Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 313 of 333
Found at i:102461618 original size:20 final size:20
Alignment explanation
Indices: 102461568--102461639 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
102461558 AAATTTTAAC
*
102461568 TTTTTATATATTTTTTTGAA-
1 TTTTTATA-ATTATTTTGAAT
* * *
102461588 ATTTAAAAATTATTTTGAAT
1 TTTTTATAATTATTTTGAAT
102461608 TTTTTATAATTATTTTGAAT
1 TTTTTATAATTATTTTGAAT
*
102461628 TATTTTGTAATT
1 T-TTTTATAATT
102461640 TTTGTTGAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 10 0.24
20 23 0.55
21 9 0.21
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
TTTTTATAATTATTTTGAAT
Found at i:102475651 original size:33 final size:33
Alignment explanation
Indices: 102475582--102475679 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
102475572 CTATACCCAT
* * *
102475582 CTATGCCGAATGCATAGATACATACACTTATTTTCAC
1 CTATGCCGAATGCAT--ACACATA-A-ATATATTCAC
102475619 CTATGCCGAATGCATACACATAAATATATTCAC
1 CTATGCCGAATGCATACACATAAATATATTCAC
* *
102475652 CTATGCCGAATGCA-ACATATATATATAT
1 CTATGCCGAATGCATACACATAAATATAT
102475680 ATACATATCT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 22 0.39
34 1 0.02
35 6 0.11
37 15 0.27
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (33 bp):
CTATGCCGAATGCATACACATAAATATATTCAC
Found at i:102475941 original size:41 final size:41
Alignment explanation
Indices: 102475896--102476051 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
102475886 ACCGGCTCTT
*
102475896 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
102475937 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
102475978 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
102476019 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
102476052 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:102478411 original size:46 final size:46
Alignment explanation
Indices: 102478353--102478486 Score: 189
Period size: 46 Copynumber: 2.9 Consensus size: 46
102478343 ATATTTTGTA
* *
102478353 GCCGATGCATGTCCTAGACATGTCTTACACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCT-CATCTCAAG
* * *
102478399 GTCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATCTCAAG
102478445 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCAT
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTCAT
102478487 AATGTGGCCG
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 45 0.58
47 15 0.19
48 18 0.23
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATCTCAAG
Found at i:102478504 original size:94 final size:92
Alignment explanation
Indices: 102478353--102478525 Score: 224
Period size: 94 Copynumber: 1.9 Consensus size: 92
102478343 ATATTTTGTA
* * * * * *
102478353 GCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAGGTCGATGCATGTCCTAGAC
1 GCCGATGCATGTCCTAGACATGTCTTACACTAGCTTACATATCGAGGCCGATACATGTCCCAAAC
102478418 ATGTCTTACACTAGCTCTCGTCTCAAT
66 ATGTCTTACACTAGCTCTCGTCTCAAT
*
102478445 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCGATACATGTCCC
1 GCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCT-TACAT-ATCGAGGCCGATACATGTCCC
*
102478508 AAACATGTCTTACGCTAG
62 AAACATGTCTTACACTAG
102478526 TACACAAATG
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 7 0.10
93 14 0.20
94 46 0.67
95 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (92 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTAGCTTACATATCGAGGCCGATACATGTCCCAAAC
ATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:102487582 original size:46 final size:46
Alignment explanation
Indices: 102487522--102487635 Score: 201
Period size: 46 Copynumber: 2.5 Consensus size: 46
102487512 ATGCCATATA
*
102487522 TAATATGGACTTACATGGCTCAATCCTGTCTCCAAAGTCATATTTC
1 TAATATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTC
* *
102487568 TAATAAGGACTTACATGGCTCAATCCTGTCTCTAAAGCCATATTTC
1 TAATATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTC
102487614 TAATATGGACTTACATGGCTCA
1 TAATATGGACTTACATGGCTCA
102487636 TTTCTATTCT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (46 bp):
TAATATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTC
Found at i:102492780 original size:13 final size:13
Alignment explanation
Indices: 102492742--102492768 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
102492732 GCTCAGTAGG
102492742 GACACGTCCGTGT
1 GACACGTCCGTGT
102492755 GACACGTCCGTGT
1 GACACGTCCGTGT
102492768 G
1 G
102492769 TCACAGTCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACACGTCCGTGT
Found at i:102495160 original size:41 final size:41
Alignment explanation
Indices: 102494953--102495149 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
102494943 TTTATCGTTA
* * * *
102494953 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
102494994 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
102495035 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
102495076 GTGACACATTTCGGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
102495117 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
102495150 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 143 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:102495420 original size:33 final size:32
Alignment explanation
Indices: 102495364--102495427 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
102495354 ATAGATATGT
102495364 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
102495396 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
102495428 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:102495444 original size:33 final size:33
Alignment explanation
Indices: 102495371--102495444 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
102495361 TGTATATATA
* * **
102495371 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
102495403 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
102495436 TGTATGTAT
1 TATATGTAT
102495445 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:102501335 original size:18 final size:17
Alignment explanation
Indices: 102501312--102501345 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
102501302 AAGGTTATAA
*
102501312 TAATATTTATTATAAAGT
1 TAATATCTATTA-AAAGT
102501330 TAATATCTATTAAAAG
1 TAATATCTATTAAAAG
102501346 ACAAACAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
TAATATCTATTAAAAGT
Found at i:102512916 original size:26 final size:26
Alignment explanation
Indices: 102512886--102512935 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
102512876 ACCACTAATC
*
102512886 GGGGAATCAGCACTTAGCAACCCCTG
1 GGGGAATCAGCACATAGCAACCCCTG
102512912 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
102512936 CTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.26, T:0.12
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTG
Found at i:102513039 original size:103 final size:103
Alignment explanation
Indices: 102512854--102513115 Score: 413
Period size: 103 Copynumber: 2.6 Consensus size: 103
102512844 AACCGTTATT
* *
102512854 GGTGGATCTCGCACTTAGCACCACCACT-AATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
** *
102512918 TCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
102512955 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT-GGGGGA
102513020 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
102513059 GGTGGATA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
102513116 TTATTACAAC
Statistics
Matches: 148, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
101 26 0.18
102 28 0.19
103 74 0.50
104 20 0.14
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (103 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:102513469 original size:30 final size:29
Alignment explanation
Indices: 102513435--102513499 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
102513425 TAATCCACCA
102513435 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
102513465 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
102513495 CCCAA
1 CCCAA
102513500 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:102513473 original size:31 final size:30
Alignment explanation
Indices: 102513442--102513499 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
102513432 CCACCCAACT
102513442 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
102513472 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
102513500 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:102520448 original size:104 final size:105
Alignment explanation
Indices: 102520268--102520523 Score: 444
Period size: 104 Copynumber: 2.4 Consensus size: 105
102520258 TAACCGTTAT
* **
102520268 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
102520333 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
102520372 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
102520437 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
102520477 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCAC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCAC
102520524 ACAACAACCC
Statistics
Matches: 144, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
104 82 0.57
105 61 0.42
106 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:102520903 original size:30 final size:30
Alignment explanation
Indices: 102520869--102520926 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
102520859 CCACCCAACT
102520869 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
*** * *
102520899 TTTTGCGTAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
102520927 GCTCGGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:102526048 original size:20 final size:20
Alignment explanation
Indices: 102526025--102526076 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
102526015 CGGACAAGGG
102526025 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
*
102526045 ACACGGCCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
102526065 ACACGGGCGTGT
1 ACACGGGCGTGT
