Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 88 of 91
Found at i:34155250 original size:2 final size:2
Alignment explanation
Indices: 34155243--34155285 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
34155233 TATACATTAA
34155243 AT AT AT AT AT AT AT -T AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34155283 AT A
1 AT A
34155286 CTGANNNNNN
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34155304 original size:2 final size:2
Alignment explanation
Indices: 34155299--34155336 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
34155289 ANNNNNNNNN
34155299 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34155337 GATTCAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34157314 original size:22 final size:22
Alignment explanation
Indices: 34157286--34157336 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
34157276 ATCTTTATTT
34157286 TTATATATATT-TTAATATAATTAA
1 TTATAT-TATTATTAATATAA--AA
*
34157310 TTATATTATTATTATTATAAAA
1 TTATATTATTATTAATATAAAA
34157332 TTATA
1 TTATA
34157337 AAACCTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 7 0.28
23 4 0.16
24 14 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATATTATTATTAATATAAAA
Found at i:34158899 original size:2 final size:2
Alignment explanation
Indices: 34158886--34158934 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
34158876 ATCAATGATG
*
34158886 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34158928 AT AT AT A
1 AT AT AT A
34158935 GCAGCCACCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:34162816 original size:22 final size:20
Alignment explanation
Indices: 34162791--34162834 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
34162781 TATATAAAAT
*
34162791 TTTTATTTTTCTCCCTTTCTTC
1 TTTTATTTTCCT-CCTTT-TTC
*
34162813 TTTTGTTTTCCTCCTTTTTC
1 TTTTATTTTCCTCCTTTTTC
34162833 TT
1 TT
34162835 AACCATCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 5 0.25
22 10 0.50
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTATTTTCCTCCTTTTTC
Found at i:34193673 original size:49 final size:49
Alignment explanation
Indices: 34193617--34193713 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
34193607 GTTTTTATAA
34193617 TAGAATCTTATTATTCATGAAATACAATTTCATAATTAAAAAAATTAAG
1 TAGAATCTTATTATTCATGAAATACAATTTCATAATTAAAAAAATTAAG
*
34193666 TAGAATCTTATTATTCATGGAATACAATTTCATAATTAAAAAAATTAA
1 TAGAATCTTATTATTCATGAAATACAATTTCATAATTAAAAAAATTAA
34193714 CGTGTTTTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.37
Consensus pattern (49 bp):
TAGAATCTTATTATTCATGAAATACAATTTCATAATTAAAAAAATTAAG
Found at i:34207317 original size:2 final size:2
Alignment explanation
Indices: 34207312--34207343 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
34207302 TTTTGTCTGA
*
34207312 AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34207344 TTACATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34210896 original size:56 final size:56
Alignment explanation
Indices: 34210801--34210910 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
34210791 AGTATCTTTC
* *
34210801 TGGCATTTACCATGCCTTTCTCTTTGTTCAGGGGGCTAGAGTTTGTTAAAAAAATT
1 TGGCATTTACCATGCCTTTCTCTTTGTTCAGGGGACTAGAGATTGTTAAAAAAATT
* *
34210857 TGGCATTTACCATGCCTTTCTCTTTGTTGAGGTGACTAGAGATTGTTAAAAAAA
1 TGGCATTTACCATGCCTTTCTCTTTGTTCAGGGGACTAGAGATTGTTAAAAAAA
34210911 ATTTCTCTGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.38
Consensus pattern (56 bp):
TGGCATTTACCATGCCTTTCTCTTTGTTCAGGGGACTAGAGATTGTTAAAAAAATT
Found at i:34213477 original size:27 final size:28
Alignment explanation
Indices: 34213447--34213622 Score: 89
Period size: 32 Copynumber: 6.3 Consensus size: 28
34213437 GACATTAAAG
* *
34213447 TGTAACAA-AATATTTTTGAATATGACA
1 TGTAACAACAATATTTTTCAACATGACA
* *
34213474 TGTAACAATAATATTTTTTCAACATGACG
1 TGTAACAACAATA-TTTTTCAACATGACA
* *
34213503 TGTAACAACAGTATTTTTTTTTCAACCTGACA
1 TGTAACAACA--A--TATTTTTCAACATGACA
* * *
34213535 TGTAACAAC--T-TTTTTTAACCATAACG
1 TGTAACAACAATATTTTTCAA-CATGACA
** *
34213561 TGT---AAC-ATATTTTTGTACATGACG
1 TGTAACAACAATATTTTTCAACATGACA
* *
34213585 TGTAACAATAATATTTTTTTCAACATGACG
1 TGTAACAACAATA--TTTTTCAACATGACA
*
34213615 TATAACAA
1 TGTAACAA
34213623 TTTAATTATG
Statistics
Matches: 116, Mismatches: 18, Indels: 27
0.72 0.11 0.17
Matches are distributed among these distances:
23 3 0.03
24 10 0.09
25 13 0.11
26 8 0.07
27 10 0.09
28 7 0.06
29 21 0.18
30 20 0.17
31 1 0.01
32 22 0.19
33 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (28 bp):
TGTAACAACAATATTTTTCAACATGACA
Found at i:34213501 original size:29 final size:29
Alignment explanation
Indices: 34213446--34213623 Score: 135
Period size: 26 Copynumber: 6.3 Consensus size: 29
34213436 AGACATTAAA
* *
34213446 GTGTAACAA-AATA-TTTTTGAATATGAC
1 GTGTAACAATAATATTTTTTCAACATGAC
*
34213473 ATGTAACAATAATATTTTTTCAACATGAC
1 GTGTAACAATAATATTTTTTCAACATGAC
* * *
34213502 GTGTAACAACAGTATTTTTTTTTCAACCTGAC
1 GTGTAAC-A-A-TAATATTTTTTCAACATGAC
* * *
34213534 ATGTAAC-A-ACT-TTTTTT-AACCATAAC
1 GTGTAACAATAATATTTTTTCAA-CATGAC
*
34213560 GTGTAAC-AT-AT-TTTTGT--ACATGAC
1 GTGTAACAATAATATTTTTTCAACATGAC
34213584 GTGTAACAATAATATTTTTTTCAACATGAC
1 GTGTAACAATAATA-TTTTTTCAACATGAC
*
34213614 GTATAACAAT
1 GTGTAACAAT
34213624 TTAATTATGA
Statistics
Matches: 121, Mismatches: 17, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
24 12 0.10
25 5 0.04
26 25 0.21
27 10 0.08
28 9 0.07
29 19 0.16
30 17 0.14
31 1 0.01
32 23 0.19
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (29 bp):
GTGTAACAATAATATTTTTTCAACATGAC
Found at i:34213585 original size:24 final size:24
Alignment explanation
Indices: 34213558--34213690 Score: 85
Period size: 24 Copynumber: 5.4 Consensus size: 24
34213548 TTTAACCATA
34213558 ACGTGTAACATATTTTTGTACATG
1 ACGTGTAACATATTTTTGTACATG
*
34213582 ACGTGTAACAATAATATTTTTTTCAACATG
1 ACGTGTAAC----ATATTTTTGT--ACATG
* *
34213612 ACGTATAACA-ATTTAAT-T--ATG
1 ACGTGTAACATATTT-TTGTACATG
*
34213633 ACGTGTCACATATTTTTGTACATG
1 ACGTGTAACATATTTTTGTACATG
* * * * *
34213657 ACGTATCACATATTTCTGTATATA
1 ACGTGTAACATATTTTTGTACATG
*
34213681 ATGTGTAACA
1 ACGTGTAACA
34213691 ACCTAATTAT
Statistics
Matches: 85, Mismatches: 13, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
21 12 0.14
22 5 0.06
24 39 0.46
25 5 0.06
26 2 0.02
28 9 0.11
30 13 0.15
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.40
Consensus pattern (24 bp):
ACGTGTAACATATTTTTGTACATG
Found at i:34213585 original size:82 final size:75
Alignment explanation
Indices: 34213495--34213660 Score: 188
Period size: 75 Copynumber: 2.1 Consensus size: 75
34213485 TATTTTTTCA
* * *
34213495 ACATGACGTGTAACAACAGTATTTTTTTTTCAACCTGACATGTAACAACTTTTTTTAACCATAAC
1 ACATGACGTGTAACAACA--ATATTTTTTTCAACATGACATATAACAA-----TTTAACCATAAC
34213560 GTGTAACATATTTTTGT
59 GTGTAACATATTTTTGT
* * ** * *
34213577 ACATGACGTGTAACAATAATATTTTTTTCAACATGACGTATAACAATTTAATTATGACGTGTCAC
1 ACATGACGTGTAACAACAATATTTTTTTCAACATGACATATAACAATTTAACCATAACGTGTAAC
34213642 ATATTTTTGT
66 ATATTTTTGT
34213652 ACATGACGT
1 ACATGACGT
34213661 ATCACATATT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
75 34 0.45
80 24 0.32
82 17 0.23
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (75 bp):
ACATGACGTGTAACAACAATATTTTTTTCAACATGACATATAACAATTTAACCATAACGTGTAAC
ATATTTTTGT
Found at i:34213855 original size:14 final size:13
Alignment explanation
Indices: 34213829--34213860 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
34213819 AAAATTATAA
34213829 AAAATATTATTTTT
1 AAAA-ATTATTTTT
34213843 AAAAATTATTTTT
1 AAAAATTATTTTT
34213856 AAAAA
1 AAAAA
34213861 GCTCCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:34214816 original size:5 final size:5
Alignment explanation
Indices: 34214806--34214838 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
34214796 CACTTTCCCG
34214806 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
34214839 CCCTCAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:34218402 original size:67 final size:67
Alignment explanation
Indices: 34218301--34218540 Score: 208
Period size: 68 Copynumber: 3.5 Consensus size: 67
34218291 ATATTAACAT
**
34218301 TTATTTAATTTAAATATTATTA-TGATTAATTTTTATTTATTTTA-TTTTTTTAAAATATTAATA
1 TTATTT-ATTTAAATATTAAAATTGA-TAA-TTTTATTTATTTTATTTTTTTTAAAATATTAATA
34218364 ATTGA
63 ATTGA
*
34218369 TAATTTATTTAAATATTAAAATTTGATAATTTTAATATTAATATTTATTTATTTTTTAAAATATT
1 TTATTTATTTAAATATTAAAA-TTGATAATTTT-AT-TT-AT-TTTA-TT-TTTTTTAAAATATT
34218434 AAT-ATT--
59 AATAATTGA
** * *
34218440 TTATTTAATTTAAATATTATGA-TGATCAATTAT-TTTATTTTATTTTATTTTTGAAA-ATTAAT
1 TTATTT-ATTTAAATATTAAAATTGAT-AATTTTATTTATTTTA-TTT-TTTTTAAAATATTAAT
34218502 AATTGA
