Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 183 of 290
Found at i:62624421 original size:29 final size:29
Alignment explanation
Indices: 62624365--62624464 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 29
62624355 GTGAGCATGA
* *
62624365 ATATGAATGTGA-CTAGGCCTAATGGGCC
1 ATATAAATGTGATTTAGGCCTAATGGGCC
*
62624393 ATATAAATGTGATTTAGACCTAATGGGCC
1 ATATAAATGTGATTTAGGCCTAATGGGCC
* * * *
62624422 ATATACAGGTGATTTTGGCCTAGTGGGCC
1 ATATAAATGTGATTTAGGCCTAATGGGCC
* *
62624451 ATATGAATATGATT
1 ATATAAATGTGATT
62624465 GGGCTTAATG
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 11 0.19
29 48 0.81
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (29 bp):
ATATAAATGTGATTTAGGCCTAATGGGCC
Found at i:62625515 original size:21 final size:20
Alignment explanation
Indices: 62625490--62625528 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
62625480 AAGGCTTTCG
62625490 TAATTGAAAGGTTTTTTTAGT
1 TAATT-AAAGGTTTTTTTAGT
* *
62625511 TAATTAGAGTTTTTTTTA
1 TAATTAAAGGTTTTTTTA
62625529 AAAAAGGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (20 bp):
TAATTAAAGGTTTTTTTAGT
Found at i:62629424 original size:28 final size:29
Alignment explanation
Indices: 62629314--62629428 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
62629304 GTGAGCATGA
* *
62629314 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
62629342 ATATAAATGTGATTTAGGCCTAATGGGCT
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
62629371 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
62629400 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
62629428 A
1 A
62629429 GATATAGGTA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
28 28 0.38
29 44 0.60
30 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:62630463 original size:22 final size:20
Alignment explanation
Indices: 62630438--62630477 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
62630428 AAGGCTTTCA
62630438 TAATTGAAAGGTTTTTTTTAGT
1 TAATT-AAA-GTTTTTTTTAGT
*
62630460 TAATTAGAGTTTTTTTTA
1 TAATTAAAGTTTTTTTTA
62630478 AGAAGGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 2 0.12
22 5 0.29
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (20 bp):
TAATTAAAGTTTTTTTTAGT
Found at i:62639601 original size:29 final size:30
Alignment explanation
Indices: 62639568--62639632 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
62639558 GCCTCAAGTA
* *
62639568 GCCAAAGTTAATTTAAATCTCACACTT-GT
1 GCCAAAGCTAATTTAAATCGCACACTTAGT
*
62639597 GCCAAAGCTAGTTTAAATCGCACACTTAGT
1 GCCAAAGCTAATTTAAATCGCACACTTAGT
62639627 GCCAAA
1 GCCAAA
62639633 ATTTACGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 24 0.75
30 8 0.25
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (30 bp):
GCCAAAGCTAATTTAAATCGCACACTTAGT
Found at i:62646601 original size:18 final size:18
Alignment explanation
Indices: 62646578--62646612 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62646568 ATCCAATTAA
62646578 CATAGAGATAGACGTAGC
1 CATAGAGATAGACGTAGC
* *
62646596 CATAGAGGTAGATGTAG
1 CATAGAGATAGACGTAG
62646613 AAGTAGCAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.31, T:0.20
Consensus pattern (18 bp):
CATAGAGATAGACGTAGC
Found at i:62648346 original size:19 final size:19
Alignment explanation
Indices: 62648277--62648350 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
62648267 TTATAATTTT
* *
62648277 TCTCTCATAAGTTTTGTTAT
1 TCTCTCATAA-TTTTTTTAA
*
62648297 TC-CTCGTAATTTTTGTT-A
1 TCTCTCATAATTTTT-TTAA
*
62648315 -CT-TCATACTTTTTTTTAA
1 TCTCTCATA-ATTTTTTTAA
62648333 TCTCTCATAATTTTTTTA
1 TCTCTCATAATTTTTTTA
62648351 CTAAAAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
17 7 0.17
18 10 0.24
19 18 0.43
20 7 0.17
ACGTcount: A:0.20, C:0.16, G:0.05, T:0.58
Consensus pattern (19 bp):
TCTCTCATAATTTTTTTAA
Found at i:62665127 original size:25 final size:24
Alignment explanation
Indices: 62665087--62665173 Score: 75
Period size: 25 Copynumber: 3.5 Consensus size: 24
62665077 CATGTTCATA
* *
62665087 TATGCTCATACGAGCTGTGAATCGG
1 TATGCTCACACAAGCTGT-AATCGG
* *
62665112 TATGCTCACTCAAGCTGTAGATCAG
1 TATGCTCACACAAGCTGTA-ATCGG
* * *
62665137 TATGCTCTCACAAGTTATAAATCGG
1 TATGCTCACACAAGCTGT-AATCGG
*
62665162 TATGCTCTCACA
1 TATGCTCACACA
62665174 TGCTATGGAG
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 1 0.02
25 49 0.96
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (24 bp):
TATGCTCACACAAGCTGTAATCGG
Found at i:62666512 original size:25 final size:25
Alignment explanation
Indices: 62666479--62666548 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
62666469 AGGAAGTGTT
*
62666479 GAAAGGGCTCTGCCCCAGTTTACC-
1 GAAAGGGCTTTGCCCCAGTTTACCA
*
62666503 GAAAAGGGCTTTGCCCCAGTTTATCA
1 G-AAAGGGCTTTGCCCCAGTTTACCA
*
62666529 GAAAGGGCTTTGCCCTAGTT
1 GAAAGGGCTTTGCCCCAGTT
62666549 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.02
25 39 0.95
26 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (25 bp):
GAAAGGGCTTTGCCCCAGTTTACCA
Found at i:62666561 original size:24 final size:23
Alignment explanation
Indices: 62666480--62666575 Score: 75
Period size: 25 Copynumber: 3.9 Consensus size: 23
62666470 GGAAGTGTTG
* * *
62666480 AAAGGGCTCTGCCCCAGTTTACCGA
1 AAAGGGCTTTGCCCTAG-TTATC-A
*
62666505 AAAGGGCTTTGCCCCAGTTTATCA
1 AAAGGGCTTTGCCCTAG-TTATCA
*
62666529 GAAAGGGCTTTGCCCTAGTTATTA
1 -AAAGGGCTTTGCCCTAGTTATCA
**
62666553 AAAGAGGCTAGGCCTCTAGTTAT
1 AAAG-GGCTTTGCC-CTAGTTAT
62666576 ATGATAAAGC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.06
24 13 0.21
25 45 0.73
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTTGCCCTAGTTATCA
Found at i:62666755 original size:42 final size:42
Alignment explanation
Indices: 62666696--62666787 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
62666686 TAGTCTCCCC
*
62666696 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
62666738 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
62666780 AAATGGGC
1 AAATGGGC
62666788 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:62666846 original size:31 final size:31
Alignment explanation
Indices: 62666811--62666889 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
62666801 CGTTTACAGT
62666811 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
62666842 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
62666873 AAAGGCTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
62666890 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:62668068 original size:27 final size:27
Alignment explanation
Indices: 62668038--62668111 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
62668028 TAATATCACA
**
62668038 GCAAAGCTGCCAGTAACAGTAAATGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
* **
62668065 GCAAAGCCACTAGTAACAGTAGTTGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
*
62668092 GCAGAGCCACCAGT-ACAGTA
1 GCAAAGCCACCAGTAACAGTA
62668112 CTTCCTCCGA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 6 0.15
27 34 0.85
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.18
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTAAATGTG
Found at i:62693846 original size:27 final size:28
Alignment explanation
Indices: 62693762--62693859 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
62693752 CATGAGATTG
* * * *
62693762 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
62693791 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
62693819 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
62693846 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
62693860 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:62693870 original size:27 final size:27
Alignment explanation
Indices: 62693790--62693872 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
62693780 TAAATTGTAC
* *
62693790 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
62693818 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
62693845 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
62693872 A
1 A
62693873 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:62693873 original size:29 final size:27
Alignment explanation
Indices: 62693762--62693873 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
62693752 CATGAGATTG
** * *
62693762 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
62693791 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
62693819 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
62693846 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
62693874 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:62701609 original size:27 final size:28
Alignment explanation
Indices: 62701554--62701622 Score: 122
Period size: 27 Copynumber: 2.5 Consensus size: 28
62701544 CATGAGATTG
62701554 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
62701582 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
62701609 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
62701623 GACTTAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:62701636 original size:29 final size:27
Alignment explanation
Indices: 62701554--62701636 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
62701544 CATGAGATTG
* *
62701554 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
62701582 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
62701609 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
62701637 TTTTGAATCA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.47
28 21 0.43
29 5 0.10
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:62705156 original size:47 final size:47
Alignment explanation
Indices: 62705083--62705396 Score: 207
Period size: 47 Copynumber: 6.7 Consensus size: 47
62705073 TGATTTGTGC
* * * * *
62705083 GCCAGTGTAAGTCTATATCTGGGACATGGTATCAGCATCTAGACGAGG
1 GCCAGTGTAAGAC-ATGTCTGGGACATGGCATCAGCATCTAGATGAGA
* * *
62705131 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCATAT-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAG-CATCTAGATGAGA
* * * *
62705177 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA-CAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCATC-TAGATGAGA
* * * * *
62705225 GCCAGAGTAAGACATGTCTGGGACAT-GCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATC--TAGATGAGA
* * * * *
62705272 GCCAGTGTAAGACATGTCTGGGACA-CGCATCGGC-T-AAGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATCTAGATG-AGA
* * * *
62705316 GCTAGTGTAAGACATGTCTGGGATAT-GCATCAGCATGCACATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCAT-C-TAGATGAGA
* * *
