Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 269 of 279
Found at i:87692760 original size:59 final size:59
Alignment explanation
Indices: 87692668--87692834 Score: 190
Period size: 59 Copynumber: 2.8 Consensus size: 59
87692658 TAGTTCATAA
* * ****** *
87692668 TTTATTAAATGAAACTATAAAAAAATAATTTGTATTGTCTTATTCAAAAGAACTTATAT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTTATAT
* * *
87692727 TTTATTAAATGACACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTTCTGT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTTATAT
* * * *
87692786 TTTATTAAATGAAACAATATAAAAACAACTTGTACAAATATATTAAAAA
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAA
87692835 AATCAATGCA
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 91 1.00
ACGTcount: A:0.50, C:0.09, G:0.05, T:0.35
Consensus pattern (59 bp):
TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTTATAT
Found at i:87701553 original size:40 final size:40
Alignment explanation
Indices: 87701498--87701584 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 40
87701488 NNNNNNNNNN
* *
87701498 CGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATC
87701538 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
87701578 C-GGCTAA
1 CGGGCTAA
87701585 ATCCCAAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 6 0.14
40 36 0.82
41 2 0.05
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATC
Found at i:87709343 original size:40 final size:40
Alignment explanation
Indices: 87709286--87709458 Score: 269
Period size: 40 Copynumber: 4.3 Consensus size: 40
87709276 NNNNNNNNNN
87709286 CCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATAT
*
87709326 CCGGGCTAAGTCTCGAAGGCATTCATGCTAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATAT
87709366 CCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATAT
* ** *
87709406 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACTATAT
*
87709446 CC-GGCTAAATCCC
1 CCGGGCTAAGTCCC
87709459 AAAGATACTT
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 9 0.07
40 113 0.91
41 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATAT
Found at i:87714846 original size:46 final size:45
Alignment explanation
Indices: 87714787--87714908 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 45
87714777 AACGAGAGCT
* *
87714787 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGACTACAAGATGT--GCC
* *
87714833 AGTGTAAGACATGTCTGGGACATGCATC-AACTACAAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGACTACAAGATGTGCC
*
87714877 ACTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
87714909 TACAAATATA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
44 10 0.15
45 16 0.24
46 40 0.61
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGACTACAAGATGTGCC
Found at i:87715722 original size:42 final size:42
Alignment explanation
Indices: 87715676--87715756 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
87715666 TAGACACACA
*
87715676 GGCGTGTGTCTAAGCCATGTGTGACACACGGTCTGCCCTACG
1 GGCGTGTGTCTAAGCCATGTGTGACACACAGTCTGCCCTACG
87715718 GGCGTGTGTCTAAGCCATGTGTGACACACAGTCTGCCCT
1 GGCGTGTGTCTAAGCCATGTGTGACACACAGTCTGCCCT
87715757 TGCACGTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.17, C:0.28, G:0.30, T:0.25
Consensus pattern (42 bp):
GGCGTGTGTCTAAGCCATGTGTGACACACAGTCTGCCCTACG
Found at i:87721643 original size:40 final size:39
Alignment explanation
Indices: 87721578--87721663 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
87721568 TATATAAATA
**
87721578 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* * * *
87721618 TGGCCGAAGCTATTTCGAACCGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
87721657 TAGCCGA
1 TAGCCGA
87721664 TAAGCCGTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 9 0.23
40 30 0.77
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:87730016 original size:72 final size:72
Alignment explanation
Indices: 87729910--87730077 Score: 223
Period size: 72 Copynumber: 2.3 Consensus size: 72
87729900 GCTTTATCAT
* * * *
87729910 ATAACTGGAGGCCT-AGCCTCTTTATATTACTGGGGAAAAAGCCCTTTTAATAACTGGGGCAAAA
1 ATAACTGG-GGCATAAGCC-CTTTTTATAACTGGGGAAAAAGCCCTTTCAATAACTGGGGCAAAA
87729974 GCCCTTTT-
64 GCCCTTTTG
* * * *
87729982 AGTAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTCGATAACTGGGGCATAAG
1 A-TAACTGGGGCATAAGCCCTTTTTATAACTGGGGAAAAAGCCCTTTCAATAACTGGGGCAAAAG
87730047 CCCTTTTG
65 CCCTTTTG
87730055 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
87730078 GCACTTCATC
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
72 73 0.86
73 12 0.14
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTTATAACTGGGGAAAAAGCCCTTTCAATAACTGGGGCAAAAGC
CCTTTTG
Found at i:87730078 original size:24 final size:24
Alignment explanation
Indices: 87729938--87730078 Score: 212
Period size: 24 Copynumber: 5.9 Consensus size: 24
87729928 TCTTTATATT
* * *
87729938 ACTGGGGAAAAAGCCCTTTTAATA
1 ACTGGGGCATAAGCCCTTTTGATA
*
87729962 ACTGGGGCAAAAGCCCTTTT-AGTA
1 ACTGGGGCATAAGCCCTTTTGA-TA
*
87729986 ACTGGGGCATAAGCCCTTTTTATA
1 ACTGGGGCATAAGCCCTTTTGATA
*
87730010 ACTGGGGCATAAGCCCTTTCGATA
1 ACTGGGGCATAAGCCCTTTTGATA
87730034 ACTGGGGCATAAGCCCTTTTGATA
1 ACTGGGGCATAAGCCCTTTTGATA
87730058 ACTGGGGCATAAGCCCTTTTG
1 ACTGGGGCATAAGCCCTTTTG
87730079 CACTTCATCC
Statistics
Matches: 110, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
23 1 0.01
24 108 0.98
25 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (24 bp):
ACTGGGGCATAAGCCCTTTTGATA
Found at i:87730152 original size:20 final size:20
Alignment explanation
Indices: 87730127--87730173 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
87730117 TTATGAATAC
87730127 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
87730147 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
87730167 ACCATGT
1 ATCATGT
87730174 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:87730242 original size:25 final size:25
Alignment explanation
Indices: 87730210--87730257 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
87730200 ATATATAAAC
* *
87730210 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
87730235 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
87730258 CATGTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:87749295 original size:10 final size:10
Alignment explanation
Indices: 87749263--87749296 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
87749253 CATTTTGTCC
87749263 CTTTTTGGCT
1 CTTTTTGGCT
87749273 CGTTTTTGGCT
1 C-TTTTTGGCT
*
87749284 CTTTTTGACT
1 CTTTTTGGCT
87749294 CTT
1 CTT
87749297 GGTGCTCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.21, G:0.18, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:87752543 original size:47 final size:46
Alignment explanation
Indices: 87752453--87752671 Score: 169
Period size: 47 Copynumber: 4.7 Consensus size: 46
87752443 GGGTAAGGTA
* * *
87752453 CTGATGCCATGTCCTAGACACGGTCTTATACT-AGCTCATATCTC-AAG
1 CTGATGCCATGTCCCAGACA-TGTCTTACACTGA-CT-ATATCTCGAAG
* * *
87752500 TTGATGCCATGTCCCAGACATGGACTTACACTGACTATCATCTCGTAG
1 CTGATGCCATGTCCCAGACAT-GTCTTACACTGACTAT-ATCTCGAAG
* * *
87752548 TTGATG-CATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAAG
1 CTGATGCCATGTCCCAGACATGTCTTACACTGAC-TATATCTCGAAG
* * * * **
87752594 CCGTTG-CATGTCTCAGACATGTCTTACACTAACCCTCATCTC-AATG
1 CTGATGCCATGTCCCAGACATGTCTTACACTGACTAT-ATCTCGAA-G
* *
87752640 CCGATGCCATGTCCCAGACATCATCTTACACT
1 CTGATGCCATGTCCCAGACAT-GTCTTACACT
87752672 AGCTCTCATA
Statistics
Matches: 141, Mismatches: 22, Indels: 17
0.78 0.12 0.09
Matches are distributed among these distances:
45 3 0.02
46 57 0.40
47 63 0.45
48 18 0.13
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (46 bp):
CTGATGCCATGTCCCAGACATGTCTTACACTGACTATATCTCGAAG
Found at i:87752602 original size:46 final size:46
Alignment explanation
Indices: 87752502--87752717 Score: 170
Period size: 46 Copynumber: 4.6 Consensus size: 46
87752492 ATCTCAAGTT
* * **
87752502 GATGCCATGTCCCAGACATGGACTTACACTGACTATCATCTCGTAGTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCGAAGCC
* *
87752550 GATGCATGTCCCAGACATGTCTTACACTGGCTTAT-GTCTCGAAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGAC-TATCATCTCGAAGCC
* * * **
87752596 GTTGCATGTCTCAGACATGTCTTACACTAACCCTCATCTC-AATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAA-GCC
* * * **
87752642 GATGCCATGTCCCAGACATCATCTTACACT-AGCTCTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGA-CTATCAT-CTCGAAGCC
* *
87752690 GATGCATGTCTCGGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
87752718 AGCTCACACA
Statistics
Matches: 137, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
45 3 0.02
46 64 0.47
47 43 0.31
48 26 0.19
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAAGCC
Found at i:87755725 original size:33 final size:33
Alignment explanation
Indices: 87755683--87755759 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
87755673 TGAATAACAT
*
87755683 AGTATCAGTATAGTCTGGGCCAAAGCCCTATTC
1 AGTATCAGTATAGTCTGGGCCAAAGCCCTATAC
* *
87755716 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
1 AGTATCAGTATAGTCTGGGCCAAAGCCCTATAC
*
87755749 AGTAGCAGTAT
1 AGTATCAGTAT
87755760 GGGCTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (33 bp):
AGTATCAGTATAGTCTGGGCCAAAGCCCTATAC
Found at i:87755937 original size:27 final size:27
