Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 38
Found at i:163 original size:37 final size:36
Alignment explanation
Indices: 80--167 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 36
70 TCCTCCGGGT
* *
80 AATCTTAAGCCTTCACCGAAGATTAGTGAAGTAAATC
1 AATCGTAAGCCTTCACCGAAGAGTAGTGAAGT-AATC
*
117 AATCTTAAGCCTTCACCGAAGAGTAGTGAAGCT-ATC
1 AATCGTAAGCCTTCACCGAAGAGTAGTGAAG-TAATC
*
153 CATCAGTAAGCCTTC
1 AATC-GTAAGCCTTC
168 CGAGCATGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
36 6 0.13
37 39 0.85
38 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (36 bp):
AATCGTAAGCCTTCACCGAAGAGTAGTGAAGTAATC
Found at i:2091 original size:31 final size:31
Alignment explanation
Indices: 2054--2125 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
2044 TATGTATTAA
2054 TACTTAAACTATCAATTTTGATATATTTTAG
1 TACTTAAACTATCAATTTTGATATATTTTAG
*
2085 TGCTTAAACTATCAATTTTGATATATTTTAG
1 TACTTAAACTATCAATTTTGATATATTTTAG
2116 TACTTAAACT
1 TACTTAAACT
2126 TTCCTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (31 bp):
TACTTAAACTATCAATTTTGATATATTTTAG
Found at i:4846 original size:29 final size:30
Alignment explanation
Indices: 4800--4863 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 30
4790 TTTGGATATG
4800 AATTTAATCAAAATTTCAATTTAGTCCTCA
1 AATTTAATCAAAATTTCAATTTAGTCCTCA
*
4830 AATTTAATCAAAA-TTCAATTTAGTCCTCG
1 AATTTAATCAAAATTTCAATTTAGTCCTCA
4859 AATTT
1 AATTT
4864 TTTTCTGAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.41
Consensus pattern (30 bp):
AATTTAATCAAAATTTCAATTTAGTCCTCA
Found at i:6493 original size:17 final size:18
Alignment explanation
Indices: 6449--6502 Score: 74
Period size: 19 Copynumber: 3.0 Consensus size: 18
6439 AAATCAATTT
6449 AAATATAATAAAAATATTA
1 AAATATAATAAAAATA-TA
*
6468 AAATATAATAAAAATA-G
1 AAATATAATAAAAATATA
*
6485 AATTATAATAAAAATATA
1 AAATATAATAAAAATATA
6503 TTCTATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.48
19 16 0.52
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
AAATATAATAAAAATATA
Found at i:8270 original size:257 final size:257
Alignment explanation
Indices: 7812--8335 Score: 940
Period size: 257 Copynumber: 2.0 Consensus size: 257
7802 ATAAATATAC
*
7812 ATAAATAAAAAAGTGAACATAATAAAAAAGAACAAAATTACAAGTACTTAAAAATTTAAAGAAAG
1 ATAAATAAAAAAGTGAACATAATAAAAAAGAACAAAATTACAAGTAATTAAAAATTTAAAGAAAG
*
7877 AACCAACAATCAGTTGGTCTAGTGGGATGAGATACTAGGTCCCTTAAATAAGGTTAGAGGTTTAA
66 AACCAACAACCAGTTGGTCTAGTGGGATGAGATACTAGGTCCCTTAAATAAGGTTAGAGGTTTAA
*
7942 ATCCTGGCGTTTGTGAATGGAGCAAACTGAGTTAGGAGGGTCACCTTTGCCTCTGCAGTACCCAA
131 ATCCTGGCGTTTGTGAATGGAGCAAACTGAGTTAGGAGGGTCACCCTTGCCTCTGCAGTACCCAA
* *
8007 TCTGGATTAGTCGGTCAATAGATCGAATATCGATGATTAATTCAAAAAAATTAAAGAAAGAA
196 TCTGGATTAGTCGGTCAATAGAACGAATACCGATGATTAATTCAAAAAAATTAAAGAAAGAA
*
8069 ATAAATAAAAAGGTGAACATAATAAAAAAGAACAAAATTACAAGTAATTAAAAATTTAAAGAAAG
1 ATAAATAAAAAAGTGAACATAATAAAAAAGAACAAAATTACAAGTAATTAAAAATTTAAAGAAAG
*
8134 AACCAACAACCAGTTGGTCTAGTGGGATGAGATACTAGGTCCTTTAAATAAGGTTAGAGGTTTAA
66 AACCAACAACCAGTTGGTCTAGTGGGATGAGATACTAGGTCCCTTAAATAAGGTTAGAGGTTTAA
* * *
8199 ATCCTGGCGTTTGTGAATGGAGCAAACTGAGTTGGGAGGGTCACCCTTGCCTCTGTAGTACCCAT
131 ATCCTGGCGTTTGTGAATGGAGCAAACTGAGTTAGGAGGGTCACCCTTGCCTCTGCAGTACCCAA
*
8264 TCTGGATTAGTCGGTCAATAGAACGAATACCGGTGATTAATTCAAAAAAATTAAAGAAAGAA
196 TCTGGATTAGTCGGTCAATAGAACGAATACCGATGATTAATTCAAAAAAATTAAAGAAAGAA
*
8326 AGAAATAAAA
1 ATAAATAAAA
8336 CTCAAACTCA
Statistics
Matches: 255, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
257 255 1.00
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (257 bp):
ATAAATAAAAAAGTGAACATAATAAAAAAGAACAAAATTACAAGTAATTAAAAATTTAAAGAAAG
AACCAACAACCAGTTGGTCTAGTGGGATGAGATACTAGGTCCCTTAAATAAGGTTAGAGGTTTAA
ATCCTGGCGTTTGTGAATGGAGCAAACTGAGTTAGGAGGGTCACCCTTGCCTCTGCAGTACCCAA
TCTGGATTAGTCGGTCAATAGAACGAATACCGATGATTAATTCAAAAAAATTAAAGAAAGAA
Found at i:8839 original size:19 final size:19
Alignment explanation
Indices: 8817--8859 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
8807 TGAAAAAAAT
*
8817 AAAATGAAATAAAAGAGAA
1 AAAATAAAATAAAAGAGAA
*
8836 AAAATAAAATAAAATAGAA
1 AAAATAAAATAAAAGAGAA
8855 AAAAT
1 AAAAT
8860 TACCTTTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (19 bp):
AAAATAAAATAAAAGAGAA
Found at i:11208 original size:134 final size:135
Alignment explanation
Indices: 11041--11337 Score: 313
Period size: 134 Copynumber: 2.2 Consensus size: 135
11031 ATACCTTTCT
* * * *
11041 TCATGAAGTTAAAATTCGACTCAAAAACCTTGACTAT-AAAATAGCTCCTCATTGTTAAGTTAAT
1 TCATGAAGTTGAAATTTGACTAAAAAACCTTGACT-TGAAAATAGCTCCTCATTATTAAGTT-AT
* ** *
11105 -CTAAATTTAC-TGACGACTCCTT-CATTGAGATTTATGTCGAT-TTTGGGTGTT-TTTTAG-CC
64 GCTAAA-TTACAT-ACGACT-CTTCCATTGAGAGTTAAATCAATATTT-GGTGTTCTTTTAGTCC
11164 TAATAT-ATTTA
125 -AATATCATTTA
* * * ** *
11175 TCGTGAAGTTGAAATTTGACTAAAAAATCTTGACTTGAAAATATCTCCTTGTTATTGAGTTATGC
1 TCATGAAGTTGAAATTTGACTAAAAAACCTTGACTTGAAAATAGCTCCTCATTATTAAGTTATGC
* * *
11240 TAAATTGCATACGACTCTTCCATTGCGAGTTAAATTAATATTTGGTGTTCTTTTAGTCCAATATC
66 TAAATTACATACGACTCTTCCATTGAGAGTTAAATCAATATTTGGTGTTCTTTTAGTCCAATATC
*
11305 TTTTA
131 ATTTA
11310 TCATGAAGTTGAAATTTGACTAAAAAAC
1 TCATGAAGTTGAAATTTGACTAAAAAAC
11338 ATTGGATAAA
Statistics
Matches: 135, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
132 3 0.02
133 31 0.23
134 69 0.51
135 32 0.24
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (135 bp):
TCATGAAGTTGAAATTTGACTAAAAAACCTTGACTTGAAAATAGCTCCTCATTATTAAGTTATGC
TAAATTACATACGACTCTTCCATTGAGAGTTAAATCAATATTTGGTGTTCTTTTAGTCCAATATC
ATTTA
Found at i:11367 original size:135 final size:132
Alignment explanation
Indices: 11041--11409 Score: 329
Period size: 135 Copynumber: 2.8 Consensus size: 132
11031 ATACCTTTCT
* * * *
11041 TCATGAAGTTAAAATTCGACTCAAAAACCTTGACTATAAAATAGCTCC---TCATTGTTAAGTTA
1 TCATGAAGTTGAAATTTGACTAAAAAATCTTGACTA-AAAATAGCTCCATGTCATTG---AGTTA
* * * * * * ** **
11103 ATCTAAATTTACTGACGACTCCTTCATTGAGATTTATGTCGAT-TTTGGGTGTTTTTTAGCCTAA
62 AGCTAAA-TTGCAGACGACTCCTCCATTGCGAGTTAAATTAATATTT-GGTGTTTTTTAGCCTAA
11167 TATATTTA
125 TATATTTA
* * * * * *
11175 TCGTGAAGTTGAAATTTGACTAAAAAATCTTGACTTGAAAATATCTCCTTGTTATTGAGTTATGC
1 TCATGAAGTTGAAATTTGACTAAAAAATCTTGAC-TAAAAATAGCTCCATGTCATTGAGTTAAGC
* *
11240 TAAATTGCATACGACTCTTCCATTGCGAGTTAAATTAATATTTGGTGTTCTTTTAGTCC-AATAT
65 TAAATTGCAGACGACTCCTCCATTGCGAGTTAAATTAATATTTGGTGTT-TTTTAG-CCTAATAT
*
11304 CTTTTA
128 -ATTTA
11310 TCATGAAGTTGAAATTTGACTAAAAAA-CATTGGA-TAAAGAATAGCTCCATGTCATTGAGTTAA
1 TCATGAAGTTGAAATTTGACTAAAAAATC-TT-GACTAAA-AATAGCTCCATGTCATTGAGTTAA
* ** *
11373 GGTAAATTGTGGATGACTCCTCCATTGCGAGTTAAAT
63 GCTAAATTGCAGACGACTCCTCCATTGCGAGTTAAAT
11410 CGAATCTAAA
Statistics
Matches: 190, Mismatches: 34, Indels: 21
0.78 0.14 0.09
Matches are distributed among these distances:
133 30 0.16
134 67 0.35
135 86 0.45
136 2 0.01
137 5 0.03
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (132 bp):
TCATGAAGTTGAAATTTGACTAAAAAATCTTGACTAAAAATAGCTCCATGTCATTGAGTTAAGCT
AAATTGCAGACGACTCCTCCATTGCGAGTTAAATTAATATTTGGTGTTTTTTAGCCTAATATATT
TA
Found at i:11906 original size:35 final size:35
Alignment explanation
Indices: 11867--11984 Score: 102
Period size: 35 Copynumber: 3.4 Consensus size: 35
11857 TAAAATAATT
11867 TCAAGTGAGACTAAATTT-TTTAAAGGAAAACTATC
1 TCAAGTGAGA-TAAATTTATTTAAAGGAAAACTATC
** *
11902 TCAAGTGAGAT---TTTATTTCGAGAGAAAATTATC
1 TCAAGTGAGATAAATTTATTTAAAG-GAAAACTATC
* * * *
11935 TCCAA-TGTGATGAAATTTGTTTTATGGAAAACTATC
1 T-CAAGTGAGAT-AAATTTATTTAAAGGAAAACTATC
11971 TCAAGTGAGATAAA
1 TCAAGTGAGATAAA
11985 ATTTTTGTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
31 3 0.05
32 5 0.08
33 15 0.23
34 4 0.06
35 16 0.25
36 15 0.23
37 7 0.11
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (35 bp):
TCAAGTGAGATAAATTTATTTAAAGGAAAACTATC
Found at i:12005 original size:38 final size:37
Alignment explanation
Indices: 11950--12031 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 37
11940 TGTGATGAAA
*
11950 TTTGTTTTATGGAAAACTATCTCAAGTGAGATAAAATT
1 TTTGTTTTATGGAAAACTATATCAAGTGAGATAAAA-T
* * *
11988 TTTGTTTTGA-GGGAAACTATATCGAGTGCGATAAAAT
1 TTTGTTTT-ATGGAAAACTATATCAAGTGAGATAAAAT
12025 TTTGTTT
1 TTTGTTT
12032 CAAGAGAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
37 8 0.21
38 30 0.77
39 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (37 bp):
TTTGTTTTATGGAAAACTATATCAAGTGAGATAAAAT
Found at i:12041 original size:37 final size:38
Alignment explanation
Indices: 11963--12041 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
11953 GTTTTATGGA
* ** *
11963 AAACTATCTCAAGTGAGATAAAATTTTTGTTTTGAGGG
1 AAACTATATCAAGTGAGATAAAATTTTTGTTTCAAGAG
* *
12001 AAACTATATCGAGTGCGATAAAA-TTTTGTTTCAAGAG
1 AAACTATATCAAGTGAGATAAAATTTTTGTTTCAAGAG
12038 AAAC
1 AAAC
12042 CATCTTAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
37 15 0.43
38 20 0.57
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (38 bp):
AAACTATATCAAGTGAGATAAAATTTTTGTTTCAAGAG
Found at i:15002 original size:21 final size:22
Alignment explanation
Indices: 14973--15013 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
14963 TTGCAGAATA
14973 CAAAGATGCAAAGATACAAACG
1 CAAAGATGCAAAGATACAAACG
*
14995 CAAA-ATGCAAAGATGCAAA
1 CAAAGATGCAAAGATACAAA
15014 TGCATGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.56, C:0.17, G:0.17, T:0.10
Consensus pattern (22 bp):
CAAAGATGCAAAGATACAAACG
Found at i:16800 original size:25 final size:25
Alignment explanation
Indices: 16772--16821 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
16762 TAATAAAAAA
16772 GAAC-AAATTACAAGAAA-TTAAAATT
1 GAACAAAATT-CAA-AAACTTAAAATT
16797 GAACAAAATTCAAAAACTTAAAATT
1 GAACAAAATTCAAAAACTTAAAATT
16822 TTAAAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 3 0.13
25 15 0.65
26 5 0.22
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.24
Consensus pattern (25 bp):
GAACAAAATTCAAAAACTTAAAATT
Found at i:18458 original size:16 final size:17
Alignment explanation
Indices: 18420--18458 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