62705364 GCCAATTTAAGACCATGTCTGGGGCATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATC
62705397 GACAATTTAT
Statistics
Matches: 211, Mismatches: 38, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
43 4 0.02
44 30 0.14
45 1 0.00
46 30 0.14
47 79 0.37
48 49 0.23
49 13 0.06
50 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATCTAGATGAGA
Found at i:62705237 original size:94 final size:92
Alignment explanation
Indices: 62705137--62705397 Score: 284
Period size: 94 Copynumber: 2.8 Consensus size: 92
62705127 GAGGGCTAGT
*
62705137 GTAAGACATGTCTGGGACATGCATCAGCCAT-ATTATGAGAGCCAGTGTAAGACCATGTCTAGGA
1 GTAAGACATGTCTGGGACATGCATCAGCCATCA-TATGAGAGCCAGTGTAAGACCATGTCTGGGA
62705201 CATGGCATCGGC-ACAGAGATGAGTGCCAGA
65 CATGGCATCGGCTA-AGAG-T-AGTGCCAGA
* *
62705231 GTAAGACATGTCTGGGACATGCATCGGCC-TCGACA-GAGATAGCCAGTGTAAGA-CATGTCTGG
1 GTAAGACATGTCTGGGACATGCATCAGCCATC-ATATGAG--AGCCAGTGTAAGACCATGTCTGG
* * * *
62705293 GACA-CGCATCGGCTAAGAGTTGTGCTAGT
63 GACATGGCATCGGCTAAGAGTAGTGCCAGA
* * *
62705322 GTAAGACATGTCTGGGATATGCATCAG-CATGCACATATGAGAGCCAATTTAAGACCATGTCTGG
1 GTAAGACATGTCTGGGACATGCATCAGCCAT---CATATGAGAGCCAGTGTAAGACCATGTCTGG
*
62705386 GGCATGGCATCG
63 GACATGGCATCG
62705398 ACAATTTATC
Statistics
Matches: 141, Mismatches: 14, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
90 1 0.01
91 32 0.23
92 12 0.09
93 30 0.21
94 52 0.37
95 14 0.10
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (92 bp):
GTAAGACATGTCTGGGACATGCATCAGCCATCATATGAGAGCCAGTGTAAGACCATGTCTGGGAC
ATGGCATCGGCTAAGAGTAGTGCCAGA
Found at i:62713138 original size:18 final size:18
Alignment explanation
Indices: 62713096--62713138 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
62713086 GCCCATTCCG
* *
62713096 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
62713114 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
62713132 AAGTATG
1 AAGTATG
62713139 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:62713653 original size:28 final size:28
Alignment explanation
Indices: 62713590--62713851 Score: 384
Period size: 28 Copynumber: 9.4 Consensus size: 28
62713580 GAGATTGGCG
* * * *
62713590 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
* *
62713619 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
62713647 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
62713675 CTAAGTGTGCGAG-TTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
62713702 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
62713730 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
62713758 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
62713786 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
62713814 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
62713841 CTGAGTGTGCG
1 CTAAGTGTGCG
62713852 GACTTAAAAT
Statistics
Matches: 220, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
27 51 0.23
28 155 0.70
29 14 0.06
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:62713731 original size:83 final size:84
Alignment explanation
Indices: 62713615--62713851 Score: 397
Period size: 83 Copynumber: 2.8 Consensus size: 84
62713605 TAAATTGTAC
* *
62713615 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
*
62713680 TGTGCGAG-TTGACTATGT
66 TGTGCGAGTTTGACTATAT
62713698 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
*
62713763 TGTGCGAGTTTGATTATAT
66 TGTGCGAGTTTGACTATAT
* * *
62713782 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
62713846 TGTGCG
66 TGTGCG
62713852 GACTTAAAAT
Statistics
Matches: 146, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
83 95 0.65
84 51 0.35
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (84 bp):
AGCACTAAGTGTGCGAGCTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
TGTGCGAGTTTGACTATAT
Found at i:62716407 original size:23 final size:24
Alignment explanation
Indices: 62716373--62716418 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
62716363 TCAGTAGGGG
*
62716373 AATGAGGAAG-AAAATGA-AGAAC
1 AATGAAGAAGAAAAATGAGAGAAC
62716395 AATGAAGAGAGAAAAATGAGAGAA
1 AATGAAGA-AGAAAAATGAGAGAA
62716419 AATTAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 7 0.35
25 4 0.20
ACGTcount: A:0.61, C:0.02, G:0.28, T:0.09
Consensus pattern (24 bp):
AATGAAGAAGAAAAATGAGAGAAC
Found at i:62726939 original size:17 final size:18
Alignment explanation
Indices: 62726917--62726950 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
62726907 CAATTTGGGC
62726917 CGTGTTCGCC-ACACGGA
1 CGTGTTCGCCTACACGGA
*
62726934 CGTGTTGGCCTACACGG
1 CGTGTTCGCCTACACGG
62726951 GTGTGTGGGA
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:0.15, C:0.32, G:0.32, T:0.21
Consensus pattern (18 bp):
CGTGTTCGCCTACACGGA
Found at i:62731850 original size:51 final size:50
Alignment explanation
Indices: 62731685--62731965 Score: 208
Period size: 50 Copynumber: 5.6 Consensus size: 50
62731675 CTCTGGTAAG
*** ** *
62731685 CATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAATCTGG-TACA
1 CATAGTAGCCTGCACTTAGTACTACACACATGACCGAACCATC-GGATACA
* * * *
62731735 CGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCGGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACATGACCGAACCATCGGATACA
* * ** * * *
62731785 CGTAGTAGCCTGCACTTAGTGCTACACACATGTTCGAAGCTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACATGACCGAA-CCATCGGATACA
*** * *
62731836 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGG-TACA
1 CATAGTAGCCTGCACTTAGTACTACACACATGACCGAACCATC-GGATACA
** * * *** *
62731886 TGTAGTAGCCTGCGCTTAGTACTACACACATGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACACATGACC--GAACCATCGGATACA
*
62731938 CATAGTAGCCTGCATATTA-TACTACACA
1 CATAGTAGCCTGCA-CTTAGTACTACACA
62731966 TGTGTTCTCA
Statistics
Matches: 183, Mismatches: 41, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
49 2 0.01
50 109 0.60
51 41 0.22
52 28 0.15
53 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACATGACCGAACCATCGGATACA
Found at i:62731921 original size:50 final size:50
Alignment explanation
Indices: 62731687--62731923 Score: 278
Period size: 50 Copynumber: 4.7 Consensus size: 50
62731677 CTGGTAAGCA
* * *
62731687 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* *
62731737 TAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATC-GGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGG-TACACG
* * ** * * * * *
62731787 TAGTAGCCTGCACTTAGTGCTACACACATGTTCGAAGCTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCTGGTACACG
* * *
62731838 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* *
62731888 TAGTAGCCTGCGCTTAGTACTACACACATGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
62731924 AACCATTTTA
Statistics
Matches: 154, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 2 0.01
50 113 0.73
51 37 0.24
52 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
Found at i:62731965 original size:151 final size:150
Alignment explanation
Indices: 62731670--62731968 Score: 413
Period size: 151 Copynumber: 2.0 Consensus size: 150
62731660 CTTGTAACCA
* * *
62731670 AAGCTCTCTGGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAATCTGGTACA
1 AAGCTATCGGGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACA
* * * * *
62731735 CGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCGGATACACGTAGTAGCCTGCAC
66 CGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCGGAAACACATAGTAGCCTGCAA
*
62731800 TTAGTGCTACACACATGTTCG
131 TTAGTACTA-ACACATGTTCG
*
62731821 AAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACA
1 AAGCTATCGGGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACA
* * ***
62731886 TGTAGTAGCCTGCGCTTAGTACTACACACATGACCTAAAACCATTTTAAACACATAGTAGCCTGC
66 CGTAGTAGCCTGCACTTAGTACTACACACATGACCT--AACCATCGGAAACACATAGTAGCCTGC
62731951 ATATTA-TACT-ACACATGT
129 A-ATTAGTACTAACACATGT
62731969 GTTCTCACAA
Statistics
Matches: 130, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
151 101 0.78
153 26 0.20
154 3 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (150 bp):
AAGCTATCGGGTAAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACA
CGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCGGAAACACATAGTAGCCTGCAA
TTAGTACTAACACATGTTCG
Found at i:62734935 original size:15 final size:15
Alignment explanation
Indices: 62734901--62734960 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
62734891 TATAGATAAC
* * *
62734901 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
62734916 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
62734931 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
62734946 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
62734961 CAATATCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.55, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:62736638 original size:53 final size:53
Alignment explanation
Indices: 62736553--62736657 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
62736543 GTACATTTTA
* * * * *
62736553 AACTTACCATTGCCATGTCTTGACGTGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
62736606 AACTCACCATTGCCATGCCTTGGCATGGTCTTATATGGGATCTTTGCCTTAT
1 AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAT
62736658 AGTAGTTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:62736779 original size:54 final size:54
Alignment explanation
Indices: 62736676--62736779 Score: 181
Period size: 54 Copynumber: 1.9 Consensus size: 54
62736666 ATCAATGTCA
*
62736676 TGTAGAACTTACCAATGGCATGCTTTGGCATGGTCTTACATGCTTTCCTTGCCT
1 TGTAGAACTTACCAATGGCATGCTTTGGCATGGTCTTACATGCTATCCTTGCCT
* *
62736730 TGTAGAACTTACCAATGGCATGCTTTGGCATGGTCTTACTTGGTATCCTT
1 TGTAGAACTTACCAATGGCATGCTTTGGCATGGTCTTACATGCTATCCTT
62736780 AAACCCTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (54 bp):
TGTAGAACTTACCAATGGCATGCTTTGGCATGGTCTTACATGCTATCCTTGCCT
Found at i:62744726 original size:48 final size:48
Alignment explanation
Indices: 62744666--62744788 Score: 201
Period size: 48 Copynumber: 2.6 Consensus size: 48
62744656 CCCGTATAAC
* **
62744666 ACCATGTTTGGGACATGGCATCGGCATTGTTATGTGAGCCAGTGTAAG
1 ACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGTGTAAG
*
62744714 ACCATGTCTGGGACATGGCATCAGCATCATTATGTGAGCCAGTGTAAG
1 ACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGTGTAAG
*
62744762 ACTATGTCTGGGACATGGCATCGGCAT
1 ACCATGTCTGGGACATGGCATCGGCAT
62744789 GAGGCATCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (48 bp):
ACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGTGTAAG
Found at i:62746701 original size:13 final size:13
Alignment explanation