Alignment explanation
Indices: 87755906--87756001 Score: 93
Period size: 27 Copynumber: 3.6 Consensus size: 27
87755896 CAATATCGCA
* *
87755906 GCAAAGCTACCAGAAACAGTAAATGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
* * * *
87755933 GCAAAGCCACTAGTATCAGTAATTGTT
1 GCAAAGCCACCAGTAACAGTAAATGTG
* *
87755960 GCATAGCCACCAGTAACAGTGAATGTG
1 GCAAAGCCACCAGTAACAGTAAATGTG
* * *
87755987 ACATAGTCACCAGTA
1 GCAAAGCCACCAGTA
87756002 CAGAACTTCC
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTAAATGTG
Found at i:87756172 original size:27 final size:26
Alignment explanation
Indices: 87756142--87756238 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 26
87756132 GGACATAATC
87756142 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
* *
87756169 GTCACTTTACCCTACAGGGGCATTACG
1 GTCATTTTA-CCTACAGGGGTATTACG
* * * *
87756196 GTCTTTTTACCTATTAGGGGTATTTCA
1 GTCATTTTACCTA-CAGGGGTATTACG
*
87756223 GTCATTTCATCCTACA
1 GTCATTTTA-CCTACA
87756239 AAGGTGTTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
26 4 0.07
27 46 0.82
28 6 0.11
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:87756493 original size:27 final size:27
Alignment explanation
Indices: 87756245--87756499 Score: 228
Period size: 27 Copynumber: 9.4 Consensus size: 27
87756235 TACAAAGGTG
* * *
87756245 TTTTGGTAAATCTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* * * *
87756272 TTTTAGTAATTTTGCAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
*
87756299 TTTCT-ATAATTTT-CGAAAGTCAAGGGTA
1 TTT-TGGTAATTTTAC-AAA-TCAAGGGTA
** * *
87756327 TTTTTATAATTTTCCAAATTAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* * * *
87756354 TTTCGGTACTTTTCCAAATCAGGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* *
87756381 TTTTGGCAACTTTACAAATCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* * *
87756408 TTTCGGTAATTTCACAAATCAGGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
*
87756435 TTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
** *
87756462 TTTTGGTAATTTTGTAAACCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
87756489 TTTTGGTAATT
1 TTTTGGTAATT
87756500 CTACCCTACA
Statistics
Matches: 190, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.01
27 164 0.86
28 23 0.12
29 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAAGGGTA
Found at i:87756511 original size:27 final size:27
Alignment explanation
Indices: 87756481--87756561 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
87756471 TTTTGTAAAC
**
87756481 CAAGGGTATTTTGGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
*
87756508 CAAGGGAATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* * *
87756535 C-AGGGATATTTCATTAATGCTAGCCTA
1 CAAGGG-TATTTCAGTAATTCTACCCTA
87756562 TAGATATGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
26 4 0.09
27 42 0.91
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:87761304 original size:29 final size:29
Alignment explanation
Indices: 87761241--87761308 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
87761231 TAATCAACCA
87761241 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
87761270 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
87761299 CGCACACTTA
1 CGCACACTTA
87761309 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:87761452 original size:29 final size:30
Alignment explanation
Indices: 87761410--87761488 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
87761400 CTTAATAATC
87761410 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
* *
87761440 AACTCGCATACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
87761469 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
87761489 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 31 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:87777853 original size:46 final size:46
Alignment explanation
Indices: 87777803--87778062 Score: 230
Period size: 46 Copynumber: 5.6 Consensus size: 46
87777793 TTCCGGACTT
*
87777803 ATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTC
1 ATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTC
* * *
87777849 ATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAGCTC
1 ATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC--CCGAGCTC
* * *
87777896 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCTCGAACTC
1 ATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTC
* * * * *
87777942 GTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCCGAGCTC
1 ATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC--CCGAGCTC
* * * *
87777989 GTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCGGAGCTC
1 ATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTC
87778035 ATTGAGTTGAGTCCGAGTTCACTTATGG
1 ATTGAGTTGAGTCCGAGTTCACTTATGG
87778063 GCAAGTTACA
Statistics
Matches: 173, Mismatches: 23, Indels: 36
0.75 0.10 0.16
Matches are distributed among these distances:
42 4 0.02
43 10 0.06
45 8 0.05
46 78 0.45
47 52 0.30
48 8 0.05
50 9 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
ATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTC
Found at i:87777962 original size:93 final size:92
Alignment explanation
Indices: 87777804--87778054 Score: 430
Period size: 93 Copynumber: 2.7 Consensus size: 92
87777794 TCCGGACTTA
87777804 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCGAACTCATTGAGTTGAGTCCGAGTTC
87777869 GTGAGATGTAACTAGGCATCCGAGCTCG
65 GTGAGATGTAACTAGGCATCCGAGCTCG
* *
87777897 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCTCGAACTCGTTGAGTTGAGTCTGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC-CGAACTCATTGAGTTGAGTCCGAGTTC
87777962 GTGAGATGTAACTAGGCATCCGAGCTCG
65 GTGAGATGTAACTAGGCATCCGAGCTCG
* * *
87777990 TTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCGGAGCTCATTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCC-GAACTCATTGAGTTGAGTCCGAGTTC
87778055 ACTTATGGGC
Statistics
Matches: 149, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
92 2 0.01
93 147 0.99
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (92 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCGAACTCATTGAGTTGAGTCCGAGTTCG
TGAGATGTAACTAGGCATCCGAGCTCG
Found at i:87777992 original size:47 final size:47
Alignment explanation
Indices: 87777841--87778008 Score: 193
Period size: 47 Copynumber: 3.6 Consensus size: 47
87777831 ATGCGAATGC
*
87777841 CCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCAT
* * * *
87777888 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC-T
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCAT
*
87777935 -CGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCAT
* *
87777981 CCGAGCTCGTTGAGTTGAGTCTGAGTTC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC
87778009 ACTTATGGAT
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 26 0.26
47 53 0.52
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (47 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCAT
Found at i:87780141 original size:40 final size:40
Alignment explanation
Indices: 87779969--87780134 Score: 237
Period size: 40 Copynumber: 4.2 Consensus size: 40
87779959 AACCCAAGTA
* *
87779969 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * * *
87780008 TCTTCGAGACTTAGCTCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
87780048 CCTTCGGGACTTAGCCTGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
87780088 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
87780128 CCTTCGG
1 CCTTCGG
87780135 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 11 0.10
40 99 0.89
41 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:87780141 original size:80 final size:80
Alignment explanation
Indices: 87779969--87780146 Score: 263
Period size: 80 Copynumber: 2.2 Consensus size: 80
87779959 AACCCAAGTA
* * *
87779969 CCTTCGGGAT-TTAGCCGGATATAGCAACTCGCACAAATGTCTTCGAGACTTAGCTCGGATATAA
1 CCTTCGGGATCTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGAGACTTAGCCCGGATATAA
87780033 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* *
87780048 CCTTCGGGA-CTTAGCCTGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGATCTTAGCC-GGATATAGCAACTAGCACAAATGCCTTCGAGACTTAGCCCGGATATA
*
87780112 GTCACTAGCACAAATG
65 ATCACTAGCACAAATG
87780128 CCTTC-GGATCTTAGTCCGG
1 CCTTCGGGATCTTAG-CCGG
87780147 TTATCATCCG
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
79 18 0.20
80 69 0.78
81 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGATCTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGAGACTTAGCCCGGATATAA
TCACTAGCACAAATG
Found at i:87789058 original size:15 final size:15
Alignment explanation
Indices: 87789022--87789050 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
87789012 GAGAAGTTCG
87789022 GATGGTTTTGACACA
1 GATGGTTTTGACACA
87789037 GATGGTTTTGACAC
1 GATGGTTTTGACAC
87789051 GAATGGTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (15 bp):
GATGGTTTTGACACA
Found at i:87790078 original size:40 final size:40
Alignment explanation
Indices: 87790034--87790133 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
87790024 GAAGACAAGT
** * *
87790034 TTCCAGTAATGTGGACAAGCCACCAATATTGTAGATAAAC
1 TTCCAGTAATGCAGACAAGCCACCAATACTGCAGATAAAC
**
87790074 TTCCAAG-AATGCAGACAAGTTACCAATACTGCAGATAAAC
1 TTCC-AGTAATGCAGACAAGCCACCAATACTGCAGATAAAC
* *
87790114 TGCCAGTAACGCAGACAAGC