102526077 GGAATCCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.38, G:0.31, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:102530313 original size:46 final size:46
Alignment explanation
Indices: 102530261--102530437 Score: 291
Period size: 46 Copynumber: 3.8 Consensus size: 46
102530251 GCTCTCTGAA
** *
102530261 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
102530307 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** *
102530353 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
102530399 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
102530438 TCACGTCAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:102530743 original size:23 final size:25
Alignment explanation
Indices: 102530699--102530744 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
102530689 ATAAATATAC
*
102530699 ATAAAATATATGGAAATGATGAAGT
1 ATAAAATATATGGAAATAATGAAGT
*
102530724 ATAAAATAT-T-GATATAATGAA
1 ATAAAATATATGGAAATAATGAA
102530745 ATGAATGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.47
24 1 0.05
25 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.30
Consensus pattern (25 bp):
ATAAAATATATGGAAATAATGAAGT
Found at i:102531217 original size:5 final size:5
Alignment explanation
Indices: 102531207--102531234 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
102531197 TTGTGTGTTC
102531207 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
102531235 CACACCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:102532672 original size:15 final size:15
Alignment explanation
Indices: 102532652--102532682 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
102532642 TATTCAGTGT
*
102532652 GCAAATAAATTTCAA
1 GCAAATAAACTTCAA
102532667 GCAAATAAACTTCAA
1 GCAAATAAACTTCAA
102532682 G
1 G
102532683 GATACAATAA
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:0.52, C:0.16, G:0.10, T:0.23
Consensus pattern (15 bp):
GCAAATAAACTTCAA
Found at i:102534285 original size:46 final size:46
Alignment explanation
Indices: 102534220--102534493 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
102534210 TTATCTTTGA
* * * * *
102534220 CATGATGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
102534266 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * **
102534312 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
102534358 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
102534404 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
102534450 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
102534494 ATCAGAGAGC
Statistics
Matches: 206, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 202 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:102534382 original size:92 final size:92
Alignment explanation
Indices: 102534225--102534497 Score: 402
Period size: 92 Copynumber: 3.0 Consensus size: 92
102534215 TTTGACATGA
* * * * *
102534225 TGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
*
102534290 CATGGTCTTATTCATTTCATGTCACGC
66 CATGGTCTTATTCATTTCATATCACGC
* *
102534317 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
* *
102534382 CATGGTCTTATTTATTTCATATCACGT
66 CATGGTCTTATTCATTTCATATCACGC
* * * *
102534409 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
**
102534474 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTATTCATTTCATATCA
102534498 GAGAGCACAC
Statistics
Matches: 162, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 162 1.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCATTTCATATCACGC
Found at i:102540749 original size:30 final size:29
Alignment explanation
Indices: 102540705--102540779 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
102540695 ATATGTAAAA
*
102540705 TTATATATAAATTTTAATTTTGTATAATT
1 TTATATATAAATTTTAATTTGGTATAATT
* *
102540734 TTATATATGAAATTTTGATTTGGTTTAATT
1 TTATATAT-AAATTTTAATTTGGTATAATT
102540764 TTA-A-ATAAATTATTAA
1 TTATATATAAATT-TTAA
102540780 CACAATTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 5 0.12
28 5 0.12
29 9 0.22
30 21 0.52
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (29 bp):
TTATATATAAATTTTAATTTGGTATAATT
Found at i:102544194 original size:24 final size:25
Alignment explanation
Indices: 102544145--102544195 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
102544135 AAGTCTCCAT
* *
102544145 AACTTTAAAGGGTTCCATTATGGGG
1 AACTTCAAAGGGTTCCATTATAGGG
102544170 AACTTCAAAGGGTT-CATTATAGGG
1 AACTTCAAAGGGTTCCATTATAGGG
102544194 AA
1 AA
102544196 ATTACTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (25 bp):
AACTTCAAAGGGTTCCATTATAGGG
Found at i:102544547 original size:20 final size:21
Alignment explanation
Indices: 102544508--102544580 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 21
102544498 CAATATTACA
* *
102544508 AAAAATTATGATAGAA-TACC
1 AAAACTTATGAGAGAAGTACC
102544528 AAGAA-TTATGAGA-AAGTACC
1 AA-AACTTATGAGAGAAGTACC
* *
102544548 AAAAGTTAT-AAAGAAGTACC
1 AAAACTTATGAGAGAAGTACC
102544568 AAAACTTATGAGA
1 AAAACTTATGAGA
102544581 ATGAATCAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
19 6 0.14
20 34 0.77
21 4 0.09
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.22
Consensus pattern (21 bp):
AAAACTTATGAGAGAAGTACC
Found at i:102544912 original size:5 final size:5
Alignment explanation
Indices: 102544902--102544933 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
102544892 TTGTGTGTTC
102544902 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
102544934 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:102544916 original size:9 final size:9
Alignment explanation
Indices: 102544902--102544932 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
102544892 TTGTGTGTTC
102544902 TTTATTTTA
1 TTTATTTTA
102544911 TTTATTTTA
1 TTTATTTTA
102544920 TTTTATTTTA
1 -TTTATTTTA
102544930 TTT
1 TTT
102544933 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:102549538 original size:56 final size:57
Alignment explanation
Indices: 102549467--102549580 Score: 151
Period size: 56 Copynumber: 2.0 Consensus size: 57
102549457 AAAAGTTACG
* *
102549467 AGGAAATACAAAAAAAATG-AGTAAGTACCAAAAATTATG-AGGGATACAAAAAAAAA
1 AGGAAATACAAAAAAAATGAAG-AAGCACCAAAAATTATGAAGAGATACAAAAAAAAA
* * * *
102549523 AGGAATTACCAAAAAAATGAAGATGCACCAAAAATTATGAAGATATACAAAAAAAAA
1 AGGAAATACAAAAAAAATGAAGAAGCACCAAAAATTATGAAGAGATACAAAAAAAAA
102549580 A
1 A
102549581 TTATGAGGGA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 32 0.64
57 18 0.36
ACGTcount: A:0.62, C:0.09, G:0.14, T:0.15
Consensus pattern (57 bp):
AGGAAATACAAAAAAAATGAAGAAGCACCAAAAATTATGAAGAGATACAAAAAAAAA
Found at i:102549600 original size:44 final size:41
Alignment explanation
Indices: 102549549--102549654 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 41
102549539 ATGAAGATGC
102549549 ACCAAAAATTATGAA-GATATACAAAAAAAAAATTATGAGGGAA-T
1 ACCAAAAATTATGAAGGA-ATAC--AAAAAAAA-TATGA-GGAAGT
* *
102549593 ACCAAAAAATATGAAGGAATACTAAAAAAATATGAGGAAGT
1 ACCAAAAATTATGAAGGAATACAAAAAAAATATGAGGAAGT
*
102549634 ACC-AAAATTATGAAAGAATAC
1 ACCAAAAATTATGAAGGAATAC
102549655 CATAAAACTA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
40 20 0.36
41 9 0.16
42 7 0.12
44 18 0.32
45 2 0.04
ACGTcount: A:0.58, C:0.08, G:0.14, T:0.19
Consensus pattern (41 bp):
ACCAAAAATTATGAAGGAATACAAAAAAAATATGAGGAAGT
Found at i:102549601 original size:21 final size:21
Alignment explanation
Indices: 102549575--102549661 Score: 92
Period size: 20 Copynumber: 4.3 Consensus size: 21
102549565 ATATACAAAA
*
102549575 AAAAAATTATGAGGGAATACC
1 AAAAAATTATGAAGGAATACC
*
102549596 AAAAAA-TATGAAGGAATACT
1 AAAAAATTATGAAGGAATACC
*
102549616 AAAAAAATATG-AGGAAGTACC
1 AAAAAATTATGAAGGAA-TACC
*
102549637 --AAAATTATGAAAGAATACC
1 AAAAAATTATGAAGGAATACC
*
102549656 ATAAAA
1 AAAAAA
102549662 CTAGGGAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
19 12 0.21
20 27 0.48
21 17 0.30
ACGTcount: A:0.59, C:0.08, G:0.15, T:0.18
Consensus pattern (21 bp):
AAAAAATTATGAAGGAATACC
Found at i:102549605 original size:20 final size:19
Alignment explanation
Indices: 102549466--102549640 Score: 90
Period size: 20 Copynumber: 8.7 Consensus size: 19
102549456 AAAAAGTTAC
*
102549466 GAGGAAATA-CAAAAAAAAT
1 GAGG-AATACCAAAAAATAT
* *
102549485 GAGTAAGTACCAAAAATTAT
1 GAGGAA-TACCAAAAAATAT
* *
102549505 GAGGGATA-CAAAAAA-AA
1 GAGGAATACCAAAAAATAT
*
102549522 AAGGAATTACCAAAAAA-AT
1 GAGGAA-TACCAAAAAATAT
* *
102549541 GAAG-ATGCACCAAAAATTAT
1 GAGGAAT--ACCAAAAAATAT
* *
102549561 GAAGATATACAAAAAAAAAATTAT
1 GAGGA-ATAC---CAAAAAA-TAT
102549585 GAGGGAATACCAAAAAATAT
1 GA-GGAATACCAAAAAATAT
*
102549605 GAAGGAATACTAAAAAAATAT
1 G-AGGAATAC-CAAAAAATAT
102549626 GAGGAAGTACCAAAA
1 GAGGAA-TACCAAAA
102549641 TTATGAAAGA
Statistics
Matches: 120, Mismatches: 19, Indels: 33
0.70 0.11 0.19
Matches are distributed among these distances:
17 6 0.05
18 11 0.09
19 25 0.21
20 40 0.33
21 20 0.17
22 2 0.02
23 5 0.04
24 9 0.08
25 2 0.02
ACGTcount: A:0.59, C:0.09, G:0.16, T:0.16
Consensus pattern (19 bp):
GAGGAATACCAAAAAATAT
Found at i:102549721 original size:21 final size:20
Alignment explanation
Indices: 102549697--102549741 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
102549687 CGATGTAACC
102549697 AAAATACATGA-GGAAGTATAA
1 AAAAT-CATGAGGGAA-TATAA
*
102549718 AAAATTATGAGGGAATATAA
1 AAAATCATGAGGGAATATAA
102549738 AAAA
1 AAAA
102549742 AATCTAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.60, C:0.02, G:0.18, T:0.20
Consensus pattern (20 bp):
AAAATCATGAGGGAATATAA
Found at i:102549742 original size:21 final size:20
Alignment explanation
Indices: 102549704--102549741 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
102549694 ACCAAAATAC
102549704 ATGAGGAAGTATAAAAAATT
1 ATGAGGAAGTATAAAAAATT
102549724 ATGAGGGAA-TATAAAAAA
1 ATGA-GGAAGTATAAAAAA
102549742 AATCTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (20 bp):
ATGAGGAAGTATAAAAAATT
Found at i:102549843 original size:18 final size:20
Alignment explanation
