Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 13 of 163
Found at i:4277782 original size:27 final size:27
Alignment explanation
Indices: 4277744--4277868 Score: 171
Period size: 27 Copynumber: 4.6 Consensus size: 27
4277734 GTGGAGGGTA
* *
4277744 TCCCATAAGCGGCACCAAATGTGCCTT
1 TCCCATAGGCGGCACCAAAGGTGCCTT
* *
4277771 TCCCATAGGCGGCACCGATGGTGCCATT
1 TCCCATAGGCGGCACCAAAGGTGCC-TT
*
4277799 T-CCATGGGCGGCACCAAAGGTGCCTT
1 TCCCATAGGCGGCACCAAAGGTGCCTT
*
4277825 TCCTATAGGCGGCACCAAAGGTGCCTT
1 TCCCATAGGCGGCACCAAAGGTGCCTT
*
4277852 TCCCATAGGCGGTACCA
1 TCCCATAGGCGGCACCA
4277869 CTCGTGTTAT
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.04
27 79 0.93
28 3 0.04
ACGTcount: A:0.22, C:0.32, G:0.26, T:0.21
Consensus pattern (27 bp):
TCCCATAGGCGGCACCAAAGGTGCCTT
Found at i:4278228 original size:40 final size:36
Alignment explanation
Indices: 4278168--4278257 Score: 101
Period size: 40 Copynumber: 2.4 Consensus size: 36
4278158 AAACTAGTAT
* * *
4278168 TATTATTATGGTTAGTTATTATTTTTAGTA-AAACCC
1 TATTATTATTGTTAGTTATTATTTTAAGTATAAA-AC
4278204 TAATTATTATTGTTAGTTACTATTATTTTAAGTATAAAAC
1 T-ATTATTATTGTTAG-T--TATTATTTTAAGTATAAAAC
4278244 TATTATTATTGTTA
1 TATTATTATTGTTA
4278258 TTGTGTTAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
36 1 0.02
37 13 0.28
38 1 0.02
39 13 0.28
40 15 0.33
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTTTAAGTATAAAAC
Found at i:4280800 original size:16 final size:15
Alignment explanation
Indices: 4280779--4280808 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4280769 CAATAAAAAA
4280779 TATTATTTTCGTATTT
1 TATTATTTT-GTATTT
4280795 TATTATTTTGTATT
1 TATTATTTTGTATT
4280809 ATTTCAGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (15 bp):
TATTATTTTGTATTT
Found at i:4280976 original size:16 final size:15
Alignment explanation
Indices: 4280957--4280990 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
4280947 TAATTTTATA
4280957 ATTTTATTATTTTCGT
1 ATTTTATTATTTT-GT
4280973 ATTTTATTATTTTGT
1 ATTTTATTATTTTGT
4280988 ATT
1 ATT
4280991 ATTTCAGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (15 bp):
ATTTTATTATTTTGT
Found at i:4281089 original size:182 final size:182
Alignment explanation
Indices: 4280779--4281135 Score: 615
Period size: 182 Copynumber: 2.0 Consensus size: 182
4280769 CAATAAAAAA
4280779 TATTATTTTCGTATTTTATTATTTTGTATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAA
1 TATTATTTTCGTATTTTATTATTTTGTATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAA
* * *
4280844 TTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTTTTACTTCGGCCATTTATTCGTATTTTTT
66 TTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTACTTCAGCCATTTATTCATATTTTTT
* *
4280909 TCTCCACATTTTATTACTTTAAAAAATATCATAATTTCTAATTTTATAATTT
131 TCTCCACATTTTATTACTTTAAAAAATATAATAATTTATAATTTTATAATTT
4280961 TATTATTTTCGTATTTTATTATTTTGTATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAA
1 TATTATTTTCGTATTTTATTATTTTGTATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAA
*
4281026 TTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTACTTCAGCCATTTCTTCATATTTTTT
66 TTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTACTTCAGCCATTTATTCATATTTTTT
* * * * *
4281091 TCTTCGCATTTTATTATTTTAAAAAATTTAATATTTTATAATTTT
131 TCTCCACATTTTATTACTTTAAAAAATATAATAATTTATAATTTT
4281136 TCTTTATTTC
Statistics
Matches: 164, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
182 164 1.00
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.55
Consensus pattern (182 bp):
TATTATTTTCGTATTTTATTATTTTGTATTATTTCAGTACATTTTGTTTGAAATATTTGTATTAA
TTATTTCTGAATTTTTAAAAAATTTAGTAAAACACTCTTACTTCAGCCATTTATTCATATTTTTT
TCTCCACATTTTATTACTTTAAAAAATATAATAATTTATAATTTTATAATTT
Found at i:4281250 original size:30 final size:30
Alignment explanation
Indices: 4281216--4281279 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
4281206 GAATATACAA
4281216 TTTCCGTTTTTTTCTTTTTGTATTTTATGT
1 TTTCCGTTTTTTTCTTTTTGTATTTTATGT
4281246 TTTCCGTTTTTTTCTTTTTGTATTTTATGT
1 TTTCCGTTTTTTTCTTTTTGTATTTTATGT
4281276 TTTC
1 TTTC
4281280 TTAAACATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.06, C:0.11, G:0.09, T:0.73
Consensus pattern (30 bp):
TTTCCGTTTTTTTCTTTTTGTATTTTATGT
Found at i:4281579 original size:10 final size:10
Alignment explanation
Indices: 4281566--4281691 Score: 84
Period size: 10 Copynumber: 12.6 Consensus size: 10
4281556 CCCTCTTCTC
4281566 CTTTCCTTTT
1 CTTTCCTTTT
4281576 CTTTCCTTTT
1 CTTTCCTTTT
*
4281586 -TTTCTTTCTT
1 CTTTCCTT-TT
* *
4281596 TTTTCTTCTTCTC
1 CTTTC--CTT-TT
4281609 CTTTCCTTTT
1 CTTTCCTTTT
4281619 CTTTCCTTCTT
1 CTTTCCTT-TT
*
4281630 -TTT-TTTTT
1 CTTTCCTTTT
* *
4281638 CTTTCCTCTC
1 CTTTCCTTTT
*
4281648 CTTTCATTTT
1 CTTTCCTTTT
*
4281658 CTTTCTTTTT
1 CTTTCCTTTT
4281668 CTTT-C-TTT
1 CTTTCCTTTT
4281676 CTTT-CTTCTT
1 CTTTCCTT-TT
4281686 CTTTCC
1 CTTTCC
4281692 CTCTCCTTCT
Statistics
Matches: 92, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
8 10 0.11
9 12 0.13
10 52 0.57
11 10 0.11
13 8 0.09
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:4281619 original size:43 final size:43
Alignment explanation
Indices: 4281559--4281688 Score: 171
Period size: 43 Copynumber: 3.1 Consensus size: 43
4281549 CTTCCTCCCC
4281559 TCTTCTCCTTTCCTTTTCTTTCCTTTTTTTCTTTCTTTTTTCT
1 TCTTCTCCTTTCCTTTTCTTTCCTTTTTTTCTTTCTTTTTTCT
*
4281602 TCTTCTCCTTTCCTTTTCTTTCCTTCTTTTT-TTT-TTCTTTC-
1 TCTTCTCCTTTCCTTTTCTTTCCTT-TTTTTCTTTCTTTTTTCT
* * *
4281643 -C-TCTCCTTTCATTTTCTTTCTTTTTCTTTCTTTCTTTCTTCT
1 TCTTCTCCTTTCCTTTTCTTTCCTTTT-TTTCTTTCTTTTTTCT
4281685 TCTT
1 TCTT
4281689 TCCCTCTCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
38 2 0.03
39 23 0.31
40 4 0.05
41 5 0.07
42 6 0.08
43 29 0.39
44 6 0.08
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (43 bp):
TCTTCTCCTTTCCTTTTCTTTCCTTTTTTTCTTTCTTTTTTCT
Found at i:4281629 original size:38 final size:39
Alignment explanation
Indices: 4281559--4281691 Score: 155
Period size: 38 Copynumber: 3.3 Consensus size: 39
4281549 CTTCCTCCCC
4281559 TCTTCTCCTTTCCTTTTCTTTCCTTTTTTTCTTTCTTTTTTC-T
1 TCTTCTCCTTTCCTTTTCTTTCC-----TTCTTTCTTTTTTCTT
*
4281602 TCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTTTTTTCTT
1 TCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTTTTCTT
* *
4281641 TCCTCTCCTTTCATTTTCTTT-CTT-TTTCTTTCTTTCTT
1 TCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTT-TTTCTT
*
4281679 TCTTCTTCTTTCC
1 TCTTCTCCTTTCC
4281692 CTCTCCTTCT
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
37 6 0.07
38 32 0.40
39 20 0.25
43 23 0.28
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (39 bp):
TCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTTTTTTCTT
Found at i:4281649 original size:24 final size:24
Alignment explanation
Indices: 4281622--4281701 Score: 60
Period size: 24 Copynumber: 3.3 Consensus size: 24
4281612 TCCTTTTCTT
4281622 TCCTTCTTTTTTTTTTCTTTCCTC
1 TCCTTCTTTTTTTTTTCTTTCCTC
* *
4281646 TCCTT-TCATTTTCTTTCTTT--T-
1 TCCTTCT-TTTTTTTTTCTTTCCTC
*
4281667 TCTTTCTTTCTTTCTTCTTCTTTCCCTC
1 TCCTTCTTT-TTT-TT-TTCTTT-CCTC
4281695 TCCTTCT
1 TCCTTCT
4281702 CGTCCCCCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 5 0.12
22 5 0.12
23 2 0.05
24 22 0.54
27 1 0.02
28 6 0.15
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (24 bp):
TCCTTCTTTTTTTTTTCTTTCCTC
Found at i:4281650 original size:34 final size:34
Alignment explanation
Indices: 4281579--4281676 Score: 96
Period size: 34 Copynumber: 2.9 Consensus size: 34
4281569 TCCTTTTCTT
* * *
4281579 TCCTTTT-TTTCTTTC-TTTTTTCTTCTTCTCCTT
1 TCCTTTTCTTTCCTTCTTTTTTTTTTCTT-TCCTC
4281612 TCCTTTTCTTTCCTTCTTTTTTTTTTCTTTCCTC
1 TCCTTTTCTTTCCTTCTTTTTTTTTTCTTTCCTC
* *
4281646 TCC-TTTCATTTTCTT-TCTTTTTCTTTCTTTC
1 TCCTTTTC-TTTCCTTCT-TTTTTTTTTCTTTC
4281677 TTTCTTCTTC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
33 12 0.21
34 33 0.59
35 11 0.20
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (34 bp):
TCCTTTTCTTTCCTTCTTTTTTTTTTCTTTCCTC
Found at i:4281809 original size:27 final size:27
Alignment explanation
Indices: 4281743--4281811 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
4281733 TATATGGGCA
* *
4281743 GTGCCGCCCATGGGAATGGCGCCATCG
1 GTGCCGCCCATGGGAAAGGCACCATCG
* * * * * *
4281770 ATGCTGCCTATGGGAAAGGTACCTTTG
1 GTGCCGCCCATGGGAAAGGCACCATCG
4281797 GTGCCGCCCATGGGA
1 GTGCCGCCCATGGGA
4281812 TACCCTCCAC
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (27 bp):
GTGCCGCCCATGGGAAAGGCACCATCG
Found at i:4286233 original size:25 final size:25
Alignment explanation
Indices: 4286199--4286246 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
4286189 TACATTAAAT
4286199 ATATACCATTAAT-TTTCACAAAAAA
1 ATATACCATTAATATTTCA-AAAAAA
4286224 ATATACCATTAATATTTCAAAAA
1 ATATACCATTAATATTTCAAAAA
4286247 TACGTACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (25 bp):
ATATACCATTAATATTTCAAAAAAA
Found at i:4291070 original size:15 final size:17
Alignment explanation
Indices: 4291045--4291076 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4291035 TCCTATTTAC
4291045 ATTCGCTC-AAACTTTT
1 ATTCGCTCAAAACTTTT
4291061 ATTC-CTCAAAACTTTT
1 ATTCGCTCAAAACTTTT
4291077 TATTTTCCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.28, C:0.25, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTCGCTCAAAACTTTT
Found at i:4291472 original size:5 final size:5
Alignment explanation
Indices: 4291462--4291487 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4291452 CTCAAAAATT
4291462 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
4291488 CGAATACTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:4292987 original size:153 final size:153
Alignment explanation
Indices: 4292709--4293087 Score: 505
Period size: 153 Copynumber: 2.5 Consensus size: 153
4292699 AACAATGAAC
* * *
4292709 AAATTCTTACCACTAAGATAAAGATATCTCAAAGAGGATAGACCAGAAAGATCACTATGAATATC
1 AAATTGTTACCACTAAGATCAAGATAACTCAAAGAGGATAGACCAGAAAGATCACTATGAATATC
* *
