Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011702.1 Kokia drynarioides strain JFW-HI SEQ_126696, 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: 330312
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Warning! 3 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:2185 original size:192 final size:192
Alignment explanation
Indices: 1789--2232 Score: 443
Period size: 192 Copynumber: 2.3 Consensus size: 192
1779 CCAGTACTCG
* ** * * * * *
1789 ATGCAGCTCACACGAGCTATCGAGGACTCGCAATGTATGCGGTACCCCAACCATCGGTACGATGT
1 ATGCTGCTCACACGAGCTATCGAGGACTCGCAACATATGCAGTACCTCAACCATTGATACGATAT
* ** *
1854 CT--GTCTATACTGTAAAATGTTCCCTAACGATGCTGCTCACAGGAGCTGTCGAGAGTATGCATA
66 CTACG-C-ATA---T--AA-CTTCCCTAACGATGCTGCTCACACAAGCTGTCGAGAATATGCATA
* *
1917 AAGCATAGTCTCAGCCATCGTAGGGCCTATAATAATCCATTTAGAATTCATATCTCTTTCCCAAG
123 AAGCATAATCTCAGCCATCGTAGGGCCTATAATAATCCATTTAGAATTCATATCTCTTTCCCAAC
*
1982 TCACG
188 TCACA
* * *
1987 ATGCTGCTCACATGAGCTATCGAGGACTTGCAACATATGC-GATACCTCAGCCATTGATACGATA
1 ATGCTGCTCACACGAGCTATCGAGGACTCGCAACATATGCAG-TACCTCAACCATTGATACGATA
* * *
2051 TCTACGCATATAACTTCCCTAACGATGTTGCTCACACAAGCTGTCGAGAAT-TGCACTTATGCAT
65 TCTACGCATATAACTTCCCTAACGATGCTGCTCACACAAGCTGTCGAGAATATGCA-TAAAGCAT
* * * * * * * **
2115 AAATCTCTGCCATCGTA-GGCC-CT-GTAATCCATTCTTGGATTCTTTTCTCATTTCCTGACTCA
129 -AATCTCAGCCATCGTAGGGCCTATAATAATCCATT-TAGAATTCATATCTC-TTTCCCAACTCA
2177 CA
191 CA
*
2179 ATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCAGTACCTCAACCAT
1 ATGCTGCTCACACGAGCTATCGAGGACTCGCAACATATGCAGTACCTCAACCAT
2233 CGCGTCAGTT
Statistics
Matches: 205, Mismatches: 33, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
190 9 0.04
191 16 0.08
192 101 0.49
193 17 0.08
195 1 0.00
197 1 0.00
198 58 0.28
199 1 0.00
200 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (192 bp):
ATGCTGCTCACACGAGCTATCGAGGACTCGCAACATATGCAGTACCTCAACCATTGATACGATAT
CTACGCATATAACTTCCCTAACGATGCTGCTCACACAAGCTGTCGAGAATATGCATAAAGCATAA
TCTCAGCCATCGTAGGGCCTATAATAATCCATTTAGAATTCATATCTCTTTCCCAACTCACA
Found at i:4727 original size:16 final size:16
Alignment explanation
Indices: 4703--4734 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4693 TCCTTGCAAA
*
4703 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
4719 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
4735 AAAAATCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:9134 original size:2 final size:2
Alignment explanation
Indices: 9127--9156 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9117 GTCTCAAGAA
*
9127 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9157 GTAAAAGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14193 original size:26 final size:24
Alignment explanation
Indices: 14139--14195 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
14129 AAGCTCAAGC
*
14139 ACAAAAAAAAAAAGGAAAAAATAA
1 ACAAAAAAAAAAAGGAAAAAACAA
**
14163 ACAAAAACAAAAAATTAAAAAACAA
1 ACAAAAA-AAAAAAGGAAAAAACAA
14188 AGCAAAAA
1 A-CAAAAA
14196 TTTCTATGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 7 0.25
25 15 0.54
26 6 0.21
ACGTcount: A:0.81, C:0.09, G:0.05, T:0.05
Consensus pattern (24 bp):
ACAAAAAAAAAAAGGAAAAAACAA
Found at i:19310 original size:21 final size:22
Alignment explanation
Indices: 19263--19310 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
19253 AGCTTCCTGC
* * *
19263 TGAGTTGGGGTAGTCTTTTGAT
1 TGAGTTAGGGTAGCCTATTGAT
19285 T-AGTTAGGGTAGCCTATTG-T
1 TGAGTTAGGGTAGCCTATTGAT
19305 TGAGTT
1 TGAGTT
19311 GCGACAACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 2 0.09
21 19 0.86
22 1 0.05
ACGTcount: A:0.17, C:0.06, G:0.33, T:0.44
Consensus pattern (22 bp):
TGAGTTAGGGTAGCCTATTGAT
Found at i:23334 original size:33 final size:34
Alignment explanation
Indices: 23292--23364 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 34
23282 TAAAAATTCG
* * * *
23292 ATAAAAAAATATATAATTATTAAATATTAAAATA
1 ATAATAAAATAAATAATTATTAAAAAATAAAATA
* *
23326 A-AATAAAATAAATATTTTTTAAAAAATAAAATA
1 ATAATAAAATAAATAATTATTAAAAAATAAAATA
23359 ATAATA
1 ATAATA
23365 TGGATGGCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (34 bp):
ATAATAAAATAAATAATTATTAAAAAATAAAATA
Found at i:23955 original size:22 final size:21
Alignment explanation
Indices: 23913--23955 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
23903 TAATTTTAAT
*
23913 TTTAATTTAAAAGAAAGTTTA
1 TTTAATTTAAAACAAAGTTTA
23934 TTTAATCTTCAAAACAAA-TTTA
1 TTTAAT-TT-AAAACAAAGTTTA
23956 AATTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
23 7 0.37
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TTTAATTTAAAACAAAGTTTA
Found at i:27930 original size:16 final size:17
Alignment explanation
Indices: 27897--27930 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
27887 TTTATAATAC
27897 TTTATATTATGTTATTT
1 TTTATATTATGTTATTT
27914 TTTATATTATG-TATTT
1 TTTATATTATGTTATTT
27930 T
1 T
27931 AAAACACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTATATTATGTTATTT
Found at i:43570 original size:36 final size:36
Alignment explanation
Indices: 43503--43578 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
43493 TATCAAGCAC
* ** * *
43503 ATCATATAGCTTAATTTATCAGATAATATTTACCAT
1 ATCATATAGCATAATCAATCAAATAACATTTACCAT
*
43539 ATCATATAGCATAATCAATCAAATAACATTTATCAT
1 ATCATATAGCATAATCAATCAAATAACATTTACCAT
43575 ATCA
1 ATCA
43579 CGCATATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37
Consensus pattern (36 bp):
ATCATATAGCATAATCAATCAAATAACATTTACCAT
Found at i:43894 original size:45 final size:45
Alignment explanation
Indices: 43765--44125 Score: 229
Period size: 45 Copynumber: 7.5 Consensus size: 45
43755 ATCATGTGTG
* *
43765 TCGTATAGTATAATCAATCAAATAATATTTACCATATCACACATA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATACATA
** * * *
43810 TAATATAACATAATCAATCAAATAATATCTACCATATCATGCATA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATACATA
* * *
43855 TCGTATAGCATACTTAATCAAATAATATTTACCATATCATACTTAA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATACAT-A
** * * * ** *
43901 TCAAATAGTATTTACCACATCATACATAACATAATCAATCAAATAAT-ATTTATCATA
1 TCGTATAGCA-TAATCA-ATCA-A-AT-A-AT-ATTTA-C-CAT-ATCA--TA-CATA
* * * * *
43958 TCATGCATATCGTTTAGCATAATTAACCCAATAATATTTACCATATCATACAAA
1 TC--GTAT-------AGCATAATCAATCAAATAATATTTACCATATCATACATA
* *
44012 TCGTATAGCATAATCAATCAAATAATATTTACCATGTCATGCATA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATACATA
* * * * *
44057 TCGTATAGCATAATCAACCAAATAACATTGATCATATCATACGTA
1 TCGTATAGCATAATCAATCAAATAATATTTACCATATCATACATA
*
44102 TCGTATAGCATAATTAATCAAATA
1 TCGTATAGCATAATCAATCAAATA
44126 CTAACTTACC
Statistics
Matches: 238, Mismatches: 54, Indels: 48
0.70 0.16 0.14
Matches are distributed among these distances:
45 167 0.70
46 8 0.03
47 2 0.01
48 4 0.02
49 1 0.00
50 2 0.01
51 1 0.00
52 5 0.02
53 3 0.01
54 6 0.03
55 5 0.02
56 4 0.02
57 8 0.03
58 3 0.01
59 5 0.02
60 2 0.01
61 1 0.00
62 2 0.01
63 1 0.00
64 2 0.01
65 3 0.01
66 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (45 bp):
TCGTATAGCATAATCAATCAAATAATATTTACCATATCATACATA
Found at i:43895 original size:29 final size:29
Alignment explanation
Indices: 43863--43925 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
43853 TATCGTATAG
*
43863 CATACTTAATCAAATAATATTTACCATAT
1 CATACTTAATCAAATAATATTTACCACAT
*
43892 CATACTTAATCAAATAGTATTTACCACAT
1 CATACTTAATCAAATAATATTTACCACAT
43921 CATAC
1 CATAC
43926 ATAACATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.35
Consensus pattern (29 bp):
CATACTTAATCAAATAATATTTACCACAT
Found at i:44093 original size:90 final size:90
Alignment explanation
Indices: 43930--44125 Score: 293
Period size: 90 Copynumber: 2.2 Consensus size: 90
43920 TCATACATAA
* * * * *
43930 CATAATCAATCAAATAATATTTATCATATCATGCATATCGTTTAGCATAATTAACCCAATAATAT
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATAATCAACCAAATAACAT
*
43995 TTACCATATCATACAAATCGTATAG
66 TGACCATATCATACAAATCGTATAG
*
44020 CATAATCAATCAAATAATATTTACCATGTCATGCATATCGTATAGCATAATCAACCAAATAACAT
1 CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATAATCAACCAAATAACAT
* **
44085 TGATCATATCATACGTATCGTATAG
66 TGACCATATCATACAAATCGTATAG
*
44110 CATAATTAATCAAATA
1 CATAATCAATCAAATA
44126 CTAACTTACC
Statistics
Matches: 95, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 95 1.00
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (90 bp):
CATAATCAATCAAATAATATTTACCATATCATGCATATCGTATAGCATAATCAACCAAATAACAT
TGACCATATCATACAAATCGTATAG
Found at i:44142 original size:45 final size:45
Alignment explanation
Indices: 43930--44148 Score: 226
Period size: 45 Copynumber: 4.8 Consensus size: 45
43920 TCATACATAA
* * * *
43930 CATAATCAATCAAATAATATTTATCATATCATGCATATCGTTTAG
1 CATAATCAATCAAATAATACTTACCATATCATACATATCGTATAG
* * * * *
43975 CATAATTAACCCAATAATATTTACCATATCATACAAATCGTATAG
1 CATAATCAATCAAATAATACTTACCATATCATACATATCGTATAG
* * *
44020 CATAATCAATCAAATAATATTTACCATGTCATGCATATCGTATAG
1 CATAATCAATCAAATAATACTTACCATATCATACATATCGTATAG
* * * *
44065 CATAATCAACCAAATAACA-TTGATCATATCATACGTATCGTATAG
1 CATAATCAATCAAATAATACTT-ACCATATCATACATATCGTATAG
* * *
44110 CATAATTAATCAAATACTAACTTACCGT-TCATATCATAT
1 CATAATCAATCAAATAAT-ACTTACCATATCATA-CATAT
44149 AGCATGCTCC
Statistics
Matches: 144, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
44 2 0.01
45 132 0.92
46 8 0.06
47 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (45 bp):
CATAATCAATCAAATAATACTTACCATATCATACATATCGTATAG
Found at i:44644 original size:28 final size:28
Alignment explanation
Indices: 44613--44884 Score: 215
Period size: 28 Copynumber: 9.6 Consensus size: 28
44603 CAGTATTTTT
* *
44613 TTTGAAAAATAGTGGCAAAATTGTAAAT
1 TTTGAAAAATAGTGGCAAAACTGTAAAA
* *
44641 TTTGAAAAATTAATGGCAAAATTGTAAAA
1 TTTGAAAAA-TAGTGGCAAAACTGTAAAA
* * * *
44670 TTTGGAAAACAGTGGAAAAACTATAAAA
1 TTTGAAAAATAGTGGCAAAACTGTAAAA
* ** * *
44698 TCTGAAAACCAATGGCAAAACTATAAAA
1 TTTGAAAAATAGTGGCAAAACTGTAAAA
* * *
44726 TCTAAAAAATAGTGGCAAAATTGTAAAA
1 TTTGAAAAATAGTGGCAAAACTGTAAAA
* ** * *
44754 TCTAGAAAACCAATGGCAAAACTATAAAA
1 T-TTGAAAAATAGTGGCAAAACTGTAAAA
* * *
44783 TCT-AGAAAATAGTTGCAAAACTGAAAAA
1 TTTGA-AAAATAGTGGCAAAACTGTAAAA
* *
44811 TTTGAAAAGCTAGTGGCAAAATTGTAAAA
1 TTTGAAAA-ATAGTGGCAAAACTGTAAAA
* * *
44840 TCT-AGAAAATAGTGGCAAAAATATAAAA
1 TTTGA-AAAATAGTGGCAAAACTGTAAAA
*
44868 TTTGGAAAATAGTGGCA
1 TTTGAAAAATAGTGGCA
44885 GTTCGAATTT
Statistics
Matches: 191, Mismatches: 46, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
27 1 0.01
28 123 0.64
29 67 0.35
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.24
Consensus pattern (28 bp):
TTTGAAAAATAGTGGCAAAACTGTAAAA
Found at i:44776 original size:57 final size:57
Alignment explanation
Indices: 44618--44876 Score: 265
Period size: 57 Copynumber: 4.6 Consensus size: 57
44608 TTTTTTTTGA
* * ** * * * *
44618 AAAATAGTGGCAAAATTGT-AAATTTTGAAAAATTAATGGCAAAATTGTAAAATTTGG
1 AAAATAGTGGCAAAACTGTAAAATCTTG-AAAACCAATGGCAAAACTATAAAATCTAG
* * * *
44675 AAAACAGTGGAAAAACTATAAAATC-TGAAAACCAATGGCAAAACTATAAAATCTAA
1 AAAATAGTGGCAAAACTGTAAAATCTTGAAAACCAATGGCAAAACTATAAAATCTAG
* *
44731 AAAATAGTGGCAAAATTGTAAAATCTAGAAAACCAATGGCAAAACTATAAAATCTAG
1 AAAATAGTGGCAAAACTGTAAAATCTTGAAAACCAATGGCAAAACTATAAAATCTAG
* * * * * *
44788 AAAATAGTTGCAAAACTGAAAAAT-TTGAAAAGCTAGTGGCAAAATTGTAAAATCTAG
1 AAAATAGTGGCAAAACTGTAAAATCTTGAAAA-CCAATGGCAAAACTATAAAATCTAG