1 TTCCAGTAATGCAGACAAGC
87790134 TACCGGTATT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.04
40 45 0.92
41 2 0.04
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (40 bp):
TTCCAGTAATGCAGACAAGCCACCAATACTGCAGATAAAC
Found at i:87790444 original size:33 final size:33
Alignment explanation
Indices: 87790398--87790469 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
87790388 TAAATTATGC
87790398 CATA-ATATCACATAACATGAGAATGAGAACAA
1 CATACATATCACATAACATGAGAATGAGAACAA
87790430 CATACATATCACATAACATGAGAATGAGAACAA
1 CATACATATCACATAACATGAGAATGAGAACAA
87790463 CATACAT
1 CATACAT
87790470 TTCAAATGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
32 4 0.10
33 35 0.90
ACGTcount: A:0.51, C:0.18, G:0.11, T:0.19
Consensus pattern (33 bp):
CATACATATCACATAACATGAGAATGAGAACAA
Found at i:87798259 original size:12 final size:12
Alignment explanation
Indices: 87798232--87798271 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
87798222 CAATCCAAAA
87798232 TCCACATTTCATTT
1 TCCA-ATTTCA-TT
*
87798246 TCCATTTTCATT
1 TCCAATTTCATT
87798258 TCCAATTTCATT
1 TCCAATTTCATT
87798270 TC
1 TC
87798272 TTATTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 15 0.62
13 5 0.21
14 4 0.17
ACGTcount: A:0.20, C:0.28, G:0.00, T:0.53
Consensus pattern (12 bp):
TCCAATTTCATT
Found at i:87806438 original size:12 final size:12
Alignment explanation
Indices: 87806421--87806445 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87806411 CTCAAATGTC
87806421 GGCTCCGGCTCT
1 GGCTCCGGCTCT
87806433 GGCTCCGGCTCT
1 GGCTCCGGCTCT
87806445 G
1 G
87806446 CTTTCTTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.40, G:0.36, T:0.24
Consensus pattern (12 bp):
GGCTCCGGCTCT
Found at i:87808045 original size:17 final size:17
Alignment explanation
Indices: 87808023--87808058 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
87808013 AGGAGTCTGC
87808023 AGTGTTGACCAGACAAA
1 AGTGTTGACCAGACAAA
87808040 AGTGTTGACCAGACAAA
1 AGTGTTGACCAGACAAA
87808057 AG
1 AG
87808059 GTGAGCTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (17 bp):
AGTGTTGACCAGACAAA
Found at i:87816759 original size:45 final size:45
Alignment explanation
Indices: 87816666--87816928 Score: 302
Period size: 45 Copynumber: 5.9 Consensus size: 45
87816656 TTTTCTCAAA
* * *
87816666 TCACCGGCATT-TTGCCTGCTAGGCTC-GAGGCCC-AATTA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAA-TAGT-ATC
* *
87816709 TCACCGACATTATAGCCTGCTAGGCTCGAAA-GCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
* *
87816754 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * * * * *
87816799 TCACCGACATCATAGCCTGCTAGGCTTAAAGGCCTGAATAATGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * * *
87816844 TCACCGGCATAACAGCCTACTAGGCTCAAAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
87816889 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
87816929 TAATACCAGC
Statistics
Matches: 191, Mismatches: 23, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
43 10 0.05
44 17 0.09
45 160 0.84
46 4 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:87816969 original size:38 final size:38
Alignment explanation
Indices: 87816921--87817006 Score: 136
Period size: 38 Copynumber: 2.3 Consensus size: 38
87816911 GGCTCAAAGG
* * *
87816921 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
87816959 CCCGGATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
87816997 CCCGGATATA
1 CCCGGATATA
87817007 CATCAAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:87832180 original size:15 final size:15
Alignment explanation
Indices: 87832144--87832174 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
87832134 TTACCATTCC
87832144 TTGTTTAACCAACTT
1 TTGTTTAACCAACTT
*
87832159 TTGTTTAACTAACTT
1 TTGTTTAACCAACTT
87832174 T
1 T
87832175 CTTTTAGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (15 bp):
TTGTTTAACCAACTT
Found at i:87842049 original size:27 final size:27
Alignment explanation
Indices: 87842017--87842086 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
87842007 AGGAAGCGTC
*
87842017 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
87842044 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
87842071 CTGGTGGCTCTGCCAC
1 CTGGTGGCTCTGCCAC
87842087 GATCAACTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:87842096 original size:27 final size:25
Alignment explanation
Indices: 87842017--87842128 Score: 80
Period size: 27 Copynumber: 4.2 Consensus size: 25
87842007 AGGAAGCGTC
* * *
87842017 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-A-TAACTGTT
87842044 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATA-A-CTGTT
87842071 CTGGTGGCTCTGCCACGATCAACTGTAT
1 CTGGTGGCTCTGCCAC-AT-AACTGT-T
* * ** *
87842099 CTGATGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTGCCACA-TAACTGTT
87842125 CTGG
1 CTGG
87842129 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
25 2 0.03
26 5 0.07
27 45 0.64
28 17 0.24
29 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
CTGGTGGCTCTGCCACATAACTGTT
Found at i:87842121 original size:54 final size:54
Alignment explanation
Indices: 87842017--87842128 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
87842007 AGGAAGCGTC
* * * * *
87842017 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATCAACTGATCTGATGACTCTACCACATATATCTGTT
* * *
87842071 CTGGTGGCTCTGCCACGATCAACTGTATCTGATGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATCAACTG-ATCTGATGACTCTACCACATATATCTGTT
87842125 CTGG
1 CTGG
87842129 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 33 0.67
55 16 0.33
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATCAACTGATCTGATGACTCTACCACATATATCTGTT
Found at i:87843289 original size:19 final size:20
Alignment explanation
Indices: 87843255--87843292 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
87843245 TACTATAGCC
*
87843255 ATTTAAGTTGTCCTTAGCTT
1 ATTTAACTTGTCCTTAGCTT
87843275 ATTTAACTTGT-CTTAGCT
1 ATTTAACTTGTCCTTAGCT
87843293 CCTACAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (20 bp):
ATTTAACTTGTCCTTAGCTT
Found at i:87855104 original size:41 final size:42
Alignment explanation
Indices: 87855011--87855142 Score: 133
Period size: 42 Copynumber: 3.2 Consensus size: 42
87855001 CCATGTGTAA
* ** * *
87855011 GCCGTGTGTCTCACATTGTTTGCCTACACGCCCGTGTGCCAT
1 GCCGTGTATCTCACACAGTTTGCCTACATGCCCGTGTGCCAG
* *
87855053 TCCGTATATCTCACAC-GATTTGCCTACATGCCC-TGTGCCAG
1 GCCGTGTATCTCACACAG-TTTGCCTACATGCCCGTGTGCCAG
* * * * *
87855094 GCTGTGTATCTCGCACAGTCTGCCCACATGCCCGTGTGCTAG
1 GCCGTGTATCTCACACAGTTTGCCTACATGCCCGTGTGCCAG
87855136 GCCGTGT
1 GCCGTGT
87855143 GGACTCAAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
41 33 0.45
42 40 0.55
ACGTcount: A:0.14, C:0.33, G:0.23, T:0.29
Consensus pattern (42 bp):
GCCGTGTATCTCACACAGTTTGCCTACATGCCCGTGTGCCAG
Found at i:87856242 original size:27 final size:27
Alignment explanation
Indices: 87856198--87856266 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
87856188 AATAGGGTTT
*
87856198 TCAATTCACATTTCAAT---TTCCAAA
1 TCAATACACATTTCAATCAATTCCAAA
*
87856222 T-AATATCA-ATTTCAATCAATTCCAAT
1 TCAATA-CACATTTCAATCAATTCCAAA
87856248 TCAATACACATTTCAATCA
1 TCAATACACATTTCAATCA
87856267 TTCTCATGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 11 0.30
24 3 0.08
26 9 0.24
27 14 0.38
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (27 bp):
TCAATACACATTTCAATCAATTCCAAA
Found at i:87856538 original size:18 final size:18
Alignment explanation
Indices: 87856514--87856556 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
87856504 AAACTTTTAT
87856514 CTAAATTCCAATTTAGTC
1 CTAAATTCCAATTTAGTC
* *
87856532 TTAAATTCTAATTTAGTC
1 CTAAATTCCAATTTAGTC
87856550 CTAAATT
1 CTAAATT
87856557 TTAGCTGACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.05, T:0.44
Consensus pattern (18 bp):
CTAAATTCCAATTTAGTC
Found at i:87856996 original size:13 final size:12
Alignment explanation
Indices: 87856934--87856997 Score: 58
Period size: 13 Copynumber: 5.1 Consensus size: 12
87856924 AATTTCTCTT
87856934 TCTTTTTCTTTC
1 TCTTTTTCTTTC
*
87856946 CCTTTTTCTTTC
1 TCTTTTTCTTTC
*
87856958 T-TTCTTTCCCTTC
1 TCTT-TTT-CTTTC
*
87856971 TCTGTTTCATTTC
1 TCTTTTTC-TTTC
87856984 TCTTATTTCTTTC
1 TCTT-TTTCTTTC
87856997 T
1 T
87856998 TTTCATTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
11 2 0.05
12 15 0.37
13 19 0.46
14 5 0.12
ACGTcount: A:0.03, C:0.28, G:0.02, T:0.67
Consensus pattern (12 bp):
TCTTTTTCTTTC
Found at i:87856997 original size:26 final size:24
Alignment explanation
Indices: 87856926--87856997 Score: 58
Period size: 25 Copynumber: 2.9 Consensus size: 24
87856916 TAAACCCTAA
* *
87856926 TTTCTCTT-TCTTTTTCTTTCCCTT
1 TTTCT-TTCTCTTTTTCTTTCTCTG
*
87856950 TTTCTTTCT-TTCTTTCCCTTCTCTG
1 TTTCTTTCTCTT-TTT-CTTTCTCTG
87856975 TTTCATTTCTCTTATTTCTTTCT
1 TTTC-TTTCTCTT-TTTCTTTCT
87856998 TTTCATTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
23 4 0.11
24 9 0.24
25 10 0.26
26 10 0.26
27 5 0.13
ACGTcount: A:0.03, C:0.28, G:0.01, T:0.68
Consensus pattern (24 bp):
TTTCTTTCTCTTTTTCTTTCTCTG
Found at i:87857119 original size:5 final size:5
Alignment explanation
Indices: 87857036--87857103 Score: 127
Period size: 5 Copynumber: 13.4 Consensus size: 5
87857026 TATTTTATGT