4292774 TGCTTCACCAAGAGTGCACACGTTGCAATTTGAAAAGACAAGAACATAAAGCTTTGAGAGTCGAG
66 TGCTTCACCAAAAGTGCACACGTTGCAATTTGAAAAGACAAGAACATAAAGCTTCGAGAGTCGAG
4292839 TAAGAGATGCAGGTATGCTGATG
131 TAAGAGATGCAGGTATGCTGATG
* *
4292862 AAATTGTTACCACTAAGATCAAGATAACTCAAAGAGGTTAGACCAGAAATG-TCACTATGAGTAT
1 AAATTGTTACCACTAAGATCAAGATAACTCAAAGAGGATAGACCAGAAA-GATCACTATGAATAT
* * * *** *
4292926 CTGCTTCACCAAAAGTGCACATGTTGCAATTTGACAATGTC-AGATTTTCAAGCTTCGAGAGTCG
65 CTGCTTCACCAAAAGTGCACACGTTGCAATTTGA-AAAGACAAGAACATAAAGCTTCGAGAGTCG
4292990 AGTAAGAGATGCAGGTATGCTGATG
129 AGTAAGAGATGCAGGTATGCTGATG
*** * * *
4293015 AAATTGTTACCACTAAGATCAAG-TTTTTCCAAACAGGATAGACCAGAAATATCACGT-GGAATA
1 AAATTGTTACCACTAAGATCAAGATAACT-CAAAGAGGATAGACCAGAAAGATCAC-TATGAATA
*
4293078 TCTCCTTCAC
64 TCTGCTTCAC
4293088 GGAGATTGCA
Statistics
Matches: 198, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
152 2 0.01
153 190 0.96
154 6 0.03
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (153 bp):
AAATTGTTACCACTAAGATCAAGATAACTCAAAGAGGATAGACCAGAAAGATCACTATGAATATC
TGCTTCACCAAAAGTGCACACGTTGCAATTTGAAAAGACAAGAACATAAAGCTTCGAGAGTCGAG
TAAGAGATGCAGGTATGCTGATG
Found at i:4300116 original size:25 final size:25
Alignment explanation
Indices: 4300087--4300137 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
4300077 TATATAAGAA
4300087 TGATTATATCTCATAAGCAAATAAG
1 TGATTATATCTCATAAGCAAATAAG
4300112 TGATTATATCTCATAAGCAAATAAG
1 TGATTATATCTCATAAGCAAATAAG
4300137 T
1 T
4300138 TTACATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (25 bp):
TGATTATATCTCATAAGCAAATAAG
Found at i:4300438 original size:42 final size:42
Alignment explanation
Indices: 4300391--4300472 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
4300381 CTGTTTATGA
* * *
4300391 TTTTTCGTCTTGTAGGGACTAAATTGAAGATAAAAGGAAAGG
1 TTTTTCATCTTGTAGGGACTAAATTAAAGACAAAAGGAAAGG
4300433 TTTTTCATCTTGTAGGGACTAAATTAAAGACAAAAGGAAA
1 TTTTTCATCTTGTAGGGACTAAATTAAAGACAAAAGGAAA
4300473 TTTAGGGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (42 bp):
TTTTTCATCTTGTAGGGACTAAATTAAAGACAAAAGGAAAGG
Found at i:4304422 original size:47 final size:47
Alignment explanation
Indices: 4304353--4304451 Score: 198
Period size: 47 Copynumber: 2.1 Consensus size: 47
4304343 TAACTCAAAA
4304353 TAAAATCTTATAAATGCTAAGAACATTTTTTTGTCATTATACCTATT
1 TAAAATCTTATAAATGCTAAGAACATTTTTTTGTCATTATACCTATT
4304400 TAAAATCTTATAAATGCTAAGAACATTTTTTTGTCATTATACCTATT
1 TAAAATCTTATAAATGCTAAGAACATTTTTTTGTCATTATACCTATT
4304447 TAAAA
1 TAAAA
4304452 GTTTTTATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.43
Consensus pattern (47 bp):
TAAAATCTTATAAATGCTAAGAACATTTTTTTGTCATTATACCTATT
Found at i:4304549 original size:12 final size:13
Alignment explanation
Indices: 4304525--4304553 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4304515 AAATAGTATA
4304525 ATAACATAATTAT
1 ATAACATAATTAT
4304538 ATAACA-AATTAT
1 ATAACATAATTAT
4304550 ATAA
1 ATAA
4304554 TAACATTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAACATAATTAT
Found at i:4308356 original size:14 final size:14
Alignment explanation
Indices: 4308337--4308370 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4308327 ATACTCTTCA
4308337 CTTTTCTTTGCTTT
1 CTTTTCTTTGCTTT
*
4308351 CTTTTCTTTTCTTT
1 CTTTTCTTTGCTTT
4308365 -TTTTCT
1 CTTTTCT
4308371 CTAGTTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (14 bp):
CTTTTCTTTGCTTT
Found at i:4311980 original size:30 final size:31
Alignment explanation
Indices: 4311941--4312000 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
4311931 GGAGGTGGGA
*
4311941 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
4311972 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
4312001 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:4312227 original size:9 final size:9
Alignment explanation
Indices: 4312213--4312240 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
4312203 TATAGTTTGA
4312213 TATTCGAAT
1 TATTCGAAT
4312222 TATTCGAAT
1 TATTCGAAT
4312231 TATTCGAAT
1 TATTCGAAT
4312240 T
1 T
4312241 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:4317905 original size:268 final size:268
Alignment explanation
Indices: 4317428--4317963 Score: 1063
Period size: 268 Copynumber: 2.0 Consensus size: 268
4317418 TGGGTTTGAC
4317428 GACGGGACTGAAAGTGTCTTGAAAGTCAACACCGGCTTCCTGGAGGTACCCTTTGACCACGAGTC
1 GACGGGACTGAAAGTGTCTTGAAAGTCAACACCGGCTTCCTGGAGGTACCCTTTGACCACGAGTC
4317493 TGCCCTTGTATCTAGCAACAGACCCATCTGCATGCCTCTTGATACGGAAGAGCCATTTACATCCA
66 TGCCCTTGTATCTAGCAACAGACCCATCTGCATGCCTCTTGATACGGAAGAGCCATTTACATCCA
4317558 ACGGCTCGTCGACCTTCAGGTAAACTAACTAGCTCCCAGGTGTGATTGGAAATCAAGGCATTGTA
131 ACGGCTCGTCGACCTTCAGGTAAACTAACTAGCTCCCAGGTGTGATTGGAAATCAAGGCATTGTA
4317623 CTCTTCCTCGGCTGCTGTAGTCCAAGCTGGACTTTGAAACGCCTCATGAATGGTGGTAGGTTCAA
196 CTCTTCCTCGGCTGCTGTAGTCCAAGCTGGACTTTGAAACGCCTCATGAATGGTGGTAGGTTCAA
4317688 CTTCATCT
261 CTTCATCT
4317696 GACGGGACTGAAAGTGTCTTGAAAGTCAACACCGGCTTCCTGGAGGTACCCTTTGACCACGAGTC
1 GACGGGACTGAAAGTGTCTTGAAAGTCAACACCGGCTTCCTGGAGGTACCCTTTGACCACGAGTC
4317761 TGCCCTTGTATCTAGCAACAGACCCATCTGCATGCCTCTTGATACGGAAGAGCCATTTACATCCA
66 TGCCCTTGTATCTAGCAACAGACCCATCTGCATGCCTCTTGATACGGAAGAGCCATTTACATCCA
4317826 ACGGCTCGTCGACCTTCAGGTAAACTAACTAGCTCCCAGGTGTGATTGGAAATCAAGGCATTGTA
131 ACGGCTCGTCGACCTTCAGGTAAACTAACTAGCTCCCAGGTGTGATTGGAAATCAAGGCATTGTA
*
4317891 CTCTTTCTCGGCTGCTGTAGTCCAAGCTGGACTTTGAAACGCCTCATGAATGGTGGTAGGTTCAA
196 CTCTTCCTCGGCTGCTGTAGTCCAAGCTGGACTTTGAAACGCCTCATGAATGGTGGTAGGTTCAA
4317956 CTTCATCT
261 CTTCATCT
4317964 ACGACTGAAG
Statistics
Matches: 267, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
268 267 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (268 bp):
GACGGGACTGAAAGTGTCTTGAAAGTCAACACCGGCTTCCTGGAGGTACCCTTTGACCACGAGTC
TGCCCTTGTATCTAGCAACAGACCCATCTGCATGCCTCTTGATACGGAAGAGCCATTTACATCCA
ACGGCTCGTCGACCTTCAGGTAAACTAACTAGCTCCCAGGTGTGATTGGAAATCAAGGCATTGTA
CTCTTCCTCGGCTGCTGTAGTCCAAGCTGGACTTTGAAACGCCTCATGAATGGTGGTAGGTTCAA
CTTCATCT
Found at i:4321175 original size:153 final size:153
Alignment explanation
Indices: 4320972--4321287 Score: 444
Period size: 153 Copynumber: 2.1 Consensus size: 153
4320962 AGCCAAAGGA
* * * *
4320972 ATGCTGATGAACTTGTTACCACTAAGATCAAGATGTATCAAGGAGGATAGACCAGAAAGATCACT
1 ATGCTGATGAAATTGTTACCACTAACATCAAGATGAATCAAAGAGGATAGACCAGAAAGATCACT
*
4321037 ATGAATATCTGCTACACCAAGAGTGCACACGTTGCAATTTGACAAGT-CAAG-TTCATG-AAGCA
66 ATGAATATCTGCTACACCAAAAGTGCACACGTTGCAATTTGACAA-TACAAGATT--TGCAAGC-
4321099 TT-GAGAGTCGAGTAAGAGATGCAGGT
127 TTCGAGAGTCGAGTAAGAGATGCAGGT
* *
4321125 ATGCTGATGAAATTGTTACCACTAACATTAAGAT-AACTCAAAGAGGATAGACCAGAAATATCAC
1 ATGCTGATGAAATTGTTACCACTAACATCAAGATGAA-TCAAAGAGGATAGACCAGAAAGATCAC
* * * * *
4321189 TATGAGTATCTGCTTCACCAAAAGTGCACATGTTGCAATTTGACAATATAAGATTTGCAATCTTC
65 TATGAATATCTGCTACACCAAAAGTGCACACGTTGCAATTTGACAATACAAGATTTGCAAGCTTC
4321254 GAGAGTCGAGTAAGAGATGCAGGT
130 GAGAGTCGAGTAAGAGATGCAGGT
4321278 ATGCTGATGA
1 ATGCTGATGA
4321288 TGGAATATCT
Statistics
Matches: 146, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
152 6 0.04
153 138 0.95
154 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (153 bp):
ATGCTGATGAAATTGTTACCACTAACATCAAGATGAATCAAAGAGGATAGACCAGAAAGATCACT
ATGAATATCTGCTACACCAAAAGTGCACACGTTGCAATTTGACAATACAAGATTTGCAAGCTTCG
AGAGTCGAGTAAGAGATGCAGGT
Found at i:4322794 original size:24 final size:26
Alignment explanation
Indices: 4322735--4322787 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
4322725 TTAGTACATT
*
4322735 AAATATATACCATTAATTTTCTCAAA
1 AAATATATACCATTAATATTCTCAAA
*
4322761 AAAAATATACCATTAATATT-TCAAA
1 AAATATATACCATTAATATTCTCAAA
4322786 AA
1 AA
4322788 TACATACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (26 bp):
AAATATATACCATTAATATTCTCAAA
Found at i:4325539 original size:27 final size:28
Alignment explanation
Indices: 4325509--4325564 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
4325499 GAAATTCAAA
4325509 AGTTTAAGCCTCTTAAG-ACTCCGAATG
1 AGTTTAAGCCTCTTAAGCACTCCGAATG
4325536 AGTTTAAGCCTCTTAAGCACTCCGAATG
1 AGTTTAAGCCTCTTAAGCACTCCGAATG
4325564 A
1 A
4325565 TGGATGGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (28 bp):
AGTTTAAGCCTCTTAAGCACTCCGAATG
Found at i:4339741 original size:153 final size:153
Alignment explanation
Indices: 4339354--4339722 Score: 584
Period size: 153 Copynumber: 2.4 Consensus size: 153
4339344 AGCCAAAGGA
4339354 ATGCTGATGAAATTGTTACCACTAAGATAAAGATAACTCAAAGAGGATAGACCAGAAATATCACT
1 ATGCTGATGAAATTGTTACCACTAAGATAAAGATAACTCAAAGAGGATAGACCAGAAATATCACT
* * *
4339419 ATGAGTATCTGCTTCACCAAGAATGCACATGTTGCAATTTGACAATTCAAGAGACTTAAGCTTTG
66 ATGAGTATCTGCTTCACCAAGAATGCACAAGTTGCAATTTGACAATTCAAGAGACTCAAGCTTCG
4339484 AGAGTCGAGTAAGAGATGCAGGT
131 AGAGTCGAGTAAGAGATGCAGGT
*
4339507 ATGCTGATGAAATTGTTACCACTAAGATTAAGATAACTCAAAGAGGATAGACCAGAAATATCACT
1 ATGCTGATGAAATTGTTACCACTAAGATAAAGATAACTCAAAGAGGATAGACCAGAAATATCACT
*
4339572 ATGAGTATCTGCTTCACCAA-AAGTGCACAAGTTGCAATTTGACAATAT-AAGATA-TGCAAGCT
66 ATGAGTATCTGCTTCACCAAGAA-TGCACAAGTTGCAATTTGACAAT-TCAAGAGACT-CAAGCT
4339634 TCGAGAGTCGAGTAAGAGATGCAGGT
128 TCGAGAGTCGAGTAAGAGATGCAGGT
* * ** *
4339660 ATGCTGACGAAATTGTTACCACTAAGATCAAG-TATTTCCAAACAGGATAGACCAGAAATATCA
1 ATGCTGATGAAATTGTTACCACTAAGATAAAGATAACT-CAAAGAGGATAGACCAGAAATATCA
4339723 GGTGGAATAT
Statistics
Matches: 202, Mismatches: 10, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
152 6 0.03
153 195 0.97
154 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (153 bp):
ATGCTGATGAAATTGTTACCACTAAGATAAAGATAACTCAAAGAGGATAGACCAGAAATATCACT
ATGAGTATCTGCTTCACCAAGAATGCACAAGTTGCAATTTGACAATTCAAGAGACTCAAGCTTCG
AGAGTCGAGTAAGAGATGCAGGT
Found at i:4342937 original size:2 final size:2
Alignment explanation
Indices: 4342894--4342921 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4342884 GAATGAGATT
4342894 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
4342922 GAATATTCTA
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):