* *
44845 AAAATAGTGGCAAAAATATAAAAT-TTGGAAAA
1 AAAATAGTGGCAAAACTGTAAAATCTT-GAAAA
44877 TAGTGGCAGT
Statistics
Matches: 168, Mismatches: 30, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
56 49 0.29
57 110 0.65
58 9 0.05
ACGTcount: A:0.53, C:0.09, G:0.15, T:0.24
Consensus pattern (57 bp):
AAAATAGTGGCAAAACTGTAAAATCTTGAAAACCAATGGCAAAACTATAAAATCTAG
Found at i:44876 original size:85 final size:85
Alignment explanation
Indices: 44618--44884 Score: 308
Period size: 85 Copynumber: 3.1 Consensus size: 85
44608 TTTTTTTTGA
* * * * * * *
44618 AAAATAGTGGCAAAATTGTAAATTTTGAAAAATTAATGGCAAAATTGTAAAATTTGGAAAACAGT
1 AAAATAGTGGCAAAACTGAAAAATTTGAAAAAATAGTGGCAAAATTGTAAAATCTAGAAAACAGT
44683 GG-AAAAACTATAAAATCT-G
66 GGCAAAAA-TATAAAATCTGG
* * *
44702 AAAACCAATGGCAAAACT-ATAAAATCT-AAAAAATAGTGGCAAAATTGTAAAATCTAGAAAACC
1 AAAA-TAGTGGCAAAACTGA-AAAATTTGAAAAAATAGTGGCAAAATTGTAAAATCTAGAAAA-C
* * *
44765 AATGGCAAAACTATAAAATCTAG
63 AGTGGCAAAAATATAAAATCTGG
* ** *
44788 AAAATAGTTGCAAAACTGAAAAATTTGAAAAGCTAGTGGCAAAATTGTAAAATCTAGAAAATAGT
1 AAAATAGTGGCAAAACTGAAAAATTTGAAAAAATAGTGGCAAAATTGTAAAATCTAGAAAACAGT
*
44853 GGCAAAAATATAAAATTTGG
66 GGCAAAAATATAAAATCTGG
44873 AAAATAGTGGCA
1 AAAATAGTGGCA
44885 GTTCGAATTT
Statistics
Matches: 152, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
84 34 0.22
85 76 0.50
86 42 0.28
ACGTcount: A:0.52, C:0.09, G:0.16, T:0.24
Consensus pattern (85 bp):
AAAATAGTGGCAAAACTGAAAAATTTGAAAAAATAGTGGCAAAATTGTAAAATCTAGAAAACAGT
GGCAAAAATATAAAATCTGG
Found at i:45498 original size:63 final size:63
Alignment explanation
Indices: 45421--45547 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
45411 CTTTTCCCAT
45421 CAAGTCCATGTCCTCTAAACTAATTTATATATATATATTCTTGGGATGTTACACATTTACTAA
1 CAAGTCCATGTCCTCTAAACTAATTTATATATATATATTCTTGGGATGTTACACATTTACTAA
45484 CAAGTCCATGTCCTCTAAACTAATTTATATATATATATTCTTGGGATGTTACACATTTACTAA
1 CAAGTCCATGTCCTCTAAACTAATTTATATATATATATTCTTGGGATGTTACACATTTACTAA
45547 C
1 C
45548 CTAAAGAGAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.39
Consensus pattern (63 bp):
CAAGTCCATGTCCTCTAAACTAATTTATATATATATATTCTTGGGATGTTACACATTTACTAA
Found at i:52578 original size:18 final size:18
Alignment explanation
Indices: 52546--52595 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
52536 TAGTCATTTG
* * *
52546 AAAAATAAAAAAAAATGAG
1 AAAAAGAAAGAAAAA-GAA
*
52565 AAAAAGGAAGAAAAAGAA
1 AAAAAGAAAGAAAAAGAA
52583 AAAAAGAAAGAAA
1 AAAAAGAAAGAAA
52596 TTTTTGATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (18 bp):
AAAAAGAAAGAAAAAGAA
Found at i:56627 original size:39 final size:39
Alignment explanation
Indices: 56565--56772 Score: 195
Period size: 39 Copynumber: 5.4 Consensus size: 39
56555 AAGTTATCAA
* * * *
56565 AATACAATACTGAATTGGAAGTGACACTGTAAACACTGC
1 AATACAATATTGAACTAGCAGTGACACTGTAAACACTGC
*
56604 AATACAATAATGAACTAGCAGTGACACTGTAAACACTGC
1 AATACAATATTGAACTAGCAGTGACACTGTAAACACTGC
* * *** *
56643 AATACAATATTGAACTGGCAGTAATGTTGTAAACACTGT
1 AATACAATATTGAACTAGCAGTGACACTGTAAACACTGC
** * *
56682 AATACAATATTGAACTAGTGGTGACACTGTAAACACCGT
1 AATACAATATTGAACTAGCAGTGACACTGTAAACACTGC
** * * * *
56721 AACT-CAATGCT-AATTGGTAGTGACACTGTAACCACTGC
1 AA-TACAATATTGAACTAGCAGTGACACTGTAAACACTGC
*
56759 ATTACAATATTGAA
1 AATACAATATTGAA
56773 ATAACGGTGA
Statistics
Matches: 136, Mismatches: 30, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
37 1 0.01
38 27 0.20
39 107 0.79
40 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (39 bp):
AATACAATATTGAACTAGCAGTGACACTGTAAACACTGC
Found at i:57934 original size:22 final size:21
Alignment explanation
Indices: 57909--57962 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
57899 CATTTAAATT
*
57909 ATTGTAAAATTATTGCTTAAC
1 ATTGTAAAATCATTGCTTAAC
*
57930 AATTG-ATAAATCATTGTTTAAC
1 -ATTGTA-AAATCATTGCTTAAC
*
57952 ATTATAAAATC
1 ATTGTAAAATC
57963 TTTTAGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (21 bp):
ATTGTAAAATCATTGCTTAAC
Found at i:59750 original size:30 final size:28
Alignment explanation
Indices: 59685--59755 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 28
59675 AATAGCTTAT
* *
59685 ATTTTATAATTTTTAAAGGATTAAATCAA
1 ATTTTAT-ATTTTTAAAGAATAAAATCAA
59714 ATTTTTATCATTTTTAAGAGAATAAAAT-ACA
1 A-TTTTAT-ATTTTTAA-AGAATAAAATCA-A
59745 ATTTTATATTT
1 ATTTTATATTT
59756 ACTAATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 5 0.14
30 21 0.58
31 10 0.28
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (28 bp):
ATTTTATATTTTTAAAGAATAAAATCAA
Found at i:62537 original size:18 final size:20
Alignment explanation
Indices: 62499--62536 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62489 TTTTTCAAAA
*
62499 ATAAAAATTTTAGAATTTTT
1 ATAAATATTTTAGAATTTTT
62519 ATAAATATTTT-GAATTTT
1 ATAAATATTTTAGAATTTT
62537 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAGAATTTTT
Found at i:62542 original size:18 final size:19
Alignment explanation
Indices: 62500--62548 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
62490 TTTTCAAAAA
*
62500 TAAAAAT-TTTAGAATTTT
1 TAAAAATATTTTGAATTTT
*
62518 TATAAATATTTTGAA-TTT
1 TAAAAATATTTTGAATTTT
62536 TAAAAATTATTTT
1 TAAAAA-TATTTT
62549 CAAATTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
TAAAAATATTTTGAATTTT
Found at i:62546 original size:19 final size:20
Alignment explanation
Indices: 62505--62569 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
62495 AAAAATAAAA
*
62505 ATTTTAGAATTTTTATAAA-T
1 ATTTTAGAA-TTTTAAAAATT
62525 ATTTT-GAATTTTAAAAATT
1 ATTTTAGAATTTTAAAAATT
* *
62544 ATTTTCA-AATTTTGAACATT
1 ATTTT-AGAATTTTAAAAATT
62564 ATTTTA
1 ATTTTA
62570 ATTATTTTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 8 0.21
19 10 0.26
20 21 0.54
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTTTAGAATTTTAAAAATT
Found at i:65589 original size:22 final size:21
Alignment explanation
Indices: 65534--65599 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
65524 CAATATTCAA
*
65534 GGTTTAGTTTTAGGGTTAAAG
1 GGTTTAGATTTAGGGTTAAAG
* *
65555 GGTTTGGATTTTAGGGTTAAAT
1 GGTTTAGA-TTTAGGGTTAAAG
* *
65577 GGTTTAAGATTTAAGGTTTAAG
1 GGTTT-AGATTTAGGGTTAAAG
65599 G
1 G
65600 TTATAAGTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 6 0.17
22 28 0.78
23 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (21 bp):
GGTTTAGATTTAGGGTTAAAG
Found at i:66534 original size:13 final size:12
Alignment explanation
Indices: 66502--66526 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66492 CAATATTTTT
66502 ATAATATTAAAA
1 ATAATATTAAAA
66514 ATAATATTAAAA
1 ATAATATTAAAA
66526 A
1 A
66527 ATATTATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATATTAAAA
Found at i:67638 original size:18 final size:16
Alignment explanation
Indices: 67615--67658 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
67605 GGTTTTTTTT
*
67615 ATTTTAATGTAAATGGAC
1 ATTTTAAT-TAAAT-GAA
67633 ATTTTAAATTAAATGAA
1 ATTTT-AATTAAATGAA
67650 ATTTTAATT
1 ATTTTAATT
67659 TAAAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.17
17 7 0.29
18 10 0.42
19 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (16 bp):
ATTTTAATTAAATGAA
Found at i:67664 original size:18 final size:18
Alignment explanation
Indices: 67615--67662 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
67605 GGTTTTTTTT
* *
67615 ATTTTAATGTAAATGGAC
1 ATTTTAATTTAAATGGAA
*
67633 ATTTTAAATTAAAT-GAA
1 ATTTTAATTTAAATGGAA
67650 ATTTTAATTTAAA
1 ATTTTAATTTAAA
67663 ATTTTATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (18 bp):
ATTTTAATTTAAATGGAA
Found at i:68279 original size:41 final size:41
Alignment explanation
Indices: 68226--68362 Score: 134
Period size: 41 Copynumber: 3.3 Consensus size: 41
68216 TCCCTTGATC
* ** *
68226 GGGGTAAGAGATTGGAATGGTCAATCTGCACC-TCTTGATTA
1 GGGGTAAAAGATTGGAATCATCAATCTGC-CCTTCTTAATTA
68267 GGGGTAAAAGATTGGAATCATCAATCTGCCCTTCTTAATTA
1 GGGGTAAAAGATTGGAATCATCAATCTGCCCTTCTTAATTA
** * * * * *
68308 AAGGTAAAAGACTGGAAACTTCAATCTACCCCTT-TTAACTA
1 GGGGTAAAAGATTGGAATCATCAATCT-GCCCTTCTTAATTA
*
68349 AGGGTAAAAGATTG
1 GGGGTAAAAGATTG
68363 TAATGACTGC
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.02
41 74 0.91
42 5 0.06
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (41 bp):
GGGGTAAAAGATTGGAATCATCAATCTGCCCTTCTTAATTA
Found at i:68727 original size:99 final size:98
Alignment explanation
Indices: 68568--68833 Score: 266
Period size: 99 Copynumber: 2.7 Consensus size: 98
68558 CGGGTTCACC
* * * **
68568 ATTATGGCCTCAACTTTTCCCATCATATTTCATGGTATCGGATTCACCATTACGGCCTCAATTTT
1 ATTATGACCTCAACCTTTCCCATCAAATTTCATGGTATCGGATTCACCATTACGGCCTCAACCTT
* *
68633 TCTCATCACGTCTTCTAAGGTACTGAGTTTGTT
66 TCCCATCACGTCTCCTAAGGTACTGAGTTTGTT
** * * * *
68666 ATTATGACCTCAACCTTTCCTTTCAAATCTTCATGGTATTGGGTTTACTATTACGGCCTCAACCT
1 ATTATGACCTCAACCTTTCCCATCAAAT-TTCATGGTATCGGATTCACCATTACGGCCTCAACCT
* * * *
68731 TTCCCATCATGTCTCCTAAGGTA-TCGGGTTCG-C
65 TTCCCATCACGTCTCCTAAGGTACT-GAGTTTGTT
* * * * * * * *
68764 AGTTACGGCCTCAACTTTTCCCTTCCAATTTCATGGTATCGGGTTCACCGTTACGGCCTCAACAT
1 A-TTATGACCTCAACCTTTCCCATCAAATTTCATGGTATCGGATTCACCATTACGGCCTCAACCT
68829 TTCCC
65 TTCCC
68834 TTCAAATCTT
Statistics
Matches: 138, Mismatches: 27, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
98 61 0.44
99 77 0.56
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (98 bp):
ATTATGACCTCAACCTTTCCCATCAAATTTCATGGTATCGGATTCACCATTACGGCCTCAACCTT
TCCCATCACGTCTCCTAAGGTACTGAGTTTGTT
Found at i:68920 original size:97 final size:97
Alignment explanation
Indices: 68750--69077 Score: 302
Period size: 97 Copynumber: 3.4 Consensus size: 97
68740 TGTCTCCTAA
* * * * * * * *
68750 GGTATCGGGTTCGCAGTTACGGCCTCAACTTTTCCCTTC-CAATTTCATGGTA-TCGGGTTCACC
1 GGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCAC-ATTTCATGGTACT-GGATTCGCC
* * * *
68813 GTTACGGCCTCAA-CATTTCCCTTCAAATCTTCAT
64 ATTGCAGCCTCAATC-TTTCCCTTCAAATATTCAT
* *
68847 GGTACCGGATTCGCCGTTGCGGCGTCAACCTTTCCTATCACATTTCATGGTACTGGATTCGCCAT
1 GGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATTTCATGGTACTGGATTCGCCAT
68912 TGCAGCCTCAATCTTTCCCTTCAAATATTCAT
66 TGCAGCCTCAATCTTTCCCTTCAAATATTCAT
* * * ** ***
68944 GGTATCGGGTTCGTCGTTGCGGCCTCAACCTTTCCCATCACATTTCATGGTACAAGATTCGTTGT
1 GGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATTTCATGGTACTGGATTCGCCAT
* * * ** * *
69009 TGAAGCCTCAATCCTTCCCATCACGTCTTCTAA
66 TGCAGCCTCAATCTTTCCCTTCAAATATTC-AT
* ***
69042 GGTACCGGGTTCGCCGTTGTAACCTCAACCTTTCCC
1 GGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCC
69078 TTCATGTCTC
Statistics
Matches: 191, Mismatches: 36, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
97 156 0.82
98 35 0.18
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.33
Consensus pattern (97 bp):
GGTACCGGATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATTTCATGGTACTGGATTCGCCAT
TGCAGCCTCAATCTTTCCCTTCAAATATTCAT
Found at i:68969 original size:49 final size:49
Alignment explanation
Indices: 68523--68995 Score: 368
Period size: 49 Copynumber: 9.7 Consensus size: 49
68513 TTTGTCGTTG
* *
68523 CGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCACCATTA
1 CGGCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCATTA
* * * * * *
68572 TGGCCTCAACTTTTCCCATCATAT-TTCATGGTATCGGATTCACCATTA
1 CGGCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCATTA
** * * ** * * * **
68620 CGGCCTCAATTTTTCTCATCACGTCTTCTAAGGTA-CTGAGTTTGTTATTA