Indices: 62746683--62746717 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
62746673 ATAGAGAGTT
62746683 ACACGGGTGGAGG
1 ACACGGGTGGAGG
62746696 ACACGGGTGGAGG
1 ACACGGGTGGAGG
*
62746709 ACACAGGTG
1 ACACGGGTG
62746718 TGTGTGACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.26, C:0.17, G:0.49, T:0.09
Consensus pattern (13 bp):
ACACGGGTGGAGG
Found at i:62750488 original size:20 final size:20
Alignment explanation
Indices: 62750460--62750500 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
62750450 CGGGTAAGGG
* *
62750460 ACACGGGCGTGTCCTAAAGC
1 ACACAGGCGTGTCCCAAAGC
62750480 ACACAGGCGTGTCCCAAAGC
1 ACACAGGCGTGTCCCAAAGC
62750500 A
1 A
62750501 GATGAGCGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.32, G:0.27, T:0.12
Consensus pattern (20 bp):
ACACAGGCGTGTCCCAAAGC
Found at i:62753320 original size:42 final size:42
Alignment explanation
Indices: 62753273--62753357 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
62753263 TTCATTTCAG
*
62753273 TGATTTGATCGTTAGGGGATCTGTGTTGTTGGTGGTAAGTTT
1 TGATTTGATCGTTAGGGGATCTCTGTTGTTGGTGGTAAGTTT
*
62753315 TGATTTGATCGTTAGGGGATCTCTGTTGTTGGTGGTGAGTTT
1 TGATTTGATCGTTAGGGGATCTCTGTTGTTGGTGGTAAGTTT
62753357 T
1 T
62753358 CAAACTTCGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.13, C:0.06, G:0.35, T:0.46
Consensus pattern (42 bp):
TGATTTGATCGTTAGGGGATCTCTGTTGTTGGTGGTAAGTTT
Found at i:62756875 original size:15 final size:16
Alignment explanation
Indices: 62756841--62756882 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
62756831 TGAACTTACT
*
62756841 AAAAAAATAAAAATCCC
1 AAAATAATAAAAAT-CC
62756858 AAAATAATAAAAAT-C
1 AAAATAATAAAAATCC
*
62756873 AAACTAATAA
1 AAAATAATAA
62756883 TTATATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
17 13 0.57
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAATAATAAAAATCC
Found at i:62757310 original size:35 final size:35
Alignment explanation
Indices: 62757271--62757340 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
62757261 CCAGAGCACT
62757271 TAACCACTGAAGCAGATACATATTTACCTATCACA
1 TAACCACTGAAGCAGATACATATTTACCTATCACA
62757306 TAACCACTGAAGCAGATACATATTTACCTATCACA
1 TAACCACTGAAGCAGATACATATTTACCTATCACA
62757341 CAAAATTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (35 bp):
TAACCACTGAAGCAGATACATATTTACCTATCACA
Found at i:62760158 original size:40 final size:40
Alignment explanation
Indices: 62760066--62760292 Score: 256
Period size: 40 Copynumber: 5.7 Consensus size: 40
62760056 CGTGTACCCA
* * * * * * *
62760066 AGGGGTATCAAAGTACAAACAGGGGTACATATTTCCAAAC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATC
* * * * * *
62760106 AGGAGTACCGAAGTAAAAATAAGGGCATGTATGTACAATC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATC
* *
62760146 AGGGGTATCGAAGTACAAACAAGGGCACGTATGTGCAATC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATC
* * *
62760186 AAGGGCACCGAAGTACAAACAGGGGCACGCATGTGCAATC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATC
* * *
62760226 AAGGGTACTGAAGTACAAACAGGGGCGCGTATGTGCAATC
1 AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATC
*
62760266 AGGGGTATCGAAGTACAAACAGGGGCA
1 AGGGGTACCGAAGTACAAACAGGGGCA
62760293 TGCAATCAAG
Statistics
Matches: 156, Mismatches: 31, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 156 1.00
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (40 bp):
AGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATC
Found at i:62760163 original size:20 final size:19
Alignment explanation
Indices: 62760138--62760292 Score: 94
Period size: 20 Copynumber: 7.8 Consensus size: 19
62760128 GGGCATGTAT
* *
62760138 GTACAATCAGGGGTATCGAA
1 GTACAAACAGGGGCA-CGAA
* *
62760158 GTACAAACAAGGGCACGTAT
1 GTACAAACAGGGGCACG-AA
* * *
62760178 GTGCAATCAAGGGCACCGAA
1 GTACAAACAGGGGCA-CGAA
*
62760198 GTACAAACAGGGGCACGCAT
1 GTACAAACAGGGGCACG-AA
* * * *
62760218 GTGCAATCAAGGGTACTGAA
1 GTACAAACAGGGGCAC-GAA
* *
62760238 GTACAAACAGGGGCGCGTAT
1 GTACAAACAGGGGCACG-AA
* * *
62760258 GTGCAATCAGGGGTATCGAA
1 GTACAAACAGGGGCA-CGAA
62760278 GTACAAACAGGGGCA
1 GTACAAACAGGGGCA
62760293 TGCAATCAAG
Statistics
Matches: 99, Mismatches: 30, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
19 5 0.05
20 89 0.90
21 5 0.05
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.15
Consensus pattern (19 bp):
GTACAAACAGGGGCACGAA
Found at i:62770351 original size:29 final size:29
Alignment explanation
Indices: 62770288--62770355 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
62770278 TAATCAACCG
*
62770288 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
62770317 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
62770346 CGCACACTTA
1 CGCACACTTA
62770356 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:62770468 original size:174 final size:174
Alignment explanation
Indices: 62770177--62770504 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
62770167 AACTCAAGGT
* *
62770177 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
62770242 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
62770307 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
62770351 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
62770416 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
62770481 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
62770505 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:62770496 original size:29 final size:30
Alignment explanation
Indices: 62770457--62770535 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
62770447 CTTAATAATC
62770457 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
62770487 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
62770516 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
62770536 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:62776814 original size:22 final size:23
Alignment explanation
Indices: 62776798--62776842 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
62776788 AATTCATGCC
62776798 ACAAAATATACCAATTCATCATCA
1 ACAAAATATACCAATTCATCA-CA
*
62776822 ACAAAATGTACCAATTCATCA
1 ACAAAATATACCAATTCATCA
62776843 ACCTTATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (23 bp):
ACAAAATATACCAATTCATCACA
Found at i:62776842 original size:21 final size:21
Alignment explanation
Indices: 62776788--62776844 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
62776778 ATTATCATAT
*
62776788 AATTCATGCCACAAAATATACC
1 AATTCAT-CAACAAAATATACC
*
62776810 AATTCATCATCAACAAAATGTACC
1 AA-T--TCATCAACAAAATATACC
62776834 AATTCATCAAC
1 AATTCATCAAC
62776845 CTTATACCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 8 0.27
22 2 0.07
23 2 0.07
24 14 0.47
25 4 0.13
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.25
Consensus pattern (21 bp):
AATTCATCAACAAAATATACC
Found at i:62777785 original size:42 final size:42
Alignment explanation
Indices: 62777753--62777856 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
62777743 TAGCTTAGCT
62777753 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
* * *
62777795 ATGGTCTTACACGAATCTCATATCGATGCAAATGTCCCAGTC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
*
62777837 ATGGTCTTACATGAATCTCA
1 ATGGTCTTACACGAATCTCA
62777857 CATCCCGATA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCTAGAC
Found at i:62784431 original size:28 final size:28
Alignment explanation
Indices: 62784400--62784479 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
62784390 ACTGACCGAT
62784400 CTCGCACACATAGTGCTCGGTTGA-AGAA
1 CTCGCACACATAGTGCTCGGTT-ACAGAA
** * *
62784428 CTCGCACACATAGTGCCTCAATTACCGAT
1 CTCGCACACATAGTG-CTCGGTTACAGAA
*
62784457 CTCGCACACATAGTGATCGGTTA
1 CTCGCACACATAGTGCTCGGTTA
62784480 AAGGAATTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 21 0.49
29 22 0.51
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (28 bp):
CTCGCACACATAGTGCTCGGTTACAGAA
Found at i:62784470 original size:29 final size:29
Alignment explanation
Indices: 62784376--62784471 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 29
62784366 TCTCATTTCA
* * *
62784376 CACACTTAGTGCC-CACTGACCGATCTCG
1 CACACATAGTGCCTCAATTACCGATCTCG
** * *
62784404 CACACATAGTG-CTCGGTTGA-AGAACTCG
1 CACACATAGTGCCTCAATT-ACCGATCTCG
62784432 CACACATAGTGCCTCAATTACCGATCTCG
1 CACACATAGTGCCTCAATTACCGATCTCG
62784461 CACACATAGTG
1 CACACATAGTG
62784472 ATCGGTTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
27 1 0.02
28 30 0.56
29 23 0.43
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (29 bp):
CACACATAGTGCCTCAATTACCGATCTCG
Found at i:62784523 original size:58 final size:57
Alignment explanation
Indices: 62784394--62784562 Score: 230
Period size: 58 Copynumber: 2.9 Consensus size: 57
62784384 GTGCCCACTG
* * * *
62784394 ACCGATCTCGCACACATAGTGCTCGGTTGAAGAACTCGCACACATAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTTGCACACACAGTGCCTCAATT
* *
62784451 ACCGATCTCGCACACATAGTGATCGGTTAAAGGAATTTGCACACACGGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAA-GAATTTGCACACACAGTGCCTCAATT
* * * *
62784509 ATCGATCTCACACACATAGTGCTCGATTAAAATAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTT-AAAGAATTTGCACACACAGTGCCTC
62784563 TAATCATTCG
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
57 29 0.30
58 66 0.67
59 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (57 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTTGCACACACAGTGCCTCAATT
Found at i:62784530 original size:29 final size:29
Alignment explanation
Indices: 62784373--62784538 Score: 76
Period size: 28 Copynumber: 5.8 Consensus size: 29
62784363 GAATCTCATT
* * * *
62784373 TCACACACTTAGTGCC-CACTGACCGATC
1 TCACACACATAGTGCCTCAATTAACGATC
* ** *
62784401 TCGCACACATAGTG-CTCGGTTGAA-GAAC
1 TCACACACATAGTGCCTCAATT-AACGATC
* *
62784429 TCGCACACATAGTGCCTCAATTACCGATC
1 TCACACACATAGTGCCTCAATTAACGATC
* * ** * *
62784458 TCGCACACATAGTG-ATCGGTTAAAGGAATT
1 TCACACACATAGTGCCTCAATT-AACG-ATC
* *
62784488 TGCACACAC--GGTGCCTCAATTATCGATC
1 T-CACACACATAGTGCCTCAATTAACGATC
*
62784516 TCACACACATAGTG-CTCGATTAA
1 TCACACACATAGTGCCTCAATTAA
62784539 AATAATTTGC
Statistics
Matches: 100, Mismatches: 28, Indels: 20
0.68 0.19 0.14
Matches are distributed among these distances:
27 8 0.08
28 46 0.46
29 33 0.33
30 7 0.07
31 6 0.06
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (29 bp):
TCACACACATAGTGCCTCAATTAACGATC
Found at i:62784777 original size:43 final size:43
Alignment explanation
Indices: 62784716--62784892 Score: 327
Period size: 43 Copynumber: 4.1 Consensus size: 43
62784706 CCTTGCTCGA