87857036 TAATAA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAAT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
87857087 TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TA
87857104 TTTTACTTAT
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 58 0.94
6 4 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:87857128 original size:27 final size:26
Alignment explanation
Indices: 87857085--87857142 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
87857075 TATAATATAA
* *
87857085 TATAATATAATATAATATATT-TTACT
1 TATATTATAATAAAATA-ATTATTACT
87857111 TATATTATAAGTAAAATAATTATTACT
1 TATATTATAA-TAAAATAATTATTACT
*
87857138 AATAT
1 TATAT
87857143 ATGTATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (26 bp):
TATATTATAATAAAATAATTATTACT
Found at i:87864715 original size:2 final size:2
Alignment explanation
Indices: 87864708--87864733 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
87864698 TGTTTTCTTA
87864708 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
87864734 ATCTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:87883150 original size:2 final size:2
Alignment explanation
Indices: 87883143--87883170 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
87883133 TGTTTTCTTA
87883143 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
87883171 ATCTACCGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:87896441 original size:420 final size:420
Alignment explanation
Indices: 87895662--87896502 Score: 1520
Period size: 420 Copynumber: 2.0 Consensus size: 420
87895652 AACAATTCAA
87895662 TCATAATCCAATACTAAAATTTATTTAACAACCATTTCAATTATCATTCAATTATATAACAACAC
1 TCATAATCCAATACTAAAATTTATTTAACAACCATTTCAATTATCATTCAATTATATAACAACAC
87895727 TTACCTCGTAATTTACTTACCAAATACATAATTTAATTTAACATTTAATGAATAAATAAATAATT
66 TTACCTCGTAATTTACTTACCAAATACATAATTTAATTTAACATTTAATGAATAAATAAATAATT
* * *
87895792 TGAATTATAGTAATACAAACCCGAATTTTGCGATTACTCCTCGATAACTTTCTCCTTTCTTTTTC
131 TGAATTACAGTAATACAAACCCGAATTTTGCGATTACTCCTCGATAAATTTCTCCTTTCCTTTTC
* *
87895857 GTGCCAATGCTTCAGGTTCTTTGTTGGCTACGAAAATAATAATAATTCACATTATTATTTACAAC
196 ATGCCAATGCTTCAAGTTCTTTGTTGGCTACGAAAATAATAATAATTCACATTATTATTTACAAC
87895922 ATTAATTATAATAAATAATTAAATTTCTAAACAATTCCTACCTTATTCCCAATTTAATCCTAACT
261 ATTAATTATAATAAATAATTAAATTTCTAAACAATTCCTACCTTATTCCCAATTTAATCCTAACT
*
87895987 AAACTTACTTACTTTCTTAATCCAATTCACTCTCTTTTTCTATTCAAATTTTGTCTAAACTCATA
326 AAACTTACTTACTTTCTTAATCCAATTCACTCTCTTTTTCTATTCAAAATTTGTCTAAACTCATA
*
87896052 TTTAACTATAAAATTTCCAGTATATTTTCC
391 TTTAACTATAAAATTTCCAGTAAATTTTCC
*
87896082 TCATAATCCAATACTAAAATTTATTTAACAACCATTTCAATTATCATTCAATTATATAACAACAG
1 TCATAATCCAATACTAAAATTTATTTAACAACCATTTCAATTATCATTCAATTATATAACAACAC
*
87896147 TTATCTCGTAATTTACTTACCAAATACATAATTTAATTTAACATTTAATGAATAAATAAATAATT
66 TTACCTCGTAATTTACTTACCAAATACATAATTTAATTTAACATTTAATGAATAAATAAATAATT
* *
87896212 TGAATTACAGTAATACAAACCTGAATTTTGCGATTACTCCTCGATAAATTTGTCCTTTCCTTTTC
131 TGAATTACAGTAATACAAACCCGAATTTTGCGATTACTCCTCGATAAATTTCTCCTTTCCTTTTC
* * * * *
87896277 ATGCCAATGCTTCAAGTTCTTTGTTGGCTATGAAAATAATAGTAATTTACATTATTATTTGCAGC
196 ATGCCAATGCTTCAAGTTCTTTGTTGGCTACGAAAATAATAATAATTCACATTATTATTTACAAC
*
87896342 ATTAATTATAATAAATAATTAAATTTCTAAACAATTCCTACCTTATTCCTAATTTAATCCTAACT
261 ATTAATTATAATAAATAATTAAATTTCTAAACAATTCCTACCTTATTCCCAATTTAATCCTAACT
87896407 AAACTTACTTACTTTCTTAATCCAATTCACTCTCTTTTTCTATTCAAAATTTGTCTAAACTCATA
326 AAACTTACTTACTTTCTTAATCCAATTCACTCTCTTTTTCTATTCAAAATTTGTCTAAACTCATA
*
87896472 TTTAACTATAAAATTTCCATTAAATTTTCC
391 TTTAACTATAAAATTTCCAGTAAATTTTCC
87896502 T
1 T
87896503 AATTTTGAAA
Statistics
Matches: 403, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
420 403 1.00
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (420 bp):
TCATAATCCAATACTAAAATTTATTTAACAACCATTTCAATTATCATTCAATTATATAACAACAC
TTACCTCGTAATTTACTTACCAAATACATAATTTAATTTAACATTTAATGAATAAATAAATAATT
TGAATTACAGTAATACAAACCCGAATTTTGCGATTACTCCTCGATAAATTTCTCCTTTCCTTTTC
ATGCCAATGCTTCAAGTTCTTTGTTGGCTACGAAAATAATAATAATTCACATTATTATTTACAAC
ATTAATTATAATAAATAATTAAATTTCTAAACAATTCCTACCTTATTCCCAATTTAATCCTAACT
AAACTTACTTACTTTCTTAATCCAATTCACTCTCTTTTTCTATTCAAAATTTGTCTAAACTCATA
TTTAACTATAAAATTTCCAGTAAATTTTCC
Found at i:87896732 original size:24 final size:24
Alignment explanation
Indices: 87896668--87896733 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
87896658 TATCCATTAA
* *
87896668 ATAATCATAA-TAATTATAAAACC
1 ATAATAATAATTAAATATAAAACC
**
87896691 ATAATAATAATTTTATATAAAACC
1 ATAATAATAATTAAATATAAAACC
*
87896715 ATGATAATAATTAAATATA
1 ATAATAATAATTAAATATA
87896734 TATAATACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
23 9 0.26
24 26 0.74
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
ATAATAATAATTAAATATAAAACC
Found at i:87905036 original size:42 final size:42
Alignment explanation
Indices: 87904978--87905089 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 42
87904968 TGATTTACGT
* * * *
87904978 GTAAGACCAAGTCTGGGACATTGGCATC-GTATTTGATTCCGC
1 GTAAGACC-CGTCTGGGACATTGGCATCAATATTTGATTACAC
* *
87905020 GTAAGACCCTGTCTGGGACAGTGGCATCAATATTTGATTACAT
1 GTAAGACCC-GTCTGGGACATTGGCATCAATATTTGATTACAC
*
87905063 GTAAGACCACGTCTGGGACGTTGGCAT
1 GTAAGACC-CGTCTGGGACATTGGCAT
87905090 TGTACAAGCT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 25 0.42
43 33 0.56
44 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (42 bp):
GTAAGACCCGTCTGGGACATTGGCATCAATATTTGATTACAC
Found at i:87916379 original size:29 final size:29
Alignment explanation
Indices: 87916340--87916418 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
87916330 CTTAATAATC
*
87916340 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
87916370 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
87916399 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
87916419 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:87916993 original size:2 final size:2
Alignment explanation
Indices: 87916986--87917010 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
87916976 ATGGGCTTGC
87916986 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
87917011 GCCGAATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87918710 original size:20 final size:20
Alignment explanation
Indices: 87918685--87918723 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
87918675 TTATAGCGTG
87918685 TTTGAGTAGAGCTAGACTTT
1 TTTGAGTAGAGCTAGACTTT
87918705 TTTGAGTAGAGCTAGACTT
1 TTTGAGTAGAGCTAGACTT
87918724 GGGTTAGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (20 bp):
TTTGAGTAGAGCTAGACTTT
Found at i:87920702 original size:6 final size:6
Alignment explanation
Indices: 87920688--87920718 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
87920678 AATAAAATTT
87920688 AAATAAA AAATAA AAATAA AAATAA AAATAA
1 AAAT-AA AAATAA AAATAA AAATAA AAATAA
87920719 TAGTAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:87920725 original size:18 final size:17
Alignment explanation
Indices: 87920678--87920730 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
87920668 AATAAGACAC
* *
87920678 AATAAAATTTAAATAAAA
1 AATAAAAATAAAAT-AAA
87920696 AATAAAAATAAAAATAAA
1 AATAAAAAT-AAAATAAA
* *
87920714 AATAATAGTAAAATAAA
1 AATAAAAATAAAATAAA
87920731 GGGACTCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 8 0.27
18 18 0.60
19 4 0.13
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (17 bp):
AATAAAAATAAAATAAA
Found at i:87924266 original size:54 final size:54
Alignment explanation
Indices: 87924193--87924495 Score: 606
Period size: 54 Copynumber: 5.6 Consensus size: 54
87924183 GTAATTGTCG
87924193 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
1 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
87924247 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
1 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
87924301 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
1 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
87924355 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
1 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
87924409 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
1 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
87924463 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCG
1 TTGCAGGGGATTTAGCCTGGACTGGTAATCCCG
87924496 CTGCAAGGTT
Statistics
Matches: 249, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 249 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (54 bp):
TTGCAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATA
Found at i:87934086 original size:20 final size:21
Alignment explanation
Indices: 87934061--87934112 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
87934051 TCACTTTTCC
*
87934061 CACGCCCGTGTGGTACT-TCA
1 CACGCCCGTGTGGTACTAACA
* *
87934081 CACGCCTGTGT-GTCCTAACA
1 CACGCCCGTGTGGTACTAACA
87934101 CACGCCCGTGTG
1 CACGCCCGTGTG
87934113 CCTTGCCCGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.15, C:0.37, G:0.25, T:0.23
Consensus pattern (21 bp):
CACGCCCGTGTGGTACTAACA
Found at i:87940816 original size:23 final size:23
Alignment explanation
Indices: 87940790--87940834 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
87940780 TTCAAATGTA
*
87940790 TGTTCTTAATTGT-AATATAATTG
1 TGTTATTAATTGTGAA-ATAATTG
*
87940813 TGTTATTCATTGTGAAATAATT
1 TGTTATTAATTGTGAAATAATT