TA
Found at i:4345557 original size:23 final size:24
Alignment explanation
Indices: 4345498--4345554 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
4345488 TTAGTACATT
*
4345498 AAATATATACCATTAATTTTCACA
1 AAATAAATACCATTAATTTTCACA
4345522 AAA-AAATACCATTAATATTTCA-A
1 AAATAAATACCATTAAT-TTTCACA
*
4345545 AAATACATAC
1 AAATAAATAC
4345555 ATTTCACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 16 0.55
24 13 0.45
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATAAATACCATTAATTTTCACA
Found at i:4354349 original size:25 final size:27
Alignment explanation
Indices: 4354310--4354361 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 27
4354300 TTAGTACATT
4354310 AAATATATACAATTAAT-TTTCACAAAA
1 AAATATATACAATTAATATTTCA-AAAA
4354337 AAATATA-AC-ATTAATATTTCAAAAA
1 AAATATATACAATTAATATTTCAAAAA
4354362 TACATACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 10 0.42
26 7 0.29
27 7 0.29
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.33
Consensus pattern (27 bp):
AAATATATACAATTAATATTTCAAAAA
Found at i:4358904 original size:16 final size:17
Alignment explanation
Indices: 4358883--4358915 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4358873 CCGAAACTCT
4358883 ATTTTAAT-ATTTTTAA
1 ATTTTAATAATTTTTAA
4358899 ATTTTAATAATTTTTAA
1 ATTTTAATAATTTTTAA
4358916 TCATTGGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTAATAATTTTTAA
Found at i:4378538 original size:29 final size:30
Alignment explanation
Indices: 4378505--4378562 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
4378495 GTAAATTAGG
*
4378505 AGGGTTTTAGTTAAGCCATAAAA-CTAAGA
1 AGGGTTCTAGTTAAGCCATAAAAGCTAAGA
*
4378534 AGGGTTCTAGTTTAGCCATAAAAGCTAAG
1 AGGGTTCTAGTTAAGCCATAAAAGCTAAG
4378563 GGGAAAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (30 bp):
AGGGTTCTAGTTAAGCCATAAAAGCTAAGA
Found at i:4378885 original size:173 final size:174
Alignment explanation
Indices: 4378593--4378944 Score: 544
Period size: 173 Copynumber: 2.0 Consensus size: 174
4378583 CTTAAGAAAA
* * *
4378593 AGATAGTTTTGTAAAAGTTATACCTTCTCCTTGAAATATATTAATTCTAATTGTGAATTGGGAAA
1 AGATAGTTTTGTAAAAGTTATACCTTCTCCTTGAAATATATTAATTATAATAGT--ATTGAGAAA
* * *
4378658 TCCTTAATGGTGGAAAGCTAAGGTAGTGGAGATAAGCAATTGGGGCCAAACCATTATAGACCAAA
64 TCCTTAATGGTGGAAAGCTAAGGTAGAGGAGATAAGCAATTGGAGCCAAACCATTATAAACCAAA
*
4378723 ATGTCCAAGCTTTTCTTTCATTTTCTTACCATTTAGAAAAGTTTGT
129 ATGTCCAAGCTTTTCTTTCATTTTCTTACCATTTAGAAAAGTTTCT
*
4378769 AGATAGTTTTGTAAAAGTTATACCTTCTCCTTGAAATGTATTAATTATAATAGT-TTGAGAAATC
1 AGATAGTTTTGTAAAAGTTATACCTTCTCCTTGAAATATATTAATTATAATAGTATTGAGAAATC
* * * * *
4378833 TTTAATGGTGGAAAGCTAAGGTAGAGGAGATAGGCAATTGGAGTCAAACCATTATAAACCGAAGT
66 CTTAATGGTGGAAAGCTAAGGTAGAGGAGATAAGCAATTGGAGCCAAACCATTATAAACCAAAAT
* *
4378898 GTTCAAGCTTTTCTTTCATTTTCTTATCATTTAGAAAAGTTTCT
131 GTCCAAGCTTTTCTTTCATTTTCTTACCATTTAGAAAAGTTTCT
4378942 AGA
1 AGA
4378945 AATTTTTTAA
Statistics
Matches: 161, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
173 110 0.68
176 51 0.32
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (174 bp):
AGATAGTTTTGTAAAAGTTATACCTTCTCCTTGAAATATATTAATTATAATAGTATTGAGAAATC
CTTAATGGTGGAAAGCTAAGGTAGAGGAGATAAGCAATTGGAGCCAAACCATTATAAACCAAAAT
GTCCAAGCTTTTCTTTCATTTTCTTACCATTTAGAAAAGTTTCT
Found at i:4381856 original size:17 final size:16
Alignment explanation
Indices: 4381821--4381872 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
4381811 GGGGGAAAAC
*
4381821 AAAGGAAAGAGAAATG
1 AAAGGAAAAAGAAATG
*
4381837 AAATGAAAAAGAATATG
1 AAAGGAAAAAGAA-ATG
*
4381854 AAAGGAAAAAGAAGTG
1 AAAGGAAAAAGAAATG
4381870 AAA
1 AAA
4381873 ATATATGAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 16 0.52
17 15 0.48
ACGTcount: A:0.65, C:0.00, G:0.25, T:0.10
Consensus pattern (16 bp):
AAAGGAAAAAGAAATG
Found at i:4387655 original size:23 final size:22
Alignment explanation
Indices: 4387617--4387671 Score: 85
Period size: 23 Copynumber: 2.5 Consensus size: 22
4387607 CTTAACTATA
*
4387617 TCAAATT-TTAACAAACAGCAC
1 TCAAATTCTTAACAAACAACAC
4387638 TCAAATTCTTGAACAAACAACAC
1 TCAAATTCTT-AACAAACAACAC
4387661 TCAAATTCTTA
1 TCAAATTCTTA
4387672 GGGTGTTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 7 0.23
22 3 0.10
23 21 0.68
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (22 bp):
TCAAATTCTTAACAAACAACAC
Found at i:4387796 original size:5 final size:5
Alignment explanation
Indices: 4387786--4387851 Score: 96
Period size: 5 Copynumber: 13.2 Consensus size: 5
4387776 TAGGACATGT
* * *
4387786 TATGA TATGA TATGA TATGA TATGA TATGA TATGT TATGA TACGT TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
*
4387836 TATGA TAAGA TATGA T
1 TATGA TATGA TATGA T
4387852 CAGAATGAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.41
Consensus pattern (5 bp):
TATGA
Found at i:4391212 original size:26 final size:26
Alignment explanation
Indices: 4391174--4391225 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4391164 TTATTACCAC
* * * *
4391174 TTTTGAAACCAAAAGGGCAAAAAAAA
1 TTTTAAAAACAAAAAGGAAAAAAAAA
4391200 TTTTAAAAACAAAAAGGAAAAAAAAA
1 TTTTAAAAACAAAAAGGAAAAAAAAA
4391226 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.65, C:0.08, G:0.12, T:0.15
Consensus pattern (26 bp):
TTTTAAAAACAAAAAGGAAAAAAAAA
Found at i:4393675 original size:112 final size:113
Alignment explanation
Indices: 4393536--4393780 Score: 465
Period size: 112 Copynumber: 2.2 Consensus size: 113
4393526 GAAGTCAGAA
4393536 AATCTTTTTAGGGGGTCAAAACTAAATTGTAGCTTTTATGATAGTAAAAATGTAATTTCGTCATT
1 AATCTTTTTAGGGGGTCAAAACTAAATTGTAGCTTTTATGATAGTAAAAATGTAATTTCGTCATT
4393601 TTAAGAGGTTATATCTTTATAATTTTTAAAATATT-AATTAAATTTTT
66 TTAAGAGGTTATATCTTTATAATTTTTAAAATATTAAATTAAATTTTT
4393648 AATCTTTTTAGGGGGTCAAAACTAAATTGTAGCTTTTATGATAGTAAAAATGTAATTTCGTCATT
1 AATCTTTTTAGGGGGTCAAAACTAAATTGTAGCTTTTATGATAGTAAAAATGTAATTTCGTCATT
4393713 TTAAGAGGTTATATCTTTATAATTTTTAAAATATTAAATTAAATTTTT
66 TTAAGAGGTTATATCTTTATAATTTTTAAAATATTAAATTAAATTTTT
* *
4393761 ATTATTTTTAGGGGGTCAAA
1 AATCTTTTTAGGGGGTCAAA
4393781 GTGTTATTTT
Statistics
Matches: 130, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
112 100 0.77
113 30 0.23
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (113 bp):
AATCTTTTTAGGGGGTCAAAACTAAATTGTAGCTTTTATGATAGTAAAAATGTAATTTCGTCATT
TTAAGAGGTTATATCTTTATAATTTTTAAAATATTAAATTAAATTTTT
Found at i:4396227 original size:24 final size:23
Alignment explanation
Indices: 4396200--4396254 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
4396190 TTTTTATCAT
* *
4396200 TTTTCTCAATGTTTGTGTTTTCTA
1 TTTTCTCAATATTT-TCTTTTCTA
*
4396224 TTTTC-CTAATATTTTCTTTTCTT
1 TTTTCTC-AATATTTTCTTTTCTA
4396247 TTTTCTCA
1 TTTTCTCA
4396255 TAAAATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.13, C:0.16, G:0.05, T:0.65
Consensus pattern (23 bp):
TTTTCTCAATATTTTCTTTTCTA
Found at i:4397033 original size:17 final size:18
Alignment explanation
Indices: 4396992--4397033 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
4396982 ATCAAGGAAA
4396992 AAAAAAAACAAAACCAAC
1 AAAAAAAACAAAACCAAC
** *
4397010 ATCAAAACCAAAA-CAAC
1 AAAAAAAACAAAACCAAC
4397027 AAAAAAA
1 AAAAAAA
4397034 GAGAGAGGGA
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.76, C:0.21, G:0.00, T:0.02
Consensus pattern (18 bp):
AAAAAAAACAAAACCAAC
Found at i:4397117 original size:4 final size:4
Alignment explanation
Indices: 4397098--4397134 Score: 56
Period size: 4 Copynumber: 8.8 Consensus size: 4
4397088 AGCCCCAGCC
4397098 TTTA TTCTA TTTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TT-TA -TTTA TTTA TTTA TTTA TTTA TTTA TTT
4397135 CCCATTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 25 0.81
5 4 0.13
6 2 0.06
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:4401463 original size:2 final size:2
Alignment explanation
Indices: 4401456--4401480 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4401446 GTAAGAAGAA
4401456 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4401481 CATAATGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4406523 original size:19 final size:19
Alignment explanation
Indices: 4406499--4406540 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
4406489 AATGAGTTCC
4406499 TTTATTAATGGATGCCTTG
1 TTTATTAATGGATGCCTTG
4406518 TTTATTAATGGATGCCTTG
1 TTTATTAATGGATGCCTTG
4406537 TTTA
1 TTTA
4406541 AATACATCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.10, G:0.19, T:0.50
Consensus pattern (19 bp):
TTTATTAATGGATGCCTTG
Found at i:4418739 original size:297 final size:297
Alignment explanation
Indices: 4418009--4419176 Score: 1197
Period size: 297 Copynumber: 3.9 Consensus size: 297
4417999 TATATAAAAG
* * * * * * *
4418009 TAATGGAGATAATAACTTGTGCATATTAAAATGAAAATTTATAAATTAGAATAAAATGAAGCTTT
1 TAATGGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATTAAAATAAAACTTT
* * * * **
4418074 GGTTGAATGGTAAAATT-AAGGTTT-TGCT-ATCTCAATTAGTGTGGGTTCAAATC-CTATTGTA
66 GGTTAAATGATAAATTTAAAGGTTTAT--TAATC-CAATTGGTGTGGGTTCAAATCTC-ATCATA
* * *
4418135 TGCATATTTTAATTTGTTTTTGTTAAAATGAAAAGACTAAAATAGCTACTGTTAAATAGTATAAC
127 TGCATATTTTAATTTGTTTTTGTTAAAATGAAAAGACTAAAATA-C--C-CTCAAACAGTATAAC
** * * *
4418200 TTATTTTAATTACGAAAGGGCATTTTTATAATTTTCTAACTGAGTTGGTGACCCAAATGTGGGTG
188 TTATTTTAATTACGAAAGAACATTTTTATAATTTCCTAACTGAGTTGGTGACCCAATTGAGGGTG
* *
4418265 ACACCAACTTAGTAAAACAATTAAT-AATGGTAAGGATAGATATACAAC
253 ACACCAACTTAGTAAAACACTTAATAAATAGTAA-G-T-G-TATACAAC
* * *
4418313 TACTGGAGATAATAACTTTTGTATATTAAAATAAAAATGTATAAAATATATTAAAATAAAGAC-T
1 TAATGGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATTAAAATAAA-ACTT
* * * * * ** * * *
4418377 TGTTTAAGTGGTATAAATTTATA-CTTTACTAATTTAATTGGGGTGGGTTCAAATCCCACCATAT
65 TGGTTAAAT-G-ATAAATTTAAAGGTTTATTAATCCAATTGGTGTGGGTTCAAATCTCATCATAT
* * *
4418441 GCTTATTTTAATTTGTTTTTGTTAAAATGAAAAGACTAAAATGA-CCTCAAATAGTATAAATTAT
128 GCATATTTTAATTTGTTTTTGTTAAAATGAAAAGACTAAAAT-ACCCTCAAACAGTATAACTTAT
* ** * * * * *
4418505 TTTAATTATG-AAGGGCATTTTTGTAATTTCCTAATTGATTTGGTGACCCGATCGAGGGTGACAC