** *
62784716 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
62784759 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
62784802 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
62784845 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
62784888 ATCAC
1 ATCAC
62784893 TAAGTTTCAT
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 131 1.00
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.11
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
Found at i:62787609 original size:343 final size:343
Alignment explanation
Indices: 62786977--62787662 Score: 1309
Period size: 343 Copynumber: 2.0 Consensus size: 343
62786967 TTAATCAAAC
62786977 ATGTTCTTAATTACAATTATTTAACATTTTATTTTACATTCGGCAATGACATGTTCATCTCCAAT
1 ATGTTCTTAATTACAATTATTTAACATTTTATTTTACATTCGGCAATGACATGTTCATCTCCAAT
*
62787042 AATTCAATACTTATAAACTTATAATTTCACAAATTTTAACATCAAAGATCCATCTGACACTCATA
66 AATTCAATACTTATAAACTTATAATTTCACAAATTTTAACATCAAAGATCCATCTAACACTCATA
*
62787107 TATCATTTCCTAACGTCAAAATTCAAAATTCACATATGGTTTTAATCAATATCTTATAAGCAACT
131 TATCATTTCCTAACATCAAAATTCAAAATTCACATATGGTTTTAATCAATATCTTATAAGCAACT
*
62787172 CAAACAGTTTTATCAATGTTTATAACATAATCACAAATTCACTACAAGCTATCTTCCTGAGTAAC
196 CAAACAGTTTTATCAATGTTTACAACATAATCACAAATTCACTACAAGCTATCTTCCTGAGTAAC
62787237 AGTCATTAAATTATTAATAATTGGAGCTACGAAACTCCAAATCAATTGTCGTAAAATTTCCCTGA
261 AGTCATTAAATTATTAATAATTGGAGCTACGAAACTCCAAATCAATTGTCGTAAAATTTCCCTGA
62787302 AAATAGACTCATATGTCT
326 AAATAGACTCATATGTCT
* *
62787320 ATGTTTTTAATTATAATTATTTAACATTTTATTTTACATTCGGCAATGACATGTTCATCTCCAAT
1 ATGTTCTTAATTACAATTATTTAACATTTTATTTTACATTCGGCAATGACATGTTCATCTCCAAT
*
62787385 AATTCAATAGTTATAAACTTATAATTTCACAAATTTTAACATCAAAGATCCATCTAACACTCATA
66 AATTCAATACTTATAAACTTATAATTTCACAAATTTTAACATCAAAGATCCATCTAACACTCATA
*
62787450 TATCATTTCCTAACATCACAATTCAAAATTCACATATGGTTTTAATCAATATCTTATAAGCAACT
131 TATCATTTCCTAACATCAAAATTCAAAATTCACATATGGTTTTAATCAATATCTTATAAGCAACT
62787515 CAAACAGTTTTATCAATGTTTACAACATAATCACAAATTCACTACAAGCTATCTTCCTGAGTAAC
196 CAAACAGTTTTATCAATGTTTACAACATAATCACAAATTCACTACAAGCTATCTTCCTGAGTAAC
62787580 AGTCATTAAATTATTAATAATTGGAGCTACGAAACTCCAAATCAATTGTCGTAAAATTTCCCTGA
261 AGTCATTAAATTATTAATAATTGGAGCTACGAAACTCCAAATCAATTGTCGTAAAATTTCCCTGA
62787645 AAATAGACTCATATGTCT
326 AAATAGACTCATATGTCT
62787663 TTTATCCATA
Statistics
Matches: 336, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
343 336 1.00
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (343 bp):
ATGTTCTTAATTACAATTATTTAACATTTTATTTTACATTCGGCAATGACATGTTCATCTCCAAT
AATTCAATACTTATAAACTTATAATTTCACAAATTTTAACATCAAAGATCCATCTAACACTCATA
TATCATTTCCTAACATCAAAATTCAAAATTCACATATGGTTTTAATCAATATCTTATAAGCAACT
CAAACAGTTTTATCAATGTTTACAACATAATCACAAATTCACTACAAGCTATCTTCCTGAGTAAC
AGTCATTAAATTATTAATAATTGGAGCTACGAAACTCCAAATCAATTGTCGTAAAATTTCCCTGA
AAATAGACTCATATGTCT
Found at i:62792725 original size:27 final size:27
Alignment explanation
Indices: 62792690--62792758 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
62792680 AAGTGTACTG
* *
62792690 TACTAGTGGCTTTGCCACATATACTAT
1 TACTGGTGGCTTTGCCACATACACTAT
*
62792717 TACTGGTGGCTTTGCCACATACACTGT
1 TACTGGTGGCTTTGCCACATACACTAT
*
62792744 TACTGGTAGCTTTGC
1 TACTGGTGGCTTTGC
62792759 TGCGTTACTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (27 bp):
TACTGGTGGCTTTGCCACATACACTAT
Found at i:62793025 original size:32 final size:33
Alignment explanation
Indices: 62792934--62793028 Score: 106
Period size: 33 Copynumber: 2.9 Consensus size: 33
62792924 GTTACTGCAT
* *
62792934 TGGGCT-AAGGCCCACACTATTACTG-TTTCGTAA
1 TGGGCTCAA-GCCCAAACTATTACTGATCT-GTAA
62792967 TGGGCTCAAGCCCAAACTATTACTGATCTGTAA
1 TGGGCTCAAGCCCAAACTATTACTGATCTGTAA
* * *
62793000 TGGGCTCAGGCCC-GATTATTACTGATCTG
1 TGGGCTCAAGCCCAAACTATTACTGATCTG
62793029 GGCTAAGGCC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 14 0.25
33 37 0.67
34 4 0.07
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (33 bp):
TGGGCTCAAGCCCAAACTATTACTGATCTGTAA
Found at i:62793587 original size:7 final size:7
Alignment explanation
Indices: 62793577--62793608 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
62793567 TTGGGGTGCT
62793577 ACATATC
1 ACATATC
62793584 ACATATC
1 ACATATC
62793591 ACATATC
1 ACATATC
62793598 ACATATC
1 ACATATC
62793605 ACAT
1 ACAT
62793609 GTTGCGCACT
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:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
ACATATC
Found at i:62801558 original size:135 final size:135
Alignment explanation
Indices: 62801316--62801587 Score: 544
Period size: 135 Copynumber: 2.0 Consensus size: 135
62801306 CTAAAAGTAC
62801316 TAGTAATAACTGTATTTTTATTATTTAGCCTAAAAATAAGGGGGTTTTGTTTTAACTAACTAATT
1 TAGTAATAACTGTATTTTTATTATTTAGCCTAAAAATAAGGGGGTTTTGTTTTAACTAACTAATT
62801381 ATCTAAACTAAGAAATTATAGAAAGTAGAATTGGGGGATTACTTTTTGGAAAACGATTGAATTAA
66 ATCTAAACTAAGAAATTATAGAAAGTAGAATTGGGGGATTACTTTTTGGAAAACGATTGAATTAA
62801446 GACAA
131 GACAA
62801451 TAGTAATAACTGTATTTTTATTATTTAGCCTAAAAATAAGGGGGTTTTGTTTTAACTAACTAATT
1 TAGTAATAACTGTATTTTTATTATTTAGCCTAAAAATAAGGGGGTTTTGTTTTAACTAACTAATT
62801516 ATCTAAACTAAGAAATTATAGAAAGTAGAATTGGGGGATTACTTTTTGGAAAACGATTGAATTAA
66 ATCTAAACTAAGAAATTATAGAAAGTAGAATTGGGGGATTACTTTTTGGAAAACGATTGAATTAA
62801581 GACAA
131 GACAA
62801586 TA
1 TA
62801588 CCTAAAGAAA
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 137 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.36
Consensus pattern (135 bp):
TAGTAATAACTGTATTTTTATTATTTAGCCTAAAAATAAGGGGGTTTTGTTTTAACTAACTAATT
ATCTAAACTAAGAAATTATAGAAAGTAGAATTGGGGGATTACTTTTTGGAAAACGATTGAATTAA
GACAA
Found at i:62808962 original size:37 final size:37
Alignment explanation
Indices: 62808862--62808964 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
62808852 CGAATAGTCC
* *
62808862 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* * *
62808899 CCACACATAGTCATCAGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
62808936 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
62808965 ATATATTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:62826284 original size:49 final size:47
Alignment explanation
Indices: 62826207--62826341 Score: 130
Period size: 49 Copynumber: 2.8 Consensus size: 47
62826197 AGAAATTTCA
* * *
62826207 GCACTATGTGTGCGAGGTTATGCGGCACTATGTGTGCA-AAAACTACATG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAGAAAAC-AC--G
* * *
62826256 GCACTATGTGTGCGAGATTATATAGCACTATGTGTGTGAGGAAACACG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTG-CAGAAAACACG
* *
62826304 GCACTATGTGTGCGA-ATGAGTAAGAGCACTATGTGTGC
1 GCACTATGTGTGCGAGATTA-T-ACAGCACTATGTGTGC
62826342 GGACCTTTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
47 3 0.04
48 17 0.23
49 46 0.63
50 3 0.04
51 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (47 bp):
GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAGAAAACACG
Found at i:62826288 original size:24 final size:24
Alignment explanation
Indices: 62826206--62826291 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
62826196 AAGAAATTTC
* **
62826206 AGCACTATGTGTGCGAGGTTATGC
1 AGCACTATGTGTGCGAGATTATAT
* * * * *
62826230 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTATAT
*
62826255 GGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCGAGATTATAT
62826279 AGCACTATGTGTG
1 AGCACTATGTGTG
62826292 TGAGGAAACA
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 31 0.65
25 17 0.35
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTATAT
Found at i:62833110 original size:49 final size:48
Alignment explanation
Indices: 62833033--62833168 Score: 134
Period size: 49 Copynumber: 2.8 Consensus size: 48
62833023 AGAAATTTCA
* * * *
62833033 GCACTATGTGTGCGTGGTTATGCGGCACTATGTGTGC-A-AAAACTACATG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCGAGAAAAC-AC--G
* *
62833082 GCACTATGTGTGCGAGATTATATAGCACTATGTGTGCGAGGAAACACG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCGAGAAAACACG
* *
62833130 GCACTATGTGTGCGA-ATGAGTAAGAGCACTATGTGTGCG
1 GCACTATGTGTGCGAGATTA-T-ACAGCACTATGTGTGCG
62833169 GACCTTTAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
47 3 0.04
48 17 0.23
49 48 0.64
50 3 0.04
51 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCGAGAAAACACG
Found at i:62833114 original size:24 final size:24
Alignment explanation
Indices: 62833032--62833121 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
62833022 AAGAAATTTC
* * **
62833032 AGCACTATGTGTGCGTGGTTATGC
1 AGCACTATGTGTGCGAGATTATAT
* * * * *
62833056 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTATAT
*
62833081 GGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCGAGATTATAT
62833105 AGCACTATGTGTGCGAG
1 AGCACTATGTGTGCGAG
62833122 GAAACACGGC
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 35 0.69
25 16 0.31
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTATAT
Found at i:62833133 original size:24 final size:23
Alignment explanation
Indices: 62833055--62833144 Score: 83
Period size: 24 Copynumber: 3.7 Consensus size: 23
62833045 CGTGGTTATG
*
62833055 CGGCACTATGTGTGC-AAAAACTA
1 CGGCACTATGTGTGCGAGAAAC-A
* *
62833078 CATGGCACTATGTGTGCGAGATTATA
1 C--GGCACTATGTGTGCGAGA-AACA
**
62833104 TAGCACTATGTGTGCGAGGAAACA
1 CGGCACTATGTGTGCGA-GAAACA
62833128 CGGCACTATGTGTGCGA
1 CGGCACTATGTGTGCGA
62833145 ATGAGTAAGA
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
23 1 0.02
24 32 0.60
25 16 0.30
26 3 0.06
27 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (23 bp):
CGGCACTATGTGTGCGAGAAACA
Found at i:62839190 original size:126 final size:126
Alignment explanation
Indices: 62838897--62839275 Score: 465
Period size: 126 Copynumber: 3.0 Consensus size: 126
62838887 GGCCAAACAT
* * * *
62838897 GAACTACTATAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGAAATTTTGCTGATAATGCATG
1 GAACTACTATAGAAAAAGAGCGTTCATGTGGGAGCTTTTTTCAGTAATTTTACTGATAATGCATC
* * * * *
62838962 CTGCTTGAAGCATTTTTTACGCTAATT-TTCAGAAATGTCTTCTGAAAATTATTTTTTCAG
66 CTGCTTGAAGCATTTTTAACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAA
* * * * * * * *
62839022 GAGCTATTGTAGAAAAATAGC-TTCCATGTGGGAGCATTTTTCAGTACTTTTACTGACAGTGCAT
1 GAACTACTATAGAAAAAGAGCGTT-CATGTGGGAGCTTTTTTCAGTAATTTTACTGATAATGCAT
* * * **
62839086 CCTGCTTAAAGCATTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTATTTTTTCAA
65 CCTGCTTGAAGCATTTTTAACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAA
* * * *
62839148 GAACTACCATAGAAAAAGAGCGTTTACGTGTGAGCTTTTTTCAGTAATTTTACTGATAATGCATC
1 GAACTACTATAGAAAAAGAGCGTTCATGTGGGAGCTTTTTTCAGTAATTTTACTGATAATGCATC
