Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011283.1 Kokia drynarioides strain JFW-HI SEQ_126262, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 166534
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Warning! 32 characters in sequence are not A, C, G, or T
Found at i:1497 original size:60 final size:57
Alignment explanation
Indices: 1311--1606 Score: 272
Period size: 62 Copynumber: 5.0 Consensus size: 57
1301 AGAGGAAGTT
* * * * *
1311 GGTGTCGGCCATTACATGGCCAACCCCAAAAAATTTAATTTTTTATCAAATAAAAAGAG
1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAATTTAATTTTTTTTC-GA-AAAAAGGG
* *
1370 GGTGTCGGCCATTGCATGACCAACACCAAAAAAAATTACAATTTTTTTATCCGAAAAAAGGG
1 GGTGTCGGCCATTGCATGGCCAACACC--AAAAAATT-TAATTTTTTT-T-CGAAAAAAGGG
* *
1432 GGTGTCGGCCATTGCATGGCCAACACCAAAAATTTTTGAATTTTTTTTTCGAGAAAAGGG
1 GGTGTCGGCCATTGCATGGCCAACACCAAAAA-ATTT-AA-TTTTTTTTCGAAAAAAGGG
* * * * *
1492 TGTGTCGACCA-TGTAATGGCCAACATCC-AAAAATGTAATTTTTTTTCCAAAAAAGGG
1 GGTGTCGGCCATTG-CATGGCCAACA-CCAAAAAATTTAATTTTTTTTCGAAAAAAGGG
* * ** *
1549 GGTGCCGACCATTGCATGGCCAACATAAAAAAATTTTGAAATTTTTTTCGAGAAAAAG
1 GGTGTCGGCCATTGCATGGCCAACACCAAAAAA-TTT-AATTTTTTTTCGA-AAAAAG
1607 CATGGCCGAC
Statistics
Matches: 196, Mismatches: 26, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
57 41 0.21
58 6 0.03
59 39 0.20
60 44 0.22
61 15 0.08
62 48 0.24
63 2 0.01
64 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (57 bp):
GGTGTCGGCCATTGCATGGCCAACACCAAAAAATTTAATTTTTTTTCGAAAAAAGGG
Found at i:1594 original size:57 final size:58
Alignment explanation
Indices: 1311--1606 Score: 224
Period size: 60 Copynumber: 5.0 Consensus size: 58
1301 AGAGGAAGTT
* * ** * *
1311 GGTGTCGGCCATTACATGGCCAACCCCAAAAAA-TTT-AATTTTTTATCAAATAAAAAGAG
1 GGTGTCGACCATTGCATGGCCAACATCAAAAAATTTTGAATTTTTT-TC-CA-AAAAAGGG
* * * * **
1370 GGTGTCGGCCATTGCATGACCAACACCAAAAAAAATTACAATTTTTTTATCCGAAAAAAGGG
1 GGTGTCGACCATTGCATGGCCAACATC-AAAAAATTTTGAA-TTTTTT-TCC-AAAAAAGGG
* * * * *
1432 GGTGTCGGCCATTGCATGGCCAACACCAAAAATTTTTGAATTTTTTTTTCGAGAAAAGGG
1 GGTGTCGACCATTGCATGGCCAACATCAAAAAATTTTGAA--TTTTTTTCCAAAAAAGGG
* * * *
1492 TGTGTCGACCA-TGTAATGGCCAACATCCAAAAA-TGT-AATTTTTTTTCCAAAAAAGGG
1 GGTGTCGACCATTG-CATGGCCAACATCAAAAAATTTTGAA-TTTTTTTCCAAAAAAGGG
* * *
1549 GGTGCCGACCATTGCATGGCCAACATAAAAAAATTTTGAAATTTTTTTCGAGAAAAAG
1 GGTGTCGACCATTGCATGGCCAACATCAAAAAATTTTG-AATTTTTTTCCA-AAAAAG
1607 CATGGCCGAC
Statistics
Matches: 196, Mismatches: 29, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
57 42 0.21
58 6 0.03
59 37 0.19
60 46 0.23
61 13 0.07
62 42 0.21
63 10 0.05
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (58 bp):
GGTGTCGACCATTGCATGGCCAACATCAAAAAATTTTGAATTTTTTTCCAAAAAAGGG
Found at i:1799 original size:104 final size:102
Alignment explanation
Indices: 1507--1915 Score: 454
Period size: 101 Copynumber: 4.0 Consensus size: 102
1497 CGACCATGTA
* * * * * *
1507 ATGGCCAACATCCAAAAATGTAATTTTTTTTCCAA-AAAAGGGGGTGCCGACCATTGCATGGCCA
1 ATGGCCAACACCCAAAAATGCAATTTTTTTT-CAAGAAAAAGGGGTGTCG-GCATTGCATGACCA
*
1571 ACATAAAAAAATTTTGAAA-TTTTTT-TCGAGAAAAAGC
64 ACATAAAAAAATTTTGAAATTTTTTTCTCGAGAAAAGGC
* * * * *
1608 ATGGCCGACACCCAAAAACGTAATTTTTTTTCGAGAAAAAGGGGTGTCGGCTATTACATGACCAA
1 ATGGCCAACACCCAAAAATGCAATTTTTTTTCAAGAAAAAGGGGTGTCGGC-ATTGCATGACCAA
*
1673 CATAAAAAAATTTTGAAATTTTTTTCTCTAGAAAAGGGC
65 CATAAAAAAATTTTGAAATTTTTTTCTCGAGAAAA-GGC
* *
1712 ATGGCCAACACCCAAAAATGCAATTTTTTTTTCAAGAAAAAGGGGTGTCGAGCATTGTATAACCA
1 ATGGCCAACACCCAAAAATGCAA-TTTTTTTTCAAGAAAAAGGGGTGTCG-GCATTGCATGACCA
** * *
1777 ACACCAAAAAATTTTGAATTTTTTTTCTCGAGAAAATGC
64 ACATAAAAAAATTTTGAAATTTTTTTCTCGAGAAAAGGC
* * * * * *
1816 ATGGTCGACACCCAAAAATACAA-TTTTTTTCAAGAACAAGAGGTGTCGGCCATTTG-ATGGCCA
1 ATGGCCAACACCCAAAAATGCAATTTTTTTTCAAGAAAAAGGGGTGTCGG-CA-TTGCATGACCA
*
1879 ACATCAAAAAATTTTGAAAATTTTTTTCTC-A-AAAAGG
64 ACATAAAAAAATTTTG-AAATTTTTTTCTCGAGAAAAGG
1916 GAGTGTCGAC
Statistics
Matches: 265, Mismatches: 33, Indels: 20
0.83 0.10 0.06
Matches are distributed among these distances:
100 3 0.01
101 75 0.28
102 52 0.20
103 23 0.09
104 44 0.17
105 66 0.25
106 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (102 bp):
ATGGCCAACACCCAAAAATGCAATTTTTTTTCAAGAAAAAGGGGTGTCGGCATTGCATGACCAAC
ATAAAAAAATTTTGAAATTTTTTTCTCGAGAAAAGGC
Found at i:1993 original size:57 final size:55
Alignment explanation
Indices: 1828--2003 Score: 130
Period size: 60 Copynumber: 3.1 Consensus size: 55
1818 GGTCGACACC
*
1828 CAAAAATAC-AATTTTTTTCAAGAACAAGA-GGTGTCGGCCATTTGATGGCCAACAT
1 CAAAAATGCAAATTTTTTTCAAGAA-AAGAGGGTGTC-GCCATTTGATGGCCAACAT
* * *** * *
1883 CAAAAAATTTTGAAAATTTTTTTCTCA-AAAAG-GGAGTGTCGACCATCCAATGGCTATCACT
1 C-AAAAA---TGCAAATTTTTTTC-AAGAAAAGAGG-GTGTCG-CCATTTGATGGCCAACA-T
*
1944 CAAAAATGCAAATTTTTTTCGAGAAAAGAGGGTGTCAGCCATTTGATGG-CAACA-
1 CAAAAATGCAAATTTTTTTCAAGAAAAGAGGGTGTC-GCCATTTGATGGCCAACAT
1998 CAAAAA
1 CAAAAA
2004 AAATTGTGTT
Statistics
Matches: 93, Mismatches: 15, Indels: 27
0.69 0.11 0.20
Matches are distributed among these distances:
54 6 0.06
55 1 0.01
56 9 0.10
57 31 0.33
58 3 0.03
59 6 0.06
60 34 0.37
61 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (55 bp):
CAAAAATGCAAATTTTTTTCAAGAAAAGAGGGTGTCGCCATTTGATGGCCAACAT
Found at i:2006 original size:57 final size:56
Alignment explanation
Indices: 1829--2007 Score: 125
Period size: 57 Copynumber: 3.1 Consensus size: 56
1819 GTCGACACCC
*
1829 AAAAATAC-AATTTTTTTCAAGAACAAGA-GGTGTCGGCCATTTGATGGCCAACATCAAA
1 AAAAATGCAAATTTTTTTCAAGAA-AAGAGGGTGTC-GCCATTTGATGG-CAACA-CAAA
** * * *** * **
1887 AAATTTTGAAAATTTTTTTCTCA-AAAAG-GGAGTGTCGACCATCCAATGGCTATCAC-TC
1 AAA-AATGCAAATTTTTTTC-AAGAAAAGAGG-GTGTCG-CCATTTGATGGC-AACACAAA
*
1945 AAAAATGCAAATTTTTTTCGAGAAAAGAGGGTGTCAGCCATTTGATGGCAACACAAA
1 AAAAATGCAAATTTTTTTCAAGAAAAGAGGGTGTC-GCCATTTGATGGCAACACAAA
2002 AAAAAT
1 AAAAAT
2008 TGTGTTTTTA
Statistics
Matches: 89, Mismatches: 21, Indels: 23
0.67 0.16 0.17
Matches are distributed among these distances:
56 5 0.06
57 38 0.43
58 9 0.10
59 8 0.09
60 28 0.31
61 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.27
Consensus pattern (56 bp):
AAAAATGCAAATTTTTTTCAAGAAAAGAGGGTGTCGCCATTTGATGGCAACACAAA
Found at i:2062 original size:116 final size:116
Alignment explanation
Indices: 1823--2062 Score: 260
Period size: 115 Copynumber: 2.1 Consensus size: 116
1813 TGCATGGTCG
*
1823 ACACC-CAAAAATACAATTTTTTTCAAGAACAAGAGGTGTCGGCCATTTGATGGCCAACATCAAA
1 ACACCTCAAAAATACAATTTTTTTCAAGAACAAGAGGTGTCAGCCATTTGATGGCCAACATCAAA
** * * * * *
1887 AAATTTTGAAAATTTTTTTCTCAAAAAGGGAGTGTCGACCATCCAATGGCTA
66 AAAAATTG-AAATTTTTATCTCAAAAAAGGAGTGTCGACCATACAATAGCCA
* * *
1939 TCA-CTCAAAAATGCAAATTTTTTTCGAGAA-AAGAGGGTGTCAGCCATTTGATGG-CAACA-CA
1 ACACCTCAAAAATAC-AATTTTTTTCAAGAACAAGA-GGTGTCAGCCATTTGATGGCCAACATCA
**
2000 AAAAAAATTG-TGTTTTTATCTTACAAAAAAGGAGTGTCGACCATTAC-ATAGCCA
64 AAAAAAATTGAAATTTTTATC-T-CAAAAAAGGAGTGTCGACCA-TACAATAGCCA
2054 ACACCTCAA
1 ACACCTCAA
2063 TTTTTTTTTT
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
113 7 0.07
114 1 0.01
115 37 0.36
116 26 0.25
117 32 0.31
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (116 bp):
ACACCTCAAAAATACAATTTTTTTCAAGAACAAGAGGTGTCAGCCATTTGATGGCCAACATCAAA