192 TTTAATTACGAAAGAACATTTTTATAATTTCCTAACTGAGTTGGTGACCCAATTGAGGGTGACAC
4418569 CAACATT-GTAAAACACTTAATAAATAGTAAGTGTATACAAC
257 CAAC-TTAGTAAAACACTTAATAAATAGTAAGTGTATACAAC
* * *
4418610 TAGTGGAGATAATAA-TGTGCGCATATTAAAATAAAAAATGTATAAAATATATTAAAATAAAATT
1 TAATGGAGATAATAACT-TGTGCATATTAAAAT-AAAAATGTATAAAATATATTAAAATAAAACT
* *
4418674 TTGGTTGAGTGATAAATTTAAAGGTTT-TTAGATCCAATTGGTGTGGGTTCAAATCTCATCATAT
64 TTGGTTAAATGATAAATTTAAAGGTTTATTA-ATCCAATTGGTGTGGGTTCAAATCTCATCATAT
4418738 GCATATTTTAATTTGTTTTTGTTAAAATGAAAAGACTAAAATACCCTCAAACAGTATAACTTATT
128 GCATATTTTAATTTGTTTTTGTTAAAATGAAAAGACTAAAATACCCTCAAACAGTATAACTTATT
* * * ***
4418803 TTAATTACGAAATAACATTTTTATAATTTCTTGA-TCGAGTTGGTGACCTGGTTGAGGAG-GACA
193 TTAATTACGAAAGAACATTTTTATAATTTCCTAACT-GAGTTGGTGACCCAATTGAGG-GTGACA
* * *
4418866 CCAACTTAGTAAAATACTTAACAAATAGTATA-TTTATACAAC
256 CCAACTTAGTAAAACACTTAATAAATAGTA-AGTGTATACAAC
* * ** *
4418908 TAATGGAGATAATAACTTGTGCATATTAAAA-AACACGAT-TATAAAATACATTAAAACGAAGCT
1 TAATGGAGATAATAACTTGTGCATATTAAAATAA-A-AATGTATAAAATATATTAAAATAAAACT
* * * ** ** *
4418971 TTGGTTAAATGGTAAATTTAAAGTTTTATTAAAT-TAATTGGCATGTATTCAAATCTTATCATAT
64 TTGGTTAAATGATAAATTTAAAGGTTTATT-AATCCAATTGGTGTGGGTTCAAATCTCATCATAT
* * * ** * *
4419035 GCATATTTTAATTGGTTTTTCTTAAAATGAACA-TTTAAAATACCCTCAAACGGTACAACTTATT
128 GCATATTTTAATTTGTTTTTGTTAAAATGAAAAGACTAAAATACCCTCAAACAGTATAACTTATT
* *
4419099 TTAATTACAGAAA-AACATTCTCATAATTTCCTAACTGAGTTGGTGACCCAATTGAGGGTGACAC
193 TTAATTAC-GAAAGAACATTTTTATAATTTCCTAACTGAGTTGGTGACCCAATTGAGGGTGACAC
*
4419163 CAATTTAGTAAAAC
257 CAACTTAGTAAAAC
4419177 TCAAAAAGAA
Statistics
Matches: 729, Mismatches: 106, Indels: 66
0.81 0.12 0.07
Matches are distributed among these distances:
295 1 0.00
296 103 0.14
297 240 0.33
298 143 0.20
299 5 0.01
300 64 0.09
301 34 0.05
302 1 0.00
304 58 0.08
305 66 0.09
306 13 0.02
307 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.36
Consensus pattern (297 bp):
TAATGGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATATATTAAAATAAAACTTT
GGTTAAATGATAAATTTAAAGGTTTATTAATCCAATTGGTGTGGGTTCAAATCTCATCATATGCA
TATTTTAATTTGTTTTTGTTAAAATGAAAAGACTAAAATACCCTCAAACAGTATAACTTATTTTA
ATTACGAAAGAACATTTTTATAATTTCCTAACTGAGTTGGTGACCCAATTGAGGGTGACACCAAC
TTAGTAAAACACTTAATAAATAGTAAGTGTATACAAC
Found at i:4424297 original size:18 final size:18
Alignment explanation
Indices: 4424276--4424318 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4424266 TTTTAACTAA
4424276 TAATTATAATTTAAAT-TC
1 TAATTAT-ATTTAAATGTC
* *
4424294 TAATTATTTTTAAATGTG
1 TAATTATATTTAAATGTC
4424312 TAATTAT
1 TAATTAT
4424319 CACAACTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TAATTATATTTAAATGTC
Found at i:4429756 original size:24 final size:23
Alignment explanation
Indices: 4429725--4429769 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
4429715 TTTTAAAAAC
4429725 ATTTATATTATTTTTAATTTAAT
1 ATTTATATTATTTTTAATTTAAT
* *
4429748 ATTTAATATTTTTTTTCATTTA
1 ATTT-ATATTATTTTTAATTTA
4429770 TTAAAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATTTATATTATTTTTAATTTAAT
Found at i:4432764 original size:108 final size:108
Alignment explanation
Indices: 4432549--4432751 Score: 370
Period size: 108 Copynumber: 1.9 Consensus size: 108
4432539 NNNNNNNNNN
4432549 AAGGTTTGGGAGAAAGTAGACTAGAACTCAACTATGGCAAAATCATGTTTCAAGTAAGGATCGGC
1 AAGGTTTGGGAGAAAGTAGACTAGAACTCAACTATGGCAAAATCATGTTTCAAGTAAGGATCGGC
* * *
4432614 TCAATATGGCCATCTAATACTACATTTAATATATATATATATT
66 TCAATATGGCCATCTAATACTACATTTAATAGAGATAGATATT
4432657 AAGGTTTGGGAGAAAGTAGACTAGAACTCAACTATGGCAAAATCATGTTTCAAGTAAGGATCGGC
1 AAGGTTTGGGAGAAAGTAGACTAGAACTCAACTATGGCAAAATCATGTTTCAAGTAAGGATCGGC
4432722 TCAATATGGCCATCTATATACTACATTTAA
66 TCAATATGGCCATCTA-ATACTACATTTAA
4432752 GTGGGCTGAT
Statistics
Matches: 94, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
108 81 0.86
109 13 0.14
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (108 bp):
AAGGTTTGGGAGAAAGTAGACTAGAACTCAACTATGGCAAAATCATGTTTCAAGTAAGGATCGGC
TCAATATGGCCATCTAATACTACATTTAATAGAGATAGATATT
Found at i:4436665 original size:25 final size:23
Alignment explanation
Indices: 4436629--4436684 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
4436619 CCATATTAAA
*
4436629 ATATATTTTT-AATATATAAAAAT
1 ATATATTTTTAAAAATA-AAAAAT
4436652 ATATATTTGATTAAAAATAAAAAAT
1 ATATATTT--TTAAAAATAAAAAAT
*
4436677 AAATATTT
1 ATATATTT
4436685 AATATATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 8 0.29
25 15 0.54
26 5 0.18
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATATTTTTAAAAATAAAAAAT
Found at i:4436668 original size:19 final size:21
Alignment explanation
Indices: 4436621--4436693 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
4436611 GGGCCAGCCC
* *
4436621 ATATTAAAATATATTTTTAAT
1 ATATAAAAATATATATTTAAT
*
4436642 ATATAAAAATATATATTTGATTAA
1 ATATAAAAATATATATTT-A--AT
* *
4436666 AAATAAAAAATAAATATTTAAT
1 ATAT-AAAAATATATATTTAAT
4436688 ATATAA
1 ATATAA
4436694 TTCGAGCTGG
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
21 18 0.44
22 5 0.12
24 5 0.12
25 13 0.32
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (21 bp):
ATATAAAAATATATATTTAAT
Found at i:4455528 original size:20 final size:20
Alignment explanation
Indices: 4455503--4455542 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
4455493 TGGTCAAAAT
4455503 TAATAAAATTTAAAAATCAC
1 TAATAAAATTTAAAAATCAC
4455523 TAATAAAATTTAAAAATCAC
1 TAATAAAATTTAAAAATCAC
4455543 GACAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATAAAATTTAAAAATCAC
Found at i:4455551 original size:21 final size:20
Alignment explanation
Indices: 4455507--4455551 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4455497 CAAAATTAAT
* *
4455507 AAAATTTAAAAATCACTAAT
1 AAAATTTAAAAATCACGAAA
4455527 AAAATTTAAAAATCACGACAA
1 AAAATTTAAAAATCACGA-AA
4455548 AAAA
1 AAAA
4455552 GTTGACAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.64, C:0.11, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAATTTAAAAATCACGAAA
Found at i:4459131 original size:79 final size:80
Alignment explanation
Indices: 4459006--4459165 Score: 313
Period size: 79 Copynumber: 2.0 Consensus size: 80
4458996 TATTTTTAAA
4459006 AAATTATTTAGATTTCGAAATATAAAAATTAGACTTCAGTTGTTTTTTTATTTTATCTCTAAAAT
1 AAATTATTTAGATTTCGAAATATAAAAATTAGACTTCAGTTGTTTTTTTATTTTATCTCTAAAAT
4459071 TTT-AATTTAAAAAT
66 TTTAAATTTAAAAAT
4459085 AAATTATTTAGATTTCGAAATATAAAAATTAGACTTCAGTTGTTTTTTTATTTTATCTCTAAAAT
1 AAATTATTTAGATTTCGAAATATAAAAATTAGACTTCAGTTGTTTTTTTATTTTATCTCTAAAAT
4459150 TTTAAATTTAAAAAT
66 TTTAAATTTAAAAAT
4459165 A
1 A
4459166 TATAATTAAC
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 68 0.85
80 12 0.15
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (80 bp):
AAATTATTTAGATTTCGAAATATAAAAATTAGACTTCAGTTGTTTTTTTATTTTATCTCTAAAAT
TTTAAATTTAAAAAT
Found at i:4460337 original size:13 final size:12
Alignment explanation
Indices: 4460315--4460352 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
4460305 TTTTTAAAAA
*
4460315 AATTAATTTTAT
1 AATTATTTTTAT
4460327 ATATTATTTTTA-
1 A-ATTATTTTTAT
4460339 AATTATTTTTAT
1 AATTATTTTTAT
4460351 AA
1 AA
4460353 ATTTATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 10 0.43
12 4 0.17
13 9 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
AATTATTTTTAT
Found at i:4460353 original size:13 final size:12
Alignment explanation
Indices: 4460314--4460355 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
4460304 ATTTTTAAAA
4460314 AAATTAATTTTAT
1 AAATT-ATTTTAT
*
4460327 ATATTATTTT-T
1 AAATTATTTTAT
4460338 AAATTATTTTTAT
1 AAATTA-TTTTAT
4460351 AAATT
1 AAATT
4460356 TATACATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 6 0.24
12 9 0.36
13 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
AAATTATTTTAT
Found at i:4465988 original size:3 final size:3
Alignment explanation
Indices: 4465980--4466020 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
4465970 NNNNNNNNNN
*
4465980 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4466021 ATGTGAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:4467257 original size:6 final size:6
Alignment explanation
Indices: 4467246--4467288 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
4467236 GTGTATTGAA
* *
4467246 TACTGT TACTGT TACTGC TACCGT TACTGAT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG-T TACTG
4467289 GTGTGTTTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
6 19 0.61
7 12 0.39
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:4469104 original size:10 final size:10
Alignment explanation
Indices: 4469073--4469115 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
4469063 TTATAAATTA
4469073 TATAATATA-
1 TATAATATAT
* *
4469082 TA-AAAATAA
1 TATAATATAT
4469091 TATAATATAT
1 TATAATATAT
4469101 TATAATATAT
1 TATAATATAT
4469111 TATAA
1 TATAA
4469116 ACTTAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 5 0.17
9 4 0.14
10 20 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TATAATATAT
Found at i:4470588 original size:13 final size:13
Alignment explanation
Indices: 4470570--4470594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4470560 TTTCAATTAA
4470570 TTATTTTTTAAAT
1 TTATTTTTTAAAT
4470583 TTATTTTTTAAA
1 TTATTTTTTAAA
4470595 ATATATATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTTTTTAAAT
Found at i:4475970 original size:39 final size:39
Alignment explanation
Indices: 4475927--4476002 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
4475917 ACCTGATAAA
4475927 CAGTTCCTCAATCCAAACTCGAAACTCAGTTAAACTCAG
1 CAGTTCCTCAATCCAAACTCGAAACTCAGTTAAACTCAG
* * * *
4475966 CAGTTCCTCGATCCGAACTTGAAACTCTGTTAAACTC
1 CAGTTCCTCAATCCAAACTCGAAACTCAGTTAAACTC
4476003 GTTACCTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (39 bp):
CAGTTCCTCAATCCAAACTCGAAACTCAGTTAAACTCAG
Found at i:4477534 original size:21 final size:20
Alignment explanation