1 CGGCCTCAACCTTTCCCTTCAAATCTTC-ATGGTATC-GGGTTCGCCATTA
* * * * ** *
68670 TGACCTCAACCTTTCCTTTCAAATCTTCATGGTATTGGGTTTACTATTA
1 CGGCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCATTA
* ** * *
68719 CGGCCTCAACCTTTCCCATCATGTCTCCTAAGGTATCGGGTTCG-CAGTTA
1 CGGCCTCAACCTTTCCCTTCAAATCTTC-ATGGTATCGGGTTCGCCA-TTA
* * * *
68769 CGGCCTCAACTTTTCCCTTCCAAT-TTCATGGTATCGGGTTCACCGTTA
1 CGGCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCATTA
* * * * *
68817 CGGCCTCAACATTTCCCTTCAAATCTTCATGGTACCGGATTCGCCGTTG
1 CGGCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCATTA
* * * *
68866 CGGCGTCAACCTTT-CCTATCACAT-TTCATGGTA-CTGGATTCGCCATTG
1 CGGCCTCAACCTTTCCCT-TCAAATCTTCATGGTATC-GGGTTCGCCATTA
* * * * * *
68914 CAGCCTCAATCTTTCCCTTCAAATATTCATGGTATCGGGTTCGTCGTTG
1 CGGCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCATTA
* *
68963 CGGCCTCAACCTTTCCCATCACAT-TTCATGGTA
1 CGGCCTCAACCTTTCCCTTCAAATCTTCATGGTA
68996 CAAGATTCGT
Statistics
Matches: 337, Mismatches: 74, Indels: 27
0.77 0.17 0.06
Matches are distributed among these distances:
47 1 0.00
48 128 0.38
49 143 0.42
50 65 0.19
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (49 bp):
CGGCCTCAACCTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCATTA
Found at i:69005 original size:48 final size:47
Alignment explanation
Indices: 68518--69077 Score: 269
Period size: 48 Copynumber: 11.5 Consensus size: 47
68508 GAAGATTTGT
* * * *
68518 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCAC
1 CGTTGCGGCCTCAACCTTTCCCATCACAT-TTCATGGTA-CGGATTCGC
* ** * * *
68567 CATTATGGCCTCAACTTTTCCCATCATATTTCATGGTATCGGATTCAC
1 CGTTGCGGCCTCAACCTTTCCCATCACATTTCATGGTA-CGGATTCGC
* * ** * * * * * *
68615 CATTACGGCCTCAATTTTTCTCATCACGTCTTCTAAGGTACTGAGTTTGT
1 CGTTGCGGCCTCAACCTTTCCCATCACAT-TTC-ATGGTACGGA-TTCGC
** ** * ** * * * **
68665 TATTATGACCTCAACCTTTCCTTTCAAATCTTCATGGTATTGGGTTTAC
1 CGTTGCGGCCTCAACCTTTCCCATCACAT-TTCATGGTA-CGGATTCGC
** * ** * * *
68714 TATTACGGCCTCAACCTTTCCCATCATGTCTCCTAAGGTATCGGGTTCGC
1 CGTTGCGGCCTCAACCTTTCCCATCACAT-TTC-ATGGTA-CGGATTCGC
* * * * * *
68764 AGTTACGGCCTCAACTTTTCCCTTC-CAATTTCATGGTATCGGGTTCAC
1 CGTTGCGGCCTCAACCTTTCCCATCAC-ATTTCATGGTA-CGGATTCGC
* * * *
68812 CGTTACGGCCTCAACATTTCCCTTCAAATCTTCATGGTACCGGATTCGC
1 CGTTGCGGCCTCAACCTTTCCCATCACAT-TTCATGGTA-CGGATTCGC
* *
68861 CGTTGCGGCGTCAACCTTTCCTATCACATTTCATGGTACTGGATTCGC
1 CGTTGCGGCCTCAACCTTTCCCATCACATTTCATGGTAC-GGATTCGC
* * * * * * *
68909 CATTGCAGCCTCAATCTTTCCCTTCAAATATTCATGGTATCGGGTTCGT
1 CGTTGCGGCCTCAACCTTTCCCATCACAT-TTCATGGTA-CGGATTCGC
* *
68958 CGTTGCGGCCTCAACCTTTCCCATCACATTTCATGGTACAAGATTCGT
1 CGTTGCGGCCTCAACCTTTCCCATCACATTTCATGGTAC-GGATTCGC
* ** * * *
69006 TGTTGAAGCCTCAATCC-TTCCCATCACGTCTTCTAAGGTACCGGGTTCGC
1 CGTTGCGGCCTCAA-CCTTTCCCATCACAT-TTC-ATGGTA-CGGATTCGC
***
69056 CGTTGTAACCTCAACCTTTCCC
1 CGTTGCGGCCTCAACCTTTCCC
69078 TTCATGTCTC
Statistics
Matches: 401, Mismatches: 93, Indels: 33
0.76 0.18 0.06
Matches are distributed among these distances:
47 2 0.00
48 156 0.39
49 150 0.37
50 92 0.23
51 1 0.00
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.34
Consensus pattern (47 bp):
CGTTGCGGCCTCAACCTTTCCCATCACATTTCATGGTACGGATTCGC
Found at i:69116 original size:49 final size:49
Alignment explanation
Indices: 68518--69126 Score: 338
Period size: 49 Copynumber: 12.5 Consensus size: 49
68508 GAAGATTTGT
* * * *
68518 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCAC
1 CGTTACGGCCTCAACCTTTCCCTTCACATCTTCATGGTACCGGATTCGC
* * * * * * *
68567 CATTATGGCCTCAACTTTTCCCATCATAT-TTCATGGTATCGGATTCAC
1 CGTTACGGCCTCAACCTTTCCCTTCACATCTTCATGGTACCGGATTCGC
* ** * * * * * * *
68615 CATTACGGCCTCAATTTTTCTCATCACGTCTTCTAAGGTA-CTGAGTTTGT
1 CGTTACGGCCTCAACCTTTCCCTTCACATCTTC-ATGGTACCGGA-TTCGC
** * * * * ** * **
68665 TATTATGACCTCAACCTTTCCTTTCAAATCTTCATGGTATTGGGTTTAC
1 CGTTACGGCCTCAACCTTTCCCTTCACATCTTCATGGTACCGGATTCGC
** * ** * * * *
68714 TATTACGGCCTCAACCTTTCCCATCATGTCTCCTAAGGTATCGGGTTCGC
1 CGTTACGGCCTCAACCTTTCCCTTCACATCTTC-ATGGTACCGGATTCGC
* * * * *
68764 AGTTACGGCCTCAACTTTTCCCTTC-CAAT-TTCATGGTATCGGGTTCAC
1 CGTTACGGCCTCAACCTTTCCCTTCAC-ATCTTCATGGTACCGGATTCGC
* *
68812 CGTTACGGCCTCAACATTTCCCTTCAAATCTTCATGGTACCGGATTCGC
1 CGTTACGGCCTCAACCTTTCCCTTCACATCTTCATGGTACCGGATTCGC
* * *
68861 CGTTGCGGCGTCAACCTTT-CCTATCACAT-TTCATGGTACTGGATTCGC
1 CGTTACGGCCTCAACCTTTCCCT-TCACATCTTCATGGTACCGGATTCGC
* * * * * * * * *
68909 CATTGCAGCCTCAATCTTTCCCTTCAAATATTCATGGTATCGGGTTCGT
1 CGTTACGGCCTCAACCTTTCCCTTCACATCTTCATGGTACCGGATTCGC
* * ** *
68958 CGTTGCGGCCTCAACCTTTCCCATCACAT-TTCATGGTACAAGATTCGT
1 CGTTACGGCCTCAACCTTTCCCTTCACATCTTCATGGTACCGGATTCGC
* * * * * *
69006 TGTTGA-AGCCTCAATCC-TTCCCATCACGTCTTCTAAGGTACCGGGTTCGC
1 CGTT-ACGGCCTCAA-CCTTTCCCTTCACATCTTC-ATGGTACCGGATTCGC
**** ** * * *
69056 CGTTGTAACCTCAACCTTTCCCTTCATGTCTCCAGGGTACCAGATTCGC
1 CGTTACGGCCTCAACCTTTCCCTTCACATCTTCATGGTACCGGATTCGC
* *
69105 CGTTACGACCTCAATC-TTCCCT
1 CGTTACGGCCTCAACCTTTCCCT
69127 GTCAAACATG
Statistics
Matches: 438, Mismatches: 105, Indels: 35
0.76 0.18 0.06
Matches are distributed among these distances:
48 163 0.37
49 176 0.40
50 99 0.23
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.34
Consensus pattern (49 bp):
CGTTACGGCCTCAACCTTTCCCTTCACATCTTCATGGTACCGGATTCGC
Found at i:78176 original size:27 final size:26
Alignment explanation
Indices: 78146--78199 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
78136 ATTTTTCTTG
*
78146 TTTTCAAAATTTTAATCA-TTTTATTTT
1 TTTTCAAAA-GTTAAT-ATTTTTATTTT
*
78173 TTTTCATAAGTTAATATTTTTATTTT
1 TTTTCAAAAGTTAATATTTTTATTTT
78199 T
1 T
78200 GTGCAACCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 15 0.62
27 8 0.33
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTCAAAAGTTAATATTTTTATTTT
Found at i:78808 original size:14 final size:14
Alignment explanation
Indices: 78789--78817 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
78779 AATCTTTATG
78789 TAAGTTATTCCCTT
1 TAAGTTATTCCCTT
78803 TAAGTTATTCCCTT
1 TAAGTTATTCCCTT
78817 T
1 T
78818 TAATAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.52
Consensus pattern (14 bp):
TAAGTTATTCCCTT
Found at i:80386 original size:14 final size:12
Alignment explanation
Indices: 80359--80389 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
80349 CAATATTTTT
80359 ATAATATTAAAA
1 ATAATATTAAAA
80371 ATAATATTAAAA
1 ATAATATTAAAA
80383 A-AATATT
1 ATAATATT
80390 CTTGATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATATTAAAA
Found at i:82436 original size:20 final size:19
Alignment explanation
Indices: 82340--82429 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 19
82330 TGTGTTGGGT
*
82340 TTTAGGGTTTGAATTTAATG
1 TTTAGGGTTTGAATTTGA-G
* **
82360 TTTAAGGTTTAGGGTTTGAG
1 TTTAGGGTTT-GAATTTGAG
* *
82380 -TTATGAGTTTGAAATTTGGG
1 TTTA-GGGTTTG-AATTTGAG
82400 TTTAGGGTTTGAAATTTGAG
1 TTTAGGGTTTG-AATTTGAG
82420 TTTAGGGTTT
1 TTTAGGGTTT
82430 AGGATTTTAG
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
19 4 0.07
20 43 0.78
21 8 0.15
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (19 bp):
TTTAGGGTTTGAATTTGAG
Found at i:84231 original size:10 final size:12
Alignment explanation
Indices: 84202--84226 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84192 TAATATTTTT
84202 ATAATATTAAAA
1 ATAATATTAAAA
84214 ATAATATTAAAA
1 ATAATATTAAAA
84226 A
1 A
84227 ATATTCTCGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATATTAAAA
Found at i:85481 original size:17 final size:19
Alignment explanation
Indices: 85446--85483 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
85436 TTATATGTTT
85446 TTATATATTTTTTAAAAAA
1 TTATATATTTTTTAAAAAA
*
85465 TTATA-ATTTTTTCAAAAA
1 TTATATATTTTTTAAAAAA
85483 T
1 T
85484 ACAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTATATATTTTTTAAAAAA
Found at i:92365 original size:18 final size:17
Alignment explanation
Indices: 92317--92376 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 17
92307 AAACTGAAAT
92317 ATTTTTAAAAT-TATT-
1 ATTTTTAAAATCTATTA
*
92332 TTTTTTAAAATC-ATTA
1 ATTTTTAAAATCTATTA
92348 ATTTTTAAAATACTATTA
1 ATTTTTAAAAT-CTATTA
92366 ATATTTTAAAA
1 AT-TTTTAAAA
92377 AATATTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
15 13 0.34
16 10 0.26
17 1 0.03
18 6 0.16
19 8 0.21
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTTAAAATCTATTA
Found at i:92382 original size:18 final size:17
Alignment explanation
Indices: 92338--92384 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
92328 TATTTTTTTT
92338 AAAATCATTAATTTTTAA
1 AAAAT-ATTAATTTTTAA
*
92356 AATACTATTAATATTTTAA
1 AA-AATATTAAT-TTTTAA
92375 AAAATATTAA
1 AAAATATTAA
92385 ATAAGGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATATTAATTTTTAA
Found at i:93223 original size:57 final size:57
Alignment explanation
Indices: 93156--93272 Score: 234
Period size: 57 Copynumber: 2.1 Consensus size: 57
93146 AGAGGGTCTA
93156 TTTGCAGCTTAGGTCTTTCCATATTTTTGCTTGTTTTAATTTAGTCCTATTTATTTT
1 TTTGCAGCTTAGGTCTTTCCATATTTTTGCTTGTTTTAATTTAGTCCTATTTATTTT
93213 TTTGCAGCTTAGGTCTTTCCATATTTTTGCTTGTTTTAATTTAGTCCTATTTATTTT
1 TTTGCAGCTTAGGTCTTTCCATATTTTTGCTTGTTTTAATTTAGTCCTATTTATTTT
93270 TTT
1 TTT
93273 ATTTTATTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.15, C:0.14, G:0.12, T:0.59
Consensus pattern (57 bp):
TTTGCAGCTTAGGTCTTTCCATATTTTTGCTTGTTTTAATTTAGTCCTATTTATTTT
Found at i:96360 original size:24 final size:24
Alignment explanation
Indices: 96332--96388 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
96322 ATAGATACTC
96332 GAGACATAAGTGGCTTGATACCCA
1 GAGACATAAGTGGCTTGATACCCA
96356 GAGACATAAGTGGCTTGATACCCA
1 GAGACATAAGTGGCTTGATACCCA
*
96380 GAGGCATAA
1 GAGACATAA
96389 TTATATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (24 bp):
GAGACATAAGTGGCTTGATACCCA
Found at i:96411 original size:14 final size:14
Alignment explanation
Indices: 96389--96426 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
96379 AGAGGCATAA
96389 TTATATTTTTATTT
1 TTATATTTTTATTT
*
96403 TTAT-CTTTTATTT
1 TTATATTTTTATTT
*
96416 TTTTATTTTTA
1 TTATATTTTTA
96427 GGTTTTTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (14 bp):
TTATATTTTTATTT
Found at i:96432 original size:21 final size:21
Alignment explanation
Indices: 96389--96432 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
96379 AGAGGCATAA
*
96389 TTATATTTTTATTTTTATCTT
1 TTATATTTTTATTTTTAGCTT
* *
96410 TTATTTTTTTATTTTTAGGTT
1 TTATATTTTTATTTTTAGCTT
96431 TT
1 TT
96433 TATCATACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (21 bp):
TTATATTTTTATTTTTAGCTT
Found at i:101637 original size:333 final size:333
Alignment explanation
Indices: 101031--101701 Score: 1207
Period size: 333 Copynumber: 2.0 Consensus size: 333
101021 TGGGACCAGA
*
101031 TATTGTTCAAGAGTTTGAGGAGACTGTTAGATTGATTCGTGAGAGACTTAAGGTTGCTTTTGACA
1 TATTGTTCAAGAGTTTGAGGAGACTGTTAGATTAATTCGTGAGAGACTTAAGGTTGCTTTTGACA
* *
101096 GGCATAAGTCTTATGATGATTTGAAGCGTTGAGATGTTGAGTTTAATGTGGGTGATGAGGTTTTC
66 GACAGAAGTCTTATGATGATTTGAAGCGTTGAGATGTTGAGTTTAATGTGGGTGATGAGGTTTTC
101161 TTGAAAGTGTCTCCGTGGAAGAAGTTGTTTCGATTTGGACGAAAATCCAAATTAAGTCCTTGTTT
131 TTGAAAGTGTCTCCGTGGAAGAAGTTGTTTCGATTTGGACGAAAATCCAAATTAAGTCCTTGTTT
* *
101226 TATCAGTCTTTATCGGGTACTTCGTTAAGTGGGACCAGTTACCTATCAGCTTGAGTTATCACCTG
196 TATCAGTCTTTATCGGGTACTTCATTAAGTGGGACCAGTTACCTATCAGCTTGAGTTATCACCTA