AAAAATTGAAATTTTTATCTCAAAAAAGGAGTGTCGACCATACAATAGCCA
Found at i:12794 original size:24 final size:24
Alignment explanation
Indices: 12735--12795 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 24
12725 ATTTAAGTTA
* *
12735 AATAAATTATTTT-TTATATAAAT
1 AATAAAATATTTTATTAAATAAAT
** * *
12758 TTTAAAGTTTTTTATTAAATAAAT
1 AATAAAATATTTTATTAAATAAAT
12782 AATAAAATATTTTA
1 AATAAAATATTTTA
12796 ATTTTAAGAC
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
AATAAAATATTTTATTAAATAAAT
Found at i:16004 original size:19 final size:20
Alignment explanation
Indices: 15982--16035 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
15972 TTATAATAAC
*
15982 TTTTTTAATTTTTATGA-TT
1 TTTTTTAATTTTTATAATTT
** *
16001 TTTTTGCACTTTTATAATTT
1 TTTTTTAATTTTTATAATTT
16021 TTTTTGTAATTTTTA
1 TTTTT-TAATTTTTA
16036 ATATTTTTAT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
19 13 0.50
20 7 0.27
21 6 0.23
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (20 bp):
TTTTTTAATTTTTATAATTT
Found at i:16037 original size:19 final size:20
Alignment explanation
Indices: 15982--16043 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
15972 TTATAATAAC
15982 TTTTT-TAATTTTT-ATGATT
1 TTTTTGTAATTTTTAAT-ATT
* *
16001 TTTTTGCACTTTTATAAT-TT
1 TTTTTGTAATTTT-TAATATT
16021 TTTTTGTAATTTTTAATATT
1 TTTTTGTAATTTTTAATATT
16041 TTT
1 TTT
16044 ATGATTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 9 0.26
20 23 0.66
21 1 0.03
22 2 0.06
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTTGTAATTTTTAATATT
Found at i:16236 original size:26 final size:27
Alignment explanation
Indices: 16199--16256 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 27
16189 ATGTTATTTT
*
16199 TTTTACAATTTTTAATAAC-TTTATAA
1 TTTTACAATTTTTAAAAACATTTATAA
16225 TTTTA-AATTTTTTAAAAACATTTTATAA
1 TTTTACAA-TTTTTAAAAACA-TTTATAA
16253 TTTT
1 TTTT
16257 TAGATAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 2 0.07
26 15 0.54
28 11 0.39
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTACAATTTTTAAAAACATTTATAA
Found at i:19156 original size:43 final size:43
Alignment explanation
Indices: 18999--19193 Score: 155
Period size: 43 Copynumber: 4.6 Consensus size: 43
18989 AATATTTTCT
* * * *
18999 TTCG-TTTATCCGATAATGCACTATGTGTTCTAATATGATAT-C
1 TTCGATTTATCCGATGATGCACTATGTGTACCAATATAAT-TGC
* * *
19041 TTCGATTTATCTGATGATTCACTATGTGTGCCAATATAATTGC
1 TTCGATTTATCCGATGATGCACTATGTGTACCAATATAATTGC
* * * * * *
19084 TTC-AGTTTGTCTGATGATGCACCT-CGTGTACTAGTGTAATTGC
1 TTCGA-TTTATCCGATGATGCA-CTATGTGTACCAATATAATTGC
* * * * *
19127 TTCGACTTGTCCGATGATGCACTATGTGTACCAGTATATTTTC
1 TTCGATTTATCCGATGATGCACTATGTGTACCAATATAATTGC
* *
19170 TTCGGTTTATCCGATGATACACTA
1 TTCGATTTATCCGATGATGCACTA
19194 AGGTGGCAGA
Statistics
Matches: 123, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
42 8 0.07
43 112 0.91
44 3 0.02
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (43 bp):
TTCGATTTATCCGATGATGCACTATGTGTACCAATATAATTGC
Found at i:25786 original size:86 final size:86
Alignment explanation
Indices: 25630--25816 Score: 250
Period size: 86 Copynumber: 2.2 Consensus size: 86
25620 CACGACACTT
* * * *
25630 AGAAGTGGACCAAATTCGTCTTCCTGATGAGGTACAGAGAAGCGAATTGAAATAAACGGGGCGGT
1 AGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAACGAGGCAGT
* * *
25695 TATCTTCTTGATGAGATACAG
66 CATCTTCCTGATAAGATACAG
* *
25716 AGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGC-AGATTGAAACAAACGATGCAG
1 AGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGA-ATTGAAACAAACGAGGCAG
*
25780 TCATCTTCCTGATAAGATACTG
65 TCATCTTCCTGATAAGATACAG
**
25802 AGAAGAAGACCAAAT
1 AGAAGTGGACCAAAT
25817 CAAACCCACG
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 1 0.01
86 87 0.99
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (86 bp):
AGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAACGAGGCAGT
CATCTTCCTGATAAGATACAG
Found at i:26349 original size:6 final size:6
Alignment explanation
Indices: 26338--26433 Score: 76
Period size: 6 Copynumber: 16.7 Consensus size: 6
26328 GCCCCAACAG
* * * *
26338 AATTTA AATTT- ATTTTA AAATTA AATTT- ATTTTA AGTTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* * * *
26383 ACTTAA AATTTA AATTT- -ATTATA AATTTA AGTTTA AATTTA AAATTA
1 AATTTA AATTTA AATTTA AATT-TA AATTTA AATTTA AATTTA AATTTA
26430 AATT
1 AATT
26434 AATGTCCAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
4 3 0.04
5 12 0.17
6 51 0.74
7 3 0.04
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:26363 original size:17 final size:17
Alignment explanation
Indices: 26341--26433 Score: 98
Period size: 17 Copynumber: 5.4 Consensus size: 17
26331 CCAACAGAAT
26341 TTAAATTTATTTTAAAA
1 TTAAATTTATTTTAAAA
**
26358 TTAAATTTATTTTAAGT
1 TTAAATTTATTTTAAAA
*
26375 TTAAATTTA-CTTAAAA
1 TTAAATTTATTTTAAAA
* *
26391 TTTAAATTTATTATAAAT
1 -TTAAATTTATTTTAAAA
* *
26409 TTAAGTTTAAATTTAAAA
1 TTAAATTT-ATTTTAAAA
26427 TTAAATT
1 TTAAATT
26434 AATGTCCAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
16 4 0.07
17 40 0.67
18 16 0.27
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (17 bp):
TTAAATTTATTTTAAAA
Found at i:26383 original size:34 final size:33
Alignment explanation
Indices: 26338--26433 Score: 120
Period size: 34 Copynumber: 2.8 Consensus size: 33
26328 GCCCCAACAG
*
26338 AATTTAAATTTATTTTAAAATTAAATTTATTTTA
1 AATTTAAATTTA-TTTAAAATTAAATTTATTATA
* *
26372 AGTTTAAATTTACTTAAAATTTAAATTTATTATA
1 AATTTAAATTTATTTAAAA-TTAAATTTATTATA
*
26406 AATTTAAGTTTAAATTTAAAATTAAATT
1 AATTTAAATTT--ATTTAAAATTAAATT
26434 AATGTCCAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
33 6 0.11
34 33 0.62
35 7 0.13
36 7 0.13
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (33 bp):
AATTTAAATTTATTTAAAATTAAATTTATTATA
Found at i:26435 original size:23 final size:23
Alignment explanation
Indices: 26341--26435 Score: 70
Period size: 23 Copynumber: 4.2 Consensus size: 23
26331 CCAACAGAAT
*
26341 TTAAATTT-ATTTTAAAATTAAA
1 TTAAATTTAAATTTAAAATTAAA
* * * * *
26363 TTTATTTTAAGTTT-AAATTTAC
1 TTAAATTTAAATTTAAAATTAAA
**
26385 TTAAAATTTAAATTTATTA-TAAA
1 TT-AAATTTAAATTTAAAATTAAA
*
26408 TTTAAGTTTAAATTTAAAATTAAA
1 -TTAAATTTAAATTTAAAATTAAA
26432 TTAA
1 TTAA
26436 TGTCCAAATA
Statistics
Matches: 53, Mismatches: 15, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
22 14 0.26
23 32 0.60
24 7 0.13
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAAATTTAAATTTAAAATTAAA
Found at i:27398 original size:14 final size:14
Alignment explanation
Indices: 27381--27413 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
27371 ACAGTGGTCG
27381 GACGGTAGGGCAGC
1 GACGGTAGGGCAGC
27395 GACGGTAGGGCAGC
1 GACGGTAGGGCAGC
27409 GACGG
1 GACGG
27414 CGCGTGGCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.52, T:0.06
Consensus pattern (14 bp):
GACGGTAGGGCAGC
Found at i:28073 original size:29 final size:29
Alignment explanation
Indices: 28019--28249 Score: 220
Period size: 29 Copynumber: 7.9 Consensus size: 29
28009 CCCTAGAGGT
* *
28019 CCCT-AAACTATCCAAAAATTATATTTTAA
1 CCCTCAAACT-TCCAAAAATTACATTTTGA
* *
28048 CACTCGAACTTCCAAAAATTACA-TTTGA
1 CCCTCAAACTTCCAAAAATTACATTTTGA
*
