Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
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: 5892847
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 27
Found at i:4698294 original size:20 final size:20
Alignment explanation
Indices: 4698248--4698286 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4698238 CTTCGATATT
4698248 AAAAAATAAATAAATAATTA
1 AAAAAATAAATAAATAATTA
* *
4698268 AAAAAATTAATATATAATT
1 AAAAAATAAATAAATAATT
4698287 TATAAAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATAAATAAATAATTA
Found at i:4698397 original size:120 final size:120
Alignment explanation
Indices: 4698158--4698388 Score: 317
Period size: 120 Copynumber: 1.9 Consensus size: 120
4698148 TATATTAATT
* * *
4698158 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTGCCT
* *
4698223 TAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAAAAATTAA
66 TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAAAAATTAA
** * *
4698278 TATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGTTGT
1 TATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-GGACATCCAGGTGC
* *
4698342 TTTAAGACTG-TCCTTTCTT-AATATTAAAAAATAAATAAAT-ATTAAAA
64 CTTAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAA
4698389 CAGGATTAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
118 7 0.07
119 26 0.27
120 47 0.48
121 18 0.18
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (120 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGTGCCT
TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAAAAATTAA
Found at i:4699899 original size:30 final size:29
Alignment explanation
Indices: 4699865--4699936 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
4699855 TTTGGGCCTG
*
4699865 TAATATAATAAAATTAATAAAA-AAATATTA
1 TAATATAATAAAA-TAATAAAACAAA-ATAA
*
4699895 TAATATAATAATAATATTAAAACAAAATAA
1 TAATATAATAA-AATAATAAAACAAAATAA
4699925 TAATA-AATAAAA
1 TAATATAATAAAA
4699937 CAAATGAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 2 0.05
29 5 0.13
30 26 0.68
31 5 0.13
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (29 bp):
TAATATAATAAAATAATAAAACAAAATAA
Found at i:4699912 original size:19 final size:19
Alignment explanation
Indices: 4699901--4699940 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
4699891 ATTATAATAT
4699901 AATAATAATATTAAAACAA
1 AATAATAATATTAAAACAA
*
4699920 AATAATAATAAATAAAACAA
1 AATAATAAT-ATTAAAACAA
4699940 A
1 A
4699941 TGAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (19 bp):
AATAATAATATTAAAACAA
Found at i:4699914 original size:33 final size:29
Alignment explanation
Indices: 4699869--4699952 Score: 78
Period size: 30 Copynumber: 2.7 Consensus size: 29
4699859 GGCCTGTAAT
4699869 ATAATAAAATTAATAAAAAAATATTATAATATA
1 ATAATAAAATTAA-AAAAAAATA--ATAATA-A
* *
4699902 ATAATAATATTAAAACAAAATAATAATAA
1 ATAATAAAATTAAAAAAAAATAATAATAA
* *
4699931 ATAAAACAAATGAAATAAAAAA
1 ATAATA-AAATTAAA-AAAAAA
4699953 ACTAGTGTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
29 6 0.14
30 12 0.28
31 5 0.12
32 8 0.19
33 12 0.28
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.26
Consensus pattern (29 bp):
ATAATAAAATTAAAAAAAAATAATAATAA
Found at i:4699941 original size:19 final size:20
Alignment explanation
Indices: 4699899--4699940 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
4699889 ATATTATAAT
4699899 ATAATAATAATATTAAAACAAA
1 ATAATAATAA-A-TAAAACAAA
4699921 ATAATAATAAATAAAACAAA
1 ATAATAATAAATAAAACAAA
4699941 TGAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (20 bp):
ATAATAATAAATAAAACAAA
Found at i:4700369 original size:113 final size:113
Alignment explanation
Indices: 4700186--4701079 Score: 1486
Period size: 113 Copynumber: 7.9 Consensus size: 113
4700176 AGAATCATGC
4700186 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * * *
4700251 TATGAACTC-TCTCTGGAAAAGTTGATTCATCGAGTGATGAATTCGAGCA
65 TATGAACTCGAC-CTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
*
4700300 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
4700365 ATGAACTCGCCCTGGCAATGCTGATCTATCGAATGATAAATTCAAGCG
66 ATGAACTCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
* *
4700413 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTATTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
4700478 ATGAACTCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
*
4700526 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* **
4700591 ATGAACTCGACCTGGTAATACTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
* *
4700639 AAAAATTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
4700704 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
4700752 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
4700817 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTTAAGCG
66 ATGAACTCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
4700865 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
4700930 ATGAACTCGACCTGGTAATGTTGATCCATCTAATGATGAATTCAAGCG
66 ATGAACTCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
4700978 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
** * * *
4701043 ATGAACTCTTCC-AGAAATGTTGATCCATTGAATGATG
66 ATGAACTCGACCTGGCAATGTTGATCCATCGAATGATG
4701080 GATTTGAACT
Statistics
Matches: 737, Mismatches: 42, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
112 21 0.03
113 710 0.96
114 6 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGCAATGTTGATCCATCGAATGATGAATTCAAGCG
Found at i:4701514 original size:22 final size:22
Alignment explanation
Indices: 4701486--4701540 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
4701476 GATAAAACTT
* *
4701486 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTAAAAAGAGAATCTA
4701508 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
*
4701530 TCATATTTAAA
1 TCATCTTTAAA
4701541 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:4711386 original size:34 final size:39
Alignment explanation
Indices: 4711343--4711431 Score: 98
Period size: 41 Copynumber: 2.3 Consensus size: 39
4711333 AACCTCTGAC
*
4711343 AAATAAATAAAAATGAA-AT-TAAATACT-TGAAAAT-A-
1 AAAT-AATAAAAATAAATATATAAATACTATGAAAATAAT
*
4711378 AAATAATAAATAATAAATATAATAAATATTATGAAAATAAT
1 AAATAATAAA-AATAAATAT-ATAAATACTATGAAAATAAT
4711419 AAATAATAAAAAT
1 AAATAATAAAAAT
4711432 TTTGAAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
34 6 0.13
35 9 0.20
36 2 0.04
38 7 0.16
39 7 0.16
40 4 0.09
41 10 0.22
ACGTcount: A:0.67, C:0.01, G:0.03, T:0.28
Consensus pattern (39 bp):
AAATAATAAAAATAAATATATAAATACTATGAAAATAAT
Found at i:4711404 original size:38 final size:41
Alignment explanation
Indices: 4711344--4711428 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 41
4711334 ACCTCTGACA
4711344 AATAAATAAAAATGAAATTAAATACT-TGAAAAT-A-AAAT
1 AATAAATAAAAATGAAATTAAATACTATGAAAATAATAAAT
*
4711382 AATAAATAATAAAT-ATAA-TAAATATTATGAAAATAATAAAT
1 AATAAATAA-AAATGA-AATTAAATACTATGAAAATAATAAAT
4711423 AATAAA
1 AATAAA
4711429 AATTTTGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
38 17 0.41
39 13 0.32
40 1 0.02
41 10 0.24
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (41 bp):
AATAAATAAAAATGAAATTAAATACTATGAAAATAATAAAT
Found at i:4711437 original size:25 final size:27
Alignment explanation
Indices: 4711385--4711438 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
4711375 ATAAAATAAT
4711385 AAATAATAAATATAATAAATATTATGA
1 AAATAATAAATATAATAAATATTATGA
4711412 AAATAATAAATAATAA-AAAT-TT-TGA
1 AAATAATAAAT-ATAATAAATATTATGA
4711437 AA
1 AA
4711439 TAAAAGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 5 0.19
26 2 0.08
27 15 0.58
28 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (27 bp):
AAATAATAAATATAATAAATATTATGA
Found at i:4712064 original size:20 final size:19
Alignment explanation
Indices: 4712025--4712066 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
4712015 TTTCTTCGAT
4712025 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
4712044 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
4712064 ATT
1 ATT
4712067 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:4712177 original size:120 final size:120
Alignment explanation
Indices: 4711938--4712171 Score: 298
Period size: 120 Copynumber: 2.0 Consensus size: 120
4711928 AATATTAATT
* * * *
4711938 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTATAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATACAGGTACCT
*
4712003 TAAGACAGCTATTTTCTTCGATATTAAAAAATAAATAAATAATTAAAACAATTAA
66 TAAGACAGCTATTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
** * * *
4712058 TATATA-ATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATAGACATCCAGTTAT
1 TATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAAT-GACATACAGGTAC
