Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 113 of 211
Found at i:35581852 original size:25 final size:25
Alignment explanation
Indices: 35581824--35582203 Score: 218
Period size: 25 Copynumber: 15.0 Consensus size: 25
35581814 TACATGATTC
* *
35581824 ACATCTTACATAACTTACATAGCTT
1 ACATATTACATAACTTACATAACTT
*
35581849 ACAT-TATACACAACTTACATAACCTT
1 ACATAT-TACATAACTTACATAA-CTT
*
35581875 -CATAATACATAACTTACATAACTT
1 ACATATTACATAACTTACATAACTT
* * * *
35581899 ACATATAATTCACAACATCCATAACTT
1 ACATAT--TACATAACTTACATAACTT
* *
35581926 ACATAATACACAACTTACATAACTT
1 ACATATTACATAACTTACATAACTT
*
35581951 TCATAACTTACATAA--TACATAACTT
1 ACAT-A-TTACATAACTTACATAACTT
*
35581976 ACATAACTTACATAA--TACACAACTT
1 ACAT-A-TTACATAACTTACATAACTT
35582001 ACATAATTTTA-ATAA--TACATAACTT
1 ACAT-A--TTACATAACTTACATAACTT
* * * *
35582026 ACATAGTAAACAACTTACATAATTT
1 ACATATTACATAACTTACATAACTT
* * *
35582051 TCATAATACAAAACTTACATAA--T
1 ACATATTACATAACTTACATAACTT
*
35582074 ACATAACTTACATAA--TACACAACTT
1 ACAT-A-TTACATAACTTACATAACTT
*
35582099 ACATAATTTTCATAA--TACATAACTT
1 ACAT-A-TTACATAACTTACATAACTT
35582124 ACATAACTTACATAA--TACATAACTT
1 ACAT-A-TTACATAACTTACATAACTT
* * *
35582149 ACATAACTTACATATTACATAAATAATTT
1 ACAT-A-TTACATA--ACTTACATAACTT
* *
35582178 TCATAATACATAACTTACATAACTT
1 ACATATTACATAACTTACATAACTT
35582203 A
1 A
35582204 AATAGCTTAA
Statistics
Matches: 291, Mismatches: 44, Indels: 40
0.78 0.12 0.11
Matches are distributed among these distances:
22 2 0.01
23 13 0.04
24 6 0.02
25 218 0.75
26 7 0.02
27 33 0.11
28 1 0.00
29 11 0.04
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (25 bp):
ACATATTACATAACTTACATAACTT
Found at i:35581891 original size:41 final size:40
Alignment explanation
Indices: 35581839--35582170 Score: 204
Period size: 41 Copynumber: 8.4 Consensus size: 40
35581829 TTACATAACT
* *
35581839 TACATAGCTTACATTATACACAACTTACATAACCTTCATAA
1 TACATAACTTACATAATACACAACTTACATAA-CTTCATAA
* *
35581880 TACATAACTTAC---AT----AACTTACATATAATTCACAACA
1 TACATAACTTACATAATACACAACTTACATA-ACTTCA-TA-A
*
35581916 TCCATAACTTACATAATACACAACTTACATAAC-T--T--
1 TACATAACTTACATAATACACAACTTACATAACTTCATAA
*
35581951 T-CATAACTTACATAATACATAACTTACATAACTTACATAA
1 TACATAACTTACATAATACACAACTTACATAACTT-CATAA
* * *
35581991 TACACAACTTACATAATTTTA-ATAA--TACATAACTTACATAG
1 TACATAACTTACATAA---TACACAACTTACATAACTT-CATAA
* * * * *
35582032 TAAACAACTTACATAATTTTCATAA--TACAAAACTTACATAA
1 TACATAACTTACATAA--TACACAACTTACATAACTT-CATAA
*
35582073 TACATAACTTACATAATACACAACTTACATAATTTTCATAA
1 TACATAACTTACATAATACACAACTTACATAA-CTTCATAA
*
35582114 TACATAACTTACATAACTTACATAA--TACATAACTTACATAA
1 TACATAACTTACATAA--TACACAACTTACATAACTT-CATAA
35582155 CTTACAT-A-TTACATAA
1 --TACATAACTTACATAA
35582171 ATAATTTTCA
Statistics
Matches: 241, Mismatches: 21, Indels: 58
0.75 0.07 0.18
Matches are distributed among these distances:
34 44 0.18
35 4 0.02
36 12 0.05
38 3 0.01
39 7 0.03
40 6 0.02
41 134 0.56
42 4 0.02
43 25 0.10
44 2 0.01
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (40 bp):
TACATAACTTACATAATACACAACTTACATAACTTCATAA
Found at i:35582198 original size:16 final size:16
Alignment explanation
Indices: 35581864--35582199 Score: 242
Period size: 16 Copynumber: 21.0 Consensus size: 16
35581854 ATACACAACT
35581864 TACATAACCTT-CATAA
1 TACATAA-CTTACATAA
35581880 TACATAACTTACATAA
1 TACATAACTTACATAA
*
35581896 CTTACATATAATTCACA-ACA
1 --TACATA-ACTT-ACATA-A
*
35581916 TCCATAACTTACATAA
1 TACATAACTTACATAA
*
35581932 TACACAACTTACATAA
1 TACATAACTTACATAA
*
35581948 CTTTCATAACTTACATAA
1 --TACATAACTTACATAA
35581966 TACATAACTTACATAA
1 TACATAACTTACATAA
*
35581982 CTTACATAA--TACACAA
1 --TACATAACTTACATAA
*
35581998 CTTACATAATTTTA-ATAA
1 --TACATAA-CTTACATAA
*
35582016 TACATAACTTACATAG
1 TACATAACTTACATAA
* *
35582032 TAAACAACTTACATAA
1 TACATAACTTACATAA
35582048 T---T---TT-CATAA
1 TACATAACTTACATAA
*
35582057 TACAAAACTTACATAA
1 TACATAACTTACATAA
35582073 TACATAACTTACATAA
1 TACATAACTTACATAA
*
35582089 TACACAACTTACATAA
1 TACATAACTTACATAA
*
35582105 TTTTCATAA--TACATAA
1 --TACATAACTTACATAA
35582121 CTTACATAACTTACATAA
1 --TACATAACTTACATAA
35582139 TACATAACTTACATAA
1 TACATAACTTACATAA
35582155 CTTACAT-A-TTACAT-A
1 --TACATAACTTACATAA
* *
35582170 -A-ATAATTTTCATAA
1 TACATAACTTACATAA
35582184 TACATAACTTACATAA
1 TACATAACTTACATAA
35582200 CTTAAATAGC
Statistics
Matches: 261, Mismatches: 26, Indels: 66
0.74 0.07 0.19
Matches are distributed among these distances:
9 6 0.02
10 2 0.01
11 2 0.01
12 2 0.01
13 5 0.02
14 1 0.00
15 10 0.04
16 166 0.64
17 5 0.02
18 52 0.20
19 6 0.02
20 4 0.02
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:35587856 original size:43 final size:43
Alignment explanation
Indices: 35587800--35588160 Score: 420
Period size: 43 Copynumber: 8.4 Consensus size: 43
35587790 CGTTTTTTAA
* * * *
35587800 AAAAGTGCTGCTAAAAGTCATGGCCTATAGCGGCGTTTGTGAG
1 AAAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGAG
* *
35587843 AAAAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTGGAA
1 AAAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGT-GAG
* * *
35587887 AAAAGCGCCGCTAAAGGTTACGACCTATAGCGGCGTTTGAG-G
1 AAAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGAG
** * * * *
35587929 GTAAGCGCCTCTAAAGGGCATGACCTTTAGCGGCGTTTGTGTG
1 AAAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGAG
* * *
35587972 GAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGAG
1 AAAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGAG
* ** * *
35588015 GAAAGCGCCGCTAAAGGTTTTGATCTATAGCGGCATTTGT-AG
1 AAAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGAG
* * * * *
35588057 AAAAGCGCCACTAAAGGTCTTGATCTATAGCGGCGTTTATGGG
1 AAAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGAG
* * *
35588100 AAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGAC
1 AAAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGAG
35588143 AAAAGCGCCGCTAAAGGT
1 AAAAGCGCCGCTAAAGGT
35588161 GCCACAAAAT
Statistics
Matches: 278, Mismatches: 37, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
42 70 0.25
43 170 0.61
44 38 0.14
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGAG
Found at i:35588062 original size:85 final size:85
Alignment explanation
Indices: 35587824--35588160 Score: 426
Period size: 85 Copynumber: 3.9 Consensus size: 85
35587814 AAGTCATGGC
* * *
35587824 CTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGTGGAAAA
1 CTATAGCGGCGTTTGTG-GGAAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGT-GAGAA
* *
35587889 AAGCGCCGCTAAAGGT-TACGAC
64 AAGCGCCGCTAAAGGTCT-TGAT
* * * * * * *
35587911 CTATAGCGGCGTTTGAGGGTAAGCGCCTCTAAAGGGCATGACCTTTAGCGGCGTTTGTGTGGAAA
1 CTATAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGAGAAAA
35587976 GCGCCGCTAAAGGTCTTGAT
66 GCGCCGCTAAAGGTCTTGAT
** * *
35587996 CTATAGCGGCGTTTGTGAGGAAAGCGCCGCTAAAGGTTTTGATCTATAGCGGCATTTGT-AGAAA
1 CTATAGCGGCGTTTGTG-GGAAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGAGAAA
*
35588060 AGCGCCACTAAAGGTCTTGAT
65 AGCGCCGCTAAAGGTCTTGAT
* * * *
35588081 CTATAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGACAAA
1 CTATAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGAGAAA
35588146 AGCGCCGCTAAAGGT
65 AGCGCCGCTAAAGGT
35588161 GCCACAAAAT
Statistics
Matches: 216, Mismatches: 30, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
84 2 0.01
85 111 0.51
86 87 0.40
87 16 0.07
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (85 bp):
CTATAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCATGACCTATAGCGGCGTTTGTGAGAAAA
GCGCCGCTAAAGGTCTTGAT
Found at i:35588088 original size:128 final size:127
Alignment explanation
Indices: 35587818--35588160 Score: 445
Period size: 128 Copynumber: 2.7 Consensus size: 127
35587808 TGCTAAAAGT
* * * *
35587818 CATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGACCTATAGCGGCGTTTGT
1 CATGACCTATAGCGGCGTTTGTG-GGAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTGT
* ** *
35587883 GGAAAAAAGCGCCGCTAAAGGTTACGACCTATAGCGGCGTTTGAGGGTAAGCGCCTCTAAAGGG
65 -GAAAAAAGCGCCGCTAAAGGTTACGACCTATAGCGGCATTTGAGGAAAAGCGCCACTAAAGGG
* *
35587947 CATGACCTTTAGCGGCGTTTGTGTGGAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGT
1 CATGACCTATAGCGGCGTTTGTG-GGAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTGT
** ** * *
35588012 GAGGAAAGCGCCGCTAAAGGTTTTGATCTATAGCGGCATTTGTA-GAAAAGCGCCACTAAAGGT
65 GAAAAAAGCGCCGCTAAAGGTTACGACCTATAGCGGCATTTG-AGGAAAAGCGCCACTAAAGGG
* * * *
35588075 CTTGATCTATAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGT
1 CATGACCTATAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTGT
*
35588140 GACAAAAGCGCCGCTAAAGGT
65 GAAAAAAGCGCCGCTAAAGGT
35588161 GCCACAAAAT
Statistics
Matches: 188, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
127 2 0.01
128 127 0.68
129 59 0.31
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (127 bp):
CATGACCTATAGCGGCGTTTGTGGGAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTGTG
AAAAAAGCGCCGCTAAAGGTTACGACCTATAGCGGCATTTGAGGAAAAGCGCCACTAAAGGG
Found at i:35588384 original size:27 final size:27
Alignment explanation
Indices: 35588333--35588385 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
35588323 TATTTTAATT
*
35588333 AATTAAATAATGAAATAATTCTATTTC
1 AATTAAATAATGAAATAATTATATTTC
*
35588360 AATTAAATAAT-AATTAATTAATATTT
1 AATTAAATAATGAAATAATT-ATATTT
35588386 TTAACTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (27 bp):
AATTAAATAATGAAATAATTATATTTC
Found at i:35588420 original size:19 final size:21
Alignment explanation
Indices: 35588380--35588418 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35588370 TAATTAATTA
*
35588380 ATATTTTTAACTATTTCAAAT
1 ATATTTTTAACTATCTCAAAT
35588401 ATATTTTT-ACTATCTCAA
1 ATATTTTTAACTATCTCAA
35588419 TACATATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTTTAACTATCTCAAAT
Found at i:35588425 original size:21 final size:21
Alignment explanation
Indices: 35588380--35588426 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
35588370 TAATTAATTA
* *
35588380 ATATTTTTAACTATTTCAAAT
1 ATATTTTTAACTATCTCAAAC
35588401 ATATTTTT-ACTATCTCAATAC
1 ATATTTTTAACTATCTCAA-AC
35588422 ATATT
1 ATATT
35588427 ATTTGTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTTTAACTATCTCAAAC
Found at i:35588547 original size:17 final size:18
Alignment explanation
Indices: 35588525--35588561 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
35588515 CTTAAAAAAA
*
35588525 TTGAATCC-TAATGTTTT
1 TTGAATCCTTAATATTTT
35588542 TTGAATCCTTAATATTTT
1 TTGAATCCTTAATATTTT
35588560 TT
1 TT
35588562 TATCACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.57
Consensus pattern (18 bp):
TTGAATCCTTAATATTTT
Found at i:35598218 original size:14 final size:13
Alignment explanation
Indices: 35598195--35598242 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
35598185 CTGTTCTTGC
35598195 TTTATTTTATTTA
1 TTTATTTTATTTA
35598208 TTTACTTTTATTTCA
1 TTTA-TTTTATTT-A
* *
35598223 TTCA-TTCATTTA
1 TTTATTTTATTTA
35598235 TTTATTTT
1 TTTATTTT
35598243 TATCCTTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