* *
101291 AGCTTGAGCGAATACATGACCTCTTTTATGTCTCCACATTGAGACGTTATCGATCGGACCCGTCT
261 AGCTTGAGCGAATACATGACCTCTTTCATGTCTCCACATTGAGACATTATCGATCGGACCCGTCT
101356 ATTGTGTC
326 ATTGTGTC
*
101364 TATTGTTCAAGAGTTTGAGGAGACTGTTAGATTAATTCGTGAGAGGCTTAAGGTTGCTTTTGACA
1 TATTGTTCAAGAGTTTGAGGAGACTGTTAGATTAATTCGTGAGAGACTTAAGGTTGCTTTTGACA
101429 GACAGAAGTCTTATGATGATTTGAAGCGTTGAGATGTTGAGTTTAATGTGGGTGATGAGGTTTTC
66 GACAGAAGTCTTATGATGATTTGAAGCGTTGAGATGTTGAGTTTAATGTGGGTGATGAGGTTTTC
*
101494 TTGAAAGTGTCTCCGTGGAAGAAGTTGTTTCGATTTGGACGAAAATCCAAATTAAGTCGTTGTTT
131 TTGAAAGTGTCTCCGTGGAAGAAGTTGTTTCGATTTGGACGAAAATCCAAATTAAGTCCTTGTTT
* *
101559 TATCAGTCTTTATTGGGTACTTCATTGAGTGGGACCAGTTACCTATCAGCTTGAGTTATCACCTA
196 TATCAGTCTTTATCGGGTACTTCATTAAGTGGGACCAGTTACCTATCAGCTTGAGTTATCACCTA
** *
101624 AGCTTGAGCGAATACATGACCTCTTTCATGTCTCCATGTTGAGACATTATCGGTCGGACCCGTCT
261 AGCTTGAGCGAATACATGACCTCTTTCATGTCTCCACATTGAGACATTATCGATCGGACCCGTCT
*
101689 ATTGTGTT
326 ATTGTGTC
101697 TATTG
1 TATTG
101702 AGGAGATCGA
Statistics
Matches: 323, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
333 323 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (333 bp):
TATTGTTCAAGAGTTTGAGGAGACTGTTAGATTAATTCGTGAGAGACTTAAGGTTGCTTTTGACA
GACAGAAGTCTTATGATGATTTGAAGCGTTGAGATGTTGAGTTTAATGTGGGTGATGAGGTTTTC
TTGAAAGTGTCTCCGTGGAAGAAGTTGTTTCGATTTGGACGAAAATCCAAATTAAGTCCTTGTTT
TATCAGTCTTTATCGGGTACTTCATTAAGTGGGACCAGTTACCTATCAGCTTGAGTTATCACCTA
AGCTTGAGCGAATACATGACCTCTTTCATGTCTCCACATTGAGACATTATCGATCGGACCCGTCT
ATTGTGTC
Found at i:105449 original size:21 final size:21
Alignment explanation
Indices: 105424--105466 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
105414 ATAGCCTAAA
105424 AGGTACCAATAAAATTAAAGG
1 AGGTACCAATAAAATTAAAGG
*
105445 AGGTACCAATAAATTTAAAGG
1 AGGTACCAATAAAATTAAAGG
105466 A
1 A
105467 TTGACACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (21 bp):
AGGTACCAATAAAATTAAAGG
Found at i:105615 original size:19 final size:19
Alignment explanation
Indices: 105593--105648 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
105583 TTATTTATTA
*
105593 TTTATTATTTT-TGAAATTT
1 TTTAATATTTTAT-AAATTT
105612 TTTAATATTTTATAAATTT
1 TTTAATATTTTATAAATTT
* *
105631 TAATAATGTTTTATAAAT
1 T-TTAATATTTTATAAAT
105649 ATAAAAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TTTAATATTTTATAAATTT
Found at i:107393 original size:30 final size:29
Alignment explanation
Indices: 107348--107702 Score: 249
Period size: 30 Copynumber: 12.0 Consensus size: 29
107338 CCCAAACTCT
* *
107348 TCCAAAACTATATTTTAACCTCTAAACTTC
1 TCCAAAATTACATTTTAACC-CTAAACTTC
* *
107378 TCTAAAATTACATTTTAACCCCAAACTAT-
1 TCCAAAATTACATTTTAACCCTAAACT-TC
* *
107407 TTCAAAATTGCATTTTAACCCCTAAACTTC
1 TCCAAAATTACATTTTAA-CCCTAAACTTC
** *
107437 TTTAAAATTACATTTTAACCCCAAAC-TC
1 TCCAAAATTACATTTTAACCCTAAACTTC
* * * *
107465 TACCAAAATTGCATTTTGACACCTTAACTTT
1 T-CCAAAATTACATTTTAAC-CCTAAACTTC
* **
107496 TCTAAAATTGTATTTTAACACCTAAACTTC
1 TCCAAAATTACATTTTAAC-CCTAAACTTC
* *
107526 -CCAAAATCACATTTTAACCCCCAAACTT-
1 TCCAAAATTACATTTTAA-CCCTAAACTTC
* * * *
107554 TCCCAAAATCATATCTTGACCCTCAAACTTC
1 T-CCAAAATTACATTTTAACCCT-AAACTTC
* * *
107585 -CCAAAATCACATTTTGACACTCAAACCTT-
1 TCCAAAATTACATTTTAACCCT-AAA-CTTC
*
107614 TCCAAAATCACATTTTAACCCTAAACTT-
1 TCCAAAATTACATTTTAACCCTAAACTTC
* * * *
107642 TCCTTAAAATTACATTTTTACCCTTGAATTTT
1 TCC--AAAATTACATTTTAACCC-TAAACTTC
*
107674 TCCAAAATTACATTTTGACCCTAAA-TTC
1 TCCAAAATTACATTTTAACCCTAAACTTC
107702 T
1 T
107703 TTGAAACCTC
Statistics
Matches: 264, Mismatches: 44, Indels: 36
0.77 0.13 0.10
Matches are distributed among these distances:
28 12 0.05
29 95 0.36
30 147 0.56
31 7 0.03
32 3 0.01
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.35
Consensus pattern (29 bp):
TCCAAAATTACATTTTAACCCTAAACTTC
Found at i:107413 original size:59 final size:59
Alignment explanation
Indices: 107337--107694 Score: 228
Period size: 59 Copynumber: 6.1 Consensus size: 59
107327 ATAAAAGAAC
* * *
107337 CCCCAAACTCTTCCAAAACTATATTTTAACCTCTAAACTTCTCTAAAATTACATTTTAA
1 CCCCAAACTATTCCAAAACTACATTTTAACCCCTAAACTTCTCTAAAATTACATTTTAA
* * * *
107396 CCCCAAACTATTTCAAAATTGCATTTTAACCCCTAAACTTCTTTAAAATTACATTTTAA
1 CCCCAAACTATTCCAAAACTACATTTTAACCCCTAAACTTCTCTAAAATTACATTTTAA
* * * * * * * * **
107455 CCCCAAACTCTACCAAAATTGCATTTTGACACCTTAACTTTTCTAAAATTGTATTTTAA
1 CCCCAAACTATTCCAAAACTACATTTTAACCCCTAAACTTCTCTAAAATTACATTTTAA
* * * * * * * *
107514 CACCTAAACT-TCCCAAAA-TCACATTTTAACCCCCAAACTT-TCCCAAAATCATATCTTGA
1 C-CCCAAACTATTCCAAAACT-ACATTTTAACCCCTAAACTTCT-CTAAAATTACATTTTAA
* * * * *
107573 CCCTCAAACT-TCCCAAAA-TCACATTTTGA-CACTCAAACCTT-TCCAAAATCACATTTTAA
1 CCC-CAAACTATTCCAAAACT-ACATTTTAACCCCT-AAA-CTTCTCTAAAATTACATTTTAA
* * * * * * * * *
107632 CCCTAAACT-TTCCTTAAAATTACATTTTTACCCTTGAATTTTTCCAAAATTACATTTTGA
1 CCCCAAACTATTCC--AAAACTACATTTTAACCCCTAAACTTCTCTAAAATTACATTTTAA
107692 CCC
1 CCC
107695 TAAATTCTTT
Statistics
Matches: 243, Mismatches: 45, Indels: 21
0.79 0.15 0.07
Matches are distributed among these distances:
58 14 0.06
59 182 0.75
60 44 0.18
61 3 0.01
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (59 bp):
CCCCAAACTATTCCAAAACTACATTTTAACCCCTAAACTTCTCTAAAATTACATTTTAA
Found at i:107500 original size:118 final size:118
Alignment explanation
Indices: 107337--107664 Score: 299
Period size: 118 Copynumber: 2.8 Consensus size: 118
107327 ATAAAAGAAC
* * * * *
107337 CCCCAAACTCTTCCAAAACTATATTTT-A-ACCTCTAAACTTCTCTAAAATTACATTTTAACCCC
1 CCCCAAACTCTACCAAAATTACATTTTGACACCTCT-AACTTTTCTAAAATTACATTTTAACCCT
** ** * ** * *
107400 AAACTATTTCAAAATTGCATTTTAACCCCTAAAC-TTCTTTAAAATTACATTTTAA
65 AAACT-TCCCAAAATCACATTTTAACCCCCAAACTTTC-CCAAAATCACATCTTAA
* **
107455 CCCCAAACTCTACCAAAATTGCATTTTGACACCT-TAACTTTTCTAAAATTGTATTTTAACACCT
1 CCCCAAACTCTACCAAAATTACATTTTGACACCTCTAACTTTTCTAAAATTACATTTTAAC-CCT
* *
107519 AAACTTCCCAAAATCACATTTTAACCCCCAAACTTTCCCAAAATCATATCTTGA
65 AAACTTCCCAAAATCACATTTTAACCCCCAAACTTTCCCAAAATCACATCTTAA
* * * * * *
107573 CCCTCAAACT-TCCCAAAATCACATTTTGACA-CTCAAACCTTTCCAAAATCACATTTTAACCCT
1 CCC-CAAACTCTACCAAAATTACATTTTGACACCTCTAACTTTTCTAAAATTACATTTTAACCCT
* * *
107636 AAACTTTCCTTAAAATTACATTTTTACCC
65 AAAC-TTCC-CAAAATCACATTTTAACCC
107665 TTGAATTTTT
Statistics
Matches: 171, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
117 9 0.05
118 124 0.73
119 34 0.20
120 4 0.02
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (118 bp):
CCCCAAACTCTACCAAAATTACATTTTGACACCTCTAACTTTTCTAAAATTACATTTTAACCCTA
AACTTCCCAAAATCACATTTTAACCCCCAAACTTTCCCAAAATCACATCTTAA
Found at i:107573 original size:89 final size:87
Alignment explanation
Indices: 107359--107698 Score: 271
Period size: 89 Copynumber: 3.8 Consensus size: 87
107349 CCAAAACTAT
* * * *
107359 ATTTTAACCTCTAAAC-TTCTCTAAAATTACATTTTAACCC-CAAACTATTTCAAAATTGCATTT
1 ATTTTAACC-CCAAACTTTC-CCAAAATTGCATTTTGACCCTCAAACT-TTTCAAAATTGCATTT
* ** *
107422 TAACCCCTAAACTTCTTTAAAATTAC
63 TAACACCTAAACTTC-CCAAAATCAC
* * * *
107448 ATTTTAACCCCAAACTCTACCAAAATTGCATTTTGACACCT-TAACTTTTCTAAAATTGTATTTT
1 ATTTTAACCCCAAACTTTCCCAAAATTGCATTTTGAC-CCTCAAACTTTTC-AAAATTGCATTTT
107512 AACACCTAAACTTCCCAAAATCAC
64 AACACCTAAACTTCCCAAAATCAC
** **
107536 ATTTTAACCCCCAAACTTTCCCAAAA-T-CATATCTTGACCCTCAAACTTCCCAAAATCACATTT
1 ATTTTAA-CCCCAAACTTTCCCAAAATTGCAT-T-TTGACCCTCAAACTTTTCAAAATTGCATTT
* *
107599 TGACA-CTCAAACCTTTCCAAAATCAC
63 TAACACCT-AAA-CTTCCCAAAATCAC
* * * * ** * *
107625 ATTTTAACCCTAAACTTTCCTTAAAATTACATTTTTACCCTTGAATTTTTCCAAAATTACATTTT
1 ATTTTAACCCCAAACTTTCC-CAAAATTGCATTTTGACCCTCAAACTTTT-CAAAATTGCATTTT
*
107690 GAC-CCTAAA
64 AACACCTAAA
107699 TTCTTTGAAA
Statistics
Matches: 205, Mismatches: 31, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
87 5 0.02
88 71 0.35
89 106 0.52
90 20 0.10
91 3 0.01
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.35
Consensus pattern (87 bp):
ATTTTAACCCCAAACTTTCCCAAAATTGCATTTTGACCCTCAAACTTTTCAAAATTGCATTTTAA
CACCTAAACTTCCCAAAATCAC
Found at i:111386 original size:27 final size:28
Alignment explanation
Indices: 111349--111404 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
111339 AAATTTAAAA
111349 TTTTCATATTT-TAAAAATATTTTTTAAT
1 TTTTCATATTTCTAAAAATA-TTTTTAAT
*
111377 TTTTCA-ATTTCTTAAAATATTTTTAAT
1 TTTTCATATTTCTAAAAATATTTTTAAT
111404 T
1 T
111405 ATTTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTCATATTTCTAAAAATATTTTTAAT
Found at i:114618 original size:21 final size:21
Alignment explanation
Indices: 114594--114654 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 21
114584 AGATTATTTT
114594 TATTTAATAAAATAATATT-AA
1 TATTT-ATAAAATAATATTAAA
* *
114615 TATTT-TTATATAATATTTAAA
1 TATTTATAAAATAATA-TTAAA
114636 TATTTTATTAAAATAATAT
1 TA-TTTA-TAAAATAATAT
114655 CTTAACTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
19 8 0.26
20 2 0.06
21 9 0.29
22 3 0.10
23 1 0.03
24 8 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTTATAAAATAATATTAAA
Found at i:123824 original size:45 final size:47
Alignment explanation
Indices: 123733--123825 Score: 136
Period size: 45 Copynumber: 2.0 Consensus size: 47
123723 GAAAGAGAGG
* * *
123733 TATTTTTATTTTTTTTGTTGTTTTTATAATTTATTTTAAAATTATTT
1 TATTTTTAATTTTGTTGTTGTTTTTATAATTTATTTTAAAAGTATTT
*
123780 TATTTTTAATTTTGTTGTTG-TTTT-TAATTTATTTTAAAGGTATTT
1 TATTTTTAATTTTGTTGTTGTTTTTATAATTTATTTTAAAAGTATTT
123825 T
1 T
123826 GTTAGTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 20 0.48
46 4 0.10
47 18 0.43
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.70
Consensus pattern (47 bp):
TATTTTTAATTTTGTTGTTGTTTTTATAATTTATTTTAAAAGTATTT
Found at i:123835 original size:45 final size:44
Alignment explanation
Indices: 123745--123835 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
123735 TTTTTATTTT
* **
123745 TTTTGTTGTTTTTATAATTTATTTTAAAATTATTTTATTTTTAA
1 TTTTGTTGTTTTTATAATTTATTTTAAAAGTATTTTATTAGTAA
* * *
123789 TTTTGTTGTTGTTTTTAATTTATTTTAAAGGTATTTTGTTAGTAA
1 TTTTGTTGTT-TTTATAATTTATTTTAAAAGTATTTTATTAGTAA
123834 TT
1 TT
123836 ATTATAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 10 0.25
45 30 0.75
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (44 bp):
TTTTGTTGTTTTTATAATTTATTTTAAAAGTATTTTATTAGTAA
Found at i:124005 original size:144 final size:136
Alignment explanation
Indices: 123794--124093 Score: 385
Period size: 144 Copynumber: 2.2 Consensus size: 136
123784 TTTAATTTTG
*
123794 TTGTTGTTTTTAATTT-ATTTTAAAGGTATTTTGTTAGTAATTATTATAAAATTATTTTTTAGTT
1 TTGTTGTTTTTAATTTAATTTTAAAGGTATTTTGTTAGTAATTATTATAAAATTATTTTTTAGCT
123858 TAATGTTTACGTGATTTGTT-ATAAATTTTTTGTATGGTAGTGTAGATTAAAGGGAAGAAAGCTA
66 TAATGTTTACGTGATTTGTTAAT-AATTTTTTGTAT-GTA--GTAGATTAAAGGG-AGAAA---A
123922 AAAGAAAGGTAAACGTT
123 AAA-AAAGGT-AA-GTT
*
123939 TTGTTGTTTTTAATTTAATTTTAAA-TTATTTT-TTAGTAATTATTAT-AAATTATTTGTTTAGC
1 TTGTTGTTTTTAATTTAATTTTAAAGGTATTTTGTTAGTAATTATTATAAAATTATTT-TTTAGC
* * * *
124001 TTAATTTTTATGTGATTTGTTAATAATTTTTTTTATTTAGTAGATTAAAGGGAGAAAAAAAAAAG
65 TTAATGTTTACGTGATTTGTTAATAATTTTTTGTATGTAGTAGATTAAAGGGAGAAAAAAAAAAG
124066 GTAAGTT
130 GTAAGTT
* *
124073 TTGCTGTTTTTATTTTAATTT
1 TTGTTGTTTTTAATTTAATTT
124094 AATTTTGTTA
Statistics
Matches: 144, Mismatches: 8, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
134 22 0.15
135 2 0.01
136 6 0.04
137 4 0.03
140 5 0.03
141 13 0.09
143 11 0.08
144 49 0.34
145 24 0.17
146 8 0.06