** *
62839213 CTTTTTGAAGCGTTTTTAACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTTCAA
66 CTGCTTGAAGCATTTTTAACACTATTTGTTCAGAAATGTCTTCTCAAAATTA-TTTTTTCAA
62839275 G
1 G
62839276 GTAAAAATAG
Statistics
Matches: 209, Mismatches: 41, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
124 1 0.00
125 74 0.35
126 122 0.58
127 12 0.06
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (126 bp):
GAACTACTATAGAAAAAGAGCGTTCATGTGGGAGCTTTTTTCAGTAATTTTACTGATAATGCATC
CTGCTTGAAGCATTTTTAACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAA
Found at i:62839425 original size:35 final size:35
Alignment explanation
Indices: 62839365--62839449 Score: 104
Period size: 35 Copynumber: 2.5 Consensus size: 35
62839355 AACCCTAAAC
* *
62839365 ATTAATTTATTT-AAAACTCTTAAACCCTTATTTA
1 ATTAATTTATTTAAAAACTCTAAAACCCTAATTTA
*
62839399 CTTAATTTATTTAAAAAC-CATAAAACCCTAATTTA
1 ATTAATTTATTTAAAAACTC-TAAAACCCTAATTTA
*
62839434 ATTAATTT-TTAAAAAA
1 ATTAATTTATTTAAAAA
62839450 GAACACTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
34 19 0.43
35 25 0.57
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (35 bp):
ATTAATTTATTTAAAAACTCTAAAACCCTAATTTA
Found at i:62839575 original size:24 final size:24
Alignment explanation
Indices: 62839534--62839581 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
62839524 TTATTTTAAT
* * * *
62839534 AAAACCTTAACCTTAAAAATCCTA
1 AAAACCCTAAACTAAAAAAGCCTA
62839558 AAAACCCTAAACTAAAAAAGCCTA
1 AAAACCCTAAACTAAAAAAGCCTA
62839582 GGGACTAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.25, G:0.02, T:0.19
Consensus pattern (24 bp):
AAAACCCTAAACTAAAAAAGCCTA
Found at i:62845213 original size:22 final size:21
Alignment explanation
Indices: 62845188--62845250 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 21
62845178 AAAAGTAGCT
*
62845188 AAAAAAGCGAAAAGAAAATGAGA
1 AAAAAAG-GAAAAGAAAAAGA-A
* *
62845211 AAAGAAGAAAAAGAAAAAGAA
1 AAAAAAGGAAAAGAAAAAGAA
*
62845232 AAAGAAAGTGAAAATAAAA
1 AAA-AAAG-GAAAAGAAAA
62845251 GTTTGATTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 4 0.12
22 14 0.44
23 14 0.44
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.05
Consensus pattern (21 bp):
AAAAAAGGAAAAGAAAAAGAA
Found at i:62845220 original size:21 final size:21
Alignment explanation
Indices: 62845197--62845237 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
62845187 TAAAAAAGCG
*
62845197 AAAAGAAAATGAGAAAAGAAGA
1 AAAAGAAAAAGA-AAAAGAAGA
62845219 AAAAGAAAAAGAAAAAGAA
1 AAAAGAAAAAGAAAAAGAA
62845238 AGTGAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAGAAGA
Found at i:62845244 original size:12 final size:12
Alignment explanation
Indices: 62845197--62845245 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
62845187 TAAAAAAGCG
62845197 AAAAGAAAATGA
1 AAAAGAAAATGA
62845209 GAAAAG--AA-GA
1 -AAAAGAAAATGA
*
62845219 AAAAGAAAAAGA
1 AAAAGAAAATGA
*
62845231 AAAAGAAAGTGA
1 AAAAGAAAATGA
62845243 AAA
1 AAA
62845246 TAAAAGTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
9 5 0.16
10 2 0.06
11 4 0.13
12 15 0.48
13 5 0.16
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (12 bp):
AAAAGAAAATGA
Found at i:62852239 original size:53 final size:53
Alignment explanation
Indices: 62852159--62852262 Score: 181
Period size: 53 Copynumber: 2.0 Consensus size: 53
62852149 ATTGCTTGTA
*
62852159 CAAAGACTGACGATGCCGTTCATATTTCCAATCTTTTCTTTAGGGACATTAGT
1 CAAAGACTGACGATGCCGTTCATATTTCCAATATTTTCTTTAGGGACATTAGT
* *
62852212 CAAAGACTGACGGTGCCGTTCATATTTCTAATATTTTCTTTAGGGACATTA
1 CAAAGACTGACGATGCCGTTCATATTTCCAATATTTTCTTTAGGGACATTA
62852263 TTCGCTTGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (53 bp):
CAAAGACTGACGATGCCGTTCATATTTCCAATATTTTCTTTAGGGACATTAGT
Found at i:62860044 original size:4 final size:4
Alignment explanation
Indices: 62860035--62860060 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
62860025 TGTAGGTGTA
62860035 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
62860061 TTGTATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:62860126 original size:31 final size:31
Alignment explanation
Indices: 62860088--62860146 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
62860078 TCGTACAGTC
62860088 GAGTAAGGGCATTTGTTGTTCTTGTGTGGGG
1 GAGTAAGGGCATTTGTTGTTCTTGTGTGGGG
*
62860119 GAGTAAGGGCATTTGTTGTTTTTGTGTG
1 GAGTAAGGGCATTTGTTGTTCTTGTGTG
62860147 CTTCAATCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.14, C:0.05, G:0.39, T:0.42
Consensus pattern (31 bp):
GAGTAAGGGCATTTGTTGTTCTTGTGTGGGG
Found at i:62861175 original size:28 final size:28
Alignment explanation
Indices: 62861093--62861182 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 28
62861083 TGAACATGAC
*
62861093 TATAAATGTGAATTGGGCCT-GATAGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
62861122 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
62861151 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
62861179 TATA
1 TATA
62861183 CAGGTATGTG
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
28 21 0.38
29 35 0.62
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:62862767 original size:79 final size:82
Alignment explanation
Indices: 62862656--62862840 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
62862646 GCTACTCGTT
* *
62862656 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
62862719 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
62862736 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
62862799 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
62862816 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62862841 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:62862840 original size:40 final size:40
Alignment explanation
Indices: 62862637--62862840 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
62862627 CGGAATTTAA
** *
62862637 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
62862677 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
62862717 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
62862756 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
62862796 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
62862836 CCGGA
1 CCGGA
62862841 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:62870649 original size:39 final size:40
Alignment explanation
Indices: 62870604--62870771 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
62870594 CGGGGTTTAG
* * *
62870604 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
62870643 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
62870683 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
62870723 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
62870764 CCGGATAT
1 CCGGATAT
62870772 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:62870754 original size:41 final size:40
Alignment explanation
Indices: 62870627--62870771 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
62870617 CTCGCACAAG
* * * * *
62870627 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
62870667 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
62870707 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
62870748 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
62870772 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:62883269 original size:292 final size:292
Alignment explanation
Indices: 62882745--62883330 Score: 1145
Period size: 292 Copynumber: 2.0 Consensus size: 292
62882735 GTATCATTCA
62882745 AAGCAAATAAGTATCATCAAATCATTTATACTTTGTATACCAATGCTAACACAAATCTCATATTC
1 AAGCAAATAAGTATCATCAAATCATTTATACTTTGTATACCAATGCTAACACAAATCTCATATTC
62882810 AAATACTTACCTTTCATTCTCAAGTAGGCTATACAAAGTAAACATACCTGAATCTGATATGATTT
66 AAATACTTACCTTTCATTCTCAAGTAGGCTATACAAAGTAAACATACCTGAATCTGATATGATTT
62882875 CACCAAATTATTCATTTTCTCAGAATGCCCATTTGAATCATTCGAAAACATAAGGATACGTGGAT
131 CACCAAATTATTCATTTTCTCAGAATGCCCATTTGAATCATTCGAAAACATAAGGATACGTGGAT
62882940 AGCTCAGAGAACATATACAATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAACATCGATA
196 AGCTCAGAGAACATATACAATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAACATCGATA
*
62883005 CCACTATCCCAGACAGAGTCTTACATGAAATC
261 CCACTATCCCAGACAGAGTCTTACACGAAATC
62883037 AAGCAAATAAGTATCATCAAATCATTTATACTTTGTATACCAATGCTAACACAAATCTCATATTC
1 AAGCAAATAAGTATCATCAAATCATTTATACTTTGTATACCAATGCTAACACAAATCTCATATTC
62883102 AAATACTTACCTTTCATTCTCAAGTAGGCTATACAAAGTAAACATACCTGAATCTGATATGATTT
66 AAATACTTACCTTTCATTCTCAAGTAGGCTATACAAAGTAAACATACCTGAATCTGATATGATTT
62883167 CACCAAATTATTCATTTTCTCAGAATGCCCATTTGAATCATTCGAAAACATAAGGATACGTGGAT
131 CACCAAATTATTCATTTTCTCAGAATGCCCATTTGAATCATTCGAAAACATAAGGATACGTGGAT
62883232 AGCTCAGAGAACATATACAATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAACATCGATA
196 AGCTCAGAGAACATATACAATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAACATCGATA
* *
62883297 CCACTATCCTAGACAGGGTCTTACACGAAATC
261 CCACTATCCCAGACAGAGTCTTACACGAAATC
62883329 AA
1 AA
62883331 ATACGATGCC
Statistics
Matches: 291, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
292 291 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.29
Consensus pattern (292 bp):
AAGCAAATAAGTATCATCAAATCATTTATACTTTGTATACCAATGCTAACACAAATCTCATATTC
AAATACTTACCTTTCATTCTCAAGTAGGCTATACAAAGTAAACATACCTGAATCTGATATGATTT
CACCAAATTATTCATTTTCTCAGAATGCCCATTTGAATCATTCGAAAACATAAGGATACGTGGAT
AGCTCAGAGAACATATACAATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAACATCGATA
CCACTATCCCAGACAGAGTCTTACACGAAATC
Found at i:62883318 original size:43 final size:42
Alignment explanation
Indices: 62883270--62883368 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
62883260 TCCCAAACGT
62883270 GGTCTTACATGTAATCAAACATCGATACC-ACTATCCTAGACAG
1 GGTCTTACATGTAATCAAACA-CGATACCGA-TATCCTAGACAG
* * * * * *
62883313 GGTCTTACACGAAATCAAATACGATGCCGATGTCCTAGACAT
1 GGTCTTACATGTAATCAAACACGATACCGATATCCTAGACAG
62883355 GGTCTTACATGTAA
1 GGTCTTACATGTAA
62883369 AACAGAAGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 28 0.60
43 19 0.40
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAACACGATACCGATATCCTAGACAG
Found at i:62883361 original size:42 final size:43
Alignment explanation
Indices: 62883251--62883415 Score: 122
Period size: 43 Copynumber: 3.8 Consensus size: 43
62883241 AACATATACA
* * * * * *
62883251 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCA-AACATCG
1 ATGCCAACGTCCTAGACATGGTCTTACACGAAATCAGAA-GTCG
* * *
62883294 ATACC-ACTATCCTAGACAGGGTCTTACACGAAATCA-AA-TACG
1 ATGCCAAC-GTCCTAGACATGGTCTTACACGAAATCAGAAGT-CG
* * * *
62883336 ATGCCGATGTCCTAGACATGGTCTTACATGTAAAACAGAAGTCG