87940835 TATGGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.51
Consensus pattern (23 bp):
TGTTATTAATTGTGAAATAATTG
Found at i:87944549 original size:17 final size:16
Alignment explanation
Indices: 87944517--87944550 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
87944507 TCAATATGAG
*
87944517 AATATATAAATTTAAT
1 AATATATAAATATAAT
87944533 AATATATCAAATATAAT
1 AATATAT-AAATATAAT
87944550 A
1 A
87944551 GCCATAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATATAAATATAAT
Found at i:87944607 original size:36 final size:36
Alignment explanation
Indices: 87944565--87944635 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
87944555 TAAGAAAGAA
87944565 AGGATAATATTACTTGCAACAAAAAATAATAATTCG
1 AGGATAATATTACTTGCAACAAAAAATAATAATTCG
87944601 AGGATAATATTACTTGCAACAAAAAATAATAATTC
1 AGGATAATATTACTTGCAACAAAAAATAATAATTC
87944636 CAACATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (36 bp):
AGGATAATATTACTTGCAACAAAAAATAATAATTCG
Found at i:87947537 original size:23 final size:23
Alignment explanation
Indices: 87947511--87947556 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
87947501 TCTCGACAAG
87947511 TGTTCATGTACAAAAATCTACTA
1 TGTTCATGTACAAAAATCTACTA
* *
87947534 TGTTCATGTACAAACATTTACTA
1 TGTTCATGTACAAAAATCTACTA
87947557 ATCTATCATT
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:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (23 bp):
TGTTCATGTACAAAAATCTACTA
Found at i:87948487 original size:30 final size:30
Alignment explanation
Indices: 87948430--87948487 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
87948420 TTTTTGAATA
* **
87948430 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
87948460 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
87948488 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:87956144 original size:30 final size:30
Alignment explanation
Indices: 87956087--87956144 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
87956077 TTTTTGAATA
* **
87956087 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
87956117 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
87956145 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:87956547 original size:47 final size:49
Alignment explanation
Indices: 87956487--87956755 Score: 254
Period size: 47 Copynumber: 5.7 Consensus size: 49
87956477 TGTGTGAGTT
87956487 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTC-ATTAGGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTAGGAGAGCC
* * * * * * * *
87956533 AGTGTAAGACCATGTTTGGGACATAGCATCGGCATTGA-GACGAGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTAGGAGAGCC
* * *
87956581 AGTGTAAGA-CATGTCTGGGACAT-GCTTCGGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTA-GGAGAGCC
* * ** * *
87956627 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCAATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTAGGAGAGCC
* * **
87956676 AGTGTAAGACCATATCTGGGACATGGCAT-TGATTCGA-T-GGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTAGGA-GAGCC
87956723 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
87956756 ATTATACCCT
Statistics
Matches: 179, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
46 34 0.19
47 73 0.41
48 41 0.23
49 31 0.17
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTAGGAGAGCC
Found at i:87959707 original size:12 final size:12
Alignment explanation
Indices: 87959684--87959717 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
87959674 TATATATTTT
87959684 AAAATT-ATATA
1 AAAATTAATATA
87959695 AAAATTAATATA
1 AAAATTAATATA
87959707 AAAATTAATAT
1 AAAATTAATAT
87959718 GGGCAGGCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:87963050 original size:22 final size:21
Alignment explanation
Indices: 87963016--87963058 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
87963006 CAAAAATTAC
*
87963016 AAAAAAATTTAAAATATTTAT
1 AAAAAAATCTAAAATATTTAT
*
87963037 AAAAAGAATCTAAAATTTTTAT
1 AAAAA-AATCTAAAATATTTAT
87963059 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAAAAATCTAAAATATTTAT
Found at i:87963077 original size:18 final size:18
Alignment explanation
Indices: 87963048--87963087 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
87963038 AAAAGAATCT
87963048 AAAATTTTTA-TTTTTAA
1 AAAATTTTTATTTTTTAA
87963065 AAAATTATTTATTTTTTAA
1 AAAATT-TTTATTTTTTAA
87963084 AAAA
1 AAAA
87963088 CCTAAAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 4 0.19
19 11 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AAAATTTTTATTTTTTAA
Found at i:87971421 original size:46 final size:49
Alignment explanation
Indices: 87971315--87971436 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 49
87971305 TGTCTTCGAC
** * * *
87971315 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATCTAAT
* *
87971365 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATAT-T-TGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
*
87971411 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
87971437 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 6 0.10
50 29 0.46
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATCTAAT
Found at i:87978672 original size:23 final size:22
Alignment explanation
Indices: 87978620--87978672 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
87978610 TCCACGTCTT
*
87978620 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
87978642 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
87978665 TTTCTTTT
1 TTTCTTTT
87978673 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:87978697 original size:27 final size:27
Alignment explanation
Indices: 87978667--87978718 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
87978657 TTCTTCAATT
87978667 TCTTTTTCACTCTCAATCTCTTTTTGC
1 TCTTTTTCACTCTCAATCTCTTTTTGC
* **
87978694 TCTTTTTCATTCTCTTTCTCTTTTT
1 TCTTTTTCACTCTCAATCTCTTTTT
87978719 CCTCACTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.08, C:0.27, G:0.02, T:0.63
Consensus pattern (27 bp):
TCTTTTTCACTCTCAATCTCTTTTTGC
Found at i:87981549 original size:19 final size:19
Alignment explanation
Indices: 87981525--87981567 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
87981515 GCATTGTTTT
87981525 TAAAAAAATA-TTTTTAAGA
1 TAAAAAAATATTTTTTAA-A
87981544 T-AAAAAATATTTTTTAAA
1 TAAAAAAATATTTTTTAAA
87981562 TAAAAA
1 TAAAAA
87981568 TATTATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAAAAAATATTTTTTAAA
Found at i:87981550 original size:18 final size:17
Alignment explanation
Indices: 87981527--87981580 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 17
87981517 ATTGTTTTTA
87981527 AAAAAATATTTTTAAGAT
1 AAAAAATATTTTTAA-AT
87981545 AAAAAATATTTTTTAAAT
1 AAAAAATA-TTTTTAAAT
*
87981563 -AAAAATATTATTAAAT
1 AAAAAATATTTTTAAAT
87981579 AA
1 AA
87981581 GATGCATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
16 8 0.24
17 8 0.24
18 10 0.30
19 7 0.21
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAAAATATTTTTAAAT
Found at i:87981566 original size:16 final size:16
Alignment explanation
Indices: 87981521--87981580 Score: 54
Period size: 16 Copynumber: 3.7 Consensus size: 16
87981511 TTTAGCATTG
87981521 TTTTTAAA-AAAATA-
1 TTTTTAAATAAAATAT
87981535 TTTTTAAGATAAAAAATAT
1 TTTTTAA-AT--AAAATAT
87981554 TTTTTAAATAAAA-AT
1 TTTTTAAATAAAATAT
*
87981569 ATTATTAAATAA
1 -TTTTTAAATAA
87981581 GATGCATTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 7 0.18
15 3 0.08
16 14 0.36
18 8 0.21
19 7 0.18
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
TTTTTAAATAAAATAT
Found at i:87981566 original size:17 final size:16
Alignment explanation
Indices: 87981528--87981580 Score: 70
Period size: 16 Copynumber: 3.1 Consensus size: 16
87981518 TTGTTTTTAA
87981528 AAAAATATTTTTAAGAT
1 AAAAATATTTTTAA-AT
87981545 AAAAAATATTTTTTAAAT
1 -AAAAATA-TTTTTAAAT
*
87981563 AAAAATATTATTAAAT
1 AAAAATATTTTTAAAT
87981579 AA
1 AA
87981581 GATGCATTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 10 0.30
17 7 0.21
18 9 0.27
19 7 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
AAAAATATTTTTAAAT
Found at i:87982802 original size:20 final size:20
Alignment explanation
Indices: 87982773--87982812 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
87982763 AGATTGTTCT
87982773 AAAAAGATAA-AATAGAGAGA
1 AAAAAGATAACAA-AGAGAGA
*
87982793 AAAAATATAACAAAGAGAGA
1 AAAAAGATAACAAAGAGAGA
87982813 TAAACAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.70, C:0.03, G:0.17, T:0.10
Consensus pattern (20 bp):
AAAAAGATAACAAAGAGAGA
Found at i:87984213 original size:13 final size:13
Alignment explanation
Indices: 87984195--87984222 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
87984185 GTGTGCCACA
87984195 ATATAACCGTTTC
1 ATATAACCGTTTC
87984208 ATATAACCGTTTC
1 ATATAACCGTTTC
87984221 AT
1 AT
87984223 TTCATAGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (13 bp):
ATATAACCGTTTC
Found at i:87990503 original size:1 final size:1
Alignment explanation
Indices: 87990492--87990599 Score: 63
Period size: 1 Copynumber: 108.0 Consensus size: 1
87990482 TATGATTAAA
* * * * * * * * * *
87990492 TTTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
87990557 TATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
87990600 ATTAAATTAT
Statistics
Matches: 73, Mismatches: 34, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 73 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (1 bp):