28076 CCCTCAAATTTCCAAAAATTACATTTTGA
1 CCCTCAAACTTCCAAAAATTACATTTTGA
* * *
28105 CCCTAAAAATTTCAAAAATTACAATTTT-A
1 CCCTCAAACTTCCAAAAATTAC-ATTTTGA
* * *
28134 CCCTTAAACTT-CTAAAATTCCATTTTTGA
1 CCCTCAAACTTCCAAAAATTACA-TTTTGA
* *
28163 CCCTAAAACTTCCAAAAATTACATTTTTA
1 CCCTCAAACTTCCAAAAATTACATTTTGA
* *
28192 CCCCCAAACTTCCAAAAATTCCATTTTTGA
1 CCCTCAAACTTCCAAAAATTACA-TTTTGA
* *
28222 CCC-CGAAACTTTCAAAAACTACCATTTT
1 CCCTC-AAACTTCCAAAAATTA-CATTTT
28250 AACCTCGGAT
Statistics
Matches: 168, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
27 1 0.01
28 36 0.21
29 86 0.51
30 43 0.26
31 2 0.01
ACGTcount: A:0.39, C:0.25, G:0.03, T:0.33
Consensus pattern (29 bp):
CCCTCAAACTTCCAAAAATTACATTTTGA
Found at i:28169 original size:58 final size:59
Alignment explanation
Indices: 28054--28280 Score: 255
Period size: 59 Copynumber: 3.9 Consensus size: 59
28044 TTAACACTCG
* * * *
28054 AACTTCCAAAAATTAC-ATTTGACCCTCAAATTTCCAAAAATTACA-TTTTGACCCTAA
1 AACTTTCAAAAATTACAATTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACCCTAA
* * *
28111 AAATTTCAAAAATTACAATTTTACCCTTAAACTT-CTAAAATTCCATTTTTGACCCTAA
1 AACTTTCAAAAATTACAATTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACCCTAA
* * * **
28169 AACTTCCAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCCCGA
1 AACTTTCAAAAATTACAATTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACCCTAA
* * * ** *
28228 AACTTTCAAAAACTACCATTTTAACCTCGGA-TGTCTAAAAATTCCATTTTTGA
1 AACTTTCAAAAATTACAATTTTACCCTCAAACT-TCCAAAAATTCCATTTTTGA
28281 TCTTGATTTT
Statistics
Matches: 142, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
57 23 0.16
58 56 0.39
59 63 0.44
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (59 bp):
AACTTTCAAAAATTACAATTTTACCCTCAAACTTCCAAAAATTCCATTTTTGACCCTAA
Found at i:28278 original size:29 final size:29
Alignment explanation
Indices: 28246--28339 Score: 68
Period size: 29 Copynumber: 3.3 Consensus size: 29
28236 AAAACTACCA
28246 TTTTAACCTCGGATGTCTAAAAATTCCAT
1 TTTTAACCTCGGATGTCTAAAAATTCCAT
* * * * * *
28275 TTTTGATCT-TGATTTTTTAAAAATTACC-G
1 TTTTAACCTCGGA-TGTCTAAAAATT-CCAT
* * *
28304 TTTTACCCTCGAATGTCT-AAAATTTCAT
1 TTTTAACCTCGGATGTCTAAAAATTCCAT
28332 TTTTAACC
1 TTTTAACC
28340 CTAAATTTTC
Statistics
Matches: 45, Mismatches: 16, Indels: 9
0.64 0.23 0.13
Matches are distributed among these distances:
27 1 0.02
28 15 0.33
29 26 0.58
30 3 0.07
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.45
Consensus pattern (29 bp):
TTTTAACCTCGGATGTCTAAAAATTCCAT
Found at i:28348 original size:58 final size:58
Alignment explanation
Indices: 28054--28376 Score: 246
Period size: 58 Copynumber: 5.5 Consensus size: 58
28044 TTAACACTCG
* * * * * *
28054 AACTTCCAAAAATTA-CATTTGACCCTCAAATTTCCAAAAATTACA-TTTTGACCCTAA
1 AACTTTCAAAAATTACCATTTTACCCTCGAACTT-CTAAAATTCCATTTTTGACCCTAA
* * **
28111 AAATTTCAAAAATTACAATTTTACCCTTAAACTTCTAAAATTCCATTTTTGACCCTAA
1 AACTTTCAAAAATTACCATTTTACCCTCGAACTTCTAAAATTCCATTTTTGACCCTAA
* * * * **
28169 AACTTCCAAAAATTA-CATTTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCCCGA
1 AACTTTCAAAAATTACCA-TTTTACCCTCGAACTT-CTAAAATTCCATTTTTGACCCTAA
* * * * **
28228 AACTTTCAAAAACTACCATTTTAACCTCGGA-TGTCTAAAAATTCCATTTTTGA-TCTTG
1 AACTTTCAAAAATTACCATTTTACCCTCGAACT-TCT-AAAATTCCATTTTTGACCCTAA
** * * * *
28286 ATTTTTTAAAAATTACCGTTTTACCCTCGAA-TGTCTAAAATTTCATTTTTAACCCT-A
1 AACTTTCAAAAATTACCATTTTACCCTCGAACT-TCTAAAATTCCATTTTTGACCCTAA
*
28343 AATTTTCCCAAAAAATTACCATTTTAACCCTCGA
1 AACTTT--C-AAAAATTACCATTTT-ACCCTCGA
28377 GAGTCCAAAA
Statistics
Matches: 213, Mismatches: 41, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
57 42 0.20
58 87 0.41
59 60 0.28
60 16 0.08
61 8 0.04
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (58 bp):
AACTTTCAAAAATTACCATTTTACCCTCGAACTTCTAAAATTCCATTTTTGACCCTAA
Found at i:43331 original size:15 final size:16
Alignment explanation
Indices: 43311--43342 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
43301 AAGCGGAGTA
43311 GGGTAGGGT-GGGATG
1 GGGTAGGGTAGGGATG
43326 GGGTAGGGTAGGGATG
1 GGGTAGGGTAGGGATG
43342 G
1 G
43343 ATGCGTCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.16, C:0.00, G:0.66, T:0.19
Consensus pattern (16 bp):
GGGTAGGGTAGGGATG
Found at i:43598 original size:36 final size:35
Alignment explanation
Indices: 43553--43665 Score: 95
Period size: 36 Copynumber: 3.5 Consensus size: 35
43543 TTGTTTTATT
*
43553 TCTCCCCTAACATGTTTGATATCTACCTTATTGCTA
1 TCTCGCCTAACATGTTTGATATCT-CCTTATTGCTA
*
43589 TCTCGCCTAATATG-TT--T-T-T--TTA-T--T-
1 TCTCGCCTAACATGTTTGATATCTCCTTATTGCTA
*
43613 TCTCGCCTAACATGTTTGATAACTCCCTTATTGCTA
1 TCTCGCCTAACATGTTTGATATCT-CCTTATTGCTA
*
43649 TCTCGCCCAACATGTTT
1 TCTCGCCTAACATGTTT
43666 TGTATATATT
Statistics
Matches: 60, Mismatches: 5, Indels: 24
0.67 0.06 0.27
Matches are distributed among these distances:
24 13 0.22
25 3 0.05
27 2 0.03
28 3 0.05
29 1 0.02
31 1 0.02
32 4 0.07
33 2 0.03
35 3 0.05
36 28 0.47
ACGTcount: A:0.20, C:0.27, G:0.10, T:0.43
Consensus pattern (35 bp):
TCTCGCCTAACATGTTTGATATCTCCTTATTGCTA
Found at i:43610 original size:60 final size:60
Alignment explanation
Indices: 43537--43666 Score: 206
Period size: 60 Copynumber: 2.2 Consensus size: 60
43527 AAAATCACTT
* * *
43537 AACATGTTGTTTTATTTCTCCCCTAACATGTTTGATATCTACCTTATTGCTATCTCGCCT
1 AACATGTTTTTTTATTTCTCCCCTAACATGTTTGATAACTACCTTATTGCTATCTCGCCC
* * *
43597 AATATGTTTTTTTATTTCTCGCCTAACATGTTTGATAACTCCCTTATTGCTATCTCGCCC
1 AACATGTTTTTTTATTTCTCCCCTAACATGTTTGATAACTACCTTATTGCTATCTCGCCC
43657 AACATGTTTT
1 AACATGTTTT
43667 GTATATATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (60 bp):
AACATGTTTTTTTATTTCTCCCCTAACATGTTTGATAACTACCTTATTGCTATCTCGCCC
Found at i:44062 original size:24 final size:25
Alignment explanation
Indices: 44035--44085 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
44025 AATTTTCTCA
*
44035 TATGA-ATTTTGCTCCC-GATAAAAT
1 TATGAGATTTTAC-CCCTGATAAAAT
44059 TATGATGATTTTACCCCTGATAAAAT
1 TATGA-GATTTTACCCCTGATAAAAT
44085 T
1 T
44086 TCAAAAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 5 0.22
25 3 0.13
26 15 0.65
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (25 bp):
TATGAGATTTTACCCCTGATAAAAT
Found at i:46929 original size:16 final size:16
Alignment explanation
Indices: 46903--46951 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
46893 TACATTTCTT
46903 CATTA-TAAATTATAA
1 CATTACTAAATTATAA
46918 CATTACTAAATTATAA
1 CATTACTAAATTATAA
*
46934 -ATTTACGAAACTTATAA
1 CA-TTACTAAA-TTATAA
46951 C
1 C
46952 TTATTGTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 6 0.21
16 17 0.59
17 6 0.21
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (16 bp):
CATTACTAAATTATAA
Found at i:47087 original size:13 final size:13
Alignment explanation
Indices: 47064--47103 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
47054 TTTCACCAAA
47064 AAATAAAATATAT
1 AAATAAAATATAT
*
47077 AAA-ACAAATATTT
1 AAATA-AAATATAT
47090 AAATAAAATATAT
1 AAATAAAATATAT
47103 A
1 A
47104 GTTTGGTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAAAATATAT
Found at i:62180 original size:22 final size:22
Alignment explanation
Indices: 62135--62180 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