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (136 bp):
TTGTTGTTTTTAATTTAATTTTAAAGGTATTTTGTTAGTAATTATTATAAAATTATTTTTTAGCT
TAATGTTTACGTGATTTGTTAATAATTTTTTGTATGTAGTAGATTAAAGGGAGAAAAAAAAAAGG
TAAGTT
Found at i:131215 original size:11 final size:11
Alignment explanation
Indices: 131195--131249 Score: 60
Period size: 10 Copynumber: 5.1 Consensus size: 11
131185 TGACAATATA
*
131195 TTTCTTTTCTT
1 TTTCTTTTTTT
*
131206 TTT-TTTTTCT
1 TTTCTTTTTTT
*
131216 TTTC-TTCTTT
1 TTTCTTTTTTT
131226 TTTCTTTTTTT
1 TTTCTTTTTTT
131237 TTTCTTTATTTT
1 TTTCTTT-TTTT
131249 T
1 T
131250 GTGAATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
10 16 0.44
11 15 0.42
12 5 0.14
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:131216 original size:16 final size:16
Alignment explanation
Indices: 131195--131239 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
131185 TGACAATATA
131195 TTTCTTTTCTTTTTTT
1 TTTCTTTTCTTTTTTT
*
131211 TTTCTTTTC-TTCTTT
1 TTTCTTTTCTTTTTTT
131226 TTTCTTTT-TTTTTT
1 TTTCTTTTCTTTTTT
131240 CTTTATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTCTTTTCTTTTTTT
Found at i:131248 original size:21 final size:20
Alignment explanation
Indices: 131195--131249 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
131185 TGACAATATA
131195 TTTCTTTTCTTTTTTTTTTCT
1 TTTCTTTT-TTTTTTTTTTCT
131216 TTTCTTCTTTTTTCTTTTTT-T
1 TTTCTT-TTTTTT-TTTTTTCT
131237 TTTCTTTATTTTT
1 TTTCTTT-TTTTT
131250 GTGAATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.03
21 22 0.71
22 8 0.26
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTCTTTTTTTTTTTTTTCT
Found at i:131249 original size:16 final size:15
Alignment explanation
Indices: 131195--131249 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
131185 TGACAATATA
131195 TTTCTTTTCTTTTTTT
1 TTTCTTTT-TTTTTTT
* *
131211 TTTCTTTTCTTCTTT
1 TTTCTTTTTTTTTTT
*
131226 TTTCTTTTTTTTTTC
1 TTTCTTTTTTTTTTT
*
131241 TTTATTTTT
1 TTTCTTTTT
131250 GTGAATTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 25 0.76
16 8 0.24
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTCTTTTTTTTTTT
Found at i:131878 original size:18 final size:18
Alignment explanation
Indices: 131810--131880 Score: 58
Period size: 17 Copynumber: 4.1 Consensus size: 18
131800 TACAAATAAG
131810 AATGAAAATGCAACT-AC-
1 AATGAAAATGCAA-TGACA
* * * *
131827 AATGCAAATGTACTAACA
1 AATGAAAATGCAATGACA
* *
131845 AAT-AAAATGTAGTGACA
1 AATGAAAATGCAATGACA
131862 AATGAAAATGCAATGACA
1 AATGAAAATGCAATGACA
131880 A
1 A
131881 CTAAATAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
16 1 0.02
17 26 0.60
18 16 0.37
ACGTcount: A:0.54, C:0.13, G:0.14, T:0.20
Consensus pattern (18 bp):
AATGAAAATGCAATGACA
Found at i:131970 original size:3 final size:3
Alignment explanation
Indices: 131962--131993 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
131952 TGCTTTGGCT
131962 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
131994 ATCTTTGCGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:134214 original size:14 final size:14
Alignment explanation
Indices: 134195--134234 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
134185 GCATAGAATT
134195 TAAAAGGAAATAAA
1 TAAAAGGAAATAAA
*
134209 TAAAAGTGAAA-AGA
1 TAAAAG-GAAATAAA
134223 TAAAAGGAAATA
1 TAAAAGGAAATA
134235 CAAAAATGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (14 bp):
TAAAAGGAAATAAA
Found at i:142991 original size:23 final size:23
Alignment explanation
Indices: 142963--143012 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
142953 AAACAAGAAG
*
142963 ATAATTTATAACATAATAGATTT
1 ATAATTTATAAAATAATAGATTT
142986 ATAATTTATAAAATAATAGATTT
1 ATAATTTATAAAATAATAGATTT
143009 ATAA
1 ATAA
143013 AAAATCCTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (23 bp):
ATAATTTATAAAATAATAGATTT
Found at i:144880 original size:33 final size:33
Alignment explanation
Indices: 144843--144905 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
144833 TCATGCCTTA
* *
144843 AATTGAAAATGATTTTTATATAA-GGGGAGCGTG
1 AATTGAAAATAACTTTTAT-TAATGGGGAGCGTG
144876 AATTGAAAATAACTTTTATTAATGGGGAGC
1 AATTGAAAATAACTTTTATTAATGGGGAGC
144906 AATCAATTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 3 0.11
33 24 0.89
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (33 bp):
AATTGAAAATAACTTTTATTAATGGGGAGCGTG
Found at i:145098 original size:20 final size:20
Alignment explanation
Indices: 145073--145111 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
145063 GGCCTTGGAC
* *
145073 TTCTACTGGTAGAACTTCAT
1 TTCTACTGATACAACTTCAT
145093 TTCTACTGATACAACTTCA
1 TTCTACTGATACAACTTCA
145112 GTTTTATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (20 bp):
TTCTACTGATACAACTTCAT
Found at i:148278 original size:123 final size:122
Alignment explanation
Indices: 148080--148311 Score: 347
Period size: 123 Copynumber: 1.9 Consensus size: 122
148070 TTAAATATCA
* *
148080 AAATATGGAATTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTTACATATATTTCT
1 AAATATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTCAATAAACCTTACATATATTTCT
* * ** * * * *
148145 TTAAATGAATATTTTCATTTTTATATGAGATATTATATAAAAGGATATTGAATATTAT
66 CTAAAGGAATATTACCA-TTTAATATAAAATATTAAATAAAAGGATATTGAATATTAT
* *
148203 AAATATGGAAGTTAATATCTTTTTGGAAAGGATATAATGTTTCAATAAACCTTCCATATATTTCT
1 AAATATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTCAATAAACCTTACATATATTTCT
148268 CTAAAGGAATATTACCATTTAATATAAAATATTAAATAAAAGGA
66 CTAAAGGAATATTACCATTTAATATAAAATATTAAATAAAAGGA
148312 AATATAGCAG
Statistics
Matches: 97, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
122 23 0.24
123 74 0.76
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (122 bp):
AAATATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTCAATAAACCTTACATATATTTCT
CTAAAGGAATATTACCATTTAATATAAAATATTAAATAAAAGGATATTGAATATTAT
Found at i:152384 original size:106 final size:107
Alignment explanation
Indices: 152244--152464 Score: 338
Period size: 107 Copynumber: 2.1 Consensus size: 107
152234 TTTACTGAGT
* * *
152244 ATAATTTAACGTAATTATAATTATTAATTTTAATGATTTTGTTAAATATTAAAA-CATGGAAATT
1 ATAATTTAACGTAATTATAATTATTAATTATAATGATTTCGTTAAATAGTAAAACCATGGAAATT
* *
152308 AATATCTTTTTGGAAA-AGATATAATGTTTTAATAAACCTTTC
66 AATATCCTTTTGGAAAGA-ATATAATGTTTTAATAAACCTTCC
* * *
152350 ATAATTTAACGTATTTATAATTATTAATTATAATGGTTTCGTTAAATAGTAAAACCATGGAAGTT
1 ATAATTTAACGTAATTATAATTATTAATTATAATGATTTCGTTAAATAGTAAAACCATGGAAATT
152415 AATATCCTTTTGGAAAGAATATAATGTTTTAATAAACCTTCC
66 AATATCCTTTTGGAAAGAATATAATGTTTTAATAAACCTTCC
152457 ATATATTT
1 ATA-ATTT
152465 CTTTAAAGGA
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
106 49 0.47
107 50 0.48
108 5 0.05
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (107 bp):
ATAATTTAACGTAATTATAATTATTAATTATAATGATTTCGTTAAATAGTAAAACCATGGAAATT
AATATCCTTTTGGAAAGAATATAATGTTTTAATAAACCTTCC
Found at i:152537 original size:123 final size:123
Alignment explanation
Indices: 152394--152760 Score: 576
Period size: 123 Copynumber: 3.0 Consensus size: 123
152384 GGTTTCGTTA
* *
152394 AATAGTAAAACCATGGAAGTTAATATCCTTTTGGAAAGAATATAATGTTTTAATAAACCTTCCAT
1 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGAATATAATGTTTTAATAAACCTTCCAT
*
152459 ATATTTCTTTAAAGGAATATTTCCATTTTAATATGAGATATTATATAAAAAGAAATTG
66 ATATTTCTTTAAAGGAATATTTCCATTTTAATATGAGATATTATATAAAAGGAAATTG
* * *
152517 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAA-AGATGTAGTGTTTTAATTAACCTTCCA
1 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGA-ATATAATGTTTTAATAAACCTTCCA
*
152581 TATATTTCTTTAAAGGAATATTTCCATTTTAATATGATATATTATATAAAAGGAAATTG
65 TATATTTCTTTAAAGGAATATTTCCATTTTAATATGAGATATTATATAAAAGGAAATTG
* * * * *
152640 AATATTATAAATATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTATCAATAAACCTTCCAT
1 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGAATATAATGTTTTAATAAACCTTCCAT
* *
152705 ATATTTCTTTAAAGAAATATTTCCATTTTAATATAAGATATTA-ACTAAAAGGAAAT
66 ATATTTCTTTAAAGGAATATTTCCATTTTAATATGAGATATTATA-TAAAAGGAAAT
152761 ATAGCATAAC
Statistics
Matches: 223, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
122 2 0.01
123 221 0.99
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (123 bp):
AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGAATATAATGTTTTAATAAACCTTCCAT
ATATTTCTTTAAAGGAATATTTCCATTTTAATATGAGATATTATATAAAAGGAAATTG
Found at i:152657 original size:22 final size:21
Alignment explanation
Indices: 152619--152665 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
152609 TTAATATGAT
152619 ATATTATATAAAAGGAAATTGA
1 ATATTATATAAAAGGAAATT-A
* *
152641 ATATTATA-AATATGGAAGTTA
1 ATATTATATAA-AAGGAAATTA
152662 ATAT
1 ATAT
152666 CCTTTTGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (21 bp):
ATATTATATAAAAGGAAATTA
Found at i:156040 original size:32 final size:33
Alignment explanation
Indices: 156004--156065 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
155994 TTATGCCTTA
*
156004 AATTGAAAATGATTTTTA-TATTGGGGAGCTTG
1 AATTGAAAATGACTTTTATTATTGGGGAGCTTG
156036 AATTGAAAATGACTTTTATTATTGGGGAGC
1 AATTGAAAATGACTTTTATTATTGGGGAGC
156066 AATCTATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (33 bp):
AATTGAAAATGACTTTTATTATTGGGGAGCTTG
Found at i:160326 original size:20 final size:20
Alignment explanation
Indices: 160303--160342 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
160293 TTACCTGTAG
160303 AACTTCACTTCTACTGATAC
1 AACTTCACTTCTACTGATAC
*
160323 AACTTCAGTTCTACTGATAC
1 AACTTCACTTCTACTGATAC
160343 CTTGAAGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (20 bp):
AACTTCACTTCTACTGATAC
Found at i:163226 original size:44 final size:44
Alignment explanation
Indices: 163176--163314 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
163166 AATCTACTCT
163176 ACTAAACAAAAAAATATTATAACAAATCATAAACATTAAACTAA
1 ACTAAACAAAAAAATATTATAACAAATCATAAACATTAAACTAA
* *** * * * **
163220 ACTAAACTAAACTTTATAATAATTAAA-AATAAA-A-TAATTTTAA
1 ACTAAACAAAAAAATATTATAA-CAAATCATAAACATTAA-ACTAA
* *
163263 AATAAATTAAAAAAATATTATAACAAATCATAAACATTAAACTAA
1 ACTAAA-CAAAAAAATATTATAACAAATCATAAACATTAAACTAA
163308 ACTAAAC
1 ACTAAAC
163315 TAAACTAAAC
Statistics
Matches: 67, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
42 3 0.04
43 12 0.18
44 37 0.55
45 12 0.18
46 3 0.04
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (44 bp):
ACTAAACAAAAAAATATTATAACAAATCATAAACATTAAACTAA
Found at i:163281 original size:88 final size:90
Alignment explanation
Indices: 163183--163368 Score: 304
Period size: 93 Copynumber: 2.1 Consensus size: 90
163173 TCTACTAAAC
*
163183 AAAAAAATATTATAACAAATCATAAACA-T-TAAACTAAACTAAACTAAACTTTATAATAATTAA
1 AAAAAAATATTATAACAAATCATAAACATTATAAACTAAACTAAACTAAACTTTATAAAAATTAA
*
163246 AAATAAAATAATTTTAAAATAAATT
66 AAACAAAATAATTTTAAAATAAATT
163271 AAAAAAATATTATAACAAATCATAAACATTAAACTAAACTAAACTAAACTAAACTTTATAAAAAT
1 AAAAAAATATTATAACAAATCATAAACATT--A-TAAACTAAACTAAACTAAACTTTATAAAAAT
*
163336 TAAAAACACAATAATTTTAAAATAAATT
63 TAAAAACAAAATAATTTTAAAATAAATT
163364 AAAAA
1 AAAAA
163369 CAACAAAAAA
Statistics
Matches: 90, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
88 28 0.31
89 1 0.01
93 61 0.68
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (90 bp):
AAAAAAATATTATAACAAATCATAAACATTATAAACTAAACTAAACTAAACTTTATAAAAATTAA
AAACAAAATAATTTTAAAATAAATT
Found at i:163310 original size:5 final size:5
Alignment explanation