12 4 0.14
13 12 0.43
14 8 0.29
15 4 0.14
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATTTTATTTA
Found at i:35598266 original size:19 final size:18
Alignment explanation
Indices: 35598233--35598268 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35598223 TTCATTCATT
*
35598233 TATTTATTTTTATCCTTG
1 TATTCATTTTTATCCTTG
35598251 TATTCATTTATTATCCTT
1 TATTCATTT-TTATCCTT
35598269 CCATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.19, C:0.14, G:0.03, T:0.64
Consensus pattern (18 bp):
TATTCATTTTTATCCTTG
Found at i:35609814 original size:19 final size:18
Alignment explanation
Indices: 35609782--35609818 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
35609772 CACCTTTTTG
35609782 CATTCATCACATGCATTA
1 CATTCATCACATGCATTA
*
35609800 CATTGCATCATATGCATTA
1 CATT-CATCACATGCATTA
35609819 AAGTTCACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.35
Consensus pattern (18 bp):
CATTCATCACATGCATTA
Found at i:35613919 original size:22 final size:25
Alignment explanation
Indices: 35613887--35613948 Score: 96
Period size: 23 Copynumber: 2.6 Consensus size: 25
35613877 CTGCTTTGAT
35613887 ATTGTTCTTGATTTG-CT-CTGGAA
1 ATTGTTCTTGATTTGTCTGCTGGAA
35613910 ATTGTT-TTGA-TTGTCTGCTGGAA
1 ATTGTTCTTGATTTGTCTGCTGGAA
35613933 ATTGTTCTTGATTTGT
1 ATTGTTCTTGATTTGT
35613949 TAGTCAGTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.09
22 6 0.17
23 18 0.51
24 4 0.11
25 4 0.11
ACGTcount: A:0.16, C:0.10, G:0.23, T:0.52
Consensus pattern (25 bp):
ATTGTTCTTGATTTGTCTGCTGGAA
Found at i:35614483 original size:10 final size:10
Alignment explanation
Indices: 35614460--35614492 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
35614450 CCCAAAACTT
35614460 AAATT-AAA-
1 AAATTCAAAG
35614468 AAATTCAAAG
1 AAATTCAAAG
35614478 AAATTCAAAG
1 AAATTCAAAG
35614488 AAATT
1 AAATT
35614493 GTAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 5 0.22
9 3 0.13
10 15 0.65
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (10 bp):
AAATTCAAAG
Found at i:35617328 original size:11 final size:11
Alignment explanation
Indices: 35617312--35617338 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
35617302 TAGAAATTAG
35617312 TTTGTGAAACT
1 TTTGTGAAACT
35617323 TTTGTGAAACT
1 TTTGTGAAACT
35617334 TTTGT
1 TTTGT
35617339 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:35617403 original size:7 final size:7
Alignment explanation
Indices: 35617391--35617440 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
35617381 ATTTCTTATC
35617391 ATTTTAA
1 ATTTTAA
35617398 ATTTTAA
1 ATTTTAA
**
35617405 ATTTTTT
1 ATTTTAA
* *
35617412 GTGTTATA
1 ATTTTA-A
35617420 ATTTTAA
1 ATTTTAA
35617427 ATTTTAA
1 ATTTTAA
35617434 ATTTTAA
1 ATTTTAA
35617441 GTTATAGTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
7 30 0.88
8 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (7 bp):
ATTTTAA
Found at i:35618874 original size:47 final size:47
Alignment explanation
Indices: 35618823--35618961 Score: 119
Period size: 47 Copynumber: 3.0 Consensus size: 47
35618813 ACATTTTATG
35618823 ATTAAGAATTTTATGAAATTATATATCATTATTAAATTATATTTAAT
1 ATTAAGAATTTTATGAAATTATATATCATTATTAAATTATATTTAAT
*** * * * *
35618870 ATTAATTCTTTTA--AACTGTATAAATTCA-TA-TAAGA--AAATTTATT
1 ATTAAGAATTTTATGAAAT-TATATA-TCATTATTAA-ATTATATTTAAT
* * *
35618914 ATCAAGAATTTTATGAAATTATATATTATTATTAAATTATATGTAAT
1 ATTAAGAATTTTATGAAATTATATATCATTATTAAATTATATTTAAT
35618961 A
1 A
35618962 ATAATTATTT
Statistics
Matches: 66, Mismatches: 17, Indels: 18
0.65 0.17 0.18
Matches are distributed among these distances:
44 18 0.27
45 14 0.21
46 14 0.21
47 20 0.30
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (47 bp):
ATTAAGAATTTTATGAAATTATATATCATTATTAAATTATATTTAAT
Found at i:35618974 original size:26 final size:28
Alignment explanation
Indices: 35618920--35618980 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
35618910 TATTATCAAG
* *
35618920 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
35618948 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
35618974 AATTATA
1 AATTATA
35618981 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:35618979 original size:44 final size:42
Alignment explanation
Indices: 35618829--35618980 Score: 110
Period size: 44 Copynumber: 3.4 Consensus size: 42
35618819 TATGATTAAG
* * *
35618829 AATTTTATGAAATTATATATCATTATTAAATTATATTTAATATT
1 AATTTT-TTAAATTATATATTATTATTAAATTATA-TTAATAAT
* ** *
35618873 AATTCTTTTAAACTGTATAAATTCATATAAGAAAATT-TATT-ATCAAG
1 AATT-TTTTAAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AAT
*
35618920 AATTTTATGAAATTATATATTATTATTAAATTATATGTAATAAT
1 AATTTT-TTAAATTATATATTATTATTAAATTATAT-TAATAAT
35618964 AATTATTTTAAATTATA
1 AATT-TTTTAAATTATA
35618981 CAAATTCATA
Statistics
Matches: 83, Mismatches: 13, Indels: 24
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.07
43 4 0.05
44 26 0.31
45 14 0.17
46 11 0.13
47 13 0.16
48 3 0.04
49 6 0.07
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (42 bp):
AATTTTTTAAATTATATATTATTATTAAATTATATTAATAAT
Found at i:35619024 original size:91 final size:91
Alignment explanation
Indices: 35618801--35619005 Score: 293
Period size: 91 Copynumber: 2.2 Consensus size: 91
35618791 ATTTTAGTAT
* * * *
35618801 ATTCATATAAGAACATTTTATGATTAAGAATTTTATGAAATTATATATCATTATTAAATTATATT
1 ATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATATG
* * * *
35618866 TAATATTAATTCTTTTAAACTGTATAA
65 TAATAATAATTATTTTAAACTATACAA
*
35618893 ATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATATGT
1 ATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATATGT
*
35618958 AATAATAATTATTTTAAATTATACAA
66 AATAATAATTATTTTAAACTATACAA
* *
35618984 ATTCATATAATATAATTTATTA
1 ATTCATATAAGAAAATTTATTA
35619006 GTTATAATTA
Statistics
Matches: 101, Mismatches: 12, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
91 88 0.87
92 13 0.13
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
ATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATATGT
AATAATAATTATTTTAAACTATACAA
Found at i:35619145 original size:120 final size:120
Alignment explanation
Indices: 35619021--35619911 Score: 1610
Period size: 120 Copynumber: 7.4 Consensus size: 120
35619011 AATTATTTTA
* * * *
35619021 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATCTTT
35619085 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * * *
35619141 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATCTTT
35619205 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35619261 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAA-TT-TCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
35619324 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35619379 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
*
35619444 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
35619499 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
35619564 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
35619619 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
* *
35619684 ATAGTATCATATATTATGATTTTAGTAAATTCATATAATAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
35619739 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
35619804 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35619859 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
35619912 TAAATATGAT
Statistics
Matches: 758, Mismatches: 10, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
118 116 0.15
119 4 0.01
120 636 0.84
121 2 0.00
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:35619301 original size:15 final size:15
Alignment explanation
Indices: 35619266--35619317 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
35619256 TTAAGAATTT
*
35619266 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35619280 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35619294 TATTTAATAATAAT-
1 TATTTAATTATAATA
35619308 TATGTTAATT
1 TAT-TTAATT
35619318 TCTTTTATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35619419 original size:15 final size:15
Alignment explanation
Indices: 35619384--35619435 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
35619374 TTAAGAATTT
*
35619384 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35619398 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35619412 TATTTAATAATAAT-
1 TATTTAATTATAATA
35619426 TATGTTAATT
1 TAT-TTAATT
35619436 TATCTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35619534 original size:16 final size:16
Alignment explanation
Indices: 35619513--35619555 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
35619503 TTATTAAATT
35619513 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
35619529 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
35619544 AT-TATGTTAATT
1 ATATATTTTAATT
35619556 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:35619667 original size:358 final size:361
Alignment explanation
Indices: 35619021--35619916 Score: 1613
Period size: 358 Copynumber: 2.5 Consensus size: 361
35619011 AATTATTTTA
* * * *
35619021 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATCTTT
35619085 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
* * * *
35619150 AAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTTTATAGTATC
130 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTTTATAGTATC
35619214 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
195 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATAT
*
35619279 ATTTTAATTATAATATATTTAATAATAATTATGTTAA-TT-TCTTTTATAGTATCATATATTATG
260 ATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATG
35619342 ATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
325 ATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35619379 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
*
35619444 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
*
35619509 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTTTATAGTATCA
131 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTTTATAGTATCA
35619573 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
196 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
35619638 TTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGA
261 TTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGA
* *
35619703 TTTTAGTAAATTCATATAATAATATTAATTATTAAG
326 TTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
35619739 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
35619804 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
*
35619869 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
131 AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAAT
35619917 ATGATTAAAT
Statistics
Matches: 517, Mismatches: 16, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
358 279 0.54
359 6 0.01
360 229 0.44
361 3 0.01
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (361 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTA
AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTTTATAGTATCA
TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
TTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGA
TTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:35619894 original size:16 final size:16
Alignment explanation
Indices: 35619873--35619914 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
35619863 TTATTAAATT
*
35619873 ATATATTTTAATTATA
1 ATATATTTTAATAATA
35619889 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
35619904 AT-TATGTTTAA
1 ATATAT-TTTAA
35619915 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:35619899 original size:15 final size:15
Alignment explanation
Indices: 35619864--35619905 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
35619854 TTAAGAATTT
*
35619864 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35619878 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35619892 TATTTAATAATAAT
1 TATTTAATTATAAT
35619906 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35620145 original size:45 final size:44
Alignment explanation
Indices: 35620055--35620149 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 44
35620045 TTACACCTCT
* * *
35620055 ATTACATTCAACCAAACACAAGAATACTATTACGCCTTTATTCC
1 ATTACATTCAACCAAACACAAGAATACTATTACACCTCTAATCC
* * *
35620099 ATTACATTCAACCAAACA-ATTGATTTGCTATTACACCTCTAATCC
1 ATTACATTCAACCAAACACA-AGA-ATACTATTACACCTCTAATCC
35620144 ATTACA
1 ATTACA
35620150 CCTCTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 20 0.47
45 22 0.51
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAAGAATACTATTACACCTCTAATCC
Found at i:35620149 original size:16 final size:16
Alignment explanation
Indices: 35620128--35620197 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
35620118 TTGATTTGCT
*
35620128 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
35620144 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
35620160 ATTACGCCTCTATTTC
1 ATTACACCTCTATTCC
*
35620176 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
35620192 AATACA
1 ATTACA
35620198 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.27, C:0.34, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:35623602 original size:51 final size:51
Alignment explanation
Indices: 35623522--35623627 Score: 133
Period size: 51 Copynumber: 2.1 Consensus size: 51
35623512 GAAATATTTC
* * * *
35623522 ACCTAAAAAGGAAGGAGAGGCCAATGCAAAAATCTGCAAAAGGCGCTTTGAG
1 ACCTAAAAA-GAAGGAGAGGCCAAGGCAAAAACCTACAAAAGGCGCCTTGAG
* *
35623574 ACCTAAAAA-AAGGGAGAGGCCAAGGCAAAAACCTACAAAGGGTGCCTTGAG
1 ACCTAAAAAGAA-GGAGAGGCCAAGGCAAAAACCTACAAAAGGCGCCTTGAG
35623625 ACC
1 ACC
35623628 AAAGGGGTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 2 0.04
51 36 0.77
52 9 0.19
ACGTcount: A:0.42, C:0.20, G:0.26, T:0.11
Consensus pattern (51 bp):
ACCTAAAAAGAAGGAGAGGCCAAGGCAAAAACCTACAAAAGGCGCCTTGAG
Found at i:35624768 original size:44 final size:44
Alignment explanation
Indices: 35624616--35624877 Score: 240
Period size: 44 Copynumber: 5.8 Consensus size: 44
35624606 CATATCAGAC
* * * ** *
35624616 CTTATCTCCCTGAAGTTGCAGTGGAACAGGTTAAAAATAAATCAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACA--AAT
* *
35624662 CTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAGGACAGGCTACAAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-A--A-A-GCTACAAAT
* *
35624711 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCACAAA-
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
* *
35624754 CTTTATCTCCCTAAAGTTGCAGTGGAGCA-AGTTAAAGATACTAAT
1 C-TTATCTCCCTAAAGTTGCAGTGGAGCAGA-TTAAAGCTACAAAT
* * * * * *
35624799 CTTATCTCCTTGAAGTTGCAGTGAAGTAGATTGAAGCTACTAAT
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
* * *
35624843 CCTATCTCCCTAAAGTTACAGTGGAGCAGACTAAA
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAA
35624878 ACCGCCAGTC
Statistics
Matches: 179, Mismatches: 28, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
43 2 0.01
44 105 0.59
45 3 0.02
46 30 0.17
47 1 0.01
48 1 0.01
49 33 0.18
50 1 0.01
51 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (44 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
Found at i:35624872 original size:132 final size:137
Alignment explanation
Indices: 35624617--35624877 Score: 343
Period size: 132 Copynumber: 1.9 Consensus size: 137
35624607 ATATCAGACC
* *
35624617 TTATCTCCCTGAAGTTGCAGTGGAACAGGTTAAAAATAAATCAATCTCATCTCCCTGAAGTTGCA
1 TTATCTCCCTAAAGTTGCAGTGGAACAAGTTAAAAATAAATCAATCTCATCTCCCTGAAGTTGCA
* * ** *
35624682 GTGGAGCAGATTGAGGACAGGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAG
66 GTGAAGCAGATT--GGACAGGCTACAAATCCTATCTCCCTAAAGTTACAGTGGAGCAGACTAAAG
35624747 CCACAAACT
129 CCACAAACT
* * * * *
35624756 TTATCTCCCTAAAGTTGCAGTGGAGCAAGTTAAAGAT-ACT-AATCTTATCTCCTTGAAGTTGCA
1 TTATCTCCCTAAAGTTGCAGTGGAACAAGTTAAAAATAAATCAATCTCATCTCCCTGAAGTTGCA
* *
35624819 GTGAAGTAGATT-GA-A-GCTACTAATCCTATCTCCCTAAAGTTACAGTGGAGCAGACTAAA
66 GTGAAGCAGATTGGACAGGCTACAAATCCTATCTCCCTAAAGTTACAGTGGAGCAGACTAAA
35624878 ACCGCCAGTC
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
132 39 0.36
133 1 0.01
134 2 0.02
137 31 0.29
138 2 0.02
139 33 0.31
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (137 bp):
TTATCTCCCTAAAGTTGCAGTGGAACAAGTTAAAAATAAATCAATCTCATCTCCCTGAAGTTGCA
GTGAAGCAGATTGGACAGGCTACAAATCCTATCTCCCTAAAGTTACAGTGGAGCAGACTAAAGCC
ACAAACT
Found at i:35625562 original size:19 final size:17
Alignment explanation
Indices: 35625523--35625576 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 17
35625513 AGAGGTAGTT
*
35625523 TTTTATTCTATTTTTTA
1 TTTTATTTTATTTTTTA
*
35625540 TTTTATTTTATTTCATTTG
1 TTTTATTTTATTT--TTTA
35625559 TTTTATTTTATTATTTTA
1 TTTTATTTTATT-TTTTA
35625577 AAAAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 12 0.39
18 3 0.10
19 15 0.48
20 1 0.03
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTATTTTATTTTTTA
Found at i:35638490 original size:12 final size:13
Alignment explanation
Indices: 35638459--35638491 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
35638449 CTTGATTTAT
35638459 GAAAGAAACAATA
1 GAAAGAAACAATA
*
35638472 GAAAGAAACAGTA
1 GAAAGAAACAATA
35638485 -AAAGAAA
1 GAAAGAAA
35638492 GAGAGACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.70, C:0.06, G:0.18, T:0.06
Consensus pattern (13 bp):
GAAAGAAACAATA
Found at i:35642162 original size:27 final size:28
Alignment explanation
Indices: 35642109--35642166 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
35642099 ATCCTAATAT
35642109 TTAAAATTTATTATAAATAAACAAAACA
1 TTAAAATTTATTATAAATAAACAAAACA
*
35642137 TTAATATTTA-TA-AAATTAAACAAAACA
1 TTAAAATTTATTATAAA-TAAACAAAACA
35642164 TTA
1 TTA
35642167 TGATTAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 3 0.11
27 16 0.57
28 9 0.32
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (28 bp):
TTAAAATTTATTATAAATAAACAAAACA
Found at i:35642176 original size:27 final size:28
Alignment explanation
Indices: 35642125--35642189 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
35642115 TTTATTATAA
*
35642125 ATAAACAAAACATTAATATTTATAA-A-
1 ATAAACAAAACATTAATATTAATAAGAG
35642151 ATTAAACAAAACATT-ATGATTAATAAGAG
1 A-TAAACAAAACATTAAT-ATTAATAAGAG
35642180 ATAAACAAAA
1 ATAAACAAAA
35642190 AATAATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
26 3 0.09
27 20 0.59
28 10 0.29
29 1 0.03
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (28 bp):
ATAAACAAAACATTAATATTAATAAGAG
Found at i:35643503 original size:16 final size:16
Alignment explanation
Indices: 35643482--35643530 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
35643472 TTCGTTGTAT
35643482 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
35643498 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
35643514 TGGAATAAAGACGTAA
1 TGGAATAGAGGCGTAA
35643530 T
1 T
35643531 AGCAATTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:35643561 original size:45 final size:44
Alignment explanation
Indices: 35643510--35643606 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
35643500 GAATAGAGGC
35643510 GTAATGGAATAAAGACGTAATAGCAATTCA-ATTGTTTGGTTGAAT
1 GTAATGGAATAAAGACGTAATAG-AATTCATA-TGTTTGGTTGAAT
* * * *
35643555 GTAATGGAATAGAGGCGTAATAGTATTCTTATGTTTGGTTGAAT
1 GTAATGGAATAAAGACGTAATAGAATTCATATGTTTGGTTGAAT
*
35643599 GGAATGGA
1 GTAATGGA
35643607 GGTGTAATAG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 24 0.52
45 22 0.48
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAAAGACGTAATAGAATTCATATGTTTGGTTGAAT
Found at i:35643785 original size:18 final size:17
Alignment explanation
Indices: 35643762--35643798 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
35643752 AATTATTATT
35643762 AAATATAT-A-TTAATTA
1 AAATATATAATTTAA-TA
35643778 AAATATATAATTTAATA
1 AAATATATAATTTAATA
35643795 AAAT
1 AAAT
35643799 TCTTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:35643792 original size:14 final size:15
Alignment explanation
Indices: 35643755--35643794 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
35643745 TTAACATAAT
35643755 TATT-ATTAAATATA
1 TATTAATTAAATATA
35643769 TATTAATTAAA-ATA
1 TATTAATTAAATATA
*
35643783 TA-TAATTTAATA
1 TATTAATTAAATA
35643795 AAATTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 10 0.43
15 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATTAAATATA
Found at i:35643967 original size:37 final size:37
Alignment explanation
Indices: 35643881--35644202 Score: 115
Period size: 37 Copynumber: 8.3 Consensus size: 37
35643871 TTATTATTAT
* * *
35643881 TAAATATAATTTAATAAAATTCTTAATAT-TAAATATTC
1 TAAATATAATTTAATAAAA-TCATAATATAT-AATAATA
* *
35643919 T-TATATGAATTTACTAAAATCATAATATATAATAATA
1 TAAATAT-AATTTAATAAAATCATAATATATAATAATA
* *
35643956 TAAATATAATTTAA-AATAATTATTATTAAATATAATTTAATAA
1 TAAATATAATTTAATAA-AATCA-TA--ATATATAA--TAAT-A
* * * *
35643999 AAATATATAATTTAATAAAATTCTTAATAT-TAAATATTC
1 TAA-ATATAATTTAATAAAA-TCATAATATAT-AATAATA
* * *
35644038 T-TATATGAATTTACTAAAATCATAATATATAATACTA
1 TAAATAT-AATTTAATAAAATCATAATATATAATAATA
* * *
35644075 CAAAATATAATTTAA-AATTATTATTAA-ATATAATTAGATAA
1 -TAAATATAATTTAATAA-AATCA-TAATATATAA-TA-AT-A
* ** * *
35644116 AAATATATAATTTAATAAAAAAATTTAATAT-TAAATATTC
1 TAA-ATATAATTTAATAAAATCA--TAATATAT-AATAATA
* * *
35644156 T-TATATGAATTTACTAAAATCATAATATATAATACTA
1 TAAATAT-AATTTAATAAAATCATAATATATAATAATA
35644193 -AAATCATAAT
1 TAAAT-ATAAT
35644203 ATATATACTT
Statistics
Matches: 212, Mismatches: 40, Indels: 65
0.67 0.13 0.21
Matches are distributed among these distances:
36 2 0.01
37 63 0.30
38 53 0.25
39 21 0.10
40 14 0.07
41 16 0.08
42 18 0.08
43 7 0.03
44 15 0.07
45 3 0.01
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (37 bp):
TAAATATAATTTAATAAAATCATAATATATAATAATA
Found at i:35643973 original size:21 final size:22
Alignment explanation
Indices: 35643935--35643975 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
35643925 GAATTTACTA
*
35643935 AAATCATAATATATAATAATAT
1 AAATCATAATATAAAATAATAT
*
35643957 AAAT-ATAATTTAAAATAAT
1 AAATCATAATATAAAATAAT
35643976 TATTATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATCATAATATAAAATAATAT
Found at i:35643990 original size:16 final size:17
Alignment explanation