62 AATTGA
*
34218508 TTATTTATTTAAAATATTAATAATAGATAATTT
1 TTATTTATTT-AAATATTAA-AATTGATAATTT
34218541 AAATATTAAT
Statistics
Matches: 142, Mismatches: 12, Indels: 35
0.75 0.06 0.19
Matches are distributed among these distances:
65 7 0.05
66 18 0.13
67 23 0.16
68 26 0.18
69 11 0.08
70 9 0.06
71 14 0.10
72 13 0.09
73 4 0.03
74 17 0.12
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (67 bp):
TTATTTATTTAAATATTAAAATTGATAATTTTATTTATTTTATTTTTTTTAAAATATTAATAATT
GA
Found at i:34218418 original size:26 final size:26
Alignment explanation
Indices: 34218338--34218458 Score: 84
Period size: 26 Copynumber: 5.0 Consensus size: 26
34218328 AATTTTTATT
*
34218338 TATTTTATTT-T-TTTAAAATATTAA
1 TATTTTATTTATATTTTAAATATTAA
* *
34218362 TAATTGATAATT-TA-TTTAAATATTAA
1 T-ATT-TTATTTATATTTTAAATATTAA
* *
34218388 AATTTGA--TA-ATTTT-AATATTAA
1 TATTTTATTTATATTTTAAATATTAA
*
34218410 TA-TTTATTTATTTTTTAAAATATTAA
1 TATTTTATTTATATTTT-AAATATTAA
34218436 TATTTTATTTA-A-TTTAAATATTA
1 TATTTTATTTATATTTTAAATATTA
34218459 TGATGATCAA
Statistics
Matches: 76, Mismatches: 10, Indels: 22
0.70 0.09 0.20
Matches are distributed among these distances:
21 3 0.04
22 11 0.14
23 5 0.07
24 14 0.18
25 9 0.12
26 26 0.34
27 8 0.11
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
TATTTTATTTATATTTTAAATATTAA
Found at i:34218451 original size:112 final size:112
Alignment explanation
Indices: 34218234--34218451 Score: 248
Period size: 112 Copynumber: 1.9 Consensus size: 112
34218224 TTTTATTAGA
*
34218234 TTTTTAAAATATTAATAATCTAGAATTTAATTAAAATATTAATAATAAATCATTTAAATATTAAC
1 TTTTTAAAATATTAATAATCTAGAATTTAATTAAAATATTAATAATAAATAATTTAAATATTAAC
* *
34218299 ATTTATTTAATTTAAATATTATTATGATTAATTTTTATTTATTTTATT
66 ATTTATTTAATTTAAATATTAATAT-ATTAATTTTAATTTATTTTATT
* * ** *
34218347 TTTTTAAAATATTAATAAT-TGATAATTT-ATTTAAATATTAA-AATTTGATAATTTTAATATTA
1 TTTTTAAAATATTAATAATCT-AGAATTTAATTAAAATATTAATAA-TAAATAATTTAAATATTA
* * *
34218409 ATATTTATTTATTTTTTAAAATATTAATAT-TTTA-TTTAATTTA
64 ACATTTATTTA--ATTT-AAATATTAATATATTAATTTTAATTTA
34218452 AATATTATGA
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
111 2 0.02
112 45 0.51
113 28 0.31
114 3 0.03
115 11 0.12
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (112 bp):
TTTTTAAAATATTAATAATCTAGAATTTAATTAAAATATTAATAATAAATAATTTAAATATTAAC
ATTTATTTAATTTAAATATTAATATATTAATTTTAATTTATTTTATT
Found at i:34218455 original size:139 final size:139
Alignment explanation
Indices: 34218289--34218556 Score: 393
Period size: 139 Copynumber: 1.9 Consensus size: 139
34218279 TAAATCATTT
* *
34218289 AAATATTAACATTTATTTAATTTAAATATTATTATGATTAA-T-TTTTA-TTTATTTTATTTTTT
1 AAATATTAACATTTATTTAATTTAAATATTATGATGATCAATTATTTTATTTTATTTTA--TTTT
* *
34218351 TAAAATATTAATAATTGATAATTTATTT-AAATATTAA-AATTTGATAATTTTAATATTAATATT
64 TAAAA-ATTAATAATTGATAATTTATTTAAAATATTAATAA-TAGATAATTTAAATATTAATATT
34218414 TATTTATTTTTTA
127 TATTTATTTTTTA
*
34218427 AAATATTAATATTTTATTTAATTTAAATATTATGATGATCAATTATTTTATTTTATTTTATTTTT
1 AAATATTAACA-TTTATTTAATTTAAATATTATGATGATCAATTATTTTATTTTATTTTATTTTT
* *
34218492 GAAAATTAATAATTGATTATTTATTTAAAATATTAATAATAGATAATTTAAATATTAATATTTAT
65 AAAAATTAATAATTGATAATTTATTTAAAATATTAATAATAGATAATTTAAATATTAATATTTAT
34218557 AATTTANNNN
Statistics
Matches: 117, Mismatches: 7, Indels: 10
0.87 0.05 0.07
Matches are distributed among these distances:
138 10 0.09
139 49 0.42
140 42 0.36
141 7 0.06
142 9 0.08
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (139 bp):
AAATATTAACATTTATTTAATTTAAATATTATGATGATCAATTATTTTATTTTATTTTATTTTTA
AAAATTAATAATTGATAATTTATTTAAAATATTAATAATAGATAATTTAAATATTAATATTTATT
TATTTTTTA
Found at i:34218633 original size:27 final size:27
Alignment explanation
Indices: 34218496--34218642 Score: 98
Period size: 27 Copynumber: 5.7 Consensus size: 27
34218486 ATTTTTGAAA
34218496 ATTAATAATTGATTATTTATTTAAAAT
1 ATTAATAATTGATTATTTATTTAAAAT
*
34218523 ATTAATAATAGA-TA---ATTT-AAAT
1 ATTAATAATTGATTATTTATTTAAAAT
* * **** *
34218545 ATTAAT-ATTTATAATTTANNNNNAATT
1 ATTAATAATTGATTATTTA-TTTAAAAT
* *
34218572 ATT--TTATT-TTTATTTATTTTGAAAA-
1 ATTAATAATTGATTATTTA-TTT-AAAAT
34218597 ATTAATAATTGATTATTTATTTAAAAT
1 ATTAATAATTGATTATTTATTTAAAAT
*
34218624 ATTAATAATTGATAATTTA
1 ATTAATAATTGATTATTTA
34218643 ATATTAATAT
Statistics
Matches: 89, Mismatches: 19, Indels: 24
0.67 0.14 0.18
Matches are distributed among these distances:
21 3 0.03
22 11 0.12
23 4 0.04
25 11 0.12
26 11 0.12
27 42 0.47
28 7 0.08
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.50
Consensus pattern (27 bp):
ATTAATAATTGATTATTTATTTAAAAT
Found at i:34218661 original size:45 final size:44
Alignment explanation
Indices: 34218609--34218727 Score: 124
Period size: 45 Copynumber: 2.8 Consensus size: 44
34218599 TAATAATTGA
34218609 TTATTTATTTAAAATATTAATAATTGATAATTTAATATTAATATT
1 TTATTTATTTAAAATATTAATAATTGATAATTTAATATT-ATATT
* * * ** *
34218654 TTATTTATTTAAAAT-TTTATTA-TGATTATTTTTTATTTTATT
1 TTATTTATTTAAAATATTAATAATTGATAATTTAATATTATATT
*
34218696 TTA-TT-TTT--AATATTAATAATTGGTAATTTAAT
1 TTATTTATTTAAAATATTAATAATTGATAATTTAAT
34218728 TTACAATTTA
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
38 3 0.05
39 5 0.08
40 11 0.18
41 2 0.03
42 7 0.12
43 12 0.20
44 5 0.08
45 15 0.25
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (44 bp):
TTATTTATTTAAAATATTAATAATTGATAATTTAATATTATATT
Found at i:34218689 original size:101 final size:100
Alignment explanation
Indices: 34218467--34218692 Score: 298
Period size: 101 Copynumber: 2.2 Consensus size: 100
34218457 TATGATGATC
*
34218467 AATTATTTTATTTTATTTTATTTTTGAAAATTAATAATTGATTATTTATTTAAAATATTAATAAT
1 AATTATTTTATTTTTTTTTA-TTTTGAAAATTAATAATTGATTATTTATTTAAAATATTAATAAT
*****
34218532 AGATAATTTAAATATTAATATTTATAATTTANNNNN
65 AGATAATTTAAATATTAATATTTATAATTTATTTAA
*
34218568 AATTATTTTATTTTTATTTATTTTGAAAAATTAATAATTGATTATTTATTTAAAATATTAATAAT
1 AATTATTTTATTTTTTTTTATTTTG-AAAATTAATAATTGATTATTTATTTAAAATATTAATAAT
*
34218633 TGATAATTT-AATATTAATATTT-T-ATTTATTTAA
65 AGATAATTTAAATATTAATATTTATAATTTATTTAA
34218666 AATT-TTATTATGATTATTTTTTATTTT
1 AATTATT-TTAT--TT-TTTTTTATTTT
34218693 ATTTTATTTT
Statistics
Matches: 111, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
97 2 0.02
98 13 0.12
99 1 0.01
100 20 0.18
101 75 0.68
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.56
Consensus pattern (100 bp):
AATTATTTTATTTTTTTTTATTTTGAAAATTAATAATTGATTATTTATTTAAAATATTAATAATA
GATAATTTAAATATTAATATTTATAATTTATTTAA
Found at i:34218759 original size:83 final size:83
Alignment explanation
Indices: 34218612--34218772 Score: 193
Period size: 83 Copynumber: 1.9 Consensus size: 83
34218602 TAATTGATTA
* *
34218612 TTTATTTAAAATATTAATAATTGATAATTTAATATTAATATTTTATTTATTTAAAATTTTATTAT
1 TTTATTTAAAATATTAATAATTGATAATTTAATATTAATATTTAATTTATTTAAAATTTAATTAT
*
34218677 GATTATTTTTTATTTTAT
66 GAATATTTTTTATTTTAT
** * **
34218695 TTTATTTTTAATATTAATAATTGGTAATTTAAT-TTACA-ATTTAAATATTA-TTATGATTTAAT
1 TTTATTTAAAATATTAATAATTGATAATTTAATATTA-ATATTT-AAT-TTATTTAAAATTTAAT
*
34218757 TATTAATATTTTTTAT
63 TATGAATATTTTTTAT
34218773 CTAATTTAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
82 7 0.11
83 56 0.85
84 3 0.05
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (83 bp):
TTTATTTAAAATATTAATAATTGATAATTTAATATTAATATTTAATTTATTTAAAATTTAATTAT
GAATATTTTTTATTTTAT
Found at i:34218854 original size:22 final size:22
Alignment explanation
Indices: 34218829--34218882 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
34218819 TTTAAATAGG
* **
34218829 AATAATTTATAATTTATTTATT
1 AATAATTTATAATTAAAATATT
*
34218851 AATAATTGATAATTAAAATATT
1 AATAATTTATAATTAAAATATT
*
34218873 AATATTTTAT
1 AATAATTTAT
34218883 TTATAATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AATAATTTATAATTAAAATATT
Found at i:34218915 original size:25 final size:25
Alignment explanation
Indices: 34218867--34218915 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
34218857 TGATAATTAA
* *
34218867 AATATTAATATTTTATTTATAATTT
1 AATATTAATATTTTATTAAAAATTT
34218892 AATATTAATATTTTATTAAAAATT
1 AATATTAATATTTTATTAAAAATT
34218916 GGAATCAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
AATATTAATATTTTATTAAAAATTT
Found at i:34219126 original size:17 final size:16
Alignment explanation
Indices: 34219104--34219137 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
34219094 GATTTTGAAT
34219104 AATAGCCATTCCTATGG
1 AATAGCCATTCCT-TGG
*
34219121 AATAGCTATTCCTTGG
1 AATAGCCATTCCTTGG
34219137 A
1 A
34219138 TCATTTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (16 bp):
AATAGCCATTCCTTGG
Found at i:34221313 original size:19 final size:20
Alignment explanation
Indices: 34221289--34221328 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