18410 CAAATTACAA
*
18420 CTCTTTGGGTGATTTTT
1 CTCTTTGGATGATTTTT
*
18437 CACTTTGGATGATTTTT
1 CTCTTTGGATGATTTTT
18454 -TCTTT
1 CTCTTT
18459 CCATTTTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.10, C:0.13, G:0.18, T:0.59
Consensus pattern (17 bp):
CTCTTTGGATGATTTTT
Found at i:25337 original size:3 final size:3
Alignment explanation
Indices: 25329--25369 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
25319 AAACCTTATC
25329 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25370 GTTGTAATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25958 original size:29 final size:30
Alignment explanation
Indices: 25914--25970 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
25904 AACATAATAG
* *
25914 GACAAAAGGGAATCAAGTTAGTAAAAATCA
1 GACAAAAGAGAATCAAGTCAGTAAAAATCA
*
25944 GACAAAA-AGAATCAAGTCAGTTAAAAT
1 GACAAAAGAGAATCAAGTCAGTAAAAAT
25971 GATTATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.54, C:0.11, G:0.18, T:0.18
Consensus pattern (30 bp):
GACAAAAGAGAATCAAGTCAGTAAAAATCA
Found at i:27798 original size:4 final size:4
Alignment explanation
Indices: 27789--28621 Score: 1624
Period size: 4 Copynumber: 209.8 Consensus size: 4
27779 CAAAATAAGG
27789 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
27837 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
27885 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
27933 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
27981 TATC TATC TATC TATC TA-- TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
28027 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
28075 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
28123 TA-- TATC TATC TATC --TC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
28167 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
28215 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
28263 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
28311 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
28359 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
28407 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
28455 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
28503 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
28551 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
28599 TATC TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TATC TAT
28622 AAAATAAAGT
Statistics
Matches: 823, Mismatches: 0, Indels: 12
0.99 0.00 0.01
Matches are distributed among these distances:
2 6 0.01
4 817 0.99
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TATC
Found at i:33322 original size:23 final size:23
Alignment explanation
Indices: 33288--33341 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
33278 TGAATTATGT
*
33288 TATGGCTCTCCCTTTAACCACCA
1 TATGGCTTTCCCTTTAACCACCA
*
33311 TCTGGCTTTCCCTTTAACCACCA
1 TATGGCTTTCCCTTTAACCACCA
33334 TATGGCTT
1 TATGGCTT
33342 ACATACTGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.19, C:0.35, G:0.11, T:0.35
Consensus pattern (23 bp):
TATGGCTTTCCCTTTAACCACCA
Found at i:41955 original size:22 final size:21
Alignment explanation
Indices: 41930--41977 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
41920 AAGAAAGAAA
*
41930 GAAAACTCAAACT-CAACATTAG
1 GAAAACT-AAAATGCAA-ATTAG
*
41952 GAAAAGTAAAATGCAAATTAG
1 GAAAACTAAAATGCAAATTAG
41973 GAAAA
1 GAAAA
41978 TAGGTGGCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (21 bp):
GAAAACTAAAATGCAAATTAG
Found at i:44928 original size:132 final size:132
Alignment explanation
Indices: 44691--44936 Score: 341
Period size: 132 Copynumber: 1.9 Consensus size: 132
44681 AACTCTCCAT
* * * * * * *
44691 TGAAAATGTTGATCCACCTCCTTTTGTGATGTAATCGAACGAGATGTCGGTGCTGATCTACCTCA
1 TGAAAATGTCGATCCACCTCATTCTATGATGGAATCGAACGAGATATCGGTACTGATCTACCTCA
* * **
44756 TTCTATGATAGAATTGAACAAAAAGTTGATGTTGATCCAACTCCTTATGTGTTGGATTTGAGTGA
66 TTCTATGACAGAATCGAACAAAAAGTTGATACTGATCCAACTCCTTATGTGTTGGATTTGAGTGA
44821 AA
131 AA
*
44823 TGAAAATGTCGATCCACCTCATTCTATGATGGAATCGAACGAGATATCGGTACTGATCTACCTCC
1 TGAAAATGTCGATCCACCTCATTCTATGATGGAATCGAACGAGATATCGGTACTGATCTACCTCA
* * *
44888 TTCTGTGACATAATCGAGC-AAAAGTTTGATACTGATCCAACTCCTTATG
66 TTCTATGACAGAATCGAACAAAAAG-TTGATACTGATCCAACTCCTTATG
44937 CGCTGGATGA
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
131 5 0.05
132 93 0.95
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (132 bp):
TGAAAATGTCGATCCACCTCATTCTATGATGGAATCGAACGAGATATCGGTACTGATCTACCTCA
TTCTATGACAGAATCGAACAAAAAGTTGATACTGATCCAACTCCTTATGTGTTGGATTTGAGTGA
AA
Found at i:47219 original size:17 final size:16
Alignment explanation
Indices: 47193--47238 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
47183 TAAACATAAT
*
47193 GAAAATAATAAAAACAA
1 GAAAAAAATAAAAAC-A
47210 GAAAAAAATAAAAACA
1 GAAAAAAATAAAAACA
47226 GTAAAAAAA-AAAA
1 G-AAAAAAATAAAA
47239 TAAAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (16 bp):
GAAAAAAATAAAAACA
Found at i:47262 original size:13 final size:13
Alignment explanation
Indices: 47241--47265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47231 AAAAAAAATA
47241 AAATAAAATATAG
1 AAATAAAATATAG
47254 AAATAAAATATA
1 AAATAAAATATA
47266 AGGACCAAAT
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:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (13 bp):
AAATAAAATATAG
Found at i:47460 original size:50 final size:50
Alignment explanation
Indices: 47378--47481 Score: 122
Period size: 51 Copynumber: 2.1 Consensus size: 50
47368 AAATAAAATA
* *
47378 AAATAAAAATGACTAAAATGTAAGAAAATAAAAGT-TAGTAACTAAATCAG
1 AAATAAAAATGACCAAAATGCAAGAAAATAAAA-TATAGTAACTAAATCAG
* * *
47428 AAATAAACAGTGACCAAAATGCAA-AAATTAAAATAATAGTAGCTAAATCAG
1 AAATAAA-AATGACCAAAATGCAAGAAAATAAAAT-ATAGTAACTAAATCAG
47479 AAA
1 AAA
47482 CTAACATTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
49 1 0.02
50 15 0.33
51 30 0.65
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.20
Consensus pattern (50 bp):
AAATAAAAATGACCAAAATGCAAGAAAATAAAATATAGTAACTAAATCAG
Found at i:49751 original size:23 final size:21
Alignment explanation
Indices: 49729--49771 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 21
49719 ATCGAATACA
49729 AAATGAGTATCGATACTACTAC
1 AAAT-AGTATCGATACTACTAC
49751 -AATAGTATCGATACTACTAC
1 AAATAGTATCGATACTACTAC
49771 A
1 A
49772 GTAATATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (21 bp):
AAATAGTATCGATACTACTAC
Found at i:49759 original size:20 final size:20
Alignment explanation
Indices: 49734--49771 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
49724 ATACAAAATG
49734 AGTATCGATACTACTACAAT
1 AGTATCGATACTACTACAAT
49754 AGTATCGATACTACTACA
1 AGTATCGATACTACTACA
49772 GTAATATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (20 bp):
AGTATCGATACTACTACAAT
Found at i:49779 original size:20 final size:20
Alignment explanation
Indices: 49736--49779 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
49726 ACAAAATGAG
*
49736 TATCGATACTACTACAATAG
1 TATCGATACTACTACAATAA
*
49756 TATCGATACTACTACAGTAA
1 TATCGATACTACTACAATAA
49776 TATC
1 TATC
49780 AAGCCAACGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (20 bp):
TATCGATACTACTACAATAA
Found at i:50185 original size:33 final size:33
Alignment explanation
Indices: 50138--50201 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
50128 AAGGGGTTTT
*
50138 GGTTCTAGCTTAG-CC-TGATAAAAGCTAGGGAAA
1 GGTTATAGCTTAGCCCGTGA-AAAA-CTAGGGAAA
*
50171 GGTTATAGTTTAGCCCGTGAAAAACTAGGGA
1 GGTTATAGCTTAGCCCGTGAAAAACTAGGGA
50202 GTTTGTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 18 0.67
34 6 0.22
35 3 0.11
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (33 bp):
GGTTATAGCTTAGCCCGTGAAAAACTAGGGAAA
Found at i:52283 original size:20 final size:20
Alignment explanation
Indices: 52258--52310 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
52248 AGTACTATAT
52258 TGTATGAACAATACCGATAC
1 TGTATGAACAATACCGATAC
* * * *
52278 TGTATGAATAGTACTGATAT
1 TGTATGAACAATACCGATAC
*
52298 TGTGTGAACAATA
1 TGTATGAACAATA
52311 ATGCACAGTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (20 bp):
TGTATGAACAATACCGATAC
Found at i:53689 original size:36 final size:36
Alignment explanation
Indices: 53649--53835 Score: 157
Period size: 36 Copynumber: 5.1 Consensus size: 36
53639 CGAATTAGAC
* *
53649 AAAATTTGTTTTAAGAGAAACTATCTCTAGTGAGAT
1 AAAATTTGTTTTAAGAAAAACTATCTCAAGTGAGAT
** * *
53685 AAAATTTTTGTTTGGAGAAAAATTATCTCAAGTGAGAC
1 AAAA--TTTGTTTTAAGAAAAACTATCTCAAGTGAGAT
* * *
53723 GAAATTTATTTTAA-AAAAACTATCTCAAATGAGAT
1 AAAATTTGTTTTAAGAAAAACTATCTCAAGTGAGAT
* *
53758 CAAATCGTTGTTTTGAG-AAAA-TAATCTCAAGTGAGACT
1 AAAAT--TTGTTTTAAGAAAAACT-ATCTCAAGTGAGA-T
* * * *
53796 -AAATTTGTTTTTATAAAAACTCTCTCAAGTGAGAC
1 AAAATTTGTTTTAAGAAAAACTATCTCAAGTGAGAT
53831 AAAAT
1 AAAAT
53836 CAGTGTTTCA
Statistics
Matches: 120, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
35 30 0.25
36 32 0.27
37 28 0.23
38 30 0.25
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.34
Consensus pattern (36 bp):
AAAATTTGTTTTAAGAAAAACTATCTCAAGTGAGAT
Found at i:53712 original size:38 final size:37
Alignment explanation
Indices: 53670--53835 Score: 119
Period size: 37 Copynumber: 4.5 Consensus size: 37
53660 TAAGAGAAAC
*
53670 TATCTCTAGTGAGATAAAATTTTTGTTTGGAGAAAAAT
1 TATCTCAAGTGAGATAAAATTTTTGTTT-GAGAAAAAT
** * * *
53708 TATCTCAAGTGAGACGAAATTTAT-TTT-AAAAAAAC
1 TATCTCAAGTGAGATAAAATTTTTGTTTGAGAAAAAT
* * **
53743 TATCTCAAATGAGATCAAATCGTTGTTTTGAG-AAAAT
1 TATCTCAAGTGAGATAAAATTTTTG-TTTGAGAAAAAT
* * *
53780 AATCTCAAGTGAGACT-AAATTTGTT-TTT-ATAAAAAC
1 TATCTCAAGTGAGA-TAAAATTT-TTGTTTGAGAAAAAT
* *
53816 TCTCTCAAGTGAGACAAAAT
1 TATCTCAAGTGAGATAAAAT
53836 CAGTGTTTCA
Statistics
Matches: 98, Mismatches: 23, Indels: 16
0.72 0.17 0.12
Matches are distributed among these distances:
35 25 0.26
36 23 0.23
37 26 0.27
38 24 0.24
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (37 bp):
TATCTCAAGTGAGATAAAATTTTTGTTTGAGAAAAAT