Indices: 102549808--102549845 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
102549798 TATAAAGATG
*
102549808 TATAAAAAATTATGGAGGAA
1 TATAAAAAATAATGGAGGAA
102549828 TATAAAAAA-AAT-GAGGAA
1 TATAAAAAATAATGGAGGAA
102549846 GTATCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (20 bp):
TATAAAAAATAATGGAGGAA
Found at i:102550164 original size:21 final size:21
Alignment explanation
Indices: 102550140--102550179 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
102550130 AAAAGTTCTT
*
102550140 AGAAAGTACCAAAAAAATATG
1 AGAAAGTACAAAAAAAATATG
* *
102550161 AGAATGTATAAAAAAAATA
1 AGAAAGTACAAAAAAAATA
102550180 CTAGAGAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.17
Consensus pattern (21 bp):
AGAAAGTACAAAAAAAATATG
Found at i:102553805 original size:3 final size:3
Alignment explanation
Indices: 102553789--102554034 Score: 71
Period size: 3 Copynumber: 82.3 Consensus size: 3
102553779 TTAATTAATT
* * * * *
102553789 TAA TAA T-A TGA TAA TAA TAA TAA TAA -AA TAA TAC TAG CAA TAA TCA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * * * *
102553835 TAA -ATA TAA TAG TAA CGA TAA AAA TAA TAA TAA CAA AAA AAA TAGA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * **
102553881 -AGA TAA TAA TAA T-A TAT TAA TAA -ACT TAA TAA T-A TGC TAA TAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * * * * * * * *
102553924 AAA AAA TAA TAA TAA GTTAA TAA TGA TAG TAC TGA T-A TAG GAA AAA
1 TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
102553970 TAG TAA TCA TAA T-A TAT TAA TAA TAA TAG TAGA AAA TAA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA T-AA
102554016 TATA TAA -AA TAA TAA TAA T
1 TA-A TAA TAA TAA TAA TAA T
102554035 GACGACAGTT
Statistics
Matches: 176, Mismatches: 49, Indels: 36
0.67 0.19 0.14
Matches are distributed among these distances:
2 16 0.09
3 146 0.83
4 11 0.06
5 3 0.02
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:102553921 original size:20 final size:20
Alignment explanation
Indices: 102553887--102553924 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
102553877 TAGAAGATAA
*
102553887 TAATAATATATTAATAAACT
1 TAATAATATACTAATAAACT
*
102553907 TAATAATATGCTAATAAA
1 TAATAATATACTAATAAA
102553925 AAAAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
TAATAATATACTAATAAACT
Found at i:102554011 original size:19 final size:18
Alignment explanation
Indices: 102553987--102554034 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
102553977 CATAATATAT
102553987 TAATAATAATAGTAGAAAA
1 TAATAATAATA-TAGAAAA
*
102554006 TAATAATAAATATATAAAA
1 TAATAAT-AATATAGAAAA
102554025 TAATAATAAT
1 TAATAATAAT
102554035 GACGACAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 3 0.11
19 20 0.74
20 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (18 bp):
TAATAATAATATAGAAAA
Found at i:102555841 original size:133 final size:133
Alignment explanation
Indices: 102555482--102556291 Score: 669
Period size: 132 Copynumber: 6.1 Consensus size: 133
102555472 GGTACTGCAA
** * * *
102555482 GGAGATAAGAATC-ATTGTCTTCAGTCTGCTTCACTGCTACGC-CAGAGAGATAAGGCTGGTGGC
1 GGAGATAA-AATCTATAATCTTCAGTCTGCTCCACTGCT--GCTCAGGGAGATAAGGCTAGTGGC
* * * * * ** * *
102555545 CTCAATCTACTCCATTGCTGCTTCATGGAGATAAGATTTGTCGTATTCGATCTACTTCACTGTTA
63 TTAAATCTACTCCATTGCTGCTTCATGGAGATAAGATTCGCCGTCTTCGATCCGCTCCACTGCTA
102555610 -TTTCAG
128 CTTT-AG
* * * * * * * * *
102555616 GAAAATAAGATCTACAACCTTCAGTCTACTCCACTGTTACTTC-GGAGAGATAAGGCTGGTGGCT
1 GGAGATAAAATCTATAATCTTCAGTCTGCTCCACTGCTGC-TCAGG-GAGATAAGGCTAGTGGCT
* * * *
102555680 TAAATCTACTCCATTCCTGCTTCATGGAGAAAAGATTCGCCATCTTTGATCCGCTCCACTGCTAC
64 TAAATCTACTCCATTGCTGCTTCATGGAGATAAGATTCGCCGTCTTCGATCCGCTCCACTGCTAC
102555745 TTTAG
129 TTTAG
* * *
102555750 GGATATAAAATCTATAATCTTTAGTCTGCTCCAATGCTGCTCAGGGAGATAAGGCTAGTGGCTTA
1 GGAGATAAAATCTATAATCTTCAGTCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTA
**
102555815 AATCTACTATATTGCTGCTTCATGGAGATAAGATTCGCCGTCTTCGATCCGCTCCACTGCTACTT
66 AATCTACTCCATTGCTGCTTCATGGAGATAAGATTCGCCGTCTTCGATCCGCTCCACTGCTACTT
*
102555880 CAG
131 TAG
* *
102555883 GGAGATAAGATCTATAATCTTTAGTCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTA
1 GGAGATAAAATCTATAATCTTCAGTCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTA
* * * * * * * ** *
102555948 AATCTGCTTCC-TTACT-ATCTC-GGGAAGATAAGATTCGCTGTCTTTGATCTGCTCCACTATTG
66 AATCTAC-TCCATTGCTGCT-TCATGG-AGATAAGATTCGCCGTCTTCGATCCGCTCCACTGCTA
102556010 C-TTAG
128 CTTTAG
* * * * * *
102556015 AGAGATAAAATCTGTAATCTTCAGCCTTCTCCACTGCTGCTTAGTGAGATAAGGCTAGTGGCTTA
1 GGAGATAAAATCTATAATCTTCAGTCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTA
* * * * * ** * * ** *
102556080 AATCTGCTTCC-TTACTACCTC-GGGAAGATAAGATTCGTTGTCTTCAATCTGCTCCACTATTGC
66 AATCTAC-TCCATTGCTGCTTCATGG-AGATAAGATTCGCCGTCTTCGATCCGCTCCACTGCTAC
102556143 -TTAG
129 TTTAG
* * * * * *
102556147 GGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTACTCAGGGAGATAAGGTTAGTGGATTA
1 GGAGATAAAATCTATAATCTTCAGTCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTA
* * * * * * * * * *
102556212 AATTTGCTTCC-CTACTACCTC--GGAAAGATAAGATTCGCCGCCTTCGATCTGCTCCACTACTG
66 AATCTAC-TCCATTGCTGCTTCATGG--AGATAAGATTCGCCGTCTTCGATCCGCTCCACTGCTA
102556274 C-TTAG
128 CTTTAG
*
102556279 GGAGATAAGATCT
1 GGAGATAAAATCT
102556292 GTGAATTCAC
Statistics
Matches: 578, Mismatches: 87, Indels: 24
0.84 0.13 0.03
Matches are distributed among these distances:
131 2 0.00
132 252 0.44
133 192 0.33
134 129 0.22
135 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (133 bp):
GGAGATAAAATCTATAATCTTCAGTCTGCTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTA
AATCTACTCCATTGCTGCTTCATGGAGATAAGATTCGCCGTCTTCGATCCGCTCCACTGCTACTT
TAG
Found at i:102555914 original size:45 final size:45
Alignment explanation
Indices: 102555732--102555935 Score: 141
Period size: 45 Copynumber: 4.6 Consensus size: 45
102555722 TCTTTGATCC
* * * *
102555732 GCTCCACTGCTACTTTAGGGATATAAAATCTATAATCTTTAGTCT
1 GCTCCACTGCTGCTTCAGGGAGATAAGATCTATAATCTTTAGTCT
* * ** * *
102555777 GCTCCAATGCTGC-TCAGGGAGATAAG-GCTAGT-GGCTTAAATCT
1 GCTCCACTGCTGCTTCAGGGAGATAAGATCTA-TAATCTTTAGTCT
* ** * * **** * *
102555820 ACTATATTGCTGCTTCATGGAGATAAGAT-TCGCCGTC-TTCGATCC
1 GCTCCACTGCTGCTTCAGGGAGATAAGATCT-ATAATCTTTAG-TCT
*
102555865 GCTCCACTGCTACTTCAGGGAGATAAGATCTATAATCTTTAGTCT
1 GCTCCACTGCTGCTTCAGGGAGATAAGATCTATAATCTTTAGTCT
102555910 GCTCCACTGCTGC-TCAGGGAGATAAG
1 GCTCCACTGCTGCTTCAGGGAGATAAG
102555936 GCTAGTGGCT
Statistics
Matches: 115, Mismatches: 36, Indels: 17
0.68 0.21 0.10
Matches are distributed among these distances:
43 19 0.17
44 38 0.33
45 54 0.47
46 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (45 bp):
GCTCCACTGCTGCTTCAGGGAGATAAGATCTATAATCTTTAGTCT
Found at i:102556085 original size:132 final size:132
Alignment explanation
Indices: 102555662--102556293 Score: 732
Period size: 132 Copynumber: 4.8 Consensus size: 132
102555652 TTACTTCGGA
* * * * * * * *
102555662 GAGATAAGGCTGGTGGCTTAAATCTAC-TCCATTCCTGCTTCATGG-AGAAAAGATTCGCCATCT
1 GAGATAAGGCTAGTGGCTTAAATCTGCTTCC-TTACTACCTC-GGGAAGATAAGATTCGCCGTCT
* * * * * * * * * *
102555725 TTGATCCGCTCCACTGCTACTTTAGGGATATAAAATCTATAATCTTTAGTCTGCTCCAATGCTGC
64 TCGATCTGCTCCACTACTGC-TTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGC
102555790 TCAGG
128 TCAGG
* * * * * *
102555795 GAGATAAGGCTAGTGGCTTAAATCTACTAT-ATTGCTGCTTCATGG-AGATAAGATTCGCCGTCT
1 GAGATAAGGCTAGTGGCTTAAATCTGCT-TCCTTACTACCTC-GGGAAGATAAGATTCGCCGTCT
* * * * * *
102555858 TCGATCCGCTCCACTGCTACTTCAGGGAGATAAGATCTATAATCTTTAGTCTGCTCCACTGCTGC
64 TCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGC
102555923 TCAGG
128 TCAGG
* * *
102555928 GAGATAAGGCTAGTGGCTTAAATCTGCTTCCTTACTATCTCGGGAAGATAAGATTCGCTGTCTTT
1 GAGATAAGGCTAGTGGCTTAAATCTGCTTCCTTACTACCTCGGGAAGATAAGATTCGCCGTCTTC
* * * * *
102555993 GATCTGCTCCACTATTGCTTAGAGAGATAAAATCTGTAATCTTCAGCCTTCTCCACTGCTGCTTA
66 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTCA
*
102556058 GT
131 GG
**
102556060 GAGATAAGGCTAGTGGCTTAAATCTGCTTCCTTACTACCTCGGGAAGATAAGATTCGTTGTCTTC
1 GAGATAAGGCTAGTGGCTTAAATCTGCTTCCTTACTACCTCGGGAAGATAAGATTCGCCGTCTTC
* * *
102556125 AATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTACTCA
66 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTCA
102556190 GG
131 GG
* * * * * *
102556192 GAGATAAGGTTAGTGGATTAAATTTGCTTCCCTACTACCTCGGAAAGATAAGATTCGCCGCCTTC
1 GAGATAAGGCTAGTGGCTTAAATCTGCTTCCTTACTACCTCGGGAAGATAAGATTCGCCGTCTTC
102556257 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
66 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
102556294 GAATTCACCG
Statistics
Matches: 444, Mismatches: 50, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
132 258 0.58
133 185 0.42
135 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (132 bp):
GAGATAAGGCTAGTGGCTTAAATCTGCTTCCTTACTACCTCGGGAAGATAAGATTCGCCGTCTTC
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTGCTCA
GG
Found at i:102556153 original size:44 final size:44
Alignment explanation
Indices: 102555829--102556289 Score: 154
Period size: 44 Copynumber: 10.4 Consensus size: 44
102555819 TACTATATTG
* ** * * *
102555829 CTGCTTCATGGAGATAAGATTCGCCGTCTTCGATCCGCTCCACTG
1 CTGCTT-AGGGAGATAAGATTCGTTGTCTTCAATCTGCTCCACTA
* * * * *
102555874 CTACTTCAGGGAGATAAGA-TC-TATAATCTTTAGTCTGCTCCACTG
1 CTGCTT-AGGGAGATAAGATTCGT-T-GTCTTCAATCTGCTCCACTA
* ** * * *
102555919 CTGCTCAGGGAGATAAGGCTAG-TGGCTTAAATCTGCTTCCTTACTA
1 CTGCTTAGGGAGATAAGATTCGTTGTCTTCAATCTGC-TCC--ACTA
* * **
102555965 -T-C-TCGGGAAGATAAGATTCGCTGTCTTTGATCTGCTCCACTA
1 CTGCTTAGGG-AGATAAGATTCGTTGTCTTCAATCTGCTCCACTA
* * * ** ** * *
102556007 TTGCTTAGAGAGATAA-AATCTGTAATCTTCAGCCTTCTCCACTG
1 CTGCTTAGGGAGATAAGATTC-GTTGTCTTCAATCTGCTCCACTA
* ** * * * *
102556051 CTGCTTAGTGAGATAAGGCTAG-TGGCTTAAATCTGCTTCC-TTA
1 CTGCTTAGGGAGATAAGATTCGTTGTCTTCAATCTGC-TCCACTA
* * *
102556094 CTACCTCGGGAAGATAAGATTCGTTGTCTTCAATCTGCTCCACTA
1 CTGCTTAGGG-AGATAAGATTCGTTGTCTTCAATCTGCTCCACTA