62125 ACACCTTCGT
*
62135 CGTACTTGCTATCGTTTACCGC
1 CGTACTTGCTATCGTTCACCGC
* * *
62157 CGTACTTGTTGTCGTTCACTGC
1 CGTACTTGCTATCGTTCACCGC
62179 CG
1 CG
62181 CACCCGCTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.30, G:0.22, T:0.37
Consensus pattern (22 bp):
CGTACTTGCTATCGTTCACCGC
Found at i:69689 original size:446 final size:447
Alignment explanation
Indices: 68207--69887 Score: 2641
Period size: 447 Copynumber: 3.8 Consensus size: 447
68197 AGTCGTTTGT
* * * *** * *
68207 TTTTTATCATTTGTTTTGCTCAGTGACAGTGGCAGCCTTCGAGCTGGCTATCTCCCGTCTTTTTC
1 TTTTTATCTTTTGTTTTGCCCAGCGGTGGTGCCAGCCTTCGAGCTGGCTATCTCCCG-CCTTTTC
* * * *
68272 -CCCTCCCATCAACCCTTTATCTCTTTAC-TCTTCTCATTAATTACACATGTATTCTCTCTTTTC
65 GCCCTCCCATCAACCCTTTCTTTCTTT-CTTCTTCTCATTCATTACACGTGTATTCTCTCTTTTC
* * * *
68335 AGTTAGCAGATCTATTTTGTACGTATCTTTGTTGTCTTCACAAGTTGTGATGAATAGATGATGGT
129 AGTTAGCAGATCTATTTTGTAGGTATCTTTTTTGTCATCACAAGTTGTAATGAATAGATGATGGT
* *
68400 GCCTATTGTTCGCTAAAACTCCACCAGCCACTAGTGACTTGTCATCAACTTCTTAATCTGTTTGA
194 GCCTATTGTTCGCTAAAACTCCACCGGCCACTAGTGACTTTTCATCAACTTCTTAATCTGTTTGA
* *
68465 GAGTATTTTAGAATAATAAATGATTTCACGAGTTGCTTTAGACCCGTGTTGTCTTAAGCTTTATA
259 AAGTATTTCAGAATAATAAATGATTTCACGAGTTGCTTTAGACCCGTGTTGTCTTAAGCTTTATA
* *
68530 TGTTTTTTTGTTTGTTTTTCTATTGTTTCATAATTCTTCAGTTTTGGAAGTTTTTGTCTGCTCTT
324 TGTTTTTTTGTTTGTTTTTCTATTGTTTCATAAGTCTTCAGTTTTAGAAGTTTTTGTCTGCTCTT
68595 GTAGCACATTTTTTAGTCTTGCTTATGCATGTAATCTTAGTTTTACAAGTGACGCTTGC
389 GTAGCACATTTTTTAGTCTTGCTTATGCATGTAATCTTAGTTTTACAAGTGACGCTTGC
*
68654 ATTTTATCTTTTGTTTTGCCCAGCGGTGGTGCCAGCCTTCGAGCTGGCTATCTCCCGCCTTTTCG
1 TTTTTATCTTTTGTTTTGCCCAGCGGTGGTGCCAGCCTTCGAGCTGGCTATCTCCCGCCTTTTCG
* *
68719 CCCTCCCATCAACCCTTTCTTTCTTTCTTCTTCTCATTCATTACATGTGTCTTCTCTCTTTTCAG
66 CCCTCCCATCAACCCTTTCTTTCTTTCTTCTTCTCATTCATTACACGTGTATTCTCTCTTTTCAG
* * *
68784 TTTGCTGATCTATTTTGTGGGTATCTTTTTTGTCATCACAAGTTGTAATGAATAGATGATGGTGC
131 TTAGCAGATCTATTTTGTAGGTATCTTTTTTGTCATCACAAGTTGTAATGAATAGATGATGGTGC
68849 CTATTGTTCGCTAAAACTCCACCGGCCACTAGTGACTTTTCATCAACTTCTTAATCTGTTTGAAA
196 CTATTGTTCGCTAAAACTCCACCGGCCACTAGTGACTTTTCATCAACTTCTTAATCTGTTTGAAA
*
68914 GTATTTCAGAATAATAAATGATTTCACGAGTTGCTTTAGACCCATGTTGTCTTAAGCTTTATATG
261 GTATTTCAGAATAATAAATGATTTCACGAGTTGCTTTAGACCCGTGTTGTCTTAAGCTTTATATG
*
68979 TTTTTTTGTTTGTTTTTCTATTGTTTCATAAGTATTCAGTTTTAGAAGTTTTTGTCTGCTCTTGT
326 TTTTTTTGTTTGTTTTTCTATTGTTTCATAAGTCTTCAGTTTTAGAAGTTTTTGTCTGCTCTTGT
*
69044 AGCACATTTTTTAGTCTTGCTTATGCATGTAATCTTAGTTTTACAAGTGACACTTGC
391 AGCACATTTTTTAGTCTTGCTTATGCATGTAATCTTAGTTTTACAAGTGACGCTTGC
*
69101 TTTTTATCTTTTGTTTTGCCCAGCGGTGGTGCCAGCCTTCGAGCTAGCTATCTCCCGCCTTTTCG
1 TTTTTATCTTTTGTTTTGCCCAGCGGTGGTGCCAGCCTTCGAGCTGGCTATCTCCCGCCTTTTCG
* * *
69166 CCCTCCCATCAACCCTTTCTTTCTTTCTTCTTCTCATTCATTACATGTGTCTTCTCTTTTTTCAG
66 CCCTCCCATCAACCCTTTCTTTCTTTCTTCTTCTCATTCATTACACGTGTATTCTCTCTTTTCAG
* * *
69231 TTTGCTGATCTATTTTGTGGGTATCTTTTTTGTCATCACAAGTTGTAATGAATAGATGATGGTGC
131 TTAGCAGATCTATTTTGTAGGTATCTTTTTTGTCATCACAAGTTGTAATGAATAGATGATGGTGC
69296 CTATTGTTCGCTAAAACTCCACCGGCCACTAGTGACTTTTCATCAACTTCTTAATCTGTTTGAAA
196 CTATTGTTCGCTAAAACTCCACCGGCCACTAGTGACTTTTCATCAACTTCTTAATCTGTTTGAAA
*
69361 GTATTTCAGAATAATAAATGATTTCACGAGTTGCTTTAGACCTGTGTTGTCTTAAGCTTTATATG
261 GTATTTCAGAATAATAAATGATTTCACGAGTTGCTTTAGACCCGTGTTGTCTTAAGCTTTATATG
* * *
69426 -TTTTTTGTTTGTTTTTCTATTGTTTAATAAGTCTTCTA-TTTTAAAAGTTTTTGTCTACTCTTG
326 TTTTTTTGTTTGTTTTTCTATTGTTTCATAAGTCTTC-AGTTTTAGAAGTTTTTGTCTGCTCTTG
* *
69489 TAGCACATTTTTTAGTCTTGCTTATGCATGTAATCTTAGTTTTATAAGTGACGTTTGC
390 TAGCACATTTTTTAGTCTTGCTTATGCATGTAATCTTAGTTTTACAAGTGACGCTTGC
** * *
69547 TTTTTATCTTTTGTTTCACCCAGTGGTGGTGCCAGCCTTCGAACTGGCTATCTCCCGCCTTTTCG
1 TTTTTATCTTTTGTTTTGCCCAGCGGTGGTGCCAGCCTTCGAGCTGGCTATCTCCCGCCTTTTCG
* * * *
69612 CCCTTCCATCAATCCTTTCTTTCTTTCTTCTTCTCATTCATTACACGTGGATTTTCTCTTTTCAG
66 CCCTCCCATCAACCCTTTCTTTCTTTCTTCTTCTCATTCATTACACGTGTATTCTCTCTTTTCAG
* * * * * ***
69677 TTAGCAGATCTATTTTGTAGGTATCTTTATTGTCTTCACAAGTTTTGATGGATAGATGATGACAC
131 TTAGCAGATCTATTTTGTAGGTATCTTTTTTGTCATCACAAGTTGTAATGAATAGATGATGGTGC
* * * * * *
69742 CTGTTGTTCGCTAAAACTTCACCGGCTAGTAGTGACTTTTCATCATCTTCTTAATCTGTTTGAGA
196 CTATTGTTCGCTAAAACTCCACCGGCCACTAGTGACTTTTCATCAACTTCTTAATCTGTTTGAAA
* * * * * *
69807 GTATTTTAGAATAATAAGTGATTTCACGAGTTGCTTTGGACCCGTGCTATCTTAAGCTTTATATA
261 GTATTTCAGAATAATAAATGATTTCACGAGTTGCTTTAGACCCGTGTTGTCTTAAGCTTTATATG
*
69872 TTTTTTTCTATTGTTT
326 TTTTTTTGT-TTGTTT
69888 AATAAGCCTT
Statistics
Matches: 1149, Mismatches: 80, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
446 408 0.36
447 735 0.64
448 6 0.01
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (447 bp):
TTTTTATCTTTTGTTTTGCCCAGCGGTGGTGCCAGCCTTCGAGCTGGCTATCTCCCGCCTTTTCG
CCCTCCCATCAACCCTTTCTTTCTTTCTTCTTCTCATTCATTACACGTGTATTCTCTCTTTTCAG
TTAGCAGATCTATTTTGTAGGTATCTTTTTTGTCATCACAAGTTGTAATGAATAGATGATGGTGC
CTATTGTTCGCTAAAACTCCACCGGCCACTAGTGACTTTTCATCAACTTCTTAATCTGTTTGAAA
GTATTTCAGAATAATAAATGATTTCACGAGTTGCTTTAGACCCGTGTTGTCTTAAGCTTTATATG
TTTTTTTGTTTGTTTTTCTATTGTTTCATAAGTCTTCAGTTTTAGAAGTTTTTGTCTGCTCTTGT
AGCACATTTTTTAGTCTTGCTTATGCATGTAATCTTAGTTTTACAAGTGACGCTTGC
Found at i:79077 original size:18 final size:17
Alignment explanation
Indices: 79054--79116 Score: 58
Period size: 18 Copynumber: 3.8 Consensus size: 17
79044 GCATTATTTT
79054 TTAAAAGTATTTTTGAGA
1 TTAAAAGTATTTTTGA-A
* *
79072 TTAAAATTTTTTTTGAA
1 TTAAAAGTATTTTTGAA
* *
79089 ATAAAAGTATTATT-AA
1 TTAAAAGTATTTTTGAA
*
79105 ATAAAA-TATTTT
1 TTAAAAGTATTTT
79117 AAAAATTTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
15 5 0.13
16 8 0.21
17 11 0.29
18 14 0.37
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (17 bp):
TTAAAAGTATTTTTGAA
Found at i:79617 original size:23 final size:24
Alignment explanation
Indices: 79566--79621 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 24
79556 ATTTTTTATT
*
79566 TTTATATAAAAAATTAAAAATACA
1 TTTAAATAAAAAATTAAAAATACA
*
79590 -ATAAATAAAAACATTAAAAA-A-A
1 TTTAAATAAAAA-ATTAAAAATACA
79612 TTTAAA-AAAA
1 TTTAAATAAAA
79622 TATTTTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
22 5 0.19
23 14 0.52
24 8 0.30
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.27
Consensus pattern (24 bp):
TTTAAATAAAAAATTAAAAATACA
Found at i:80298 original size:17 final size:17
Alignment explanation
Indices: 80276--80317 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
80266 CATTGTTTTT
80276 CAAAAACACTTTTGAAA
1 CAAAAACACTTTTGAAA
* *
80293 CAAAAATACTTTTGAGA
1 CAAAAACACTTTTGAAA
*
80310 TAAAAACA
1 CAAAAACA
80318 TTATTAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (17 bp):
CAAAAACACTTTTGAAA
Found at i:80825 original size:23 final size:24
Alignment explanation
Indices: 80775--80825 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
80765 ATATTTTTAC
80775 TTTT-ATTTTTAGAAATTTAATTAA
1 TTTTAATTTTTAGAAATTTAA-TAA
80799 -TTTAATTTTTA-AAATTTCAA-AA
1 TTTTAATTTTTAGAAATTT-AATAA
80821 TTTTA
1 TTTTA
80826 GTCAATTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
22 2 0.08
23 13 0.54
24 9 0.38
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTAATTTTTAGAAATTTAATAA
Found at i:81699 original size:27 final size:25