Indices: 4477505--4477543 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4477495 AACACAAGGT
*
4477505 ACATCATTCAATACTCAATGC
1 ACATAATTCAATA-TCAATGC
*
4477526 ACATAATTCCATATCAAT
1 ACATAATTCAATATCAAT
4477544 TAACCCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.26, G:0.03, T:0.31
Consensus pattern (20 bp):
ACATAATTCAATATCAATGC
Found at i:4493534 original size:46 final size:46
Alignment explanation
Indices: 4493467--4493560 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
4493457 TTACTTGATC
4493467 ATAAATCTTACTCTATTCAAGTTAGAACATGAGGGTGATTTCTCAG
1 ATAAATCTTACTCTATTCAAGTTAGAACATGAGGGTGATTTCTCAG
4493513 ATAAATCTTACTCTATTCAAGTTAGAACATGAGGGTGATTTCTCAG
1 ATAAATCTTACTCTATTCAAGTTAGAACATGAGGGTGATTTCTCAG
4493559 AT
1 AT
4493561 CCTTACATGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (46 bp):
ATAAATCTTACTCTATTCAAGTTAGAACATGAGGGTGATTTCTCAG
Found at i:4493930 original size:6 final size:6
Alignment explanation
Indices: 4493914--4493955 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
4493904 CTATAGAGTT
*
4493914 GGATTA CGATTA GGATTA GGATTA GGATTA GGATTA GGATTA
1 GGATTA GGATTA GGATTA GGATTA GGATTA GGATTA GGATTA
4493956 ATTAAAATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.33
Consensus pattern (6 bp):
GGATTA
Found at i:4495446 original size:24 final size:22
Alignment explanation
Indices: 4495377--4495450 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 22
4495367 AAATTACAAA
4495377 AAAATAATT-AAAATAA--TTTT
1 AAAA-AATTCAAAATAATTTTTT
*
4495397 CAAAAATTCAAAATAATTTTTT
1 AAAAAATTCAAAATAATTTTTT
*
4495419 AAAAAATTCAAAATTTATATTTTT
1 AAAAAATTCAAAA-TAAT-TTTTT
4495443 AAAAAATT
1 AAAAAATT
4495451 ATAAAAATTC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.09
20 10 0.22
22 16 0.35
23 3 0.07
24 13 0.28
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAAATTCAAAATAATTTTTT
Found at i:4495457 original size:55 final size:57
Alignment explanation
Indices: 4495384--4495489 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 57
4495374 AAAAAAATAA
* *
4495384 TTAAAATAATTTTCAAAAATT-CAAAATA-ATTTTTTAAAAAATTCAAAATTTATATTT
1 TTAAAATAATTATCAAAAATTCCAAAATATA-TATTTAAAAAATT-AAAATTTATATTT
*
4495441 TTAAAA-AATTAT-AAAAATTCCAAAATATATATTTAAAAAGTTAAAATTT
1 TTAAAATAATTATCAAAAATTCCAAAATATATATTTAAAAAATTAAAATTT
4495490 TAAAATATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
55 14 0.32
56 23 0.52
57 7 0.16
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.41
Consensus pattern (57 bp):
TTAAAATAATTATCAAAAATTCCAAAATATATATTTAAAAAATTAAAATTTATATTT
Found at i:4497859 original size:9 final size:9
Alignment explanation
Indices: 4497784--4497868 Score: 66
Period size: 9 Copynumber: 9.2 Consensus size: 9
4497774 ATAATAAATA
*
4497784 TTTTTATTT
1 TTTTTAATT
4497793 TTTTTAATT
1 TTTTTAATT
4497802 TTTTTAA--
1 TTTTTAATT
* *
4497809 TTTTAAAAT
1 TTTTTAATT
*
4497818 TTTTTAAAT
1 TTTTTAATT
*
4497827 TTTTAAATT
1 TTTTTAATT
*
4497836 TTTTAAAATACT
1 TTTT-TAAT--T
4497848 TTTTTAATTT
1 TTTTTAA-TT
4497858 TTTTTAATT
1 TTTTTAATT
4497867 TT
1 TT
4497869 AAAATATTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
7 6 0.09
9 38 0.59
10 12 0.19
11 2 0.03
12 6 0.09
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTAATT
Found at i:4497860 original size:8 final size:8
Alignment explanation
Indices: 4497792--4497841 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
4497782 TATTTTTATT
4497792 TTTTTTAA
1 TTTTTTAA
4497800 TTTTTTTAA
1 -TTTTTTAA
**
4497809 TTTTAAAA
1 TTTTTTAA
4497817 TTTTTTAAA
1 TTTTTT-AA
*
4497826 TTTTTAAA
1 TTTTTTAA
4497834 TTTTTTAA
1 TTTTTTAA
4497842 AATACTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
8 19 0.56
9 15 0.44
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TTTTTTAA
Found at i:4497864 original size:40 final size:41
Alignment explanation
Indices: 4497817--4497924 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 41
4497807 AATTTTAAAA
*
4497817 TTTTTTAAATTTTTAAAT-TTTTTAAAATA-CTTTTTTAAT
1 TTTTTTTAATTTTTAAATATTTTTAAAATAGCTTTTTTAAT
* *
4497856 TTTTTTTAATTTTAAAATATTTTTAAAATAGTTTTTTTAATT
1 TTTTTTTAATTTTTAAATATTTTTAAAATAGCTTTTTTAA-T
4497898 TTTATTTTAATTTTTAAAATAATTTTT
1 TTT-TTTTAATTTTT-AAAT-ATTTTT
4497925 TGGTATTTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
39 16 0.27
40 11 0.19
41 8 0.14
42 4 0.07
43 10 0.17
44 4 0.07
45 6 0.10
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (41 bp):
TTTTTTTAATTTTTAAATATTTTTAAAATAGCTTTTTTAAT
Found at i:4498639 original size:15 final size:15
Alignment explanation
Indices: 4498607--4498641 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4498597 AAATTTGAAA
* *
4498607 TTTAATTTTTATTTT
1 TTTAATTTTTAATAT
4498622 TTTAATTTTTAATAT
1 TTTAATTTTTAATAT
4498637 TTTAA
1 TTTAA
4498642 AATTTATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTAATTTTTAATAT
Found at i:4498645 original size:37 final size:36
Alignment explanation
Indices: 4498574--4498647 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
4498564 AATATGTAAC
* *
4498574 AATTTTTTTTTTGTATTTTTTATAAATTTGAAATTT
1 AATTTTTTTTTTGTATTTTTAATAAATTTAAAATTT
* *
4498610 AATTTTTATTTTTTTAATTTTTAAT-ATTTTAAAATTT
1 AATTTTT-TTTTTGT-ATTTTTAATAAATTTAAAATTT
4498647 A
1 A
4498648 TAACCGTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 7 0.22
37 17 0.53
38 8 0.25
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (36 bp):
AATTTTTTTTTTGTATTTTTAATAAATTTAAAATTT
Found at i:4505443 original size:54 final size:54
Alignment explanation
Indices: 4505371--4505479 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
4505361 TTTAACTATC
4505371 ATTATATTATTTTATTTTATTAAAATTT-TAAAAAATTAACATTTTTTAATATTT
1 ATTATATTATTTTATTTTATTAAAATTTAT-AAAAATTAACATTTTTTAATATTT
*
4505425 ATTATTTTATTTTATTTTATTAAAATTTATAAAAATTAACATTTTTTAATATTT
1 ATTATATTATTTTATTTTATTAAAATTTATAAAAATTAACATTTTTTAATATTT
4505479 A
1 A
4505480 CATAATAGTA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
54 52 0.98
55 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (54 bp):
ATTATATTATTTTATTTTATTAAAATTTATAAAAATTAACATTTTTTAATATTT
Found at i:4508149 original size:16 final size:17
Alignment explanation
Indices: 4508119--4508152 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4508109 ATTTAAACTC
*
4508119 TTTTATAATTTATAAAA
1 TTTTATAATTAATAAAA
4508136 TTTTA-AATTAATAAAA
1 TTTTATAATTAATAAAA
4508152 T
1 T
4508153 AAAATTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTATAATTAATAAAA
Found at i:4508366 original size:264 final size:265
Alignment explanation
Indices: 4507896--4508424 Score: 1051
Period size: 264 Copynumber: 2.0 Consensus size: 265
4507886 AAGGGTTGAT
4507896 GGGTAGGAAAAAAAGACGGGTGATGGCTAGCTCAGAAGCTAACACCGCTACTAGGTAAAAACAAA
1 GGGTAGGAAAAAAAGACGGGTGATGGCTAGCTCAGAAGCTAACACCGCTACTAGGTAAAAACAAA
4507961 AAGAAGCAAACGATTTGGAGCAATTGTTTCAATGTATTGAAGCTTTTTACTCATTTCTTTATATG
66 AAGAAGCAAACGATTTGGAGCAATTGTTTCAATGTATTGAAGCTTTTTACTCATTTCTTTATATG
4508026 ATTGCAAATCGTAAACTTTGTTCAAAAAACAAATAAATATATACACAGTCACGCCCCTAATCTCC
131 ATTGCAAATCGTAAACTTTGTTCAAAAAACAAATAAATATATACACAGTCACGCCCCTAATCTCC
4508091 TAAAATGAGAATATTTTCATTTAAACTCTTTTATAATTTATAAAATTTTAAATTAATAA-AATAA
196 TAAAATGAGAATATTTTCATTTAAACTCTTTTATAATTTATAAAATTTTAAATTAATAATAATAA
4508155 AATTA
261 AATTA
4508160 GGGTAGGAAAAAAAGACGGGTGATGGCTAGCTCAGAAGCTAACACCGCTACTAGGTAAAAACAAA
1 GGGTAGGAAAAAAAGACGGGTGATGGCTAGCTCAGAAGCTAACACCGCTACTAGGTAAAAACAAA
4508225 AAGAAGCAAACGATTTGGAGCAATTGTTTCAATGTATTGAAGCTTTTTACTCATTTCTTTATATG
66 AAGAAGCAAACGATTTGGAGCAATTGTTTCAATGTATTGAAGCTTTTTACTCATTTCTTTATATG
4508290 ATTGCAAATCGTAAACTTTGTTCAAAAAACAAATAAATATATACACAGTCACGCCCCTAATCTCC
131 ATTGCAAATCGTAAACTTTGTTCAAAAAACAAATAAATATATACACAGTCACGCCCCTAATCTCC
4508355 TAAAATGAGAATATTTTCATTTAAACTCTTTTATAATTTATAAAATTTTAAATTAATAATAATAA
196 TAAAATGAGAATATTTTCATTTAAACTCTTTTATAATTTATAAAATTTTAAATTAATAATAATAA
4508420 AATTA
261 AATTA
4508425 TATTTTAATT
Statistics
Matches: 264, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
264 254 0.96
265 10 0.04
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (265 bp):
GGGTAGGAAAAAAAGACGGGTGATGGCTAGCTCAGAAGCTAACACCGCTACTAGGTAAAAACAAA
AAGAAGCAAACGATTTGGAGCAATTGTTTCAATGTATTGAAGCTTTTTACTCATTTCTTTATATG
ATTGCAAATCGTAAACTTTGTTCAAAAAACAAATAAATATATACACAGTCACGCCCCTAATCTCC
TAAAATGAGAATATTTTCATTTAAACTCTTTTATAATTTATAAAATTTTAAATTAATAATAATAA
AATTA
Found at i:4512458 original size:13 final size:14
Alignment explanation
Indices: 4512434--4512467 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
4512424 TGTTTCATTG
4512434 AAAATAACTTTTAA
1 AAAATAACTTTTAA
*
4512448 AAAATAATTTTTAA
1 AAAATAACTTTTAA
4512462 AAAATA
1 AAAATA
4512468 GAATAACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAATAACTTTTAA
Found at i:4512951 original size:19 final size:19
Alignment explanation
Indices: 4512929--4512966 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4512919 CCTATACTTC
4512929 TATTTTGGAAATTTAGTCA
1 TATTTTGGAAATTTAGTCA
4512948 TATTTTGGAAATTTAGTCA
1 TATTTTGGAAATTTAGTCA
4512967 CACTTTTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (19 bp):
TATTTTGGAAATTTAGTCA
Found at i:4512991 original size:14 final size:14
Alignment explanation
Indices: 4512972--4513008 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4512962 AGTCACACTT
*
4512972 TTTAGATTTCAAAA
1 TTTAGATCTCAAAA
4512986 TTTAGATCTCAAAA
1 TTTAGATCTCAAAA
4513000 TTTAGATCT
1 TTTAGATCT
4513009 AATTACTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (14 bp):
TTTAGATCTCAAAA
Found at i:4513390 original size:17 final size:18
Alignment explanation
Indices: 4513358--4513391 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4513348 ATATTATTTT
*
4513358 TAAAATTTATTATTAAAA
1 TAAAATTCATTATTAAAA
4513376 TAAAATTCA-TATTAAA
1 TAAAATTCATTATTAAA
4513392 TAATTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAATTCATTATTAAAA
Found at i:4514636 original size:23 final size:23
Alignment explanation
Indices: 4514591--4514637 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