* ** ** *
102556139 TTGCTTAGGGAGATAAGA-TCTGTAATCTTCAGCCTGCTCCACTG
1 CTGCTTAGGGAGATAAGATTC-GTTGTCTTCAATCTGCTCCACTA
* * * * ** * *
102556183 CTACTCAGGGAGATAAGGTTAG-TGGATTAAATTTGCTTCC-CTA
1 CTGCTTAGGGAGATAAGATTCGTTGTCTTCAATCTGC-TCCACTA
* * * * ** * *
102556226 CTACCTCGGAAAGATAAGATTCGCCGCCTTCGATCTGCTCCACTA
1 CTGCTTAGG-GAGATAAGATTCGTTGTCTTCAATCTGCTCCACTA
102556271 CTGCTTAGGGAGATAAGAT
1 CTGCTTAGGGAGATAAGAT
102556290 CTGTGAATTC
Statistics
Matches: 291, Mismatches: 101, Indels: 49
0.66 0.23 0.11
Matches are distributed among these distances:
42 4 0.01
43 46 0.16
44 147 0.51
45 91 0.31
46 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
CTGCTTAGGGAGATAAGATTCGTTGTCTTCAATCTGCTCCACTA
Found at i:102558878 original size:27 final size:28
Alignment explanation
Indices: 102558848--102558916 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
102558838 AAAGAAAACC
*
102558848 AAAT-TATACATAAATAAATTTTAAAGA
1 AAATATATACATAAATAAATTTAAAAGA
*
102558875 AAATATATACGT-AATAAATTTAAAAGA
1 AAATATATACATAAATAAATTTAAAAGA
*
102558902 AAATATTTACATAAA
1 AAATATATACATAAA
102558917 ATATTATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 28 0.78
28 8 0.22
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (28 bp):
AAATATATACATAAATAAATTTAAAAGA
Found at i:102561366 original size:18 final size:18
Alignment explanation
Indices: 102561343--102561447 Score: 68
Period size: 18 Copynumber: 5.5 Consensus size: 18
102561333 ACATCGTGAT
102561343 CTGAAGCTCGAAGTCTAA
1 CTGAAGCTCGAAGTCTAA
* *
102561361 CTGAAGCACATAAGTGCTAAA
1 CTGAAGCTC-GAAGT-CT-AA
*
102561382 C-GAAAGCTCGAAGGCTAA
1 CTG-AAGCTCGAAGTCTAA
* *
102561400 CTGAAGCACATAAGTGCTAA
1 CTGAAGCTC-GAAGT-CTAA
* * *
102561420 ATAGAAGCCCGAAGGCTAA
1 CT-GAAGCTCGAAGTCTAA
102561439 CTGAAGCTC
1 CTGAAGCTC
102561448 ACTAGAGCTA
Statistics
Matches: 65, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
18 22 0.34
19 15 0.23
20 14 0.22
21 14 0.22
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (18 bp):
CTGAAGCTCGAAGTCTAA
Found at i:102561400 original size:39 final size:39
Alignment explanation
Indices: 102561345--102561445 Score: 159
Period size: 39 Copynumber: 2.6 Consensus size: 39
102561335 ATCGTGATCT
*
102561345 GAAGCTCGAAGTCTAACTGAAGCACATAAGTGCTAAACGA
1 GAAGCTCGAAGGCTAACTGAAGCACATAAGTGCTAAA-GA
*
102561385 -AAGCTCGAAGGCTAACTGAAGCACATAAGTGCTAAATA
1 GAAGCTCGAAGGCTAACTGAAGCACATAAGTGCTAAAGA
*
102561423 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCTCGAAGGCTAACTGAAGC
102561446 TCACTAGAGC
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.02
39 56 0.98
ACGTcount: A:0.40, C:0.21, G:0.24, T:0.16
Consensus pattern (39 bp):
GAAGCTCGAAGGCTAACTGAAGCACATAAGTGCTAAAGA
Found at i:102569355 original size:18 final size:18
Alignment explanation
Indices: 102569252--102569353 Score: 71
Period size: 18 Copynumber: 5.3 Consensus size: 18
102569242 CATCGTGATT
* *
102569252 TGAAGCCCGAAGTCTAAC
1 TGAAGCACGAAGGCTAAC
*
102569270 TGAAGCACATAAGTGCTAAAC
1 TGAAGCAC-GAAG-GCT-AAC
*
102569291 -GAAAGCCCGAAGGCTAAC
1 TG-AAGCACGAAGGCTAAC
*
102569309 TGAAGCACATAAGTGCTAAAC
1 TGAAGCAC-GAAG-GCT-AAC
* *
102569330 GGAAGCTCGAAGGCTAAC
1 TGAAGCACGAAGGCTAAC
102569348 TGAAGC
1 TGAAGC
102569354 TCACTAGAGC
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
18 23 0.35
19 13 0.20
20 12 0.18
21 17 0.26
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.15
Consensus pattern (18 bp):
TGAAGCACGAAGGCTAAC
Found at i:102569368 original size:39 final size:39
Alignment explanation
Indices: 102569253--102569353 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
102569243 ATCGTGATTT
*
102569253 GAAGCCCGAAGTCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
102569292 AAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
*
102569331 GAAGCTCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
102569354 TCACTAGAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:102571818 original size:131 final size:131
Alignment explanation
Indices: 102571576--102571869 Score: 489
Period size: 131 Copynumber: 2.2 Consensus size: 131
102571566 ATCATCTTCG
*
102571576 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAGTTTTCAGTCCGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCCGCTTCCTGCAACTTCA
* *
102571641 GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGTTAGTGGCTAA
66 GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAAATAAGGTTAGTAGCTAA
102571706 A
131 A
* * * * *
102571707 ATTTGCTACATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCTGCTTCTTGCAACTTTA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCCGCTTCCTGCAACTTCA
*
102571772 GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAAATAAGGTTGGTAGCTAA
66 GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAAATAAGGTTAGTAGCTAA
102571837 A
131 A
* *
102571838 ATCTACTCCATAGCCGATACTTGGAGATAAGA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGA
102571870 CTCACCATCT
Statistics
Matches: 150, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
131 150 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (131 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAGTCCGCTTCCTGCAACTTCA
GGAAGATAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAAATAAGGTTAGTAGCTAA
A
Found at i:102572077 original size:45 final size:44
Alignment explanation
Indices: 102571976--102572090 Score: 149
Period size: 45 Copynumber: 2.6 Consensus size: 44
102571966 ATTGAGCCTG
* * *
102571976 CTCTACTGCAACTTTAGAGAGATAAGGCTTGTCACTTCAACCTA
1 CTCTACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACCTA
* * * *
102572020 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTAATCTTCGATCTA
1 CTCTACTGCAACTTCAGGGAGATAAGGCTTGTAA-CTTCAACCTA
*
102572065 TTCTACTGCAACTTCAGGGAGATAAG
1 CTCTACTGCAACTTCAGGGAGATAAG
102572091 ATCTGACTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 29 0.48
45 32 0.52
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCTACTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACCTA
Found at i:102572260 original size:64 final size:64
Alignment explanation
Indices: 102572159--102572283 Score: 223
Period size: 64 Copynumber: 2.0 Consensus size: 64
102572149 TCATATATCT
*
102572159 ATGCTTATGCCAAATTATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATATG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATATG
* *
102572223 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGAT
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGAT
102572284 GTGTTATGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATAAATCAAATGCTCCTAACTAGATATG
Found at i:102583884 original size:27 final size:27
Alignment explanation
Indices: 102583854--102583922 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
102583844 AAAGAAAGCC
*
102583854 AAATTATACATAAATAAATTTTAAAGA
1 AAATTATACATAAATAAATTTAAAAGA
*
102583881 AAA-TATATATATAATAAATTTAAAAGA
1 AAATTATACATA-AATAAATTTAAAAGA
*
102583908 AAATATTTACATAAA
1 AAAT-TATACATAAA
102583923 ATATTATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 7 0.20
27 20 0.57
28 2 0.06
29 6 0.17
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (27 bp):
AAATTATACATAAATAAATTTAAAAGA
Found at i:102588940 original size:23 final size:23
Alignment explanation
Indices: 102588911--102588957 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
102588901 AATTAAAGAG
102588911 ATTTGGTTCCTTAGAAGATTATT
1 ATTTGGTTCCTTAGAAGATTATT
102588934 ATTTGGTTCCTTAGAAGATTATT
1 ATTTGGTTCCTTAGAAGATTATT
102588957 A
1 A
102588958 CTAGAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.47
Consensus pattern (23 bp):
ATTTGGTTCCTTAGAAGATTATT
Found at i:102594345 original size:21 final size:21
Alignment explanation
Indices: 102594319--102594359 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
102594309 ATCTGCTCAA
* *
102594319 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
102594340 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
102594360 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:102598869 original size:23 final size:23
Alignment explanation
Indices: 102598840--102598886 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
102598830 AATTAAAGAG
102598840 ATTTGGTTCCTTAGAAGATTATT
1 ATTTGGTTCCTTAGAAGATTATT
102598863 ATTTGGTTCCTTAGAAGATTATT
1 ATTTGGTTCCTTAGAAGATTATT
102598886 A
1 A
102598887 CTAGAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.47
Consensus pattern (23 bp):
ATTTGGTTCCTTAGAAGATTATT
Found at i:102602039 original size:14 final size:14
Alignment explanation
Indices: 102602020--102602062 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
102602010 AATATGTGAC
*
102602020 ATATAAAAAATTAT
1 ATATAAAAAAATAT
102602034 ATATAAAGAGAAATAT
1 ATATAAA-A-AAATAT
102602050 ATATTAAAAAAAT
1 ATA-TAAAAAAAT
102602063 TGGTTGATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 7 0.28
15 5 0.20
16 9 0.36
17 4 0.16
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (14 bp):
ATATAAAAAAATAT
Found at i:102609505 original size:18 final size:20
Alignment explanation
Indices: 102609463--102609499 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
102609453 ATATTTTATG
*
102609463 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
102609482 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
102609500 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:102609518 original size:14 final size:15
Alignment explanation
Indices: 102609499--102609527 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
102609489 TAATGAGATA
102609499 TTTTATT-ATTATTT
1 TTTTATTAATTATTT
102609513 TTTTATTAATTATTT
1 TTTTATTAATTATTT
102609528 AGTATAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTAATTATTT
Found at i:102611712 original size:46 final size:46
Alignment explanation
Indices: 102611660--102611795 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
102611650 AGTGTGCTCT
102611660 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