Alignment explanation
Indices: 81652--81701 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
81642 GAACTTGACA
*
81652 TTTTTTTTTAATTTGGCACCTAAGC
1 TTTTTTTTTAATTTGACACCTAAGC
*
81677 TTTTTTTGTTCAATTTGATACCTAA
1 TTTTTTT-TT-AATTTGACACCTAA
81702 ATTTGTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 2 0.10
27 12 0.57
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.54
Consensus pattern (25 bp):
TTTTTTTTTAATTTGACACCTAAGC
Found at i:82768 original size:22 final size:22
Alignment explanation
Indices: 82709--82772 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
82699 TATTTTGTTG
* *
82709 CTATTGTTTGGATATTATATAA
1 CTATTATTTGAATATTATATAA
* *
82731 CTCTTATTTGAATATTGTATAA
1 CTATTATTTGAATATTATATAA
*
82753 CTATTGATTT-ATTATTATAT
1 CTATT-ATTTGAATATTATAT
82773 GTTTTAAGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 30 0.88
23 4 0.12
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (22 bp):
CTATTATTTGAATATTATATAA
Found at i:83848 original size:28 final size:27
Alignment explanation
Indices: 83799--83889 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
83789 TTTTGGAGTG
* * *
83799 TGCCACATAGGCATTTTCTTTCAGATTAT
1 TGCCACAAAGGC-TCTTCTTTCAGA-GAT
*
83828 TGCCACAAGGGCTCTTCTTTCAGAGAT
1 TGCCACAAAGGCTCTTCTTTCAGAGAT
* * *
83855 TGCCACAAAGGCTATCCCTTCAGAG-T
1 TGCCACAAAGGCTCTTCTTTCAGAGAT
83881 TCGCCACAA
1 T-GCCACAA
83890 GGCCGATTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.04
27 30 0.57
28 11 0.21
29 10 0.19
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (27 bp):
TGCCACAAAGGCTCTTCTTTCAGAGAT
Found at i:83862 original size:27 final size:27
Alignment explanation
Indices: 83814--83900 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
83804 CATAGGCATT
* *
83814 TTCTTTCAGATTATTGCCACAAGGGCTC
1 TTCTTTCAGA-GATTGCCACAAGGGCTA
*
83842 TTCTTTCAGAGATTGCCACAAAGGCTA
1 TTCTTTCAGAGATTGCCACAAGGGCTA
* * * *
83869 TCCCTTCAGAG-TTCGCCACAAGGCCGA
1 TTCTTTCAGAGATT-GCCACAAGGGCTA
83896 TTCTT
1 TTCTT
83901 AAGAGTGTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.04
27 36 0.75
28 10 0.21
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (27 bp):
TTCTTTCAGAGATTGCCACAAGGGCTA
Found at i:86909 original size:97 final size:97
Alignment explanation
Indices: 86741--86927 Score: 216
Period size: 97 Copynumber: 1.9 Consensus size: 97
86731 GAAAAGGATG
* * ** *
86741 TTCGATTATCTCGATTTGAAGAAGAGTCGCACCTAGTAAATTAAGGCGTAAATTTTCAGAATCAG
1 TTCGATTATCTCGATTTGAAGAAAAATCGCACCTAGTAAATTAAGGCACAAATTTTCAAAATCAG
*
86806 AGAT-AAAGAAACATTGCCTCGATTTAAGGGTA
66 AAATAAAAG-AACATTGCCTCGATTTAAGGGTA
* * * * * *
86838 TTCGATTATTTTGATTTGAGGAAAAATTGCACCTAGTAAGTTAAGGTACAAATTTTCAAAACTC-
1 TTCGATTATCTCGATTTGAAGAAAAATCGCACCTAGTAAATTAAGGCACAAATTTTCAAAA-TCA
* *
86902 GAAATAAAAGAATATTGCCTTGATTT
65 GAAATAAAAGAACATTGCCTCGATTT
86928 TAAAGTTTTT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
97 68 0.92
98 6 0.08
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (97 bp):
TTCGATTATCTCGATTTGAAGAAAAATCGCACCTAGTAAATTAAGGCACAAATTTTCAAAATCAG
AAATAAAAGAACATTGCCTCGATTTAAGGGTA
Found at i:87177 original size:28 final size:28
Alignment explanation
Indices: 87146--87205 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
87136 AAAATGTGAT
87146 TTTTGGAT-ACCCGAGGGTAAAATGGA-AA
1 TTTTGG-TCACCCGAGGGTAAAAT-GATAA
*
87174 TTTTGGTCACTCGAGGGTAAAATGATAA
1 TTTTGGTCACCCGAGGGTAAAATGATAA
87202 TTTT
1 TTTT
87206 TTGAAAAGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (28 bp):
TTTTGGTCACCCGAGGGTAAAATGATAA
Found at i:87283 original size:60 final size:57
Alignment explanation
Indices: 87218--87473 Score: 182
Period size: 59 Copynumber: 4.4 Consensus size: 57
87208 GAAAAGTCGG
* *
87218 GGGTCAAAAAAT-AGAATTTTTAGACATCTGGGGGTGAAATGGTACTTTTTGGAATAA-TC
1 GGGTCAAAAAATGA-AATTTTTAGA-AT-TGGGGGTAAAATGGTACTTTTTGGAA-AATTA
* * **
87277 GAGGTC-AAAAATGAAATTTTTGGAAGTTAGGGGTAAAATGGTTTTTTTTGGAAAAATTA
1 G-GGTCAAAAAATGAAATTTTTAGAA-TTGGGGGTAAAATGGTACTTTTTGG-AAAATTA
* * * *
87336 GGGTTAAAAAATGAAATTTTTGGATGTTTGGGGGTAAAATGGTAGTTTTTGGAAAATTTA
1 GGGTCAAAAAATGAAATTTTTAGA--ATTGGGGGTAAAATGGTACTTTTTGGAAAA-TTA
** * * * *
87396 GGGT-AAAAAAT-AGAATTTTTAGAAGTTTAAGGGTAAAATGATAATTTTTGAAAAAATCA
1 GGGTCAAAAAATGA-AATTTTTAGAA--TTGGGGGTAAAATGGTACTTTTTG-GAAAATTA
* *
87455 AGGTC-AAAAATGGAATTTT
1 GGGTCAAAAAATGAAATTTT
87474 GGAAAGTTTA
Statistics
Matches: 161, Mismatches: 21, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
58 27 0.17
59 96 0.60
60 38 0.24
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.34
Consensus pattern (57 bp):
GGGTCAAAAAATGAAATTTTTAGAATTGGGGGTAAAATGGTACTTTTTGGAAAATTA
Found at i:87353 original size:59 final size:59
Alignment explanation
Indices: 87248--87506 Score: 267
Period size: 59 Copynumber: 4.4 Consensus size: 59
87238 TAGACATCTG
* * * * *
87248 GGGGTGAAATGGTACTTTTTGGAATAA-TCGAGGTCAAAAATGAAATTTTTGGAAG-TTA
1 GGGGTAAAATGGTAATTTTTGGAAAAATTAG-GGTAAAAAATGAAATTTTTGGAAGTTTA
** * *
87306 GGGGTAAAATGGTTTTTTTTGGAAAAATTAGGGTTAAAAAATGAAATTTTTGGATGTTTG
1 GGGGTAAAATGGTAATTTTTGGAAAAATTAGGG-TAAAAAATGAAATTTTTGGAAGTTTA
* * *
87366 GGGGTAAAATGGTAGTTTTTGGAAAATTTAGGGTAAAAAAT-AGAATTTTTAGAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGAAAAATTAGGGTAAAAAATGA-AATTTTTGGAAGTTTA
* * * * * * *
87425 AGGGTAAAATGATAATTTTTGAAAAAATCAAGGTCAAAAATGGAA-TTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGAAAAATTAGGGTAAAAAATGAAATTTTTGG-AAGTTTA
87484 GGGGTAAAAAT-GTAATTTTTGGA
1 GGGGT-AAAATGGTAATTTTTGGA
87507 TAGTTTAGGG
Statistics
Matches: 167, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
58 31 0.19
59 99 0.59
60 37 0.22
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGAAAAATTAGGGTAAAAAATGAAATTTTTGGAAGTTTA
Found at i:87414 original size:29 final size:29
Alignment explanation
Indices: 87382--87493 Score: 75
Period size: 29 Copynumber: 3.8 Consensus size: 29
87372 AAATGGTAGT
87382 TTTTGGAAAATTTAGGGTAAAAAATAGAA
1 TTTTGGAAAATTTAGGGTAAAAAATAGAA
* * * *
87411 TTTT-TAGAAGTTTAAGGGTAAAATGATA-AT
1 TTTTGGA-AAATTT-AGGGTAAAA-AATAGAA
* * * * * *
87441 TTTTGAAAAAATCAAGGTCAAAAATGGAA
1 TTTTGGAAAATTTAGGGTAAAAAATAGAA
*
87470 TTTTGGAAAGTTTAGGGGTAAAAA
1 TTTTGGAAAATTTA-GGGTAAAAA
87494 TGTAATTTTT
Statistics
Matches: 58, Mismatches: 19, Indels: 11
0.66 0.22 0.12
Matches are distributed among these distances:
28 3 0.05
29 27 0.47
30 24 0.41
31 4 0.07
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.32
Consensus pattern (29 bp):
TTTTGGAAAATTTAGGGTAAAAAATAGAA
Found at i:87449 original size:118 final size:117
Alignment explanation
Indices: 87187--87516 Score: 296
Period size: 118 Copynumber: 2.8 Consensus size: 117
87177 TGGTCACTCG
* * * * *
87187 AGGGTAAAATGATAATTTTTTGAAAAGTCGGGGGTCAAAAAAT-AGAATTTTTAGACA-TCTGGG
1 AGGGTAAAATGATAA-TTTTTGAAAAATC-AGGGTTAAAAAATGA-AATTTTTGGA-AGTTTGGG
* * ** * *
87250 GGTGAAATGGTACTTTTTGGAATAATCGA-GGTCAAAAATGAAATTTTTGGAAGTTA
62 GGTAAAATGGTAATTTTTGGAA-AATTTAGGGTAAAAAATGAAATTTTTAGAAGTTA
* * ** * *
87306 GGGGTAAAATGGTTTTTTTTGGAAAAATTAGGGTTAAAAAATGAAATTTTTGGATGTTTGGGGGT
1 AGGGTAAAATGATAATTTTT-GAAAAATCAGGGTTAAAAAATGAAATTTTTGGAAGTTTGGGGGT
*
87371 AAAATGGTAGTTTTTGGAAAATTTAGGGTAAAAAAT-AGAATTTTTAGAAGTTTA