4514581 TCATTAACAT
* **
4514591 TATTTGTGAACATGTTCGTTTAA
1 TATTCGTGAACATGTTCAATTAA
*
4514614 TATTCGTGAGCATGTTCAATTAA
1 TATTCGTGAACATGTTCAATTAA
4514637 T
1 T
4514638 TAAATAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (23 bp):
TATTCGTGAACATGTTCAATTAA
Found at i:4518477 original size:6 final size:6
Alignment explanation
Indices: 4518468--4518493 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4518458 TGGAAAAAAA
4518468 AAAGTG AAAGTG AAAGTG AAAGTG AA
1 AAAGTG AAAGTG AAAGTG AAAGTG AA
4518494 TTCTTTGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.31, T:0.15
Consensus pattern (6 bp):
AAAGTG
Found at i:4543502 original size:17 final size:18
Alignment explanation
Indices: 4543482--4543515 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4543472 CCCATTTATT
4543482 TACTA-TATAAATTTTAC
1 TACTATTATAAATTTTAC
*
4543499 TACTATTATATATTTTA
1 TACTATTATAAATTTTA
4543516 TTAAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (18 bp):
TACTATTATAAATTTTAC
Found at i:4563692 original size:20 final size:19
Alignment explanation
Indices: 4563659--4563710 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
4563649 AATTAAACAT
*
4563659 AAAGTAAAATAAAACAAAGCA
1 AAAG-AAAAGAAAACAAAG-A
*
4563680 AAAGAAAAGAAAAGAAAGA
1 AAAGAAAAGAAAACAAAGA
*
4563699 AACAGAATAGAA
1 AA-AGAAAAGAA
4563711 GGAGACGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.11
20 20 0.74
21 4 0.15
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (19 bp):
AAAGAAAAGAAAACAAAGA
Found at i:4565028 original size:39 final size:39
Alignment explanation
Indices: 4564966--4565081 Score: 117
Period size: 45 Copynumber: 2.8 Consensus size: 39
4564956 TTACTGATCA
* * * *
4564966 GGCAC-TTATGTGCCGACTACTGTTACTGTTACCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACAGATTC
4565004 GGCACTTTGTGTGTCGAATACTGTTACCGTTACTGTTACAGATTC
1 GGCACTTTGTGTGTCGAATAC---T---GTTACTGTTACAGATTC
* *
4565049 AGCACTTTGTGTGTTGAATACTGTTACTGTTAC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTAC
4565082 TGTTACTGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
38 5 0.08
39 23 0.35
42 2 0.03
45 35 0.54
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.38
Consensus pattern (39 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACAGATTC
Found at i:4565054 original size:45 final size:45
Alignment explanation
Indices: 4564987--4565087 Score: 166
Period size: 45 Copynumber: 2.2 Consensus size: 45
4564977 GCCGACTACT
* *
4564987 GTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
* *
4565032 GTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
4565077 GTTACTGTTAC
1 GTTACTGTTAC
4565088 TGTTACTGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.41
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGTTACC
Found at i:4565078 original size:6 final size:6
Alignment explanation
Indices: 4565067--4565121 Score: 74
Period size: 6 Copynumber: 8.8 Consensus size: 6
4565057 GTGTGTTGAA
* *
4565067 TACTGT TACTGT TACTGT TACTGT TACTGC TACCGT TACTGAT TACTGTT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG-T
4565117 TACTG
1 TACTG
4565122 GTGTGTTTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
6 31 0.72
7 12 0.28
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:4569855 original size:111 final size:110
Alignment explanation
Indices: 4569720--4570025 Score: 513
Period size: 111 Copynumber: 2.7 Consensus size: 110
4569710 TTTTTAAGAA
* * *
4569720 TATGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGACTGTCATCTCTCTTTGCGTCAAAAGGTTCA
1 TATGTTAGGCTGAGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCT-TTTGCGTCAAAAGGTTCA
4569785 ATATATTCTTAAGAAAAATATATATTTAAATATAATAAATTAGGAG
65 ATATATTCTTAAGAAAAATATATATTTAAATATAATAAATTAGGAG
* *
4569831 TATGTTAGGCTGAGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCGTTTCGCGTCAAAAAGTTCA
1 TATGTTAGGCTGAGTAACCAGGGTGGGGTGCTTGGCTGTCATCTC-TTTTGCGTCAAAAGGTTCA
4569896 ATATATTCTTAAGAAAAATATATATTTAAATATAATAAATTAGGAG
65 ATATATTCTTAAGAAAAATATATATTTAAATATAATAAATTAGGAG
**
4569942 TATGTTAGGCTGAGTAACCAGGGTGGGGTGCTTGGCTGTTGTCTCTTTTCGCGTCAAAAGGTTCA
1 TATGTTAGGCTGAGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTTTT-GCGTCAAAAGGTTCA
4570007 ATATATTCTTAAGCAAAAA
65 ATATATTCTTAAG-AAAAA
4570026 GAAAAAGAAA
Statistics
Matches: 183, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
110 3 0.02
111 174 0.95
112 6 0.03
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (110 bp):
TATGTTAGGCTGAGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTTTTGCGTCAAAAGGTTCAA
TATATTCTTAAGAAAAATATATATTTAAATATAATAAATTAGGAG
Found at i:4570032 original size:6 final size:6
Alignment explanation
Indices: 4570021--4570088 Score: 136
Period size: 6 Copynumber: 11.3 Consensus size: 6
4570011 ATTCTTAAGC
4570021 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
4570069 AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AA
4570089 TATTAATAGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4580033 original size:81 final size:81
Alignment explanation
Indices: 4579898--4580047 Score: 264
Period size: 81 Copynumber: 1.9 Consensus size: 81
4579888 GGGTACACTC
*
4579898 AAACATACGAGATAGATTATCTTGAAACATTTGCTCCAGTAGCCAAATTAAATTCTGTTAGAGTT
1 AAACATACGAGATAGATTATCTTGAAACATTTGCTCCAGTAGCCAAATTAAATTCTATTAGAGTT
4579963 CTTTTACAATTACTGT
66 CTTTTACAATTACTGT
* * *
4579979 AAACATACGGGATAGATTATCTTGAAACGTTTGCTCTAGTAGCCAAATTAAATTCTATTAGAGTT
1 AAACATACGAGATAGATTATCTTGAAACATTTGCTCCAGTAGCCAAATTAAATTCTATTAGAGTT
4580044 CTTT
66 CTTT
4580048 CATCAATTGT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (81 bp):
AAACATACGAGATAGATTATCTTGAAACATTTGCTCCAGTAGCCAAATTAAATTCTATTAGAGTT
CTTTTACAATTACTGT
Found at i:4592539 original size:21 final size:22
Alignment explanation
Indices: 4592513--4592567 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
4592503 AACAGCGGTG
4592513 GCGGTGAGATTAGG-TACTGTA
1 GCGGTGAGATTAGGATACTGTA
4592534 GCGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAGGATACTGTA
4592555 GCGGTGAGATTAG
1 GCGGTGAGATTAG
4592568 AAACAGCGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.24, C:0.09, G:0.40, T:0.27
Consensus pattern (22 bp):
GCGGTGAGATTAGGATACTGTA
Found at i:4592709 original size:27 final size:27
Alignment explanation
Indices: 4592679--4592765 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 27
4592669 TAGAAGTTTT
4592679 TATTATATTCATAATAAAATATCAAAA
1 TATTATATTCATAATAAAATATCAAAA
* * ***
4592706 TATTTTAAATGT-ACAATAAAATATTTTTAA
1 TA--TTATAT-TCATAATAAAATA-TCAAAA
4592736 -ATTATATTCATAATAAAATATCAAAA
1 TATTATATTCATAATAAAATATCAAAA
4592762 TATT
1 TATT
4592766 TTACAGATTA
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
26 4 0.09
27 20 0.45
29 16 0.36
30 4 0.09
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (27 bp):
TATTATATTCATAATAAAATATCAAAA
Found at i:4596423 original size:14 final size:15
Alignment explanation
Indices: 4596404--4596432 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4596394 CAAGAAATGG
4596404 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4596418 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4596433 AATGAACCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4607575 original size:14 final size:15
Alignment explanation
Indices: 4607556--4607585 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4607546 CAAGAAATGG
4607556 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4607570 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4607585 G
1 G
4607586 TTGAACCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4608052 original size:36 final size:36
Alignment explanation
Indices: 4608005--4608073 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
4607995 AAGTGATTGA
4608005 AGGTATGATCATCGACAATAAAAGGTAAGAAAACAT
1 AGGTATGATCATCGACAATAAAAGGTAAGAAAACAT
4608041 AGGTATGATCATCGACAATAAAAGGTAAGAAAA
1 AGGTATGATCATCGACAATAAAAGGTAAGAAAA
4608074 TATACATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.51, C:0.10, G:0.20, T:0.19
Consensus pattern (36 bp):
AGGTATGATCATCGACAATAAAAGGTAAGAAAACAT
Found at i:4609876 original size:87 final size:87
Alignment explanation
Indices: 4609730--4609896 Score: 282
Period size: 87 Copynumber: 1.9 Consensus size: 87
4609720 GTTCTTCACT
* *
4609730 TGAAGTATGCAATTTAGTGGATTCGGCTGCCTTTAGAGCCATTAACTGCTTCAAATTGGCTGAGA
1 TGAAGTATGCAATTTAATGGATTCGGCTGCCTTTAGAGCCATTAACTGCTTCAAATTGGCCGAGA
4609795 ATATCAATGCATTAACACTACG
66 ATATCAATGCATTAACACTACG
*
4609817 TGAAGTATGCAATTTAATAGG-TTCGGGTGCCTTTAGAGCCATTAACTGCTTCAAATTGGCCGAG
1 TGAAGTATGCAATTTAAT-GGATTCGGCTGCCTTTAGAGCCATTAACTGCTTCAAATTGGCCGAG
*
4609881 AATATGAATGCATTAA
65 AATATCAATGCATTAA
4609897 AAGTGCTGAA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
87 73 0.97
88 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (87 bp):
TGAAGTATGCAATTTAATGGATTCGGCTGCCTTTAGAGCCATTAACTGCTTCAAATTGGCCGAGA
ATATCAATGCATTAACACTACG
Found at i:4615678 original size:60 final size:61
Alignment explanation
Indices: 4615604--4615721 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 61
4615594 TTAATAAATT
* **
4615604 TTTTTAGATAATTCAGTGACTTAAATAAAAAATT-TTAAATAATTTAGTGATCATTTAATAAC
1 TTTTTAGATAATTCAATGACCAAAATAAAAAATTATT-AATAATTTAGTGAT-ATTTAATAAC
* *
4615666 TTTTTA-A-AATTCAATGACCAAAATATAAACTTATTAATAATTTAGTGATATTTAAT
1 TTTTTAGATAATTCAATGACCAAAATAAAAAATTATTAATAATTTAGTGATATTTAAT
4615722 GTAATTTATC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 7 0.14
60 34 0.68
61 3 0.06
62 6 0.12
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (61 bp):
TTTTTAGATAATTCAATGACCAAAATAAAAAATTATTAATAATTTAGTGATATTTAATAAC
Found at i:4623933 original size:23 final size:24
Alignment explanation
Indices: 4623903--4623950 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
4623893 TTGCTCGACA
4623903 AGATACTTGCTGA-CTACTTGATT
1 AGATACTTGCTGAGCTACTTGATT
4623926 AGATACTTGCTGAGTCTACTTGATT
1 AGATACTTGCTGAG-CTACTTGATT