34221279 GTATACAGCA
34221289 TAACCAGTCAT-A-TGCACAT
1 TAACCA-TCATCAGTGCACAT
34221308 TAACCATCATCAGTGCACAT
1 TAACCATCATCAGTGCACAT
34221328 T
1 T
34221329 TAAACATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.28
Consensus pattern (20 bp):
TAACCATCATCAGTGCACAT
Found at i:34221404 original size:2 final size:2
Alignment explanation
Indices: 34221397--34221444 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
34221387 ATCCATGTTT
34221397 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34221439 GA GA GA
1 GA GA GA
34221445 CGACNNNNNN
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34221525 original size:2 final size:2
Alignment explanation
Indices: 34221518--34221561 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
34221508 NNNNNNNNNN
34221518 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34221560 GA
1 GA
34221562 CCTGGATCCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34229597 original size:49 final size:49
Alignment explanation
Indices: 34229535--34229633 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
34229525 AGAGATCTGA
*
34229535 TTACCTGAATTTGATGGTTCTTAAGCAAAGGATGATCAAAGGCTGGTTG
1 TTACATGAATTTGATGGTTCTTAAGCAAAGGATGATCAAAGGCTGGTTG
34229584 TTACATGAATTTGATGGTTCTTAAGCAAAGGATGATCAAAGGCTGGTTG
1 TTACATGAATTTGATGGTTCTTAAGCAAAGGATGATCAAAGGCTGGTTG
34229633 T
1 T
34229634 CTATGGATAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.33
Consensus pattern (49 bp):
TTACATGAATTTGATGGTTCTTAAGCAAAGGATGATCAAAGGCTGGTTG
Found at i:34234047 original size:19 final size:19
Alignment explanation
Indices: 34233991--34234051 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
34233981 TTTAATTATG
34233991 ATTTTAAATTTA--AATTTA
1 ATTTT-AATTTATTAATTTA
* * *
34234009 AATTTATTTTTTTGAA-TTA
1 ATTTTAATTTATT-AATTTA
34234028 ATTTTAATTTATTAATTTA
1 ATTTTAATTTATTAATTTA
34234047 ATTTT
1 ATTTT
34234052 TATTAATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 4 0.12
18 6 0.18
19 21 0.64
20 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTAATTTATTAATTTA
Found at i:34239648 original size:15 final size:15
Alignment explanation
Indices: 34239609--34239651 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
34239599 TTTACAATGT
* *
34239609 AATGTGATTGCAAGT
1 AATGTGATTGTAAGC
* *
34239624 AATATAATTGTAAGC
1 AATGTGATTGTAAGC
34239639 AATGTGATTGTAA
1 AATGTGATTGTAA
34239652 AAAAAATAAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (15 bp):
AATGTGATTGTAAGC
Found at i:34239906 original size:17 final size:15
Alignment explanation
Indices: 34239806--34239947 Score: 54
Period size: 15 Copynumber: 9.9 Consensus size: 15
34239796 TTTAATATAC
*
34239806 TTATATTTTTTATTA
1 TTATATATTTTATTA
*
34239821 TTA-AT-TTGTA-TA
1 TTATATATTTTATTA
* *
34239833 TAATATTATTTT-TAA
1 TTATA-TATTTTATTA
* *
34239848 ATATAT-TTTTAATA
1 TTATATATTTTATTA
* *
34239862 TCATATATTTTATTT
1 TTATATATTTTATTA
*
34239877 TTAT-TATTATATTAGA
1 TTATATATTTTATT--A
34239893 TTATATATTTTA-T-
1 TTATATATTTTATTA
* *
34239906 TTACAT-TTCT-TTA
1 TTATATATTTTATTA
* *
34239919 ATATA-ATTTTTTATA
1 TTATATATTTTAT-TA
34239934 TTATATATTTTATT
1 TTATATATTTTATT
34239948 TTAATTTCTT
Statistics
Matches: 89, Mismatches: 23, Indels: 30
0.63 0.16 0.21
Matches are distributed among these distances:
12 8 0.09
13 20 0.22
14 18 0.20
15 26 0.29
16 11 0.12
17 6 0.07
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (15 bp):
TTATATATTTTATTA
Found at i:34239970 original size:33 final size:33
Alignment explanation
Indices: 34239930--34240021 Score: 107
Period size: 33 Copynumber: 2.7 Consensus size: 33
34239920 TATAATTTTT
34239930 TATATTATATATTTTATTTTAATTTCTTT-TACC
1 TATATTATATATTTTATTTTAATTT-TTTATACC
***
34239963 TATATTATATAAATTTTATTTT-ATTTTTTAATTTT
1 TATATTATAT--ATTTTATTTTAATTTTTT-ATACC
34239998 TATATTATATATTTTATTTTAATT
1 TATATTATATATTTTATTTTAATT
34240022 ATAACATTAC
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
33 23 0.45
34 7 0.14
35 21 0.41
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.66
Consensus pattern (33 bp):
TATATTATATATTTTATTTTAATTTTTTATACC
Found at i:34274813 original size:2 final size:2
Alignment explanation
Indices: 34274806--34274882 Score: 117
Period size: 2 Copynumber: 40.0 Consensus size: 2
34274796 ATAATAATAC
34274806 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TNA TA -A TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
34274847 -A TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34274883 ATGTGAAATG
Statistics
Matches: 70, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
1 4 0.06
2 64 0.91
3 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:34274857 original size:45 final size:44
Alignment explanation
Indices: 34274793--34274882 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 44
34274783 TATTAAAATA
*
34274793 ATAATAATAATACTATATATATATATATATATATATATATATAT
1 ATAATAATAATAATATATATATATATATATATATATATATATAT
34274837 NATAATAATAATAATATATATATATATATATATATATATATATAT
1 -ATAATAATAATAATATATATATATATATATATATATATATATAT
34274882 A
1 A
34274883 ATGTGAAATG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 1 0.02
45 43 0.98
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.44
Consensus pattern (44 bp):
ATAATAATAATAATATATATATATATATATATATATATATATAT
Found at i:34281802 original size:2 final size:2
Alignment explanation
Indices: 34281795--34281826 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
34281785 CACCTGTATC
*
34281795 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34281827 AAGTAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34288247 original size:69 final size:69
Alignment explanation
Indices: 34288136--34288269 Score: 232
Period size: 69 Copynumber: 1.9 Consensus size: 69
34288126 CATGCCTGTT
* * * *
34288136 TGAAGGGACAAAGGGTATGTTCCAGATTTTGTTAAACAGGATTAGTGCTTCTACAATTTGAGAGG
1 TGAAGGAACAAAGGGTATGGTCCAGATTCTGTTAAACAGGATTAGTGCTTCTACAAATTGAGAGG
34288201 TGTA
66 TGTA
34288205 TGAAGGAACAAAGGGTATGGTCCAGATTCTGTTAAACAGGATTAGTGCTTCTACAAATTGAGAGG
1 TGAAGGAACAAAGGGTATGGTCCAGATTCTGTTAAACAGGATTAGTGCTTCTACAAATTGAGAGG
34288270 CTGATTTGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.29
Consensus pattern (69 bp):
TGAAGGAACAAAGGGTATGGTCCAGATTCTGTTAAACAGGATTAGTGCTTCTACAAATTGAGAGG
TGTA
Found at i:34295365 original size:18 final size:18
Alignment explanation
Indices: 34295329--34295366 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
34295319 ATGTAAGATC
*
34295329 ATATTTTATTTAATTCTA
1 ATATTTTATTTAATGCTA
34295347 ATATTTTAATTT-ATGCTA
1 ATATTTT-ATTTAATGCTA
34295365 AT
1 AT
34295367 GAGTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (18 bp):
ATATTTTATTTAATGCTA
Found at i:34300129 original size:16 final size:18
Alignment explanation
Indices: 34300101--34300137 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
34300091 TAATTTTTAA
34300101 TTATAATTTAG-TTATTT
1 TTATAATTTAGTTTATTT
34300118 TTATAA-TTAGTTTATTT
1 TTATAATTTAGTTTATTT
34300135 TTA
1 TTA
34300138 GTGAGTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TTATAATTTAGTTTATTT
Found at i:34302261 original size:2 final size:2
Alignment explanation
Indices: 34302251--34302286 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
34302241 GTATGTGTGC
*
34302251 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34302287 TTGTAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34306312 original size:17 final size:18
Alignment explanation
Indices: 34306290--34306331 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
34306280 TTTTATTAAT
34306290 TATTTTTT-ATTTTTATA
1 TATTTTTTAATTTTTATA
34306307 TATTTTTTAATTTTTATA
1 TATTTTTTAATTTTTATA
34306325 TATTTTT
1 TATTTTT
34306332 AATATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTTTTTAATTTTTATA
Found at i:34306315 original size:11 final size:10
Alignment explanation
Indices: 34306297--34306336 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
34306287 AATTATTTTT
34306297 TATTTTTATA
1 TATTTTTATA
34306307 TATTTTT-TA
1 TATTTTTATA
34306316 -ATTTTTATA
1 TATTTTTATA
34306325 TATTTTTA-A
1 TATTTTTATA
34306334 TAT
1 TAT
34306337 AATAAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 6 0.21
9 8 0.29
10 14 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTTTTATA
Found at i:34306831 original size:22 final size:21
Alignment explanation
Indices: 34306793--34306834 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
34306783 TTATATCTAT
34306793 AAAAATATTTTACAAAATATA
1 AAAAATATTTTACAAAATATA
34306814 AAAATATATTATTA-AAAATAT
1 AAAA-ATATT-TTACAAAATAT
34306835 TTTTAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 12 0.63
23 3 0.16