* *
4712122 TTTAAGACTG-TCA-TTTCTT-AATATTAAAAAATAAATAAAT-ATTAAAACAA
64 CTTAAGACAGCT-ATTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAA
4712172 GATTAAAATA
Statistics
Matches: 99, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
118 10 0.10
119 26 0.26
120 47 0.47
121 16 0.16
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (120 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATACAGGTACCT
TAAGACAGCTATTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
Found at i:4712223 original size:19 final size:19
Alignment explanation
Indices: 4712196--4712233 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
4712186 AAAAGTAATT
*
4712196 AAATAAGATTTTAATAAATA
1 AAATAAGATATT-ATAAATA
4712216 AAAT-AGATATTATAAATA
1 AAATAAGATATTATAAATA
4712234 TATATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 6 0.35
20 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
AAATAAGATATTATAAATA
Found at i:4712262 original size:3 final size:3
Alignment explanation
Indices: 4712254--4712289 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
4712244 TTTATGGCTA
*
4712254 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4712290 TAAAAGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4713648 original size:3 final size:3
Alignment explanation
Indices: 4713628--4713703 Score: 65
Period size: 3 Copynumber: 27.0 Consensus size: 3
4713618 TTTGGGCCTG
* *
4713628 TAA T-A TAA TAA -AA TTAA TAA TAA TAA AAA TAA TAA T-A TTA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
4713671 T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4713704 ATAAAACAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
2 12 0.20
3 47 0.77
4 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4713679 original size:19 final size:19
Alignment explanation
Indices: 4713631--4713702 Score: 80
Period size: 19 Copynumber: 3.9 Consensus size: 19
4713621 GGGCCTGTAA
4713631 TATAATAAAAT--TAATA-
1 TATAATAAAATAATAATAT
4713647 -ATAATAAAAATAATAATAT
1 TATAAT-AAAATAATAATAT
*
4713666 TATAATATAATAATAATAT
1 TATAATAAAATAATAATAT
* *
4713685 TAAAACAAAATAATAATA
1 TATAATAAAATAATAATA
4713703 AATAAAACAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
15 5 0.11
16 5 0.11
18 5 0.11
19 27 0.57
20 5 0.11
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAATAAAATAATAATAT
Found at i:4713714 original size:19 final size:22
Alignment explanation
Indices: 4713672--4713713 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4713662 ATATTATAAT
4713672 ATAATAATAATATTAAAACAAA
1 ATAATAATAATATTAAAACAAA
4713694 ATAATAATAA-A-TAAAACAAA
1 ATAATAATAATATTAAAACAAA
4713714 TGAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (22 bp):
ATAATAATAATATTAAAACAAA
Found at i:4713785 original size:33 final size:33
Alignment explanation
Indices: 4713743--4713814 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
4713733 CTTCAACTAG
4713743 AGAGGCAGTTCCGGAGGAAAACTCACCCACAGA
1 AGAGGCAGTTCCGGAGGAAAACTCACCCACAGA
4713776 AGAGGCAGTTCCGGAGGAAAACTCACCCACAGA
1 AGAGGCAGTTCCGGAGGAAAACTCACCCACAGA
4713809 AGAGGC
1 AGAGGC
4713815 TGAACAAGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.36, C:0.26, G:0.29, T:0.08
Consensus pattern (33 bp):
AGAGGCAGTTCCGGAGGAAAACTCACCCACAGA
Found at i:4715092 original size:23 final size:23
Alignment explanation
Indices: 4715066--4715125 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
4715056 AGCTCATATA
*
4715066 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACATAG
* * *
4715089 AATTGCACTGTAGTGCCGCATAG
1 AATTGCACCGAAGTGCCACATAG
* *
4715112 AAATACACCGAAGT
1 AATTGCACCGAAGT
4715126 TCCATATAAG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACATAG
Found at i:4716876 original size:21 final size:21
Alignment explanation
Indices: 4716852--4716909 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
4716842 TTGGTTGAGG
*
4716852 GGGTACTGATTCCCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
*
4716873 GGGTACCGATTCCCATTGAAT
1 GGGTACCGATTCCCCTTGAAT
4716894 GGGTACCGATTCCCCT
1 GGGTACCGATTCCCCT
4716910 AGACCAGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.29
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:4720171 original size:23 final size:23
Alignment explanation
Indices: 4720145--4720204 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
4720135 AACTCATATA
4720145 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
4720168 AATTGCACCGTAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
4720191 AAATGCACCGAAGT
1 AATTGCACCGAAGT
4720205 ACCATATAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:4721956 original size:21 final size:21
Alignment explanation
Indices: 4721932--4721987 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
4721922 GGTTGAGGGG
4721932 GTACCGATTCCCCTTGAATGA
1 GTACCGATTCCCCTTGAATGA
* *
4721953 GTACTGATTCCCCTTGAATGG
1 GTACCGATTCCCCTTGAATGA
4721974 GTACCGATTCCCCT
1 GTACCGATTCCCCT
4721988 AGCCCAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
GTACCGATTCCCCTTGAATGA
Found at i:4726194 original size:16 final size:17
Alignment explanation
Indices: 4726170--4726207 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
4726160 AATTTATATT
* *
4726170 TTTACAATTTAA-GGTA
1 TTTAAAATTTAATAGTA
4726186 TTTAAAATTTAATAGTA
1 TTTAAAATTTAATAGTA
4726203 TTTAA
1 TTTAA
4726208 TTTGATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (17 bp):
TTTAAAATTTAATAGTA
Found at i:4726783 original size:17 final size:17
Alignment explanation
Indices: 4726761--4726794 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4726751 AAGACATATT
4726761 AAAACGTGCAACACATA
1 AAAACGTGCAACACATA
*
4726778 AAAACGTGCAATACATA
1 AAAACGTGCAACACATA
4726795 TAAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.21, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAACGTGCAACACATA
Found at i:4738011 original size:42 final size:42
Alignment explanation
Indices: 4737947--4738033 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
4737937 GATTCGAATT
* *
4737947 TGAGTTTTACTTAAATAATATCAAATTACTTACCACTTAAAC
1 TGAGATTTACTTAAACAATATCAAATTACTTACCACTTAAAC
* * *
4737989 TGAGATTTACTTAAACAATATCAAATTATTTATCACTTTAAC
1 TGAGATTTACTTAAACAATATCAAATTACTTACCACTTAAAC
4738031 TGA
1 TGA
4738034 ATTAGGTGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.39
Consensus pattern (42 bp):
TGAGATTTACTTAAACAATATCAAATTACTTACCACTTAAAC
Found at i:4740221 original size:13 final size:13
Alignment explanation
Indices: 4740203--4740232 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4740193 CCATTTTCTG
4740203 TTGTTTACACTAT
1 TTGTTTACACTAT
4740216 TTGTTTACACTAT
1 TTGTTTACACTAT
4740229 TTGT
1 TTGT
4740233 CCATATCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.13, G:0.10, T:0.57
Consensus pattern (13 bp):
TTGTTTACACTAT
Found at i:4746257 original size:18 final size:19
Alignment explanation
Indices: 4746219--4746258 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
4746209 TACGGAATGT
*
4746219 AAGATTACCACTGGTAATAA
1 AAGATTACCAC-GGGAATAA
4746239 AAGATTACCA-GGGAATAA
1 AAGATTACCACGGGAATAA
4746257 AA
1 AA
4746259 TTACTGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.20
Consensus pattern (19 bp):
AAGATTACCACGGGAATAA
Found at i:4751929 original size:21 final size:18
Alignment explanation
Indices: 4751901--4751946 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
4751891 AAATATAATA
**
4751901 AAAATATTATT-TTTCAT
1 AAAATATTATTATTTTTT
4751918 AAAATTATTATTATTTTTT
1 AAAA-TATTATTATTTTTT
4751937 AAAATATTAT
1 AAAATATTAT
4751947 AAAATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 13 0.52
19 8 0.32
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
AAAATATTATTATTTTTT
Found at i:4751968 original size:20 final size:19
Alignment explanation
Indices: 4751941--4751982 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
4751931 TTTTTTAAAA
4751941 TATTATAAAAT-TTATTTAT
1 TATTATAAAATATTATTT-T
4751960 TATTAATAAAATATTATTTT
1 TATT-ATAAAATATTATTTT
4751980 TAT
1 TAT
4751983 AATTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTATAAAATATTATTTT
Found at i:4752000 original size:14 final size:14
Alignment explanation
Indices: 4751959--4752003 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
4751949 AATTTATTTA
*
4751959 TTATTAATAAAATA
1 TTATTAATAAAATT
** *
4751973 TTATTTTTATAATT
1 TTATTAATAAAATT
4751987 TTATTAATAAAATT
1 TTATTAATAAAATT
4752001 TTA
1 TTA
4752004 ATATTAGTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTATTAATAAAATT
Found at i:4752116 original size:23 final size:24
Alignment explanation
Indices: 4752064--4752128 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 24