102611706 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATGCCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
102611752 ATGACA-GAAAATGAGTAAGATCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
102611796 TCATGTCAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 79 0.99
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:102614091 original size:42 final size:42
Alignment explanation
Indices: 102613982--102614144 Score: 148
Period size: 42 Copynumber: 3.7 Consensus size: 42
102613972 TGCCATAGTT
**
102613982 CAACTATGGTCTTACACATCTTCACATAAT-GATACCATAGCC
1 CAACTATGGTCTTACACATAATCACAT-ATCGATACCATAGCC
** * * * *
102614024 CAGTTATAGTCTCACACATATTCACATATCGATGCCATAGCC
1 CAACTATGGTCTTACACATAATCACATATCGATACCATAGCC
*
102614066 CAACTATGGTCTTACACGTAATCACATATCACATATTGATACCATAGCC
1 CAACTATGGTCTTACAC---AT---A-ATCACATATCGATACCATAGCC
* *
102614115 CAACTATGGTTTTACACGTAATCACATATC
1 CAACTATGGTCTTACACATAATCACATATC
102614145 TCACTGATGT
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.02
42 55 0.57
43 1 0.01
45 2 0.02
46 1 0.01
48 1 0.01
49 35 0.36
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (42 bp):
CAACTATGGTCTTACACATAATCACATATCGATACCATAGCC
Found at i:102614111 original size:49 final size:49
Alignment explanation
Indices: 102614038--102614144 Score: 178
Period size: 49 Copynumber: 2.2 Consensus size: 49
102614028 TATAGTCTCA
*
102614038 CACATATTCACATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATACCATAGCCCAACTATGGTCTTACACGTAAT
* *
102614088 CACATATCACATATTGATACCATAGCCCAACTATGGTTTTACACGTAAT
1 CACATATCACATATCGATACCATAGCCCAACTATGGTCTTACACGTAAT
102614137 CACATATC
1 CACATATC
102614145 TCACTGATGT
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
49 48 0.89
50 6 0.11
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (49 bp):
CACATATCACATATCGATACCATAGCCCAACTATGGTCTTACACGTAAT
Found at i:102614224 original size:46 final size:48
Alignment explanation
Indices: 102614150--102614243 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 48
102614140 ATATCTCACT
* * *
102614150 GATGTCATATCCCAGATATGGTCTTATACAGTAGCATAT-ATCACATC
1 GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATAATCACATC
*
102614197 GATGCCATATCCTAGA-ATGGTCTTATACAGAAGCACATAATCACATC
1 GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATAATCACATC
102614244 TCTCCGATGC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 20 0.48
47 22 0.52
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (48 bp):
GATGCCATATCCCAGATATGGTCTTATACAGAAGCACATAATCACATC
Found at i:102614293 original size:53 final size:52
Alignment explanation
Indices: 102614133--102614295 Score: 126
Period size: 53 Copynumber: 3.2 Consensus size: 52
102614123 GTTTTACACG
* * * * * *
102614133 TAATCACATATCTCACTGATGTCATATCCCAGATATGGTCTTATACAGTAGCATA
1 TAATCACATCTCTC-C-GATGCCATATCCTAGA-ATGATCTTATACAGAAGCACA
*
102614188 T-ATCACA----T-CGATGCCATATCCTAGAATGGTCTTATACAGAAGCACA
1 TAATCACATCTCTCCGATGCCATATCCTAGAATGATCTTATACAGAAGCACA
* * *
102614234 TAATCACATCTCTCCGATGCCATAGTCC-AGCTATGATCTTATACGGAAATCACA
1 TAATCACATCTCTCCGATGCCATA-TCCTAG-AATGATCTTATACAG-AAGCACA
102614288 T-ATCACAT
1 TAATCACAT
102614296 GTTGCCATGG
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
46 20 0.22
47 20 0.22
48 1 0.01
50 1 0.01
51 1 0.01
52 12 0.13
53 22 0.24
54 13 0.14
55 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (52 bp):
TAATCACATCTCTCCGATGCCATATCCTAGAATGATCTTATACAGAAGCACA
Found at i:102628389 original size:21 final size:21
Alignment explanation
Indices: 102628365--102628405 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
102628355 GAAAGAAAGA
**
102628365 AAAGAAGAGGGAAAATTTTTC
1 AAAGAAGAAAGAAAATTTTTC
*
102628386 AAAGAGGAAAGAAAATTTTT
1 AAAGAAGAAAGAAAATTTTT
102628406 TTTCCTTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.02, G:0.22, T:0.24
Consensus pattern (21 bp):
AAAGAAGAAAGAAAATTTTTC
Found at i:102638760 original size:59 final size:59
Alignment explanation
Indices: 102638668--102638806 Score: 224
Period size: 59 Copynumber: 2.4 Consensus size: 59
102638658 TGTTGTTGTT
* *
102638668 TACAAATTGCTTAACACTTGGTATACATGGCTGCTGGTTAGAAAAGATAACAATTGATA
1 TACAAATTGCTTAACACTTGGTATACATGGCTGCTAGTTAGAAAAAATAACAATTGATA
* *
102638727 TACAAATTGCTTAACACTTGGTATACATGGCTGCTAGTTAGAAAAAATAACAGTTGGTA
1 TACAAATTGCTTAACACTTGGTATACATGGCTGCTAGTTAGAAAAAATAACAATTGATA
* *
102638786 TATAAATTGCTTAACAGTTGG
1 TACAAATTGCTTAACACTTGG
102638807 ATAACAAATA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
59 74 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (59 bp):
TACAAATTGCTTAACACTTGGTATACATGGCTGCTAGTTAGAAAAAATAACAATTGATA
Found at i:102639227 original size:21 final size:21
Alignment explanation
Indices: 102639203--102639256 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
102639193 AGCTTCTTGA
102639203 TGAGTTGGGGCAATAGGT-AT
1 TGAGTTGGGGCAATAGGTAAT
*
102639223 CTGAGTTGGGGCAGTAGGTAAT
1 -TGAGTTGGGGCAATAGGTAAT
102639245 TGAGTTGGGGCA
1 TGAGTTGGGGCA
102639257 CCTTGTTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.22, C:0.07, G:0.43, T:0.28
Consensus pattern (21 bp):
TGAGTTGGGGCAATAGGTAAT
Found at i:102640115 original size:85 final size:80
Alignment explanation
Indices: 102639973--102640147 Score: 233
Period size: 84 Copynumber: 2.1 Consensus size: 80
102639963 AAAAAAAAAC
*
102639973 TCATTGCATGCATATTAAAAATAGGCAACACACCAACAATCATTGCATGCATATTAAAAATAGTC
1 TCATTGCATGCATATTAAAAATAGGCAACACACCAACAATCATTGCATACATATTAAAAA-AGTC
*
102640038 AACAGCTTTCCAACAA
65 AACAACTTTCCAACAA
* * * *
102640054 TTATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAATCATTGCATACATATTAAAAAA
1 TCATTGCATGCATATT-AAAAATAGGCAAC-AC--ACCAACAATCATTGCATACATATTAAAAAA
*
102640119 GTCAATAACTTTCCAACAA
62 GTCAACAACTTTCCAACAA
*
102640138 TCACTGCATG
1 TCATTGCATG
102640148 TGATCAGCAA
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
81 15 0.19
82 12 0.15
83 2 0.02
84 26 0.32
85 26 0.32
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.28
Consensus pattern (80 bp):
TCATTGCATGCATATTAAAAATAGGCAACACACCAACAATCATTGCATACATATTAAAAAAGTCA
ACAACTTTCCAACAA
Found at i:102640134 original size:41 final size:42
Alignment explanation
Indices: 102639973--102640147 Score: 241
Period size: 43 Copynumber: 4.2 Consensus size: 42
102639963 AAAAAAAAAC
* *
102639973 TCATTGCATGCATATTAAAAATAGGCAAC-AC--ACCAACAA
1 TCATTGCATGCATATTAAAAATAGTCAACAACTTTCCAACAA
*
102640012 TCATTGCATGCATATTAAAAATAGTCAACAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAATAGTCAACAACTTTCCAACAA
* *
102640054 TTATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAATAA
1 TCATTGCATGCATATT-AAAAATAGTCAACAACTTTCCAACAA
* *
102640097 TCATTGCATACATATTAAAAA-AGTCAATAACTTTCCAACAA
1 TCATTGCATGCATATTAAAAATAGTCAACAACTTTCCAACAA
*
102640138 TCACTGCATG
1 TCATTGCATG
102640148 TGATCAGCAA
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 28 0.23
40 1 0.01
41 26 0.22
42 27 0.22
43 38 0.32
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.28
Consensus pattern (42 bp):
TCATTGCATGCATATTAAAAATAGTCAACAACTTTCCAACAA
Found at i:102641813 original size:15 final size:15
Alignment explanation
Indices: 102641788--102641836 Score: 71
Period size: 15 Copynumber: 3.2 Consensus size: 15
102641778 TTAGATGTAT
102641788 CACTATCACTACCAGA
1 CACT-TCACTACCAGA
102641804 CACTTCACTACCAGA
1 CACTTCACTACCAGA
* *
102641819 TACATCACTACCAGA
1 CACTTCACTACCAGA
102641834 CAC
1 CAC
102641837 GTTTTCTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 26 0.87
16 4 0.13
ACGTcount: A:0.37, C:0.39, G:0.06, T:0.18
Consensus pattern (15 bp):
CACTTCACTACCAGA
Found at i:102642330 original size:64 final size:63
Alignment explanation
Indices: 102642121--102642512 Score: 493
Period size: 64 Copynumber: 6.2 Consensus size: 63
102642111 TAGGAGCTTG
* * * * ** *
102642121 GATACAAACAATGACAGATATACACAATAAACATCAGTTTAATAATGTA-TAATTTAATTGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGCATTCATACAATGGCA
* * * * **
102642183 GATACAAATAATGGCAGATATACACAATAAACATCAGTTTAATAATGTA-TAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGCATTCATACAATGGCA
* *** * *
102642245 AATACAAACAATTATAGATATACACAATAAACATTAATTTGATAATGACATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATG-CATTCATACAATGGCA
*
102642309 GATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATG-CATTCATACAATGGCA
* * **
102642373 -ATTACAAACAATGGCAGATATATACAATAAAGATCAGTTTGATAATGGCATTCATACAATGATA
1 GA-TACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAAT-GCATTCATACAATGGCA
*
102642437 GATACAAACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAAT-GCATTCATACAATGGCA
102642501 GATACAAACAAT
1 GATACAAACAAT
102642513 AAACATCAAA
Statistics
Matches: 297, Mismatches: 28, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
62 98 0.33
63 2 0.01
64 195 0.66
65 2 0.01
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (63 bp):
GATACAAACAATGGCAGATATACACAATAAACATCAGTTTGATAATGCATTCATACAATGGCA
Found at i:102642422 original size:34 final size:34
Alignment explanation
Indices: 102642382--102642486 Score: 98
Period size: 32 Copynumber: 3.2 Consensus size: 34
102642372 AATTACAAAC
102642382 AATGGCAGATATATACAATAAAGATCAGTTTGAT
1 AATGGCAGATATATACAATAAAGATCAGTTTGAT
* * *
102642416 AATGGC--AT-TCATACAATGATAGATACA----AAC
1 AATGGCAGATAT-ATACAAT-AAAGAT-CAGTTTGAT
*
102642446 AATGGCAGATATACACAATAAAGATCAGTTTGAT
1 AATGGCAGATATATACAATAAAGATCAGTTTGAT
102642480 AATGGCA
1 AATGGCA
102642487 TTCATACAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 20
0.67 0.09 0.25
Matches are distributed among these distances:
30 9 0.17
31 6 0.11
32 17 0.31
33 6 0.11
34 16 0.30
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (34 bp):
AATGGCAGATATATACAATAAAGATCAGTTTGAT
Found at i:102642737 original size:12 final size:12
Alignment explanation
Indices: 102642654--102642801 Score: 66
Period size: 12 Copynumber: 11.8 Consensus size: 12