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAAATATTTTACAAAATATA
Found at i:34309442 original size:30 final size:30
Alignment explanation
Indices: 34309406--34309471 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
34309396 CCGTACAAGG
34309406 GTGGAGCACAAACCTAACACTAAACAGAGC
1 GTGGAGCACAAACCTAACACTAAACAGAGC
34309436 GTGGAGCACAAACCTAACACTAAACAGAGC
1 GTGGAGCACAAACCTAACACTAAACAGAGC
34309466 GTGGAG
1 GTGGAG
34309472 AGCATCAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.11
Consensus pattern (30 bp):
GTGGAGCACAAACCTAACACTAAACAGAGC
Found at i:34320254 original size:2 final size:2
Alignment explanation
Indices: 34320247--34320290 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
34320237 AACAACTGCC
* *
34320247 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AC AG AC AG AG -G
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
34320288 AG A
1 AG A
34320291 CCGGATCGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.05, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34345608 original size:2 final size:2
Alignment explanation
Indices: 34345601--34345634 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
34345591 ATCTATCACC
34345601 CT CT CT 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 CT CT CT
34345635 AAATCTGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:34346089 original size:2 final size:2
Alignment explanation
Indices: 34346082--34346126 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
34346072 TAGTAGTAGT
*
34346082 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG -G
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
34346123 AG AG
1 AG AG
34346127 GAGGAAAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34354221 original size:7 final size:7
Alignment explanation
Indices: 34354209--34354242 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
34354199 GAGCCGTTTG
34354209 TTTTTAT
1 TTTTTAT
34354216 TTTTTAT
1 TTTTTAT
34354223 TTTTTAT
1 TTTTTAT
34354230 TTTTTAT
1 TTTTTAT
34354237 TTTTTA
1 TTTTTA
34354243 AGAAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:34356497 original size:30 final size:31
Alignment explanation
Indices: 34356463--34356528 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
34356453 AATCAAATCT
*
34356463 TTATAC-TTTTAGTTTGAACCAAATAAATTC
1 TTATACTTTTTAGTTTGAACCAAATAAACTC
* *
34356493 TTATACTTTTTATTTTGAATCAAATAAACTC
1 TTATACTTTTTAGTTTGAACCAAATAAACTC
34356524 TTATA
1 TTATA
34356529 ACTAATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (31 bp):
TTATACTTTTTAGTTTGAACCAAATAAACTC
Found at i:34358594 original size:2 final size:2
Alignment explanation
Indices: 34358587--34358620 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
34358577 TTTGTTCAAT
34358587 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34358621 GGGTTGAGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34385099 original size:2 final size:2
Alignment explanation
Indices: 34385092--34385135 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
34385082 CACTTGAGTT
34385092 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG -G AG -G
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
34385131 AG AG A
1 AG AG A
34385136 AGAAGAANNN
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 3 0.08
2 36 0.92
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34385215 original size:2 final size:2
Alignment explanation
Indices: 34385208--34385248 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
34385198 NNNNNNNNNN
34385208 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
34385249 GCATATGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34385496 original size:22 final size:21
Alignment explanation
Indices: 34385454--34385497 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
34385444 ATCACAACCA
**
34385454 TCATAATCTCCTTCTCCTTCT
1 TCATAATCTCCTTCTAATTCT
34385475 TCATAATCTTCCTTCTAATTCT
1 TCATAATC-TCCTTCTAATTCT
34385497 T
1 T
34385498 TCTTCTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.50
Consensus pattern (21 bp):
TCATAATCTCCTTCTAATTCT
Found at i:34398252 original size:15 final size:15
Alignment explanation
Indices: 34398232--34398261 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34398222 GTAAAGGTGA
34398232 TAGCTTGCATTGTTG
1 TAGCTTGCATTGTTG
34398247 TAGCTTGCATTGTTG
1 TAGCTTGCATTGTTG
34398262 CCAGGTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.47
Consensus pattern (15 bp):
TAGCTTGCATTGTTG
Found at i:34403221 original size:14 final size:13
Alignment explanation
Indices: 34403171--34403218 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
34403161 TATTACAAAC
34403171 AAATAAATTACACT
1 AAATAAATTACA-T
* * *
34403185 AAATATAAATAAAC
1 AAATA-AATTACAT
34403199 AAATAAATTACAT
1 AAATAAATTACAT
34403212 AAATAAA
1 AAATAAA
34403219 ATTTAAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
13 12 0.44
14 10 0.37
15 5 0.19
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATAAATTACAT
Found at i:34403226 original size:32 final size:28
Alignment explanation
Indices: 34403167--34403220 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
34403157 AATATATTAC
34403167 AAACAAATAAATTACACTAAATATAAAT
1 AAACAAATAAATTACACTAAATATAAAT
34403195 AAACAAATAAATTACA-TAAATA-AAAT
1 AAACAAATAAATTACACTAAATATAAAT
34403221 TTAAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 4 0.15
27 6 0.23
28 16 0.62
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (28 bp):
AAACAAATAAATTACACTAAATATAAAT
Found at i:34403526 original size:22 final size:22
Alignment explanation
Indices: 34403493--34403563 Score: 63
Period size: 26 Copynumber: 3.0 Consensus size: 22
34403483 AAATAAATAA
34403493 TAAATAA-TAAATTATTAATTT
1 TAAATAATTAAATTATTAATTT
* *
34403514 TATATAATTAAATATATAAATTAAT
1 TAAATAATTAAAT-TATTAATT--T
*
34403539 TAAATTAATTAAAATTATTATTTT
1 TAAA-TAATT-AAATTATTAATTT
34403563 T
1 T
34403564 TAACCCACAT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
21 6 0.15
22 5 0.13
23 7 0.18
24 2 0.05
25 4 0.10
26 11 0.28
27 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAATAATTAAATTATTAATTT
Found at i:34416358 original size:3 final size:3
Alignment explanation
Indices: 34416350--34416385 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
34416340 TTCTTAGAGG
34416350 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
34416386 ATAGCGGTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:34417228 original size:30 final size:30
Alignment explanation
Indices: 34417194--34417253 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
34417184 CATTAATTAT
34417194 ATATAACAG-TTCATTTGATTTAAAATAAAA
1 ATATAA-AGATTCATTTGATTTAAAATAAAA
*
34417224 ATATAAAGATTTATTTGATTTAAAATAAAA
1 ATATAAAGATTCATTTGATTTAAAATAAAA
34417254 CGATAAGTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (30 bp):
ATATAAAGATTCATTTGATTTAAAATAAAA
Found at i:34424756 original size:2 final size:2
Alignment explanation
Indices: 34424749--34424786 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
34424739 ACGTACAGAT
34424749 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
34424787 GGAGTAGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34451182 original size:2 final size:2
Alignment explanation
Indices: 34451175--34451221 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
34451165 GATAACTCAC
34451175 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34451217 AT AT A
1 AT AT A
34451222 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34451274 original size:2 final size:2
Alignment explanation
Indices: 34451267--34451315 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
34451257 NNNGCTCAAC
34451267 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34451309 AT AT AT A
1 AT AT AT A
34451316 CTTACCCTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34469380 original size:2 final size:2
Alignment explanation
Indices: 34469375--34469401 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34469365 TTTAAAACAT
34469375 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
34469402 TCTTTTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34471597 original size:15 final size:15
Alignment explanation
Indices: 34471577--34471617 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
34471567 GAAAGAAGAG
* *
34471577 AAGAAAGATGGAGGT
1 AAGAAAGATGAAGGC
34471592 AAGAAAGATGAAGGC
1 AAGAAAGATGAAGGC
*
34471607 AAGAAGGATGA
1 AAGAAAGATGA
34471618 TAAAAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.51, C:0.02, G:0.37, T:0.10
Consensus pattern (15 bp):
AAGAAAGATGAAGGC
Found at i:34487361 original size:50 final size:50
Alignment explanation