Indices: 163300--163325 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
163290 TCATAAACAT
163300 TAAAC TAAAC TAAAC TAAAC TAAAC T
1 TAAAC TAAAC TAAAC TAAAC TAAAC T
163326 TTATAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAC
Found at i:172685 original size:20 final size:20
Alignment explanation
Indices: 172660--172700 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
172650 AAAGTATTGG
172660 ATTTAACTAGAAATTAAGCT
1 ATTTAACTAGAAATTAAGCT
172680 ATTTAACTAGAAATTAAGCT
1 ATTTAACTAGAAATTAAGCT
172700 A
1 A
172701 AGCTATATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (20 bp):
ATTTAACTAGAAATTAAGCT
Found at i:177813 original size:25 final size:25
Alignment explanation
Indices: 177763--177815 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
177753 ATACGCGAAG
* ** *
177763 AAGGTTTTATAGAGAGTTTGCTACA
1 AAGGCTTTATAGAGAGTTCACCACA
177788 AAGGCTTTATAGAGAGTTCACCACA
1 AAGGCTTTATAGAGAGTTCACCACA
177813 AAG
1 AAG
177816 TCTTGGTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (25 bp):
AAGGCTTTATAGAGAGTTCACCACA
Found at i:180771 original size:35 final size:35
Alignment explanation
Indices: 180732--180826 Score: 120
Period size: 35 Copynumber: 2.7 Consensus size: 35
180722 ATTTATTTAT
** *
180732 ATTATGATTCGCATGTTAAGCATGTTATTAATCTG
1 ATTATGATTCGCATGTTAAGCATGCCATTAATATG
*
180767 ATTATGACTT-GCATGTTAAGCATGCCATTATTATG
1 ATTATGA-TTCGCATGTTAAGCATGCCATTAATATG
* *
180802 ATTCTGATTCGCATATTAAGCATGC
1 ATTATGATTCGCATGTTAAGCATGC
180827 TGCTATATCA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
34 2 0.04
35 48 0.92
36 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (35 bp):
ATTATGATTCGCATGTTAAGCATGCCATTAATATG
Found at i:181005 original size:49 final size:49
Alignment explanation
Indices: 180952--181063 Score: 120
Period size: 49 Copynumber: 2.3 Consensus size: 49
180942 ATAATTTTTT
* * *
180952 GTGGCTTGACCACAATATTCTGTATT-TGGTAG-TATATCTGCATTATCTA
1 GTGGCTTGACCACAATATTCTGT-TTCTGGTAGCTAGA-CTACAATATCTA
** * *
181001 GTGGCTCAACCACACTATTCTGTTTCTGGTAGCTCGACTACAATATCTA
1 GTGGCTTGACCACAATATTCTGTTTCTGGTAGCTAGACTACAATATCTA
*
181050 GTGGCTTGTCCACA
1 GTGGCTTGACCACA
181064 TTTTCTTGTG
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
48 2 0.04
49 47 0.92
50 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (49 bp):
GTGGCTTGACCACAATATTCTGTTTCTGGTAGCTAGACTACAATATCTA
Found at i:182756 original size:34 final size:34
Alignment explanation
Indices: 182713--182781 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
182703 CCATCCATAA
*
182713 TTCTTATTTTGAACTAAACCTATCATTACTAACT
1 TTCTTATTTTGAACTAAACCCATCATTACTAACT
182747 TTCTTATTTTGAACTAAACCCATCATTACTAACT
1 TTCTTATTTTGAACTAAACCCATCATTACTAACT
182781 T
1 T
182782 CGGTTAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.43
Consensus pattern (34 bp):
TTCTTATTTTGAACTAAACCCATCATTACTAACT
Found at i:192675 original size:13 final size:13
Alignment explanation
Indices: 192659--192683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
192649 TAGATTTAGC
192659 TATTTTATTTTGT
1 TATTTTATTTTGT
192672 TATTTTATTTTG
1 TATTTTATTTTG
192684 GACACGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (13 bp):
TATTTTATTTTGT
Found at i:198300 original size:5 final size:6
Alignment explanation
Indices: 198282--198330 Score: 64
Period size: 6 Copynumber: 8.0 Consensus size: 6
198272 CCACTTTAAA
*
198282 TTATTT TTATTT TTATTT TTA-TT TTATTT GTCTATTT TCATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT -T-TATTT TTATTT TTATTT
198331 GTTTTAGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 5 0.13
6 26 0.68
7 2 0.05
8 5 0.13
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:200373 original size:24 final size:23
Alignment explanation
Indices: 200342--200386 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
200332 CTTTTTACTT
200342 ATTTATTTA-TTTTATGTTTTGCC
1 ATTTATTTACTTTTAT-TTTTGCC
200365 ATTTGATTTACTTTTATTTTTG
1 ATTT-ATTTACTTTTATTTTTG
200387 TTTTCATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 4 0.20
24 10 0.50
25 6 0.30
ACGTcount: A:0.18, C:0.07, G:0.09, T:0.67
Consensus pattern (23 bp):
ATTTATTTACTTTTATTTTTGCC
Found at i:207942 original size:17 final size:17
Alignment explanation
Indices: 207920--207987 Score: 100
Period size: 17 Copynumber: 4.0 Consensus size: 17
207910 TGTTAGTAAG
* *
207920 CATTGTAATTGTATTTT
1 CATTGTCATTGCATTTT
207937 CATTGTCATTGCATTTT
1 CATTGTCATTGCATTTT
* *
207954 CATTGTCATTTCATTTC
1 CATTGTCATTGCATTTT
207971 CATTGTCATTGCATTTT
1 CATTGTCATTGCATTTT
207988 AGTGCATTGG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.19, C:0.16, G:0.10, T:0.54
Consensus pattern (17 bp):
CATTGTCATTGCATTTT
Found at i:207945 original size:6 final size:6
Alignment explanation
Indices: 207920--207985 Score: 61
Period size: 6 Copynumber: 11.7 Consensus size: 6
207910 TGTTAGTAAG
* * *
207920 CATTGT AATTGT -ATTTT CATTGT CATTG- CATTTT CATTGT CATT-T
1 CATTGT CATTGT CATTGT CATTGT CATTGT CATTGT CATTGT CATTGT
207965 CATT-T CCATTGT CATTG- CATT
1 CATTGT -CATTGT CATTGT CATT
207986 TTAGTGCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
5 18 0.35
6 32 0.63
7 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.53
Consensus pattern (6 bp):
CATTGT
Found at i:207951 original size:11 final size:11
Alignment explanation
Indices: 207937--207985 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
207927 ATTGTATTTT
207937 CATTGTCATTG
1 CATTGTCATTG
*
207948 CATTTTCATTG
1 CATTGTCATTG
*
207959 TCATT-TCATTTC
1 -CATTGTCA-TTG
207971 CATTGTCATTG
1 CATTGTCATTG
207982 CATT
1 CATT
207986 TTAGTGCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
11 23 0.72
12 9 0.28
ACGTcount: A:0.18, C:0.20, G:0.10, T:0.51
Consensus pattern (11 bp):
CATTGTCATTG
Found at i:212808 original size:121 final size:122
Alignment explanation
Indices: 212634--212951 Score: 530
Period size: 121 Copynumber: 2.6 Consensus size: 122
212624 TTTGCCTTCA
212634 AGAAATATATGGAAGGTTTATTAAAACATTATATCCTTTTCAAAAGGATATTAACTTCCATGTTT
1 AGAAATATATGGAAGGTTTATTAAAACATTATATCC-TTTCAAAAGGATATTAACTTCCATGTTT
212699 TTAATATTAAATTTCCTTTTACTTAATATCTCATATTAAAATGAAATTATTCCTTTAG
65 TTAATATTAAATTTCCTTTTACTTAATATCTCATATTAAAATGAAATTATTCCTTTAG
*
212757 AGAAATATATGGAAAG-TTATTAAAACATTATATCCTTTCAAAAGGATATTAACTTCCATGTTTT
1 AGAAATATATGGAAGGTTTATTAAAACATTATATCCTTTCAAAAGGATATTAACTTCCATGTTTT
* * * * * *
212821 TAATATTTAATTTCCTTTTATTTAATATCTCATATTAAAGTGGAATTATTCTTTTAT
66 TAATATTAAATTTCCTTTTACTTAATATCTCATATTAAAATGAAATTATTCCTTTAG
*
212878 AGAAATATATGGAAGGTTTATTAAAACCATTATATCCTTTCCAAAAGGATATTAACTTCGATGTT
1 AGAAATATATGGAAGGTTTATTAAAA-CATTATATCCTTT-CAAAAGGATATTAACTTCCATGTT
212943 TTTAATATT
64 TTTAATATT
212952 TAACAAAATC
Statistics
Matches: 183, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
121 95 0.52
122 28 0.15
123 28 0.15
124 32 0.17
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (122 bp):
AGAAATATATGGAAGGTTTATTAAAACATTATATCCTTTCAAAAGGATATTAACTTCCATGTTTT
TAATATTAAATTTCCTTTTACTTAATATCTCATATTAAAATGAAATTATTCCTTTAG
Found at i:212835 original size:22 final size:22
Alignment explanation
Indices: 212805--212848 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
212795 CAAAAGGATA
212805 TTAACTTCCATGTT-TTTAATAT
1 TTAACTTCC-TGTTATTTAATAT
* *
212827 TTAATTTCCTTTTATTTAATAT
1 TTAACTTCCTGTTATTTAATAT
212849 CTCATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.59
Consensus pattern (22 bp):
TTAACTTCCTGTTATTTAATAT
Found at i:219792 original size:123 final size:121
Alignment explanation
Indices: 219645--220237 Score: 793
Period size: 123 Copynumber: 4.8 Consensus size: 121
219635 GTTCTGCTAT
* *
219645 ATTTCCTTTTATTTAATATATCATATTAAAATGAAAGTATTCCTTTAAAGAAATATATGGAAGGT
1 ATTTCC-TTTATTTAATATCTCATATTAAAATGAAA-TATTCCTTTAGAGAAATATATGGAAGGT
** *
219710 TTATTAAAACATTATATAATTTCCAAAAGGATATTAACTTCCATGTTTCTAATATTCA
64 TTATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTCTAATATTAA
*
219768 ATTTCTCTTTATTTAATATCTCATATTAAAATTGAAATATTCATTTAGAGAAATATATGGAAGGT
1 ATTTC-CTTTATTTAATATCTCATATTAAAA-TGAAATATTCCTTTAGAGAAATATATGGAAGGT
* * * *
219833 TTATTGAAACATTATATCCTTTCCAACAGGGTATTAACTTCCATGTTTTTAATATTAA
64 TTATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTCTAATATTAA
* * * * *
219891 ATTTCCTTT-TGCTTAATATCTCATATTAAAATGGAATTATTCTTTTAGAGAAATGTATGAAAAG
1 ATTTCCTTTAT--TTAATATCTCATATTAAAAT-GAAATATTCCTTTAGAGAAATATATGGAAGG
* * *
219955 -TTAATAAAACATTATATCCTTT-CAAAAGGATATTAACTTTCACA-CTTT-TAATATTCA
63 TTTATTAAAACATTATATCCTTTCCAAAAGGATATTAAC-TTC-CATGTTTCTAATATTAA
*
220012 ATTTCTTTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTAGAGAAATATATGGAAGGT
1 ATTTC-CTTTATTTAATATCTCATATTAAAAT-GAAATATTCCTTTAGAGAAATATATGGAAGGT
*
220077 TTATTAAAACATTATATCCTTTCCAAAGGGATATTAACTTCCATG-TTCTTAATATTAA
64 TTATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTC-TAATATTAA
* * *
220135 ATTTCCTTTTACTTAATATCTCATATTAAAATGGAATTATTCCTTTAAAGAAATATATGGAAGGT
1 ATTTCC-TTTATTTAATATCTCATATTAAAAT-GAAATATTCCTTTAGAGAAATATATGGAAGGT
* *
220200 TTATTAAAATATTATATCCTTCCCAAAAGGATATTAAC
64 TTATTAAAACATTATATCCTTTCCAAAAGGATATTAAC
220238 AAATAAGCTG
Statistics
Matches: 417, Mismatches: 38, Indels: 30
0.86 0.08 0.06
Matches are distributed among these distances:
121 78 0.19
122 58 0.14
123 275 0.66
124 6 0.01
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (121 bp):
ATTTCCTTTATTTAATATCTCATATTAAAATGAAATATTCCTTTAGAGAAATATATGGAAGGTTT
ATTAAAACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTCTAATATTAA
Found at i:220076 original size:244 final size:245
Alignment explanation
Indices: 219645--220237 Score: 924
Period size: 244 Copynumber: 2.4 Consensus size: 245
219635 GTTCTGCTAT
* * * *
219645 ATTTCCTTTTATTTAATATATCATATTAAAATGAAAGTATTCCTTTAAAGAAATATATGGAAGGT
1 ATTTCCTTTTACTTAATATCTCATATTAAAATGGAATTATTCCTTTAAAGAAATATATGGAAGGT
** *
219710 TTATTAAAACATTATATAATTTCCAAAAGGATATTAACTTCCATGTTTCTAATATTCAATTTCTC
66 TTATTAAAACATTATATCCTTT-CAAAAGGATATTAACTTCCATCTTTCTAATATTCAATTTCTC
* *
219775 TTTATTTAATATCTCATATTAAAATTGAAATATTCATTTAGAGAAATATATGGAAGGTTTATTGA
130 TTTATTTAATATCTCATATTAAAATGGAAATATTCATTTAGAGAAATATATGGAAGGTTTATTAA
*
219840 AACATTATATCCTTTCCAACAGGG-TATTAACTTCCATGTTTTTAATATTAA
195 AACATTATATCCTTTCCAA-AGGGATATTAACTTCCATGTTCTTAATATTAA
* * * * * *
219891 ATTTCCTTTTGCTTAATATCTCATATTAAAATGGAATTATTCTTTTAGAGAAATGTATGAAAAG-
1 ATTTCCTTTTACTTAATATCTCATATTAAAATGGAATTATTCCTTTAAAGAAATATATGGAAGGT
*
219955 TTAATAAAACATTATATCCTTTCAAAAGGATATTAACTTTCACA-CTTT-TAATATTCAATTTCT
66 TTATTAAAACATTATATCCTTTCAAAAGGATATTAAC-TTC-CATCTTTCTAATATTCAATTTCT
* *
220018 TTTTATTTAATATCTCATATTAAAATGGAAATATTCCTTTAGAGAAATATATGGAAGGTTTATTA
129 CTTTATTTAATATCTCATATTAAAATGGAAATATTCATTTAGAGAAATATATGGAAGGTTTATTA
220083 AAACATTATATCCTTTCCAAAGGGATATTAACTTCCATGTTCTTAATATTAA
194 AAACATTATATCCTTTCCAAAGGGATATTAACTTCCATGTTCTTAATATTAA
220135 ATTTCCTTTTACTTAATATCTCATATTAAAATGGAATTATTCCTTTAAAGAAATATATGGAAGGT
1 ATTTCCTTTTACTTAATATCTCATATTAAAATGGAATTATTCCTTTAAAGAAATATATGGAAGGT
* *
220200 TTATTAAAATATTATATCCTTCCCAAAAGGATATTAAC
66 TTATTAAAACATTATATCCTT-TCAAAAGGATATTAAC
220238 AAATAAGCTG
Statistics
Matches: 314, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
243 4 0.01
244 195 0.62
245 44 0.14
246 71 0.23
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.42
Consensus pattern (245 bp):