102642644 AAATAACCCT
*
102642654 AAATCGAAATCT
1 AAATCGAAATCA
102642666 AAATCGAAATCA
1 AAATCGAAATCA
102642678 AAATC-AAATTC-
1 AAATCGAAA-TCA
** * *
102642689 TCATCCTAAATTA
1 AAAT-CGAAATCA
*
102642702 AGATCGAAATCA
1 AAATCGAAATCA
*
102642714 AAATTGAAATCA
1 AAATCGAAATCA
*
102642726 AAATCTAAATCA
1 AAATCGAAATCA
* **
102642738 GAATCAGTGAGTGTTTCA
1 AAATC---GA---AATCA
* *
102642756 AAATTGTAATCA
1 AAATCGAAATCA
* *
102642768 AAATTGAAATAA
1 AAATCGAAATCA
*
102642780 AAATCAAAATCA
1 AAATCGAAATCA
102642792 AAATCGAAAT
1 AAATCGAAAT
102642802 TAAATTTGAA
Statistics
Matches: 99, Mismatches: 27, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
11 5 0.05
12 81 0.82
13 5 0.05
15 2 0.02
18 6 0.06
ACGTcount: A:0.52, C:0.14, G:0.09, T:0.26
Consensus pattern (12 bp):
AAATCGAAATCA
Found at i:102643369 original size:31 final size:29
Alignment explanation
Indices: 102643330--102643402 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 29
102643320 TGTAACTATT
*
102643330 AGTTAGTGACTGTTTTGTCACTTTTTTATA
1 AGTTAGTGACTGTTTTGTCACTTTTTGA-A
* *
102643360 ACGTTAGTGACCGTTTTGTTACTTTTTGAA
1 A-GTTAGTGACTGTTTTGTCACTTTTTGAA
102643390 AGTTAAGTGACTG
1 AGTT-AGTGACTG
102643403 AAATAAAACC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 3 0.08
30 10 0.27
31 24 0.65
ACGTcount: A:0.22, C:0.11, G:0.21, T:0.47
Consensus pattern (29 bp):
AGTTAGTGACTGTTTTGTCACTTTTTGAA
Found at i:102644854 original size:21 final size:20
Alignment explanation
Indices: 102644793--102644854 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 20
102644783 CATTTCCCCC
*
102644793 TATTTTTTAGGGCTA-GGATTT
1 TATTTTTTAGAG-TATGG-TTT
*
102644814 TATTTTTTAAAGT-TGAGTTT
1 TATTTTTTAGAGTATG-GTTT
102644834 TATTTTTTAGAGTTATGGTTT
1 TATTTTTTAGAG-TATGGTTT
102644855 ATGGTTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
20 16 0.47
21 16 0.47
22 2 0.06
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.58
Consensus pattern (20 bp):
TATTTTTTAGAGTATGGTTT
Found at i:102646084 original size:674 final size:675
Alignment explanation
Indices: 102644836--102646183 Score: 2439
Period size: 674 Copynumber: 2.0 Consensus size: 675
102644826 TTGAGTTTTA
* * * *
102644836 TTTTTTAGAGTTATGGTTTATGGTTTATAAAGTAGGATATTTTGGATTCAGGGTTTTGTTATTTT
1 TTTTTTAGAGTTATGATTTATGGTTTATAAAATAGGATATTTTAGATTCAAGGTTTTGTTATTTT
102644901 TGGTTTAAAATTTTAAAGTTTATTATATATTATTTATTTTTATAATTTTTTGAAAGGTTAAATAA
66 TGGTTTAAAATTTTAAAGTTTATTATATATTATTTATTTTTATAATTTTTTGAAAGGTTAAATAA
*
102644966 TAATATTATTGAATTCAAAATTTAAAAACATCATATTTACATCAATCATATATTTGAATTGCAAA
131 TAATATTATTGAATTCAAAATTTAAAAACATCATATTTACACCAATCATATATTTGAATTGCAAA
* *
102645031 ATGCAATTTAATTCATAATCGAAACTCGAAGCACTCGGCTAGGATGAAATATTAGTTATTAATTT
196 ATGCAATTCAATTCATAATCGAAACTCGAAGCACTCGACTAGGATGAAATATTAGTTATTAATTT
* *
102645096 TTTTCTGCATTTTTAATCTTAGTTTGATTCGATTTTTCAATAAATTATTTATCCTAGTACATTAT
261 TTTTCCGCATTTTTAATCTTAGTTTGATTCAATTTTTCAATAAATTATTTATCCTAGTACATTAT
102645161 TATCGACAAGAAGAGTTCAGAAAATATATCCCGGGATATATGATGGATTTCTTGGAAAAAGGTTG
326 TATCGACAAGAAGAGTTCAGAAAATATATCCCGGGATATATGATGGATTTCTTGGAAAAAGGTTG
*
102645226 GGGTTGAAACTTGTAGAGAAAAAATGCTCCAAGCATGCAAAAGCACTGGAAACACGTCTAACTGT
391 GGGTTGAAACTTGTAGAGAAAAAATGCTCCAAGCATGCAAAAGCACTGGAAACACGTCCAACTGT
*
102645291 AAGCGCTTTTAGCTGACATGGCACTAAAAATACTTCCAGCTGGATGTGCTTTCAGTGCTTTTGTT
456 AAGCGCTTTTAGCTGACATGGCACTAAAAATACTTCCAGCTGGATGTGCTTTCAGTGCTTTTGCT
* *
102645356 GGCAGTGCGTCCTATTTGGAATGTTTTCTCTCTACAAATTTCAACCCTTCACTAGGCC-AGGAAA
521 GACAGTGCGTCCTATTTGGAATGTTTTCTCTCTACAAATTTCAACCCCTCACTAGGCCTA-GAAA
102645420 ATTTTCAAAACGAACTGCAAGTCACCCCCTAATCTATAAAAGTAACCTATTTCAGCATCGAGTGA
585 ATTTTCAAAACGAACTGCAAGTCACCCCCTAATCTATAAAAGTAACCTATTTCAGCATCGAGTGA
102645485 CATAAGCCATTTACAAGCAAAGAAAT
650 CATAAGCCATTTACAAGCAAAGAAAT
* *
102645511 TTTTTTAGGGTTATGATTTATGGTTTATAAAATAGGATATTTTAGATTTAAGGTTTTGTTATTTT
1 TTTTTTAGAGTTATGATTTATGGTTTATAAAATAGGATATTTTAGATTCAAGGTTTTGTTATTTT
102645576 TGGTTTAAAATTTTAAAGTTTATTATATATTATTTATTTTTATAATTTTTTGAAAGGTTAAATAA
66 TGGTTTAAAATTTTAAAGTTTATTATATATTATTTATTTTTATAATTTTTTGAAAGGTTAAATAA
102645641 TAATATTATTGAATTCAAAATTTAAAAACATCATATTTACACCAATCATATATTTGAATTGCAAA
131 TAATATTATTGAATTCAAAATTTAAAAACATCATATTTACACCAATCATATATTTGAATTGCAAA
*
102645706 ATGTAATTCAATTCATAATCGAAACTCGAAGCACTCGACTAGGATGAAATATTAGTTATTAA-TT
196 ATGCAATTCAATTCATAATCGAAACTCGAAGCACTCGACTAGGATGAAATATTAGTTATTAATTT
*
102645770 TTTTCCGCATTTTTAATCTTAGTTTGATTCAATTTTTCAATAAATTATTTATCCTGGTACATTAT
261 TTTTCCGCATTTTTAATCTTAGTTTGATTCAATTTTTCAATAAATTATTTATCCTAGTACATTAT
* * * *
102645835 TTTCGGCAAGAAGAGTTCAGAAAATATATCCCGGGGTATATGATGGGTTTCTTGGAAAAAGGTTG
326 TATCGACAAGAAGAGTTCAGAAAATATATCCCGGGATATATGATGGATTTCTTGGAAAAAGGTTG
* * *
102645900 GGGTTGAAACTTGTAGAGAAAAAATGCTCCAAGCATGCAAAAGTACTGGAAACGCGTCCAACTTT
391 GGGTTGAAACTTGTAGAGAAAAAATGCTCCAAGCATGCAAAAGCACTGGAAACACGTCCAACTGT
*
102645965 AAGCGCTTTTAGCTGACATGGCACTGAAAATACTTCCAGCTGGATGTGCTTTCAGTGCTTTTGCT
456 AAGCGCTTTTAGCTGACATGGCACTAAAAATACTTCCAGCTGGATGTGCTTTCAGTGCTTTTGCT
*
102646030 GACAGTGCGTCCTATTTGGAGTGTTTTCTCTCTACAAATTTCAACCCCTCACTAGGCCTAGAAAA
521 GACAGTGCGTCCTATTTGGAATGTTTTCTCTCTACAAATTTCAACCCCTCACTAGGCCTAGAAAA
102646095 TTTTCAAAACGAACTGCAAGTCACCCCCTAATCTATAAAAGTAACCTATTTCAGCATCGAGTGAC
586 TTTTCAAAACGAACTGCAAGTCACCCCCTAATCTATAAAAGTAACCTATTTCAGCATCGAGTGAC
102646160 ATAAGCCATTTACAAGCAAAGAAA
651 ATAAGCCATTTACAAGCAAAGAAA
102646184 ATTGTAAGAA
Statistics
Matches: 646, Mismatches: 26, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
674 398 0.62
675 248 0.38
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (675 bp):
TTTTTTAGAGTTATGATTTATGGTTTATAAAATAGGATATTTTAGATTCAAGGTTTTGTTATTTT
TGGTTTAAAATTTTAAAGTTTATTATATATTATTTATTTTTATAATTTTTTGAAAGGTTAAATAA
TAATATTATTGAATTCAAAATTTAAAAACATCATATTTACACCAATCATATATTTGAATTGCAAA
ATGCAATTCAATTCATAATCGAAACTCGAAGCACTCGACTAGGATGAAATATTAGTTATTAATTT
TTTTCCGCATTTTTAATCTTAGTTTGATTCAATTTTTCAATAAATTATTTATCCTAGTACATTAT
TATCGACAAGAAGAGTTCAGAAAATATATCCCGGGATATATGATGGATTTCTTGGAAAAAGGTTG
GGGTTGAAACTTGTAGAGAAAAAATGCTCCAAGCATGCAAAAGCACTGGAAACACGTCCAACTGT
AAGCGCTTTTAGCTGACATGGCACTAAAAATACTTCCAGCTGGATGTGCTTTCAGTGCTTTTGCT
GACAGTGCGTCCTATTTGGAATGTTTTCTCTCTACAAATTTCAACCCCTCACTAGGCCTAGAAAA
TTTTCAAAACGAACTGCAAGTCACCCCCTAATCTATAAAAGTAACCTATTTCAGCATCGAGTGAC
ATAAGCCATTTACAAGCAAAGAAAT
Found at i:102649693 original size:15 final size:15
Alignment explanation
Indices: 102649673--102649729 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
102649663 CGATGAATTT
*
102649673 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
102649688 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
102649703 ATTGAAATTATATTG
1 ATTGAAATTATATTG
102649718 ATTG-AATTATAT
1 ATTGAAATTATAT
102649730 AATATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:102650132 original size:23 final size:22
Alignment explanation
Indices: 102650102--102650209 Score: 107
Period size: 21 Copynumber: 5.0 Consensus size: 22
102650092 GCTTTATCGA
**
102650102 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTCGTGTGTCGTA-T
*
102650125 TCAGGCACCTCGTGTGTCGTA-
1 TCAGGCACTTCGTGTGTCGTAT
*
102650146 TCAGGCACCTCGTGTGTCGTA-
1 TCAGGCACTTCGTGTGTCGTAT
102650167 TCAGGCA-TCTCGTGTGTCGT-T
1 TCAGGCACT-TCGTGTGTCGTAT
* **
102650188 TTAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTCGTGTGTCGTAT
102650210 ACTGATCAGG
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
21 54 0.73
22 2 0.03
23 18 0.24
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (22 bp):
TCAGGCACTTCGTGTGTCGTAT
Found at i:102650149 original size:21 final size:21
Alignment explanation
Indices: 102650114--102650209 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
102650104 AGGCACTTTA
102650114 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
102650137 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
*
102650158 TGTGTCGTATCAGGCATCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
102650179 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
102650200 TGTGTCGTAT
1 TGTGTCGTAT
102650210 ACTGATCAGG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
21 56 0.86
23 9 0.14
ACGTcount: A:0.14, C:0.22, G:0.27, T:0.38
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:102650184 original size:42 final size:42
Alignment explanation
Indices: 102650101--102650209 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
102650091 GGCTTTATCG
* *
102650101 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
* *
102650145 ATCAGGCACCTCGTGTGTCGTATCAGGCATCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
* * * *
102650187 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
102650210 ACTGATCAGG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 37 0.66
44 19 0.34
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.37
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:102653274 original size:46 final size:44
Alignment explanation
Indices: 102653172--102653279 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
102653162 TGTCTTTGAC
** * * *
102653172 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
* *
102653216 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGTCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
102653262 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
102653280 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:102653655 original size:30 final size:30
Alignment explanation
Indices: 102653619--102653676 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
102653609 CCTCGACTCT
*
102653619 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
102653649 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
102653677 AAGGCTCGGA
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:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:102654170 original size:4 final size:4
Alignment explanation
Indices: 102654161--102654192 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