Indices: 34487301--34487400 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
34487291 CCATACAAGT
34487301 AAGTGTAATTTTGTTAAAAGACCAACCTATCAATCTGAAAGCAAAAAGAC
1 AAGTGTAATTTTGTTAAAAGACCAACCTATCAATCTGAAAGCAAAAAGAC
34487351 AAGTGTAATTTTGTTAAAAGACCAACCTATCAATCTGAAAGCAAAAAGAC
1 AAGTGTAATTTTGTTAAAAGACCAACCTATCAATCTGAAAGCAAAAAGAC
34487401 TAATTTGTCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (50 bp):
AAGTGTAATTTTGTTAAAAGACCAACCTATCAATCTGAAAGCAAAAAGAC
Found at i:34490016 original size:22 final size:22
Alignment explanation
Indices: 34490001--34490077 Score: 104
Period size: 22 Copynumber: 3.5 Consensus size: 22
34489991 GCATTGCGTA
34490001 ATTAATTTTTAAGCATTATGTG
1 ATTAATTTTTAAGCATTATGTG
* *
34490023 ATTAATTTTTAAACATTATGTT
1 ATTAATTTTTAAGCATTATGTG
34490045 ATTAATTTTTATA-CATT-TAGTG
1 ATTAATTTTTA-AGCATTAT-GTG
34490067 ATTAATTTTTA
1 ATTAATTTTTA
34490078 GTTATTACGT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
21 1 0.02
22 48 0.96
23 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.55
Consensus pattern (22 bp):
ATTAATTTTTAAGCATTATGTG
Found at i:34490150 original size:23 final size:23
Alignment explanation
Indices: 34490120--34490184 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
34490110 ACAGGTTGAT
*
34490120 AGACATTGCATGACTAGTTAGCA
1 AGACATTGCGTGACTAGTTAGCA
** * * *
34490143 AGGTATTGTGTAACTAGTTAGTA
1 AGACATTGCGTGACTAGTTAGCA
34490166 AGACATTGCGTGACTAGTT
1 AGACATTGCGTGACTAGTT
34490185 TTTAAATATT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (23 bp):
AGACATTGCGTGACTAGTTAGCA
Found at i:34491178 original size:16 final size:16
Alignment explanation
Indices: 34491115--34491195 Score: 51
Period size: 16 Copynumber: 4.9 Consensus size: 16
34491105 TTTAAGTTTT
34491115 TAATT-ATATATTATAAA
1 TAATTAATAT-TTA-AAA
*
34491132 T-ATTAATACTTTAAATT
1 TAATTAATA-TTTAAA-A
** *
34491149 TAAAAAATAATTAAAA
1 TAATTAATATTTAAAA
*
34491165 TAATTAATATTTAATCA
1 TAATTAATATTTAA-AA
34491182 TAA-TAATATTTAAA
1 TAATTAATATTTAAA
34491196 TTATAATATA
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
16 26 0.53
17 17 0.35
18 6 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATTAATATTTAAAA
Found at i:34491179 original size:20 final size:22
Alignment explanation
Indices: 34491155--34491215 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
34491145 AATTTAAAAA
34491155 ATAAT-TAAAATAATTAATATT
1 ATAATATAAAATAATTAATATT
*
34491176 -TAATCATAATAATATTTAA-ATT
1 ATAAT-ATAA-AATAATTAATATT
34491198 ATAATATAAAAT-ATTAAT
1 ATAATATAAAATAATTAAT
34491216 GATTGCATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
20 8 0.24
21 3 0.09
22 10 0.30
23 12 0.36
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAATATAAAATAATTAATATT
Found at i:34491194 original size:23 final size:21
Alignment explanation
Indices: 34491146--34491212 Score: 66
Period size: 23 Copynumber: 3.1 Consensus size: 21
34491136 AATACTTTAA
**
34491146 ATTTAAAAAATAAT-TAAAAT
1 ATTTAAATTATAATATAAAAT
*
34491166 AATTAATATT-TAATCATAATAAT
1 ATTTAA-ATTATAAT-ATAA-AAT
34491189 ATTTAAATTATAATATAAAAT
1 ATTTAAATTATAATATAAAAT
34491210 ATT
1 ATT
34491213 AATGATTGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
20 9 0.24
21 7 0.18
22 10 0.26
23 12 0.32
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTAAATTATAATATAAAAT
Found at i:34491201 original size:17 final size:17
Alignment explanation
Indices: 34491135--34491203 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
34491125 TTATAAATAT
34491135 TAATACTTTAAATT-TAAA
1 TAATA-TTTAAATTAT-AA
* *
34491153 AAATAATTAAA--ATAA
1 TAATATTTAAATTATAA
*
34491168 TTAATATTT-AATCATAA
1 -TAATATTTAAATTATAA
34491185 TAATATTTAAATTATAA
1 TAATATTTAAATTATAA
34491202 TA
1 TA
34491204 TAAAATATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
15 4 0.10
16 15 0.37
17 18 0.44
18 4 0.10
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATATTTAAATTATAA
Found at i:34491274 original size:30 final size:27
Alignment explanation
Indices: 34491255--34491309 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
34491245 TTAATATTTT
*
34491255 AATTATCAATTATTAATATTTTAAACA
1 AATTATAAATTATTAATATTTTAAACA
34491282 AATTATAAATTATTAATA-TTTAAA-A
1 AATTATAAATTATTAATATTTTAAACA
34491307 AAT
1 AAT
34491310 AAAAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 4 0.15
26 6 0.22
27 17 0.63
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (27 bp):
AATTATAAATTATTAATATTTTAAACA
Found at i:34505369 original size:19 final size:21
Alignment explanation
Indices: 34505333--34505372 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
34505323 ACATTATAAC
34505333 AAAAAATATCAATATTTTTTT
1 AAAAAATATCAATATTTTTTT
*
34505354 AAAAAA-AT-AATTTTTTTTT
1 AAAAAATATCAATATTTTTTT
34505373 TCTAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 2 0.11
21 6 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAAAATATCAATATTTTTTT
Found at i:34509193 original size:3 final size:3
Alignment explanation
Indices: 34509185--34509217 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
34509175 ATATATATAT
34509185 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
34509218 GGCATGTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:34528021 original size:62 final size:62
Alignment explanation
Indices: 34527919--34528053 Score: 236
Period size: 62 Copynumber: 2.2 Consensus size: 62
34527909 GATTGCAAAG
*
34527919 AAAAT-CTTGATAGTAAATGGTTGAATCTGTCTCTCTCAGTGGCATGTTTCTTCATAGGGCC
1 AAAATACTTGATAGTAAATGGTTGAATCTGTCTCTCTCAGTGGCATGTTTCTTCAAAGGGCC
*
34527980 AAAATACTTGATAGTAAATGGTTGAATCTGTTTCTCTCAGTGGCATGTTTCTTCAAAGGGCC
1 AAAATACTTGATAGTAAATGGTTGAATCTGTCTCTCTCAGTGGCATGTTTCTTCAAAGGGCC
*
34528042 AAAATAATTGAT
1 AAAATACTTGAT
34528054 CCACTGCCCA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
61 5 0.07
62 65 0.93
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (62 bp):
AAAATACTTGATAGTAAATGGTTGAATCTGTCTCTCTCAGTGGCATGTTTCTTCAAAGGGCC
Found at i:34532308 original size:26 final size:26
Alignment explanation
Indices: 34532279--34532331 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
34532269 CATGCAAAGT
34532279 AAGAAGATAAAAAATAACAATAAACC
1 AAGAAGATAAAAAATAACAATAAACC
34532305 AAGAAGATAAAAAATAACAATAAACC
1 AAGAAGATAAAAAATAACAATAAACC
34532331 A
1 A
34532332 TTTACCTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.70, C:0.11, G:0.08, T:0.11
Consensus pattern (26 bp):
AAGAAGATAAAAAATAACAATAAACC
Found at i:34546246 original size:2 final size:2
Alignment explanation
Indices: 34546239--34546278 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
34546229 ATTACATCTT
34546239 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34546279 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34550508 original size:2 final size:2
Alignment explanation
Indices: 34550501--34550527 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34550491 TGCCAACTTT
34550501 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
34550528 CAAAAAGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34563781 original size:27 final size:27
Alignment explanation
Indices: 34563751--34563802 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
34563741 GCCCAAACCC
*
34563751 TAATTTTA-AATTTTATTTTGTTATATT
1 TAATGTTATAATTTT-TTTTGTTATATT
*
34563778 TAATGTTATGATTTTTTTTGTTATA
1 TAATGTTATAATTTTTTTTGTTATA
34563803 ATTGTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (27 bp):
TAATGTTATAATTTTTTTTGTTATATT
Found at i:34564276 original size:21 final size:24
Alignment explanation
Indices: 34564226--34564280 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 24
34564216 TTAATCAATC
*
34564226 ATATTT-TTTAATACATGAATATG
1 ATATTTATTTAATACATGAATATA
34564249 ATGATTTATTTAATA-ATG-AT-TA
1 AT-ATTTATTTAATACATGAATATA
34564271 ATATTTATTT
1 ATATTTATTT
34564281 GAAAATAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 8 0.28
22 3 0.10
23 4 0.14
24 7 0.24
25 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (24 bp):
ATATTTATTTAATACATGAATATA
Found at i:34570359 original size:2 final size:2
Alignment explanation
Indices: 34570352--34570376 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34570342 AGCTATTAAC
34570352 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
34570377 TCTTTATTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34576157 original size:2 final size:2
Alignment explanation
Indices: 34576152--34576187 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
34576142 GTGTGTGTGT
34576152 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34576188 AAGGGCAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34588363 original size:2 final size:2