1 ATGCCAACGTCCTAGACATGGTCTTACACG-AAATCAGAAGTCG
* **
62883380 ATGCCAACGTCCCAGATGTGGTCTTACACGAAATCA
1 ATGCCAACGTCCTAGACATGGTCTTACACGAAATCA
62883416 CATAATGAAA
Statistics
Matches: 95, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 38 0.40
44 28 0.29
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCTAGACATGGTCTTACACGAAATCAGAAGTCG
Found at i:62895554 original size:658 final size:658
Alignment explanation
Indices: 62894298--62895614 Score: 2634
Period size: 658 Copynumber: 2.0 Consensus size: 658
62894288 AACCATTGCC
62894298 ATACTAGGTTATAACGAGTTGAAATTTCTTTGAGTACATATCTTTGATAAATCGAATAATCGTGA
1 ATACTAGGTTATAACGAGTTGAAATTTCTTTGAGTACATATCTTTGATAAATCGAATAATCGTGA
62894363 CGTTGTGTTATTTTGAAAACAAGTATTGTTTTGAAAACGTGTCCTAAGTCTAGCCCATTTGAATT
66 CGTTGTGTTATTTTGAAAACAAGTATTGTTTTGAAAACGTGTCCTAAGTCTAGCCCATTTGAATT
62894428 ATTATCAACCAGATTAAAGTTATTAAAAATAAAATAATCCCAGAAAAGGAAATAAAGTTAAAATG
131 ATTATCAACCAGATTAAAGTTATTAAAAATAAAATAATCCCAGAAAAGGAAATAAAGTTAAAATG
62894493 GCCTTATTACAACCCAAAAATAAATAATAAATAAGGTAAACTAAAGAAAACCAATCACTTATTCA
196 GCCTTATTACAACCCAAAAATAAATAATAAATAAGGTAAACTAAAGAAAACCAATCACTTATTCA
62894558 CTGAAGCAGACACATATCTATCACACATATATACAATTTCTATATCCAAACATCACATCCACATA
261 CTGAAGCAGACACATATCTATCACACATATATACAATTTCTATATCCAAACATCACATCCACATA
62894623 AAATAAATACCAAATTTAAATTCAGACCAATATCTAAGGAATCCACAGTATTTCAATTTCTAAAT
326 AAATAAATACCAAATTTAAATTCAGACCAATATCTAAGGAATCCACAGTATTTCAATTTCTAAAT
62894688 AGACAAAAGTATTCAGAAGACTTACGGATTCGGCCCCGGAGACTCGGTGTGCCACACTTTTTAAA
391 AGACAAAAGTATTCAGAAGACTTACGGATTCGGCCCCGGAGACTCGGTGTGCCACACTTTTTAAA
62894753 AGAAATACTTCAAACAGACCACGTAGCTGAAAATAATTTTCTAAAATTCAACCTTTAAAAACCCA
456 AGAAATACTTCAAACAGACCACGTAGCTGAAAATAATTTTCTAAAATTCAACCTTTAAAAACCCA
62894818 ATCCACAGCCGAGTTGTTGCAACCTGACTCTGATACCATTAAATGTAACACCCCAAACCCGACCT
521 ATCCACAGCCGAGTTGTTGCAACCTGACTCTGATACCATTAAATGTAACACCCCAAACCCGACCT
62894883 AGACGTTATGGCCGAATTTGGCGTGTCACATCAAACCATTTTTCAAATTTGATCGTTCCGGTGAA
586 AGACGTTATGGCCGAATTTGGCGTGTCACATCAAACCATTTTTCAAATTTGATCGTTCCGGTGAA
62894948 AATCCATT
651 AATCCATT
62894956 ATACTAGGTTATAACGAGTTGAAATTTCTTTGAGTACATATCTTTGATAAATCGAATAATCGTGA
1 ATACTAGGTTATAACGAGTTGAAATTTCTTTGAGTACATATCTTTGATAAATCGAATAATCGTGA
62895021 CGTTGTGTTATTTTGAAAACAAGTATTGTTTTGAAAACGTGTCCTAAGTCTAGCCCATTTGAATT
66 CGTTGTGTTATTTTGAAAACAAGTATTGTTTTGAAAACGTGTCCTAAGTCTAGCCCATTTGAATT
62895086 ATTATCAACCAGATTAAAGTTATTAAAAATAAAATAATCCCAGAAAAGGAAATAAAGTTAAAATG
131 ATTATCAACCAGATTAAAGTTATTAAAAATAAAATAATCCCAGAAAAGGAAATAAAGTTAAAATG
62895151 GCCTTATTACAACCCAAAAATAAATAATAAATAAGGTAAACTAAAGAAAACCAATCACTTATTCA
196 GCCTTATTACAACCCAAAAATAAATAATAAATAAGGTAAACTAAAGAAAACCAATCACTTATTCA
62895216 CTGAAGCAGACACATATCTATCACACATATATACAATTTCTATATCCAAACATCACATCCACATA
261 CTGAAGCAGACACATATCTATCACACATATATACAATTTCTATATCCAAACATCACATCCACATA
62895281 AAATAAATACCAAATTTAAATTCAGACCAATATCTAAGGAATCCACAGTATTTCAATTTCTAAAT
326 AAATAAATACCAAATTTAAATTCAGACCAATATCTAAGGAATCCACAGTATTTCAATTTCTAAAT
62895346 AGACAAAAGTATTCAGAAGACTTACGGATTCGGCCCCGGAGACTCGGTGTGCCACACTTTTTAAA
391 AGACAAAAGTATTCAGAAGACTTACGGATTCGGCCCCGGAGACTCGGTGTGCCACACTTTTTAAA
62895411 AGAAATACTTCAAACAGACCACGTAGCTGAAAATAATTTTCTAAAATTCAACCTTTAAAAACCCA
456 AGAAATACTTCAAACAGACCACGTAGCTGAAAATAATTTTCTAAAATTCAACCTTTAAAAACCCA
62895476 ATCCACAGCCGAGTTGTTGCAACCTGACTCTGATACCATTAAATGTAACACCCCAAACCCGACCT
521 ATCCACAGCCGAGTTGTTGCAACCTGACTCTGATACCATTAAATGTAACACCCCAAACCCGACCT
62895541 AGACGTTATGGCCGAATTTGGCGTGTCACATCAAACCATTTTTCAAATTTGATCGTTCCGGTGAA
586 AGACGTTATGGCCGAATTTGGCGTGTCACATCAAACCATTTTTCAAATTTGATCGTTCCGGTGAA
62895606 AATCCATT
651 AATCCATT
62895614 A
1 A
62895615 CTGAATCTAA
Statistics
Matches: 659, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
658 659 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (658 bp):
ATACTAGGTTATAACGAGTTGAAATTTCTTTGAGTACATATCTTTGATAAATCGAATAATCGTGA
CGTTGTGTTATTTTGAAAACAAGTATTGTTTTGAAAACGTGTCCTAAGTCTAGCCCATTTGAATT
ATTATCAACCAGATTAAAGTTATTAAAAATAAAATAATCCCAGAAAAGGAAATAAAGTTAAAATG
GCCTTATTACAACCCAAAAATAAATAATAAATAAGGTAAACTAAAGAAAACCAATCACTTATTCA
CTGAAGCAGACACATATCTATCACACATATATACAATTTCTATATCCAAACATCACATCCACATA
AAATAAATACCAAATTTAAATTCAGACCAATATCTAAGGAATCCACAGTATTTCAATTTCTAAAT
AGACAAAAGTATTCAGAAGACTTACGGATTCGGCCCCGGAGACTCGGTGTGCCACACTTTTTAAA
AGAAATACTTCAAACAGACCACGTAGCTGAAAATAATTTTCTAAAATTCAACCTTTAAAAACCCA
ATCCACAGCCGAGTTGTTGCAACCTGACTCTGATACCATTAAATGTAACACCCCAAACCCGACCT
AGACGTTATGGCCGAATTTGGCGTGTCACATCAAACCATTTTTCAAATTTGATCGTTCCGGTGAA
AATCCATT
Found at i:62896412 original size:25 final size:25
Alignment explanation
Indices: 62896384--62896453 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
62896374 CTCTTTTAAT
* *
62896384 AACTGGGGCAAAGCCATTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
62896409 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
62896434 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
62896454 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:62896686 original size:27 final size:27
Alignment explanation
Indices: 62896656--62896878 Score: 311
Period size: 27 Copynumber: 8.3 Consensus size: 27
62896646 GGGGAAAAAT
* * *
62896656 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
62896683 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
62896710 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
62896737 GGTAATTCTACACTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62896764 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
62896791 GGTAACTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
62896818 GGTAACTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
62896845 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
62896872 GGTAATT
1 GGTAATT
62896879 TTACAAACCA
Statistics
Matches: 177, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 177 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:62896773 original size:81 final size:81
Alignment explanation
Indices: 62896655--62896905 Score: 317
Period size: 81 Copynumber: 3.1 Consensus size: 81
62896645 AGGGGAAAAA
* * * *
62896655 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTA
1 TGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTA
62896720 CCCTACAAGGGTATTT
66 CCCTACAAGGGTATTT
* * * **
62896736 TGGTAATTCTACACTACAGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAACTCTA
1 TGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTA
62896801 CCCTACAAGGGTATTT
66 CCCTACAAGGGTATTT
* * * * *
62896817 CGGTAACTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTGGTAATTT-T
1 TGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGT-ATTTCT
** *
62896881 A-CAAACCAGGGGTATTT
65 ACCCTA-CAAGGGTATTT
62896898 TGGTAATT
1 TGGTAATT
62896906 TTGTAAACCA
Statistics
Matches: 144, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
80 2 0.01
81 140 0.97
82 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (81 bp):
TGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTA
CCCTACAAGGGTATTT
Found at i:62896894 original size:54 final size:54
Alignment explanation
Indices: 62896660--62896905 Score: 309
Period size: 54 Copynumber: 4.6 Consensus size: 54
62896650 AAAAATGGTA
* * *
62896660 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGT
* * *
62896713 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACACTACAGGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGT
* *
62896767 ATTTCTACCCTACAAGGGTATTTCGGTAACTCTACCCTACAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGT
** * * *
62896821 AACTCTACCCTACAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGT
** *
62896875 AATTT-TA-CAAACCAGGGGTATTTTGGTAATT
1 -ATTTCTACCCTA-CAAGGGTATTTTGGTAATT
62896906 TTGTAAACCA
Statistics
Matches: 166, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
53 6 0.04
54 158 0.95
55 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGT
Found at i:62896918 original size:81 final size:81
Alignment explanation
Indices: 62896833--62896989 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 81
62896823 CTCTACCCTA
*
62896833 CAAGGGTATTTTAGTAATTCTACCCT-A-C-AGGGGTATTTTGGTAATTTTACAAACCAGGGGTA
1 CAAGGGTATTTTAGTAATTCTA--CTGATCGA-GGGTATTTTGGTAATTTTACAAACCAAGGGTA
*
62896895 TTTTGGTAATTTTGTAAAC
63 TTTTAGTAATTTTGTAAAC
* * ** *
62896914 CAAGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTAGTAATTCTACTGATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
62896979 TAGTAATTTTG
66 TAGTAATTTTG
62896990 AATCGATGGT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
79 2 0.03
80 1 0.02
81 62 0.94
82 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (81 bp):
CAAGGGTATTTTAGTAATTCTACTGATCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
TAGTAATTTTGTAAAC
Found at i:62896921 original size:54 final size:54
Alignment explanation
Indices: 62896863--62896988 Score: 191
Period size: 54 Copynumber: 2.3 Consensus size: 54
62896853 TACCCTACAG
62896863 GGGTATTTTGGTAATTTTACAAACC-AGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCGA-GGGTATTTTGGTAATTTTGTAAACCAA
** *
62896917 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTGTAAACCAA
* *
62896971 TGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
62896989 GAATCGATGG
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 65 0.98
55 1 0.02
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTGTAAACCAA
Found at i:62896989 original size:27 final size:27
Alignment explanation
Indices: 62896863--62896989 Score: 157
Period size: 27 Copynumber: 4.7 Consensus size: 27
62896853 TACCCTACAG
** *
62896863 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACCAA
62896890 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACCAA
* * * *
62896917 GGGTATTTTGGTAATTTTACT-GATCGA
1 GGGTATTTTGGTAATTTT-GTAAACCAA
62896944 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACCAA
* *
62896971 TGGTATTTTAGTAATTTTG
1 GGGTATTTTGGTAATTTTG
62896990 AATCGATGGT
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 83 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAACCAA
Found at i:62897029 original size:27 final size:27
Alignment explanation
Indices: 62896990--62897243 Score: 310
Period size: 27 Copynumber: 9.4 Consensus size: 27
62896980 AGTAATTTTG
*
62896990 AATCGATGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
62897017 AATCGAGGATAAAACGGCAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
62897044 AATCGAGGGTAAAACGAAAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
62897071 AATCGAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