4752054 TTATTAAAAT
*
4752064 AAAAGTATT-A-TATTATA-TTTA
1 AAAAGTATTAATTAATATATTTTA
4752085 AAAAGTATTAATTAATATATTTTA
1 AAAAGTATTAATTAATATATTTTA
* * *
4752109 AATA-TATTTATTAAAATATT
1 AAAAGTATTAATTAATATATT
4752129 ATTAGATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.24
22 1 0.03
23 20 0.54
24 7 0.19
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (24 bp):
AAAAGTATTAATTAATATATTTTA
Found at i:4752117 original size:34 final size:33
Alignment explanation
Indices: 4752077--4752142 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 33
4752067 AGTATTATAT
4752077 TATATTTA-AAAAGTATTAATTA-ATATATTTTAAA
1 TATATTTATAAAA-TATT-ATTAGAT-TATTTTAAA
4752111 TATATTTATTAAAATATTATTAGATTATTTTA
1 TATATTTA-TAAAATATTATTAGATTATTTTA
4752143 TTAAGATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
34 19 0.66
35 6 0.21
36 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (33 bp):
TATATTTATAAAATATTATTAGATTATTTTAAA
Found at i:4752139 original size:23 final size:23
Alignment explanation
Indices: 4752081--4752146 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
4752071 TTATATTATA
* * *
4752081 TTTAAAAAGTATTAATTAATATAT
1 TTTAAATA-TATTTATTAAAATAT
4752105 TTTAAATATATTTATTAAAATAT
1 TTTAAATATATTTATTAAAATAT
*
4752128 TATTAGAT-TATTTTATTAA
1 T-TTAAATATA-TTTATTAA
4752147 GATTAAATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.44
24 20 0.56
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (23 bp):
TTTAAATATATTTATTAAAATAT
Found at i:4752201 original size:22 final size:20
Alignment explanation
Indices: 4752173--4752257 Score: 80
Period size: 22 Copynumber: 3.9 Consensus size: 20
4752163 AATATTATTC
*
4752173 ATTATTAATAATTTAATGATAT
1 ATTATTAA-AATATAAT-ATAT
*
4752195 ATTATTAAAATGTAATATAAT
1 ATTATTAAAATATAATAT-AT
4752216 ATTTATTAAAAATATAATATTAT
1 A-TTATT-AAAATATAATA-TAT
4752239 ATTATTATAAATATTAATA
1 ATTATTA-AAATA-TAATA
4752258 AATGTATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
20 2 0.04
21 11 0.20
22 23 0.42
23 18 0.33
24 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATTATTAAAATATAATATAT
Found at i:4760547 original size:21 final size:21
Alignment explanation
Indices: 4760523--4760569 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
4760513 GCGTTGCATT
4760523 TCGCATTGCGATAGTTGAAAA
1 TCGCATTGCGATAGTTGAAAA
*
4760544 TCGCGTTGCGATAGTTGAAAA
1 TCGCATTGCGATAGTTGAAAA
4760565 TCGCA
1 TCGCA
4760570 ACGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (21 bp):
TCGCATTGCGATAGTTGAAAA
Found at i:4760575 original size:21 final size:21
Alignment explanation
Indices: 4760530--4760576 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4760520 ATTTCGCATT
***
4760530 GCGATAGTTGAAAATCGCGTT
1 GCGATAGTTGAAAATCGCAAC
4760551 GCGATAGTTGAAAATCGCAAC
1 GCGATAGTTGAAAATCGCAAC
4760572 GCGAT
1 GCGAT
4760577 TTTCCATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (21 bp):
GCGATAGTTGAAAATCGCAAC
Found at i:4760594 original size:41 final size:41
Alignment explanation
Indices: 4760544--4760640 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 41
4760534 TAGTTGAAAA
4760544 TCGCGTTGCGATAGT-TGAAAATCG-CAACGCGATTTTCCATT
1 TCGCGTTGCGATAGTAT-AAAAT-GTCAACGCGATTTTCCATT
* * ***
4760585 TCGCGTTGCGATAGTATACAGTGTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTATAAAATGTCAACGCGATTTTCCATT
4760626 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
4760641 CTACAGTAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 1 0.02
41 47 0.96
42 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.35
Consensus pattern (41 bp):
TCGCGTTGCGATAGTATAAAATGTCAACGCGATTTTCCATT
Found at i:4760595 original size:20 final size:20
Alignment explanation
Indices: 4760572--4760637 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
4760562 AAATCGCAAC
4760572 GCGATTTTCCATTTCGCGTT
1 GCGATTTTCCATTTCGCGTT
* * *
4760592 GCGATAGTATACA-GT-GTCGTT
1 GCGAT--TTTCCATTTCG-CGTT
4760613 GCGATTTTCCATTTCGCGTT
1 GCGATTTTCCATTTCGCGTT
4760633 GCGAT
1 GCGAT
4760638 AGTCTACAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
19 4 0.11
20 16 0.46
21 11 0.31
22 4 0.11
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.39
Consensus pattern (20 bp):
GCGATTTTCCATTTCGCGTT
Found at i:4760766 original size:5 final size:6
Alignment explanation
Indices: 4760727--4760763 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
4760717 GACACGTATT
4760727 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
4760764 CGAGACGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.30, C:0.54, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:4761293 original size:6 final size:5
Alignment explanation
Indices: 4761250--4761289 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
4761240 CCGTCTCGTC
4761250 TCGGG TCGGG TCGGG TCGGG TCGGG TCGTGG TCGTGG TCG
1 TCGGG TCGGG TCGGG TCGGG TCGGG TCG-GG TCG-GG TCG
4761290 TGGTAATACG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 23 0.68
6 11 0.32
ACGTcount: A:0.00, C:0.20, G:0.55, T:0.25
Consensus pattern (5 bp):
TCGGG
Found at i:4761358 original size:39 final size:39
Alignment explanation
Indices: 4761304--4761384 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
4761294 AATACGTGTC
*
4761304 TTCGATACGTCCGCGCGGATACTATCTTTTTAGAGAAAA
1 TTCGACACGTCCGCGCGGATACTATCTTTTTAGAGAAAA
4761343 TTCGACACGTCCGCGCGGATACTATCTTTTTAGAGAAAA
1 TTCGACACGTCCGCGCGGATACTATCTTTTTAGAGAAAA
4761382 TTC
1 TTC
4761385 TTAAGAAACA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (39 bp):
TTCGACACGTCCGCGCGGATACTATCTTTTTAGAGAAAA
Found at i:4761438 original size:21 final size:21
Alignment explanation
Indices: 4761412--4761533 Score: 103
Period size: 21 Copynumber: 5.9 Consensus size: 21
4761402 TTTTTAATTT
4761412 ACTGTAGACTATCGCAACGAC
1 ACTGTAGACTATCGCAACGAC
4761433 ACTGTAGACTATCGCAACG-C
1 ACTGTAGACTATCGCAACGAC
* **
4761453 GAAATG--GAAAATCGCAACGAC
1 --ACTGTAGACTATCGCAACGAC
4761474 ACTGTAGACTATCGCAACG-C
1 ACTGTAGACTATCGCAACGAC
* **
4761494 GA--GATGGAAAATCGCAACGAC
1 -ACTG-TAGACTATCGCAACGAC
*
4761515 ACTGTACACTATCGCAACG
1 ACTGTAGACTATCGCAACG
4761534 CGAAATGGAA
Statistics
Matches: 78, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
19 4 0.05
20 26 0.33
21 44 0.56
22 4 0.05
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.16
Consensus pattern (21 bp):
ACTGTAGACTATCGCAACGAC
Found at i:4761468 original size:20 final size:20
Alignment explanation
Indices: 4761443--4761591 Score: 90
Period size: 20 Copynumber: 7.3 Consensus size: 20
4761433 ACTGTAGACT
4761443 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
4761463 ATCGCAA--CGACACTGTAGACT
1 ATCGCAACGCGA-AATG--GAAA
*
4761484 ATCGCAACGCGAGATGGAAA
1 ATCGCAACGCGAAATGGAAA
* * *
4761504 ATCGCAA--CGACACTGTACACT
1 ATCGCAACGCGA-AATGGA-A-A
4761525 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
4761545 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
4761566 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGGAAA
4761586 ATCGCA
1 ATCGCA
4761592 CGACACTGTA
Statistics
Matches: 94, Mismatches: 24, Indels: 22
0.67 0.17 0.16
Matches are distributed among these distances:
18 6 0.06
19 6 0.06
20 38 0.40
21 32 0.34
22 6 0.06
23 6 0.06
ACGTcount: A:0.39, C:0.25, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:4761479 original size:41 final size:41
Alignment explanation
Indices: 4761422--4761658 Score: 372
Period size: 41 Copynumber: 5.8 Consensus size: 41
4761412 ACTGTAGACT
4761422 ATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
*
4761463 ATCGCAACGACACTGTAGACTATCGCAACGCGAGATGGAAA
1 ATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
*
4761504 ATCGCAACGACACTGTACACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
* * *
4761545 ATCGCAACG-CGATTTTCA-ACTATCGCAACGCGAAATGAAAA
1 ATCGCAACGAC-ACTGT-AGACTATCGCAACGCGAAATGGAAA
*
4761586 ATCGC-ACGACACTGTAGACTATCGCAACACGAAATGGAAA
1 ATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
*
4761626 ATAGCAACGACACTGTAGACTATCGCAACGCGA
1 ATCGCAACGACACTGTAGACTATCGCAACGCGA
4761659 TTTTCAACTA
Statistics
Matches: 179, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 32 0.18
41 145 0.81
42 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (41 bp):
ATCGCAACGACACTGTAGACTATCGCAACGCGAAATGGAAA
Found at i:4763909 original size:22 final size:22
Alignment explanation
Indices: 4763884--4763937 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
4763874 AAGTGCAACA
*
4763884 ACACTGATACAGAA-GTGCATTC
1 ACACTGATACA-AACGTACATTC
4763906 ACACTGA-ATCAAACGTACATTC
1 ACACTGATA-CAAACGTACATTC
*
4763928 GCACTGATAC
1 ACACTGATAC
4763938 TAAATTGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
22 23 0.85
23 1 0.04