102654151 CCTTTTTCTT
102654161 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
102654193 CTTCCTTCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:102654271 original size:16 final size:16
Alignment explanation
Indices: 102654252--102654284 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
102654242 TTCTATTCTG
*
102654252 TTTCTTTTCTTTCTTT
1 TTTCTATTCTTTCTTT
102654268 TTTCTATTCTTTCTTT
1 TTTCTATTCTTTCTTT
102654284 T
1 T
102654285 GTTTTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTATTCTTTCTTT
Found at i:102654306 original size:5 final size:5
Alignment explanation
Indices: 102654293--102654364 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
102654283 TTGTTTTATG
102654293 TATATA TATAA TATAA TATAA TAT-A T-TAA TGATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
102654341 CATAA TCATTAC TATAA TATAA TA
1 TATAA T-A-TAA TATAA TATAA TA
102654365 ATATTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 34 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:102654318 original size:19 final size:19
Alignment explanation
Indices: 102654294--102654336 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
102654284 TGTTTTATGT
102654294 ATATATATAAT-ATAATATA
1 ATATAT-TAATGATAATATA
102654313 ATATATTAATGATAATATA
1 ATATATTAATGATAATATA
102654332 ATATA
1 ATATA
102654337 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATATATTAATGATAATATA
Found at i:102654346 original size:24 final size:24
Alignment explanation
Indices: 102654300--102654365 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
102654290 ATGTATATAT
* * *
102654300 ATAATATAATATAATATATTAATG
1 ATAATATAATATAATAAAATAATC
102654324 ATAATATAATATAA-AAACATAATC
1 ATAATATAATATAATAAA-ATAATC
*
102654348 ATTACTATAATATAATAA
1 A-TAATATAATATAATAA
102654366 TATTTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.06
24 19 0.54
25 12 0.34
26 2 0.06
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (24 bp):
ATAATATAATATAATAAAATAATC
Found at i:102672537 original size:16 final size:16
Alignment explanation
Indices: 102672491--102672537 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
102672481 CGTTAACCCT
102672491 TTTGAAATACATCCCCC
1 TTTGAAATACAT-CCCC
* *
102672508 CTT-AAA-ATATCCCC
1 TTTGAAATACATCCCC
102672522 TTTGAAATACATCCCC
1 TTTGAAATACATCCCC
102672538 CCCCCCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
14 6 0.25
15 6 0.25
16 10 0.42
17 2 0.08
ACGTcount: A:0.32, C:0.34, G:0.04, T:0.30
Consensus pattern (16 bp):
TTTGAAATACATCCCC
Found at i:102679754 original size:15 final size:15
Alignment explanation
Indices: 102679734--102679767 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
102679724 ACAGATCAGG
*
102679734 TCAGTTTTTGGTTTC
1 TCAGTTTTTGGTTGC
*
102679749 TCAGTTTTTTGTTGC
1 TCAGTTTTTGGTTGC
102679764 TCAG
1 TCAG
102679768 CCCTACTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.15, G:0.21, T:0.56
Consensus pattern (15 bp):
TCAGTTTTTGGTTGC
Found at i:102684036 original size:223 final size:223
Alignment explanation
Indices: 102683641--102684097 Score: 871
Period size: 223 Copynumber: 2.1 Consensus size: 223
102683631 AGGCTTTGTA
102683641 ATTTAC-AAAAAAAAAAAAAACATAATGAGAACTCCTTTTTATCAAAATAATATCACCCCAGCCC
1 ATTTACAAAAAAAAAAAAAAACATAATGAGAACTCCTTTTTATCAAAATAATATCACCCCAGCCC
102683705 AATATGTAAGATGCAAGAATTCACAGACTTAAGAGTGATATAACAAATTTCCATAACGTGCAGTG
66 AATATGTAAGATGCAAGAATTCACAGACTTAAGAGTGATATAACAAATTTCCATAACGTGCAGTG
102683770 GATCATCAAATGTCTGATCATGGCAGGAAAAAGGAAACTCTCAGATTCAACAAGAAATACCTCCA
131 GATCATCAAATGTCTGATCATGGCAGGAAAAAGGAAACTCTCAGATTCAACAAGAAATACCTCCA
*
102683835 GTGGTGCTTGGTAAACCATTCTCTCATC
196 GTGCTGCTTGGTAAACCATTCTCTCATC
102683863 ATTTACAAAAAAAAAAAAAAACATAATGAGAACTCCTTTTTATCAAAATAATATCACCCCAGCCC
1 ATTTACAAAAAAAAAAAAAAACATAATGAGAACTCCTTTTTATCAAAATAATATCACCCCAGCCC
*
102683928 AATATGTAAGATGCAAGAATTCACAGACTTAAGAGTGATATAAGAAATTTCCATAACGTGCAGTG
66 AATATGTAAGATGCAAGAATTCACAGACTTAAGAGTGATATAACAAATTTCCATAACGTGCAGTG
*
102683993 GATCATCAAATGTCTGATCATGGCAGGAAAAAGGAAGCTCTCAGATTCAACAAGAAATACCTCCA
131 GATCATCAAATGTCTGATCATGGCAGGAAAAAGGAAACTCTCAGATTCAACAAGAAATACCTCCA
102684058 GTGCTGCTTGGTAAACCATTCTCTCATC
196 GTGCTGCTTGGTAAACCATTCTCTCATC
*
102684086 ATTTACAGAAAA
1 ATTTACAAAAAA
102684098 TCTTTCTTCA
Statistics
Matches: 230, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
222 6 0.03
223 224 0.97
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.25
Consensus pattern (223 bp):
ATTTACAAAAAAAAAAAAAAACATAATGAGAACTCCTTTTTATCAAAATAATATCACCCCAGCCC
AATATGTAAGATGCAAGAATTCACAGACTTAAGAGTGATATAACAAATTTCCATAACGTGCAGTG
GATCATCAAATGTCTGATCATGGCAGGAAAAAGGAAACTCTCAGATTCAACAAGAAATACCTCCA
GTGCTGCTTGGTAAACCATTCTCTCATC
Found at i:102686612 original size:7 final size:7
Alignment explanation
Indices: 102686600--102686632 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
102686590 TGACTATTAA
102686600 ATTAAAT
1 ATTAAAT
102686607 ATTAAAT
1 ATTAAAT
102686614 ATTAAA-
1 ATTAAAT
102686620 ATTAAAT
1 ATTAAAT
*
102686627 ACTAAA
1 ATTAAA
102686633 CTGAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (7 bp):
ATTAAAT
Found at i:102686623 original size:20 final size:19
Alignment explanation
Indices: 102686594--102686632 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
102686584 GTAATTTGAC
*
102686594 TATTAAATTAAATATTAAA
1 TATTAAATTAAATACTAAA
102686613 TATTAAAATTAAATACTAAA
1 TATT-AAATTAAATACTAAA
102686633 CTGAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TATTAAATTAAATACTAAA
Found at i:102686625 original size:13 final size:14
Alignment explanation
Indices: 102686600--102686632 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
102686590 TGACTATTAA
102686600 ATTAAATATTAAAT
1 ATTAAATATTAAAT
102686614 ATTAAA-ATTAAAT
1 ATTAAATATTAAAT
*
102686627 ACTAAA
1 ATTAAA
102686633 CTGAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTAAATATTAAAT
Found at i:102686937 original size:17 final size:18
Alignment explanation
Indices: 102686902--102686938 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
102686892 TATTAATATA
102686902 TAAATTTCAACATTTTAT
1 TAAATTTCAACATTTTAT
102686920 TAAATTT-AA-ATATTTAT
1 TAAATTTCAACAT-TTTAT
102686937 TA
1 TA
102686939 TTAATTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 9 0.50
18 7 0.39
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAATTTCAACATTTTAT
Found at i:102688312 original size:9 final size:9
Alignment explanation
Indices: 102688294--102688325 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
102688284 ATAAGTATAA
102688294 AATTAACCG
1 AATTAACCG
*
102688303 AATTACCCG
1 AATTAACCG
102688312 AATTAACCG
1 AATTAACCG
102688321 AATTA
1 AATTA
102688326 TTTGTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:102688360 original size:5 final size:6
Alignment explanation
Indices: 102688345--102688391 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
102688335 AATTATATGT
*
102688345 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTTTTA TTT
102688392 ATTAAATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 28 0.76
7 8 0.22
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:102688373 original size:20 final size:20
Alignment explanation
Indices: 102688350--102688388 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
102688340 TATGTTTTTT
102688350 ATTTTTATTTTTAGTTTTAG
1 ATTTTTATTTTTAGTTTTAG
*
102688370 ATTTTTATTTTTATTTTTA
1 ATTTTTATTTTTAGTTTTA
102688389 TTTATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
ATTTTTATTTTTAGTTTTAG
Found at i:102691434 original size:131 final size:131
Alignment explanation
Indices: 102691197--102691461 Score: 397
Period size: 131 Copynumber: 2.0 Consensus size: 131
102691187 TAACTATTCA
*
102691197 TTTAAAAATTCTTTAAAACGAAGGCAATACTCAATGTTTGGCAATTCGGGAATCGTGCCCTATCG
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCAATGTTTGGCAATTCGGGAATCGTGCCCTATCG
* * * *
102691262 TGCTGTGTTGCGATTTCCTATTTGTTCAAAACAATCAAATATTCCTTTGGAATTTCATTCATG-T
66 TGCTGGGTTGCGATTTCCTATTTGTTCAAAACAATCAAATATTCCCTTAGAATTTCACTCATGTT
102691326 C
131 C
* * ** * *
102691327 TTTAAAATTTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGAGAATTGTGCCCTATC
1 TTTAAAAATTCTTCAAAACGAAGGCAATACTCAATGTTTGGCAATTCGG-GAATCGTGCCCTATC
* *
102691392 GTGCTGGGTTGCGATTTCCTATTTGTTCAAAATAATCGAATATTCCCTTAGAATTTCACTCATGT
65 GTGCTGGGTTGCGATTTCCTATTTGTTCAAAACAATCAAATATTCCCTTAGAATTTCACTCATGT
102691457 TC
130 TC
102691459 TTT
1 TTT
102691462 GAATTCTAAA
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
130 43 0.36
131 72 0.60
132 5 0.04
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (131 bp):
TTTAAAAATTCTTCAAAACGAAGGCAATACTCAATGTTTGGCAATTCGGGAATCGTGCCCTATCG
TGCTGGGTTGCGATTTCCTATTTGTTCAAAACAATCAAATATTCCCTTAGAATTTCACTCATGTT
C
Found at i:102692057 original size:17 final size:18
Alignment explanation
Indices: 102692032--102692068 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
102692022 TTTTTTTATT
*
102692032 AATTTTTTTGGTTAACCG
1 AATTTTTTCGGTTAACCG
102692050 AATTTTTTCGGTTAACCG
1 AATTTTTTCGGTTAACCG
102692068 A
1 A
102692069 CCGGTTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (18 bp):
AATTTTTTCGGTTAACCG
Found at i:102695121 original size:57 final size:57
Alignment explanation
Indices: 102695059--102695172 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
102695049 TGCTCTACAA
102695059 AATCACTATCAAAGATGAATCTATTCCTACGCTTCCATAGTTTCCAACATAAAATAT
1 AATCACTATCAAAGATGAATCTATTCCTACGCTTCCATAGTTTCCAACATAAAATAT
102695116 AATCACTATCAAAGATGAATCTATTCCTACGCTTCCATAGTTTCCAACATAAAATAT
1 AATCACTATCAAAGATGAATCTATTCCTACGCTTCCATAGTTTCCAACATAAAATAT
102695173 TAAAGAGCAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.32
Consensus pattern (57 bp):
AATCACTATCAAAGATGAATCTATTCCTACGCTTCCATAGTTTCCAACATAAAATAT
Found at i:102699639 original size:71 final size:71
Alignment explanation
Indices: 102699561--102699703 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