62897098 AATCAAGGGTAAAATGGTAATTTTCTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
62897125 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
62897152 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
62897179 AATCGAGAGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
62897206 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
62897233 AATCGAGGGTA
1 AATCGAGGGTA
62897244 CTTTGGTAAC
Statistics
Matches: 197, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 197 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:62898068 original size:37 final size:37
Alignment explanation
Indices: 62898018--62898096 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62898008 TTATTACGAA
* * *
62898018 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
62898055 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
62898092 GTCTT
1 GTCTT
62898097 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:62898293 original size:47 final size:47
Alignment explanation
Indices: 62898215--62898493 Score: 486
Period size: 47 Copynumber: 5.9 Consensus size: 47
62898205 CCCTTCGGGA
* * * * * *
62898215 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62898262 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62898309 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62898356 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62898403 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62898450 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
62898494 CGCCATACTA
Statistics
Matches: 222, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 222 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62917628 original size:81 final size:79
Alignment explanation
Indices: 62917543--62917729 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 79
62917533 AAGTGAATAT
*
62917543 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAAGATA-CAAATTCCGGGTTAAGCCCCGAAGGC
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG-AGATATCAAA-TCCGGGTTAAGCCCCGAAGG-
*
62917606 CTTTGTGCGAGATACTAA
62 CATTGTGCGAGATACTAA
* * * * * *
62917624 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATT
* *
62917689 GTGTGAGTTACTAA
66 GTGCGAGATACTAA
* *
62917703 AACCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGCTAAGTCCCGAAGGCATTTG
62917730 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 38 0.42
80 23 0.26
81 29 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATT
GTGCGAGATACTAA
Found at i:62917630 original size:40 final size:40
Alignment explanation
Indices: 62917557--62917729 Score: 215
Period size: 40 Copynumber: 4.3 Consensus size: 40
62917547 GGACTAAGAT
*
62917557 CCGAAGGCATTTGTGCGAAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCG-AGATACTAAA-TCCGGGTTAAGTC
*
62917598 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * *
62917638 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
62917678 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
62917717 CCGAAGGCATTTG
1 CCGAAGGCATTTG
62917730 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 34 0.29
40 65 0.55
41 19 0.16
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:62917709 original size:39 final size:39
Alignment explanation
Indices: 62917511--62917727 Score: 204
Period size: 40 Copynumber: 5.4 Consensus size: 39
62917501 CTGTTCCGGC
* * * * * **
62917511 TAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGAC
1 TAAGTCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGT
*
62917551 TAAGAT-CCGAAGGCATTTGTGCGAAGATAC-AAATTCCGGGT
1 TAAG-TCCCGAAGGCA-TTGTGCG-AGTTACTAAA-TCCGGGT
* * *
62917592 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAGTCCCGAAGG-CATTGTGCGAGTTACTAAATCCGGGT
*
62917632 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTCCCGAAGGCATT-GTGCGAGTTACTAAATCCGGGT
* * * *
62917672 TATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGC
1 TAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGT
*
62917711 TATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
62917728 TGAACGAGGA
Statistics
Matches: 150, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 38 0.25
40 75 0.50
41 36 0.24
42 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGT
Found at i:62917747 original size:79 final size:80
Alignment explanation
Indices: 62917585--62917762 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
62917575 AGATACAAAT
* * * *
62917585 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
62917650 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
62917665 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
62917729 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
62917744 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
62917763 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:62921232 original size:23 final size:23
Alignment explanation
Indices: 62921201--62921246 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
62921191 TTCGAAACCA
* *
62921201 AAAATAAAATCGTTCTCTACTTT
1 AAAACAAAACCGTTCTCTACTTT
62921224 AAAACAAAACCGTTCTCTACTTT
1 AAAACAAAACCGTTCTCTACTTT
62921247 TTCTTTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (23 bp):
AAAACAAAACCGTTCTCTACTTT
Found at i:62921364 original size:20 final size:21
Alignment explanation
Indices: 62921333--62921371 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
62921323 TGGAGAACGT
62921333 GAAAAATGAAATAAATATTAA
1 GAAAAATGAAATAAATATTAA
*
62921354 GAAAAAT-AAATAATTATT
1 GAAAAATGAAATAAATATT
62921372 TTTTTACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (21 bp):
GAAAAATGAAATAAATATTAA
Found at i:62922348 original size:16 final size:16
Alignment explanation
Indices: 62922327--62922365 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
62922317 TAATGTTATT
62922327 CAGGCTTTGTGCCTAG
1 CAGGCTTTGTGCCTAG
*
62922343 CAGGCTTTGTGCTTAG
1 CAGGCTTTGTGCCTAG
*
62922359 CAAGCTT
1 CAGGCTT
62922366 AGTTCCAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.33
Consensus pattern (16 bp):
CAGGCTTTGTGCCTAG
Found at i:62922404 original size:38 final size:38
Alignment explanation
Indices: 62922346--62922422 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
62922336 TGCCTAGCAG
* *
62922346 GCTTTGTGCTTAGCAAGCTTAGT-TCCAGTGTTATTCAA
1 GCTTTGTGCCTAACAAGCTTAGTGT-CAGTGTTATTCAA
*
62922384 GCTTTGTGCCTAACAGGCTTAGTGTCAGTGTTATTCAA
1 GCTTTGTGCCTAACAAGCTTAGTGTCAGTGTTATTCAA
62922422 G
1 G
62922423 ATTAGTGACA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
38 34 0.97
39 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (38 bp):
GCTTTGTGCCTAACAAGCTTAGTGTCAGTGTTATTCAA
Found at i:62922434 original size:22 final size:22
Alignment explanation
Indices: 62922402--62922444 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
62922392 CCTAACAGGC
*
62922402 TTAGTGTCAGTGTTATTCAAGA
1 TTAGTGACAGTGTTATTCAAGA
62922424 TTAGTGACAGTGTTATTCAAG
1 TTAGTGACAGTGTTATTCAAG
62922445 CTTTGTGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (22 bp):
TTAGTGACAGTGTTATTCAAGA
Found at i:62922461 original size:60 final size:59
Alignment explanation
Indices: 62922320--62922478 Score: 202
Period size: 60 Copynumber: 2.7 Consensus size: 59
62922310 TGAATCATAA
* * * * **
62922320 TGTTATTCAGGCTTTGTGCCTAGCAGGCTT--TGT-G-CTTA-GCAAGCTTAGTTCCAG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGTCGTGTTATTCAAGATTAGTGACAG
*
62922374 TGTTATTCAAGCTTTGTGCCTAACAGGCTTAGTGTCAGTGTTATTCAAGATTAGTGACAG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGTC-GTGTTATTCAAGATTAGTGACAG
62922434 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGTCGATGTTATT
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGTCG-TGTTATT
62922479 TAGGCTTAGT
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
54 28 0.31
56 3 0.03
58 1 0.01
59 4 0.04
60 54 0.60
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.38
Consensus pattern (59 bp):
TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGTCGTGTTATTCAAGATTAGTGACAG
Found at i:62925353 original size:28 final size:28
Alignment explanation
Indices: 62925268--62925420 Score: 184
Period size: 28 Copynumber: 5.5 Consensus size: 28
62925258 CATGAGATTG
* * * * *
62925268 GCACTAAGAGTGCGGGTTTAAATTGTGCA
1 GCACTAAGTGTGCGAGTTT-GATTATGTA
* *
62925297 GCACTAAGTGTGCGA-ATTGACTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
62925324 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
62925352 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
* * *
62925380 GCACTAGGTGTGCGAG-CTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
62925407 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
62925421 GACTTAATAT
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
27 41 0.38
28 55 0.50
29 13 0.12
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATGTA
Found at i:62925363 original size:55 final size:56
Alignment explanation
Indices: 62925268--62925420 Score: 184
Period size: 55 Copynumber: 2.8 Consensus size: 56
62925258 CATGAGATTG
* * * * *
62925268 GCACTAAGAGTGCGGGTTTAAATTGTGCAGCACTAAGTGTGCGA-ATTGACTATGTA
1 GCACTAAGTGTGCGAGTTT-GATTATGTAGCACTAAGTGTGCGAGATTGACTATGTA
* *
62925324 GCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGATTGACTATGTA
* * * *
62925380 GCACTAGGTGTGCGAG-CTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCG
62925421 GACTTAATAT
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
55 43 0.51
56 42 0.49
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGATTGACTATGTA
Found at i:62935063 original size:43 final size:42
Alignment explanation
Indices: 62935007--62935174 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 42
62934997 ATATCGTACA
* *
62935007 ATGCCAACGTCCCATACGTGGTCTTACATGCAATCACATATTG
1 ATGCCAATGTCCCATACGTGGTCTTACACG-AATCACATATTG
** * * *
62935050 ATGCCGCTATCCCAGATA-G-GGTCTTACACGAATCAAATA-CG
1 ATGCCAATGTCCC--ATACGTGGTCTTACACGAATCACATATTG
* *
62935091 ATGCCAATGTCCCCA-ACATGGTCTTACACATAATCACATATTG
1 ATGCCAATGT-CCCATACGTGGTCTTACAC-GAATCACATATTG
* *
62935134 ATGCCAATGTCCCAGACGTGGTCTTACACGAAAACACATAT
1 ATGCCAATGTCCCATACGTGGTCTTACACG-AATCACATAT
62935175 CGAAAATCCT
Statistics
Matches: 99, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 18 0.18
42 23 0.23
43 52 0.53
44 1 0.01
45 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCATACGTGGTCTTACACGAATCACATATTG
Found at i:62935148 original size:84 final size:84
Alignment explanation
Indices: 62935007--62935165 Score: 205
Period size: 84 Copynumber: 1.9 Consensus size: 84
62934997 ATATCGTACA
* ** **