ATTTCCTTTTACTTAATATCTCATATTAAAATGGAATTATTCCTTTAAAGAAATATATGGAAGGT
TTATTAAAACATTATATCCTTTCAAAAGGATATTAACTTCCATCTTTCTAATATTCAATTTCTCT
TTATTTAATATCTCATATTAAAATGGAAATATTCATTTAGAGAAATATATGGAAGGTTTATTAAA
ACATTATATCCTTTCCAAAGGGATATTAACTTCCATGTTCTTAATATTAA
Found at i:221865 original size:57 final size:57
Alignment explanation
Indices: 221777--221891 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
221767 TGAAGTACAC
*
221777 TTAGTGTTCTTTCGACTTTTCACGTCAGGAACCCAATCTCATTATCATTGCATTTTA
1 TTAGTGTTCTATCGACTTTTCACGTCAGGAACCCAATCTCATTATCATTGCATTTTA
221834 TTAGTGTTCTATCGACTTTTCACGTCAGGAACCCAATCTCATTATCATTGCATTTTA
1 TTAGTGTTCTATCGACTTTTCACGTCAGGAACCCAATCTCATTATCATTGCATTTTA
221891 T
1 T
221892 CTTTAATTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (57 bp):
TTAGTGTTCTATCGACTTTTCACGTCAGGAACCCAATCTCATTATCATTGCATTTTA
Found at i:231328 original size:15 final size:15
Alignment explanation
Indices: 231288--231340 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
231278 TTCCATCTCC
231288 TCCTCTTCTTCATATT
1 TCCTCTTCTTCAT-TT
*
231304 CTTCTCCTTCTTCATTT
1 -TCCT-CTTCTTCATTT
* *
231321 TCCTCTTCATCATGT
1 TCCTCTTCTTCATTT
231336 TCCTC
1 TCCTC
231341 ATTTGTTGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 14 0.45
16 3 0.10
17 5 0.16
18 9 0.29
ACGTcount: A:0.09, C:0.36, G:0.02, T:0.53
Consensus pattern (15 bp):
TCCTCTTCTTCATTT
Found at i:233010 original size:21 final size:21
Alignment explanation
Indices: 232951--233022 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
232941 TAGTGTAATT
* *
232951 TTCTATCTG-TACAAGTGTCAG
1 TTCTA-CTGATACAAGTCTCAC
** * *
232972 TTCTACCAAAACATGTCTCAC
1 TTCTACTGATACAAGTCTCAC
*
232993 TTCTACTGATACAAGTCTTAC
1 TTCTACTGATACAAGTCTCAC
233014 TTCTACTGA
1 TTCTACTGA
233023 CACCAAAAAC
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 1 0.03
21 38 0.97
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (21 bp):
TTCTACTGATACAAGTCTCAC
Found at i:233792 original size:36 final size:37
Alignment explanation
Indices: 233692--233792 Score: 154
Period size: 36 Copynumber: 2.8 Consensus size: 37
233682 TCGTTATTCA
* *
233692 TTTTACTCCTTATTGACCCA-AAGGTCATAATGCTCG
1 TTTTACTCCCTATTGACCCAGAAGGTCATGATGCTCG
*
233728 TTTTACTCCCTATTGACCCAG-AGATCATGATGCTCG
1 TTTTACTCCCTATTGACCCAGAAGGTCATGATGCTCG
233764 TTTTACTCCCTATTGA-CCAGAAGGTCATG
1 TTTTACTCCCTATTGACCCAGAAGGTCATG
233793 TCTGTTACCA
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
35 4 0.07
36 55 0.93
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.35
Consensus pattern (37 bp):
TTTTACTCCCTATTGACCCAGAAGGTCATGATGCTCG
Found at i:234872 original size:21 final size:22
Alignment explanation
Indices: 234848--234890 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
234838 TTAAGACTTT
*
234848 CTTGATTAACTTT-GTTAATCA
1 CTTGATTAACTTTAATTAATCA
* *
234869 CTTGTTTAGCTTTAATTAATCA
1 CTTGATTAACTTTAATTAATCA
234891 TATTTTCTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (22 bp):
CTTGATTAACTTTAATTAATCA
Found at i:242890 original size:36 final size:36
Alignment explanation
Indices: 242790--242893 Score: 109
Period size: 36 Copynumber: 2.9 Consensus size: 36
242780 CGTTCGTTAT
* * * *
242790 TCGTTTGACTCTCTGTTAACCCAAAGGTCATAATGC
1 TCGTTTTACTCCCTATTAACCCAAAGGTCATGATGC
* * * * * *
242826 TCGTGTTATTTCCTATTGACCTAGAGGTCATGATGC
1 TCGTTTTACTCCCTATTAACCCAAAGGTCATGATGC
*
242862 TCGTTTTACTCCCTATTAACCCGAAGGTCATG
1 TCGTTTTACTCCCTATTAACCCAAAGGTCATG
242894 CTTGTTACCA
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (36 bp):
TCGTTTTACTCCCTATTAACCCAAAGGTCATGATGC
Found at i:251380 original size:18 final size:18
Alignment explanation
Indices: 251357--251393 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
251347 CCTAAAAAGA
251357 TAATTTCTGTGTACTCTT
1 TAATTTCTGTGTACTCTT
251375 TAATTTCTGTGTACTCTT
1 TAATTTCTGTGTACTCTT
251393 T
1 T
251394 TCTTTGGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.57
Consensus pattern (18 bp):
TAATTTCTGTGTACTCTT
Found at i:258198 original size:21 final size:20
Alignment explanation
Indices: 258157--258194 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
258147 CATTCCCTCA
258157 ATAGCCCCCTTTTCACTCTT
1 ATAGCCCCCTTTTCACTCTT
*
258177 ATAGTCCCCTTTTCACTC
1 ATAGCCCCCTTTTCACTC
258195 CTTAATCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.39, G:0.05, T:0.39
Consensus pattern (20 bp):
ATAGCCCCCTTTTCACTCTT
Found at i:281503 original size:21 final size:21
Alignment explanation
Indices: 281479--281523 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
281469 TTGCTTTAAC
281479 TTTCATTATTTTTGTTTTGTT
1 TTTCATTATTTTTGTTTTGTT
*
281500 TTTCATTGTTTTTGTTTTGTT
1 TTTCATTATTTTTGTTTTGTT
281521 TTT
1 TTT
281524 TTTTTGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.07, C:0.04, G:0.11, T:0.78
Consensus pattern (21 bp):
TTTCATTATTTTTGTTTTGTT
Found at i:281519 original size:11 final size:11
Alignment explanation
Indices: 281487--281536 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
281477 ACTTTCATTA
281487 TTTTTGTTTTG
1 TTTTTGTTTTG
**
281498 TTTTT-CATTG
1 TTTTTGTTTTG
281508 TTTTTGTTTTG
1 TTTTTGTTTTG
*
281519 TTTTTTTTTTG
1 TTTTTGTTTTG
*
281530 CTTTTGT
1 TTTTTGT
281537 CGCATGCTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
10 8 0.26
11 23 0.74
ACGTcount: A:0.02, C:0.04, G:0.14, T:0.80
Consensus pattern (11 bp):
TTTTTGTTTTG
Found at i:283255 original size:15 final size:15
Alignment explanation
Indices: 283235--283284 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
283225 AGATATGCTT
283235 TTTTTATTTTGTTTA
1 TTTTTATTTTGTTTA
* *
283250 TTTTTATTATCTTT-
1 TTTTTATTTTGTTTA
283264 TTCTTTA-TTTGTTTA
1 TT-TTTATTTTGTTTA
*
283279 ATTTTA
1 TTTTTA
283285 GTTTATGACA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (15 bp):
TTTTTATTTTGTTTA
Found at i:296301 original size:7 final size:7
Alignment explanation
Indices: 296289--296320 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
296279 CAACCTCCTT
296289 CTCTTTC
1 CTCTTTC
296296 CTCTTTC
1 CTCTTTC
296303 CTCTTTC
1 CTCTTTC
296310 CTCTTTC
1 CTCTTTC
296317 CTCT
1 CTCT
296321 CATTTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (7 bp):
CTCTTTC
Found at i:300576 original size:20 final size:18
Alignment explanation
Indices: 300534--300576 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
300524 TTTACTTAAA
300534 ATAA-AAAAATTAAATTT
1 ATAATAAAAATTAAATTT
*
300551 AAAATAAAAATTATAATATT
1 ATAATAAAAATTA-AAT-TT
300571 ATAATA
1 ATAATA
300577 TTTTTTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 3 0.14
18 8 0.38
19 3 0.14
20 7 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAATAAAAATTAAATTT
Found at i:300684 original size:15 final size:15
Alignment explanation
Indices: 300656--300714 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
300646 ATATTTTTTT
300656 TATAAATTTCTAAAATA
1 TATAAA-TT-TAAAATA
* *
300673 TATAAATTTAAATTG
1 TATAAATTTAAAATA
* *
300688 TAAAAAGTTAAAATA
1 TATAAATTTAAAATA
300703 -ATAAA-TTAAAAT
1 TATAAATTTAAAAT
300715 TAAAAATGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
13 7 0.20
14 4 0.11
15 16 0.46
16 2 0.06
17 6 0.17
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (15 bp):
TATAAATTTAAAATA
Found at i:300720 original size:28 final size:30
Alignment explanation
Indices: 300666--300725 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
300656 TATAAATTTC
* *
300666 TAAAATATATAAATTTAAATTGTAAAAAGT
1 TAAAATATATAAATTAAAATTGAAAAAAGT
*
300696 TAAAATA-ATAAATTAAAATT-AAAAATGT
1 TAAAATATATAAATTAAAATTGAAAAAAGT
300724 TA
1 TA
300726 TAAAAATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 8 0.30
29 12 0.44
30 7 0.26
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (30 bp):
TAAAATATATAAATTAAAATTGAAAAAAGT
Found at i:300877 original size:22 final size:21
Alignment explanation
Indices: 300836--300877 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
300826 ATTTTAGAGT
* *
300836 TTTATAAAAAAATATTTTTAA
1 TTTAAAAAAAAATATATTTAA
300857 TTTAAAAAAAAATTATATTTA
1 TTTAAAAAAAAA-TATATTTA
300878 TTATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAAAAAAAAATATATTTAA
Found at i:302746 original size:29 final size:31
Alignment explanation
Indices: 302677--302753 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
302667 ATCTCAAAAT
* * *
302677 TATACATGAATTTTAATTTGATATGTAATTG
1 TATATATGAATTTTAATTTGATATATAATTA
302708 TATATATGAATTTTAATTT-A-ATATAATTA
1 TATATATGAATTTTAATTTGATATATAATTA
*
302737 TATATGTGAAATTTTAA
1 TATATATG-AATTTTAA
302754 ACGTGGTTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
29 14 0.34
30 9 0.22
31 18 0.44
ACGTcount: A:0.40, C:0.01, G:0.09, T:0.49
Consensus pattern (31 bp):
TATATATGAATTTTAATTTGATATATAATTA
Found at i:305631 original size:585 final size:585
Alignment explanation
Indices: 304521--305689 Score: 2225
Period size: 585 Copynumber: 2.0 Consensus size: 585
304511 GTTTGAGGAC
* *
304521 TCCTATTTCGTTGTACTATAGGTGGGTAACGAGACCCTTTAGTTTTTTGCGATTTTGCTGTATTT
1 TCCTATTTCGTTGTACTACAGGTGGGTAACGAGACCCTTTAGTATTTTGCGATTTTGCTGTATTT
*
304586 TCTTCCCATAAATGCCACATTTCAGAGGCACACGGGCTGGCATACTAGCATGTGCCTAGGTCGTG
66 TCTTCCCATAAATGCCACATTTCAGAGGCACACGAGCTGGCATACTAGCATGTGCCTAGGTCGTG
304651 TGTTATTAAAACAAGTTACATAGGACACACCGGTTGGACACACAGGCGTGTGCCAGACCGTGTGT
131 TGTTATTAAAACAAGTTACATAGGACACACCGGTTGGACACACAGGCGTGTGCCAGACCGTGTGT
304716 GTATATTGTTTTGAGAATTAAGGTACAGGGGACACACGAGAAATCATTGCCTGATAACTATAGCC
196 GTATATTGTTTTGAGAATTAAGGTACAGGGGACACACGAGAAATCATTGCCTGATAACTATAGCC
304781 AATTTGTCCTCAATTCAATATGAATGAAATTGACAAGACTTTGTCACAGTTACTCAGCATGTTGC
261 AATTTGTCCTCAATTCAATATGAATGAAATTGACAAGACTTTGTCACAGTTACTCAGCATGTTGC
* *
304846 GAACTGCTGAAGGTAACATGAAAAAGGCAGGACCCAAGCCAATTTTGATGGTTTGTAATAATAAG
326 GAACTACTGAAGGTAACATGAAAAAGGCAGGACCCAAGCCAATTTTGATGGTTTGTAATAACAAG
304911 GGAAAGGGTAAAGCTAAAGCTAAGACAAAGCCCAAGGGAACTGCTCCCATTGTGGTATGACTAGG
391 GGAAAGGGTAAAGCTAAAGCTAAGACAAAGCCCAAGGGAACTGCTCCCATTGTGGTATGACTAGG
*
304976 GATTGGAAAAGGAACTGCCCTGTCTACCTTAGGGAAGTAAAGAAGGCCAAAGTAAGCGGGGTATC
456 GATTGGAAAAGGAACTGCCCTGTCTACCTTAGGGAAGTAAAGAAGGCCAAAGCAAGCGGGGTATC
305041 TTTATCAGCCCTCGAGGCATTAATAAGTGGTTCATTTGGAAGGGGTTGTTTAATGACATAATTTG
521 TTTATCAGCCCTCGAGGCATTAATAAGTGGTTCATTTGGAAGGGGTTGTTTAATGACATAATTTG
305106 TCCTATTTCGTTGTACTACAGGTGGGTAACGAGACCCTTTAGTATTTTGCGATTTTGCTGTATTT
1 TCCTATTTCGTTGTACTACAGGTGGGTAACGAGACCCTTTAGTATTTTGCGATTTTGCTGTATTT
305171 TCTTCCCATAAATGCCACATTTC-GAAGGCACACGAGCTGGCATACTAGCATGTGCCTAGGTCGT
66 TCTTCCCATAAATGCCACATTTCAG-AGGCACACGAGCTGGCATACTAGCATGTGCCTAGGTCGT
305235 GTGTTATTAAAACAAGTTACATAGGACACACCGGTTGGACACACAGGCGTGTGCCAGACCGTGTG
130 GTGTTATTAAAACAAGTTACATAGGACACACCGGTTGGACACACAGGCGTGTGCCAGACCGTGTG
*
305300 TGTATATTGTTTTGAGAATTAAGGTACAGGGGACACACGAGAAATCATTGCTTGATAACTATAGC
195 TGTATATTGTTTTGAGAATTAAGGTACAGGGGACACACGAGAAATCATTGCCTGATAACTATAGC
* *
305365 CAATTTGTCCTCACTTCAATATGAATGAAATTGACAAGACTTTGTCACAGTTACTTAGCATGTTG
260 CAATTTGTCCTCAATTCAATATGAATGAAATTGACAAGACTTTGTCACAGTTACTCAGCATGTTG
305430 CGAACTACTGAAGGTAACATGAAAAAGGCAGGACCCAAGCCAATTTTGATGGTTTGTAATAACAA
325 CGAACTACTGAAGGTAACATGAAAAAGGCAGGACCCAAGCCAATTTTGATGGTTTGTAATAACAA
305495 GGGAAAGGGTAAAGCTAAAGCTAAGACAAAGCCCAAGGGAACTGCTCCCATTGTGGTATGACT-G
390 GGGAAAGGGTAAAGCTAAAGCTAAGACAAAGCCCAAGGGAACTGCTCCCATTGTGGTATGACTAG
305559 GAGATTGGAAAAGGAACTGCCCTGTCTACCTTAGGGAAGTAAAGAAGGCCAAAGCAAGCGGGGTA