4623951 CTGTTGTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 13 0.57
25 10 0.43
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (24 bp):
AGATACTTGCTGAGCTACTTGATT
Found at i:4624804 original size:14 final size:15
Alignment explanation
Indices: 4624785--4624815 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4624775 CAAGAAATGG
4624785 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4624799 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4624814 GA
1 GA
4624816 TGAACCTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4626357 original size:22 final size:21
Alignment explanation
Indices: 4626315--4626364 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
4626305 TTTTAACTTA
4626315 TTTTAATATAAACTATTAAAT
1 TTTTAATATAAACTATTAAAT
* * *
4626336 TTTTTATATAAACTGTTAAAA
1 TTTTAATATAAACTATTAAAT
*
4626357 TTTGAATA
1 TTTTAATA
4626365 AGATAATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (21 bp):
TTTTAATATAAACTATTAAAT
Found at i:4638651 original size:31 final size:31
Alignment explanation
Indices: 4638613--4638673 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
4638603 AATCACTAAT
* *
4638613 TTAAATAAAAATTTTCAGATAATTTAGTGAC
1 TTAAATAAAAATTTTAAAATAATTTAGTGAC
4638644 TTAAATAAAAATTTTAAAATAATTTAGTGA
1 TTAAATAAAAATTTTAAAATAATTTAGTGA
4638674 TCATTTGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.39
Consensus pattern (31 bp):
TTAAATAAAAATTTTAAAATAATTTAGTGAC
Found at i:4640550 original size:12 final size:12
Alignment explanation
Indices: 4640533--4640557 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4640523 ATAAAAATCG
4640533 ATTTTGAAAATA
1 ATTTTGAAAATA
4640545 ATTTTGAAAATA
1 ATTTTGAAAATA
4640557 A
1 A
4640558 CCTCTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
ATTTTGAAAATA
Found at i:4645128 original size:14 final size:15
Alignment explanation
Indices: 4645109--4645139 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4645099 CAAGAACTGG
4645109 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4645123 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4645138 GA
1 GA
4645140 TGAACCTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4646651 original size:3 final size:3
Alignment explanation
Indices: 4646643--4646681 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
4646633 ATTGAACAAG
4646643 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4646682 GAGGTTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4647618 original size:153 final size:153
Alignment explanation
Indices: 4647334--4647618 Score: 365
Period size: 153 Copynumber: 1.9 Consensus size: 153
4647324 ACTAAGGGGC
* * * * * ** *
4647334 TGCAATCTTGGTGAAGGAGATATTCCTAGTGCTATTTCTTGTCTATCCTCTTTGGCATTTCTTGA
1 TGCAATATGGGTGAAGGAGATATTCCTAGTGATATTTCTGGTCTATCCTCATTGAAAGTTCTTGA
* * *
4647399 TCTTAGCTTTAACAATTTCAACAGAATACCGGCATCTCTTACTCGACTCTCCAAGCTTGAAGATC
66 TCTTAGATGTAACAATTTCAACAGAATACCGGCATCTCTTACTCGACTCTCCAAGCTTCAAGATC
4647464 TTAAGTTGTCAAGTTGCGGCCTG
131 TTAAGTTGTCAAGTTGCGGCCTG
4647487 TGCAATATGGGTGAAGGAGATATTCCTAGTGATATTTCTGGTCTATCCTCATTGAAAGTTCTTGA
1 TGCAATATGGGTGAAGGAGATATTCCTAGTGATATTTCTGGTCTATCCTCATTGAAAGTTCTTGA
* * * * * * * * * *
4647552 TCTTA-ATAGTAACAATTTCACCAGCATAGCTGCGTCTCTTGCTCGTCTTTCCAATCTTCAATAT
66 TCTTAGAT-GTAACAATTTCAACAGAATACCGGCATCTCTTACTCGACTCTCCAAGCTTCAAGAT
4647616 CTT
130 CTT
4647619 GGACTGTGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
152 1 0.01
153 109 0.99
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (153 bp):
TGCAATATGGGTGAAGGAGATATTCCTAGTGATATTTCTGGTCTATCCTCATTGAAAGTTCTTGA
TCTTAGATGTAACAATTTCAACAGAATACCGGCATCTCTTACTCGACTCTCCAAGCTTCAAGATC
TTAAGTTGTCAAGTTGCGGCCTG
Found at i:4650373 original size:287 final size:288
Alignment explanation
Indices: 4649857--4650432 Score: 1145
Period size: 287 Copynumber: 2.0 Consensus size: 288
4649847 AACAAAAGAA
4649857 TGGGACAAAATTTCTAAAAGTAAAAGTATATTAAAATAATTAAAATGTTACTACCATTAATAATG
1 TGGGACAAAATTTCTAAAAGTAAAAGTATATTAAAATAATTAAAATGTTACTACCATTAATAATG
4649922 GCCCCATATCTCGAAGTTCTGATTATGGAAGGTTGTACCAAATTAGTAGATGTTCATCCGTCACT
66 GCCCCATATCTCGAAGTTCTGATTATGGAAGGTTGTACCAAATTAGTAGATGTTCATCCGTCACT
4649987 TGGACTGCTTAAGAAACTTAAACTTTTGGATTTAAGAGACTGCAAAAGTCTTAGGAGTCTTCCAA
131 TGGACTGCTTAAGAAACTTAAACTTTTGGATTTAAGAGACTGCAAAAGTCTTAGGAGTCTTCCAA
4650052 CCAAAATTGGAGTGGAATCCCTTGAAACTTTAACTCTTTCAGGTTGCTCAAATCTTGACAGGGTT
196 CCAAAATTGGAGTGGAATCCCTTGAAACTTTAACTCTTTCAGGTTGCTCAAATCTTGACAGGGTT
4650117 CCAGAGATTGATGGGAAAAT-GAACATC
261 CCAGAGATTGATGGGAAAATGGAACATC
4650144 TGGGACAAAATTTCTAAAAGTAAAAGTATATTAAAATAATTAAAATGTTACTACCATTAATAATG
1 TGGGACAAAATTTCTAAAAGTAAAAGTATATTAAAATAATTAAAATGTTACTACCATTAATAATG
4650209 GCCCCATATCTCGAAGTTCTGATTATGGAAGGTTGTACCAAATTAGTAGATGTTCATCCGTCACT
66 GCCCCATATCTCGAAGTTCTGATTATGGAAGGTTGTACCAAATTAGTAGATGTTCATCCGTCACT
4650274 TGGACTGCTTAAGAAACTTAAACTTTTGGATTTAAGAGACTGCAAAAGTCTTAGGAGTCTTCCAA
131 TGGACTGCTTAAGAAACTTAAACTTTTGGATTTAAGAGACTGCAAAAGTCTTAGGAGTCTTCCAA
4650339 CCAAAATTGGAGTGGAATCCCTTGAAACTTTAACTCTTTCAGGTTGCTCAAATCTTGACAGGGTT
196 CCAAAATTGGAGTGGAATCCCTTGAAACTTTAACTCTTTCAGGTTGCTCAAATCTTGACAGGGTT
4650404 CCAGAGATTGATGGGAAAATGGAACATC
261 CCAGAGATTGATGGGAAAATGGAACATC
4650432 T
1 T
4650433 AAAAACTCTT
Statistics
Matches: 288, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
287 280 0.97
288 8 0.03
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (288 bp):
TGGGACAAAATTTCTAAAAGTAAAAGTATATTAAAATAATTAAAATGTTACTACCATTAATAATG
GCCCCATATCTCGAAGTTCTGATTATGGAAGGTTGTACCAAATTAGTAGATGTTCATCCGTCACT
TGGACTGCTTAAGAAACTTAAACTTTTGGATTTAAGAGACTGCAAAAGTCTTAGGAGTCTTCCAA
CCAAAATTGGAGTGGAATCCCTTGAAACTTTAACTCTTTCAGGTTGCTCAAATCTTGACAGGGTT
CCAGAGATTGATGGGAAAATGGAACATC
Found at i:4651752 original size:3 final size:3
Alignment explanation
Indices: 4651744--4651768 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4651734 ATGAGTTTCT
4651744 CAC CAC CAC CAC CAC CAC CAC CAC C
1 CAC CAC CAC CAC CAC CAC CAC CAC C
4651769 TGTCTTTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:4658425 original size:17 final size:17
Alignment explanation
Indices: 4658405--4658442 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4658395 GGACTAAAGC
4658405 TCTTCTTTCGCTAATCT
1 TCTTCTTTCGCTAATCT
* *
4658422 TCTTTTTTCGCTAGTCT
1 TCTTCTTTCGCTAATCT
4658439 TCTT
1 TCTT
4658443 ATGTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.08, C:0.26, G:0.08, T:0.58
Consensus pattern (17 bp):
TCTTCTTTCGCTAATCT
Found at i:4660740 original size:17 final size:17
Alignment explanation
Indices: 4660708--4660742 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4660698 CGTTATTATC
4660708 TAATATTTTAATATTTA
1 TAATATTTTAATATTTA
4660725 TAAT-TTTTAATAATTTA
1 TAATATTTTAAT-ATTTA
4660742 T
1 T
4660743 TTAATTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATATTTTAATATTTA
Found at i:4663980 original size:17 final size:17
Alignment explanation
Indices: 4663948--4663982 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4663938 CGTTATTATC
4663948 TAATATTTTAATATTTA
1 TAATATTTTAATATTTA
4663965 TAAT-TTTTAATAATTTA
1 TAATATTTTAAT-ATTTA
4663982 T
1 T
4663983 TTAATTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATATTTTAATATTTA
Found at i:4667045 original size:14 final size:15
Alignment explanation
Indices: 4667026--4667056 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4667016 CAAGAAATGG
4667026 GAAGAAAAAT-TGTT
1 GAAGAAAAATGTGTT
4667040 GAAGAAAAATGTGTT
1 GAAGAAAAATGTGTT
4667055 GA
1 GA
4667057 TGAACCTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (15 bp):
GAAGAAAAATGTGTT
Found at i:4686581 original size:23 final size:23
Alignment explanation
Indices: 4686549--4687418 Score: 1731
Period size: 23 Copynumber: 37.8 Consensus size: 23
4686539 ATTTCTTCGA
*
4686549 GCATGACCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686572 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686595 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686618 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686641 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686664 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686687 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686710 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686733 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686756 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686779 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686802 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686825 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686848 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686871 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686894 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686917 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686940 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686963 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4686986 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687009 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687032 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687055 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687078 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687101 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687124 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687147 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687170 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687193 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687216 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687239 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687262 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687285 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687308 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687331 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687354 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687377 GCATGGCCACCTTTGCATGTCGT