65 AAAATGGTAATTTTTGGAAAATTTAGGGTAAAAAATGA-AATTTTTAGAAG-TTA
* * * *
87425 AGGGTAAAATGATAATTTTTGAAAAAATCAAGG-TCAAAAATGGAA-TTTTGGAAAGTTTAGGGG
1 AGGGTAAAATGATAATTTTTG-AAAAATCAGGGTTAAAAAATGAAATTTTTGG-AAGTTTGGGGG
* *
87488 TAAAAAT-GTAATTTTTGGATAGTTTAGGG
64 T-AAAATGGTAATTTTTGGAAAATTTAGGG
87517 ACCTTCAGGG
Statistics
Matches: 172, Mismatches: 30, Indels: 19
0.78 0.14 0.09
Matches are distributed among these distances:
117 11 0.06
118 110 0.64
119 51 0.30
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (117 bp):
AGGGTAAAATGATAATTTTTGAAAAATCAGGGTTAAAAAATGAAATTTTTGGAAGTTTGGGGGTA
AAATGGTAATTTTTGGAAAATTTAGGGTAAAAAATGAAATTTTTAGAAGTTA
Found at i:87506 original size:30 final size:30
Alignment explanation
Indices: 87283--87516 Score: 148
Period size: 30 Copynumber: 7.9 Consensus size: 30
87273 AATCGAGGTC
*
87283 AAAAATGAAATTTTTGG-AAG-TTAGGGGT
1 AAAAATGTAATTTTTGGAAAGTTTAGGGGT
** ** *
87311 -AAAATGGTTTTTTTTGGAAAAATTAGGGTT
1 AAAAAT-GTAATTTTTGGAAAGTTTAGGGGT
* * *
87341 AAAAAATGAAATTTTTGG-ATGTTTGGGGGT
1 -AAAAATGTAATTTTTGGAAAGTTTAGGGGT
* *
87371 -AAAATGGTAGTTTTTGGAAAATTTA-GGGT
1 AAAAAT-GTAATTTTTGGAAAGTTTAGGGGT
* *
87400 AAAAAATAG-AATTTTTAG-AAGTTTAAGGGT
1 -AAAAAT-GTAATTTTTGGAAAGTTTAGGGGT
* ** * *
87430 -AAAATGATAATTTTTGAAAAAATCA-AGGT
1 AAAAATG-TAATTTTTGGAAAGTTTAGGGGT
*
87459 CAAAAATGGAA-TTTTGGAAAGTTTAGGGGT
1 -AAAAATGTAATTTTTGGAAAGTTTAGGGGT
*
87489 AAAAATGTAATTTTTGGATAGTTTAGGG
1 AAAAATGTAATTTTTGGAAAGTTTAGGG
87517 ACCTTCAGGG
Statistics
Matches: 153, Mismatches: 36, Indels: 32
0.69 0.16 0.14
Matches are distributed among these distances:
27 6 0.04
28 18 0.12
29 50 0.33
30 54 0.35
31 20 0.13
32 5 0.03
ACGTcount: A:0.39, C:0.01, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAAATGTAATTTTTGGAAAGTTTAGGGGT
Found at i:88535 original size:27 final size:25
Alignment explanation
Indices: 88499--88571 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 25
88489 TCCTTTTTAT
*
88499 TTTATTATTAATATTATTAATGTCATA
1 TTTATTATTAATGTTATTAATGT--TA
*
88526 TTTATTATTACTGTTATTAATGTTA
1 TTTATTATTAATGTTATTAATGTTA
* *
88551 TTTATTACTAACGTTATTAAT
1 TTTATTATTAATGTTATTAAT
88572 AACTATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
25 20 0.49
27 21 0.51
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (25 bp):
TTTATTATTAATGTTATTAATGTTA
Found at i:88566 original size:25 final size:26
Alignment explanation
Indices: 88499--88571 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 26
88489 TCCTTTTTAT
*
88499 TTTATTATTAA-TATTATTAATGTCATA
1 TTTATTA-TAACTGTTATTAATGT-ATA
*
88526 TTTATTATTACTGTTATTAATGT-TA
1 TTTATTATAACTGTTATTAATGTATA
88551 TTTATTACTAAC-GTTATTAAT
1 TTTATTA-TAACTGTTATTAAT
88572 AACTATTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 18 0.44
26 5 0.12
27 18 0.44
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (26 bp):
TTTATTATAACTGTTATTAATGTATA
Found at i:89278 original size:17 final size:17
Alignment explanation
Indices: 89256--89338 Score: 87
Period size: 17 Copynumber: 4.7 Consensus size: 17
89246 TTAATCAATT
89256 TTAAATTTAAA-TTCAAA
1 TTAAATTTAAACTT-AAA
*
89273 TTAAATTTAAACTTAAT
1 TTAAATTTAAACTTAAA
89290 TTAAATTTAAACTTTAAAA
1 TTAAATTTAAAC-TT-AAA
**
89309 GAAAAGTTTAAACTTAAA
1 TTAAA-TTTAAACTTAAA
*
89327 CTAAATTTAAAC
1 TTAAATTTAAAC
89339 CCAAAAATGA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
17 32 0.57
18 10 0.18
19 7 0.12
20 7 0.12
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (17 bp):
TTAAATTTAAACTTAAA
Found at i:89288 original size:12 final size:12
Alignment explanation
Indices: 89255--89326 Score: 58
Period size: 11 Copynumber: 6.0 Consensus size: 12
89245 TTTAATCAAT
*
89255 TTTAAATTTAAA
1 TTTAAACTTAAA
*
89267 TTCAAA-TTAAA
1 TTTAAACTTAAA
89278 TTTAAACTT-AA
1 TTTAAACTTAAA
*
89289 TTTAAATTTAAA
1 TTTAAACTTAAA
***
89301 CTTTAAAAGAAAA
1 -TTTAAACTTAAA
89314 GTTTAAACTTAAA
1 -TTTAAACTTAAA
89327 CTAAATTTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
11 20 0.43
12 9 0.19
13 18 0.38
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (12 bp):
TTTAAACTTAAA
Found at i:89327 original size:6 final size:6
Alignment explanation
Indices: 89255--89307 Score: 65
Period size: 6 Copynumber: 9.0 Consensus size: 6
89245 TTTAATCAAT
* *
89255 TTTAAA TTTAAA TTCAAA -TTAAA TTTAAA CTT-AA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
89301 CTTTAAA
1 -TTTAAA
89308 AGAAAAGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
5 8 0.20
6 26 0.65
7 6 0.15
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:90123 original size:60 final size:60
Alignment explanation
Indices: 90045--90158 Score: 183
Period size: 60 Copynumber: 1.9 Consensus size: 60
90035 TCTAAGGTAC
* *
90045 AAGGTTCGCCATTACGACTTAAACCCTTCCCTTTGTGTCTTTGCGGTATTGGATCCATAT
1 AAGGTTCGCCATTACGACTTAAACCCTTCCCTTCGTGTCTTCGCGGTATTGGATCCATAT
* * *
90105 AAGGTTCGCCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCGTGGTATTGGAT
1 AAGGTTCGCCATTACGACTTAAACCCTTCCCTTCGTGTCTTCGCGGTATTGGAT
90159 TCACCGTTGC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (60 bp):
AAGGTTCGCCATTACGACTTAAACCCTTCCCTTCGTGTCTTCGCGGTATTGGATCCATAT
Found at i:90193 original size:49 final size:49
Alignment explanation
Indices: 90113--90575 Score: 337
Period size: 49 Copynumber: 9.4 Consensus size: 49
90103 ATAAGGTTCG
* * * *
90113 CCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCGTGGTATTGGATTCA
1 CCGTTGCGGCTTAAATCCTTCCCTTCATGTCTTCGTGGTACTGGATTCA
* * * * *
90162 CCGTTGCGGCTTAAATCTTTCTCTTCATGTCTTTGCGGTACTGGATCCA
1 CCGTTGCGGCTTAAATCCTTCCCTTCATGTCTTCGTGGTACTGGATTCA
* * * * **
90211 CCATTGCGGCTTAGAGT-CTTCCCTTCATGTC-TCTGAGGTACAAGG-TTTG
1 CCGTTGCGGCTTA-AATCCTTCCCTTCATGTCTTC-GTGGTAC-TGGATTCA
* * * * * * *
90260 CCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCATGGTATTAGATTCG
1 CCGTTGCGGCTTAAATCCTTCCCTTCATGTCTTCGTGGTACTGGATTCA
* * **** * *
90309 CCGTTGCGGCTTAAATCTTTTCCTTCATGTCTTTACAGTACTGGATCCG
1 CCGTTGCGGCTTAAATCCTTCCCTTCATGTCTTCGTGGTACTGGATTCA
* ** *
90358 CCGTTGCGGCTTAGATCCTTCCCTTCATGTC-TC-TAAGGTACAAGCTTCA
1 CCGTTGCGGCTTAAATCCTTCCCTTCATGTCTTCGT--GGTACTGGATTCA
* * * ** * *
90407 CCGTTGCGACTTAAACCCTTCCTTTTGTGTCTTCGTGGTATTGGATCCA
1 CCGTTGCGGCTTAAATCCTTCCCTTCATGTCTTCGTGGTACTGGATTCA
* * * * * *
90456 CCGTTACGGCTTAGATCCTTCCCTTAATGTC-TCTGAGGTACTAGATTCG
1 CCGTTGCGGCTTAAATCCTTCCCTTCATGTCTTC-GTGGTACTGGATTCA
* * * **
90505 CCGTTGCGACTT-AATCCTTTCCCTTTATATCTTTTTGGTACTGGATTCA
1 CCGTTGCGGCTTAAATCC-TTCCCTTCATGTCTTCGTGGTACTGGATTCA
*
90554 CCGTTGCGGCTTAAATCTTTCC
1 CCGTTGCGGCTTAAATCCTTCC
90576 ATTTTGTATC
Statistics
Matches: 313, Mismatches: 87, Indels: 28
0.73 0.20 0.07
Matches are distributed among these distances:
48 10 0.03
49 289 0.92
50 13 0.04
51 1 0.00
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.37
Consensus pattern (49 bp):
CCGTTGCGGCTTAAATCCTTCCCTTCATGTCTTCGTGGTACTGGATTCA
Found at i:90283 original size:147 final size:147
Alignment explanation
Indices: 90105--90529 Score: 568
Period size: 147 Copynumber: 2.9 Consensus size: 147
90095 GGATCCATAT
90105 AAGGTTCGCCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCGTGGTATTGGATTCACCGTTGCG