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (22 bp):
ACACTGATACAAACGTACATTC
Found at i:4764246 original size:20 final size:18
Alignment explanation
Indices: 4764209--4764257 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
4764199 ACAGGATGTC
*
4764209 AGTATCGATACCGACCTT
1 AGTATCGATACAGACCTT
4764227 AGGGTATCGATACTAG-CCTT
1 A--GTATCGATAC-AGACCTT
4764247 AGTATCGATAC
1 AGTATCGATAC
4764258 CAGTTTGAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 11 0.41
20 15 0.56
21 1 0.04
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (18 bp):
AGTATCGATACAGACCTT
Found at i:4783204 original size:39 final size:41
Alignment explanation
Indices: 4783148--4783226 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 41
4783138 ATTTTTTATT
* *
4783148 TTTATAATTGAGTCTCTTAATTTTTTAATTT-T-ATTTTTC
1 TTTATAATTAAGTCTCTTAATTTTGTAATTTCTAATTTTTC
4783187 TTTATAATTAAAG-CTCTTAATTTTGTAATTTCTAATTTTT
1 TTTATAATT-AAGTCTCTTAATTTTGTAATTTCTAATTTTT
4783227 TTCAATCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 26 0.74
40 3 0.09
41 6 0.17
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.61
Consensus pattern (41 bp):
TTTATAATTAAGTCTCTTAATTTTGTAATTTCTAATTTTTC
Found at i:4783373 original size:18 final size:19
Alignment explanation
Indices: 4783343--4783383 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
4783333 ATAATTGAGG
4783343 CCCCCTAATTTTTTTCAAT
1 CCCCCTAATTTTTTTCAAT
4783362 CCCCCTAATTTTTTTCAAT
1 CCCCCTAATTTTTTTCAAT
4783381 CCC
1 CCC
4783384 AATTTTTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.44
Consensus pattern (19 bp):
CCCCCTAATTTTTTTCAAT
Found at i:4787322 original size:35 final size:34
Alignment explanation
Indices: 4787237--4787323 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
4787227 ATTTGGTATT
*
4787237 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
4787271 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
4787309 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
4787324 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:4789637 original size:17 final size:18
Alignment explanation
Indices: 4789617--4789657 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4789607 GAATTATATT
4789617 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
*
4789634 AGTAAAATACTTATATAA
1 AGTAAAATACTTAAATAA
*
4789652 ATTAAA
1 AGTAAA
4789658 TACATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:4790092 original size:30 final size:29
Alignment explanation
Indices: 4790030--4790092 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
4790020 TACTGCTACA
* * *
4790030 GGTGTTAGATCGGGAAATATAATCTGACC
1 GGTGTTAGATCGAGAAATATAATATCACC
* *
4790059 GGTGTTAGATCGATAAATATACTGATCACC
1 GGTGTTAGATCGAGAAATATAAT-ATCACC
4790089 GGTG
1 GGTG
4790093 ATTTTTCGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (29 bp):
GGTGTTAGATCGAGAAATATAATATCACC
Found at i:4791019 original size:21 final size:21
Alignment explanation
Indices: 4790997--4791036 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4790987 AATTTTCAAT
4790997 TTTTTAAT-ATGATTTAATTA
1 TTTTTAATAATGATTTAATTA
*
4791017 TTTTTATTAATGATTTAATT
1 TTTTTAATAATGATTTAATT
4791037 TTATTCTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTTTAATAATGATTTAATTA
Found at i:4795182 original size:12 final size:11
Alignment explanation
Indices: 4795146--4795180 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
4795136 TCAGTAGAAA
4795146 TAATAATATTTT
1 TAATAAT-TTTT
4795158 TAATAATTTTT
1 TAATAATTTTT
*
4795169 TAATAGTTTTT
1 TAATAATTTTT
4795180 T
1 T
4795181 TATTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 15 0.68
12 7 0.32
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
TAATAATTTTT
Found at i:4804068 original size:29 final size:29
Alignment explanation
Indices: 4803978--4804069 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 29
4803968 TTTTAATATC
*
4803978 TTTATTATAAAAACTATTTTAACTTTTTTATG
1 TTTATTATAAAAACTATTTTAA--ATTTTA-G
* * * * * *
4804010 TTT-GTAAAAAAATTATGTT--ATTTAAA
1 TTTATTATAAAAACTATTTTAAATTTTAG
4804036 TTTATTATAAAAACTATTTTAAATTTTAG
1 TTTATTATAAAAACTATTTTAAATTTTAG
4804065 TTTAT
1 TTTAT
4804070 CCATATCAAC
Statistics
Matches: 44, Mismatches: 13, Indels: 9
0.67 0.20 0.14
Matches are distributed among these distances:
26 3 0.07
27 16 0.36
29 10 0.23
31 12 0.27
32 3 0.07
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (29 bp):
TTTATTATAAAAACTATTTTAAATTTTAG
Found at i:4809345 original size:53 final size:53
Alignment explanation
Indices: 4809285--4809404 Score: 204
Period size: 53 Copynumber: 2.3 Consensus size: 53
4809275 TGACCCGAAA
** *
4809285 ATATATATAATTTTATTTTATATATTTAGGAATAATTATAATAATACCCCTCT
1 ATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCT
4809338 ATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCT
1 ATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCT
*
4809391 ATATATATATTTTT
1 ATATATATAATTTT
4809405 TCAATTAAGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (53 bp):
ATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCT
Found at i:4809517 original size:32 final size:30
Alignment explanation
Indices: 4809481--4809559 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 30
4809471 CTTTATTTTG
4809481 TTCGGGTCGGGTTGGGTTTTTTAAGTGTGATA
1 TTCGGGTC-GG-TGGGTTTTTTAAGTGTGATA
*
4809513 TTCGGGTC---GGGTTTTTTAAGTGTGCTA
1 TTCGGGTCGGTGGGTTTTTTAAGTGTGATA
4809540 TTCGGGTCAGGTCGGGTTTT
1 TTCGGGTC-GGT-GGGTTTT
4809560 GGTTTAGGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
27 26 0.63
32 15 0.37
ACGTcount: A:0.10, C:0.10, G:0.37, T:0.43
Consensus pattern (30 bp):
TTCGGGTCGGTGGGTTTTTTAAGTGTGATA
Found at i:4809518 original size:27 final size:27
Alignment explanation
Indices: 4809487--4809547 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
4809477 TTTGTTCGGG
*
4809487 TCGGGTTGGGTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTAAGTGTGATAT
*
4809514 TCGGGTCGGGTTTTTTAAGTGTGCTAT
1 TCGGGTCGGGTTTTTTAAGTGTGATAT
4809541 TCGGGTC
1 TCGGGTC
4809548 AGGTCGGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.11, C:0.10, G:0.34, T:0.44
Consensus pattern (27 bp):
TCGGGTCGGGTTTTTTAAGTGTGATAT
Found at i:4810273 original size:21 final size:21
Alignment explanation
Indices: 4810249--4810289 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4810239 AAGAAATTAT
* *
4810249 CTAAAATATTATTATTTTTAC
1 CTAAAACATTAATATTTTTAC
4810270 CTAAAACATTAATATTTTTA
1 CTAAAACATTAATATTTTTA
4810290 ACATTTCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (21 bp):
CTAAAACATTAATATTTTTAC
Found at i:4813059 original size:32 final size:33
Alignment explanation
Indices: 4813021--4813257 Score: 205
Period size: 33 Copynumber: 6.9 Consensus size: 33
4813011 TATATAATAC
* *
4813021 ATATATTTCAAAAATATTTTTTAAACTATATAT
1 ATATATTTCAAAAATGTTTTTAAAACTATATAT
* * *
4813054 -TATATTTAAAAAAAGTTTTCAAAACTATAT-T
1 ATATATTTCAAAAATGTTTTTAAAACTATATAT
* *
4813085 ATATAGTTTTC-AAAATGTTTTAAAAAATAT-TAT
1 ATATA--TTTCAAAAATGTTTTTAAAACTATATAT
* *
4813118 ATA-AGTTTTAAAAAACGTTTTTAAAACTATATAT
1 ATATA--TTTCAAAAATGTTTTTAAAACTATATAT
*
4813152 ATATTTATTCAAAAATGTTTTTAAAACTATATATT
1 ATATAT-TTCAAAAATGTTTTTAAAACTATATA-T
4813187 ATATAATTTATTCAAAAATGTTTTTAAAACTATATATT
1 ATAT-A--T-TTCAAAAATGTTTTTAAAACTATATA-T
** *
4813225 ATATAAGTTTTTAAAATGATTTTAAAACTATAT
1 ATAT-A-TTTCAAAAATGTTTTTAAAACTATAT
4813258 GTTATCCATA
Statistics
Matches: 171, Mismatches: 21, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
31 1 0.01
32 36 0.21
33 37 0.22
34 33 0.19
35 5 0.03
36 22 0.13
37 1 0.01
38 36 0.21
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (33 bp):
ATATATTTCAAAAATGTTTTTAAAACTATATAT
Found at i:4813205 original size:38 final size:37
Alignment explanation
Indices: 4813026--4813321 Score: 229
Period size: 38 Copynumber: 8.2 Consensus size: 37
4813016 AATACATATA
* *
4813026 TTTCAAAAATATTTTTTAAACTATATA-T-TAT-A--
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAATT
* * * *
4813058 TTTAAAAAAAGTTTTCAAAAC--TATATTATAT-AGT
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAATT
*
4813092 TTTC-AAAATG-TTTTAAAA--A-ATATTATATAAGT
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAATT
* *
4813124 TTTAAAAAACGTTTTTAAAACTATATA-TATAT--TT
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAATT
*
4813158 ATTCAAAAATGTTTTTAAAACTATATATTATATAATT
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAATT
4813195 TATTCAAAAATGTTTTTAAAACTATATATTATATAAGTT
1 T-TTCAAAAATGTTTTTAAAACTATATATTATATAA-TT
* *
4813234 TTT--AAAATGATTTTAAAACTATATGTTATCCAT-A-T
1 TTTCAAAAATGTTTTTAAAACTATATATTAT--ATAATT
4813269 TTTC-AAAATGTTTTCTTTTTAAAAACTATATATTATATATATAT