Indices: 35643952--35643996 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
35643942 AATATATAAT
*
35643952 AATATAAATATAATTTA
1 AATATAATTATAATTTA
*
35643969 AA-ATAATTATTA-TTA
1 AATATAATTATAATTTA
35643984 AATATAATT-TAAT
1 AATATAATTATAAT
35643997 AAAAATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
15 7 0.30
16 14 0.61
17 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATAATTATAATTTA
Found at i:35644002 original size:102 final size:102
Alignment explanation
Indices: 35643782--35644000 Score: 388
Period size: 102 Copynumber: 2.2 Consensus size: 102
35643772 TAATTAAAAT
*
35643782 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTATTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
35643847 AATACTATAAAATATAATTAAAAGTTATTATTATTAA
66 AATAATATAAAATATAATTAAAAGTAATTATTATTAA
35643884 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
35643949 AATAATAT-AAATATAATTTAAAA-TAATTATTATTAA
66 AATAATATAAAATATAA-TTAAAAGTAATTATTATTAA
35643985 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
35644001 ATATATAATT
Statistics
Matches: 113, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
101 36 0.32
102 77 0.68
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (102 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATAATATAAAATATAATTAAAAGTAATTATTATTAA
Found at i:35644011 original size:119 final size:115
Alignment explanation
Indices: 35643884--35644202 Score: 516
Period size: 119 Copynumber: 2.7 Consensus size: 115
35643874 TTATTATTAA
35643884 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
35643949 AATAATATAAATATAATTTAAAATAATTATTATTAAATATAATTTA-ATAAAAAT
66 AATACTA-AAATATAATTT--AA-AATTATTATTAAATATAA-TTAGATAAAAAT
35644003 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
35644068 AATACTACAAAATATAATTTAAAATTATTATTAAATATAATTAGATAAAAAT
66 AATACT--AAAATATAATTTAAAATTATTATTAAATATAATTAGATAAAAAT
*
35644120 ATATAATTTAATAAAAAAAT-TTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATAT
1 ATATAATTTAAT--AAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATAT
35644184 ATAATACTAAAATCATAAT
64 ATAATACTAAAAT-ATAAT
35644203 ATATATACTT
Statistics
Matches: 192, Mismatches: 2, Indels: 14
0.92 0.01 0.07
Matches are distributed among these distances:
116 8 0.04
117 43 0.22
118 54 0.28
119 75 0.39
120 11 0.06
121 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (115 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTAAAATATAATTTAAAATTATTATTAAATATAATTAGATAAAAAT
Found at i:35644125 original size:18 final size:18
Alignment explanation
Indices: 35644102--35644136 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35644092 TTATTATTAA
35644102 ATATAA-TTAGATAAAAAT
1 ATATAATTTA-ATAAAAAT
35644120 ATATAATTTAATAAAAA
1 ATATAATTTAATAAAAA
35644137 AATTTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:35644149 original size:19 final size:19
Alignment explanation
Indices: 35644107--35644149 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
35644097 ATTAAATATA
*
35644107 ATTAGATAAAAATATATAAT
1 ATTA-ATAAAAAAATATAAT
*
35644127 -TTAATAAAAAAATTTAAT
1 ATTAATAAAAAAATATAAT
35644145 ATTAA
1 ATTAA
35644150 ATATTCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
ATTAATAAAAAAATATAAT
Found at i:35644184 original size:24 final size:21
Alignment explanation
Indices: 35644167--35644211 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
35644157 TATATGAATT
35644167 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATATAA
35644188 TACTAAAATCATAATATAT-A
1 TACTAAAATCATAATATATAA
35644208 TACT
1 TACT
35644212 TTAATTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATATAA
Found at i:35651758 original size:17 final size:17
Alignment explanation
Indices: 35651732--35651765 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35651722 AGGAGAAGAG
*
35651732 TTAACGTGAAATCTGTA
1 TTAACATGAAATCTGTA
35651749 TTAACATGAAATCTGTA
1 TTAACATGAAATCTGTA
35651766 GGTGGGGGAT
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:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (17 bp):
TTAACATGAAATCTGTA
Found at i:35654096 original size:7 final size:7
Alignment explanation
Indices: 35654086--35654116 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
35654076 TTACGCTTTT
35654086 TTTTTCC
1 TTTTTCC
35654093 TTTTTCC
1 TTTTTCC
35654100 TTTTTCC
1 TTTTTCC
35654107 TTTTTCC
1 TTTTTCC
35654114 TTT
1 TTT
35654117 CTCTTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCC
Found at i:35654096 original size:28 final size:28
Alignment explanation
Indices: 35654044--35654122 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
35654034 CCCTAAAACC
*
35654044 TGCTTTCCTTTTTCTTTTCTTTTTTTTA
1 TGCTTTCCTTTTTCTTTTCTCTTTTTTA
**
35654072 TGCTTTACGCTTTTT-TTTTC-CTTTTTCC
1 TGCTTT-C-CTTTTTCTTTTCTCTTTTTTA
* *
35654100 T-TTTTCCTTTTTCCTTTCTCTTT
1 TGCTTTCCTTTTTCTTTTCTCTTT
35654123 CTTTCATGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
25 6 0.14
26 5 0.12
27 7 0.17
28 12 0.29
29 6 0.14
30 6 0.14
ACGTcount: A:0.03, C:0.23, G:0.04, T:0.71
Consensus pattern (28 bp):
TGCTTTCCTTTTTCTTTTCTCTTTTTTA
Found at i:35655436 original size:19 final size:19
Alignment explanation
Indices: 35655409--35655445 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
35655399 TTGATAGTTG
*
35655409 AAAATTTTTAAAAATAATC
1 AAAAATTTTAAAAATAATC
35655428 AAAAATTTTAAAAATAAT
1 AAAAATTTTAAAAATAAT
35655446 AAATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTTTAAAAATAATC
Found at i:35655451 original size:16 final size:17
Alignment explanation
Indices: 35655409--35655453 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
35655399 TTGATAGTTG
35655409 AAAATTTTTAAAAATAAT
1 AAAA-TTTTAAAAATAAT
35655427 CAAAAATTTTAAAAATAAT
1 --AAAATTTTAAAAATAAT
35655446 -AAATTTTA
1 AAAATTTTA
35655454 TTATAAGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.32
19 13 0.52
20 4 0.16
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTTTAAAAATAAT
Found at i:35656361 original size:14 final size:13
Alignment explanation
Indices: 35656348--35656380 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
35656338 TATTTATTAT
35656348 TTATTATTAGTTA
1 TTATTATTAGTTA
35656361 TTAGTTATTAGTTA
1 TTA-TTATTAGTTA
35656375 TTATTA
1 TTATTA
35656381 AATTAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (13 bp):
TTATTATTAGTTA
Found at i:35656682 original size:14 final size:14
Alignment explanation
Indices: 35656660--35656721 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
35656650 AATAATTAAT
35656660 TAAACATAAAAGAAA
1 TAAA-ATAAAAGAAA
*
35656675 TAAAATAAAGGAAA
1 TAAAATAAAAGAAA
* *
35656689 TAAAGT-AAAGTAAGT
1 TAAAATAAAAG-AA-A
35656704 TAAAATAAAAG-AA
1 TAAAATAAAAGAAA
35656717 TAAAA
1 TAAAA
35656722 GGAACAAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
13 8 0.21
14 17 0.45
15 9 0.24
16 4 0.11
ACGTcount: A:0.69, C:0.02, G:0.11, T:0.18
Consensus pattern (14 bp):
TAAAATAAAAGAAA
Found at i:35656775 original size:11 final size:11
Alignment explanation
Indices: 35656759--35656784 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35656749 TAGAAGAGAC
35656759 GAAACAGGGGA
1 GAAACAGGGGA
35656770 GAAACAGGGGA
1 GAAACAGGGGA
35656781 GAAA
1 GAAA
35656785 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:35657457 original size:3 final size:3
Alignment explanation
Indices: 35657443--35657474 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
35657433 GTGAGGTAAG
*
35657443 TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
35657475 AAATGAGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:35660965 original size:16 final size:16
Alignment explanation
Indices: 35660944--35660999 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
35660934 CGTTTGGTTC
35660944 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* * *
35660960 GCTGTAATTGAGTAGG
1 GCTGTAATGGAATAGA
* *
35660976 GTTGTAATGGAATAAA
1 GCTGTAATGGAATAGA
35660992 GCTGTAAT
1 GCTGTAAT
35661000 AAGTAATTCA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:35661486 original size:12 final size:12
Alignment explanation
Indices: 35661469--35661493 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35661459 TTGTTTCATC
35661469 TGGGGCAAATTA
1 TGGGGCAAATTA
35661481 TGGGGCAAATTA
1 TGGGGCAAATTA
35661493 T
1 T
35661494 AGGTTTAATT
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:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (12 bp):
TGGGGCAAATTA
Found at i:35668625 original size:69 final size:71
Alignment explanation
Indices: 35668552--35668731 Score: 211
Period size: 75 Copynumber: 2.5 Consensus size: 71
35668542 TTTGATAATA
* *
35668552 TGTAAATAAGTAAATTATTGATATAGAAATACAATATA-AA-CAATTTTTTTTTCATTTTTTAGG
1 TGTAAATAAGTAAATTATTGATGTAAAAATACAATATACAAGCAATTTTTTTTTCATTTTTTAGG
35668615 GTAAAT
66 GTAAAT
* * *
35668621 TGTAAATAAGTAGATTATTGATGTAAAAACAAAATAGAATACAATGCAATTTTTTTTTCATTTTT
1 TGTAAATAAGTAAATTATTGATGTAAAAATACAAT---ATACAA-GCAATTTTTTTTTCATTTTT
**
35668686 TTTGGTAAAT
62 TAGGGTAAAT
* * * *
35668696 TGTGAATGAGTATATTATTGATGTAAAAATTCAATA
1 TGTAAATAAGTAAATTATTGATGTAAAAATACAATA
35668732 CAATATACAA
Statistics
Matches: 92, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
69 30 0.33
72 4 0.04
73 2 0.02
75 56 0.61
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.42
Consensus pattern (71 bp):
TGTAAATAAGTAAATTATTGATGTAAAAATACAATATACAAGCAATTTTTTTTTCATTTTTTAGG
GTAAAT
Found at i:35668965 original size:18 final size:18
Alignment explanation
Indices: 35668929--35668981 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
35668919 TCTTCATCTT
* **
35668929 CATCTTCACCTCCGTCTC
1 CATCTCCACCTCCACCTC
35668947 CATCTCCACCTCCACCTC
1 CATCTCCACCTCCACCTC
* *
35668965 CACCTCCACCTACACCT
1 CATCTCCACCTCCACCT
35668982 ACACCTTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.17, C:0.57, G:0.02, T:0.25
Consensus pattern (18 bp):
CATCTCCACCTCCACCTC
Found at i:35668973 original size:6 final size:6
Alignment explanation
Indices: 35668944--35668987 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
35668934 TCACCTCCGT
* * *
35668944 CTCCAT CTCCAC CTCCAC CTCCAC CTCCAC CTACAC CTACAC CT
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CT
35668988 TCATCTTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.20, C:0.59, G:0.00, T:0.20
Consensus pattern (6 bp):
CTCCAC
Found at i:35677395 original size:41 final size:39
Alignment explanation
Indices: 35677267--35677424 Score: 111
Period size: 41 Copynumber: 3.8 Consensus size: 39
35677257 GCGATTCGAG
* * * *
35677267 ATAGCTTTGGCTATTTATGGCACTTAGTGTGC-GATTGGGA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGGATT--AA
* * * *
35677307 ATAGCTTCGACTATATATATGGCACTTAGTGTGTGAGACTTAG
1 ATAGCTTCGGCTATGTA-A-GGCACTTAGTGTGCG-GA-TTAA
*
35677350 ATAGCTTCGGCTATGTAAAGCACTTAGTGTGCGGGATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGC-GGATTA-A
* * * *
35677391 ATAGCTTTGGCTATGCGATGGCATTTAGTGTGCG
1 ATAGCTTCGGCTATG-TAAGGCACTTAGTGTGCG
35677425 AAACATTAAG
Statistics
Matches: 93, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
40 17 0.18
41 29 0.31