1 AAGGTTCGCCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCGTGGTATTGGATTCACCGTTGCG
90170 GCTTAAATCTTTCTCTTCATGTCTTTGCGGTACTGGATCCACCATTGCGGCTTAGAGT-CTTCCC
66 GCTTAAATCTTTCTCTTCATGTCTTTGCGGTACTGGATCCACCATTGCGGCTTAGA-TCCTTCCC
*
90234 TTCATGTCTCTGAGGTAC
130 TTCATGTCTCTAAGGTAC
* * * *
90252 AAGGTTTGCCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCATGGTATTAGATTCGCCGTTGCG
1 AAGGTTCGCCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCGTGGTATTGGATTCACCGTTGCG
* * * *
90317 GCTTAAATCTTT-TCCTTCATGTCTTTACAGTACTGGATCCGCCGTTGCGGCTTAGATCCTTCCC
66 GCTTAAATCTTTCT-CTTCATGTCTTTGCGGTACTGGATCCACCATTGCGGCTTAGATCCTTCCC
90381 TTCATGTCTCTAAGGTAC
130 TTCATGTCTCTAAGGTAC
* * * * * *
90399 AAGCTTCACCGTTGCGACTTAAACCCTTCCTTTTGTGTCTTCGTGGTATTGGATCCACCGTTACG
1 AAGGTTCGCCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCGTGGTATTGGATTCACCGTTGCG
* * * * * * * * * * *
90464 GCTTAGATCCTTCCCTTAATGTCTCTGAGGTACTAGATTCGCCGTTGCGACTTA-ATCCTTTCCC
66 GCTTAAATCTTTCTCTTCATGTCTTTGCGGTACTGGATCCACCATTGCGGCTTAGATCC-TTCCC
90528 TT
130 TT
90530 TATATCTTTT
Statistics
Matches: 244, Mismatches: 30, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
146 6 0.02
147 238 0.98
ACGTcount: A:0.16, C:0.28, G:0.20, T:0.36
Consensus pattern (147 bp):
AAGGTTCGCCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCGTGGTATTGGATTCACCGTTGCG
GCTTAAATCTTTCTCTTCATGTCTTTGCGGTACTGGATCCACCATTGCGGCTTAGATCCTTCCCT
TCATGTCTCTAAGGTAC
Found at i:90545 original size:147 final size:146
Alignment explanation
Indices: 90113--90629 Score: 543
Period size: 147 Copynumber: 3.5 Consensus size: 146
90103 ATAAGGTTCG
* *
90113 CCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCGTGGTATTGGATTCACCGTTGCGGCTTAAAT
1 CCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCATGGTATTGGATCCACCGTTGCGGCTTAAAT
* * * *
90178 CTTTCTCTTCATGTCTTTGCGGTACTGGATCCACCATTGCGGCTTAGAGT-CTTCCCTTCATGTC
66 CTTTCCCTTCATGTC-TTGAGGTACTGGATCCGCCGTTGCGGCTTAGA-TCCTTCCCTTCATGTC
* * **
90242 TCTGAGGTACAAGGTTTG
129 TCTAAGGTACAAGATTCA
* * *
90260 CCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCATGGTATTAGATTCGCCGTTGCGGCTTAAAT
1 CCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCATGGTATTGGATCCACCGTTGCGGCTTAAAT
* * *
90325 CTTTTCCTTCATGTCTTTACAGTACTGGATCCGCCGTTGCGGCTTAGATCCTTCCCTTCATGTCT
66 CTTTCCCTTCATGTCTTGA-GGTACTGGATCCGCCGTTGCGGCTTAGATCCTTCCCTTCATGTCT
*
90390 CTAAGGTACAAGCTTCA
130 CTAAGGTACAAGATTCA
* * * * *
90407 CCGTTGCGACTTAAACCCTTCCTTTTGTGTCTTCGTGGTATTGGATCCACCGTTACGGCTTAGAT
1 CCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCATGGTATTGGATCCACCGTTGCGGCTTAAAT
* * * * * * *
90472 CCTTCCCTTAATGTCTCTGAGGTACTAGATTCGCCGTTGCGACTTA-ATCCTTTCCCTTTATATC
66 CTTTCCCTTCATGTCT-TGAGGTACTGGATCCGCCGTTGCGGCTTAGATCC-TTCCCTTCATGTC
* ** **
90536 TTTTTGGTACTGGATTCA
129 TCTAAGGTACAAGATTCA
* * * * * * * * * * ** *
90554 CCGTTGCGGCTTAAATCTTTCCATTTTGTATCTTTACGATACTGGATCCGTCGTTGCGGCTTAGA
1 CCGTTGCGACTTAAACCCTTCC-CTTCGTGTCTTCATGGTATTGGATCCACCGTTGCGGCTTAAA
90619 TCTTTCCCTTC
65 TCTTTCCCTTC
90630 GTGTTTCATG
Statistics
Matches: 313, Mismatches: 52, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
146 7 0.02
147 262 0.84
148 44 0.14
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.38
Consensus pattern (146 bp):
CCGTTGCGACTTAAACCCTTCCCTTCGTGTCTTCATGGTATTGGATCCACCGTTGCGGCTTAAAT
CTTTCCCTTCATGTCTTGAGGTACTGGATCCGCCGTTGCGGCTTAGATCCTTCCCTTCATGTCTC
TAAGGTACAAGATTCA
Found at i:100841 original size:96 final size:98
Alignment explanation
Indices: 100674--100864 Score: 237
Period size: 96 Copynumber: 2.0 Consensus size: 98
100664 GAAAAGGATG
* * * *
100674 TTCGATTTTCTCGATTTGAAGAAGAGTCGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCAG
1 TTCGATTTTCTCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCAGAAACAG
*
100739 AGATAAAA-AAAATTGCCTCGA-TTTAAAGGTA
66 AAATAAAAGAAAATTGCCTCGATTTTAAAGGTA
* * * *
100770 TTCGATTATT-TCGATTTGAGGAAAAATTGCACCTAGTAAGTTATGGTACAAATTTTCA-AAACA
1 TTCGATT-TTCTCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCAGAAACA
* *
100833 CGAAATAAAAGAATATTGCCTTGATTTTAAAG
65 -GAAATAAAAGAAAATTGCCTCGATTTTAAAG
100865 TTTTATGAAG
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
95 4 0.05
96 56 0.70
97 13 0.16
98 7 0.09
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (98 bp):
TTCGATTTTCTCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAGGCACAAATTTTCAGAAACAG
AAATAAAAGAAAATTGCCTCGATTTTAAAGGTA
Found at i:101216 original size:30 final size:28
Alignment explanation
Indices: 101179--101403 Score: 125
Period size: 29 Copynumber: 7.8 Consensus size: 28
101169 GACATCTAGG
* *
101179 GGTAAAATGGTATTTTTTGAAGAATCGA
1 GGTAAAATGGAATTTTTGGAAGAATCGA
*
101207 GGTCAAAAATGGAATTTTTGGAAG-TTCGGA
1 GGT--AAAATGGAATTTTTGGAAGAATC-GA
* * *
101237 GGTAAAATGGTCATTTTTTGAAAAATC-A
1 GGTAAAATGG-AATTTTTGGAAGAATCGA
** * *
101265 GGGTTAAAATGGAATTTTTGGAAGTTTAGG
1 -GG-TAAAATGGAATTTTTGGAAGAATCGA
* * *
101295 GGTAAAATTGTAATTTTTGGAAAAAT-TA
1 GGTAAAA-TGGAATTTTTGGAAGAATCGA
* * ** *
101323 GGGTAAAAATGAAATTTTTTGAAGTTTGGA
1 -GGT-AAAATGGAATTTTTGGAAGAATCGA
* *
101353 GGTAAAATGGTAATTTTTGAAAAAATCGA
1 GGTAAAATGG-AATTTTTGGAAGAATCGA
*
101382 TGTTAAAAATGGAA-TTTTGGAA
1 -GGT-AAAATGGAATTTTTGGAA
101404 AGTTTAGTGG
Statistics
Matches: 147, Mismatches: 35, Indels: 29
0.70 0.17 0.14
Matches are distributed among these distances:
28 22 0.15
29 77 0.52
30 41 0.28
31 7 0.05
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (28 bp):
GGTAAAATGGAATTTTTGGAAGAATCGA
Found at i:101241 original size:58 final size:59
Alignment explanation
Indices: 101175--101429 Score: 269
Period size: 58 Copynumber: 4.4 Consensus size: 59
101165 TTTAGACATC
*
101175 TAGG-GGTAAAATGGT-ATTTTTTGAAGAATCGA-GGTCAAAAATGGAATTTTTGGAAGT
1 TAGGAGGTAAAATGGTAATTTTTTGAAAAATCGAGGGT-AAAAATGGAATTTTTGGAAGT
* * *
101232 TCGGAGGTAAAATGGTCATTTTTTGAAAAATC-AGGGTTAAAATGGAATTTTTGGAAGTT
1 TAGGAGGTAAAATGGTAATTTTTTGAAAAATCGAGGGTAAAAATGGAATTTTTGGAAG-T
* * * * *
101291 TAGG-GGTAAAATTGTAATTTTTGGAAAAAT-TAGGGTAAAAATGAAATTTTTTGAAGT
1 TAGGAGGTAAAATGGTAATTTTTTGAAAAATCGAGGGTAAAAATGGAATTTTTGGAAGT
* * *
101348 TTGGAGGTAAAATGGTAA-TTTTTGAAAAAATCGATGTTAAAAATGGAA-TTTTGGAAAGTT
1 TAGGAGGTAAAATGGTAATTTTTTG-AAAAATCGAGGGTAAAAATGGAATTTTTGG-AAG-T
*
101408 TA-GTGGTAAAAAT-GTAATTTTT
1 TAGGAGGT-AAAATGGTAATTTTT
101430 GGACAATTTA
Statistics
Matches: 166, Mismatches: 20, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
57 12 0.07
58 99 0.60
59 44 0.27
60 11 0.07
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.36
Consensus pattern (59 bp):
TAGGAGGTAAAATGGTAATTTTTTGAAAAATCGAGGGTAAAAATGGAATTTTTGGAAGT
Found at i:101313 original size:116 final size:116
Alignment explanation
Indices: 101175--101430 Score: 324
Period size: 116 Copynumber: 2.2 Consensus size: 116
101165 TTTAGACATC
* * * *
101175 TAGGGGTAAAATGGTATTTTTTGAAGAATCGA-GGTCAAAAATGGAATTTTTGGAAGTTCGGAGG
1 TAGGGGTAAAATTGTAATTTTTGAAAAAT-GAGGGT-AAAAATGAAATTTTTGGAAGTTCGGAGG
*
101239 TAAAATGGTCATTTTTTG-AAAAATC-AGGGTT-AAAATGGAATTTTTGG-AAGTT
64 TAAAATGGT-AATTTTTGAAAAAATCGA-GGTTAAAAATGGAA-TTTTGGAAAGTT
* * *
101291 TAGGGGTAAAATTGTAATTTTTGGAAAAATTAGGGTAAAAATGAAATTTTTTGAAGTTTGGAGGT