1 GCATGGCCACCTTTGCATGTCGT
4687400 GCATGGCCACCTTTGCATG
1 GCATGGCCACCTTTGCATG
4687419 GGAACTAAAC
Statistics
Matches: 846, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 846 1.00
ACGTcount: A:0.13, C:0.30, G:0.26, T:0.30
Consensus pattern (23 bp):
GCATGGCCACCTTTGCATGTCGT
Found at i:4692378 original size:15 final size:15
Alignment explanation
Indices: 4692353--4692387 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4692343 NNNNNTATTT
*
4692353 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
4692367 TAATTAATATTAAGA
1 TAATTAATATTAAGA
4692382 TAATTA
1 TAATTA
4692388 TTAAAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:4692430 original size:10 final size:10
Alignment explanation
Indices: 4692417--4692459 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
4692407 AGGATTTAAT
4692417 TTTATTTATC
1 TTTATTTATC
4692427 TTTATTTATC
1 TTTATTTATC
* **
4692437 TTTAATTAAA
1 TTTATTTATC
*
4692447 TGTATTTATC
1 TTTATTTATC
4692457 TTT
1 TTT
4692460 TGGGAATTTA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTATTTATC
Found at i:4700493 original size:15 final size:15
Alignment explanation
Indices: 4700468--4700502 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4700458 TACTCTATTT
*
4700468 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
4700482 TAATTAATATTAAGA
1 TAATTAATATTAAGA
4700497 TAATTA
1 TAATTA
4700503 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:4705352 original size:21 final size:22
Alignment explanation
Indices: 4705326--4705374 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
4705316 ACATTATATA
*
4705326 AAATAAT-ATACATTTTTAAAT
1 AAATAATCATACATCTTTAAAT
*
4705347 AAATAATCATATATCTTTAAAT
1 AAATAATCATACATCTTTAAAT
4705369 -AATAAT
1 AAATAAT
4705375 TAAATACACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATAATCATACATCTTTAAAT
Found at i:4706504 original size:3 final size:3
Alignment explanation
Indices: 4706487--4706518 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
4706477 AGTAGATATG
4706487 ATA AT- ATA A-A ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4706519 AACACAAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4720929 original size:15 final size:16
Alignment explanation
Indices: 4720900--4720931 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
4720890 TATATGATAA
4720900 AATTTTATGTTTTATT
1 AATTTTATGTTTTATT
4720916 AATTTTAT-TTTTATT
1 AATTTTATGTTTTATT
4720931 A
1 A
4720932 TATATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
AATTTTATGTTTTATT
Found at i:4727370 original size:34 final size:34
Alignment explanation
Indices: 4727327--4727394 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
4727317 AAGAATATAT
4727327 TTCTAGATATAGCATGCTTCTTCAATAGG-GAGGA
1 TTCTAGATATAGCATGCTTCTTCAAT-GGAGAGGA
4727361 TTCTAGATATAGCATGCTTCTTCAATGGAGAGGA
1 TTCTAGATATAGCATGCTTCTTCAATGGAGAGGA
4727395 GAAATATTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 2 0.06
34 31 0.94
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (34 bp):
TTCTAGATATAGCATGCTTCTTCAATGGAGAGGA
Found at i:4732050 original size:22 final size:24
Alignment explanation
Indices: 4732024--4732070 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
4732014 CGTGGAGATA
*
4732024 TTCCT-AGTGATATTTC-TGGTCT
1 TTCCTCAGTGAGATTTCTTGGTCT
*
4732046 TTCCTCATTGAGATTTCTTGGTCT
1 TTCCTCAGTGAGATTTCTTGGTCT
4732070 T
1 T
4732071 AGTGTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 9 0.43
24 7 0.33
ACGTcount: A:0.13, C:0.19, G:0.17, T:0.51
Consensus pattern (24 bp):
TTCCTCAGTGAGATTTCTTGGTCT
Found at i:4738308 original size:12 final size:12
Alignment explanation
Indices: 4738291--4738316 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4738281 TGAATGCGAT
4738291 GAGATGTCTTTC
1 GAGATGTCTTTC
4738303 GAGATGTCTTTC
1 GAGATGTCTTTC
4738315 GA
1 GA
4738317 AGGCACACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.15, G:0.27, T:0.38
Consensus pattern (12 bp):
GAGATGTCTTTC
Found at i:4743007 original size:859 final size:859
Alignment explanation
Indices: 4741349--4743067 Score: 3384
Period size: 859 Copynumber: 2.0 Consensus size: 859
4741339 CAATTCGAGT
4741349 ATACCAGGCTCGAGGAGCCTGTTTTAGGCCATACAAGGCTTTTCTTAGCCTGTACACCAAATGTT
1 ATACCAGGCTCGAGGAGCCTGTTTTAGGCCATACAAGGCTTTTCTTAGCCTGTACACCAAATGTT
4741414 CCTTTCCAGACATTATGAAACCTGGAGGTTGTTCAATGTATATCTCCTCTTCCAAGAATCTATTG
66 CCTTTCCAGACATTATGAAACCTGGAGGTTGTTCAATGTATATCTCCTCTTCCAAGAATCTATTG
4741479 AGGAATGCTGACTTGACATCCATTTGATGGATTGTCCACTGGTTCTGAGCAGCTACAGCAACTAG
131 AGGAATGCTGACTTGACATCCATTTGATGGATTGTCCACTGGTTCTGAGCAGCTACAGCAACTAG
*
4741544 CAATCTGATTGTATCGAGTCTGGCTACTGGAGCAAATGTTTCCAAGTAGTCCAGACCATACCTTT
196 CAATCTGATTGTATAGAGTCTGGCTACTGGAGCAAATGTTTCCAAGTAGTCCAGACCATACCTTT
*
4741609 GACTGAAGCCCTTCACAACTAGCTTGGCCTTTAGCTTGTTCAAACTTCCATCTGCATTGTGCTTC
261 GACTGAAGCCCTTCACAACTAGCCTGGCCTTTAGCTTGTTCAAACTTCCATCTGCATTGTGCTTC
4741674 ACTCGATAGACCCATTTTACACCAATGGTCTTTCTGTTGGCAGGCTTTTCAACCAACTCCCATGT
326 ACTCGATAGACCCATTTTACACCAATGGTCTTTCTGTTGGCAGGCTTTTCAACCAACTCCCATGT
4741739 ATGGTTCTTCTCAATCATGTTGATCTCATCAGCCATAGCCTGTTTCCAACCTTCATCTGCCTCAG
391 ATGGTTCTTCTCAATCATGTTGATCTCATCAGCCATAGCCTGTTTCCAACCTTCATCTGCCTCAG
4741804 CCTCTTCAAAACTGCTAGGTTCAGCTATAGCAACCTGTGCCTTTTCATAAACTTCATCCAAAGAC
456 CCTCTTCAAAACTGCTAGGTTCAGCTATAGCAACCTGTGCCTTTTCATAAACTTCATCCAAAGAC
4741869 CTTGTGCCTCTTACAGGCACCAGGTCTTCTGAAGCAGCTTCTGGTTCACTCTTTTCCCAATTCCA
521 CTTGTGCCTCTTACAGGCACCAGGTCTTCTGAAGCAGCTTCTGGTTCACTCTTTTCCCAATTCCA
4741934 GCAAGCTTTTTCATCAAAGATGACATCTCTGCTCACTTGGACTTTGTTTGTCAAGGGATCCAGCA
586 GCAAGCTTTTTCATCAAAGATGACATCTCTGCTCACTTGGACTTTGTTTGTCAAGGGATCCAGCA
4741999 CCCTGTAGCCCTTCTTAACTGAGCTGTAGCCTACTAAGACACCTGGTTGAGCCCTTTTAGAGAGC
651 CCCTGTAGCCCTTCTTAACTGAGCTGTAGCCTACTAAGACACCTGGTTGAGCCCTTTTAGAGAGC
4742064 TTGTCTCTCTTTGCTGCTGGTATTTGTGCATAACACAGGCAACCAAACACTTTTAGGTGTGCCAA
716 TTGTCTCTCTTTGCTGCTGGTATTTGTGCATAACACAGGCAACCAAACACTTTTAGGTGTGCCAA
4742129 GGAAGGCTTGAATCCAAACCAAGCCTCGAAAGGTGTCTTGGATGCAAGAGATTTGGTAGGAAGCC
781 GGAAGGCTTGAATCCAAACCAAGCCTCGAAAGGTGTCTTGGATGCAAGAGATTTGGTAGGAAGCC
4742194 TATTTTGAAGGTAA
846 TATTTTGAAGGTAA
4742208 ATACCAGGCTCGAGGAGCCTGTTTTAGGCCATACAAGGCTTTTCTTAGCCTGTACACCAAATGTT
1 ATACCAGGCTCGAGGAGCCTGTTTTAGGCCATACAAGGCTTTTCTTAGCCTGTACACCAAATGTT
4742273 CCTTTCCAGACATTATGAAACCTGGAGGTTGTTCAATGTATATCTCCTCTTCCAAGAATCTATTG
66 CCTTTCCAGACATTATGAAACCTGGAGGTTGTTCAATGTATATCTCCTCTTCCAAGAATCTATTG
4742338 AGGAATGCTGACTTGACATCCATTTGATGGATTGTCCACTGGTTCTGAGCAGCTACAGCAACTAG
131 AGGAATGCTGACTTGACATCCATTTGATGGATTGTCCACTGGTTCTGAGCAGCTACAGCAACTAG
* *
4742403 CAATCTGATTGTATAGAGTCTGGCTACTGGAGCAAATGTTTCCATGTAGTCCAGGCCATACCTTT
196 CAATCTGATTGTATAGAGTCTGGCTACTGGAGCAAATGTTTCCAAGTAGTCCAGACCATACCTTT
* *
4742468 GACTGAATCCCTTCACAACTAGCCTGGCCTTTAGCTTGTTCAAGCTTCCATCTGCATTGTGCTTC
261 GACTGAAGCCCTTCACAACTAGCCTGGCCTTTAGCTTGTTCAAACTTCCATCTGCATTGTGCTTC
4742533 ACTCGATAGACCCATTTTACACCAATGGTCTTTCTGTTGGCAGGCTTTTCAACCAACTCCCATGT
326 ACTCGATAGACCCATTTTACACCAATGGTCTTTCTGTTGGCAGGCTTTTCAACCAACTCCCATGT
4742598 ATGGTTCTTCTCAATCATGTTGATCTCATCAGCCATAGCCTGTTTCCAACCTTCATCTGCCTCAG
391 ATGGTTCTTCTCAATCATGTTGATCTCATCAGCCATAGCCTGTTTCCAACCTTCATCTGCCTCAG
4742663 CCTCTTCAAAACTGCTAGGTTCAGCTATAGCAACCTGTGCCTTTTCATAAACTTCATCCAAAGAC
456 CCTCTTCAAAACTGCTAGGTTCAGCTATAGCAACCTGTGCCTTTTCATAAACTTCATCCAAAGAC
4742728 CTTGTGCCTCTTACAGGCACCAGGTCTTCTGAAGCAGCTTCTGGTTCACTCTTTTCCCAATTCCA
521 CTTGTGCCTCTTACAGGCACCAGGTCTTCTGAAGCAGCTTCTGGTTCACTCTTTTCCCAATTCCA
4742793 GCAAGCTTTTTCATCAAAGATGACATCTCTGCTCACTTGGACTTTGTTTGTCAAGGGATCCAGCA
586 GCAAGCTTTTTCATCAAAGATGACATCTCTGCTCACTTGGACTTTGTTTGTCAAGGGATCCAGCA
4742858 CCCTGTAGCCCTTCTTAACTGAGCTGTAGCCTACTAAGACACCTGGTTGAGCCCTTTTAGAGAGC
651 CCCTGTAGCCCTTCTTAACTGAGCTGTAGCCTACTAAGACACCTGGTTGAGCCCTTTTAGAGAGC
4742923 TTGTCTCTCTTTGCTGCTGGTATTTGTGCATAACACAGGCAACCAAACACTTTTAGGTGTGCCAA
716 TTGTCTCTCTTTGCTGCTGGTATTTGTGCATAACACAGGCAACCAAACACTTTTAGGTGTGCCAA
4742988 GGAAGGCTTGAATCCAAACCAAGCCTCGAAAGGTGTCTTGGATGCAAGAGATTTGGTAGGAAGCC
781 GGAAGGCTTGAATCCAAACCAAGCCTCGAAAGGTGTCTTGGATGCAAGAGATTTGGTAGGAAGCC
4743053 TATTTTGAAGGTAA
846 TATTTTGAAGGTAA
4743067 A
1 A
4743068 CAGCAGTGTT
Statistics
Matches: 854, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
859 854 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (859 bp):
ATACCAGGCTCGAGGAGCCTGTTTTAGGCCATACAAGGCTTTTCTTAGCCTGTACACCAAATGTT
CCTTTCCAGACATTATGAAACCTGGAGGTTGTTCAATGTATATCTCCTCTTCCAAGAATCTATTG
AGGAATGCTGACTTGACATCCATTTGATGGATTGTCCACTGGTTCTGAGCAGCTACAGCAACTAG
CAATCTGATTGTATAGAGTCTGGCTACTGGAGCAAATGTTTCCAAGTAGTCCAGACCATACCTTT
GACTGAAGCCCTTCACAACTAGCCTGGCCTTTAGCTTGTTCAAACTTCCATCTGCATTGTGCTTC
ACTCGATAGACCCATTTTACACCAATGGTCTTTCTGTTGGCAGGCTTTTCAACCAACTCCCATGT
ATGGTTCTTCTCAATCATGTTGATCTCATCAGCCATAGCCTGTTTCCAACCTTCATCTGCCTCAG
CCTCTTCAAAACTGCTAGGTTCAGCTATAGCAACCTGTGCCTTTTCATAAACTTCATCCAAAGAC
CTTGTGCCTCTTACAGGCACCAGGTCTTCTGAAGCAGCTTCTGGTTCACTCTTTTCCCAATTCCA
GCAAGCTTTTTCATCAAAGATGACATCTCTGCTCACTTGGACTTTGTTTGTCAAGGGATCCAGCA
CCCTGTAGCCCTTCTTAACTGAGCTGTAGCCTACTAAGACACCTGGTTGAGCCCTTTTAGAGAGC
TTGTCTCTCTTTGCTGCTGGTATTTGTGCATAACACAGGCAACCAAACACTTTTAGGTGTGCCAA
GGAAGGCTTGAATCCAAACCAAGCCTCGAAAGGTGTCTTGGATGCAAGAGATTTGGTAGGAAGCC
TATTTTGAAGGTAA
Found at i:4746643 original size:31 final size:31
Alignment explanation
Indices: 4746598--4746680 Score: 132
Period size: 32 Copynumber: 2.6 Consensus size: 31
4746588 ATTAAAATTT
4746598 TATTTTAAAAATTAAAAAAAGTA-TTTTAGAAA
1 TATTTT-AAAATTAAAAAAAGTATTTTTA-AAA
4746630 TATTTTAAAATTAAAAAAAGTATTTTTAAAA
1 TATTTTAAAATTAAAAAAAGTATTTTTAAAA
4746661 TATTTTTAAAATTAAAAAAA
1 TA-TTTTAAAATTAAAAAAA
4746681 TTAAAAAGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
31 21 0.43
32 28 0.57
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (31 bp):
TATTTTAAAATTAAAAAAAGTATTTTTAAAA
Done.