T
Found at i:87990504 original size:6 final size:6
Alignment explanation
Indices: 87990493--87990602 Score: 220
Period size: 6 Copynumber: 18.3 Consensus size: 6
87990483 ATGATTAAAT
87990493 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
87990541 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
87990589 TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TT
87990603 AAATTATATT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 104 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:87990808 original size:16 final size:16
Alignment explanation
Indices: 87990787--87990837 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
87990777 TGAATTACTG
87990787 ATTACAGTCCTATTCC
1 ATTACAGTCCTATTCC
87990803 ATTACAG-CTCTATTCC
1 ATTACAGTC-CTATTCC
*
87990819 ATTACAGTCTTATTCC
1 ATTACAGTCCTATTCC
87990835 ATT
1 ATT
87990838 CAAGTGAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 1 0.03
16 30 0.94
17 1 0.03
ACGTcount: A:0.25, C:0.27, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTACAGTCCTATTCC
Found at i:87992741 original size:3 final size:3
Alignment explanation
Indices: 87992733--87992783 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
87992723 CTTTTAATTA
* * *
87992733 ATT ATT ATT ATT ATT ATT GTT TTT GTAT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
87992779 -TT ATT
1 ATT ATT
87992784 CTTTCTTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 38 0.90
4 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:87993513 original size:39 final size:39
Alignment explanation
Indices: 87993459--87993535 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
87993449 CTGTGTTTAC
*
87993459 TTGCGATTAGTGTAAAAACAATAGTGGCGATGAGATTAT
1 TTGCGATTAGTGTAAAAACAATAATGGCGATGAGATTAT
* *
87993498 TTGCGATTAGTGTAAAAACAATAATGGTGGTGAGATTA
1 TTGCGATTAGTGTAAAAACAATAATGGCGATGAGATTA
87993536 GATACTGTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (39 bp):
TTGCGATTAGTGTAAAAACAATAATGGCGATGAGATTAT
Found at i:87997711 original size:41 final size:41
Alignment explanation
Indices: 87997654--87997732 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
87997644 AGTATCTGAA
87997654 AGTTGTATTTATAGCCCCACCAGCGCCATCTATTTATAGGG
1 AGTTGTATTTATAGCCCCACCAGCGCCATCTATTTATAGGG
* *
87997695 AGTTGTATTTATAGCCCCACCATCGCCATCTTTTTATA
1 AGTTGTATTTATAGCCCCACCAGCGCCATCTATTTATA
87997733 TGGAAAGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.35
Consensus pattern (41 bp):
AGTTGTATTTATAGCCCCACCAGCGCCATCTATTTATAGGG
Found at i:87998009 original size:16 final size:16
Alignment explanation
Indices: 87997988--87998018 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87997978 TCAATTAATC
*
87997988 TAATTAACCTAAAAAT
1 TAATTAAACTAAAAAT
87998004 TAATTAAACTAAAAA
1 TAATTAAACTAAAAA
87998019 CCATCCAATT
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:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATTAAACTAAAAAT
Found at i:87999706 original size:57 final size:57
Alignment explanation
Indices: 87999592--87999704 Score: 156
Period size: 57 Copynumber: 2.0 Consensus size: 57
87999582 TTTTCAAGTT
*
87999592 ATTTTCATTTCGGAGAAAACCACATTCATTTACAAATGATTTTATTTCTCCATTTTC
1 ATTTTCATTTCGGAGAAAACCACAATCATTTACAAATGATTTTATTTCTCCATTTTC
* ** *
87999649 ATTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATG-TTTACTATTTCTCCATTT
1 ATTTTCATTTCGGAGAAAACCACAATCATTTACAAATGATTT--TATTTCTCCATTT
87999705 CACCATTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 3 0.06
57 33 0.67
58 13 0.27
ACGTcount: A:0.29, C:0.19, G:0.07, T:0.45
Consensus pattern (57 bp):
ATTTTCATTTCGGAGAAAACCACAATCATTTACAAATGATTTTATTTCTCCATTTTC
Found at i:88008992 original size:27 final size:27
Alignment explanation
Indices: 88008962--88009032 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
88008952 GACTGCTTTT
* *
88008962 CCCTTAT-GTGATAAAATGGCCGAAGTA
1 CCCTTATAG-GATAAAATGACCGAAATA
*
88008989 CCCTTATAGGGTAAAATGACCGAAATA
1 CCCTTATAGGATAAAATGACCGAAATA
*
88009016 CCCCTATAAGG-TAAAAT
1 CCCTTAT-AGGATAAAAT
88009033 AACTGTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 34 0.89
28 4 0.11
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
CCCTTATAGGATAAAATGACCGAAATA
Found at i:88009042 original size:27 final size:27
Alignment explanation
Indices: 88008981--88009052 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
88008971 GATAAAATGG
* * * *
88008981 CCGAAGTACCCTTATAGGGTAAAATGA
1 CCGAAATACCCCTATAAGGTAAAATAA
88009008 CCGAAATACCCCTATAAGGTAAAATAA
1 CCGAAATACCCCTATAAGGTAAAATAA
* * *
88009035 CTGTAATACCCCTGTAAG
1 CCGAAATACCCCTATAAG
88009053 ATAACTGACT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (27 bp):
CCGAAATACCCCTATAAGGTAAAATAA
Found at i:88009761 original size:35 final size:35
Alignment explanation
Indices: 88009709--88009776 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
88009699 GCTGTGAGGT
88009709 ACTCAAAGGTAGCCACACAACCGCCCTTGCTTCGG
1 ACTCAAAGGTAGCCACACAACCGCCCTTGCTTCGG
* * * *
88009744 ACTCAAAGGTGGTCACACAACTGCTCTTGCTTC
1 ACTCAAAGGTAGCCACACAACCGCCCTTGCTTC
88009777 CTTATTGGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (35 bp):
ACTCAAAGGTAGCCACACAACCGCCCTTGCTTCGG
Found at i:88012850 original size:6 final size:6
Alignment explanation
Indices: 88012842--88012882 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
88012832 ACAAATGAAT
*
88012842 CATTTT CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
88012883 TGAGAAACCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
CATTTC
Found at i:88017434 original size:25 final size:25
Alignment explanation
Indices: 88017370--88017434 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
88017360 TAATAAATGG
*
88017370 ATAAATAAATAATATGATAACAATA
1 ATAAATAAATAAAATGATAACAATA
* * *
88017395 ATAAAGGAAAGAAAATGATGA-AATA
1 ATAAA-TAAATAAAATGATAACAATA
88017420 ATAAATAAAATAAAA
1 ATAAAT-AAATAAAA
88017435 CAGAATAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
25 21 0.66
26 11 0.34
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.22
Consensus pattern (25 bp):
ATAAATAAATAAAATGATAACAATA
Found at i:88026279 original size:79 final size:82
Alignment explanation
Indices: 88026168--88026352 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
88026158 GCTACTCGTT
* *
88026168 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
88026231 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
88026248 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
88026311 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
88026328 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88026353 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:88026352 original size:40 final size:40
Alignment explanation
Indices: 88026149--88026352 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
88026139 CGGAATTTAA
** *
88026149 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
88026189 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
88026229 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
88026268 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
88026308 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
88026348 CCGGA
1 CCGGA
88026353 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:88034105 original size:56 final size:56
Alignment explanation
Indices: 88034038--88034269 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
88034028 TATTAGTTTA
* *
88034038 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
88034094 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
88034150 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
88034206 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
88034262 TTGCCCAT
1 TTGCCCAT
88034270 CATCCCTTGT
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:88045984 original size:44 final size:43
Alignment explanation
Indices: 88045851--88045996 Score: 168
Period size: 44 Copynumber: 3.4 Consensus size: 43
88045841 GCCAACTCCT
* * * * *
88045851 AGACGTGGTCTTACATGTAATCAAATATTGATTCCACTGTCCC
1 AGACATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCC
* * * * *
88045894 ATATAAGGTCTTACACGAAATCAAATA-CGATGCCAATGTCCT
1 AGACATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCC
* *
88045936 AGACATGGTCTTACACGTAATCTCAATATCGATGCCAATTTCCC
1 AGACATGGTCTTACACGTAATC-AAATATCGATGCCAATGTCCC
88045980 AGACATGGTCTTACACG
1 AGACATGGTCTTACACG
88045997 AAAACATATA
Statistics
Matches: 84, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 29 0.35
43 25 0.30
44 30 0.36
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
AGACATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCC
Found at i:88045999 original size:86 final size:84
Alignment explanation
Indices: 88045839--88045999 Score: 205
Period size: 86 Copynumber: 1.9 Consensus size: 84
88045829 AGCTCCTACA
* * * * * * *
88045839 ATGCCAACTCCTAGACGTGGTCTTACATGTAATCAAATATTGATTCCACTGTCCCATATAAGGTC
1 ATGCCAACTCCTAGACATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGACAAGGTC
88045904 TTACACGAAATCAAATACG
66 TTACACGAAATCAAATACG
* * * *
88045923 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCAATATCGATGCCAATTTCCCAGACATGG
1 ATGCCAA-CTCCTAGACATGGTCTTACACGTAATC-AAATATCGATGCCAATGTCCCAGACAAGG
88045988 TCTTACACGAAA
64 TCTTACACGAAA