Found at i:53836 original size:73 final size:74
Alignment explanation
Indices: 53645--53836 Score: 221
Period size: 73 Copynumber: 2.6 Consensus size: 74
53635 GCCTCGAATT
* * * ** *
53645 AGACAAAATTTG-TTTTAAGAGAAACTATCTCTAGTGAGATAAAATTTTTGTTTGGAGAAAAATT
1 AGACAAAATTTGTTTTTAA-AAAAACTATCTCAAGTGAGACAAAATCGTTGTTTGGAGAAAAATA
53709 ATCTCAAGTG
65 ATCTCAAGTG
* * * *
53719 AGACGAAATTT-ATTTTAAAAAAACTATCTCAAATGAGATC-AAATCGTTGTTTTGAG-AAAATA
1 AGACAAAATTTGTTTTTAAAAAAACTATCTCAAGTGAGA-CAAAATCGTTGTTTGGAGAAAAATA
53781 ATCTCAAGTG
65 ATCTCAAGTG
* * *
53791 AGACTAAATTTGTTTTTATAAAAACTCTCTCAAGTGAGACAAAATC
1 AGACAAAATTTGTTTTTAAAAAAACTATCTCAAGTGAGACAAAATC
53837 AGTGTTTCAA
Statistics
Matches: 100, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
72 26 0.26
73 58 0.58
74 16 0.16
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (74 bp):
AGACAAAATTTGTTTTTAAAAAAACTATCTCAAGTGAGACAAAATCGTTGTTTGGAGAAAAATAA
TCTCAAGTG
Found at i:54292 original size:37 final size:38
Alignment explanation
Indices: 54214--54307 Score: 118
Period size: 37 Copynumber: 2.5 Consensus size: 38
54204 ATTTTATGGA
* ** *
54214 AAACTATCTCAAGTGAGATAAACTTTTTGTTTTGAGGG
1 AAACTATCTCAAGTGAGATAAACATTTTGTTTCAAGAG
*
54252 AAACTATATCAAGTGAGATAAA-ATTTTGTTTCAAGAG
1 AAACTATCTCAAGTGAGATAAACATTTTGTTTCAAGAG
* *
54289 AAACCATCTTAAGTGAGAT
1 AAACTATCTCAAGTGAGAT
54308 TTTGTTTTGA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 27 0.56
38 21 0.44
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (38 bp):
AAACTATCTCAAGTGAGATAAACATTTTGTTTCAAGAG
Found at i:59725 original size:163 final size:163
Alignment explanation
Indices: 59501--59902 Score: 556
Period size: 163 Copynumber: 2.5 Consensus size: 163
59491 TCTGAGCTCT
* * * ** *
59501 AAGTTCTTCTCATTATGAAGTCTTC-ACTCTTCTGTTCGGACGAGTTCTTCTTATTATGAACCCT
1 AAGTTCTTCTCATTATGAA--CTTCTTCTCCT-TATTCGGATAAGTTCTTCTCATTATGAACCCT
** *
59565 TCCATT-GAAATATTGATCCACATTCTTCTATGATGAAATCAAAAAAAAATGTTGACGTTGATCT
63 TCCATTGGAAATATTGATCCACATTCTGATATGATGAAATC-AAAAAAAATGTTGACGCTGATCT
*
59629 ACCTCCTTCTATGATAGAATCAAACAAAAGGGTGAAC
127 ACCTCATTCTATGATAGAATCAAACAAAAGGGTGAAC
*
59666 AAGTTCTTCTCATTATGAACTTCTTCTCCTTATTCGGATAAGTTCTTCTCATTATGAACCCCTCC
1 AAGTTCTTCTCATTATGAACTTCTTCTCCTTATTCGGATAAGTTCTTCTCATTATGAACCCTTCC
* * * * * * *
59731 ATTGGAAATGTTGATCCATATTCTGATGTGATGGAATCGAACATAATGTTGACGCTGATCTACCT
66 ATTGGAAATATTGATCCACATTCTGATATGATGAAATCAAAAAAAATGTTGACGCTGATCTACCT
59796 CATTCTATGATAGAATCAAACAAAAGGGTGAAC
131 CATTCTATGATAGAATCAAACAAAAGGGTGAAC
* * * *
59829 AAGTTCTTCTCATTATGAACTTCTTCTCCCTCTTCGGATAAGTTCTTTTCATTATAAACCCTTCC
1 AAGTTCTTCTCATTATGAACTTCTTCTCCTTATTCGGATAAGTTCTTCTCATTATGAACCCTTCC
59894 ATTGGAAAT
66 ATTGGAAAT
59903 TACGATTCAC
Statistics
Matches: 212, Mismatches: 23, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
163 161 0.76
164 32 0.15
165 19 0.09
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (163 bp):
AAGTTCTTCTCATTATGAACTTCTTCTCCTTATTCGGATAAGTTCTTCTCATTATGAACCCTTCC
ATTGGAAATATTGATCCACATTCTGATATGATGAAATCAAAAAAAATGTTGACGCTGATCTACCT
CATTCTATGATAGAATCAAACAAAAGGGTGAAC
Found at i:62095 original size:71 final size:71
Alignment explanation
Indices: 61975--62179 Score: 259
Period size: 71 Copynumber: 2.9 Consensus size: 71
61965 TAAATATAAA
* * * * **
61975 TGTGTCGAACTTCAACTAGA-TATGACTGCTAGCTGATTCATTAAATGTTTCTTTTATCATGGAC
1 TGTGTCCAACTTCAACTGGACT-TGACTGCTAGCTGATTTACTATTTGTTTCTTTTATCATGGAC
62039 CATTAAC
65 CATTAAC
* *
62046 TGTGTCCAACTTCAACTGGACTTGACTGCTAGCTGATTTACTATTTGTTTCTTTTAACATGGAGC
1 TGTGTCCAACTTCAACTGGACTTGACTGCTAGCTGATTTACTATTTGTTTCTTTTATCATGGACC
62111 ATTAAC
66 ATTAAC
* * ** * * *
62117 TATGTCTAACTTCAGTTGGACTTAACTGCTTGCTGATTTACTATTTGTTTATTTTATCATGGA
1 TGTGTCCAACTTCAACTGGACTTGACTGCTAGCTGATTTACTATTTGTTTCTTTTATCATGGA
62180 GCATACCGAT
Statistics
Matches: 117, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
71 116 0.99
72 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (71 bp):
TGTGTCCAACTTCAACTGGACTTGACTGCTAGCTGATTTACTATTTGTTTCTTTTATCATGGACC
ATTAAC
Found at i:66838 original size:15 final size:15
Alignment explanation
Indices: 66818--66851 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
66808 AATTATACCA
*
66818 ATTATTAATTGTAAC
1 ATTATTAACTGTAAC
*
66833 ATTATTAACTGTCAC
1 ATTATTAACTGTAAC
66848 ATTA
1 ATTA
66852 GTACTTTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (15 bp):
ATTATTAACTGTAAC
Found at i:76409 original size:23 final size:23
Alignment explanation
Indices: 76381--76433 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
76371 TTTTTTGTTA
76381 AAATAATTTAACTGTATTAAT-AT
1 AAATAATTTAA-TGTATTAATAAT
*
76404 AAATAATTTAATTTATTAATAAT
1 AAATAATTTAATGTATTAATAAT
76427 AAA-AATT
1 AAATAATT
76434 AATTGATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATAATTTAATGTATTAATAAT
Found at i:77413 original size:12 final size:12
Alignment explanation
Indices: 77387--77457 Score: 69
Period size: 10 Copynumber: 6.0 Consensus size: 12
77377 TTAAATTTGT
* *
77387 TATTATTTTAAA
1 TATTATATTATA
77399 TATTATATTATA
1 TATTATATTATA
77411 TA-TATA-TATA
1 TATTATATTATA
77421 TA-TATA-TATA
1 TATTATATTATA
77431 TATATATATATATA
1 TAT-TATAT-TATA
77445 TATTATAGTTATA
1 TATTATA-TTATA
77458 GTTATAGTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
10 16 0.31
11 4 0.08
12 16 0.31
13 8 0.15
14 8 0.15
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (12 bp):
TATTATATTATA
Found at i:77414 original size:2 final size:2
Alignment explanation
Indices: 77398--77451 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
77388 ATTATTTTAA
77398 AT AT -T AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77438 AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT A
77452 GTTATAGTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 3 0.06
2 46 0.94
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:77462 original size:12 final size:11
Alignment explanation
Indices: 77398--77469 Score: 53
Period size: 12 Copynumber: 6.3 Consensus size: 11
77388 ATTATTTTAA
77398 ATATTATA-TT
1 ATATTATAGTT
77408 ATATATATA-TAT
1 ATAT-TATAGT-T
77420 ATATATATA-TAT
1 ATAT-TATAGT-T
77432 ATATATATA-TAT
1 ATAT-TATAGT-T
77444 ATATTATAGTT
1 ATATTATAGTT
77455 ATAGTTATAGTT
1 ATA-TTATAGTT
77467 ATA
1 ATA
77470 AACCATTAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.07
11 13 0.22
12 41 0.71
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (11 bp):
ATATTATAGTT
Found at i:77827 original size:118 final size:118
Alignment explanation
Indices: 77685--77923 Score: 460
Period size: 118 Copynumber: 2.0 Consensus size: 118
77675 GTCACTATTC
*
77685 AATTGGGTGCAAAATAAACTAAATTAAAATTAATGAAATATATTCCACTCTGATAGTGACACGTG
1 AATTGGGTGCAAAATAAAATAAATTAAAATTAATGAAATATATTCCACTCTGATAGTGACACGTG
*
77750 TCACAATTTAATTGGATGTTAAATTTATTAAATTAAAATTATGACTAAATTGA
66 TCACAATTTAATTGGACGTTAAATTTATTAAATTAAAATTATGACTAAATTGA
77803 AATTGGGTGCAAAATAAAATAAATTAAAATTAATGAAATATATTCCACTCTGATAGTGACACGTG
1 AATTGGGTGCAAAATAAAATAAATTAAAATTAATGAAATATATTCCACTCTGATAGTGACACGTG
77868 TCACAATTTAATTGGACGTTAAATTTATTAAATTAAAATTATGACTAAATTGA
66 TCACAATTTAATTGGACGTTAAATTTATTAAATTAAAATTATGACTAAATTGA
77921 AAT
1 AAT
77924 AATGTACAAA
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (118 bp):
AATTGGGTGCAAAATAAAATAAATTAAAATTAATGAAATATATTCCACTCTGATAGTGACACGTG
TCACAATTTAATTGGACGTTAAATTTATTAAATTAAAATTATGACTAAATTGA
Found at i:82901 original size:22 final size:22
Alignment explanation
Indices: 82876--82938 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 22
82866 ATTAGCTATA
82876 CATATTAAACTAATGACTAAAT
1 CATATTAAACTAATGACTAAAT
82898 CATATTAAATAAACTAATGACTAAAT
1 CATA-T---TAAACTAATGACTAAAT
82924 CATATTAAACATAAT
1 CATATTAAAC-TAAT
82939 TTTAGTATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
22 9 0.25
23 5 0.14
25 1 0.03
26 21 0.58
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (22 bp):
CATATTAAACTAATGACTAAAT
Found at i:82910 original size:26 final size:26
Alignment explanation
Indices: 82881--82932 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
82871 CTATACATAT
82881 TAAACTAATGACTAAATCATATTAAA
1 TAAACTAATGACTAAATCATATTAAA
82907 TAAACTAATGACTAAATCATATTAAA
1 TAAACTAATGACTAAATCATATTAAA
82933 CATAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (26 bp):
TAAACTAATGACTAAATCATATTAAA
Found at i:85355 original size:16 final size:16
Alignment explanation
Indices: 85330--85360 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85320 GTTTGGGCTT
85330 GTGTAAGATGTAAAGA
1 GTGTAAGATGTAAAGA
*
85346 GTGTATGATGTAAAG
1 GTGTAAGATGTAAAG
85361 GGACTCTAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (16 bp):
GTGTAAGATGTAAAGA
Found at i:86117 original size:41 final size:42
Alignment explanation
Indices: 86072--86152 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
86062 AGGTCTCATG
* *
86072 AATGACTCGAAGGACTT-ATCATCTTGCCCGAAAGACTTAAA
1 AATGACTCGAAGGACTTCATCATCATGCACGAAAGACTTAAA
* * *
86113 AATGACTTGAAGGATTTCATCATCATGCACGAAATACTTA
1 AATGACTCGAAGGACTTCATCATCATGCACGAAAGACTTA
86153 CTGATGGAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 15 0.44
42 19 0.56
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (42 bp):
AATGACTCGAAGGACTTCATCATCATGCACGAAAGACTTAAA
Found at i:86166 original size:13 final size:13
Alignment explanation
Indices: 86148--86173 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86138 TGCACGAAAT
86148 ACTTACTGATGGA
1 ACTTACTGATGGA
86161 ACTTACTGATGGA
1 ACTTACTGATGGA
86174 TTTGCTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
ACTTACTGATGGA
Found at i:86271 original size:36 final size:36
Alignment explanation
Indices: 86175--86272 Score: 151
Period size: 36 Copynumber: 2.7 Consensus size: 36
86165 ACTGATGGAT
* * *
86175 TTGCTTTATTACTCTTCCGTGAAGACTTAAGATTGA
1 TTGCTTCATTACTCTTCAGTGAAGGCTTAAGATTGA
*
86211 TTGCTTCATTACTCTTCGGTGAAGGCTTAAGATTGA
1 TTGCTTCATTACTCTTCAGTGAAGGCTTAAGATTGA
*
86247 TTGCTTCACTACTCTTCAGTGAAGGC
1 TTGCTTCATTACTCTTCAGTGAAGGC