Alignment explanation
Indices: 34588358--34588387 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
34588348 TTTTTTGAGT
34588358 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
34588388 AGATGGAGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34625597 original size:24 final size:24
Alignment explanation
Indices: 34625565--34625612 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
34625555 AAGTCCCTGC
*
34625565 AGATTTGGGAGCATATAGAATAGT
1 AGATTTGGGAACATATAGAATAGT
34625589 AGATTTGGGAACATATAGAATAGT
1 AGATTTGGGAACATATAGAATAGT
34625613 TGGGATCCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.27, T:0.29
Consensus pattern (24 bp):
AGATTTGGGAACATATAGAATAGT
Found at i:34637303 original size:2 final size:2
Alignment explanation
Indices: 34637296--34637322 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34637286 GGCAATAGAT
34637296 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
34637323 AGAAATAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34638872 original size:19 final size:19
Alignment explanation
Indices: 34638848--34638884 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34638838 GAGGGTTAAG
34638848 AAAAAAAAATAAAAAAGAA
1 AAAAAAAAATAAAAAAGAA
* *
34638867 AAAAAACAATTAAAAAGA
1 AAAAAAAAATAAAAAAGA
34638885 GACCCGTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.84, C:0.03, G:0.05, T:0.08
Consensus pattern (19 bp):
AAAAAAAAATAAAAAAGAA
Found at i:34639342 original size:38 final size:40
Alignment explanation
Indices: 34639299--34639388 Score: 102
Period size: 38 Copynumber: 2.4 Consensus size: 40
34639289 TAGATTTAAT
34639299 AAATATTAATATTTAATA-TAAAATATT-AAAAA-AATTTA
1 AAATATTAATATTTAATACTAAAAT-TTAAAAAATAATTTA
* *
34639337 AAATA-T-ATA-TTAATACTTAACTTTAAAAAATTAATTTA
1 AAATATTAATATTTAATACTAAAATTTAAAAAA-TAATTTA
34639375 AAATATTAATATTT
1 AAATATTAATATTT
34639389 TAATTATTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
35 8 0.19
36 12 0.28
37 1 0.02
38 16 0.37
39 1 0.02
40 3 0.07
41 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (40 bp):
AAATATTAATATTTAATACTAAAATTTAAAAAATAATTTA
Found at i:34639476 original size:21 final size:22
Alignment explanation
Indices: 34639452--34639492 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34639442 TTTAAAATTT
*
34639452 TTATTTATAAAT-TAATAAATC
1 TTATTAATAAATATAATAAATC
*
34639473 TTATTAATAATTATAATAAA
1 TTATTAATAAATATAATAAA
34639493 AAATATTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TTATTAATAAATATAATAAATC
Found at i:34640525 original size:32 final size:33
Alignment explanation
Indices: 34640459--34640538 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 33
34640449 TTAACATCAC
* *
34640459 ATATTTTTTTTTTATTTTTTATTATAATCATAT
1 ATATTTTATTTTTATTTTTTAATATAATCATAT
* **
34640492 ATATTTTATTTTTA-TTTTTAATGTAATTTTAT
1 ATATTTTATTTTTATTTTTTAATATAATCATAT
*
34640524 ATATTATATATTTTA
1 ATATTTTAT-TTTTA
34640539 ATTTAATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
32 22 0.55
33 18 0.45
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.68
Consensus pattern (33 bp):
ATATTTTATTTTTATTTTTTAATATAATCATAT
Found at i:34652280 original size:8 final size:8
Alignment explanation
Indices: 34652267--34652300 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
34652257 CATCCTTCTA
34652267 ATTTTTTT
1 ATTTTTTT
34652275 ATTTTTTT
1 ATTTTTTT
*
34652283 ATGTTTTT
1 ATTTTTTT
34652291 ATTTTGTTT
1 ATTTT-TTT
34652300 A
1 A
34652301 ATATTTCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 19 0.83
9 4 0.17
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (8 bp):
ATTTTTTT
Found at i:34652622 original size:108 final size:108
Alignment explanation
Indices: 34652504--34652706 Score: 309
Period size: 108 Copynumber: 1.9 Consensus size: 108
34652494 TATAAAAAAT
*
34652504 TTTGAGTAAATTTAAAT-AAAGTATAAATTGGGTAAGAATTGAATAATTTCAAAAGAATGTGTAT
1 TTTGAGTAAATTTAAATAAAAG-ATAAATTGAGTAAGAATTGAATAATTTCAAAAGAATGTGTAT
* *
34652568 TTATAAATTGTGAAAGTTGTAACTAAATCAACATATTTTGCTAA
65 TTATAAATTATGAAAGTTATAACTAAATCAACATATTTTGCTAA
* * ** *
34652612 TTTGAGTAAATTTAAATAAAAGGTAAGTTGAGTAAGTGTTGAATAATTTCAAAATAATGTGTATT
1 TTTGAGTAAATTTAAATAAAAGATAAATTGAGTAAGAATTGAATAATTTCAAAAGAATGTGTATT
*
34652677 TGTAAATTATGAAAGTTATAACTAAATCAA
66 TATAAATTATGAAAGTTATAACTAAATCAA
34652707 AATAGTTAGT
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 81 0.95
109 4 0.05
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (108 bp):
TTTGAGTAAATTTAAATAAAAGATAAATTGAGTAAGAATTGAATAATTTCAAAAGAATGTGTATT
TATAAATTATGAAAGTTATAACTAAATCAACATATTTTGCTAA
Found at i:34653034 original size:18 final size:18
Alignment explanation
Indices: 34653013--34653059 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
34653003 TCACTCGATA
34653013 TCACATCATCAAAATATG
1 TCACATCATCAAAATATG
34653031 TCACATCATCAAAATATG
1 TCACATCATCAAAATATG
*
34653049 ACACATCATCA
1 TCACATCATCA
34653060 CTGATATCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.45, C:0.26, G:0.04, T:0.26
Consensus pattern (18 bp):
TCACATCATCAAAATATG
Found at i:34653443 original size:20 final size:21
Alignment explanation
Indices: 34653411--34653449 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
34653401 TTCAACTACT
34653411 TACCTTATATATT-TTAATCA
1 TACCTTATATATTGTTAATCA
34653431 TACCTTA-ACTATTGTTAAT
1 TACCTTATA-TATTGTTAAT
34653450 GATTTTCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.49
Consensus pattern (21 bp):
TACCTTATATATTGTTAATCA
Found at i:34658627 original size:25 final size:25
Alignment explanation
Indices: 34658599--34658646 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
34658589 TATTATATTA
34658599 ATTTATTAAT-TAAAAATTAAAAAAC
1 ATTTA-TAATGTAAAAATTAAAAAAC
* *
34658624 ATTTATCATGTTAAAATTAAAAA
1 ATTTATAATGTAAAAATTAAAAA
34658647 GAAATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTTATAATGTAAAAATTAAAAAAC
Found at i:34660772 original size:12 final size:12
Alignment explanation
Indices: 34660733--34660773 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
34660723 GGGAAAAAAG
*
34660733 GAAAAA-AGAAA
1 GAAAAAGAGAGA
34660744 GAAAAAGAGAG-
1 GAAAAAGAGAGA
34660755 GTAAAAAGAGAGA
1 G-AAAAAGAGAGA
34660768 GAAAAA
1 GAAAAA
34660774 AACAAGTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 7 0.27
12 18 0.69
13 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (12 bp):
GAAAAAGAGAGA
Found at i:34674025 original size:2 final size:2
Alignment explanation
Indices: 34674018--34674114 Score: 131
Period size: 2 Copynumber: 45.5 Consensus size: 2
34674008 CAAAATAAAA
*
34674018 CT CT CT CT CT CT CT CNT ACT ACT ACT ACT ACT AT CT CT CT CT CT
1 CT CT CT CT CT CT CT C-T -CT -CT -CT -CT -CT CT CT CT CT CT CT
34674062 CT CT CT CT CT CT CT 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 CT CT CT CT CT CT CT
34674104 CT CT CT CT CT C
1 CT CT CT CT CT C
34674115 CTTAAAGAAT
Statistics
Matches: 91, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
2 76 0.84
3 14 0.15
4 1 0.01
ACGTcount: A:0.06, C:0.46, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:34684961 original size:28 final size:28
Alignment explanation
Indices: 34684917--34684974 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
34684907 ATTCATGTAT
* *
34684917 TTTTTATTTTAGATTATATAACTCTTTA
1 TTTTTATTTTAAATTATATAAATCTTTA
*
34684945 TTTTT-TTTTAAATTTATATAAATTTTTA
1 TTTTTATTTTAAA-TTATATAAATCTTTA
34684973 TT
1 TT
34684975 ATTAATAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTTTATTTTAAATTATATAAATCTTTA
Found at i:34687919 original size:19 final size:18
Alignment explanation
Indices: 34687897--34687932 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
34687887 TAATTAAAAA
34687897 AATAATAATAAATATAAAC
1 AATAATAAT-AATATAAAC
*
34687916 AATAATAGTAATATAAA
1 AATAATAATAATATAAA
34687933 TAGAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
AATAATAATAATATAAAC
Found at i:34720019 original size:36 final size:36
Alignment explanation
Indices: 34719972--34720042 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
34719962 CGAACACGAC
* *
34719972 AGGTTCTTGCCCCATTCTATTTGCATCTGGTTCAAA
1 AGGTTCTTGCCCCATTCTATTTGCAGCTGATTCAAA
34720008 AGGTTCTTGCCCCATTCTATTTGCAGCTGATTCAA
1 AGGTTCTTGCCCCATTCTATTTGCAGCTGATTCAA
34720043 GAGTCACGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (36 bp):
AGGTTCTTGCCCCATTCTATTTGCAGCTGATTCAAA
Found at i:34726920 original size:30 final size:29
Alignment explanation
Indices: 34726881--34726985 Score: 81
Period size: 30 Copynumber: 3.6 Consensus size: 29
34726871 ATCATTAGTC
*
34726881 ATAAGAACTTATTTAATTTAAAATATAAAT
1 ATAAAAACTTATTTAATTTAAAATA-AAAT
* *
34726911 ATAAAAACTTGA-TTAA-ATATAATAAAAT
1 ATAAAAACTT-ATTTAATTTAAAATAAAAT