455 G-GATTGGAAAAGGAACTGCCCTGTCTACCTTAGGGAAGTAAAGAAGGCCAAAGCAAGCGGGGTA
305624 TCTTTATCAGCCCTCGAGGCATTAATAAGTGGTTCATTTGGAAGGGGTTGTTTAATGACATAATT
519 TCTTTATCAGCCCTCGAGGCATTAATAAGTGGTTCATTTGGAAGGGGTTGTTTAATGACATAATT
305689 T
584 T
305690 TCATTCTTGT
Statistics
Matches: 573, Mismatches: 9, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
584 3 0.01
585 570 0.99
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (585 bp):
TCCTATTTCGTTGTACTACAGGTGGGTAACGAGACCCTTTAGTATTTTGCGATTTTGCTGTATTT
TCTTCCCATAAATGCCACATTTCAGAGGCACACGAGCTGGCATACTAGCATGTGCCTAGGTCGTG
TGTTATTAAAACAAGTTACATAGGACACACCGGTTGGACACACAGGCGTGTGCCAGACCGTGTGT
GTATATTGTTTTGAGAATTAAGGTACAGGGGACACACGAGAAATCATTGCCTGATAACTATAGCC
AATTTGTCCTCAATTCAATATGAATGAAATTGACAAGACTTTGTCACAGTTACTCAGCATGTTGC
GAACTACTGAAGGTAACATGAAAAAGGCAGGACCCAAGCCAATTTTGATGGTTTGTAATAACAAG
GGAAAGGGTAAAGCTAAAGCTAAGACAAAGCCCAAGGGAACTGCTCCCATTGTGGTATGACTAGG
GATTGGAAAAGGAACTGCCCTGTCTACCTTAGGGAAGTAAAGAAGGCCAAAGCAAGCGGGGTATC
TTTATCAGCCCTCGAGGCATTAATAAGTGGTTCATTTGGAAGGGGTTGTTTAATGACATAATTTG
Found at i:309459 original size:17 final size:18
Alignment explanation
Indices: 309437--309470 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
309427 CTATTGCTTA
309437 AAAAATTAAT-TTTCATG
1 AAAAATTAATCTTTCATG
*
309454 AAAAATTGATCTTTCAT
1 AAAAATTAATCTTTCAT
309471 CTCGAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (18 bp):
AAAAATTAATCTTTCATG
Found at i:309978 original size:15 final size:16
Alignment explanation
Indices: 309948--309985 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
309938 GTAAAAATGA
*
309948 TTAAAAAGATTAAAAT
1 TTAATAAGATTAAAAT
309964 TTAATAAGA-TAAAAT
1 TTAATAAGATTAAAAT
*
309979 TAAATAA
1 TTAATAA
309986 AAAGACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TTAATAAGATTAAAAT
Found at i:312141 original size:39 final size:38
Alignment explanation
Indices: 312025--312273 Score: 180
Period size: 39 Copynumber: 6.3 Consensus size: 38
312015 AGATGGTGGC
* * * * *
312025 CTTCAATCTTCCCCATGATCGGGGTAACAGATTGAATGATA
1 CTTCAATCTGCCCCATTA-CTGGGTAAGAGATTGGATG--A
312066 TCTTCAATCTGCCCCATTACTGGGTAAGAGATTGGATGA
1 -CTTCAATCTGCCCCATTACTGGGTAAGAGATTGGATGA
*
312105 CTTCAATCTGCCCCATTACTAGGGTAAGAGATTGGATGG
1 CTTCAATCTGCCCCATTACT-GGGTAAGAGATTGGATGA
* *** *
312144 CTTCAATCTGCCACATGGTTGGAGTAAGAGATTTGATGATGT
1 CTTCAATCTGCCCCATTACTGG-GTAAGAGA-TTG--GATGA
* * *
312186 CTTCAATCTACCCCATGATCTGAGT-A-AGATTGGATG-
1 CTTCAATCTGCCCCATTA-CTGGGTAAGAGATTGGATGA
* * * * * *
312222 TTTCAATTTGCCCCATGATTGTGGTAAGAGATTAGTATGT
1 CTTCAATCTGCCCCATTACTG-GGTAAGAGATT-GGATGA
*
312262 CTTCAATTTGCC
1 CTTCAATCTGCC
312274 TTCTGATTAA
Statistics
Matches: 173, Mismatches: 23, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
35 2 0.01
36 17 0.10
37 5 0.03
38 27 0.16
39 49 0.28
40 17 0.10
41 17 0.10
42 37 0.21
43 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (38 bp):
CTTCAATCTGCCCCATTACTGGGTAAGAGATTGGATGA
Found at i:312211 original size:42 final size:39
Alignment explanation
Indices: 312025--312695 Score: 324
Period size: 38 Copynumber: 17.5 Consensus size: 39
312015 AGATGGTGGC
* * * *
312025 CTTCAATCTTCCCCATGATCGGGGTAACAGATTGAATGATAT
1 CTTCAATCTGCCCCATGATCTGGGTAAGAGATTG---GATGT
* *
312067 CTTCAATCTGCCCCATTA-CTGGGTAAGAGATTGGATGA
1 CTTCAATCTGCCCCATGATCTGGGTAAGAGATTGGATGT
* *
312105 CTTCAATCTGCCCCATTA-CTAGGGTAAGAGATTGGATGG
1 CTTCAATCTGCCCCATGATCT-GGGTAAGAGATTGGATGT
* *
312144 CTTCAATCTGCCACATGGT-TGGAGTAAGAGATTTGATGATGT
1 CTTCAATCTGCCCCATGATCTGG-GTAAGAGA-TTG--GATGT
* *
312186 CTTCAATCTACCCCATGATCTGAGT-A-AGATTGGATGT
1 CTTCAATCTGCCCCATGATCTGGGTAAGAGATTGGATGT
* *
312223 -TTCAATTTGCCCCATGAT-TGTGGTAAGAGATTAGTATGT
1 CTTCAATCTGCCCCATGATCTG-GGTAAGAGATT-GGATGT
* * * * **
312262 CTTCAATTTGCCTTC-TGAT-TAAGGTAAAAGATCAGATG-
1 CTTCAATCTGCC-CCATGATCT-GGGTAAGAGATTGGATGT
*
312300 CTTCAATCTACCCTC-TGA--T---T--G-G---GG-TGT
1 CTTCAATCTGCCC-CATGATCTGGGTAAGAGATTGGATGT
* * * **
312327 CTTCAATCTGCCCCCTGAT-TAGGTTAAAAGATTAAATG-
1 CTTCAATCTGCCCCATGATCT-GGGTAAGAGATTGGATGT
* * *
312365 CTTCAATTTGCCCCATGATCGGGGTAAGAGGTTGG-TGT
1 CTTCAATCTGCCCCATGATCTGGGTAAGAGATTGGATGT
* ** * *
312403 GTTTACAATCTGCCCTTTGAT-TAGGGTAAAAGATTGAATGT
1 -CTT-CAATCTGCCCCATGATCT-GGGTAAGAGATTGGATGT
* * *
312444 -TTTAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
1 CTTCAATCTGCCCCATGATCTGGGTAAGAGATTGG-ATGT
* * * *
312483 CTTTAATCTTCCCTC-TGAT-TAGGGTAAAAGATTGAATG-
1 CTTCAATCTGCCC-CATGATCT-GGGTAAGAGATTGGATGT
* * * *
312521 CTTTAATCTG-CTCATGATCGGGGTAAGAGATTGGTGTGT
1 CTTCAATCTGCCCCATGATCTGGGTAAGAGATTGG-ATGT
* * *
312560 TTTCAATCTGCCTTC-TGAT-TGGAGTAAAAGATTGGATG-
1 CTTCAATCTGCC-CCATGATCTGG-GTAAGAGATTGGATGT
*
312598 CTTCAATCTGCCCCATGAT-TAGGGTAAGAGTTTGG-TGT
1 CTTCAATCTGCCCCATGATCT-GGGTAAGAGATTGGATGT
* * *
312636 GCCTTCAATCTACCCTC-TGAT-TAAGGTAAAAGATTGGATG-
1 --CTTCAATCTGCCC-CATGATCT-GGGTAAGAGATTGGATGT
* *
312676 CTTTAATCTACCCCATGATC
1 CTTCAATCTGCCCCATGATC
312696 AATGTATGAG
Statistics
Matches: 491, Mismatches: 82, Indels: 115
0.71 0.12 0.17
Matches are distributed among these distances:
26 3 0.01
27 16 0.03
28 1 0.00
30 1 0.00
32 1 0.00
33 1 0.00
35 3 0.01
36 19 0.04
37 30 0.06
38 148 0.30
39 77 0.16
40 127 0.26
41 24 0.05
42 38 0.08
43 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (39 bp):
CTTCAATCTGCCCCATGATCTGGGTAAGAGATTGGATGT
Found at i:312281 original size:40 final size:38
Alignment explanation
Indices: 312218--312320 Score: 93
Period size: 40 Copynumber: 2.7 Consensus size: 38
312208 AGTAAGATTG
* * * *
312218 GATGT-TTCAATTTGCCCCATGATTGTGGTAAGAGATTA
1 GATGTCTTCAATTTGCCTC-TGATTGAGGTAAAAGATCA
*
312256 GTATGTCTTCAATTTGCCTTCTGATTAAGGTAAAAGATCA
1 G-ATGTCTTCAATTTGCC-TCTGATTGAGGTAAAAGATCA
**
312296 GATG-CTTCAATCTACCCTCTGATTG
1 GATGTCTTCAAT-TTGCCTCTGATTG
312321 GGGTGTCTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
38 15 0.28
39 10 0.19
40 27 0.51
41 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.37
Consensus pattern (38 bp):
GATGTCTTCAATTTGCCTCTGATTGAGGTAAAAGATCA
Found at i:312389 original size:65 final size:65
Alignment explanation
Indices: 312259--312389 Score: 158
Period size: 65 Copynumber: 2.0 Consensus size: 65
312249 GAGATTAGTA
* ** * *
312259 TGTCTTCAATTTGCCTTCTGATTAAGGTAAAAGATCAGATGCTTCAATCTACCCTCTGATTGGGG
1 TGTCTTCAATCTGCCCCCTGATTAAGGTAAAAGATCAAATGCTTCAATCTACCCTCTGATCGGGG
* * *
312324 TGTCTTCAATCTGCCCCCTGATT-AGGTTAAAAGATTAAATGCTTCAATTTGCCC-CATGATCGG
1 TGTCTTCAATCTGCCCCCTGATTAAGG-TAAAAGATCAAATGCTTCAATCTACCCTC-TGATCGG
312387 GG
64 GG
312389 T
1 T
312390 AAGAGGTTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
64 4 0.07
65 52 0.93
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (65 bp):
TGTCTTCAATCTGCCCCCTGATTAAGGTAAAAGATCAAATGCTTCAATCTACCCTCTGATCGGGG
Found at i:312426 original size:78 final size:77
Alignment explanation
Indices: 312316--312695 Score: 485
Period size: 78 Copynumber: 4.9 Consensus size: 77
312306 TCTACCCTCT
* * * * * *
312316 GATTGGGGTGTCTTCAATCTGCCCCCTGATTAGGTTAAAAGATTAAATGCTTCAATTTGCCCCAT
1 GATTGGTGTGT-TTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGCTTTAATCTGCCCCAT
312381 GATCGGGGTAAGA
65 GATCGGGGTAAGA
* * *
312394 GGTTGGTGTGTTTACAATCTGCCCTTTGATTAGGGTAAAAGATTGAATGTTTTAATCTGCCCCAT
1 GATTGGTGTGTTT-CAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGCTTTAATCTGCCCCAT
312459 GATCGGGGTAAGA
65 GATCGGGGTAAGA
* * *
312472 GATTGGTGTGTCTTTAATCTTCCCTCTGATTAGGGTAAAAGATTGAATGCTTTAATCTG-CTCAT
1 GATTGGTGTGT-TTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGCTTTAATCTGCCCCAT
312536 GATCGGGGTAAGA
65 GATCGGGGTAAGA
* * *
312549 GATTGGTGTGTTTTCAATCTGCCTTCTGATT-GGAGTAAAAGATTGGATGCTTCAATCTGCCCCA
1 GATTGGTGTG-TTTCAATCTGCCCTCTGATTAGG-GTAAAAGATTGAATGCTTTAATCTGCCCCA
**
312613 TGATTAGGGTAAGA
64 TGATCGGGGTAAGA
* * * * * *
312627 GTTTGGTGTGCCTTCAATCTACCCTCTGATTAAGGTAAAAGATTGGATGCTTTAATCTACCCCAT
1 GATTGGTGTG-TTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGCTTTAATCTGCCCCAT
312692 GATC
65 GATC
312696 AATGTATGAG
Statistics
Matches: 264, Mismatches: 32, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
76 2 0.01
77 68 0.26
78 191 0.72
79 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (77 bp):
GATTGGTGTGTTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGCTTTAATCTGCCCCATG
ATCGGGGTAAGA
Found at i:312606 original size:155 final size:156
Alignment explanation
Indices: 312316--312695 Score: 523
Period size: 155 Copynumber: 2.4 Consensus size: 156
312306 TCTACCCTCT
* * * * * * *
312316 GATTGGGGTGTCTTCAATCTGCCCCCTGATTAGGTTAAAAGATTAAATGCTTCAATTTGCCCCAT
1 GATTGGTGTGTCTTCAATCTACCCTCTGATTAGGGTAAAAGATTGAATGCTTTAATCTGCCCCAT
* *
312381 GATCGGGGTAAGAGGTTGGTGTGTTTACAATCTGCCCTTTGATTAGGGTAAAAGATTGAATGTTT
66 GATCGGGGTAAGAGATTGGTGTGTTTACAATCTGCCCTTTGATTAGGGTAAAAGATTGAATGCTT
* *
312446 TAATCTGCCCCATGATCGGGGTAAGA
131 CAATCTGCCCCATGATCAGGGTAAGA
* * *
312472 GATTGGTGTGTCTTTAATCTTCCCTCTGATTAGGGTAAAAGATTGAATGCTTTAATCTG-CTCAT
1 GATTGGTGTGTCTTCAATCTACCCTCTGATTAGGGTAAAAGATTGAATGCTTTAATCTGCCCCAT
* *
312536 GATCGGGGTAAGAGATTGGTGTGTTTTCAATCTG-CCTTCTGATT-GGAGTAAAAGATTGGATGC
66 GATCGGGGTAAGAGATTGGTGTGTTTACAATCTGCCCTT-TGATTAGG-GTAAAAGATTGAATGC
*
312599 TTCAATCTGCCCCATGATTAGGGTAAGA
129 TTCAATCTGCCCCATGATCAGGGTAAGA
* * * * *
312627 GTTTGGTGTGCCTTCAATCTACCCTCTGATTAAGGTAAAAGATTGGATGCTTTAATCTACCCCAT
1 GATTGGTGTGTCTTCAATCTACCCTCTGATTAGGGTAAAAGATTGAATGCTTTAATCTGCCCCAT
312692 GATC
66 GATC
312696 AATGTATGAG
Statistics
Matches: 197, Mismatches: 24, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
154 6 0.03
155 132 0.67
156 59 0.30
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (156 bp):
GATTGGTGTGTCTTCAATCTACCCTCTGATTAGGGTAAAAGATTGAATGCTTTAATCTGCCCCAT
GATCGGGGTAAGAGATTGGTGTGTTTACAATCTGCCCTTTGATTAGGGTAAAAGATTGAATGCTT
CAATCTGCCCCATGATCAGGGTAAGA
Found at i:312968 original size:42 final size:42
Alignment explanation
Indices: 312867--312968 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 42
312857 TTGCCTTCGT
* *
312867 AGCTTCAATCTAGCCTTT-TACAGTTTTGAAATTCACCTTTAC
1 AGCTTCAATCT-GCTTTTCTACAGTCTTGAAATTCACCTTTAC
* * * *
312909 AGCTTGAATCTGCTTTTCTACAGTCTTGAGATTCGCCTTTTC
1 AGCTTCAATCTGCTTTTCTACAGTCTTGAAATTCACCTTTAC
* * *
312951 GGCTTCAATTTGTTTTTC
1 AGCTTCAATCTGCTTTTC
312969 CTCATCTTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
41 5 0.10
42 44 0.90
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.44
Consensus pattern (42 bp):
AGCTTCAATCTGCTTTTCTACAGTCTTGAAATTCACCTTTAC
Found at i:313068 original size:49 final size:49
Alignment explanation
Indices: 313010--313179 Score: 180
Period size: 49 Copynumber: 3.5 Consensus size: 49
313000 AGCCTTAATA
* * * *
313010 TTTCCCTTCACATCTCTAAGGTATAAGGTTCGTCGTTGCGGCTTAAACC
1 TTTCCCTTCATATCTCTAAGGTACAAGGTTTGTCGTTGCGGCTTCAACC
* * * * *
313059 TTTCTCTTCATATCT-TCATGGTACAAGATTTATCGTTGCGGCTTCAATC
1 TTTCCCTTCATATCTCT-AAGGTACAAGGTTTGTCGTTGCGGCTTCAACC
* * * * *
313108 TTTCCCATCATTTCTCTAAGGTACATGGTTTGTTGTTACGGCTTCAACC
1 TTTCCCTTCATATCTCTAAGGTACAAGGTTTGTCGTTGCGGCTTCAACC
* *
313157 TTTCCCTCCATATCTCTAGGGTA
1 TTTCCCTTCATATCTCTAAGGTA
313180 TTAGATCTAC
Statistics
Matches: 96, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
48 1 0.01
49 94 0.98
50 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.39
Consensus pattern (49 bp):
TTTCCCTTCATATCTCTAAGGTACAAGGTTTGTCGTTGCGGCTTCAACC
Done.