86273 ATGGAAGGCC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (36 bp):
TTGCTTCATTACTCTTCAGTGAAGGCTTAAGATTGA
Found at i:86357 original size:42 final size:41
Alignment explanation
Indices: 86281--86377 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
86271 GCATGGAAGG
* *
86281 CCCGAAGGACTTATCATCTTACTCAAAAGGCTTACAGATGA
1 CCCGAAGGACTTATCATCATACTCAAAAGACTTACAGATGA
* * * * *
86322 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGACTT-ATCATCATACTCAAAAGACTTACAGATGA
*
86364 CTCGAAGGACTTAT
1 CCCGAAGGACTTAT
86378 AAATTTTGGA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
41 13 0.28
42 33 0.72
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (41 bp):
CCCGAAGGACTTATCATCATACTCAAAAGACTTACAGATGA
Found at i:86790 original size:225 final size:226
Alignment explanation
Indices: 86433--86899 Score: 593
Period size: 225 Copynumber: 2.0 Consensus size: 226
86423 GAAAACATCG
** * * * *
86433 CTTTCTCATTTTTCAAATTCATGTGAAAACATCCTACCCGAATGTCTTATGGATGGCCTGAAGGA
1 CTTTCTCATTTTTCAAAGACATGTGAAAACATCCTACCCAAAGGTCTTATGGATGGCCCGAAGAA
* * *
86498 CTTAGCATCTTGCTCGAAAGTCTTACAGATGACCCGAAGGGTTTAAGCAGCATGCTCAAATGACT
66 CTTAGCATATTGCTCGAAAGGCTTACAGATGACCCGAAGGATTTAAGCAGCATGCTCAAATGACT
* ** * ** * * *
86563 TACTGATGTCCTGAAGGACTTATAAATTTTGGAAATAGTTTACTAAGTAAGAAACTTTTTTTACT
131 TACTGATGGCCCAAAGGACTTACAAATTTCAGAAATAATTTACTAAGTAAGAAACCTTTCTTA-T
86628 TTTC-AAA-TC-TTCAGATTTTAATGAGAAAT
195 TTTCAAAATTCATTCAGATTTTAATGAGAAAT
* *
86657 CTTTCTCATTTTTTAATAGACATGTGAAAACATCCTTCCCAAAGGTCTTATGGATGGCCCGAAGA
1 CTTTCTCATTTTTCAA-AGACATGTGAAAACATCCTACCCAAAGGTCTTATGGATGGCCCGAAGA
* *
86722 ACTTATCATATTGCTCGAAAGGCTTACAGATGACCC-AGAGGATTTAAGCATCATGCTCGAAA-G
65 ACTTAGCATATTGCTCGAAAGGCTTACAGATGACCCGA-AGGATTTAAGCAGCATGCTC-AAATG
** *
86785 ACTTACTGATGGCCCAAAGGACTTACCGATTTCAGAAATAATTTACTAGGTAAGAAACCTTTCTT
128 ACTTACTGATGGCCCAAAGGACTTACAAATTTCAGAAATAATTTACTAAGTAAGAAACCTTTCTT
86850 ATTTTCAAAATTCTCAAATTTCAGATTTTAATGAGAAAT
193 ATTTTCAAAA-T-TC--A-TTCAGATTTTAATGAGAAAT
86889 CTTTCTCATTT
1 CTTTCTCATTT
86900 CATTTCATAA
Statistics
Matches: 207, Mismatches: 25, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
224 21 0.10
225 150 0.72
226 3 0.01
228 2 0.01
232 31 0.15
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (226 bp):
CTTTCTCATTTTTCAAAGACATGTGAAAACATCCTACCCAAAGGTCTTATGGATGGCCCGAAGAA
CTTAGCATATTGCTCGAAAGGCTTACAGATGACCCGAAGGATTTAAGCAGCATGCTCAAATGACT
TACTGATGGCCCAAAGGACTTACAAATTTCAGAAATAATTTACTAAGTAAGAAACCTTTCTTATT
TTCAAAATTCATTCAGATTTTAATGAGAAAT
Found at i:100408 original size:27 final size:26
Alignment explanation
Indices: 100370--100424 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
100360 TTATGAGATA
100370 ATTTTATATTTT-AAGTAGCGTACTTTT
1 ATTTTATATTTTCAA-TA-CGTACTTTT
*
100397 ATTTTACT-TTTTCAATATGTACTTTT
1 ATTTTA-TATTTTCAATACGTACTTTT
100423 AT
1 AT
100425 AAAACATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 10 0.40
27 12 0.48
28 3 0.12
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.58
Consensus pattern (26 bp):
ATTTTATATTTTCAATACGTACTTTT
Found at i:103622 original size:20 final size:20
Alignment explanation
Indices: 103597--103650 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
103587 GACCAACAAA
103597 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
103617 TTCGCAAC-CCAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
103637 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
103651 ATGTAAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:103806 original size:22 final size:22
Alignment explanation
Indices: 103781--103831 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
103771 CTACGGTGAC
103781 ATCCGTCCCCATCTCCGACAAA
1 ATCCGTCCCCATCTCCGACAAA
*
103803 ATCCGTCCCCATTTCCGACAAA
1 ATCCGTCCCCATCTCCGACAAA
103825 ATCCGTC
1 ATCCGTC
103832 TATCTCCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.43, G:0.10, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACAAA
Found at i:104153 original size:20 final size:20
Alignment explanation
Indices: 104115--104153 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
104105 AATAAAATCA
* * *
104115 CGTTGCGATTTTCATTTTCG
1 CGTTGCGAATTTAAGTTTCG
104135 CGTTGCGAATTTAAGTTTC
1 CGTTGCGAATTTAAGTTTC
104154 AAAAACTTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.18, G:0.21, T:0.46
Consensus pattern (20 bp):
CGTTGCGAATTTAAGTTTCG
Found at i:106126 original size:4 final size:4
Alignment explanation
Indices: 106117--106152 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
106107 TTTTTCGGCA
106117 TTAT TTAT TTAT TTAT TTAT TTAT ATTAAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT -TT-AT TTAT TT
106153 TCAGCGACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 24 0.80
5 4 0.13
6 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:107835 original size:61 final size:64
Alignment explanation
Indices: 107762--107902 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 64
107752 TTTTACATTG
107762 AAAGTTGATTTGTTACAATTGATGAGGAAATAAG-A-T-TTATTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTA-AATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTA
* * ** * * *
107823 AAAGCTGATTTGTTTAATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTG-TTAAATTGATGAGGAAATAAGAATTATTATTTT-CTTGATTAATTGATTTGT
107888 A
64 A
107889 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
107903 GTTTCTAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
61 25 0.38
62 4 0.06
63 1 0.02
64 6 0.09
65 2 0.03
66 28 0.42
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (64 bp):
AAAGTTGATTTGTTAAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTA
Found at i:108236 original size:39 final size:39
Alignment explanation
Indices: 108182--108265 Score: 150
Period size: 39 Copynumber: 2.2 Consensus size: 39
108172 TCAAGTTGTA
*
108182 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTAATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
108221 GATTTTAATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTAATTTCCTTTTGCTTGGCACCATATGAGATTTG
108260 GATTTT
1 GATTTT
108266 GATGAGCATC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.18, C:0.15, G:0.19, T:0.48
Consensus pattern (39 bp):
GATTTTAATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:108562 original size:18 final size:18
Alignment explanation
Indices: 108539--108574 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
108529 CGAAATTTAT
108539 TTGAAATTCAAACTCAAA
1 TTGAAATTCAAACTCAAA
* *
108557 TTGAAATTTAAATTCAAA
1 TTGAAATTCAAACTCAAA
108575 CTCCAATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
TTGAAATTCAAACTCAAA
Found at i:109109 original size:12 final size:12
Alignment explanation
Indices: 109094--109118 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
109084 TTCTTGGGGA
109094 CTTTTTCTTCTT
1 CTTTTTCTTCTT
109106 CTTTTTCTTCTT
1 CTTTTTCTTCTT
109118 C
1 C
109119 AGGGTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:109320 original size:24 final size:24
Alignment explanation
Indices: 109293--109346 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
109283 CCATCACATA
*
109293 ATCAAAATCCGAGTATTGATCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
109317 ATCAAAGTTCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
109341 ATCAAA
1 ATCAAA
109347 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:109351 original size:24 final size:24
Alignment explanation
Indices: 109305--109351 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
109295 CAAAATCCGA
*
109305 GTATTGATCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
109329 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
109352 AATACTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:109360 original size:24 final size:24
Alignment explanation
Indices: 109313--109360 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
109303 GAGTATTGAT
** *
109313 CAAGATCAAAGTTCGGGTATTGAC
1 CAAGATCAAAGTTCGAATACTGAC
*
109337 CAAGATCAAATTTCGAATACTGAC
1 CAAGATCAAAGTTCGAATACTGAC
109361 TAGTACTCAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
CAAGATCAAAGTTCGAATACTGAC
Found at i:110263 original size:19 final size:19
Alignment explanation
Indices: 110239--110307 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
110229 GCTAAAACCT
*
110239 GTTGCGAAATTAAATTCGC
1 GTTGCGAATTTAAATTCGC
*
110258 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTT-AAATTCGC
* *
110277 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTAAAT-TCGC
110297 GTTGCGAATTT
1 GTTGCGAATTT
110308 GTAATATCGC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.05
19 23 0.55
20 17 0.40
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (19 bp):
GTTGCGAATTTAAATTCGC
Found at i:110407 original size:19 final size:18
Alignment explanation
Indices: 110355--110426 Score: 56
Period size: 19 Copynumber: 3.8 Consensus size: 18
110345 ATTTACATAT
110355 TCGCGTTGCGAAATTGGAA
1 TCGCGTTGCG-AATTGGAA
* *
110374 ACTG-GTTGCAAAATTGGAA
1 TC-GCGTTGC-GAATTGGAA
*
110393 TTCGCGTTGCGAATTTGAGA
1 -TCGCGTTGCGAATTGGA-A
*
110413 TCGAGTTGCGAATT
1 TCGCGTTGCGAATT
110427 TGTTGGTCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
19 34 0.81
20 8 0.19
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (18 bp):
TCGCGTTGCGAATTGGAA
Found at i:120715 original size:31 final size:31
Alignment explanation
Indices: 120680--120767 Score: 176
Period size: 31 Copynumber: 2.8 Consensus size: 31
120670 ATTGTATTAA
120680 TACTTAAACTATCAATTTTGATATATTTTAG
1 TACTTAAACTATCAATTTTGATATATTTTAG
120711 TACTTAAACTATCAATTTTGATATATTTTAG
1 TACTTAAACTATCAATTTTGATATATTTTAG
120742 TACTTAAACTATCAATTTTGATATAT
1 TACTTAAACTATCAATTTTGATATAT
120768 GGTTTTAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (31 bp):
TACTTAAACTATCAATTTTGATATATTTTAG
Found at i:121046 original size:42 final size:42
Alignment explanation
Indices: 120987--121070 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
120977 ATTGAACAAA
*