102699551 TTAAAAATGA
*
102699561 TAAAAAATTATTTTAATCCTTTAAAATTTATAAAGATATAGACTATTAAAATGATGAAATTACGT
1 TAAAAAATTATTTTAATCCTGTAAAATTTATAAAGATATAGACTATTAAAATGATGAAATTACGT
102699626 TACAAT
66 TACAAT
102699632 TAAAAAATTATTTTAATCCTGTAAAATTTATAAAGATATAGACTATTAAAATGATGAAATTACGT
1 TAAAAAATTATTTTAATCCTGTAAAATTTATAAAGATATAGACTATTAAAATGATGAAATTACGT
102699697 TACAAT
66 TACAAT
102699703 T
1 T
102699704 TAATTTTAGC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.38
Consensus pattern (71 bp):
TAAAAAATTATTTTAATCCTGTAAAATTTATAAAGATATAGACTATTAAAATGATGAAATTACGT
TACAAT
Found at i:102705252 original size:31 final size:29
Alignment explanation
Indices: 102705216--102705288 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
102705206 ATTGTAAAAA
* *
102705216 TAGTCATTTTTATTTATTTAATATTACATTT
1 TAGTCATTTATATTTA--AAATATTACATTT
* **
102705247 TAGTCACTTATATTTAAAATATTATGTTT
1 TAGTCATTTATATTTAAAATATTACATTT
102705276 TAGTCATTTATAT
1 TAGTCATTTATAT
102705289 ATTGATTTAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
29 22 0.61
31 14 0.39
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (29 bp):
TAGTCATTTATATTTAAAATATTACATTT
Found at i:102705615 original size:21 final size:21
Alignment explanation
Indices: 102705591--102705633 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
102705581 TTGAAAGGTA
102705591 ATACTACAAAACATGGTGAAT
1 ATACTACAAAACATGGTGAAT
102705612 ATACTACAAAACATGGTGAAT
1 ATACTACAAAACATGGTGAAT
102705633 A
1 A
102705634 ATAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (21 bp):
ATACTACAAAACATGGTGAAT
Found at i:102705643 original size:21 final size:21
Alignment explanation
Indices: 102705598--102705643 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
102705588 GTAATACTAC
* *
102705598 AAAACATGGTGAATATACTAC
1 AAAACATGGTGAATATACAAA
102705619 AAAACATGGTGAATAATA-AAA
1 AAAACATGGTGAAT-ATACAAA
102705640 AAAA
1 AAAA
102705644 GTAGATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.59, C:0.09, G:0.13, T:0.20
Consensus pattern (21 bp):
AAAACATGGTGAATATACAAA
Found at i:102715789 original size:14 final size:14
Alignment explanation
Indices: 102715770--102715796 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
102715760 GTACATGGTT
102715770 GAAAATCAGTAGAC
1 GAAAATCAGTAGAC
102715784 GAAAATCAGTAGA
1 GAAAATCAGTAGA
102715797 AAAACCCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.22, T:0.15
Consensus pattern (14 bp):
GAAAATCAGTAGAC
Found at i:102717983 original size:19 final size:21
Alignment explanation
Indices: 102717961--102718008 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
102717951 TCCCATTAGG
102717961 AAATTC-AA-GTTGGCACTTA
1 AAATTCTAATGTTGGCACTTA
*
102717980 AAA-TCTAATGTTGGTACTTA
1 AAATTCTAATGTTGGCACTTA
102718000 AAA-TCTAAT
1 AAATTCTAAT
102718009 TGAACTGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 5 0.19
20 19 0.73
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (21 bp):
AAATTCTAATGTTGGCACTTA
Found at i:102717998 original size:20 final size:20
Alignment explanation
Indices: 102717969--102718008 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
102717959 GGAAATTCAA
102717969 GTTGGCACTTAAAATCTAAT
1 GTTGGCACTTAAAATCTAAT
*
102717989 GTTGGTACTTAAAATCTAAT
1 GTTGGCACTTAAAATCTAAT
102718009 TGAACTGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (20 bp):
GTTGGCACTTAAAATCTAAT
Found at i:102718154 original size:31 final size:29
Alignment explanation
Indices: 102718085--102718158 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
102718075 ACAAAATAAT
**
102718085 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACATAACA
*
102718114 AACATAAGTGACTAAAATGTAACCTGAAACA
1 AACATAAGTGACTAAAATGTAACAT--AACA
*
102718145 AACAAAAGTGACTA
1 AACATAAGTGACTA
102718159 TTTTTGTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAATGTAACATAACA
Found at i:102718245 original size:18 final size:19
Alignment explanation
Indices: 102718218--102718255 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
102718208 ATTAATTAGT
*
102718218 ATCATTAATA-TTTTTGTA
1 ATCATCAATAGTTTTTGTA
102718236 ATCATCAATAGTTTTTGTA
1 ATCATCAATAGTTTTTGTA
102718255 A
1 A
102718256 ATATTAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (19 bp):
ATCATCAATAGTTTTTGTA
Found at i:102719464 original size:17 final size:17
Alignment explanation
Indices: 102719430--102719473 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
102719420 TAATTGGTTG
* *
102719430 AGAAAATAATTTATTTA
1 AGAAAATAATTAAATTA
102719447 AGAAAATAATTAAATTA
1 AGAAAATAATTAAATTA
102719464 A-ATAAATAAT
1 AGA-AAATAAT
102719474 GCTTTGGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (17 bp):
AGAAAATAATTAAATTA
Found at i:102722745 original size:38 final size:38
Alignment explanation
Indices: 102722686--102722791 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 38
102722676 CATTTTTAAG
*
102722686 AATAT-AAAGAATATATATAAGTATGTATATG-ATGTA-A
1 AATATGAAA-AATATATATAAGTATGTATAAGAAT-TAGA
* *
102722723 AATATGCATAAATATATGTAAGTA--TATAAGAATTATGA
1 AATATG-AAAAATATATATAAGTATGTATAAGAATTA-GA
*
102722761 AATATGAAAAATATATTTAAGTATGTATAAG
1 AATATGAAAAATATATATAAGTATGTATAAG
102722792 TACGTATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
36 7 0.12
37 22 0.39
38 20 0.35
39 8 0.14
ACGTcount: A:0.51, C:0.01, G:0.13, T:0.35
Consensus pattern (38 bp):
AATATGAAAAATATATATAAGTATGTATAAGAATTAGA
Found at i:102723184 original size:19 final size:17
Alignment explanation
Indices: 102723160--102723276 Score: 59
Period size: 16 Copynumber: 6.9 Consensus size: 17
102723150 TAATATTAGA
102723160 AAAATATATATAATAGTGT
1 AAAATATATATAATA-T-T
102723179 AAAATATAACTAATAATATT
1 AAAATAT-A-T-ATAATATT
*
102723199 AAAATATATACAATGA-T
1 AAAATATATATAAT-ATT
* * *
102723216 AATATATATAAAAGA-T
1 AAAATATATATAATATT
* *
102723232 -ATATGTATAT-ATAATT
1 AAAATATATATAAT-ATT
*
102723248 -ATATA-ATATAATATT
1 AAAATATATATAATATT
102723263 AAAATATA-ATAATA
1 AAAATATATATAATA
102723277 CGACATAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
14 1 0.01
15 16 0.20
16 19 0.24
17 17 0.21
18 2 0.03
19 8 0.10
20 9 0.11
21 2 0.03
22 6 0.08
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (17 bp):
AAAATATATATAATATT
Found at i:102723489 original size:3 final size:3
Alignment explanation
Indices: 102723474--102723512 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
102723464 AAGCATAAAC
* *
102723474 TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
102723513 CATTGGAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:102723668 original size:6 final size:6
Alignment explanation
Indices: 102723626--102723659 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
102723616 ATAAAAATAT
*
102723626 ATACTA ATACATA ATAGTA ATACTA ATACTA ATA
1 ATACTA ATAC-TA ATACTA ATACTA ATACTA ATA
102723660 ATACTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (6 bp):
ATACTA
Found at i:102724160 original size:11 final size:11
Alignment explanation
Indices: 102724144--102724179 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
102724134 GAAAAAAAAA
102724144 GAAGAGAGAGG
1 GAAGAGAGAGG
*
102724155 GAAGAGAGAAG
1 GAAGAGAGAGG
102724166 GAAGAGAGAAGG
1 GAAGAGAG-AGG
102724178 GA
1 GA
102724180 GGGGGGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:102726608 original size:25 final size:25
Alignment explanation
Indices: 102726509--102726596 Score: 158
Period size: 25 Copynumber: 3.5 Consensus size: 25
102726499 TATATATATT
* *
102726509 CGCACACATAGTGCCATAAAATTTC
1 CGCACACTTAGTGCCATACAATTTC
102726534 CGCACACTTAGTGCCATACAATTTC
1 CGCACACTTAGTGCCATACAATTTC
102726559 CGCACACTTAGTGCCATACAATTTC
1 CGCACACTTAGTGCCATACAATTTC
102726584 CGCACACTTAGTG
1 CGCACACTTAGTG
102726597 TCAAGTCATT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 61 1.00
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.26
Consensus pattern (25 bp):
CGCACACTTAGTGCCATACAATTTC
Found at i:102743487 original size:31 final size:31
Alignment explanation
Indices: 102743452--102743515 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
102743442 AGCTGAAAAT
102743452 TAACCAACAGTCTTGAAAACTAATTAACTGA
1 TAACCAACAGTCTTGAAAACTAATTAACTGA
*
102743483 TAACCAACAGTCTTGAAGACTAATTAACTGA
1 TAACCAACAGTCTTGAAAACTAATTAACTGA
102743514 TA
1 TA
102743516 CGTGAAACAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.27
Consensus pattern (31 bp):
TAACCAACAGTCTTGAAAACTAATTAACTGA
Found at i:102744319 original size:13 final size:13
Alignment explanation
Indices: 102744301--102744327 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
102744291 TTTGTTTACC
102744301 TCAAGTTATATTT
1 TCAAGTTATATTT
102744314 TCAAGTTATATTT
1 TCAAGTTATATTT
102744327 T
1 T
102744328 AATCATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TCAAGTTATATTT
Found at i:102751737 original size:25 final size:26
Alignment explanation
Indices: 102751694--102751749 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
102751684 AAATATAGTG
* *
102751694 ATAAATTTAAATTATATTAATATTAA
1 ATAAATTTAAATTATATTAAAATAAA
102751720 ATAAATTT-AATTATATTAAAATAAA
1 ATAAATTTAAATTATATTAAAATAAA
102751745 ATAAA
1 ATAAA
102751750 AATCCACCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 20 0.71
26 8 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
ATAAATTTAAATTATATTAAAATAAA
Found at i:102762259 original size:57 final size:57
Alignment explanation
Indices: 102762191--102762305 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
102762181 TTTATTTTTT
*
102762191 TTAAATATCTTTAAATGATGTTGATAAGTTTTAACTCAATTAGTATAGGCGTTGTTG
1 TTAAATATCTTTAAATGATGTTGACAAGTTTTAACTCAATTAGTATAGGCGTTGTTG
*
102762248 TTAAATATCTTTAAATGATGTTGACGAGTTTTAACTCAATTAGTATAGGCGTTGTTG
1 TTAAATATCTTTAAATGATGTTGACAAGTTTTAACTCAATTAGTATAGGCGTTGTTG
102762305 T
1 T
102762306 CAATGCAGAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.43
Consensus pattern (57 bp):
TTAAATATCTTTAAATGATGTTGACAAGTTTTAACTCAATTAGTATAGGCGTTGTTG
Done.