42 28 0.30
43 15 0.16
44 2 0.02
45 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (39 bp):
ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCGGATTAA
Found at i:35682331 original size:15 final size:14
Alignment explanation
Indices: 35682303--35682353 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
35682293 ACTAAATTTT
35682303 AAAG-AAAAATAAA
1 AAAGTAAAAATAAA
*
35682316 AAAGCTAAAGAT-AA
1 AAAG-TAAAAATAAA
35682330 AAAGTAAAAATAAA
1 AAAGTAAAAATAAA
35682344 GAAAGTAAAA
1 -AAAGTAAAA
35682354 GCAACAAGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 10 0.31
14 8 0.25
15 14 0.44
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAGTAAAAATAAA
Found at i:35693417 original size:29 final size:29
Alignment explanation
Indices: 35693380--35693538 Score: 221
Period size: 29 Copynumber: 5.5 Consensus size: 29
35693370 TTTTCGTATC
*
35693380 GAAGCCTTTGTGGCTATCTTTGTTAAAAG
1 GAAGCCTTTGTGGCTATCTCTGTTAAAAG
35693409 GAAGCCTTTGTGGCTATCT-TCGTTAAAAG
1 GAAGCCTTTGTGGCTATCTCT-GTTAAAAG
* * * *
35693438 AAAGCCTTTGTGTCGATCTATGTTAAAAG
1 GAAGCCTTTGTGGCTATCTCTGTTAAAAG
* *
35693467 GAAGCCTTTATGGCTATCTCTATTAAAAG
1 GAAGCCTTTGTGGCTATCTCTGTTAAAAG
* *
35693496 AAAGCCTTTATGGCTATCTCTGTTAAAAG
1 GAAGCCTTTGTGGCTATCTCTGTTAAAAG
35693525 GAAGCCTTTGTGGC
1 GAAGCCTTTGTGGC
35693539 GATTGTAAAC
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
28 1 0.01
29 113 0.98
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (29 bp):
GAAGCCTTTGTGGCTATCTCTGTTAAAAG
Found at i:35693481 original size:87 final size:87
Alignment explanation
Indices: 35693380--35693541 Score: 245
Period size: 87 Copynumber: 1.9 Consensus size: 87
35693370 TTTTCGTATC
* * * * *
35693380 GAAGCCTTTGTGGCTATCTTTGTTAAAAGGAAGCCTTTGTGGCTATCT-TCGTTAAAAGAAAGCC
1 GAAGCCTTTATGGCTATCTCTATTAAAAGAAAGCCTTTATGGCTATCTCT-GTTAAAAGAAAGCC
*
35693444 TTTGTGTCGATCTATGTTAAAAG
65 TTTGTGGCGATCTATGTTAAAAG
*
35693467 GAAGCCTTTATGGCTATCTCTATTAAAAGAAAGCCTTTATGGCTATCTCTGTTAAAAGGAAGCCT
1 GAAGCCTTTATGGCTATCTCTATTAAAAGAAAGCCTTTATGGCTATCTCTGTTAAAAGAAAGCCT
35693532 TTGTGGCGAT
66 TTGTGGCGAT
35693542 TGTAAACTCT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
87 66 0.99
88 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (87 bp):
GAAGCCTTTATGGCTATCTCTATTAAAAGAAAGCCTTTATGGCTATCTCTGTTAAAAGAAAGCCT
TTGTGGCGATCTATGTTAAAAG
Found at i:35695446 original size:13 final size:13
Alignment explanation
Indices: 35695427--35695457 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
35695417 TCTGACGCAC
35695427 ACTATCCCTTGTA
1 ACTATCCCTTGTA
*
35695440 TCTATCCCTTGTA
1 ACTATCCCTTGTA
35695453 ACTAT
1 ACTAT
35695458 ACGGAGTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (13 bp):
ACTATCCCTTGTA
Found at i:35700735 original size:674 final size:675
Alignment explanation
Indices: 35699443--35700792 Score: 2594
Period size: 674 Copynumber: 2.0 Consensus size: 675
35699433 TAAGATTATG
35699443 ACTTTCTTGTTGAATTGATTTTACTACCTTTTAATGAATTTGATGTTACACTGAGAATGAATTGG
1 ACTTTCTTGTTGAATTGATTTTACTACCTTTTAATGAATTTGATGTTACACTGAGAATGAATTGG
35699508 TTGACTGTTAACAATGCTATAGTGAATTGTTGATGGAAATGGATTGATTGAGATGCTAGAGCGGT
66 TTGACTGTTAACAATGCTATAGTGAATTGTTGATGGAAATGGATTGATTGAGATGCTAGAGCGGT
35699573 GAATTAATTTCTGTTGAATCTGATAAGTCTGATTGTGTTTCGAATATGATTTCAGAGATATTTGT
131 GAATTAATTTCTGTTGAATCTGATAAGTCTGATTGTGTTTCGAATATGATTTCAGAGATATTTGT
*
35699638 GTAGAAATTGATCCGAAAAGGCTGTAATGGATTTTTATGCGTATGCCATGGATTCCAAATTATCA
196 GTAGAAATTGATCCGAAAAGGCTGTAATGGATTTTTATGCGTATGCCATGGATTCCAAAGTATCA
35699703 AAAATTAAAGTTTTTCAAGTACTGACAGTTTACGAGTTTATAGATGTTTTTTTCCGGAGAAAATG
261 AAAATTAAAGTTTTTCAAGTACTGACAGTTTACGAGTTTATAGATGTTTTTTTCCGGAGAAAATG
35699768 TCGGGTTTACCGCCAAAGCTAGAAGATGAGTTTGCTATAAAATTAATATCAGGGACTGCTTCGAT
326 TCGGGTTTACCGCCAAAGCTAGAAGATGAGTTTGCTATAAAATTAATATCAGGGACTGCTTCGAT
*
35699833 CTCGATTGCTTCGTACAAAATGTCTGCAATAGAATTAAAAGAATTAAAATTTTAGTTGCAATAAT
391 CTCGATTGCTTCGTACAAAATGTCTCCAATAGAATTAAAAGAATTAAAATTTTAGTTGCAATAAT
35699898 TAATCGACAAAGGTTTTATCTGACTGAATGTATCACCTTAGGACGTACCTGTACTGTTTATAAAC
456 TAATCGACAAAGGTTTTATCTGACTGAATGTATCACCTTAGGACGTACCTGTACTGTTTATAAAC
*
35699963 AGAAGATGAGTCGATGAGATTGTGTATAGATTATCAAAATTTTAATAAAGTCGCGATAAGGAATA
521 AGAAGATGAGTCGATGAGATTGTGTATAGATTATCAAAATTTGAATAAAGTCGCGATAAGGAATA
*
35700028 AATATTTGTTACCCTGTATTTTTTATTTATTTGATCAGTTGAAAGGAGCCACAGTATTTTCGAAG
586 AATATTTGTTACCCTGTATTTTTTATTTATTTGATCAGTTGAAAGGAGCCACAATATTTTCGAAG
35700093 ATTGATCTCAGATTTGGTTTCTATC
651 ATTGATCTCAGATTTGGTTTCTATC
**
35700118 ACTTTCTTGTTGAATTGATTTTACTGTCTTTTAATGAATTTGATGTTACACTGAGAATGAATTGG
1 ACTTTCTTGTTGAATTGATTTTACTACCTTTTAATGAATTTGATGTTACACTGAGAATGAATTGG
35700183 TTGACTGTTAACAATGCTATAGTGAATTGTTGATGGAAATGGATTGATTGAGATGCTAGAGCGGT
66 TTGACTGTTAACAATGCTATAGTGAATTGTTGATGGAAATGGATTGATTGAGATGCTAGAGCGGT
*
35700248 GAATTAATTTCTGTTGAATCTGATAAGTCTGATTGTGTTTCGAATATGATTTTAGAGATATTTGT
131 GAATTAATTTCTGTTGAATCTGATAAGTCTGATTGTGTTTCGAATATGATTTCAGAGATATTTGT
35700313 GTAGAAATTGATCCGAAAAGGCTGTAATGGATTTTTATGCGTATGCCATGGATTCCAAAGTATCA
196 GTAGAAATTGATCCGAAAAGGCTGTAATGGATTTTTATGCGTATGCCATGGATTCCAAAGTATCA
35700378 AAAATTAAAGTTTTTCAAGTACTGACAGTTTACGAGTTTATAGATG-TTTTTTCCGGAGAAAATG
261 AAAATTAAAGTTTTTCAAGTACTGACAGTTTACGAGTTTATAGATGTTTTTTTCCGGAGAAAATG
35700442 TCGGGTTTACCGCCAAAGCTAGAAGATGAGTTTGCTATAAAATTAATATCAGGGACTGCTTCGAT
326 TCGGGTTTACCGCCAAAGCTAGAAGATGAGTTTGCTATAAAATTAATATCAGGGACTGCTTCGAT
*
35700507 CTCGATTGTTTCGTACAAAATGTCTCCAATAGAATTAAAAGAATTAAAATTTTAGTTGCAATAAT
391 CTCGATTGCTTCGTACAAAATGTCTCCAATAGAATTAAAAGAATTAAAATTTTAGTTGCAATAAT
*
35700572 TAATCGACAAAGGTTTTATCTGACTGAATGTATCACCTTAGGACGTACCTGTACTGTTTGTAAAC
456 TAATCGACAAAGGTTTTATCTGACTGAATGTATCACCTTAGGACGTACCTGTACTGTTTATAAAC
35700637 AGAAGATGAGTCGATGAGATTGTGTATAGATTATCAAAATTTGAATAAAGTCGCGATAAGGAATA
521 AGAAGATGAGTCGATGAGATTGTGTATAGATTATCAAAATTTGAATAAAGTCGCGATAAGGAATA
*
35700702 AATATTTGTTACCCTGTATTTTTTATTTATTTGATCAGTTGAAAGGAGCCACAATATTTTCGAAT
586 AATATTTGTTACCCTGTATTTTTTATTTATTTGATCAGTTGAAAGGAGCCACAATATTTTCGAAG
*
35700767 ATTGATCTTAGATTTGGTTTCTATC
651 ATTGATCTCAGATTTGGTTTCTATC
35700792 A
1 A
35700793 GTTGTGACCT
Statistics
Matches: 664, Mismatches: 11, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
674 362 0.55
675 302 0.45
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (675 bp):
ACTTTCTTGTTGAATTGATTTTACTACCTTTTAATGAATTTGATGTTACACTGAGAATGAATTGG
TTGACTGTTAACAATGCTATAGTGAATTGTTGATGGAAATGGATTGATTGAGATGCTAGAGCGGT
GAATTAATTTCTGTTGAATCTGATAAGTCTGATTGTGTTTCGAATATGATTTCAGAGATATTTGT
GTAGAAATTGATCCGAAAAGGCTGTAATGGATTTTTATGCGTATGCCATGGATTCCAAAGTATCA
AAAATTAAAGTTTTTCAAGTACTGACAGTTTACGAGTTTATAGATGTTTTTTTCCGGAGAAAATG
TCGGGTTTACCGCCAAAGCTAGAAGATGAGTTTGCTATAAAATTAATATCAGGGACTGCTTCGAT
CTCGATTGCTTCGTACAAAATGTCTCCAATAGAATTAAAAGAATTAAAATTTTAGTTGCAATAAT
TAATCGACAAAGGTTTTATCTGACTGAATGTATCACCTTAGGACGTACCTGTACTGTTTATAAAC
AGAAGATGAGTCGATGAGATTGTGTATAGATTATCAAAATTTGAATAAAGTCGCGATAAGGAATA
AATATTTGTTACCCTGTATTTTTTATTTATTTGATCAGTTGAAAGGAGCCACAATATTTTCGAAG
ATTGATCTCAGATTTGGTTTCTATC
Found at i:35706000 original size:30 final size:30
Alignment explanation
Indices: 35705923--35706020 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 30
35705913 AAAGTGTATG
*
35705923 ATTGAATCAAAATTAAAGATTCATATATACA
1 ATTGAA-CCAAATTAAAGATTCATATATACA
* * *
35705954 TTTGAACCACAATTAAAGATTCATGTGTACA
1 ATTGAACCA-AATTAAAGATTCATATATACA
* * *
35705985 ATTGCACTAAATTAAAG-TTTATATAT-CAA
1 ATTGAACCAAATTAAAGATTCATATATAC-A
35706014 ATTGAAC
1 ATTGAAC
35706021 ATTAAATCAA
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
28 1 0.02
29 13 0.24
30 10 0.19
31 30 0.56
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (30 bp):
ATTGAACCAAATTAAAGATTCATATATACA
Found at i:35708332 original size:37 final size:37
Alignment explanation
Indices: 35708247--35708333 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
35708237 ACACAAGTAG
35708247 TCCAACCGA-AACACGCCAAACGCTCATAAGAGCTAA
1 TCCAACCGATAACACGCCAAACGCTCATAAGAGCTAA
** ** *
35708283 TCCAACTAATAACACGCCAAGTGCTCATGAGAGCTAA
1 TCCAACCGATAACACGCCAAACGCTCATAAGAGCTAA
35708320 TCCAACCGATAACA
1 TCCAACCGATAACA
35708334 TGCCTCGGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 7 0.16
37 36 0.84
ACGTcount: A:0.40, C:0.31, G:0.14, T:0.15
Consensus pattern (37 bp):
TCCAACCGATAACACGCCAAACGCTCATAAGAGCTAA
Found at i:35709141 original size:688 final size:688
Alignment explanation
Indices: 35707814--35709191 Score: 2558
Period size: 688 Copynumber: 2.0 Consensus size: 688
35707804 GACGTAACAA
35707814 CCTATTACATGCCATATAATCCAAAATAAATGTTCAAAAACTACCGAAATCGAATGGATAATGTG
1 CCTATTACATGCCATATAATCCAAAATAAATGTTCAAAAACTACCGAAATCGAATGGATAATGTG
35707879 ACTTGAGTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGCAAGTAACACA
66 ACTTGAGTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGCAAGTAACACA
*
35707944 AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTATAGAAGTAAATAT
131 AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTACAGAAGTAAATAT
*
35708009 AACAATTTAATCAAACATAATTCAACAACTAATGTTTCTTGTCATCAAAAATTGCAAACCGGTGA
196 AACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATCAAAAATTGCAAACCGGTGA
*
35708074 ATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTTGGAAAACATACATGTCCACTACGAAGT
261 ATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCCACTACGAAGT
* *
35708139 TAATTCAAAACATCAAGTAGTAGTCATGCCATTCAAATTCATTAAACAAGTTATAATACAATAAT
326 TAATTCAAAACATCAAGTAGTAGTCATGCCATTCAAAGTCATTAAACAAGTTATAATACAATAAA
35708204 TTACGACCTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAACCGAAACACGCCAAACG
391 TTACGACCTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAACCGAAACACGCCAAACG
* *
35708269 CTCATAAGAGCTAATCCAACTAATAACACGCCAAGTGCTCATGAGAGCTAATCCAACCGATAACA
456 CTCATAAGAGCTAATCCAACTAATAACACGCCAAGTGCACATGAGAGCTAATCCAAACGATAACA
*
35708334 TGCCTCGGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACACGCTAGAACAAAA
521 TGCCTCAGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACACGCTAGAACAAAA
35708399 TAGTATAACACGAGAGTTAGCAACAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAAC
586 TAGTATAACACGAGAGTTAGCAACAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAAC
35708464 ACGCCACATCAATCTCCACTCCAACCCAGCATAACACG
651 ACGCCACATCAATCTCCACTCCAACCCAGCATAACACG
* * * *
35708502 CCTATTTCATTCCATATAATCCAAAATAAATGTTCAAAAACTGCCGAAATCGAATGGATAGTGTG
1 CCTATTACATGCCATATAATCCAAAATAAATGTTCAAAAACTACCGAAATCGAATGGATAATGTG
35708567 ACTTGAGTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGCAAGTAACACA
66 ACTTGAGTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGCAAGTAACACA
*
35708632 AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTACCGAAGTAAATAT
131 AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTACAGAAGTAAATAT
*
35708697 AACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATCAACAATTGCAAACCGGTGA
196 AACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATCAAAAATTGCAAACCGGTGA
35708762 ATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCCACTACGAAGT
261 ATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCCACTACGAAGT
35708827 TAATTCAAAACATCAAGTAGTAGTCATGCCATTCAAAGTCATTAAACAAGTTATAATACAATAAA
326 TAATTCAAAACATCAAGTAGTAGTCATGCCATTCAAAGTCATTAAACAAGTTATAATACAATAAA
* *
35708892 TTACGACTTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAACCGAAACACGCCAAATG
391 TTACGACCTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAACCGAAACACGCCAAACG
* * *
35708957 CTTATAAGAGCTAATCCAACTACTAAGACGCCAAGTGCACATGAGAGCTAATCCAAACGATAACA
456 CTCATAAGAGCTAATCCAACTAATAACACGCCAAGTGCACATGAGAGCTAATCCAAACGATAACA
35709022 TGCCTCAGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACACGCTAGAACAAAA
521 TGCCTCAGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACACGCTAGAACAAAA
* *
35709087 TAGTATAACACGAGAGTTAGCACCAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAGC
586 TAGTATAACACGAGAGTTAGCAACAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAAC
*
35709152 ACGCCACATCAATCTCCACTCCAACCCCGCATAACACG
651 ACGCCACATCAATCTCCACTCCAACCCAGCATAACACG
35709190 CC
1 CC
35709192 ATCATTCAGT
Statistics
Matches: 668, Mismatches: 22, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
688 668 1.00
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (688 bp):
CCTATTACATGCCATATAATCCAAAATAAATGTTCAAAAACTACCGAAATCGAATGGATAATGTG
ACTTGAGTGCTGATCTGATCACTCGTCTCACGAAAAGATATCTACAAGAAAATGCAAGTAACACA
AGTAAGCTTATTGAAGCTTAGTAAGTTCGATGGACAGAAACAATGAATCTTACAGAAGTAAATAT
AACAATTTAATCAAACATAATTCAACAACTAATGTTTCATGTCATCAAAAATTGCAAACCGGTGA
ATTACATAGTTCAATTCAAAGCTCAAATAATAATTTTCGGAAAACATACATGTCCACTACGAAGT
TAATTCAAAACATCAAGTAGTAGTCATGCCATTCAAAGTCATTAAACAAGTTATAATACAATAAA
TTACGACCTGATGAATGCCTTACAGATACGAGTACACAAGTAGTCCAACCGAAACACGCCAAACG
CTCATAAGAGCTAATCCAACTAATAACACGCCAAGTGCACATGAGAGCTAATCCAAACGATAACA
TGCCTCAGTACTAAGTGCCTAGCCCGTAGGCTATACATCTGCCCCCATAACACGCTAGAACAAAA
TAGTATAACACGAGAGTTAGCAACAAATGTTGAACCTTGGTATACTCGAGAAGAATATATAAAAC
ACGCCACATCAATCTCCACTCCAACCCAGCATAACACG
Found at i:35713168 original size:21 final size:21
Alignment explanation
Indices: 35713142--35713189 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
35713132 TAGGTTAACA
* *
35713142 TCGCAACTCCAGGGTTCTAGG
1 TCGCAACTCCAGGGTTCCAAG
*
35713163 TCGCAACTCTAGGGTTCCAAG
1 TCGCAACTCCAGGGTTCCAAG
35713184 TCGCAA
1 TCGCAA
35713190 TGCCACTCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (21 bp):
TCGCAACTCCAGGGTTCCAAG
Found at i:35713581 original size:20 final size:21
Alignment explanation
Indices: 35713541--35713587 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
35713531 TATAAACAGG
35713541 TAGAATTATTATTCCAGAAAA
1 TAGAATTATTATTCCAGAAAA
* *
35713562 TAGAATTTTTATT-TAGAAAA
1 TAGAATTATTATTCCAGAAAA
35713582 TA-AATT
1 TAGAATT
35713588 CTCACTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 8 0.33
21 12 0.50
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (21 bp):
TAGAATTATTATTCCAGAAAA
Found at i:35715520 original size:25 final size:25
Alignment explanation
Indices: 35715490--35715572 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 25
35715480 ATCCCGATAT
*
35715490 ATGGCTCTTCGGAGCTTCCCGATTGA
1 ATGGCTCTTCGGAGCTTCCCAATT-A
* *
35715516 A-GGCTCTTTCATGAGCTTCCTAATTA
1 ATGGCTC-TTC-GGAGCTTCCCAATTA
*
35715542 ATGGCTCTTTGGAGCTTCCCAA-TA
1 ATGGCTCTTCGGAGCTTCCCAATTA
*
35715566 TTGGCTC
1 ATGGCTC
35715573 GCTTGAACTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
24 8 0.17
25 15 0.32
26 8 0.17
27 16 0.34
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (25 bp):
ATGGCTCTTCGGAGCTTCCCAATTA
Found at i:35716927 original size:34 final size:34
Alignment explanation
Indices: 35716879--35716958 Score: 135
Period size: 34 Copynumber: 2.4 Consensus size: 34
35716869 TTCAAATGCC
*
35716879 CACATGGCCTGAGAC-ACGGGTGTGTCTCTTGGCT
1 CACACGGCCTGAGACTA-GGGTGTGTCTCTTGGCT
35716913 CACACGGCCTGAGACTAGGGTGTGTCTCTTGGCT
1 CACACGGCCTGAGACTAGGGTGTGTCTCTTGGCT
35716947 CACACGGCCTGA
1 CACACGGCCTGA
35716959 CCACGCGAGC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
34 43 0.98
35 1 0.02
ACGTcount: A:0.16, C:0.29, G:0.31, T:0.24
Consensus pattern (34 bp):
CACACGGCCTGAGACTAGGGTGTGTCTCTTGGCT
Found at i:35746503 original size:33 final size:33
Alignment explanation
Indices: 35746460--35746548 Score: 137
Period size: 32 Copynumber: 2.8 Consensus size: 33
35746450 CTAGGCCTAT
* *
35746460 TTGGGTGTGTGAGCCCATACGGGCAGAGCCAAA
1 TTGGGCGTGTGAGGCCATACGGGCAGAGCCAAA
*
35746493 TTGGGCGTGTG-GGCCACACGGGCAGAGCCAAA
1 TTGGGCGTGTGAGGCCATACGGGCAGAGCCAAA
35746525 TTGGGCGTGT-AGGCCATACGGGCA
1 TTGGGCGTGTGAGGCCATACGGGCA
35746549 TGTGGGCCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
32 41 0.80
33 10 0.20
ACGTcount: A:0.21, C:0.22, G:0.39, T:0.17
Consensus pattern (33 bp):
TTGGGCGTGTGAGGCCATACGGGCAGAGCCAAA
Found at i:35748927 original size:78 final size:78
Alignment explanation
Indices: 35748798--35748942 Score: 182
Period size: 78 Copynumber: 1.9 Consensus size: 78
35748788 AACCATCGCT
* * * * * *
35748798 AAATAATGATTCGATGCTACTCACTTAAGCTGTCGAGAATCCACAAATTATGTTAGATCTCAGCC
1 AAATAATAATTCCATGCTACTCACTCAAGCTATCAAGAATCCACAAATTATGCTAGATCTCAGCC
35748863 ATAGCGGATTGCA
66 ATAGCGGATTGCA
* * * * * *
35748876 AAATAATAATTCCATGTTGCTCACTCAAGCTATCAAGAATTCACAATTTATGCTGGATCTTAGCC
1 AAATAATAATTCCATGCTACTCACTCAAGCTATCAAGAATCCACAAATTATGCTAGATCTCAGCC
35748941 AT
66 AT
35748943 TGAATAAATC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
78 55 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (78 bp):
AAATAATAATTCCATGCTACTCACTCAAGCTATCAAGAATCCACAAATTATGCTAGATCTCAGCC
ATAGCGGATTGCA
Found at i:35751688 original size:36 final size:36
Alignment explanation
Indices: 35751641--35751712 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
35751631 ATGAAAACTT
*
35751641 AAAATTAGTTCAATTAAGTATTAATGTTAAATCTTG
1 AAAATTAGTTCAATTAAGTATCAATGTTAAATCTTG
35751677 AAAATTAGTTCAATTAAGTATCAATGTTAAATCTTG
1 AAAATTAGTTCAATTAAGTATCAATGTTAAATCTTG
35751713 TCTGTTGACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (36 bp):
AAAATTAGTTCAATTAAGTATCAATGTTAAATCTTG
Found at i:35766599 original size:22 final size:19
Alignment explanation
Indices: 35766581--35766731 Score: 87
Period size: 22 Copynumber: 7.6 Consensus size: 19
35766571 ACCAAAAATT
35766581 TATTTTAAAAATTAAAAAA
1 TATTTTAAAAATTAAAAAA
*
35766600 GTATTTTAAAAGTATTTTAAAAA
1 -TATTTTAAAA--A-TTAAAAAA
35766623 TATTTT-AAAATTAAAAAAA
1 TATTTTAAAAATT-AAAAAA
* * *
35766642 AATTTAAAAAGTATTTTAAAAA
1 TATTTTAAAA--A-TTAAAAAA
35766664 TATTTT-AAAATT-AAAAA
1 TATTTTAAAAATTAAAAAA
* ** *
35766681 TAATAAAAAAGTATTTTAAAAA
1 TATTTTAAAA--A-TTAAAAAA
35766703 TATTTT-AAAATTAAAAAA
1 TATTTTAAAAATTAAAAAA
*
35766721 -ATTTAAAAAAT
1 TATTTTAAAAAT
35766732 AAATATATTT
Statistics
Matches: 102, Mismatches: 15, Indels: 30
0.69 0.10 0.20
Matches are distributed among these distances:
17 12 0.12
18 19 0.19
19 12 0.12
20 14 0.14
21 11 0.11
22 25 0.25
23 9 0.09
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
TATTTTAAAAATTAAAAAA
Found at i:35766612 original size:11 final size:11
Alignment explanation
Indices: 35766595--35766712 Score: 85
Period size: 11 Copynumber: 11.4 Consensus size: 11
35766585 TTAAAAATTA
35766595 AAAAAGTATTTT
1 AAAAA-TATTTT
*
35766607 AAAAGTATTTT
1 AAAAATATTTT
35766618 AAAAATATTTT
1 AAAAATATTTT
*
35766629 --AAA-A-TTA
1 AAAAATATTTT
* *
35766636 AAAAAAAATTT
1 AAAAATATTTT
35766647 AAAAAGTATTTT
1 AAAAA-TATTTT
35766659 AAAAATATTTT
1 AAAAATATTTT
35766670 --AAA-A--TT
1 AAAAATATTTT
* *
35766676 AAAAATA-ATA
1 AAAAATATTTT
35766686 AAAAAGTATTTT
1 AAAAA-TATTTT
35766698 AAAAATATTTT
1 AAAAATATTTT
35766709 AAAA
1 AAAA
35766713 TTAAAAAAAT
Statistics
Matches: 86, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 5 0.06
9 10 0.12
10 7 0.08
11 41 0.48
12 19 0.22
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:35766638 original size:41 final size:40
Alignment explanation
Indices: 35766581--35766729 Score: 221
Period size: 39 Copynumber: 3.7 Consensus size: 40
35766571 ACCAAAAATT
*
35766581 TATTTTAAAAATTAAAAAAGTATTTTAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAAAA-TATTTAAAAAGTATTTTAAAAA
*
35766623 TATTTTAAAATTAAAAAAAAATTTAAAAAGTATTTTAAAAA
1 TATTTTAAAATT-AAAAAATATTTAAAAAGTATTTTAAAAA
* *
35766664 TATTTTAAAATT-AAAAATAATAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAATATTTAAAAAGTATTTTAAAAA
35766703 TATTTTAAAATTAAAAAA-ATTTAAAAA
1 TATTTTAAAATTAAAAAATATTTAAAAA
35766730 ATAAATATAT
Statistics
Matches: 98, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
39 43 0.44
40 5 0.05
41 38 0.39
42 12 0.12
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAATATTTAAAAAGTATTTTAAAAA
Found at i:35766691 original size:39 final size:40
Alignment explanation
Indices: 35766581--35766730 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 40
35766571 ACCAAAAATT
* **
35766581 TATTTTAAAAATTAAAAAAGTATTTTAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAAAA-AATTAAAAAAGTATTTTAAAAA
*
35766623 TATTTTAAAATTAAAAAAAAATTTAAAAAGTATTTTAAAAA
1 TATTTTAAAATT-AAAAAAAATTAAAAAAGTATTTTAAAAA
*
35766664 TATTTTAAAATTAAAAATAA-TAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAGTATTTTAAAAA
*
35766703 TATTTTAAAATTAAAAAAATTTAAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAA
35766731 TAAATATATT
Statistics
Matches: 100, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
39 36 0.36
40 14 0.14
41 38 0.38
42 12 0.12
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAAATTAAAAAAGTATTTTAAAAA
Found at i:35766742 original size:17 final size:17
Alignment explanation
Indices: 35766697--35766742 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
35766687 AAAAGTATTT
* *
35766697 TAAAAATATTTTAAAAT
1 TAAAAATATTTAAAAAA
*
35766714 TAAAAAAATTTAAAAAA
1 TAAAAATATTTAAAAAA
*
35766731 TAAATATATTTA
1 TAAAAATATTTA
35766743 TTATATCGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATATTTAAAAAA
Found at i:35766759 original size:5 final size:5
Alignment explanation
Indices: 35766749--35766780 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
35766739 TTTATTATAT
35766749 CGGGC CGGGC CGGGC CGGGC CGGGCC CGGGC C
1 CGGGC CGGGC CGGGC CGGGC CGGG-C CGGGC C
35766781 AAAAAAGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.44, G:0.56, T:0.00
Consensus pattern (5 bp):
CGGGC
Found at i:35771668 original size:25 final size:25
Alignment explanation
Indices: 35771634--35771833 Score: 202
Period size: 25 Copynumber: 8.2 Consensus size: 25
35771624 CATCAATAAC
35771634 TAAAATAAGGACTTTAATATTTTAT
1 TAAAATAAGGACTTTAATATTTTAT
* *
35771659 TAAAATAAGGAC--TAATCA-ATAAT
1 TAAAATAAGGACTTTAAT-ATTTTAT
*
35771682 TAAAATAAGGACTTGAATATTTTAT
1 TAAAATAAGGACTTTAATATTTTAT
* *
35771707 TAAAATAAGGAC--TAATCA-ATAAT
1 TAAAATAAGGACTTTAAT-ATTTTAT
35771730 TAAAATAAGGACTTTAATATTTTAT
1 TAAAATAAGGACTTTAATATTTTAT
* *
35771755 TAAAATAAGGAC--TAATCA-ATAAT
1 TAAAATAAGGACTTTAAT-ATTTTAT
35771778 TAAAATAAGGACTTTAATATTTTAT
1 TAAAATAAGGACTTTAATATTTTAT
* * *
35771803 TAAAAATCAAGAAATTTAATATTTTAA
1 T-AAAAT-AAGGACTTTAATATTTTAT
35771830 TAAA
1 TAAA
35771834 GAAATTTAAA
Statistics
Matches: 144, Mismatches: 17, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
23 56 0.39
24 6 0.04
25 57 0.40
26 8 0.06