120987 GATTAAGGAATACCCAAGCTGAACATAGCATCTAAGGAAGCC
1 GATTAAGGAATACCCAAGCTCAACATAGCATCTAAGGAAGCC
121029 GATTAAGGAATACCCAAGCTCAACATAGCATCTAAGGAAGCC
1 GATTAAGGAATACCCAAGCTCAACATAGCATCTAAGGAAGCC
121071 AACCAACCTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (42 bp):
GATTAAGGAATACCCAAGCTCAACATAGCATCTAAGGAAGCC
Found at i:123331 original size:29 final size:30
Alignment explanation
Indices: 123284--123348 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 30
123274 ATTTGGATAT
123284 GAATTTAATCAAAATTTCAATTTAGTCCTC
1 GAATTTAATCAAAATTTCAATTTAGTCCTC
* *
123314 GAATTTAGTCAAAA-TTCAATTTAGTCTTC
1 GAATTTAATCAAAATTTCAATTTAGTCCTC
123343 GAATTT
1 GAATTT
123349 TTTTCTGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (30 bp):
GAATTTAATCAAAATTTCAATTTAGTCCTC
Found at i:124974 original size:17 final size:18
Alignment explanation
Indices: 124930--124983 Score: 74
Period size: 19 Copynumber: 3.0 Consensus size: 18
124920 AAATCAATTT
124930 AAATATAATAAAAATATTA
1 AAATATAATAAAAATA-TA
*
124949 AAATATAATAAAAATA-G
1 AAATATAATAAAAATATA
*
124966 AATTATAATAAAAATATA
1 AAATATAATAAAAATATA
124984 TTCTATATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.48
19 16 0.52
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
AAATATAATAAAAATATA
Found at i:126720 original size:257 final size:253
Alignment explanation
Indices: 126266--126784 Score: 878
Period size: 257 Copynumber: 2.0 Consensus size: 253
126256 ATAAATATAC
*
126266 ATAAATAAAAAAGTGAACATAATAAAAAAAAAATTACAAGTACTTAAAAATTTAAAGAAAGAACC
1 ATAAATAAAAAAGTGAACATAATAAAAAAAAAATTACAAGTAATTAAAAATTTAAAGAAAGAACC
*
126331 AACAATCAGTTGGTCTAGTGGGATGAGATACTAGGTCCCTTAAATAAGGTTAGAGGTTTAAATCC
66 AACAACCAGTTGGTCTAGTGGGATGAGATACTAGGTCCCTTAAATAAGGTTAGAGGTTTAAATCC
*
126396 TGGCGTTTGTGAATGGAGCAAACCGAGTTAGGAGGGTCACCTTTGCCTCTGCAGTACCCAATCTG
131 TGGCGTTTGTGAATGGAGCAAACCGAGTTAGGAGGGTCACCCTTGCCTCTGCAGTACCCAATCTG
* *
126461 GATTAGTCGGTCAATAGATCGAATATCGATGATTAATTCAAAAAAATTAAAGAAAGAA
196 GATTAGTCGGTCAATAGAACGAATACCGATGATTAATTCAAAAAAATTAAAGAAAGAA
*
126519 ATAAATAAAAAGGTGAACATAATAAAAAAGAACAAAATTACAAGTAATTAAAAATTTAAAGAAAG
1 ATAAATAAAAAAGTGAACATAAT--AAAA-AA-AAAATTACAAGTAATTAAAAATTTAAAGAAAG
*
126584 AACCAACAACCAGTTGGTCTAGTGGGATGAGATACTAGGTCCTTTAAATAAGGTTAGAGGTTTAA
62 AACCAACAACCAGTTGGTCTAGTGGGATGAGATACTAGGTCCCTTAAATAAGGTTAGAGGTTTAA
* * * *
126649 ATCCTGGCGTTTGTGAATGGAGCAAACTGAGTTGGGAGGGTCACCCTTGCCTCTGTAGTACCCAT
127 ATCCTGGCGTTTGTGAATGGAGCAAACCGAGTTAGGAGGGTCACCCTTGCCTCTGCAGTACCCAA
*
126714 TCTGGATTAGTCGGTCAATAGAACGAATACCGGTGATTAATTCAAAAAAATTAAAGAAAGAA
192 TCTGGATTAGTCGGTCAATAGAACGAATACCGATGATTAATTCAAAAAAATTAAAGAAAGAA
*
126776 A-GAATAAAA
1 ATAAATAAAA
126785 CTCAAACTCA
Statistics
Matches: 249, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
253 22 0.09
255 4 0.02
256 9 0.04
257 214 0.86
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (253 bp):
ATAAATAAAAAAGTGAACATAATAAAAAAAAAATTACAAGTAATTAAAAATTTAAAGAAAGAACC
AACAACCAGTTGGTCTAGTGGGATGAGATACTAGGTCCCTTAAATAAGGTTAGAGGTTTAAATCC
TGGCGTTTGTGAATGGAGCAAACCGAGTTAGGAGGGTCACCCTTGCCTCTGCAGTACCCAATCTG
GATTAGTCGGTCAATAGAACGAATACCGATGATTAATTCAAAAAAATTAAAGAAAGAA
Found at i:127443 original size:18 final size:19
Alignment explanation
Indices: 127422--127461 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
127412 TGAAAAAAAT
*
127422 AAAATGAAATAAA-AGAAA
1 AAAATAAAATAAATAGAAA
127440 AAAATAAAATAAATAGAAA
1 AAAATAAAATAAATAGAAA
127459 AAA
1 AAA
127462 TTACCTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAATAAAATAAATAGAAA
Found at i:129773 original size:132 final size:131
Alignment explanation
Indices: 129581--130003 Score: 301
Period size: 132 Copynumber: 3.2 Consensus size: 131
129571 ATACCTTTCT
* *
129581 TCATGAAGTT-AAAATTGACTCAAAAACCTTGACTATAAAATAGCTCCTCATTGTTAAGTTAAT-
1 TCATGAAGTTGAAATTTGACT-AAAAA-CTTGACTATAAAATAGCTCCTCATTATTAAGTT-ATG
* ** * * *
129644 CTAAATTTAC-TGACGACTCCTT-CATTGAGATTTATGTCGATTTTGGGTGTTTTTTAG-CCTAA
63 CTAAA-TTACAT-ACGACT-CTTCCATTGAGAGTTAAATCAATATT-GGTGTTCTTTAGTCC-AA
129706 TAT-ATTTA
123 TATCATTTA
* * ** *
129714 TCGTGAAGTTGAAATTTGACTAAAAACTTGACT-TGAAAATATCTCCTTGTTATTGAGTTATGCT
1 TCATGAAGTTGAAATTTGACTAAAAACTTGACTAT-AAAATAGCTCCTCATTATTAAGTTATGCT
* * * *
129778 AAATTGCATACGACTCTTCCATTGCGAGTTAAATTAATATTGGTGTTCTTTAGTCCAATATCTTT
65 AAATTACATACGACTCTTCCATTGAGAGTTAAATCAATATTGGTGTTCTTTAGTCCAATATCATT
129843 TA
130 TA
*
129845 TCATGAAGTTGAAATTTGACTAAAAACATTGGA-TA-AAGAATAGCT-C-CATGTCATTGAGTTA
1 TCATGAAGTTGAAATTTGACTAAAAAC-TT-GACTATAA-AATAGCTCCTCAT-T-ATTAAGTTA
* * **** * * * * *** * * * *
129906 AGGTAAATTGTGGATGACTCCTCCATTGCGAGTTAAATCGAATCTAAATATCCTTCGAGTTCAAT
61 TGCTAAATTACATACGACTCTTCCATTGAGAGTTAAATC-AATATTGGTGTTCTT-TAGTCCAAT
*
129971 ATCATTTG
124 ATCATTTA
129979 TCATGAAGTTGAAATTTGACTAAAA
1 TCATGAAGTTGAAATTTGACTAAAA
130004 TCTGTAAAAT
Statistics
Matches: 236, Mismatches: 39, Indels: 29
0.78 0.13 0.10
Matches are distributed among these distances:
130 20 0.08
131 63 0.27
132 81 0.34
133 25 0.11
134 47 0.20
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (131 bp):
TCATGAAGTTGAAATTTGACTAAAAACTTGACTATAAAATAGCTCCTCATTATTAAGTTATGCTA
AATTACATACGACTCTTCCATTGAGAGTTAAATCAATATTGGTGTTCTTTAGTCCAATATCATTT
A
Found at i:130458 original size:32 final size:32
Alignment explanation
Indices: 130415--130503 Score: 90
Period size: 35 Copynumber: 2.7 Consensus size: 32
130405 AATTTTTAAA
130415 GGAAAACTATCTCAAGTGAGATTTTATTCGA-
1 GGAAAACTATCTCAAGTGAGATTTTATTCGAT
* * * **
130446 GAGAAAATTATCTCCAATGTGATGAATTTGTTTTAT
1 G-GAAAACTATCT-CAA-GTGA-GATTTTATTCGAT
130482 GGAAAACTATCTCAAGTGAGAT
1 GGAAAACTATCTCAAGTGAGAT
130504 AAAATTTTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
31 1 0.02
32 12 0.26
33 7 0.15
34 7 0.15
35 18 0.39
36 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (32 bp):
GGAAAACTATCTCAAGTGAGATTTTATTCGAT
Found at i:130527 original size:38 final size:37
Alignment explanation
Indices: 130472--130553 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 37
130462 ATGTGATGAA
*
130472 TTTGTTTTATGGAAAACTATCTCAAGTGAGATAAAATT
1 TTTGTTTTATGGAAAACTATATCAAGTGAGATAAAA-T
* * *
130510 TTTGTTTTGA-GGGAAACTATATCGAGTGCGATAAAAT
1 TTTGTTTT-ATGGAAAACTATATCAAGTGAGATAAAAT
130547 TTTGTTT
1 TTTGTTT
130554 CAAGAGAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
37 8 0.21
38 30 0.77
39 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (37 bp):
TTTGTTTTATGGAAAACTATATCAAGTGAGATAAAAT
Found at i:130563 original size:37 final size:38
Alignment explanation
Indices: 130485--130563 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
130475 GTTTTATGGA
* ** *
130485 AAACTATCTCAAGTGAGATAAAATTTTTGTTTTGAGGG
1 AAACTATATCAAGTGAGATAAAATTTTTGTTTCAAGAG
* *
130523 AAACTATATCGAGTGCGATAAAA-TTTTGTTTCAAGAG
1 AAACTATATCAAGTGAGATAAAATTTTTGTTTCAAGAG
130560 AAAC
1 AAAC
130564 CATCTTAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
37 15 0.43
38 20 0.57
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (38 bp):
AAACTATATCAAGTGAGATAAAATTTTTGTTTCAAGAG
Found at i:133518 original size:21 final size:22
Alignment explanation
Indices: 133489--133529 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
133479 TTGCAGAATA
133489 CAAAGATGCAAAGATACAAACG
1 CAAAGATGCAAAGATACAAACG
*
133511 CAAA-ATGCAAAGATGCAAA
1 CAAAGATGCAAAGATACAAA
133530 TGCATGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.56, C:0.17, G:0.17, T:0.10
Consensus pattern (22 bp):
CAAAGATGCAAAGATACAAACG
Found at i:135316 original size:25 final size:25
Alignment explanation
Indices: 135288--135337 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
135278 TAATAAAAAA
135288 GAAC-AAATTACAAGAAA-TTAAAATT
1 GAACAAAATT-CAA-AAACTTAAAATT
135313 GAACAAAATTCAAAAACTTAAAATT
1 GAACAAAATTCAAAAACTTAAAATT
135338 TTAAAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 3 0.13
25 15 0.65
26 5 0.22
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.24
Consensus pattern (25 bp):
GAACAAAATTCAAAAACTTAAAATT
Found at i:136977 original size:16 final size:17
Alignment explanation
Indices: 136939--136977 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
136929 CAAATTACAA
*
136939 CTCTTTGGGTGATTTTT
1 CTCTTTGGATGATTTTT
*
136956 CACTTTGGATGATTTTT
1 CTCTTTGGATGATTTTT
136973 -TCTTT
1 CTCTTT
136978 CCATTTTCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.10, C:0.13, G:0.18, T:0.59
Consensus pattern (17 bp):
CTCTTTGGATGATTTTT
Found at i:144460 original size:29 final size:30
Alignment explanation
Indices: 144416--144472 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
144406 AACATAATAG
* *
144416 GACAAAAGGGAATCAAGTTAGTAAAAATCA
1 GACAAAAGAGAATCAAGTCAGTAAAAATCA
*
144446 GACAAAA-AGAATCAAGTCAGTTAAAAT
1 GACAAAAGAGAATCAAGTCAGTAAAAAT
144473 GATTATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.54, C:0.11, G:0.18, T:0.18
Consensus pattern (30 bp):
GACAAAAGAGAATCAAGTCAGTAAAAATCA
Found at i:146297 original size:4 final size:4
Alignment explanation
Indices: 146288--147759 Score: 2772
Period size: 4 Copynumber: 373.5 Consensus size: 4
146278 CAAAATAAGG
146288 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146336 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146384 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146432 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146480 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146528 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146576 TATC TATC TATC TATC TATC TATC TA-- TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146622 TATC TATC TATC TATC TATC TATC TATC TATC TA-- TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146668 TATC TATC TATC TA-- TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146714 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146762 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146810 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146858 TATC TATC TATC TATC TATC TATC TATC --TC TATC TATC TATC --TC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146902 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146950 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