1 TTTCAAAAATG-----TTTTT-AAAACTATATATTATATA-AT-T
4813313 TTTCAAAAA
1 TTTCAAAAA
4813322 CCATTTGCAA
Statistics
Matches: 215, Mismatches: 19, Indels: 47
0.77 0.07 0.17
Matches are distributed among these distances:
30 4 0.02
31 10 0.05
32 33 0.15
33 10 0.05
34 36 0.17
35 9 0.04
36 36 0.17
37 6 0.03
38 38 0.18
39 3 0.01
40 2 0.01
41 4 0.02
42 15 0.07
44 5 0.02
45 4 0.02
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (37 bp):
TTTCAAAAATGTTTTTAAAACTATATATTATATAATT
Found at i:4813277 original size:36 final size:36
Alignment explanation
Indices: 4813026--4813282 Score: 215
Period size: 36 Copynumber: 7.4 Consensus size: 36
4813016 AATACATATA
* *
4813026 TTTCAAAAATATTTTTTAAACTATATA-T-TAT-A-T
1 TTTC-AAAATGTTTTTAAAACTATATATTATATAAGT
** * *
4813059 TTAAAAAAAGTTTTCAAAACTATAT-T-ATAT-AGT
1 TTTCAAAATGTTTTTAAAACTATATATTATATAAGT
4813092 TTTCAAAATG-TTTTAAAA--A-ATATTATATAAGT
1 TTTCAAAATGTTTTTAAAACTATATATTATATAAGT
* *
4813124 TTTAAAAAACGTTTTTAAAACTATATA-TATAT---T
1 TTT-CAAAATGTTTTTAAAACTATATATTATATAAGT
*
4813157 TATTCAAAAATGTTTTTAAAACTATATATTATATAATT
1 T-TTC-AAAATGTTTTTAAAACTATATATTATATAAGT
4813195 TATTCAAAAATGTTTTTAAAACTATATATTATATAAGT
1 T-TTC-AAAATGTTTTTAAAACTATATATTATATAAGT
* * *
4813233 TTTTAAAATGATTTTAAAACTATATGTTATCCAT-A-T
1 TTTCAAAATGTTTTTAAAACTATATATTAT--ATAAGT
4813269 TTTCAAAATGTTTT
1 TTTCAAAATGTTTT
4813283 CTTTTTAAAA
Statistics
Matches: 185, Mismatches: 20, Indels: 35
0.77 0.08 0.15
Matches are distributed among these distances:
29 2 0.01
30 2 0.01
31 4 0.02
32 34 0.18
33 17 0.09
34 31 0.17
35 5 0.03
36 43 0.23
37 6 0.03
38 41 0.22
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (36 bp):
TTTCAAAATGTTTTTAAAACTATATATTATATAAGT
Found at i:4814198 original size:164 final size:164
Alignment explanation
Indices: 4813927--4814597 Score: 1089
Period size: 164 Copynumber: 4.1 Consensus size: 164
4813917 TGACAAATAG
** * * * * * *
4813927 CCCTTCTTTCCTTGAGCTATGTTGTAAATGATATGACCC-CGAAGTTGAGTGTAATCGAACTCGA
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATG-CCCTTGAAGCTGAGTGTAATCGAACT-TA
* *
4813991 A-GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGT
64 AGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGA
* *
4814055 GCGTAGTCGAACTCAAAGGTATTTGCTAACAGATAA
129 GCGTAGTCGAACTCAAAGGTCTTTGCTAGCAGATAA
4814091 CCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAG-TGAAGTGTAATCGAACTTAA
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTG-AGTGTAATCGAACTTAA
4814155 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAG
65 GGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAG
4814220 CGTAGTCGAACTCAAAGGTCTTTGCTAGCAGATAA
130 CGTAGTCGAACTCAAAGGTCTTTGCTAGCAGATAA
*
4814255 CCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTGAG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
4814320 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
66 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
4814385 GTAGTCGAACTCAAAGGTCTTTGCTAGCAGATAA
131 GTAGTCGAACTCAAAGGTCTTTGCTAGCAGATAA
*
4814419 CCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTGAG
1 CCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
* *
4814484 GGGCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGC
66 GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
* * * * *
4814549 GTAGTCGAACTCGAAGGTC-TTGGTGGCAGGTAG
131 GTAGTCGAACTCAAAGGTCTTTGCTAGCAGATAA
*
4814582 CCCTTCTGGCCTTGAG
1 CCCTTCTAGCCTTGAG
4814598 CTAAGCTGCA
Statistics
Matches: 483, Mismatches: 20, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
163 32 0.07
164 449 0.93
165 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (164 bp):
CCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAG
GGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTAGGAGCTGAGC
GTAGTCGAACTCAAAGGTCTTTGCTAGCAGATAA
Found at i:4817988 original size:18 final size:19
Alignment explanation
Indices: 4817947--4817991 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
4817937 AGTTAATGTG
4817947 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
4817966 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
4817984 AATGCAAA
1 AATGCAAA
4817992 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:4820497 original size:15 final size:15
Alignment explanation
Indices: 4820475--4820512 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4820465 TTCCAGAAAA
4820475 TGGTTCTTG-GTTTTG
1 TGGTTCTTGCG-TTTG
*
4820490 TTGTTCTTGCGTTTG
1 TGGTTCTTGCGTTTG
4820505 TGGTTCTT
1 TGGTTCTT
4820513 TCTCGTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.00, C:0.11, G:0.29, T:0.61
Consensus pattern (15 bp):
TGGTTCTTGCGTTTG
Found at i:4821048 original size:23 final size:25
Alignment explanation
Indices: 4821003--4821049 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4820993 TAAGAAGAAA
4821003 ATAAATAATTATAATACTGATATAAT
1 ATAAATAATTATAATAC-GATATAAT
*
4821029 ATAAATTA-TATAATAC-ATATA
1 ATAAATAATTATAATACGATATA
4821050 TTTCAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
25 8 0.40
26 7 0.35
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATAAATAATTATAATACGATATAAT
Found at i:4821200 original size:38 final size:37
Alignment explanation
Indices: 4821050--4821348 Score: 249
Period size: 38 Copynumber: 8.2 Consensus size: 37
4821040 AATACATATA
* *
4821050 TTTCAAAAATATTTTTTAAACTATATA-T-TAT-A--
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAATT
* * * *
4821082 TTTAAAAAAAGTTTTCAAAAC--TATATTATAT-AGT
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAATT
*
4821116 TTTC-AAAATG-TTTT-AAA--A-ATATTATATAAGT
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAATT
* *
4821147 TTTAAAAAACGTTTTTAAAACTATATATTATATAATT
1 TTTCAAAAATGTTTTTAAAACTATATATTATATAATT
4821184 TATTCAAAAATGTTTTTAAAACTATATATTATATAATT
1 T-TTCAAAAATGTTTTTAAAACTATATATTATATAATT
4821222 TATTCAAAAATGTTTTTAAAACTATATATTATATAAGTT
1 T-TTCAAAAATGTTTTTAAAACTATATATTATATAA-TT
* *
4821261 TTT--AAAATGATTTTAAAACTATATGTTATCCAT-A-T
1 TTTCAAAAATGTTTTTAAAACTATATATTAT--ATAATT
4821296 TTTC-AAAATGTTTTCTTTTTAAAAACTATATATTATATATATAT
1 TTTCAAAAATG-----TTTTT-AAAACTATATATTATATA-AT-T
4821340 TTTCAAAAA
1 TTTCAAAAA
4821349 CCGTTTGCAA
Statistics
Matches: 222, Mismatches: 17, Indels: 43
0.79 0.06 0.15
Matches are distributed among these distances:
30 13 0.06
31 10 0.05
32 28 0.13
33 9 0.04
34 6 0.03
35 4 0.02
36 31 0.14
37 14 0.06
38 74 0.33
39 3 0.01
40 2 0.01
41 4 0.02
42 15 0.07
44 5 0.02
45 4 0.02
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (37 bp):
TTTCAAAAATGTTTTTAAAACTATATATTATATAATT
Found at i:4823659 original size:2 final size:2
Alignment explanation
Indices: 4823652--4823713 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
4823642 TTTCTGTCTG
4823652 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4823694 TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
4823714 GGGTAATAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4824753 original size:8 final size:8
Alignment explanation
Indices: 4824736--4824799 Score: 64
Period size: 8 Copynumber: 8.2 Consensus size: 8
4824726 ATACATAACT
4824736 AATATAAA
1 AATATAAA
*
4824744 AATATTAA
1 AATATAAA
4824752 AA-ATAAA
1 AATATAAA
4824759 AA-AT-AA
1 AATATAAA
*
4824765 ATTACTAAA
1 AATA-TAAA
4824774 AA-ATAAA
1 AATATAAA
4824781 AATACTAAA
1 AATA-TAAA
4824790 AATATAAA
1 AATATAAA
4824798 AA
1 AA
4824800 GTAAAAATGT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
6 3 0.06
7 15 0.32
8 18 0.38
9 11 0.23
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (8 bp):
AATATAAA
Found at i:4824757 original size:15 final size:14
Alignment explanation
Indices: 4824739--4824807 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 14
4824729 CATAACTAAT
4824739 ATAAAAATATTAAAA
1 ATAAAAATA-TAAAA
4824754 ATAAAAA-ATAAATTA
1 ATAAAAATATAAA--A
*
4824769 CTAAAAA-ATAAAAA
1 ATAAAAATAT-AAAA
4824783 TACTAAAAATATAAAA
1 -A-TAAAAATATAAAA
4824799 AGTAAAAAT
1 A-TAAAAAT
4824808 GTATTATAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
13 4 0.09
14 2 0.04
15 24 0.53
16 13 0.29
17 2 0.04
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.23
Consensus pattern (14 bp):
ATAAAAATATAAAA
Found at i:4824806 original size:16 final size:15
Alignment explanation
Indices: 4824740--4824799 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
4824730 ATAACTAATA
*
4824740 TAAAAATATTAAAAA-
1 TAAAAA-ATAAAAAAC
**
4824755 TAAAAAATAAATTAC
1 TAAAAAATAAAAAAC
4824770 TAAAAAATAAAAATAC
1 TAAAAAATAAAAA-AC
4824786 TAAAAATATAAAAA
1 TAAAAA-ATAAAAA
4824800 GTAAAAATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 5 0.14
15 17 0.46
16 8 0.22
17 7 0.19
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAAAATAAAAAAC
Found at i:4825535 original size:13 final size:13
Alignment explanation
Indices: 4825517--4825543 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4825507 ATCTCAAGTA
4825517 CGAACAACTACCT
1 CGAACAACTACCT
4825530 CGAACAACTACCT
1 CGAACAACTACCT
4825543 C
1 C
4825544 TATAGAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.41, G:0.07, T:0.15
Consensus pattern (13 bp):
CGAACAACTACCT
Found at i:4832821 original size:17 final size:17
Alignment explanation
Indices: 4832799--4832831 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4832789 CAGATAGGAT
*
4832799 CTCAATCCCTAGCTTCC
1 CTCAATCCCTAACTTCC
4832816 CTCAATCCCTAACTTC
1 CTCAATCCCTAACTTC
4832832 ATTCGATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.45, G:0.03, T:0.30
Consensus pattern (17 bp):
CTCAATCCCTAACTTCC
Found at i:4834451 original size:21 final size:22
Alignment explanation
Indices: 4834425--4834466 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4834415 GAAAATTTGT
4834425 GTTTAG-TTAAGTTTTTTTAAA
1 GTTTAGTTTAAGTTTTTTTAAA
*
4834446 GTTTAGTTTAGGTTTTTTTAA
1 GTTTAGTTTAAGTTTTTTTAA
4834467 GAGTGAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.60
Consensus pattern (22 bp):
GTTTAGTTTAAGTTTTTTTAAA
Found at i:4834478 original size:22 final size:21
Alignment explanation
Indices: 4834429--4834480 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
4834419 ATTTGTGTTT
* **
4834429 AGTTAAGTTTTTTTAAAGTTT
1 AGTTAGGTTTTTTTAAAGTGA
4834450 AGTTTAGGTTTTTTTAAGAGTGA
1 AG-TTAGGTTTTTTTAA-AGTGA
4834473 AGTTAGGT
1 AGTTAGGT
4834481 GAAATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.08
22 19 0.73
23 5 0.19
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (21 bp):
AGTTAGGTTTTTTTAAAGTGA
Found at i:4835366 original size:56 final size:56
Alignment explanation
Indices: 4835301--4835413 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
4835291 AACTTGGAAC
4835301 TGAAGTCTCGTCTCCGGCACGGCAGAACGATCTTCTTGGAAACGAAAATGGCGAGT
1 TGAAGTCTCGTCTCCGGCACGGCAGAACGATCTTCTTGGAAACGAAAATGGCGAGT
4835357 TGAAGTCTCGTCTCCGGCACGGCAGAACGATCTTCTTGGAAACGAAAATGGCGAGT
1 TGAAGTCTCGTCTCCGGCACGGCAGAACGATCTTCTTGGAAACGAAAATGGCGAGT
4835413 T
1 T
4835414 CAGTCCGTCT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (56 bp):
TGAAGTCTCGTCTCCGGCACGGCAGAACGATCTTCTTGGAAACGAAAATGGCGAGT
Found at i:4836564 original size:21 final size:21
Alignment explanation
Indices: 4836538--4836583 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
4836528 ACAACCTCTG
4836538 CCGCAGCTTGTGCGGCTTCAA
1 CCGCAGCTTGTGCGGCTTCAA
4836559 CCGCAGCTTGTGCGGCTTCAA
1 CCGCAGCTTGTGCGGCTTCAA
4836580 CCGC
1 CCGC
4836584 GGCCTTGGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.13, C:0.37, G:0.28, T:0.22
Consensus pattern (21 bp):
CCGCAGCTTGTGCGGCTTCAA
Found at i:4842457 original size:76 final size:76
Alignment explanation
Indices: 4842367--4842519 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
4842357 GGTTTTTTAT
4842367 TTTCCCTGAATATATGATTGTTGTTTTCCCGATACATGGTTACTCTATTCGTTTGTATAAGACGA
1 TTTCCCTGAATATATGATTGTTGTTTTCCCGATACATGGTTACTCTATTCGTTTGTATAAGACGA
4842432 TTCATTAGTTA
66 TTCATTAGTTA
4842443 TTTCCCTGAATATATGATTGTTGTTTTCCCGATACATGGTTACTCTATTCGTTTGTATAAGACGA
1 TTTCCCTGAATATATGATTGTTGTTTTCCCGATACATGGTTACTCTATTCGTTTGTATAAGACGA
4842508 TTCATTAGTTA
66 TTCATTAGTTA
4842519 T
1 T
4842520 CGTATATATG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (76 bp):
TTTCCCTGAATATATGATTGTTGTTTTCCCGATACATGGTTACTCTATTCGTTTGTATAAGACGA
TTCATTAGTTA
Found at i:4851199 original size:29 final size:28
Alignment explanation
Indices: 4851158--4851212 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
4851148 AATAACTTTA
*
4851158 TTGACCTGGTATTACTATAATATTATTAT
1 TTGACCTGATATTA-TATAATATTATTAT
* *
4851187 TTGACGTGATATTATATTATATTATT
1 TTGACCTGATATTATATAATATTATT
4851213 TTTTACTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (28 bp):
TTGACCTGATATTATATAATATTATTAT
Found at i:4855713 original size:35 final size:35
Alignment explanation
Indices: 4855666--4855732 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
4855656 AGAAAGGAAG
*
4855666 CAAAACCCTAATTCCAAGTAACTCATCGTAAATTA
1 CAAAACCCTAATTCCAAGTAAATCATCGTAAATTA
*
4855701 CAAAACCTTAATTCCAAGTAAATCATCGTAAA
1 CAAAACCCTAATTCCAAGTAAATCATCGTAAA
4855733 CTGAGAAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.25
Consensus pattern (35 bp):
CAAAACCCTAATTCCAAGTAAATCATCGTAAATTA
Found at i:4855742 original size:35 final size:35
Alignment explanation
Indices: 4855666--4855752 Score: 113
Period size: 35 Copynumber: 2.5 Consensus size: 35
4855656 AGAAAGGAAG
* *
4855666 CAAAACCCTAATTCCAAGTAACTCATCGTAAATTA
1 CAAAACCCTAATTCCAAGTAAATCATCGTAAATGA
*
4855701 CAAAACCTTAATTCCAAGTAAATCATCGTAAACTGA
1 CAAAACCCTAATTCCAAGTAAATCATCGTAAA-TGA
* *
4855737 -GAAACCCTAAATCCAA
1 CAAAACCCTAATTCCAA
4855753 ATGAATCAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 43 0.96
36 2 0.04
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.23
Consensus pattern (35 bp):
CAAAACCCTAATTCCAAGTAAATCATCGTAAATGA
Found at i:4856714 original size:20 final size:21
Alignment explanation
Indices: 4856689--4856727 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4856679 GTTAAAAAAA
*
4856689 ATTTAAGGTTTA-AATTTAAT
1 ATTTAAAGTTTAGAATTTAAT
4856709 ATTTAAAGTTTAGAATTTA
1 ATTTAAAGTTTAGAATTTA
4856728 TAAATTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (21 bp):
ATTTAAAGTTTAGAATTTAAT
Found at i:4858817 original size:18 final size:19
Alignment explanation
Indices: 4858782--4858818 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4858772 CACAGAATGT
4858782 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
4858802 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
4858819 GGATTACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:4859057 original size:23 final size:23
Alignment explanation
Indices: 4859031--4859074 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
4859021 TTACAAAATT
*
4859031 AAAA-ATATAAAAAAAGTTTAATG
1 AAAAGATA-AAAAAAAATTTAATG
*
4859054 AAAAGGTAAAAAAAAATTTAA
1 AAAAGATAAAAAAAAATTTAA
4859075 CCTCTGAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (23 bp):
AAAAGATAAAAAAAAATTTAATG
Found at i:4861100 original size:24 final size:24
Alignment explanation
Indices: 4861072--4861124 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
4861062 TGATGAAAGG
* *
4861072 TGAACTGTTAAATACATACAGAAA
1 TGAACTGCTAAACACATACAGAAA
*
4861096 TGAACTGCTAAACACATTCAGAAA
1 TGAACTGCTAAACACATACAGAAA
4861120 T-AACT
1 TGAACT
4861125 TACTTTTCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.25
Consensus pattern (24 bp):
TGAACTGCTAAACACATACAGAAA
Found at i:4863365 original size:20 final size:20
Alignment explanation
Indices: 4863340--4863382 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4863330 TCTAAGAGCC
*
4863340 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
4863360 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
4863380 CAT
1 CAT
4863383 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:4870905 original size:13 final size:13
Alignment explanation
Indices: 4870884--4870918 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
4870874 CCCACTTACT
4870884 TTTCACTTTTCAC
1 TTTCACTTTTCAC
* *
4870897 TTTCTCTTTTTAC
1 TTTCACTTTTCAC
4870910 TTTCACTTT
1 TTTCACTTT
4870919 CTAGTTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTCACTTTTCAC
Found at i:4872915 original size:9 final size:9
Alignment explanation
Indices: 4872901--4872931 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
4872891 AACTCCGCAT
4872901 AAAAAAAAG
1 AAAAAAAAG
4872910 AAAAAAAAG
1 AAAAAAAAG
4872919 AAAAAAAAG
1 AAAAAAAAG
4872928 AAAA
1 AAAA
4872932 TATAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:4873532 original size:20 final size:20
Alignment explanation
Indices: 4873491--4873533 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4873481 TCTAAGAGCC
*
4873491 CATTTAGGACTATTTAGATG
1 CATTTAGGACTATATAGATG
*
4873511 CATTTAGGAGC-ATATAGTTG
1 CATTTAGGA-CTATATAGATG
4873531 CAT
1 CAT
4873534 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGACTATATAGATG
Found at i:4875525 original size:14 final size:14
Alignment explanation
Indices: 4875506--4875534 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4875496 AACAGGCGAG
4875506 AAGGTTTCAACAAA
1 AAGGTTTCAACAAA
4875520 AAGGTTTCAACAAA
1 AAGGTTTCAACAAA
4875534 A
1 A
4875535 TCCACACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
AAGGTTTCAACAAA
Found at i:4885026 original size:4 final size:4
Alignment explanation
Indices: 4885017--4885046 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
4885007 TTTTTGTAAA