88046000 ACATATATTG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
84 7 0.11
85 24 0.38
86 33 0.52
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (84 bp):
ATGCCAACTCCTAGACATGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAGACAAGGTC
TTACACGAAATCAAATACG
Found at i:88048378 original size:24 final size:23
Alignment explanation
Indices: 88048299--88048379 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
88048289 GTCGATAACG
*
88048299 AAGAGGAAAAAGAAAAGAGA-GAA
1 AAGAGGAAAAAGAAAA-AAATGAA
**
88048322 TAAGAATAAAAATGAAAAAAATAAGAA
1 -AAGAGGAAAAA-GAAAAAAAT--GAA
88048349 AA-AGGAAAAAGAAAGAAAATGAA
1 AAGAGGAAAAAGAAA-AAAATGAA
88048372 AAGAGGAA
1 AAGAGGAA
88048380 GAAAAGAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
23 5 0.11
24 20 0.43
25 16 0.35
26 2 0.04
27 3 0.07
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (23 bp):
AAGAGGAAAAAGAAAAAAATGAA
Found at i:88048381 original size:17 final size:16
Alignment explanation
Indices: 88048307--88048385 Score: 52
Period size: 17 Copynumber: 4.6 Consensus size: 16
88048297 CGAAGAGGAA
88048307 AAAGAAAAGAGAGAATAAG
1 AAAGAAAAG-GA-AA-AAG
* *
88048326 AATA-AAAATGAAAAAA
1 AA-AGAAAAGGAAAAAG
88048342 ATAAGAAAAAGGAAAAAG
1 A-AAG-AAAAGGAAAAAG
*
88048360 AAAGAAAATGAAAAGAG
1 AAAGAAAAGGAAAA-AG
*
88048377 GAAGAAAAG
1 AAAGAAAAG
88048386 AAGAACATCT
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
16 13 0.27
17 15 0.31
18 13 0.27
19 6 0.12
20 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAGGAAAAAG
Found at i:88048382 original size:34 final size:36
Alignment explanation
Indices: 88048308--88048390 Score: 93
Period size: 34 Copynumber: 2.4 Consensus size: 36
88048298 GAAGAGGAAA
* *
88048308 AAGAAAAGAGAGAATAAGAATAAAAATGAAAAAAAT
1 AAGAAAAGAGAGAAAAAGAATAAAAATGAAAAAAAG
* *
88048344 AAGAAAA-AG-GAAAAAGAA-AGAAAATGAAAAGAGG
1 AAGAAAAGAGAGAAAAAGAATA-AAAATGAAAAAAAG
88048378 AAGAAAAGA-AGAA
1 AAGAAAAGAGAGAA
88048391 CATCTAATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
33 1 0.03
34 26 0.65
35 6 0.15
36 7 0.17
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (36 bp):
AAGAAAAGAGAGAAAAAGAATAAAAATGAAAAAAAG
Found at i:88058138 original size:20 final size:20
Alignment explanation
Indices: 88058072--88058138 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
88058062 ATTTTAGTAA
*
88058072 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
88058092 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
88058112 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
88058132 ACATGAT
1 ACATGAT
88058139 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:88058217 original size:25 final size:25
Alignment explanation
Indices: 88058189--88058591 Score: 708
Period size: 25 Copynumber: 16.2 Consensus size: 25
88058179 AGGAAGTGTA
88058189 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88058214 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88058239 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88058264 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88058289 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88058314 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88058339 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88058364 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88058389 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88058414 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88058439 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88058464 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88058489 AAAGGGCTTATGCCCCAGTTATGA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
88058513 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
88058537 AAAGGGCTT-TGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
88058560 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
88058588 AAAG
1 AAAG
88058592 CAGCTATGCT
Statistics
Matches: 369, Mismatches: 3, Indels: 9
0.97 0.01 0.02
Matches are distributed among these distances:
23 19 0.05
24 38 0.10
25 303 0.82
26 1 0.00
27 4 0.01
28 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:88058811 original size:31 final size:31
Alignment explanation
Indices: 88058776--88058838 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
88058766 CGTTTACAGT
*
88058776 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
88058807 AAAGGCTTCAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
88058838 A
1 A
88058839 GTGTGAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:88066531 original size:20 final size:20
Alignment explanation
Indices: 88066465--88066531 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
88066455 ATTTTAGTAA
* *
88066465 ACATGGTATATATGATATGC
1 ACATGATATGTATGATATGC
* *
88066485 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
88066505 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
88066525 ACATGAT
1 ACATGAT
88066532 GTATTCATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:88066610 original size:25 final size:25
Alignment explanation
Indices: 88066582--88066983 Score: 699
Period size: 25 Copynumber: 16.2 Consensus size: 25
88066572 AGGAAGTGTA
88066582 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88066607 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88066632 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88066657 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88066682 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88066707 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88066732 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88066757 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88066782 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88066807 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88066832 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
88066857 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
88066882 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
88066906 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
88066930 AAAGGGCTT-TGCCCCAGTTAT--T
1 AAAGGGCTTATGCCCCAGTTATGAT
*
88066952 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
88066980 AAAG
1 AAAG
88066984 CAGCTATGCT
Statistics
Matches: 367, Mismatches: 2, Indels: 13
0.96 0.01 0.03
Matches are distributed among these distances:
22 5 0.01
23 18 0.05
24 37 0.10
25 299 0.81
26 3 0.01
28 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:88067203 original size:31 final size:31
Alignment explanation
Indices: 88067168--88067230 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
88067158 CATTTACAGT
88067168 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
88067199 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
88067230 A
1 A
88067231 GTGTGAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:88083367 original size:96 final size:96
Alignment explanation
Indices: 88083203--88083585 Score: 721
Period size: 96 Copynumber: 4.0 Consensus size: 96
88083193 GGGGGATGGC
* * * * *
88083203 AAACACACCACAATAGAATATGTTCGGTTATTTGTGGTAGACCATCTAATGGCCAATAATACGCC
1 AAACACACTACAATAGAATATGTTCGGCTATTTTTGGTAGACCATCCAATGGCCTATAATACGCC
88083268 CTAACATGAGAATGGCTAAGATAATGATCGT
66 CTAACATGAGAATGGCTAAGATAATGATCGT
88083299 AAACACACTACAATAGAATATGTTCGGCTATTTTTGGTAGACCATCCAATGGCCTATAATACGCC
1 AAACACACTACAATAGAATATGTTCGGCTATTTTTGGTAGACCATCCAATGGCCTATAATACGCC
88083364 CTAACATGAGAATGGCTAAGATAATGATCGT
66 CTAACATGAGAATGGCTAAGATAATGATCGT
88083395 AAACACACTACAATAGAATATGTTCGGCTATTTTTGGTAGACCATCCAATGGCCTATAATACGCC
1 AAACACACTACAATAGAATATGTTCGGCTATTTTTGGTAGACCATCCAATGGCCTATAATACGCC
88083460 CTAACATGAGAATGGCTAAGATAATGATCGT
66 CTAACATGAGAATGGCTAAGATAATGATCGT
88083491 AAACACACTACAATAGAATATGTTCGGCTATTTTTGGTAGACCATCCAATGGCCTATAATACGCC
1 AAACACACTACAATAGAATATGTTCGGCTATTTTTGGTAGACCATCCAATGGCCTATAATACGCC
88083556 CTAACATGAGAATGGCTAAGATAATGATCG
66 CTAACATGAGAATGGCTAAGATAATGATCG
88083586 CAACTTTTGT
Statistics
Matches: 282, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 282 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (96 bp):
AAACACACTACAATAGAATATGTTCGGCTATTTTTGGTAGACCATCCAATGGCCTATAATACGCC
CTAACATGAGAATGGCTAAGATAATGATCGT
Found at i:88098885 original size:41 final size:45
Alignment explanation
Indices: 88098785--88098904 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 45
88098775 TGTGTTCTCA
* * * * *
88098785 TGTAAGACCTTATCTGGGACGTTGGCATCGATATATGTGGTTATG
1 TGTAAGACCTTGTCTGGGACATTGACATCGATATATGTGATTACG
88098830 TGTAAGA-CTATGTCTGGGACATTGACATCG-TAT-T-TGATT-CG
1 TGTAAGACCT-TGTCTGGGACATTGACATCGATATATGTGATTACG
* *
88098871 TGTAAGACCTTGTCTGGGACAGTGCCATCGATAT
1 TGTAAGACCTTGTCTGGGACATTGACATCGATAT
88098905 GAGATAGCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
41 26 0.40
42 9 0.14
43 1 0.02
44 5 0.08
45 24 0.37
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (45 bp):
TGTAAGACCTTGTCTGGGACATTGACATCGATATATGTGATTACG
Found at i:88100196 original size:20 final size:19
Alignment explanation
Indices: 88100162--88100200 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
88100152 AATATTTTGA
88100162 TATGATATTTATGTATATGT
1 TATGATATTTATGTA-ATGT
88100182 TATGATATATT-TGTAATGT
1 TATGATAT-TTATGTAATGT
88100201 ATTTGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 12 0.67