146998 TATC TATC --TC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147044 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147092 --TC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147138 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147186 TATC --TC TATC TATC TATC TATC TATC TATC TATC TA-- TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147230 TATC TATC TATC TATC TATC TA-- TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147276 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147324 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147372 TATC TATC TATC TATC TATC TATC TATC TA-- TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147418 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147466 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147514 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147562 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147610 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147658 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
* *
147706 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATA AATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
147754 TATC TA
1 TATC TA
147760 AGTGCAATAA
Statistics
Matches: 1442, Mismatches: 4, Indels: 44
0.97 0.00 0.03
Matches are distributed among these distances:
2 22 0.02
4 1420 0.98
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TATC
Found at i:152744 original size:34 final size:34
Alignment explanation
Indices: 152697--152773 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 34
152687 CAAAGTGCAA
* * *
152697 AAAATAATAAAATAGT-AACTAATTATAACAAAT
1 AAAATAAAAAAATAGTGAACAAATTAAAACAAAT
*
152730 AAAATAGAAAAAATAGTGACCAAATTAAAACAAAT
1 AAAATA-AAAAAATAGTGAACAAATTAAAACAAAT
152765 GAAGAATAA
1 -AA-AATAA
152774 TGCCAAACCT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 6 0.17
34 9 0.25
35 14 0.39
36 3 0.08
37 4 0.11
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.21
Consensus pattern (34 bp):
AAAATAAAAAAATAGTGAACAAATTAAAACAAAT
Found at i:153992 original size:159 final size:159
Alignment explanation
Indices: 153713--154021 Score: 395
Period size: 159 Copynumber: 1.9 Consensus size: 159
153703 TGAGCTAAAG
* * * * * *
153713 TTGAACAAATTCTTCTTATTATGAACTTCTTCTCCCTCATCGGGTGGGTTATTCTCATTATGAAC
1 TTGAACAAATTATTCTCATTATGAACTTATTCTCCCTCATCAGATGAGTTATTCTCATTATGAAC
* * * * * *
153778 TCTCCACTGGAAATGTCGATCCACTTTCTTCTGTGATAGAATTGAACAGAGTGATGATGTTGATC
66 TATCCACTGGAAATGTCGATCCACTCTCTTATGTGATAGAATTGAAAAAAATGATGATGTTGATC
*
153843 CAACTCTATATGCGATGGATGAGCCAAGA
131 CAACTCCATATGCGATGGATGAGCCAAGA
* * * * *
153872 TTGAACAAGTTATTCTCATTCTGAACTTATTTTCCCTCATCAGATGAGTTCTTTTCATTATGAAC
1 TTGAACAAATTATTCTCATTATGAACTTATTCTCCCTCATCAGATGAGTTATTCTCATTATGAAC
* * *
153937 TATCCACTGGAAATGTTGCTCCAC-CTCTTTATGTGATGGAATTGAAAAAAATGATGATGTTGAT
66 TATCCACTGGAAATGTCGATCCACTCTC-TTATGTGATAGAATTGAAAAAAATGATGATGTTGAT
* *
154001 CCAACTCCATGTGTGATGGAT
130 CCAACTCCATATGCGATGGAT
154022 AAACAAAGTG
Statistics
Matches: 126, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
158 2 0.02
159 124 0.98
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (159 bp):
TTGAACAAATTATTCTCATTATGAACTTATTCTCCCTCATCAGATGAGTTATTCTCATTATGAAC
TATCCACTGGAAATGTCGATCCACTCTCTTATGTGATAGAATTGAAAAAAATGATGATGTTGATC
CAACTCCATATGCGATGGATGAGCCAAGA
Found at i:161271 original size:26 final size:26
Alignment explanation
Indices: 161235--161286 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
161225 ATGCAATCAG
161235 GAAACAAAGCGACAAGTTAGTAACAT
1 GAAACAAAGCGACAAGTTAGTAACAT
*
161261 GAAACAAAGCGACACGTTAGTAACAT
1 GAAACAAAGCGACAAGTTAGTAACAT
161287 TAGAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.15
Consensus pattern (26 bp):
GAAACAAAGCGACAAGTTAGTAACAT
Found at i:163245 original size:23 final size:24
Alignment explanation
Indices: 163219--163272 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
163209 AAACTATAAT
163219 AATAAACCCATT-AAATAACACTA
1 AATAAACCCATTAAAATAACACTA
163242 AATAAACCCATTAAAATAACACTA
1 AATAAACCCATTAAAATAACACTA
163266 AATAAAC
1 AATAAAC
163273 AAAAAAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 12 0.40
24 18 0.60
ACGTcount: A:0.59, C:0.20, G:0.00, T:0.20
Consensus pattern (24 bp):
AATAAACCCATTAAAATAACACTA
Found at i:164420 original size:2 final size:2
Alignment explanation
Indices: 164413--164474 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
164403 ACAAACGCCT
164413 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
164455 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
164475 ACCAAATTTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:165219 original size:19 final size:20
Alignment explanation
Indices: 165183--165231 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
165173 TACTTCCCAC
* * *
165183 TTTTTCTTTTTCTTTTATT-
1 TTTTTATTTTTATATTATTA
165202 TTTTTATTTTTATATTATTA
1 TTTTTATTTTTATATTATTA
*
165222 TTATTATTTT
1 TTTTTATTTT
165232 GGATAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTATTTTTATATTATTA
Found at i:168006 original size:23 final size:23
Alignment explanation
Indices: 167962--168006 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
167952 TTTTTGCGTT
* *
167962 AATTTATTTATTTTTACTTTTAA
1 AATTTATTTATTTTCAATTTTAA
167985 AATTTATTT-TTTTCAATATTTA
1 AATTTATTTATTTTCAAT-TTTA
168007 TTATTGGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
AATTTATTTATTTTCAATTTTAA
Found at i:169560 original size:13 final size:13
Alignment explanation
Indices: 169541--169582 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
169531 TCTTAAAATA
169541 ATATTATTTTATGT
1 ATATTATTTTA-GT
169555 AT-TTATTGTTAGT
1 ATATTATT-TTAGT
*
169568 ATAATATTTTAGT
1 ATATTATTTTAGT
169581 AT
1 AT
169583 CATTTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (13 bp):
ATATTATTTTAGT
Found at i:171576 original size:3 final size:3
Alignment explanation
Indices: 171559--171638 Score: 99
Period size: 3 Copynumber: 26.7 Consensus size: 3
171549 TTTTTACCCA
* * *
171559 TAT TAT T-T TATT TAT TAT TAT AAT TAT AAT TAT TAT TAT TAT AAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
171604 TAT TAT AAA TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
171639 AATACATATA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
2 2 0.03
3 60 0.92
4 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:174567 original size:88 final size:88
Alignment explanation
Indices: 174418--174594 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
174408 CAATGTTTTT
174418 GCAGATGGAAATGAGAGTCTCACAAAGAAAGCATGAAGAGAAATGAACATTTTTTTGCTTTACAA
1 GCAGATGGAAATGAGAGTCTCACAAAGAAAGCATGAAGAGAAATGAACATTTTTTTGCTTTACAA
174483 CTTGGCTTGAAGCCTGGACAAAA
66 CTTGGCTTGAAGCCTGGACAAAA
174506 GCAGATGGAAATGAGAGTCTCACAAAGAAAGCATGAAGAGAAATGAACATTTTTTTGCTTTACAA
1 GCAGATGGAAATGAGAGTCTCACAAAGAAAGCATGAAGAGAAATGAACATTTTTTTGCTTTACAA
174571 CTTGGCTTGAAGCCTGGACAAAA
66 CTTGGCTTGAAGCCTGGACAAAA
174594 G
1 G
174595 GTTTTCCCAC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (88 bp):
GCAGATGGAAATGAGAGTCTCACAAAGAAAGCATGAAGAGAAATGAACATTTTTTTGCTTTACAA
CTTGGCTTGAAGCCTGGACAAAA
Found at i:176476 original size:24 final size:25
Alignment explanation
Indices: 176430--176476 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
176420 ATTGGTCCCC
*
176430 CGTCCCCGTTTAAAAAACTCGTACG
1 CGTCCCCGCTTAAAAAACTCGTACG
*
176455 CGTCCCTGCTTAAAAAAC-CGTA
1 CGTCCCCGCTTAAAAAACTCGTA
176477 GGGATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (25 bp):
CGTCCCCGCTTAAAAAACTCGTACG
Found at i:179665 original size:11 final size:10
Alignment explanation
Indices: 179646--179684 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
179636 AAATTAATGT
179646 TAAACAAAAAA
1 TAAA-AAAAAA
*
179657 TAAATAAAAA
1 TAAAAAAAAA
*
179667 TAAAATAAAA
1 TAAAAAAAAA
179677 TAAAAAAA
1 TAAAAAAA
179685 TTAGGGTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 20 0.83
11 4 0.17
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:180767 original size:43 final size:43
Alignment explanation
Indices: 180706--180792 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
180696 TAGGGTTTCA
* *
180706 AAACCTTATCTGTTATGCGATCCGAATTGTTGATTGAGGCTCG
1 AAACCTTATATGTTATGCGATCCGAATTATTGATTGAGGCTCG
180749 AAACCTTATATGTTATGCGATCCGAATTATTGATTGAGGCTCG
1 AAACCTTATATGTTATGCGATCCGAATTATTGATTGAGGCTCG
180792 A
1 A
180793 TCCTATGGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (43 bp):
AAACCTTATATGTTATGCGATCCGAATTATTGATTGAGGCTCG
Found at i:181003 original size:10 final size:10
Alignment explanation
Indices: 180985--181035 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
180975 ACCTAAACCA
*
180985 AAATGAAAAT
1 AAATAAAAAT
180995 AAATAAAAAT
1 AAATAAAAAT
*
181005 AAATGAAAACAA
1 AAAT-AAAA-AT
181017 AAATAAAAA-
1 AAATAAAAAT
181026 AAATTAAAAA
1 AAA-TAAAAA
181036 AATGTAGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
9 3 0.08
10 20 0.56
11 8 0.22
12 5 0.14
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:181034 original size:16 final size:15
Alignment explanation
Indices: 180984--181035 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
180974 GACCTAAACC
*
180984 AAAATGAAAATAAATA
1 AAAAT-AAAAAAAATA
* *
181000 AAAATAAATGAAAACA
1 AAAATAAA-AAAAATA
181016 AAAATAAAAAAAATTA
1 AAAATAAAAAAAA-TA
181032 AAAA
1 AAAA
181036 AATGTAGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 7 0.24
16 22 0.76
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (15 bp):
AAAATAAAAAAAATA
Found at i:181178 original size:28 final size:26
Alignment explanation
Indices: 181147--181232 Score: 90
Period size: 28 Copynumber: 3.3 Consensus size: 26
181137 TCTAATATGC
181147 TTTCAAAAATTATATTTATAATATATAT
1 TTTCAAAAA-TATA-TTATAATATATAT
*
181175 TTTCAAAAAT-TA-TA-CA-ATATAT