27 17 0.12
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.36
Consensus pattern (25 bp):
TAAAATAAGGACTTTAATATTTTAT
Found at i:35771683 original size:23 final size:23
Alignment explanation
Indices: 35771625--35771790 Score: 167
Period size: 23 Copynumber: 7.0 Consensus size: 23
35771615 TAAAAATTAC
*
35771625 ATCAATAACTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
* *
35771650 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
35771673 ATCAATAATTAAAATAAGGACTTGA
1 ATCAATAATTAAAATAAGGAC-T-A
* *
35771698 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
35771721 ATCAATAATTAAAATAAGGACTTTA
1 ATCAATAATTAAAATAAGGAC--TA
* *
35771746 AT-ATTTTATTAAAATAAGGACTA
1 ATCA-ATAATTAAAATAAGGACTA
35771769 ATCAATAATTAAAATAAGGACT
1 ATCAATAATTAAAATAAGGACT
35771791 TTAATATTTT
Statistics
Matches: 118, Mismatches: 13, Indels: 22
0.77 0.08 0.14
Matches are distributed among these distances:
23 57 0.48
24 8 0.07
25 53 0.45
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (23 bp):
ATCAATAATTAAAATAAGGACTA
Found at i:35771686 original size:48 final size:48
Alignment explanation
Indices: 35771625--35771807 Score: 348
Period size: 48 Copynumber: 3.8 Consensus size: 48
35771615 TAAAAATTAC
*
35771625 ATCAATAACTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
35771673 ATCAATAATTAAAATAAGGACTTGAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
35771721 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
35771769 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
35771808 ATCAAGAAAT
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 132 1.00
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:35775373 original size:24 final size:25
Alignment explanation
Indices: 35775346--35775393 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
35775336 TTATGAAATT
35775346 TAAT-ATTAATTA-TTAAATTATATG
1 TAATAATT-ATTATTTAAATTATATG
35775370 TAATAATTATTATTTTAAATTATA
1 TAATAATTATTA-TTTAAATTATA
35775394 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATAATTATTATTTAAATTATATG
Found at i:35775547 original size:66 final size:63
Alignment explanation
Indices: 35775472--35775682 Score: 192
Period size: 66 Copynumber: 3.4 Consensus size: 63
35775462 AAATATATTT
35775472 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
35775537 G
63 G
* * * * **
35775538 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
35775592 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
35775656 AG
62 AG
*
35775658 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
35775683 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:35775572 original size:120 final size:120
Alignment explanation
Indices: 35775434--35775726 Score: 502
Period size: 120 Copynumber: 2.4 Consensus size: 120
35775424 AATTATTTTA
* * *
35775434 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
35775496 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35775554 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
35775619 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
35775674 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
35775727 TAAATATGAT
Statistics
Matches: 166, Mismatches: 4, Indels: 6
0.94 0.02 0.03
Matches are distributed among these distances:
119 6 0.04
120 158 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:35775594 original size:15 final size:15
Alignment explanation
Indices: 35775559--35775610 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
35775549 TTAAGAATTT
*
35775559 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35775573 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35775587 TATTTAATAATAAT-
1 TATTTAATTATAATA
35775601 TATGTTAATT
1 TAT-TTAATT
35775611 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35775709 original size:16 final size:16
Alignment explanation
Indices: 35775688--35775729 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
35775678 TTATTAAATT
*
35775688 ATATATTTTAATTATA
1 ATATATTTTAATAATA
35775704 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
35775719 AT-TATGTTTAA
1 ATATAT-TTTAA
35775730 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:35775714 original size:15 final size:15
Alignment explanation
Indices: 35775679--35775720 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
35775669 TTAAGAATTT
*
35775679 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35775693 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35775707 TATTTAATAATAAT
1 TATTTAATTATAAT
35775721 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35775885 original size:16 final size:16
Alignment explanation
Indices: 35775864--35775898 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
35775854 ATATATTAAA
35775864 TAACAATAACAATATT
1 TAACAATAACAATATT
35775880 TAACAATAACAATATT
1 TAACAATAACAATATT
35775896 TAA
1 TAA
35775899 TAATTTACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (16 bp):
TAACAATAACAATATT
Found at i:35775963 original size:18 final size:17
Alignment explanation
Indices: 35775935--35775969 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
35775925 ATTATTAAGA
*
35775935 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
35775952 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
35775970 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:35776226 original size:16 final size:16
Alignment explanation
Indices: 35776205--35776240 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
35776195 GATTTGCTAT
35776205 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35776221 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35776237 TACA
1 TACA
35776241 GTGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:35796364 original size:44 final size:44
Alignment explanation
Indices: 35796315--35796403 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
35796305 TCCTTTAACG
35796315 ATTACTTCCTCAATTGCCATTCTTATACTCACGTTCATTTCCAT
1 ATTACTTCCTCAATTGCCATTCTTATACTCACGTTCATTTCCAT
* *
35796359 ATTACTTCCTCAATTGTCATTCTTATACTCATGTTCATTTCCAT
1 ATTACTTCCTCAATTGCCATTCTTATACTCACGTTCATTTCCAT
35796403 A
1 A
35796404 CCTTACCCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.24, C:0.27, G:0.04, T:0.45
Consensus pattern (44 bp):
ATTACTTCCTCAATTGCCATTCTTATACTCACGTTCATTTCCAT
Found at i:35817029 original size:110 final size:111
Alignment explanation
Indices: 35816902--35817121 Score: 406
Period size: 110 Copynumber: 2.0 Consensus size: 111
35816892 TTCAATCCTT
35816902 AAAAAATAATAAAATTATAAATTAATATATAATAAAATTACACTTCTAACCCTTTAAAAATG-AA
1 AAAAAATAATAAAATTATAAATTAATATATAATAAAATTACACTTCTAACCCTTTAAAAATGTAA
* *
35816966 AAAAAAAATCTATTTAGTTCTTTTGAAAATGATGAAATCATAAATG
66 AAAAAAAATCTATTTAATTCTTTTGAAAACGATGAAATCATAAATG
*
35817012 AAAAAATAATGAAATTATAAATTAATATATAATAAAATTACACTTCTAACCCTTTAAAAATGTAA
1 AAAAAATAATAAAATTATAAATTAATATATAATAAAATTACACTTCTAACCCTTTAAAAATGTAA
35817077 AAAAAAAATCTATTTAATTCTTTTGAAAACGATGAAATCATAAAT
66 AAAAAAAATCTATTTAATTCTTTTGAAAACGATGAAATCATAAAT
35817122 TATCATATGA
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
110 61 0.58
111 45 0.42
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.33
Consensus pattern (111 bp):
AAAAAATAATAAAATTATAAATTAATATATAATAAAATTACACTTCTAACCCTTTAAAAATGTAA
AAAAAAAATCTATTTAATTCTTTTGAAAACGATGAAATCATAAATG
Found at i:35817043 original size:23 final size:23
Alignment explanation
Indices: 35816991--35817051 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
35816981 AGTTCTTTTG
* *
35816991 AAAATGATGAAATCATAAATGAA
1 AAAATAATGAAATTATAAATGAA
*
35817014 AAAATAATGAAATTATAAATTAA
1 AAAATAATGAAATTATAAATGAA
* * *
35817037 TATATAATAAAATTA
1 AAAATAATGAAATTA
35817052 CACTTCTAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
AAAATAATGAAATTATAAATGAA
Found at i:35819126 original size:13 final size:13
Alignment explanation
Indices: 35819108--35819133 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35819098 AACATGCTGC
35819108 TTAACTGTATCCG
1 TTAACTGTATCCG
35819121 TTAACTGTATCCG
1 TTAACTGTATCCG
35819134 ACGAAAACAA
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:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
TTAACTGTATCCG
Found at i:35822640 original size:21 final size:20
Alignment explanation
Indices: 35822616--35822655 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
35822606 AAAAAAAACA
*
35822616 TTTTATTAATTTACATATTTT
1 TTTTATTAA-TAACATATTTT
*
35822637 TTTTTTTAATAACATATTT
1 TTTTATTAATAACATATTT
35822656 AAATGGATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATTAATAACATATTTT
Found at i:35823414 original size:49 final size:49
Alignment explanation
Indices: 35823343--35823443 Score: 166
Period size: 49 Copynumber: 2.1 Consensus size: 49
35823333 TAAATTATGC
* *
35823343 TATGCATTTCTAAACTTGGTCTTCCACTATCTACACTCTTATCACTATT
1 TATGCATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATT
* *
35823392 TATGCATTGCTAAACTTAGTCTTCCACTGTTTACACTCTTATCACTATT
1 TATGCATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATT
35823441 TAT
1 TAT
35823444 CCCTTCTAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.44
Consensus pattern (49 bp):
TATGCATTGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATT
Found at i:35824770 original size:16 final size:17
Alignment explanation
Indices: 35824748--35824791 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
35824738 CATCTCATAA
35824748 TCATTTCTCATATTTTC
1 TCATTTCTCATATTTTC
*
35824765 -CATTTC-AATATTTTC
1 TCATTTCTCATATTTTC
35824780 TCA--TCTCATATT
1 TCATTTCTCATATT
35824792 CATTTCCCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 2 0.09
15 13 0.57
16 8 0.35
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (17 bp):
TCATTTCTCATATTTTC
Found at i:35824813 original size:43 final size:43
Alignment explanation
Indices: 35824733--35824818 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
35824723 TCATATTTTA
* *
35824733 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATAT
* * * *
35824776 TTTCTCATCTCATATTCATTTCCCGTCTTTGCTATTTCAATAT
1 TTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATAT
35824819 CAATCACATA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.51
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCCCATATTTGCCATTTCAATAT
Found at i:35832682 original size:43 final size:43
Alignment explanation
Indices: 35832602--35832687 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
35832592 CCATATTTCA
* * **
35832602 TTTCTCATCTCATAATCATTTCTCTTATTTTCCATTTCAATAT
1 TTTCTCATATCATAATCATTTCTCATATTAGCCATTTCAATAT
* * *
35832645 TTTCTCATATCATATTCATTTCTCATCTTAGCTATTTCAATAT
1 TTTCTCATATCATAATCATTTCTCATATTAGCCATTTCAATAT
35832688 CAATCACATA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.24, C:0.22, G:0.01, T:0.52
Consensus pattern (43 bp):
TTTCTCATATCATAATCATTTCTCATATTAGCCATTTCAATAT
Found at i:35833399 original size:19 final size:18
Alignment explanation
Indices: 35833357--35833400 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
35833347 TTAATACTAC
* *
35833357 ATATTTCAATTTCACATT
1 ATATTTTAATTTCACACT