4885017 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AA
4885047 GAGATGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:4885796 original size:19 final size:20
Alignment explanation
Indices: 4885753--4885788 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
4885743 ACATATTAAT
4885753 AGAA-AAAACTTCGAATTTA
1 AGAAGAAAACTTCGAATTTA
4885772 AGAAGAAAA-TTCGAATT
1 AGAAGAAAACTTCGAATT
4885789 CTAAAAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.53, C:0.08, G:0.14, T:0.25
Consensus pattern (20 bp):
AGAAGAAAACTTCGAATTTA
Found at i:4886221 original size:31 final size:31
Alignment explanation
Indices: 4886183--4886254 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
4886173 CTCGGCGAAC
4886183 CCCTCCTATTCTTACTGCATGATCATTTAAT
1 CCCTCCTATTCTTACTGCATGATCATTTAAT
4886214 CCCTCCTATTCTTACTGCATGATCATTTAAT
1 CCCTCCTATTCTTACTGCATGATCATTTAAT
4886245 CCCTCCTATT
1 CCCTCCTATT
4886255 TTTTAATTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.06, T:0.42
Consensus pattern (31 bp):
CCCTCCTATTCTTACTGCATGATCATTTAAT
Found at i:4887565 original size:37 final size:36
Alignment explanation
Indices: 4887522--4887592 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 36
4887512 AGATTATAAG
4887522 ATATTTACTTCTTTTAATGATTATCATTTCTTTAAAA
1 ATATTTACTTCTTTTAATGATTATCATTT-TTTAAAA
*
4887559 ATATTTACTTCTTTTAATGGTTATCATTTTTTAA
1 ATATTTACTTCTTTTAATGATTATCATTTTTTAA
4887593 TGTTTGTCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 5 0.15
37 28 0.85
ACGTcount: A:0.30, C:0.10, G:0.04, T:0.56
Consensus pattern (36 bp):
ATATTTACTTCTTTTAATGATTATCATTTTTTAAAA
Found at i:4888056 original size:17 final size:17
Alignment explanation
Indices: 4888036--4888080 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
4888026 TTGGCTTCCT
4888036 CTCCACCTTATCTTTTC
1 CTCCACCTTATCTTTTC
4888053 CTCCACCTTATCTTTTC
1 CTCCACCTTATCTTTTC
*
4888070 CTCCTCCTTAT
1 CTCCACCTTAT
4888081 AGTCTGGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.11, C:0.42, G:0.00, T:0.47
Consensus pattern (17 bp):
CTCCACCTTATCTTTTC
Found at i:4896654 original size:50 final size:51
Alignment explanation
Indices: 4896528--4896654 Score: 141
Period size: 51 Copynumber: 2.5 Consensus size: 51
4896518 TTAGCAGTAA
** *
4896528 AGCGC-GCCTCCTGTACCGCGCTATACGATGATTTGGCGTCACGTGGGGTAT
1 AGCGCGGCC-CCTGTACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
* * * * * *
4896579 ATCACGCCCCCTGCACCGCGTTATACGGTGAGCTGGCGCCACGT-GGGTAT
1 AGCGCGGCCCCTGTACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
*
4896629 AGCGCGGCCCCTGTAGCGCGCTATAC
1 AGCGCGGCCCCTGTACCGCGCTATAC
4896655 ATGTATATCT
Statistics
Matches: 60, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
50 26 0.43
51 32 0.53
52 2 0.03
ACGTcount: A:0.16, C:0.32, G:0.31, T:0.21
Consensus pattern (51 bp):
AGCGCGGCCCCTGTACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
Found at i:4896797 original size:20 final size:19
Alignment explanation
Indices: 4896766--4896805 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
4896756 TTATCACACC
*
4896766 AAATTTTCTCAAATTCTCT
1 AAATTTTCTCAAATACTCT
4896785 AAATTTCTCTCAAATACTCT
1 AAATTT-TCTCAAATACTCT
4896805 A
1 A
4896806 TTTTAAGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATTTTCTCAAATACTCT
Found at i:4898515 original size:18 final size:18
Alignment explanation
Indices: 4898492--4898531 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
4898482 CTAGCAGCTA
*
4898492 CCGCAACCATATATGATT
1 CCGCAACCATATATGATG
4898510 CCGCAACCATATATGATG
1 CCGCAACCATATATGATG
4898528 CCGC
1 CCGC
4898532 CATCACCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.23
Consensus pattern (18 bp):
CCGCAACCATATATGATG
Found at i:4902743 original size:50 final size:51
Alignment explanation
Indices: 4902668--4902791 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 51
4902658 TTATACAAAA
*
4902668 CGCGGTACCTGATCTGCGCTATATAAAATTATGTC-AGAGTAAAGGTAT-G
1 CGCGGTACCTGATCCGCGCTATATAAAATTATGTCGAGAGTAAAGGTATAG
** *
4902717 TCGCGGTACCTGCCCCGCGCTATATAAAATTATGTCGGGAGTAAAGGTATAG
1 -CGCGGTACCTGATCCGCGCTATATAAAATTATGTCGAGAGTAAAGGTATAG
*
4902769 CGCGGTTCCTGATCCGCGCTATA
1 CGCGGTACCTGATCCGCGCTATA
4902792 CCCCTAAGTG
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
50 32 0.49
51 32 0.49
52 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (51 bp):
CGCGGTACCTGATCCGCGCTATATAAAATTATGTCGAGAGTAAAGGTATAG
Found at i:4903501 original size:7 final size:7
Alignment explanation
Indices: 4903489--4903530 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
4903479 GGTTTCCATT
4903489 TTGGAAA
1 TTGGAAA
4903496 TTGGAAA
1 TTGGAAA
4903503 TTGGAAA
1 TTGGAAA
4903510 TTGGAAA
1 TTGGAAA
4903517 TTGGAAA
1 TTGGAAA
4903524 TTGGAAA
1 TTGGAAA
4903531 CCAATATCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (7 bp):
TTGGAAA
Found at i:4915505 original size:103 final size:103
Alignment explanation
Indices: 4915280--4915497 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
4915270 GTCGAGGGTC
*
4915280 TATGTGGTCCTTCGGGACATATATGTATTTTTTGGAACATGTGTGAAGTCTGATGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGATGAGACACATAC
* *
4915345 TTGATCATTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCACTAGCATATGTATATGATTCTTAAGGAATGA
* *
4915383 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGATGAGACACATAC
* *
4915448 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCACTAGCATATGTATATGATTCTTAAGGAATGA
4915486 TATGTGGTCCTT
1 TATGTGGTCCTT
4915498 ATGGACATTA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGATGAGACACATAC
TTGATCACTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:4915580 original size:23 final size:23
Alignment explanation
Indices: 4915504--4915581 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
4915494 CCTTATGGAC
* *
4915504 ATTATTATATGGCACTACGGTGTA
1 ATTA-TATGTGGCACTACGGTGCA
* * * * *
4915528 ATTCTACGCGGCACTCCGATGCA
1 ATTATATGTGGCACTACGGTGCA
*
4915551 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
4915574 ATTATATG
1 ATTATATG
4915582 AGCTGTGGTG
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
23 39 0.93
24 3 0.07
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:4921282 original size:103 final size:103
Alignment explanation
Indices: 4921057--4921274 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
4921047 GTCGAGGGTC
*
4921057 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGATACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
4921122 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
4921160 TACGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
4921225 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
4921263 TATGTGGTCCTT
1 TATGTGGTCCTT
4921275 ATGGACATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:4927014 original size:103 final size:103
Alignment explanation
Indices: 4926790--4927007 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
4926780 GTCGAGGGTC
4926790 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
4926855 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
4926893 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
4926958 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
4926996 TATGTGGTCCTT
1 TATGTGGTCCTT
4927008 ATGGACAATA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:4927073 original size:23 final size:23
Alignment explanation
Indices: 4927047--4927090 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4927037 AATTCTACGC
4927047 GGCACTCCGGTGCAAATATATAT
1 GGCACTCCGGTGCAAATATATAT
* *
4927070 GGCACTTCGGTGCAATTATAT
1 GGCACTCCGGTGCAAATATAT
4927091 GAGCTGTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (23 bp):
GGCACTCCGGTGCAAATATATAT
Found at i:4928130 original size:10 final size:9
Alignment explanation
Indices: 4928094--4928132 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
4928084 TTTAATAGTG
4928094 TATTA-TTT
1 TATTATTTT
4928102 TATTATATTT
1 TATTAT-TTT
4928112 TATTATTTT
1 TATTATTTT
4928121 TATTACTTTT
1 TATTA-TTTT
4928131 TA
1 TA
4928133 CAGTTATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.18
9 8 0.29
10 15 0.54
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (9 bp):
TATTATTTT
Found at i:4928132 original size:19 final size:18
Alignment explanation
Indices: 4928065--4928125 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
4928055 AGCTAATTTT
*
4928065 TTTTATTATATTTTAATCA
1 TTTTATTATATTTT-ATTA
* *
4928084 -TTTA--ATAGTGTATTA
1 TTTTATTATATTTTATTA
4928099 TTTTATTATATTTTATTA
1 TTTTATTATATTTTATTA
4928117 TTTTTATTA
1 -TTTTATTA
4928126 CTTTTTACAG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 3 0.09
16 9 0.27
18 13 0.39
19 8 0.24