1 TTTCAAAAATATATTATAATATATAT
181197 TTTCAAAAACTATATTATATATATATAT
1 TTTCAAAAA-TATATTATA-ATATATAT
*
181225 ATTCAAAA
1 TTTCAAAA
181233 CCACATATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
22 15 0.31
23 2 0.04
24 4 0.08
25 2 0.04
26 2 0.04
27 2 0.04
28 22 0.45
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTCAAAAATATATTATAATATATAT
Found at i:181216 original size:22 final size:22
Alignment explanation
Indices: 181163--181218 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
181153 AAATTATATT
*
181163 TATAATATATATTTTCAAAAAT
1 TATAATATATATTTTCAAAAAC
181185 TATACA-ATATATTTTCAAAAAC
1 TATA-ATATATATTTTCAAAAAC
*
181207 TATATTATATAT
1 TATAATATATAT
181219 ATATATATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (22 bp):
TATAATATATATTTTCAAAAAC
Found at i:182743 original size:22 final size:20
Alignment explanation
Indices: 182693--182748 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
182683 TAAATTGAAT
* *
182693 TAAAAAAATTAAAATAACAAA
1 TAAAAAAA-TAAAACAAAAAA
182714 TAATAAAAATAAAACAAAAACA
1 TAA-AAAAATAAAACAAAAA-A
182736 GTAAAAAAATAAA
1 -TAAAAAAATAAA
182749 TAAACACAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 12 0.40
22 15 0.50
23 3 0.10
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (20 bp):
TAAAAAAATAAAACAAAAAA
Found at i:182760 original size:22 final size:21
Alignment explanation
Indices: 182693--182760 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 21
182683 TAAATTGAAT
182693 TAAAAAAATTAAAATAACA-AA-
1 TAAAAAAA-TAAAA-AACACAAG
*
182714 TAATAAAAATAAAACAA-AAACAG
1 TAA-AAAAATAAAA-AACACA-AG
182737 TAAAAAAATAAATAAACACAAG
1 TAAAAAAATAAA-AAACACAAG
182759 TA
1 TA
182761 CAAGGACCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
20 1 0.03
21 11 0.28
22 21 0.54
23 6 0.15
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (21 bp):
TAAAAAAATAAAAAACACAAG
Found at i:186142 original size:12 final size:12
Alignment explanation
Indices: 186125--186153 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
186115 CCAGAACCAT
186125 ACACCCACCAAC
1 ACACCCACCAAC
186137 ACACCCACCAAC
1 ACACCCACCAAC
186149 ACACC
1 ACACC
186154 ATAATGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.59, G:0.00, T:0.00
Consensus pattern (12 bp):
ACACCCACCAAC
Found at i:186155 original size:55 final size:55
Alignment explanation
Indices: 186091--186196 Score: 194
Period size: 55 Copynumber: 1.9 Consensus size: 55
186081 CCTCCAACCG
*
186091 AACACACCATAATGTGTAGGTTTCCCAGAACCATACACCCACCAACACACCCACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACCAACACACCCACC
*
186146 AACACACCATAATGTGTAGGTTCCCCATAACCATACACCCACCAACACACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACCAACACACC
186197 AAGTAAGGCC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.37, C:0.40, G:0.08, T:0.15
Consensus pattern (55 bp):
AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACCAACACACCCACC
Found at i:186326 original size:24 final size:24
Alignment explanation
Indices: 186313--186431 Score: 168
Period size: 24 Copynumber: 5.0 Consensus size: 24
186303 AAACATAATT
*
186313 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
*
186337 CAGGTCAAGTATCATATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
* *
186361 CAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
186385 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCATATCAGAATC
**
186409 CATGTCAAGTATCAGGTCAGAAT
1 CATGTCAAGTATCATATCAGAAT
186432 TCAAATCGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 2 0.02
24 81 0.95
25 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (24 bp):
CATGTCAAGTATCATATCAGAATC
Found at i:186447 original size:72 final size:72
Alignment explanation
Indices: 186313--186449 Score: 179
Period size: 72 Copynumber: 1.9 Consensus size: 72
186303 AAACATAATT
* * *
186313 CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCATATCAGAATCCAAGTCAAGTATCAGAT
1 CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAATCAGAT
186378 CAGAATC
66 CAGAATC
* * * *
186385 CATGTC-AGATATCATATCAGAATCCATGTCAAGTATCAGGTCAGAATTCAAATCGAA-AATCAG
1 CATGTCAAG-TATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATC-AAGAATCAG
186448 AT
64 AT
186450 AAAATATTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
71 2 0.04
72 52 0.93
73 2 0.04
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.26
Consensus pattern (72 bp):
CATGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAAATCAAGAATCAGAT
CAGAATC
Found at i:188981 original size:31 final size:31
Alignment explanation
Indices: 188941--189001 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
188931 TCAACGCCGG
*
188941 TCAACGGGTCGGGTAAACGGGTCAGGTCGGA
1 TCAAAGGGTCGGGTAAACGGGTCAGGTCGGA
* *
188972 TCAAAGGGTCGGGTAAATGGGTCGGGTCGG
1 TCAAAGGGTCGGGTAAACGGGTCAGGTCGG
189002 GTCGGGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.21, C:0.16, G:0.44, T:0.18
Consensus pattern (31 bp):
TCAAAGGGTCGGGTAAACGGGTCAGGTCGGA
Found at i:191179 original size:43 final size:43
Alignment explanation
Indices: 191118--191212 Score: 165
Period size: 43 Copynumber: 2.2 Consensus size: 43
191108 CCTCCAACCG
191118 AACACACCATAATGTGTAGGTTTCCC-AGAACCATACACCCACC
1 AACACACCATAATGTGTAGG-TTCCCTAGAACCATACACCCACC
*
191161 AACACACCATAATGTGTAGGTTCCCTATAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCTAGAACCATACACCCACC
191204 AACACACCA
1 AACACACCA
191213 AGTAAGGCCT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 5 0.10
43 45 0.90
ACGTcount: A:0.37, C:0.36, G:0.09, T:0.18
Consensus pattern (43 bp):
AACACACCATAATGTGTAGGTTCCCTAGAACCATACACCCACC
Found at i:191341 original size:24 final size:24
Alignment explanation
Indices: 191314--191413 Score: 92
Period size: 24 Copynumber: 4.2 Consensus size: 24
191304 TATATCAAAA
* * *
191314 ATCAAAACATAATTCATGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* *
191338 ATCATATCAAAATCCAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* * *
191362 ATCATATCAAAATCTAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* * * *
191386 ATCATATCAGAATCCAAGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
191410 ATCA
1 ATCA
191414 TATCAGAATC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAAGT
Found at i:191437 original size:24 final size:24
Alignment explanation
Indices: 191331--191430 Score: 155
Period size: 24 Copynumber: 4.2 Consensus size: 24
191321 CATAATTCAT
191331 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCATATCAAAATCCAG
*
191355 GTCAAGTATCATATCAAAATCTAG
1 GTCAAGTATCATATCAAAATCCAG
* *
191379 GTCAAGTATCATATCAGAATCCAA
1 GTCAAGTATCATATCAAAATCCAG
* *
191403 GTCAAGTATCATATCAGAATCCAT
1 GTCAAGTATCATATCAAAATCCAG
191427 GTCA
1 GTCA
191431 GATATCAACA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (24 bp):
GTCAAGTATCATATCAAAATCCAG
Found at i:193963 original size:43 final size:43
Alignment explanation
Indices: 193902--193996 Score: 172
Period size: 43 Copynumber: 2.2 Consensus size: 43
193892 CCTCCAACTG
*
193902 AACACACCATAATGTGTAGGTTTCCCAGAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
*
193945 AACACACCATAATGTGTAGGTTCCCCATAACCATACACCCACC
1 AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
193988 AACACACCA
1 AACACACCA
193997 AGTAAGGCCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.37, C:0.37, G:0.09, T:0.17
Consensus pattern (43 bp):
AACACACCATAATGTGTAGGTTCCCCAGAACCATACACCCACC
Found at i:194125 original size:24 final size:24
Alignment explanation
Indices: 194112--194230 Score: 177
Period size: 24 Copynumber: 5.0 Consensus size: 24
194102 AAACATAATT
*
194112 CATGTCAAGTATCATATCAAAATC
1 CATGTCAAGTATCATATCAGAATC
194136 CATGTCAAGTATCATATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
* *
194160 CAAGTCAAGTATCAGATCAGAATC
1 CATGTCAAGTATCATATCAGAATC
194184 CATGTC-AGATATCATATCAGAATC
1 CATGTCAAG-TATCATATCAGAATC
**
194208 CATGTCAAGTATCAGGTCAGAAT
1 CATGTCAAGTATCATATCAGAAT
194231 TCAAATTGAA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 2 0.02
24 82 0.95
25 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (24 bp):
CATGTCAAGTATCATATCAGAATC
Found at i:196775 original size:18 final size:18
Alignment explanation
Indices: 196752--196792 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
196742 CAACGGTCAA
*
196752 CGGGTCGGGT-AAATGGGT
1 CGGGTCGGATCAAA-GGGT
196770 CGGGTCGGATCAAAGGGT
1 CGGGTCGGATCAAAGGGT
196788 CGGGT
1 CGGGT
196793 AAACGGGTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.17, C:0.15, G:0.49, T:0.20
Consensus pattern (18 bp):
CGGGTCGGATCAAAGGGT
Found at i:196788 original size:31 final size:31
Alignment explanation
Indices: 196748--196808 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
196738 CGGTCAACGG
* *
196748 TCAACGGGTCGGGTAAATGGGTCGGGTCGGA
1 TCAAAGGGTCGGGTAAACGGGTCGGGTCGGA
196779 TCAAAGGGTCGGGTAAACGGGTCGGGTCGG
1 TCAAAGGGTCGGGTAAACGGGTCGGGTCGG
196809 GTTATGACCG
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:0.20, C:0.16, G:0.46, T:0.18
Consensus pattern (31 bp):
TCAAAGGGTCGGGTAAACGGGTCGGGTCGGA
Found at i:210379 original size:58 final size:58
Alignment explanation
Indices: 210317--210965 Score: 979
Period size: 58 Copynumber: 11.3 Consensus size: 58
210307 TATTCCCTTC
* * * * * *
210317 ATTTCTTAACATTTTAGCGTACAAAACGCTCTATATGAAAACTCATACACTCAGTATG
1 ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGGAAATTCATACACTTAGTATG
* *
210375 ATTTCTTAACATTTTA--G--C---ATGCCCTATATGGAAATTCATACACTTAGTATG
1 ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGGAAATTCATACACTTAGTATG
* * *
210426 ATTTCTTCACATTTTAGCGTATGAAATGCCCTATATGGAAATTCATACACTTAGTATC
1 ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGGAAATTCATACACTTAGTATG
* * * * *
210484 ATTTCTTCCCATTTTAGCGAACAAAACACCCTATATGGAAATTCATACACTTAGTATA
1 ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGGAAATTCATACACTTAGTATG
* * *
210542 ATTTCTTAACATTTTAGCGTACTAAACGCCCTATATGGAAATTCATACACTTCGTATG
1 ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGGAAATTCATACACTTAGTATG
* * *
210600 ATTACTTAACATTTTAGCGTACGAAACACCCTATATGGAAATTCATACACTTAGTATG
1 ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGGAAATTCATACACTTAGTATG
*
210658 ATTTCTTCACATTTTAGCGTACGAAACACCCTATATGGAAATTCATACACTTAGTATG
1 ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGGAAATTCATACACTTAGTATG
* *
210716 ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGAAAATTCATATACTTAGTATG
1 ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGGAAATTCATACACTTAGTATG
* * *
210774 ATTTCTTCACATTTTAGCGTACGAAATGCCCTATATAGAAAATCATACACTTAGTATG
1 ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGGAAATTCATACACTTAGTATG
* *
210832 ATTTCTTAACATTTTAGCGTACGAAATGCCCTATATGGAAATTCATACACTTAGTATG
1 ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGGAAATTCATACACTTAGTATG
210890 ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGGAAATTCATACACTTAGTATG
1 ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGGAAATTCATACACTTAGTATG
210948 ATTTCTTCACATTTTAGC
1 ATTTCTTCACATTTTAGC
210966 CTATAGTTTC
Statistics
Matches: 543, Mismatches: 41, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
51 43 0.08
53 1 0.00
54 1 0.00
56 1 0.00
58 497 0.92
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (58 bp):
ATTTCTTCACATTTTAGCGTACGAAACGCCCTATATGGAAATTCATACACTTAGTATG
Found at i:212874 original size:2 final size:2
Alignment explanation
Indices: 212869--212900 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
212859 AGGCATAACC
212869 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
212901 CTTTCTGACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:218026 original size:58 final size:58
Alignment explanation
Indices: 217956--218636 Score: 1024
Period size: 58 Copynumber: 11.8 Consensus size: 58
217946 TATATTTCCC
* * * * *
217956 ATATGGAAATTCATACACTCAGTATGATTTCTTAACATTTTAGCGTACAAAATGCTCT
1 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCGTACGAAACGCCCT
* * * *
218014 ATATGGAAATTCATACACTCAGTATGATTTCTTAACATTTTAGCGTACGAAATGGCCT
1 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCGTACGAAACGCCCT
*
218072 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAG-GCTACGAAATGCCCT
1 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCG-TACGAAACGCCCT
*
218130 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCATACGAAACGCCCT
1 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCGTACGAAACGCCCT
* * * * *
218188 ATTTGGAAATTCATACACTTAGTATGGTTT-TTAACATTTTAGCGTACGAAACACCAT
1 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCGTACGAAACGCCCT
* **
218245 ATATGGAAATTCATACACTTAGTATGATTTCTTCTCATTTTATAGTACGAAACGCCCT
1 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCGTACGAAACGCCCT
*
218303 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCGTACGAAATGCCCT
1 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCGTACGAAACGCCCT
* * *
218361 ATATGGAAATTCAAACACTTAGTATGATTTCTTCACATTTTAGCTTACGAAACGCCAT
1 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCGTACGAAACGCCCT
* * *
218419 ATATGGAAATTCATACACTTAATATGATTTCTTAACATTTTAGCGTACTAAACGCCCT
1 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCGTACGAAACGCCCT
* * * *
218477 ATATGGAAATTCACACACTTAGTATGATTTCTTAACATTTTAGCATACGAAATGCCCT
1 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCGTACGAAACGCCCT
* * * *
218535 ATATGGAAATTCATACACTTAGTATGATTTCATCACATCTTAGCATACGAAACGCTCT
1 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCGTACGAAACGCCCT
*
218593 ATAAGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGC
1 ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGC
218637 CTATAGTATC
Statistics
Matches: 570, Mismatches: 50, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
57 52 0.09
58 518 0.91
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (58 bp):
ATATGGAAATTCATACACTTAGTATGATTTCTTCACATTTTAGCGTACGAAACGCCCT
Found at i:227715 original size:154 final size:154
Alignment explanation
Indices: 227416--227868 Score: 719
Period size: 154 Copynumber: 2.9 Consensus size: 154
227406 ATTGACAAAA
* * * *
227416 AAATGTTTTATTTGGGGG-CATTGTTGGAGGAAGAAAATATGAAGGCTCCTCGGCTTTGTGCTCG
1 AAATGTTTTATTTGGGGGTTATTGTTGGAGGAAGAATATATGAAGGCTCCTCGGCTGTGTGCTCA
* * * *
227480 GGGCCTAACTGTTGTGTCAGGGTTGTATGGTTCTGGGGAACCTACACATTATGATGTGTTCAGTT
66 GGGCCTTATTGTTGTGTCGGGGTTGTATGGTTCTGGGGAACCTACACATTATGATGTGTTCGGTT
227545 GGGGGATTTACTATGGTTTTTGAT
131 GGGGGATTTACTATGGTTTTTGAT
*
227569 AAATGTTTTATTTGGGGGTTATTGTTGGAGGAAGAATATATGAAGGCTCCTTGGCTGTGTGCTCA
1 AAATGTTTTATTTGGGGGTTATTGTTGGAGGAAGAATATATGAAGGCTCCTCGGCTGTGTGCTCA
227634 GGGCCTTATTGTTGTGTCGGGGTTGTATGGTTCTGGGGAACCTACACATTATGATGTGTTCGGTT
66 GGGCCTTATTGTTGTGTCGGGGTTGTATGGTTCTGGGGAACCTACACATTATGATGTGTTCGGTT
*
227699 GGGGGATTTACTATGGTTTTTTAT
131 GGGGGATTTACTATGGTTTTTGAT
227723 AAATGTTTTATTTGGGGGTTATTGTTGGAGGAAGAATATATGAAGGCTCCTCGGCTGTGTGCTCA
1 AAATGTTTTATTTGGGGGTTATTGTTGGAGGAAGAATATATGAAGGCTCCTCGGCTGTGTGCTCA
* * ** * * *
227788 AGGCCTTATTGTTGTGCCGGGGTTGTATGGTTCTGGCAAATCTACACATTATGGACGTGTGCGGT
66 GGGCCTTATTGTTGTGTCGGGGTTGTATGGTTCTGGGGAACCTACACATTAT-GATGTGTTCGGT
* *
227853 TGAGGGAATTACTATG
130 TGGGGGATTTACTATG
227869 ATTTCTAAAT
Statistics
Matches: 278, Mismatches: 20, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
153 18 0.06
154 236 0.85
155 24 0.09
ACGTcount: A:0.20, C:0.12, G:0.32, T:0.37
Consensus pattern (154 bp):
AAATGTTTTATTTGGGGGTTATTGTTGGAGGAAGAATATATGAAGGCTCCTCGGCTGTGTGCTCA
GGGCCTTATTGTTGTGTCGGGGTTGTATGGTTCTGGGGAACCTACACATTATGATGTGTTCGGTT
GGGGGATTTACTATGGTTTTTGAT
Found at i:229130 original size:18 final size:18
Alignment explanation
Indices: 229104--229140 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
229094 TTTCGAATGT
229104 AAAAAATAAAAATGCAAG
1 AAAAAATAAAAATGCAAG
*
229122 AAAATATAAAAATGCAAG
1 AAAAAATAAAAATGCAAG
229140 A
1 A
229141 TGCATGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (18 bp):
AAAAAATAAAAATGCAAG
Found at i:231037 original size:18 final size:19
Alignment explanation
Indices: 231002--231038 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
230992 CACGGAATGT
231002 AAGATTATCAGTGGGAATAA
1 AAGATTATCAG-GGGAATAA
231022 AAGATTATCA-GGGAATA
1 AAGATTATCAGGGGAATA
231039 GGATTACTGG
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:0.05, G:0.24, T:0.24
Consensus pattern (19 bp):
AAGATTATCAGGGGAATAA
Found at i:231997 original size:16 final size:16
Alignment explanation
Indices: 231976--232007 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
231966 GCAAATAAAT
*
231976 AAAAATGAAATAAAAC
1 AAAAATGAAAGAAAAC
231992 AAAAATGAAAGAAAAC
1 AAAAATGAAAGAAAAC
232008 GAGTTAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.75, C:0.06, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAAATGAAAGAAAAC
Found at i:234413 original size:6 final size:6
Alignment explanation
Indices: 234404--234448 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
234394 GGACCTAAAC
*
234404 AAAAGT AAAAAT -AAAA- -AAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
234449 GAAGTAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
4 4 0.11
5 4 0.11
6 28 0.78
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:234609 original size:22 final size:22
Alignment explanation
Indices: 234580--234653 Score: 112
Period size: 22 Copynumber: 3.3 Consensus size: 22
234570 ATATATATTA
**
234580 TATATATTTTCAAAAGTTATAT
1 TATATATTTTCAAAAACTATAT
*
234602 AATATATTTTCAAAAACTATAT
1 TATATATTTTCAAAAACTATAT
234624 TATATATTTTTCAAAAACTATAT
1 TATATA-TTTTCAAAAACTATAT
234647 TATATAT
1 TATATAT
234654 ATATATATTC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
22 25 0.53
23 22 0.47
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.47
Consensus pattern (22 bp):
TATATATTTTCAAAAACTATAT
Found at i:234634 original size:23 final size:23
Alignment explanation
Indices: 234573--234653 Score: 119
Period size: 23 Copynumber: 3.5 Consensus size: 23
234563 AAACATTATA
**
234573 TATATTATATATATTTTCAAAAGT
1 TATATTATATAT-TTTTCAAAAAC
*
234597 TATATAATATA-TTTTCAAAAAC
1 TATATTATATATTTTTCAAAAAC
234619 TATATTATATATTTTTCAAAAAC
1 TATATTATATATTTTTCAAAAAC
234642 TATATTATATAT
1 TATATTATATAT
234654 ATATATATTC
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
22 19 0.37
23 23 0.44
24 10 0.19
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.48
Consensus pattern (23 bp):
TATATTATATATTTTTCAAAAAC
Found at i:240502 original size:20 final size:20
Alignment explanation
Indices: 240477--240529 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
240467 GATTTTCTAG
* *
240477 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
*
240497 AATCGCAATGCGAACACATA
1 AATCGCAACGCGAACACATA
240517 AATCGCAACGCGA
1 AATCGCAACGCGA
240530 TTCTTACTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.43, C:0.25, G:0.19, T:0.13
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:240561 original size:62 final size:62
Alignment explanation
Indices: 240495--240740 Score: 179
Period size: 60 Copynumber: 4.0 Consensus size: 62
240485 CGCGAATATG
* * *
240495 AAAATCGCAATGCG-AACACATAAATCGCAACGCG-ATTCTTACTATCGCAACGAGTATCCGTA
1 AAAATCGCAACGCGTAAC-CATAAATCGCAACGCGTATCCGTA-TATCGCAACGAGTATCCGTA
* * *
240557 AAAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTATATCGCAACGAGTATCCGT-
1 AAAATCGCAACGCGTAACCATAAATCGCAACGCGTATCCGTATATCGCAACGAGTATCCGTA
* * * * ** *
240618 -AAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTATAAATCGCAACGA-TAATCCGT-
1 AAAATCGCAACGCGTAA-CCATAAATCGCAACGCGTATCCGTATATCGCAACGAGT-ATCCGTA
* * ** * * * *
240678 -AAATCGCAATGAG-AATCTGTAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTA
1 AAAATCGCAACGCGTAA-CCATAAATCGCAACGCGT-ATCCGTATATCGCAACGAGTATCCGTA
240739 AA
1 AA
240741 TCACAACACT
Statistics
Matches: 152, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
59 3 0.02
60 95 0.62
62 47 0.31
63 7 0.05
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (62 bp):
AAAATCGCAACGCGTAACCATAAATCGCAACGCGTATCCGTATATCGCAACGAGTATCCGTA
Done.