21 2 0.11
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (19 bp):
TATGATATTTATGTAATGT
Found at i:88102576 original size:27 final size:26
Alignment explanation
Indices: 88102534--88102662 Score: 159
Period size: 27 Copynumber: 4.8 Consensus size: 26
88102524 CCCCAAAATT
** *
88102534 GGTAAAATGACTGTAATGCCTTTGTAG
1 GGTAAAATGAC-GTAATGCCCCTATAG
*
88102561 GGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGA-CGTAATGCCCCTATAG
*
88102588 GGTAAAATGACTGTAATACCCCTATAG
1 GGTAAAATGAC-GTAATGCCCCTATAG
*
88102615 GGTAAAATGACCGTAATGTCCCTATAG
1 GGTAAAATGA-CGTAATGCCCCTATAG
88102642 GGTAAAATGACCGTAATGCCC
1 GGTAAAATGA-CGTAATGCCC
88102663 TTATGTTTCG
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
26 1 0.01
27 89 0.97
28 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (26 bp):
GGTAAAATGACGTAATGCCCCTATAG
Found at i:88102594 original size:54 final size:54
Alignment explanation
Indices: 88102534--88102662 Score: 186
Period size: 54 Copynumber: 2.4 Consensus size: 54
88102524 CCCCAAAATT
** * * *
88102534 GGTAAAATGACTGTAATGCCTTTGTAGGGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGACTGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTATAG
* *
88102588 GGTAAAATGACTGTAATACCCCTATAGGGTAAAATGACCGTAATGTCCCTATAG
1 GGTAAAATGACTGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTATAG
*
88102642 GGTAAAATGACCGTAATGCCC
1 GGTAAAATGACTGTAATGCCC
88102663 TTATGTTTCG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (54 bp):
GGTAAAATGACTGTAATGCCCCTATAGGGTAAAATGACCGTAATGCCCCTATAG
Found at i:88105070 original size:55 final size:55
Alignment explanation
Indices: 88104981--88105092 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
88104971 AGCTTACTTA
*
88104981 AAGCTACTTATAATATTCATGTCATTAACCAAATATAGATATATACCCACAACAC
1 AAGCTACTTATAATATTCATGTCATTAACCAAATATAGATATATACCCAAAACAC
* *
88105036 AAGCTATTTATAATATTCATGTCATTAACTAAATATAGATATATACCCAAAACAC
1 AAGCTACTTATAATATTCATGTCATTAACCAAATATAGATATATACCCAAAACAC
88105091 AA
1 AA
88105093 ATCTTACACA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (55 bp):
AAGCTACTTATAATATTCATGTCATTAACCAAATATAGATATATACCCAAAACAC
Found at i:88106281 original size:56 final size:56
Alignment explanation
Indices: 88106221--88106355 Score: 193
Period size: 54 Copynumber: 2.4 Consensus size: 56
88106211 TCCCAGATAG
* *
88106221 GGTCTTACTCGCACACATATATCGAAACCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAACCACATACCGATGCCAACGTATTAAACGT
* * * *
88106277 GGTCTTACTTG--CACATATATCAAAATCACATACCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACATATATCGAAACCACATACCGATGCCAACGTATTAAACGT
*
88106331 AGTCTTACTCGCACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
88106356 TGCCATGGTC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
54 47 0.69
56 21 0.31
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAACCACATACCGATGCCAACGTATTAAACGT
Found at i:88119600 original size:27 final size:27
Alignment explanation
Indices: 88119560--88119695 Score: 175
Period size: 27 Copynumber: 5.1 Consensus size: 27
88119550 ATGCCTGGAC
* *
88119560 CCCTTAT-TGGTAAAATGACTATTTTT
1 CCCTTATGTGGTAAAATGACTGTTTTG
* *
88119586 CCCTTATGTGGTAAAATGACTATTTTT
1 CCCTTATGTGGTAAAATGACTGTTTTG
* *
88119613 CCCTTATGTGGTGAAATGATTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
* *
88119640 CCCTTATGTGGTAAGATGATTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
* *
88119667 CCCTTATATGGTAAGATGACTGTTTTG
1 CCCTTATGTGGTAAAATGACTGTTTTG
88119694 CC
1 CC
88119696 TATGTGATGT
Statistics
Matches: 101, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
26 7 0.07
27 94 0.93
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (27 bp):
CCCTTATGTGGTAAAATGACTGTTTTG
Found at i:88123314 original size:68 final size:65
Alignment explanation
Indices: 88123100--88123321 Score: 227
Period size: 64 Copynumber: 3.4 Consensus size: 65
88123090 CATAATTTTG
** * *
88123100 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCCA-CTTTA-TCTCGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTCTATTCTCGTA
** * * * * * *
88123163 GCTCTCTTGTTTACATGGTGTCCTTCACCTAGAACCACACATGCAACCTAGCTACGTCTA-TCTC
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCAACCTAGCTACCTCTATTCTC
*
88123227 ATA
63 GTA
88123230 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTCATAATGTCT
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTC-T-AT-TCT
88123294 CGTA
62 CGTA
*
88123298 GCTCTCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
88123322 TCCCGTATTA
Statistics
Matches: 127, Mismatches: 22, Indels: 15
0.77 0.13 0.09
Matches are distributed among these distances:
63 18 0.14
64 29 0.23
65 1 0.01
66 24 0.19
67 27 0.21
68 27 0.21
69 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCAACCTAGCTACCTCTATTCTCGTA
Found at i:88126397 original size:54 final size:54
Alignment explanation
Indices: 88126315--88126427 Score: 210
Period size: 54 Copynumber: 2.1 Consensus size: 54
88126305 ACAAAGTTAG
*
88126315 GAAAAGCCGAAGTCCCTAAAATCTAGGGAGGCTGTCGATTTGGGCATGTGGCTC
1 GAAAAGCCGAAGTCCCTAAAATCTAGGGAGGCCGTCGATTTGGGCATGTGGCTC
88126369 GAAAAGCCGAAGTCCCTAAAATCTAGGGAGGCCGTCGATTTGGGCATGTGGCTC
1 GAAAAGCCGAAGTCCCTAAAATCTAGGGAGGCCGTCGATTTGGGCATGTGGCTC
88126423 -AAAAG
1 GAAAAG
88126428 GTTTTTAACT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
53 5 0.09
54 53 0.91
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.20
Consensus pattern (54 bp):
GAAAAGCCGAAGTCCCTAAAATCTAGGGAGGCCGTCGATTTGGGCATGTGGCTC
Found at i:88138064 original size:39 final size:40
Alignment explanation
Indices: 88137967--88138147 Score: 192
Period size: 40 Copynumber: 4.5 Consensus size: 40
88137957 ATGATGTCCA
* * *
88137967 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCCG
* *
88138007 GACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
* *
88138047 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
* * *
88138086 GGTTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCG
*
88138126 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
88138148 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 74 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCG
Found at i:88138169 original size:79 final size:79
Alignment explanation
Indices: 88138016--88138170 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
88138006 GGACTAAGAT
* * ** *
88138016 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
88138081 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
88138095 CCGAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-C
*
88138158 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
88138171 ATTCCGAAAG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.59
80 24 0.38
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
ATCCGGGTTAAGTC
Found at i:88139752 original size:14 final size:15
Alignment explanation
Indices: 88139730--88139763 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
88139720 AGACCCCATC
88139730 CATCACTCACTCA-T
1 CATCACTCACTCATT
*
88139744 CATCCCTCACTCATT
1 CATCACTCACTCATT
88139759 CATCA
1 CATCA
88139764 TTCTCTCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.26, C:0.44, G:0.00, T:0.29
Consensus pattern (15 bp):
CATCACTCACTCATT
Found at i:88139753 original size:18 final size:18
Alignment explanation
Indices: 88139726--88139764 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
88139716 AATAAGACCC
88139726 CATCCATCACTCACTCAT
1 CATCCATCACTCACTCAT
* *
88139744 CATCCCTCACTCATTCAT
1 CATCCATCACTCACTCAT
88139762 CAT
1 CAT
88139765 TCTCTCCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.44, G:0.00, T:0.31
Consensus pattern (18 bp):
CATCCATCACTCACTCAT
Found at i:88143134 original size:19 final size:19
Alignment explanation
Indices: 88143100--88143145 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
88143090 AGTTGATAAA
88143100 TTTATT-TTTCCTGCTGAT
1 TTTATTATTTCCTGCTGAT
*
88143118 TTTATTATTTTCTGCTGAT
1 TTTATTATTTCCTGCTGAT
88143137 TTTATTATT
1 TTTATTATT
88143146 CTAGATTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 6 0.23
19 20 0.77
ACGTcount: A:0.15, C:0.11, G:0.09, T:0.65
Consensus pattern (19 bp):
TTTATTATTTCCTGCTGAT
Found at i:88145803 original size:79 final size:81
Alignment explanation
Indices: 88145667--88145851 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
88145657 TTGAATGATG
*
88145667 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
88145731 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
88145746 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
88145808 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
88145826 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88145852 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:88145865 original size:40 final size:40
Alignment explanation
Indices: 88145668--88145851 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
88145658 TGAATGATGT
* * * *
88145668 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
88145708 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
88145748 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
88145786 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
88145827 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
88145852 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Done.