*
35833375 AAATTTTAATTTTCACACT
1 ATATTTTAA-TTTCACACT
35833394 ATATTTT
1 ATATTTT
35833401 GCTTATTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTTTAATTTCACACT
Found at i:35833835 original size:15 final size:16
Alignment explanation
Indices: 35833810--35833844 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
35833800 TGTGAGCTTC
35833810 TTCTCTTTTCTTTCTT
1 TTCTCTTTTCTTTCTT
*
35833826 TTCT-TTTTCTTTGTT
1 TTCTCTTTTCTTTCTT
35833841 TTCT
1 TTCT
35833845 AATTTGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (16 bp):
TTCTCTTTTCTTTCTT
Found at i:35834859 original size:25 final size:27
Alignment explanation
Indices: 35834812--35834861 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
35834802 CTAATTAATA
35834812 ATATTATAAAAATATAAAGATAAAATT
1 ATATTATAAAAATATAAAGATAAAATT
* *
35834839 ATATTA-AAAATTA-AAATATAAAA
1 ATATTATAAAAATATAAAGATAAAA
35834862 ATTTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 6 0.29
27 6 0.29
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (27 bp):
ATATTATAAAAATATAAAGATAAAATT
Found at i:35849259 original size:29 final size:29
Alignment explanation
Indices: 35849161--35849388 Score: 237
Period size: 29 Copynumber: 7.9 Consensus size: 29
35849151 AAGAAAGCAA
*
35849161 TTGTGGC-AATCTCTGTTAAATGGAAGCCT
1 TTGTGGCTAATCTCTATTAAA-GGAAGCCT
* * *
35849190 TTGTGGCTAATCTTTTTTAAATTGAAGCCT
1 TTGTGGCTAATCTCTATTAAA-GGAAGCCT
*
35849220 TTGTGGCTAATATCTATTAAAGGAAGCCT
1 TTGTGGCTAATCTCTATTAAAGGAAGCCT
* * *
35849249 TTGTGGGTAATCTCTGTTAAAGGAATCCT
1 TTGTGGCTAATCTCTATTAAAGGAAGCCT
* * *
35849278 TTGTGACTAATCTCTGTTAAATGAAGCCT
1 TTGTGGCTAATCTCTATTAAAGGAAGCCT
* * * *
35849307 TTGTGGGTAATCTCTGTTTAAGTAAGCCT
1 TTGTGGCTAATCTCTATTAAAGGAAGCCT
* * * *
35849336 TTGTGGC-GATGTTTATTAAAGGTAGCCT
1 TTGTGGCTAATCTCTATTAAAGGAAGCCT
35849364 TTGTGGCT-ATCTCTATTAAAAGGAA
1 TTGTGGCTAATCTCTATT-AAAGGAA
35849389 ACCTATATGG
Statistics
Matches: 165, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
28 28 0.17
29 100 0.61
30 37 0.22
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (29 bp):
TTGTGGCTAATCTCTATTAAAGGAAGCCT
Found at i:35855340 original size:17 final size:17
Alignment explanation
Indices: 35855293--35855340 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
35855283 CCTATTCCTA
**
35855293 AAAAATAAAAATTGTCC
1 AAAAATAAAAATAATCC
* **
35855310 AAAATTAATTATAATCC
1 AAAAATAAAAATAATCC
35855327 AAAAATAAAAATAA
1 AAAAATAAAAATAA
35855341 AAATTTCGGT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAAATAAAAATAATCC
Found at i:35856789 original size:10 final size:10
Alignment explanation
Indices: 35856761--35856790 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
35856751 AAGGTTTAGT
35856761 GGTTTTGAGA
1 GGTTTTGAGA
35856771 GGTTGTTGAGA
1 GGTT-TTGAGA
35856782 GGTTTTGAG
1 GGTTTTGAG
35856791 GTTAATGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (10 bp):
GGTTTTGAGA
Found at i:35862929 original size:29 final size:29
Alignment explanation
Indices: 35862881--35863047 Score: 208
Period size: 29 Copynumber: 5.8 Consensus size: 29
35862871 CGAAATCTAA
* **
35862881 GGAAGCCTTTATGGTTATCTCTATTAAAT
1 GGAAGCCTTTGTGGCGATCTCTATTAAAT
* *
35862910 GGAAGCCTTTGTTGCAATCTCTATTAAAT
1 GGAAGCCTTTGTGGCGATCTCTATTAAAT
* *
35862939 GAAAGCCTTTGTGGTGATCTCTATTAAAT
1 GGAAGCCTTTGTGGCGATCTCTATTAAAT
* * * *
35862968 GGAAGCCTTTATGGCGATCTTTGTTAATT
1 GGAAGCCTTTGTGGCGATCTCTATTAAAT
* *
35862997 AGAAGCCTTTGTGGCTATCTCTATTAAAT
1 GGAAGCCTTTGTGGCGATCTCTATTAAAT
*
35863026 GGAAGCCTTTGTGGCTATCTCT
1 GGAAGCCTTTGTGGCGATCTCT
35863048 GTTCTTTTCG
Statistics
Matches: 117, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 117 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (29 bp):
GGAAGCCTTTGTGGCGATCTCTATTAAAT
Found at i:35862959 original size:58 final size:57
Alignment explanation
Indices: 35862883--35863243 Score: 280
Period size: 58 Copynumber: 6.4 Consensus size: 57
35862873 AAATCTAAGG
* * * *
35862883 AAGCCTTTATGGTTATCTCTATTAAATGGAAGCCTTTGTTGCAATCTCTATTAAATGA
1 AAGCCTTTGTGGTAATCTCTATTAAATGGAAGCCTTTGTGGCAATCTCTGTTAAAT-A
* * * * *
35862941 AAGCCTTTGTGGTGATCTCTATTAAATGGAAGCCTTTATGGCGATCTTTGTTAATTA
1 AAGCCTTTGTGGTAATCTCTATTAAATGGAAGCCTTTGTGGCAATCTCTGTTAAATA
*
35862998 GAAGCCTTTGTGGCT-ATCTCTATTAAATGGAAGCCTTTGTGGCTATCTCTG-T---T-
1 -AAGCCTTTGTGG-TAATCTCTATTAAATGGAAGCCTTTGTGGCAATCTCTGTTAAATA
* *
35863051 ---CTTTTCG-GGTAATCTCTGTTAAA-GGAAGCCTTTGTGGCTAATCTCTGTTAAATA
1 AAGCCTTT-GTGGTAATCTCTATTAAATGGAAGCCTTTGTGGC-AATCTCTGTTAAATA
* * * * *
35863105 AAGCCTTTGTGGCTAATCCCTGTTAAA-GGAAGCCTTTTTCGCTAATCTCTGTTAAATGG
1 AAGCCTTTGTGG-TAATCTCTATTAAATGGAAGCCTTTGTGGC-AATCTCTGTTAAAT-A
* * * * * * * * **
35863164 AAGCCTTTGAGAATAATCTATGTTAAA-GGAAGCCTCTATAGCTAATCTTTGTTAAAGG
1 AAGCCTTTGTG-GTAATCTCTATTAAATGGAAGCCTTTGTGGC-AATCTCTGTTAAATA
35863222 AAGCCTTTTGTGGCTAATCTCT
1 AAGCC-TTTGTGG-TAATCTCT
35863244 GTCATAGGAA
Statistics
Matches: 253, Mismatches: 31, Indels: 37
0.79 0.10 0.12
Matches are distributed among these distances:
48 16 0.06
49 24 0.09
50 2 0.01
53 1 0.00
54 1 0.00
56 1 0.00
57 8 0.03
58 140 0.55
59 60 0.24
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (57 bp):
AAGCCTTTGTGGTAATCTCTATTAAATGGAAGCCTTTGTGGCAATCTCTGTTAAATA
Found at i:35863006 original size:87 final size:87
Alignment explanation
Indices: 35862881--35863047 Score: 237
Period size: 87 Copynumber: 1.9 Consensus size: 87
35862871 CGAAATCTAA
** * *
35862881 GGAAGCCTTTATGGTTATCTCTATTAAATGGAAGCCTTTGTTGCAATCTCTATTAAATGAAAGCC
1 GGAAGCCTTTATGGCGATCTCTATTAAATAGAAGCCTTTGTGGCAATCTCTATTAAATGAAAGCC
35862946 TTTGTGG-TGATCTCTATTAAAT
66 TTTGTGGCT-ATCTCTATTAAAT
* * * * *
35862968 GGAAGCCTTTATGGCGATCTTTGTTAATTAGAAGCCTTTGTGGCTATCTCTATTAAATGGAAGCC
1 GGAAGCCTTTATGGCGATCTCTATTAAATAGAAGCCTTTGTGGCAATCTCTATTAAATGAAAGCC
35863033 TTTGTGGCTATCTCT
66 TTTGTGGCTATCTCT
35863048 GTTCTTTTCG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
87 69 0.99
88 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (87 bp):
GGAAGCCTTTATGGCGATCTCTATTAAATAGAAGCCTTTGTGGCAATCTCTATTAAATGAAAGCC
TTTGTGGCTATCTCTATTAAAT
Found at i:35863093 original size:29 final size:29
Alignment explanation
Indices: 35863060--35863259 Score: 247
Period size: 29 Copynumber: 6.8 Consensus size: 29
35863050 TCTTTTCGGG
35863060 TAATCTCTGTTAAAGGAAGCCTTTGTGGC
1 TAATCTCTGTTAAAGGAAGCCTTTGTGGC
**
35863089 TAATCTCTGTTAAATAAAGCCTTTGTGGC
1 TAATCTCTGTTAAAGGAAGCCTTTGTGGC
* * *
35863118 TAATCCCTGTTAAAGGAAGCCTTTTTCGC
1 TAATCTCTGTTAAAGGAAGCCTTTGTGGC
* **
35863147 TAATCTCTGTTAAATGGAAGCCTTTGAGAA
1 TAATCTCTGTTAAA-GGAAGCCTTTGTGGC
* * * *
35863177 TAATCTATGTTAAAGGAAGCCTCTATAGC
1 TAATCTCTGTTAAAGGAAGCCTTTGTGGC
*
35863206 TAATCTTTGTTAAAGGAAGCCTTTTGTGGC
1 TAATCTCTGTTAAAGGAAGCC-TTTGTGGC
* *
35863236 TAATCTCTGTCATAGGAAGCCTTT
1 TAATCTCTGTTAAAGGAAGCCTTT
35863260 ATGGTGATTT
Statistics
Matches: 142, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
29 96 0.68
30 46 0.32
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (29 bp):
TAATCTCTGTTAAAGGAAGCCTTTGTGGC
Found at i:35863129 original size:136 final size:136
Alignment explanation
Indices: 35862925--35863172 Score: 324
Period size: 136 Copynumber: 1.8 Consensus size: 136
35862915 CCTTTGTTGC
* * * **
35862925 AATCTCTATTAAATGAAAGCCTTTGTGGTGATCTCTATTAAATGGAAGCCTTTATGGCGATCTTT
1 AATCTCTATTAAATGAAAGCCTTTGTGGTAATCTCTATTAAATGAAAGCCTTTATGGCAATCCCT
*
35862990 GTTAATTA-GAAGCCTTTGTGGCT-ATCTCTATTAAATGGAAGCCTTTGTGGCTATCTCTGTTCT
66 GTTAA--AGGAAGCCTTTGTCGCTAATCTCTATTAAATGGAAGCCTTTGTGGCTATCTCTGTTCT
35863053 TTTCGGGT
129 TTTCGGGT
* * * *
35863061 AATCTCTGTTAAA-GGAAGCCTTTGTGGCTAATCTCTGTTAAAT-AAAGCCTTTGTGGCTAATCC
1 AATCTCTATTAAATGAAAGCCTTTGTGG-TAATCTCTATTAAATGAAAGCCTTTATGGC-AATCC
* *
35863124 CTGTTAAAGGAAGCCTTTTTCGCTAATCTCTGTTAAATGGAAGCCTTTG
64 CTGTTAAAGGAAGCCTTTGTCGCTAATCTCTATTAAATGGAAGCCTTTG
35863173 AGAATAATCT
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
134 1 0.01
135 38 0.40
136 57 0.59
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (136 bp):
AATCTCTATTAAATGAAAGCCTTTGTGGTAATCTCTATTAAATGAAAGCCTTTATGGCAATCCCT
GTTAAAGGAAGCCTTTGTCGCTAATCTCTATTAAATGGAAGCCTTTGTGGCTATCTCTGTTCTTT
TCGGGT
Found at i:35863141 original size:106 final size:108
Alignment explanation
Indices: 35862955--35863157 Score: 279
Period size: 106 Copynumber: 1.9 Consensus size: 108
35862945 CTTTGTGGTG
* * * *
35862955 ATCTCTATTAAATGGAAGCCTTTATGGCGATCTTTGTTAATTAGAAGCCTTTGTGGCTATCTCTA
1 ATCTCTATTAAATGGAAGCCTTTATGGCAATCTCTGTTAAATAGAAGCCTTTGTGGCTATCCCTA
*
35863020 TTAAATGGAAGCCTTTGTGGCT-ATCTCTGTTCTTTTCGGGTA
66 TTAAATGGAAGCCTTTGTCGCTAATCTCTGTTCTTTTCGGGTA
* *
35863062 ATCTCTGTTAAA-GGAAGCCTTTGTGGCTAATCTCTGTTAAATA-AAGCCTTTGTGGCTAATCCC
1 ATCTCTATTAAATGGAAGCCTTTATGGC-AATCTCTGTTAAATAGAAGCCTTTGTGGCT-ATCCC
* *
35863125 TGTTAAA-GGAAGCCTTTTTCGCTAATCTCTGTT
64 TATTAAATGGAAGCCTTTGTCGCTAATCTCTGTT
35863158 AAATGGAAGC
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
106 42 0.50
107 42 0.50
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (108 bp):
ATCTCTATTAAATGGAAGCCTTTATGGCAATCTCTGTTAAATAGAAGCCTTTGTGGCTATCCCTA
TTAAATGGAAGCCTTTGTCGCTAATCTCTGTTCTTTTCGGGTA
Found at i:35863208 original size:88 final size:88
Alignment explanation
Indices: 35863060--35863259 Score: 258
Period size: 88 Copynumber: 2.3 Consensus size: 88
35863050 TCTTTTCGGG
* ** * * * * *
35863060 TAATCTCTGTTAAAGGAAGCCTTTGTGGCTAATCTCTGTTAAATAAAGCCTTTGTGGCTAATCCC
1 TAATCTCTGTTAAAGGAAGCCTTTGAGAATAATCTATGTTAAAGAAAGCCTCTATAGCTAATCCC
35863125 TGTTAAAGGAAGCCTTTT-TCGC
66 TGTTAAAGGAAGCCTTTTGTCGC
* *
35863147 TAATCTCTGTTAAATGGAAGCCTTTGAGAATAATCTATGTTAAAGGAAGCCTCTATAGCTAATCT
1 TAATCTCTGTTAAA-GGAAGCCTTTGAGAATAATCTATGTTAAAGAAAGCCTCTATAGCTAATCC
* *
35863212 TTGTTAAAGGAAGCCTTTTGTGGC
65 CTGTTAAAGGAAGCCTTTTGTCGC
* *
35863236 TAATCTCTGTCATAGGAAGCCTTT
1 TAATCTCTGTTAAAGGAAGCCTTT
35863260 ATGGTGATTT
Statistics
Matches: 97, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
87 14 0.14
88 68 0.70
89 15 0.15
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (88 bp):
TAATCTCTGTTAAAGGAAGCCTTTGAGAATAATCTATGTTAAAGAAAGCCTCTATAGCTAATCCC
TGTTAAAGGAAGCCTTTTGTCGC
Found at i:35863240 original size:59 final size:58
Alignment explanation
Indices: 35863060--35863261 Score: 251
Period size: 59 Copynumber: 3.4 Consensus size: 58
35863050 TCTTTTCGGG
* * **
35863060 TAATCTCTGTTAAAGGAAGCCTTTGTGGCTAATCTCTGTTAAATAAAGCCTTTGTGGC
1 TAATCTCTGTTAAAGGAAGCCTTTATAGCTAATCTCTGTTAAAGGAAGCCTTTGTGGC
* * * * **
35863118 TAATCCCTGTTAAAGGAAGCCTTTTTCGCTAATCTCTGTTAAATGGAAGCCTTTGAGAA
1 TAATCTCTGTTAAAGGAAGCCTTTATAGCTAATCTCTGTTAAA-GGAAGCCTTTGTGGC
* * *
35863177 TAATCTATGTTAAAGGAAGCCTCTATAGCTAATCTTTGTTAAAGGAAGCCTTTTGTGGC
1 TAATCTCTGTTAAAGGAAGCCTTTATAGCTAATCTCTGTTAAAGGAAGCC-TTTGTGGC
* *
35863236 TAATCTCTGTCATAGGAAGCCTTTAT
1 TAATCTCTGTTAAAGGAAGCCTTTAT
35863262 GGTGATTTGT
Statistics
Matches: 121, Mismatches: 21, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
58 47 0.39
59 74 0.61
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (58 bp):
TAATCTCTGTTAAAGGAAGCCTTTATAGCTAATCTCTGTTAAAGGAAGCCTTTGTGGC
Done.