* *
34726939 ATAAAAAATTATTTAAAATTTAAAA-AAAAA
1 ATAAAAACTTATTT--AATTTAAAATAAAAT
* *
34726969 ATTAAAGACTTCTTTAA
1 A-TAAAAACTTATTTAA
34726986 ATGTCATGTC
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
27 1 0.02
28 15 0.25
29 8 0.14
30 20 0.34
31 15 0.25
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (29 bp):
ATAAAAACTTATTTAATTTAAAATAAAAT
Found at i:34731583 original size:27 final size:27
Alignment explanation
Indices: 34731539--34731624 Score: 136
Period size: 27 Copynumber: 3.1 Consensus size: 27
34731529 GAATAAAGAA
*
34731539 TAAAGCCATACCTACCCTCAATAATTTG
1 TAAA-CCAAACCTACCCTCAATAATTTG
*
34731567 TAAACCACACCTACCCTCAATAATTTG
1 TAAACCAAACCTACCCTCAATAATTTG
*
34731594 TAAACCAAACCTAACCTCAATAATTTG
1 TAAACCAAACCTACCCTCAATAATTTG
34731621 TAAA
1 TAAA
34731625 TTTAACGCAG
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 51 0.93
28 4 0.07
ACGTcount: A:0.41, C:0.28, G:0.05, T:0.27
Consensus pattern (27 bp):
TAAACCAAACCTACCCTCAATAATTTG
Found at i:34746259 original size:14 final size:14
Alignment explanation
Indices: 34746219--34746261 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 14
34746209 AAGTAGAACA
*
34746219 AGACGAAAATTACC
1 AGACGAAAATAACC
34746233 AGACAAGGAAAATAACC
1 AGAC---GAAAATAACC
34746250 AGACGAAAATAA
1 AGACGAAAATAA
34746262 TTCATCTTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
14 12 0.48
17 13 0.52
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.09
Consensus pattern (14 bp):
AGACGAAAATAACC
Found at i:34747657 original size:59 final size:60
Alignment explanation
Indices: 34747541--34747666 Score: 175
Period size: 59 Copynumber: 2.1 Consensus size: 60
34747531 TTCGGGGATT
*
34747541 GTTGCTGATGAGTGATGACAAATAAAAGGCGAAGGCTGAAGCTCTTCATGACCTAACTAA
1 GTTGTTGATGAGTGATGACAAATAAAAGGCGAAGGCTGAAGCTCTTCATGACCTAACTAA
* * * * *
34747601 GTTGTTGATGAGTGATGACAAAT-GAAGGCTAATGCTGATGCT-TCTCATGACTTAACTAA
1 GTTGTTGATGAGTGATGACAAATAAAAGGCGAAGGCTGAAGCTCT-TCATGACCTAACTAA
34747660 GTTGTTG
1 GTTGTTG
34747667 CTCTTAGTCT
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 1 0.02
59 36 0.61
60 22 0.37
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (60 bp):
GTTGTTGATGAGTGATGACAAATAAAAGGCGAAGGCTGAAGCTCTTCATGACCTAACTAA
Found at i:34756902 original size:30 final size:29
Alignment explanation
Indices: 34756868--34756973 Score: 81
Period size: 30 Copynumber: 3.6 Consensus size: 29
34756858 AATTATTAAC
34756868 TATAAGAGTTTATTTAACTCAAAATAAAAG
1 TATAAGAGTTTATTTAACT-AAAATAAAAG
* * * *
34756898 TATAAAAGCTTATTTGACTTAAAATAAAAA
1 TATAAGAGTTTATTTAAC-TAAAATAAAAG
* * * *
34756928 TACAAAGAGTTAATTGAA-TATAATAAAAG
1 TA-TAAGAGTTTATTTAACTAAAATAAAAG
*
34756957 GATAA-AGGTTTATTTAA
1 TATAAGA-GTTTATTTAA
34756974 AAATTTTTAA
Statistics
Matches: 57, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
27 1 0.02
28 10 0.18
29 10 0.18
30 26 0.46
31 10 0.18
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.33
Consensus pattern (29 bp):
TATAAGAGTTTATTTAACTAAAATAAAAG
Found at i:34772370 original size:2 final size:2
Alignment explanation
Indices: 34772363--34772397 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
34772353 ATGTACTTGG
34772363 AT AT AT AT AT 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 AT AT AT AT AT A
34772398 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34774902 original size:23 final size:21
Alignment explanation
Indices: 34774875--34774916 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
34774865 CAGGGTCATT
34774875 AAAACAGTAACAAATAAAAAAAA
1 AAAACAG-AACAAA-AAAAAAAA
*
34774898 AAAACAGAAGAAAAAAAAA
1 AAAACAGAACAAAAAAAAA
34774917 TAGCGCCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.81, C:0.07, G:0.07, T:0.05
Consensus pattern (21 bp):
AAAACAGAACAAAAAAAAAAA
Found at i:34778494 original size:2 final size:2
Alignment explanation
Indices: 34778487--34778538 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
34778477 ATTTAGTAAG
34778487 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34778529 TA TA TA TA TA
1 TA TA TA TA TA
34778539 AAAGGGACAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34794747 original size:6 final size:6
Alignment explanation
Indices: 34794738--34794776 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
34794728 AATTTAAATT
*
34794738 AAAAAG AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAA
1 AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAA
34794777 GCTTAAAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:34795214 original size:22 final size:24
Alignment explanation
Indices: 34795189--34795235 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
34795179 TCATTTTCAT
34795189 TCTTATTT-TTTGGTTCT-TTCTC
1 TCTTATTTCTTTGGTTCTGTTCTC
* *
34795211 TCTTCTTTCTTTGTTTCTGTTCTC
1 TCTTATTTCTTTGGTTCTGTTCTC
34795235 T
1 T
34795236 TCTGTATGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 8 0.38
24 6 0.29
ACGTcount: A:0.02, C:0.21, G:0.09, T:0.68
Consensus pattern (24 bp):
TCTTATTTCTTTGGTTCTGTTCTC
Found at i:34795425 original size:2 final size:2
Alignment explanation
Indices: 34795418--34795453 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
34795408 CTTTCAACCA
34795418 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34795454 TTGATTCAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34797501 original size:21 final size:21
Alignment explanation
Indices: 34797475--34797515 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
34797465 AATCGGTTTG
34797475 TTCAGATATCAAGTCAGTCTA
1 TTCAGATATCAAGTCAGTCTA
*
34797496 TTCAGATATCAGGTCAGTCT
1 TTCAGATATCAAGTCAGTCT
34797516 GTTCTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (21 bp):
TTCAGATATCAAGTCAGTCTA
Found at i:34807793 original size:15 final size:15
Alignment explanation
Indices: 34807769--34807820 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
34807759 ATTACGTTTG
34807769 ATAT-ATTATTAAAA
1 ATATAATTATTAAAA
* *
34807783 ATATAATTATTGAAT
1 ATATAATTATTAAAA
*
34807798 ATATGATTATTAAAA
1 ATATAATTATTAAAA
34807813 ATATAATT
1 ATATAATT
34807821 TTATAATATT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
14 4 0.13
15 27 0.87
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (15 bp):
ATATAATTATTAAAA
Found at i:34809960 original size:43 final size:43
Alignment explanation
Indices: 34809899--34809989 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
34809889 ACAACTGCCA
*
34809899 TTCTCCCCTTCCCTCCCATTTCCCGTTTCTCTCCTTCTCTCTC
1 TTCTCCCCTTCCCTCCCATTTCCCGTTTCTCACCTTCTCTCTC
34809942 TTCTCCCCTTCCCTCCCATTTCCCGTTTCTCACCTTCTCTCTC
1 TTCTCCCCTTCCCTCCCATTTCCCGTTTCTCACCTTCTCTCTC
34809985 TTCTC
1 TTCTC
34809990 TAAACAACCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.03, C:0.51, G:0.02, T:0.44
Consensus pattern (43 bp):
TTCTCCCCTTCCCTCCCATTTCCCGTTTCTCACCTTCTCTCTC
Found at i:34812154 original size:2 final size:2
Alignment explanation
Indices: 34812147--34812174 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
34812137 TAAAAGGTTA
34812147 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34812175 GTGTGTATGT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34826752 original size:238 final size:238
Alignment explanation
Indices: 34826334--34827050 Score: 1425
Period size: 238 Copynumber: 3.0 Consensus size: 238
34826324 GATCATGTTC
*
34826334 TTAGAATCATGGTCATATTTATTTTTTGTTTGATAAATCTATAAACGCTTATATTAGATCCCAAG
1 TTAGAATCACGGTCATATTTATTTTTTGTTTGATAAATCTATAAACGCTTATATTAGATCCCAAG
34826399 TTCCCATCTCCACCGCTTTAAGTTGAAAAAAGATCGTTGCTTTTAGATTTTGTCATTTTGATCTG
66 TTCCCATCTCCACCGCTTTAAGTTGAAAAAAGATCGTTGCTTTTAGATTTTGTCATTTTGATCTG
34826464 GATTATCAAAAAGGGGCTGGTCCGGATTTGATTGGTTTGTTTGTTTTTTTTAATGAAATGATTTG
131 GATTATCAAAAAGGGGCTGGTCCGGATTTGATTGGTTTGTTTGTTTTTTTTAATGAAATGATTTG
34826529 GTTTGTTTATTGTTTCTTTGTGATTTGAAAGTAGTACTAATAT
196 GTTTGTTTATTGTTTCTTTGTGATTTGAAAGTAGTACTAATAT
34826572 TTAGAATCACGGTCATATTTATTTTTTGTTTGATAAATCTATAAACGCTTATATTAGATCCCAAG
1 TTAGAATCACGGTCATATTTATTTTTTGTTTGATAAATCTATAAACGCTTATATTAGATCCCAAG
34826637 TTCCCATCTCCACCGCTTTAAGTTGAAAAAAGATCGTTGCTTTTAGATTTTGTCATTTTGATCTG
66 TTCCCATCTCCACCGCTTTAAGTTGAAAAAAGATCGTTGCTTTTAGATTTTGTCATTTTGATCTG
34826702 GATTATCAAAAAGGGGCTGGTCCGGATTTGATTGGTTTGTTTGTTTTTTTTAATGAAATGATTTG
131 GATTATCAAAAAGGGGCTGGTCCGGATTTGATTGGTTTGTTTGTTTTTTTTAATGAAATGATTTG
34826767 GTTTGTTTATTGTTTCTTTGTGATTTGAAAGTAGTACTAATAT
196 GTTTGTTTATTGTTTCTTTGTGATTTGAAAGTAGTACTAATAT
34826810 TTAGAATCACGGTCATATTTATTTTTTGTTTGATAAATCTATAAACGCTTATATTAGATCCCAAG
1 TTAGAATCACGGTCATATTTATTTTTTGTTTGATAAATCTATAAACGCTTATATTAGATCCCAAG
34826875 TTCCCATCTCCACCGCTTTAAGTTGAAAAAAGATCGTTGCTTTTAGATTTTGTCATTTTGATCTG
