236262 AAAA
1 AAAA
236266 ATTGGGTTGC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
11 5 0.13
12 6 0.16
13 13 0.34
14 6 0.16
15 8 0.21
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (14 bp):
AAAATAATAAAAAT
Found at i:239963 original size:20 final size:20
Alignment explanation
Indices: 239940--239987 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
239930 TAAATTCTAA
*
239940 AAAGATAAATACAA-TTAATT
1 AAAGATAAATA-AAGATAATT
239960 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
239980 AAA-ATAAA
1 AAAGATAAA
239988 ATCTTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:248368 original size:27 final size:27
Alignment explanation
Indices: 248338--248389 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
248328 GTACGTGGTC
*
248338 GCTCCAAAGGGACATCTGAGGGTAGTG
1 GCTCCAAAGGGACATCTGAGCGTAGTG
*
248365 GCTCCAAAGGGACCTCTGAGCGTAG
1 GCTCCAAAGGGACATCTGAGCGTAG
248390 AGCAAGGCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.35, T:0.17
Consensus pattern (27 bp):
GCTCCAAAGGGACATCTGAGCGTAGTG
Done.