62935007 ATGCCAACGTCCCATACGTGGTCTTACATGCAATCACATATTGATGCCGCTATCCCAGATAG-GG
1 ATGCCAACGTCCCATACATGGTCTTACACACAATCACATATTGATGCCAATATCCCAGA-AGTGG
62935071 TCTTACACGAATCAAATACG
65 TCTTACACGAATCAAATACG
* * * *
62935091 ATGCCAATGTCCCCA-ACATGGTCTTACACATAATCACATATTGATGCCAATGTCCCAGACGTGG
1 ATGCCAACGT-CCCATACATGGTCTTACACACAATCACATATTGATGCCAATATCCCAGAAGTGG
62935155 TCTTACACGAA
65 TCTTACACGAA
62935166 AACACATATC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 1 0.02
84 59 0.92
85 4 0.06
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (84 bp):
ATGCCAACGTCCCATACATGGTCTTACACACAATCACATATTGATGCCAATATCCCAGAAGTGGT
CTTACACGAATCAAATACG
Found at i:62936068 original size:21 final size:21
Alignment explanation
Indices: 62936024--62936068 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
62936014 TATTGACTTA
*
62936024 CTCACACAGCTACAAGAAATG
1 CTCACACAGCTACAAGAAACG
* *
62936045 CTCACACGGCTACAAGACACG
1 CTCACACAGCTACAAGAAACG
62936066 CTC
1 CTC
62936069 GTGTGCCGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.36, G:0.16, T:0.13
Consensus pattern (21 bp):
CTCACACAGCTACAAGAAACG
Found at i:62936737 original size:10 final size:10
Alignment explanation
Indices: 62936722--62936749 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
62936712 ATAGTGTGGA
62936722 GACAATCCTC
1 GACAATCCTC
62936732 GACAATCCTC
1 GACAATCCTC
62936742 GACAATCC
1 GACAATCC
62936750 CCAAGCTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.39, G:0.11, T:0.18
Consensus pattern (10 bp):
GACAATCCTC
Found at i:62937130 original size:43 final size:41
Alignment explanation
Indices: 62937083--62937185 Score: 100
Period size: 41 Copynumber: 2.5 Consensus size: 41
62937073 TCCCAGATGT
* *
62937083 GGTCTTACATGTAATCAAACATCGATGCCT-CTTTCCCAGACAA
1 GGTCTTACATGTAATCAAACA-CGA-G-CTGATGTCCCAGACAA
* * * * *
62937126 GGTCTTACACGAAATCAGATACGAGCTGATGTCCCAGACAT
1 GGTCTTACATGTAATCAAACACGAGCTGATGTCCCAGACAA
*
62937167 GGTCTTACATGTAAACAAA
1 GGTCTTACATGTAATCAAA
62937186 AGTCGATACC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
40 2 0.04
41 26 0.54
42 3 0.06
43 17 0.35
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (41 bp):
GGTCTTACATGTAATCAAACACGAGCTGATGTCCCAGACAA
Found at i:62942396 original size:46 final size:46
Alignment explanation
Indices: 62942213--62942395 Score: 294
Period size: 46 Copynumber: 4.0 Consensus size: 46
62942203 TTTCTTTCAT
** * *
62942213 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
**
62942259 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* *
62942305 GTTGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
62942351 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
62942396 GAGAGCACAC
Statistics
Matches: 130, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 130 1.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
Found at i:62951093 original size:55 final size:52
Alignment explanation
Indices: 62950940--62951141 Score: 162
Period size: 55 Copynumber: 3.8 Consensus size: 52
62950930 ATTAGGGTTT
* * *
62950940 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTC-AGACATGGCAA-TGGTAA-GTTTATAAGGC
* * * *
62950995 AAGGATATCATGTAAGACCATGTCAGGACATGACATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCA-GACATGGCAATGGTAAGTT--TATAAGGC
* *
62951050 AAAGG-TCCCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTT-CAA---
1 -AAGGATACCATGTAAGACCATGTC-AGACATGGCAATGGTAAGTTTATAAGGC
* * * * *
62951099 AAGGATTCCACGTAAGGCCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTC-AGACATGGCAATGGTAAG
62951142 GTACTCGTGT
Statistics
Matches: 122, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
48 4 0.03
49 32 0.26
52 2 0.02
53 4 0.03
54 6 0.05
55 69 0.57
56 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGTCAGACATGGCAATGGTAAGTTTATAAGGC
Found at i:62951236 original size:23 final size:24
Alignment explanation
Indices: 62951210--62951256 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
62951200 AAGGTAAGGT
*
62951210 AAGGTAAGACGAGTT-ATACTAAA
1 AAGGTAAGACAAGTTCATACTAAA
*
62951233 AAGGTAAGACAAGTTCATGCTAAA
1 AAGGTAAGACAAGTTCATACTAAA
62951257 GAGCAAAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATACTAAA
Found at i:62959678 original size:29 final size:29
Alignment explanation
Indices: 62959645--62959718 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
62959635 GTTGTGAGAT
* *
62959645 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
62959674 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
62959703 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
62959719 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:62964508 original size:27 final size:27
Alignment explanation
Indices: 62964478--62964655 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
62964468 ATATCGAGTC
* * * *
62964478 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
62964505 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
62964532 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
62964560 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
62964587 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
62964614 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
62964641 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62964656 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:62964617 original size:82 final size:81
Alignment explanation
Indices: 62964499--62964654 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
62964489 TGCTATATAA
*
62964499 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
62964564 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
62964581 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
62964645 CACTTAGTGC
65 CACTTAGTGC
62964655 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:62971205 original size:55 final size:53
Alignment explanation
Indices: 62971118--62971319 Score: 198
Period size: 55 Copynumber: 3.8 Consensus size: 53
62971108 ATTAGGGTTT
* * * *
62971118 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGATAA-GTTTCTAAGGC
* * *
62971173 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGATAAGTT--TCTAAGGC
* *
62971228 AAAGG-TCCCATGTAAGACCATGTCGAGACATGGCAATGATAAGTTTC-AA---
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGATAAGTTTCTAAGGC
* * ** *
62971277 AAGGATACCAAGTAAGACCATGACAAGTGATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGATAAG
62971320 GTACTCGTGT
Statistics
Matches: 124, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
48 4 0.03
49 31 0.25
52 2 0.02
53 4 0.03
54 5 0.04
55 74 0.60
56 4 0.03
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGATAAGTTTCTAAGGC
Found at i:62971532 original size:16 final size:16
Alignment explanation
Indices: 62971511--62971541 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62971501 ATAAATTTGA
62971511 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
62971527 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
62971542 AGTGAATAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:62971564 original size:19 final size:19
Alignment explanation
Indices: 62971540--62971579 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
62971530 AGTAAGTGAG
*
62971540 TAAGTGAATAAGTTTAAAA
1 TAAGTGAAGAAGTTTAAAA
62971559 TAAGTGAAGAAGTTTAAAA
1 TAAGTGAAGAAGTTTAAAA
62971578 TA
1 TA
62971580 TGTCTATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (19 bp):
TAAGTGAAGAAGTTTAAAA
Found at i:62981872 original size:55 final size:55
Alignment explanation
Indices: 62981788--62981898 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
62981778 AAGGAAGCAA
62981788 GAGCGGTTGTGTGGCCACCTTTGAGTCCCTCGCAGCACTGATCTGACTAAGATTG
1 GAGCGGTTGTGTGGCCACCTTTGAGTCCCTCGCAGCACTGATCTGACTAAGATTG
62981843 GAGCGGTTGTGTGGCCACCTTTGAGTCCCTCGCAGCACTGATCTGACTAAGATTG
1 GAGCGGTTGTGTGGCCACCTTTGAGTCCCTCGCAGCACTGATCTGACTAAGATTG
62981898 G
1 G
62981899 GGATTACCTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (55 bp):
GAGCGGTTGTGTGGCCACCTTTGAGTCCCTCGCAGCACTGATCTGACTAAGATTG
Found at i:62990072 original size:32 final size:32
Alignment explanation
Indices: 62990036--62990101 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
62990026 AACAAACGAA
62990036 TATCTTCATTTAGTCCATCTTCAAACCTTTTG
1 TATCTTCATTTAGTCCATCTTCAAACCTTTTG
*
62990068 TATCTTTATTTAGTCCATCTTCAAACCTTTTG
1 TATCTTCATTTAGTCCATCTTCAAACCTTTTG
62990100 TA
1 TA
62990102 CATTATTGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.06, T:0.48
Consensus pattern (32 bp):
TATCTTCATTTAGTCCATCTTCAAACCTTTTG
Found at i:62998111 original size:29 final size:29
Alignment explanation
Indices: 62998069--62998179 Score: 152
Period size: 29 Copynumber: 3.9 Consensus size: 29
62998059 CATGACTATG
62998069 AATGTGATTTGGGCCTAATGGGCCACACA
1 AATGTGATTTGGGCCTAATGGGCCACACA
*
62998098 AATGTGATTTGGGCCTAATTGGCCACACA
1 AATGTGATTTGGGCCTAATGGGCCACACA
* * **
62998127 AATGTGATTTGGGCCTAATGGCCCATATG
1 AATGTGATTTGGGCCTAATGGGCCACACA
* *
62998156 AATGAGA-TTGGGCCTAGTGGGCCA
1 AATGTGATTTGGGCCTAATGGGCCA
62998180 TATGCATGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 15 0.21
29 58 0.79
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCACACA
Found at i:62998166 original size:28 final size:29
Alignment explanation
Indices: 62998065--62998188 Score: 128
Period size: 29 Copynumber: 4.3 Consensus size: 29
62998055 AAACCATGAC
*
62998065 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGCCCA
* **
62998094 CACAAATGTGATTTGGGCCTAATTGGCCACA
1 TATGAATGTGATTTGGGCCTAA-TGGCC-CA
*
62998125 CA--AATGTGATTTGGGCCTAATGGCCCA
1 TATGAATGTGATTTGGGCCTAATGGCCCA
* * *
62998152 TATGAATGAGA-TTGGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGCCCA
*
62998180 TATGCATGT
1 TATGAATGT
62998189 ATGTAGACTT
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
27 3 0.04
28 27 0.33
29 43 0.53
30 4 0.05
31 4 0.05
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGCCCA
Found at i:63009342 original size:34 final size:34
Alignment explanation
Indices: 63009290--63009380 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 34
63009280 TTGCATATTG
* *
63009290 TACTAAAAAGGGCTCAGGCCCAGACTGTCACTCT
1 TACTAAAAAGGGCTCAGGCCCAAACTGTCACTAT
* * *
63009324 TACTTAAATGGGCTCAGGCCCAAACTGTGACTAT
1 TACTAAAAAGGGCTCAGGCCCAAACTGTCACTAT
*
63009358 TACTGAAAAAGTGGCTAAGGCCC
1 TACT-AAAAAG-GGCTCAGGCCC
63009381 CTAACTGAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 33 0.70
35 4 0.09
36 10 0.21
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (34 bp):
TACTAAAAAGGGCTCAGGCCCAAACTGTCACTAT
Done.