66 TTCCCATCTCCACCGCTTTAAGTTGAAAAAAGATCGTTGCTTTTAGATTTTGTCATTTTGATCTG
34826940 GATTATCAAAAAGGGGCTGGTCCGGATTTGATTGGTTTGTTTGTTTTTTTTAATGAAATGATTTG
131 GATTATCAAAAAGGGGCTGGTCCGGATTTGATTGGTTTGTTTGTTTTTTTTAATGAAATGATTTG
34827005 GTTTGTTTATTGTTTCTTTGTGATTTGAAAGTAGTACTAATAT
196 GTTTGTTTATTGTTTCTTTGTGATTTGAAAGTAGTACTAATAT
34827048 TTA
1 TTA
34827051 ACAGAAGTAC
Statistics
Matches: 478, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
238 478 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.45
Consensus pattern (238 bp):
TTAGAATCACGGTCATATTTATTTTTTGTTTGATAAATCTATAAACGCTTATATTAGATCCCAAG
TTCCCATCTCCACCGCTTTAAGTTGAAAAAAGATCGTTGCTTTTAGATTTTGTCATTTTGATCTG
GATTATCAAAAAGGGGCTGGTCCGGATTTGATTGGTTTGTTTGTTTTTTTTAATGAAATGATTTG
GTTTGTTTATTGTTTCTTTGTGATTTGAAAGTAGTACTAATAT
Found at i:34830103 original size:117 final size:117
Alignment explanation
Indices: 34829956--34830182 Score: 418
Period size: 117 Copynumber: 1.9 Consensus size: 117
34829946 TCAGTTGAGA
* *
34829956 GAGGAAAAGGTGGGGTTACAGGGTCAAATCTTTGAATTAGAGAAAACATTGGCAGAGACAGGGCT
1 GAGGAAAAGGTGGGGTTACAGGGTCAAATCTTTGAATTAGAGAAAAAATTGGCAGAAACAGGGCT
*
34830021 TGAGTTCACTGCTCTCCAGGAAAAACATGCAAGTGCAGAGAATGAGTTAAGG
66 TGAGTTCACTGCTCTCCAGGAAAAACATGCAACTGCAGAGAATGAGTTAAGG
*
34830073 GAGGAAAAGGTGGGGTTACAGGGTCAAATCTTTGAATTAGAGAAAAAATTGGCAGAAAGAGGGCT
1 GAGGAAAAGGTGGGGTTACAGGGTCAAATCTTTGAATTAGAGAAAAAATTGGCAGAAACAGGGCT
34830138 TGAGTTCACTGCTCTCCAGGAAAAACATGCAACTGCAGAGAATGA
66 TGAGTTCACTGCTCTCCAGGAAAAACATGCAACTGCAGAGAATGA
34830183 AGCTTCTTCC
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 106 1.00
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (117 bp):
GAGGAAAAGGTGGGGTTACAGGGTCAAATCTTTGAATTAGAGAAAAAATTGGCAGAAACAGGGCT
TGAGTTCACTGCTCTCCAGGAAAAACATGCAACTGCAGAGAATGAGTTAAGG
Found at i:34830580 original size:285 final size:285
Alignment explanation
Indices: 34830065--34831762 Score: 2763
Period size: 285 Copynumber: 6.0 Consensus size: 285
34830055 GCAGAGAATG
*
34830065 AGTTAAGGGAGGAAAAGGTGGGGTTACAGGGTCAAATCTTTGAATTAGAGAAAAAATTGGCAGAA
1 AGTTAAGGGAGGAAAAGGTGGGGTTACAGGATCAAATCTTTGAATTAGAGAAAAAATTGGCAGAA
* *
34830130 AGAGGGCTTGAGTTCACTGCTCTCCAGGAAAAACATGCAA-CTGCAGAGAATGAAGCTTCTTCCC
66 AGAGGGCTTGAGTTCACTGCTCTCCAGGAAAAACATGTAAGC-GCAGAGAATGAAGCTTCTTCAC
* * * * *
34830194 AGTTAATAGCCCTACAGGAT-CAGGTTAACAATTTGCAGCAGGAGTTGGATTCCTTACGGACCCA
130 AGTTAACAGCCCTAGAGG-TGCAGGTTAAAAATTTGAAGCAGGAGTTGGATTCCTTACAGACCCA
* * * *
34830258 GAGAAATGAACTGGAGTTGCAGCTTGAGAGAGAGAAACAAGAATCATCAGAAAGAATCTCTGAAA
194 GAGAAACGAACTGGAGTTGCACCTCGAGAGAGAGAAACAAGAATCATCAGAAAGACTCTCTGAAA
34830323 TGGAGAATCAGAAATTGGAGAATGGTC
259 TGGAGAATCAGAAATTGGAGAATGGTC
* * * * *
34830350 AGTTAAGGGAGGAAAAGGTGGGGTTACAGGGTCAAATTTTTGAATTCGAGAAAACATTGGCAGAG
1 AGTTAAGGGAGGAAAAGGTGGGGTTACAGGATCAAATCTTTGAATTAGAGAAAAAATTGGCAGAA
* *
34830415 AGAGGGCTTGAGTTCACTGCTCTCCAGGAAAAACATGTAAGCGTAGAAAATGAAGCTTCTTCACA
66 AGAGGGCTTGAGTTCACTGCTCTCCAGGAAAAACATGTAAGCGCAGAGAATGAAGCTTCTTCACA
34830480 GTTAACAGCCCTAGAGGTGCAGGTTAAAAATTTGAAGCAGGAGTTGGATTCCTTACAGACCCAGA
131 GTTAACAGCCCTAGAGGTGCAGGTTAAAAATTTGAAGCAGGAGTTGGATTCCTTACAGACCCAGA
* * * * * * *
34830545 GAAATGAACTGGAATTGCAGCTTGAGAGGGAGAAACAAGAATCAGCAGAAAGACTCTCTGAAATC
196 GAAACGAACTGGAGTTGCACCTCGAGAGAGAGAAACAAGAATCATCAGAAAGACTCTCTGAAATG
34830610 GAGAATCAGAAATTGGAGAATGGTC
261 GAGAATCAGAAATTGGAGAATGGTC
* *
34830635 AGTTAAGGGAGAAAAAGGTGGGGTTAGAGGATCAAATCTTTGAATTAGAGAAAAAATTGGCAGAA
1 AGTTAAGGGAGGAAAAGGTGGGGTTACAGGATCAAATCTTTGAATTAGAGAAAAAATTGGCAGAA
34830700 AGAGGGCTTGAGTTCACTGCTCTCCAGGAAAAACATGTAAGCGCAGAGAATGAAGCTTCTTCACA
66 AGAGGGCTTGAGTTCACTGCTCTCCAGGAAAAACATGTAAGCGCAGAGAATGAAGCTTCTTCACA
*
34830765 GTTAACAGCCCTGGAGGTGCAGGTTAAAAATTTGAAGCAGGAGTTGGATTCCTTACAGACCCAGA
131 GTTAACAGCCCTAGAGGTGCAGGTTAAAAATTTGAAGCAGGAGTTGGATTCCTTACAGACCCAGA
34830830 GAAACGAACTGGAGTTGCACCTCGAGAGAGAGAAACAAGAATCATCAGAAAGACTCTCTGAAATG
196 GAAACGAACTGGAGTTGCACCTCGAGAGAGAGAAACAAGAATCATCAGAAAGACTCTCTGAAATG
34830895 GAGAATCAGAAATTGGAGAATGGTC
261 GAGAATCAGAAATTGGAGAATGGTC
* * *
34830920 AGTTAAGGGAGAAAAAGGTGGGGTTAGAGGATCAAATCTTTGAATTAGAGAAAACATTGGCAGAA
1 AGTTAAGGGAGGAAAAGGTGGGGTTACAGGATCAAATCTTTGAATTAGAGAAAAAATTGGCAGAA
*
34830985 AGAGGGCTTGAGTTCACTGCTCTCCAGGAGAAACATGTAAGCGCAGAGAATGAAGCTTCTTCACA
66 AGAGGGCTTGAGTTCACTGCTCTCCAGGAAAAACATGTAAGCGCAGAGAATGAAGCTTCTTCACA
*
34831050 GTTAACAGCCCTGGAGGTGCAGGTTAAAAATTTGAAGCAGGAGTTGGATTCCTTACAGACCCAGA
131 GTTAACAGCCCTAGAGGTGCAGGTTAAAAATTTGAAGCAGGAGTTGGATTCCTTACAGACCCAGA
* * * *
34831115 GAAATGAACTGGAATTGCAGCTTGAGAGAGAGAAACAAGAATCATCAGAAAGACAT-TCTGAAAT
196 GAAACGAACTGGAGTTGCACCTCGAGAGAGAGAAACAAGAATCATCAGAAAGAC-TCTCTGAAAT
*
34831179 GGAGAATCAGAAATTGGAAAATGGTC
260 GGAGAATCAGAAATTGGAGAATGGTC
* *
34831205 GGTTAAGGGAGGAAAAGGTGGGGTTAGAGGATCAAATCTTTGAATTAGAGAAAAAATTGGCAGAA
1 AGTTAAGGGAGGAAAAGGTGGGGTTACAGGATCAAATCTTTGAATTAGAGAAAAAATTGGCAGAA
* *
34831270 AGAGGGCTTGAATTCACTGCTCTCCAGGAAAAACATGTAAGCGCAGAGAATGAGGCTTCTTCACA
66 AGAGGGCTTGAGTTCACTGCTCTCCAGGAAAAACATGTAAGCGCAGAGAATGAAGCTTCTTCACA
* *
34831335 GTTAACAGCTCTAGAGGTGCAGGTTAAAAATTTGAAGCAAGAGTTGGATTCCTTACAGACCCAGA
131 GTTAACAGCCCTAGAGGTGCAGGTTAAAAATTTGAAGCAGGAGTTGGATTCCTTACAGACCCAGA
34831400 GAAACGAACTGGAGTTGCACCTCGAGAGAGAGAAACAAGAATCATCAGAAAGACTCTCTGAAATG
196 GAAACGAACTGGAGTTGCACCTCGAGAGAGAGAAACAAGAATCATCAGAAAGACTCTCTGAAATG
*
34831465 GAGAATCAGAAGTTGGAGAATGGTC
261 GAGAATCAGAAATTGGAGAATGGTC
* * * *
34831490 AGTTAAGGGAGGAAAAGGTGGGGTTGCAGGGTCAAATCTTAGAATTAGAGAAAACATTGGCAGAA
1 AGTTAAGGGAGGAAAAGGTGGGGTTACAGGATCAAATCTTTGAATTAGAGAAAAAATTGGCAGAA
* * * *
34831555 AGAGGGCTTGAGTTCACTGCTCTCCAGGAAAAACATGCAAGCACAGAGAATGAAACTTCTTCCCA
66 AGAGGGCTTGAGTTCACTGCTCTCCAGGAAAAACATGTAAGCGCAGAGAATGAAGCTTCTTCACA
* * * * * * * *
34831620 ATTAACGGCCTTAGTGGTGCAGGTCAACAATTTGCAGCAGGAATTGGATTCCTTACAGACCCAGA
131 GTTAACAGCCCTAGAGGTGCAGGTTAAAAATTTGAAGCAGGAGTTGGATTCCTTACAGACCCAGA
**
34831685 GAAACGAACTGGAGTTGCACCTCGAGAGAGAGAAACAAGAATCATCAGAAAGACTGACTGAAATG
196 GAAACGAACTGGAGTTGCACCTCGAGAGAGAGAAACAAGAATCATCAGAAAGACTCTCTGAAATG
*
34831750 GAGAACCAGAAAT
261 GAGAATCAGAAAT
34831763 CTGAGCTGGA
Statistics
Matches: 1326, Mismatches: 83, Indels: 8
0.94 0.06 0.01
Matches are distributed among these distances:
284 2 0.00
285 1322 1.00
286 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (285 bp):
AGTTAAGGGAGGAAAAGGTGGGGTTACAGGATCAAATCTTTGAATTAGAGAAAAAATTGGCAGAA
AGAGGGCTTGAGTTCACTGCTCTCCAGGAAAAACATGTAAGCGCAGAGAATGAAGCTTCTTCACA
GTTAACAGCCCTAGAGGTGCAGGTTAAAAATTTGAAGCAGGAGTTGGATTCCTTACAGACCCAGA
GAAACGAACTGGAGTTGCACCTCGAGAGAGAGAAACAAGAATCATCAGAAAGACTCTCTGAAATG
GAGAATCAGAAATTGGAGAATGGTC
Found at i:34848266 original size:26 final size:26
Alignment explanation
Indices: 34848237--34848407 Score: 76
Period size: 26 Copynumber: 6.7 Consensus size: 26
34848227 GTAATACTAT
34848237 AATTAAAATAAAATATATAATATAAG
1 AATTAAAATAAAATATATAATATAAG
*
34848263 AATTAGAAATTAAAATA-A-AGTATAAG
1 AATTA-AAA-TAAAATATATAATATAAG
** *
34848289 AAATTAAAAT-TTATATAATAAGATAAAAG
1 -AATTAAAATAAAATAT-AT-A-ATATAAG
* *
34848318 ATATT-AAAGAAAATATATAATATAAAA
1 A-ATTAAAATAAAATATATAATAT-AAG
* * *
34848345 AATTATATTAAAA-ATA-AAAATAA-
1 AATTAAAATAAAATATATAATATAAG
* * *
34848368 AA-T-ATATAAGAT-TATAATA-AAA
1 AATTAAAATAAAATATATAATATAAG
*
34848390 AATAAAAATAAAATATAT
1 AATTAAAATAAAATATAT
34848408 GACATTTAAA
Statistics
Matches: 105, Mismatches: 22, Indels: 37
0.64 0.13 0.23
Matches are distributed among these distances:
21 8 0.08
22 6 0.06
23 2 0.02
24 12 0.11
25 8 0.08
26 25 0.24
27 18 0.17
28 14 0.13
29 12 0.11
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (26 bp):
AATTAAAATAAAATATATAATATAAG
Found at i:34848382 original size:32 final size:32
Alignment explanation
Indices: 34848318--34848407 Score: 110
Period size: 33 Copynumber: 2.8 Consensus size: 32
34848308 AAGATAAAAG
* * * *
34848318 ATATTAAAGA-AAATATATAATATAAAAAATT
1 ATATTAAAAATAAAAATAAAATATATAAAATT
*
34848349 ATATTAAAAATAAAAATAAAATATATAAGATT
1 ATATTAAAAATAAAAATAAAATATATAAAATT
*
34848381 ATAATAAAAAATAAAAATAAAATATAT
1 AT-ATTAAAAATAAAAATAAAATATAT
34848408 GACATTTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
31 9 0.18
32 19 0.37
33 23 0.45
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (32 bp):
ATATTAAAAATAAAAATAAAATATATAAAATT
Found at i:34848472 original size:28 final size:29
Alignment explanation
Indices: 34848438--34848493 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
34848428 GAGATTATAT
34848438 TATATTAAAATTA-ATTATAAAAAATAAA
1 TATATTAAAATTATATTATAAAAAATAAA
* *
34848466 TATATTAAATTTATATTTTAAAAAATAA
1 TATATTAAAATTATATTATAAAAAATAA
34848494 GAATAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
TATATTAAAATTATATTATAAAAAATAAA
Done.