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTATTATATTTTATTA
Found at i:4930245 original size:44 final size:44
Alignment explanation
Indices: 4930182--4930347 Score: 244
Period size: 44 Copynumber: 3.8 Consensus size: 44
4930172 GATAGACTTG
* * *
4930182 TTTTTATTTATTTTATTTCTTGATGTTTTTATTTAACTATGAAT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGAAT
* *
4930226 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGGAC
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGAAT
* *
4930270 TTCTTATTTATTTTGTTGCTTAATGTTTTTATTTAATTAT-ATAT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGA-AT
4930314 ATTTTTATTTATTTTGTTTCTTAATGTTTTTATT
1 -TTTTTATTTATTTTGTTTCTTAATGTTTTTATT
4930348 ATTTAATTTT
Statistics
Matches: 109, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
44 78 0.72
45 31 0.28
ACGTcount: A:0.21, C:0.04, G:0.07, T:0.67
Consensus pattern (44 bp):
TTTTTATTTATTTTGTTTCTTAATGTTTTTATTTAATTATGAAT
Found at i:4930304 original size:25 final size:24
Alignment explanation
Indices: 4930273--4930351 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 24
4930263 TATGGACTTC
4930273 TTATTTATTTTGTTGCTTAATGTTT
1 TTATTTATTTTGTT-CTTAATGTTT
* * * *
4930298 TTATTTA-ATT-AT-AT-ATATTT
1 TTATTTATTTTGTTCTTAATGTTT
4930318 TTATTTATTTTGTTTCTTAATGTTT
1 TTATTTATTTTG-TTCTTAATGTTT
4930343 TTA-TTATTT
1 TTATTTATTT
4930352 AATTTTTGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 11
0.68 0.13 0.18
Matches are distributed among these distances:
20 12 0.29
21 3 0.07
23 2 0.05
24 9 0.22
25 15 0.37
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.70
Consensus pattern (24 bp):
TTATTTATTTTGTTCTTAATGTTT
Found at i:4946979 original size:56 final size:56
Alignment explanation
Indices: 4946892--4947013 Score: 226
Period size: 56 Copynumber: 2.1 Consensus size: 56
4946882 AATTTTGATT
4946892 TTTTAGTACCTAAACTTTTGATTTTTCAAAACATACCTAATATTTAGTTTTTATTTCA
1 TTTTAGT--CTAAACTTTTGATTTTTCAAAACATACCTAATATTTAGTTTTTATTTCA
4946950 TTTTAGTCTAAACTTTTGATTTTTCAAAACATACCTAATATTTAGTTTTTATTTCA
1 TTTTAGTCTAAACTTTTGATTTTTCAAAACATACCTAATATTTAGTTTTTATTTCA
4947006 TTTTAGTC
1 TTTTAGTC
4947014 CCTCACCATT
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
56 57 0.89
58 7 0.11
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.52
Consensus pattern (56 bp):
TTTTAGTCTAAACTTTTGATTTTTCAAAACATACCTAATATTTAGTTTTTATTTCA
Found at i:4948580 original size:23 final size:25
Alignment explanation
Indices: 4948553--4948607 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 25
4948543 ATTCCAAAAC
4948553 TTTTCTTCT-CTT-GAAAAATATT-T
1 TTTTCTTCTCCTTAG-AAAATATTAT
4948576 TTTTC-TCTCCTTAGAAAATATTAT
1 TTTTCTTCTCCTTAGAAAATATTAT
4948600 TTTTCTTC
1 TTTTCTTC
4948608 CTAGTTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 3 0.11
23 16 0.57
24 7 0.25
25 2 0.07
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTTCTTCTCCTTAGAAAATATTAT
Found at i:4948671 original size:63 final size:63
Alignment explanation
Indices: 4948593--4948714 Score: 244
Period size: 63 Copynumber: 1.9 Consensus size: 63
4948583 TCCTTAGAAA
4948593 ATATTATTTTTCTTCCTAGTTTTCCAGTAATAGTCGAAGGCAAGGATCGTTCGTGATATGTAG
1 ATATTATTTTTCTTCCTAGTTTTCCAGTAATAGTCGAAGGCAAGGATCGTTCGTGATATGTAG
4948656 ATATTATTTTTCTTCCTAGTTTTCCAGTAATAGTCGAAGGCAAGGATCGTTCGTGATAT
1 ATATTATTTTTCTTCCTAGTTTTCCAGTAATAGTCGAAGGCAAGGATCGTTCGTGATAT
4948715 ATGTAGATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (63 bp):
ATATTATTTTTCTTCCTAGTTTTCCAGTAATAGTCGAAGGCAAGGATCGTTCGTGATATGTAG
Found at i:4968399 original size:184 final size:187
Alignment explanation
Indices: 4968055--4968419 Score: 447
Period size: 184 Copynumber: 1.9 Consensus size: 187
4968045 CCTTTTGACT
* *
4968055 ATTGTAAATTAAAATATAATTTTTAATTTGAATATTAGTAGAATAATTATTCTTTTAATAAGTCA
1 ATTGCAAATTAAAATATAATTTTTAATTTGAATATTAGTAGAATAATTATTCTTTGAATAAGTCA
* * * * *
4968120 ATTTAAAAAGATATTTGTTATCTTTTTTAATTTTGAATATTAAAATATAATTATATAATTTTGTA
66 ATTTAAAAAGATATTTGCTATC-----TAACTTCGAACATTAAAAGATAATTATATAATTTTGTA
* *
4968185 TATTTCAAATTAAAATAATATATGTTTAAGTTTTAATAATAAAAGGAGTTTACAATTTGATC
126 TATTTCAAATTAAAATAATATATATTTAAGTTTGAATAATAAAAGGAGTTTACAATTTGATC
* *
4968247 ATTGCAAATT-AAATAT-ATTATTTAATTTGAATATTAGTAGGATAATTACTT-TTTGAATATGT
1 ATTGCAAATTAAAATATAATT-TTTAATTTGAATATTAGTAGAATAATTA-TTCTTTGAATAAGT
* * *
4968309 TAATTTAAAATTG-TATTTGCTATC-AACTTCGAACATT-AAAGATAATTATATACTTTTGTATA
64 CAATTTAAAA-AGATATTTGCTATCTAACTTCGAACATTAAAAGATAATTATATAATTTTGTATA
** *
4968371 TTTCAAATTAAAATAATACT-TATTTAAGTTTGAATGGTAAAATGAGTTT
128 TTTCAAATTAAAATAATA-TATATTTAAGTTTGAATAATAAAAGGAGTTT
4968420 TATATTTTGA
Statistics
Matches: 152, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
184 65 0.43
185 11 0.07
190 3 0.02
191 61 0.40
192 12 0.08
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (187 bp):
ATTGCAAATTAAAATATAATTTTTAATTTGAATATTAGTAGAATAATTATTCTTTGAATAAGTCA
ATTTAAAAAGATATTTGCTATCTAACTTCGAACATTAAAAGATAATTATATAATTTTGTATATTT
CAAATTAAAATAATATATATTTAAGTTTGAATAATAAAAGGAGTTTACAATTTGATC
Found at i:4968769 original size:121 final size:121
Alignment explanation
Indices: 4968555--4968793 Score: 343
Period size: 121 Copynumber: 2.0 Consensus size: 121
4968545 AGAACTATCA
* * * *
4968555 TTCTCTTGAAAAATATTCTCTCGTAAGAAAATATTATTTTTCTTCTTAGTTTTTCGATAATAGTC
1 TTCTCTTGAAAAATATTCTCTCATAAGAAAATATTATTTTTCTTCTTAGTTTTCCAATAATAATC
* * * *
4968620 GAAGGCAATGATCGTTCGTAATCTGTGCAAATGTGCTACTATAGTTGATCATAAGC
66 AAAGGCAATGATCGTTCATAATCTGTGCAAATATGCTACTATAGCTGATCATAAGC
* * *
4968676 TTCTCTTGAAAAATATTCTCTCATTAGAAAATATTCTTTTTCTTCTTAGTTTTCCAATGATAATC
1 TTCTCTTGAAAAATATTCTCTCATAAGAAAATATTATTTTTCTTCTTAGTTTTCCAATAATAATC
* * * *
4968741 AAAGGTAATTATCGTTCATAATCTGTGCAAATATGGTACTGTAGCTGATCATA
66 AAAGGCAATGATCGTTCATAATCTGTGCAAATATGCTACTATAGCTGATCATA
4968794 GGTTGTTGTA
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
121 103 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (121 bp):
TTCTCTTGAAAAATATTCTCTCATAAGAAAATATTATTTTTCTTCTTAGTTTTCCAATAATAATC
AAAGGCAATGATCGTTCATAATCTGTGCAAATATGCTACTATAGCTGATCATAAGC
Found at i:4969209 original size:18 final size:18
Alignment explanation
Indices: 4969162--4969211 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
4969152 AAACATATAC
* *
4969162 TACTTTGTAATAATCTTA
1 TACTTTGTAATCATCTAA
4969180 TACTTTGTAATCATCTAA
1 TACTTTGTAATCATCTAA
4969198 TACTTTGTAATCAT
1 TACTTTGTAATCAT
4969212 ATAAGACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.06, T:0.48
Consensus pattern (18 bp):
TACTTTGTAATCATCTAA
Found at i:4979265 original size:18 final size:18
Alignment explanation
Indices: 4979242--4979285 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
4979232 GAGGCAGGTA
4979242 GGAGAAAGTCAACCTAGT
1 GGAGAAAGTCAACCTAGT
4979260 GGAGAAAGTCAACCTAGT
1 GGAGAAAGTCAACCTAGT
4979278 GGAGAAAG
1 GGAGAAAG
4979286 GGTGTCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.41, C:0.14, G:0.32, T:0.14
Consensus pattern (18 bp):
GGAGAAAGTCAACCTAGT
Found at i:4996927 original size:13 final size:13
Alignment explanation
Indices: 4996909--4996933 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4996899 GGGAGGAAAG
4996909 ATAACAATTTAAT
1 ATAACAATTTAAT
4996922 ATAACAATTTAA
1 ATAACAATTTAA
4996934 ACTCATATTT
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAACAATTTAAT
Found at i:4999497 original size:15 final size:15
Alignment explanation
Indices: 4999473--4999503 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4999463 TCAAGACTCT
*
4999473 CCCATGAAACTCAAC
1 CCCATCAAACTCAAC
4999488 CCCATCAAACTCAAC
1 CCCATCAAACTCAAC
4999503 C
1 C
4999504 ACCTTCACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.45, G:0.03, T:0.13
Consensus pattern (15 bp):
CCCATCAAACTCAAC
Found at i:5007201 original size:22 final size:22
Alignment explanation
Indices: 5007135--5007202 Score: 57
Period size: 25 Copynumber: 3.0 Consensus size: 22
5007125 TAAAAATAAA
* **
5007135 TTTTAAA-AAAATATAAAAGAT
1 TTTTAAATAAAATAAAAAATTT
* *
5007156 TATTAAATAATATTTAAAAGAATTT
1 TTTTAAATAA-A-ATAAAA-AATTT
5007181 TTTTAAATAAAATAAAAAATTT
1 TTTTAAATAAAATAAAAAATTT
5007203 AAAATTCATA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
21 6 0.17
22 7 0.19
23 6 0.17
24 5 0.14
25 12 0.33
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (22 bp):
TTTTAAATAAAATAAAAAATTT
Found at i:5015914 original size:8 final size:8
Alignment explanation
Indices: 5015892--5015925 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
5015882 TCCTTTATAA
*
5015892 AAGAAATT
1 AAGAATTT
*
5015900 AATAATTT
1 AAGAATTT
5015908 AAGAATTT
1 AAGAATTT
5015916 AAGAATTT
1 AAGAATTT
5015924 AA
1 AA
5015926 AAAGATGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (8 bp):
AAGAATTT
Done.