1 TAGGGGTAAAATTGTAATTTTT-GAAAAATGAGGGTAAAAATGAAATTTTTGGAAGTTCGGAGGT
*
101356 AAAATGGTAATTTTTGAAAAAATCGATGTTAAAAATGGAATTTTGGAAAGTT
65 AAAATGGTAATTTTTGAAAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
* *
101408 TAGTGGTAAAAATGTAATTTTTG
1 TAGGGGTAAAATTGTAATTTTTG
101431 GACAATTTAG
Statistics
Matches: 123, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
115 7 0.06
116 72 0.59
117 44 0.36
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.36
Consensus pattern (116 bp):
TAGGGGTAAAATTGTAATTTTTGAAAAATGAGGGTAAAAATGAAATTTTTGGAAGTTCGGAGGTA
AAATGGTAATTTTTGAAAAAATCGAGGTTAAAAATGGAATTTTGGAAAGTT
Found at i:101417 original size:29 final size:30
Alignment explanation
Indices: 101211--101440 Score: 138
Period size: 29 Copynumber: 7.9 Consensus size: 30
101201 AATCGAGGTC
** *
101211 AAAAATGGAATTTTTGG-AAGTTCGGAGGT
1 AAAAATGGAATTTTTGGAAAGTTTAGTGGT
* * ** *
101240 -AAAATGGTCATTTTTTGAAAAATCAG-GGT
1 AAAAATGG-AATTTTTGGAAAGTTTAGTGGT
* *
101269 TAAAATGGAATTTTTGG-AAGTTTAGGGGT
1 AAAAATGGAATTTTTGGAAAGTTTAGTGGT
* * **
101298 AAAATTGTAATTTTTGGAAAAATTAG-GGT
1 AAAAATGGAATTTTTGGAAAGTTTAGTGGT
* * * *
101327 AAAAATGAAATTTTTTG-AAGTTTGGAGGT
1 AAAAATGGAATTTTTGGAAAGTTTAGTGGT
*** * *
101356 -AAAATGGTAATTTTT-GAAAAAATCGATGTT
1 AAAAATGG-AATTTTTGGAAAGTTTAG-TGGT
101386 AAAAATGGAA-TTTTGGAAAGTTTAGTGGT
1 AAAAATGGAATTTTTGGAAAGTTTAGTGGT
*
101415 AAAAATGTAATTTTTGGACAA-TTTAG
1 AAAAATGGAATTTTTGGA-AAGTTTAG
101441 GGATCTTCAG
Statistics
Matches: 154, Mismatches: 34, Indels: 25
0.72 0.16 0.12
Matches are distributed among these distances:
28 24 0.16
29 81 0.53
30 40 0.26
31 9 0.06
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.36
Consensus pattern (30 bp):
AAAAATGGAATTTTTGGAAAGTTTAGTGGT
Found at i:102981 original size:6 final size:6
Alignment explanation
Indices: 102961--103009 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
102951 ATCAATTTTC
* *
102961 AATTTA AA-TTC AATTTA AATTTA AACTT- AATTTA AATTTA AACTTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA-TTTA
103008 AA
1 AA
103010 AGAAAAGTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 8 0.22
6 22 0.61
7 6 0.17
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (6 bp):
AATTTA
Found at i:102983 original size:17 final size:17
Alignment explanation
Indices: 102961--103005 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
102951 ATCAATTTTC
102961 AATTTAAA-TTCAATTTA
1 AATTTAAACTT-AATTTA
102978 AATTTAAACTTAATTTA
1 AATTTAAACTTAATTTA
102995 AATTTAAACTT
1 AATTTAAACTT
103006 TAAAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTAAACTTAATTTA
Found at i:103039 original size:17 final size:17
Alignment explanation
Indices: 102976--103040 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
102966 AAATTCAATT
**
102976 TAAATTTAAACTTAATT
1 TAAATTTAAACTTAAAC
*
102993 TAAATTTAAACTTTAAAAG
1 TAAATTTAAAC-TT-AAAC
*
103012 AAAAGTTTAAACTTAAAC
1 TAAA-TTTAAACTTAAAC
103030 TAAATTTAAAC
1 TAAATTTAAAC
103041 CCAAAAATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 18 0.45
18 8 0.20
19 7 0.17
20 7 0.17
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (17 bp):
TAAATTTAAACTTAAAC
Found at i:103869 original size:31 final size:31
Alignment explanation
Indices: 103827--103885 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
103817 TACTATAAGA
103827 AAATTTAGAATTTAGTCAATGTATTTTTCAT
1 AAATTTAGAATTTAGTCAATGTATTTTTCAT
* *
103858 AAATTTGGAATTTAGTCCATGTATTTTT
1 AAATTTAGAATTTAGTCAATGTATTTTT
103886 ATTTTTAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (31 bp):
AAATTTAGAATTTAGTCAATGTATTTTTCAT
Found at i:111097 original size:6 final size:6
Alignment explanation
Indices: 111086--111123 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
111076 GACAGATTAG
* *
111086 ATACAA ATACAA ATACAG ATATAA ATACAA ATACAA AT
1 ATACAA ATACAA ATACAA ATACAA ATACAA ATACAA AT
111124 GCAATTATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.21
Consensus pattern (6 bp):
ATACAA
Found at i:111111 original size:18 final size:18
Alignment explanation
Indices: 111084--111120 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
111074 ACGACAGATT
111084 AGATACAAATACAAATAC
1 AGATACAAATACAAATAC
*
111102 AGATATAAATACAAATAC
1 AGATACAAATACAAATAC
111120 A
1 A
111121 AATGCAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.14, G:0.05, T:0.19
Consensus pattern (18 bp):
AGATACAAATACAAATAC
Found at i:115276 original size:72 final size:71
Alignment explanation
Indices: 115140--115276 Score: 193
Period size: 72 Copynumber: 1.9 Consensus size: 71
115130 ATGCTCCATC
* * * * *
115140 AACTCCTCCTTCAGCTTATCCAAGCTTGTTTGGGAGTCTTACAGAGGTGAGCTACTGTTGCCTTA
1 AACTCCTCATTCAGCTTATCCAAGCTTGTTTGGGAATCTCACAAAGGTGAGCTACTGTTACCTTA
115205 CCTTGG
66 CCTTGG
* **
115211 AACTCCTCATTCAGCTTATCCTAAGCTTGTTTGGGAATCTCACAAAGGTGAGTTGTTGTTACCTT
1 AACTCCTCATTCAGCTTATCC-AAGCTTGTTTGGGAATCTCACAAAGGTGAGCTACTGTTACCTT
115276 A
65 A
115277 ACAAGTAGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
71 20 0.35
72 37 0.65
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (71 bp):
AACTCCTCATTCAGCTTATCCAAGCTTGTTTGGGAATCTCACAAAGGTGAGCTACTGTTACCTTA
CCTTGG
Found at i:115606 original size:21 final size:21
Alignment explanation
Indices: 115580--115619 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
115570 CCCACTAACC
*
115580 AGCATTGGGACTATAAAACTT
1 AGCATTGAGACTATAAAACTT
*
115601 AGCATTGAGACTGTAAAAC
1 AGCATTGAGACTATAAAAC
115620 ATTGTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (21 bp):
AGCATTGAGACTATAAAACTT
Found at i:116950 original size:18 final size:18
Alignment explanation
Indices: 116928--117033 Score: 167
Period size: 18 Copynumber: 5.9 Consensus size: 18
116918 TAGCTTGTTA
116928 GAGCATACTGGCTCGTTT
1 GAGCATACTGGCTCGTTT
* * *
116946 AAGCATACTGGCTTGTTA
1 GAGCATACTGGCTCGTTT
116964 GAGCATACTGGCTCGTTT
1 GAGCATACTGGCTCGTTT
* *
116982 GAGCATTCTAGCTCGTTT
1 GAGCATACTGGCTCGTTT
117000 GAGCATACTGGCTCGTTT
1 GAGCATACTGGCTCGTTT
117018 GAGCATACTGGCTCGT
1 GAGCATACTGGCTCGT
117034 AAGACCAATA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 78 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (18 bp):
GAGCATACTGGCTCGTTT
Found at i:116967 original size:36 final size:36
Alignment explanation
Indices: 116915--117026 Score: 179
Period size: 36 Copynumber: 3.1 Consensus size: 36
116905 AGGAATAGTG
*
116915 TACTAGCTTGTTAGAGCATACTGGCTCGTTTAAGCA
1 TACTAGCTTGTTAGAGCATACTGGCTCGTTTGAGCA
*
116951 TACTGGCTTGTTAGAGCATACTGGCTCGTTTGAGCA
1 TACTAGCTTGTTAGAGCATACTGGCTCGTTTGAGCA
* * *
116987 TTCTAGCTCGTTTGAGCATACTGGCTCGTTTGAGCA
1 TACTAGCTTGTTAGAGCATACTGGCTCGTTTGAGCA
117023 TACT
1 TACT
117027 GGCTCGTAAG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (36 bp):
TACTAGCTTGTTAGAGCATACTGGCTCGTTTGAGCA
Found at i:117032 original size:36 final size:36
Alignment explanation
Indices: 116915--117047 Score: 176
Period size: 36 Copynumber: 3.7 Consensus size: 36
116905 AGGAATAGTG
* * *
116915 TACTAGCTTGTTAGAGCATACTGGCTCGTTTAAGCA
1 TACTGGCTCGTTAGAGCATACTGGCTCGTTTGAGCA
*
116951 TACTGGCTTGTTAGAGCATACTGGCTCGTTTGAGCA
1 TACTGGCTCGTTAGAGCATACTGGCTCGTTTGAGCA
* * *
116987 TTCTAGCTCGTTTGAGCATACTGGCTCGTTTGAGCA
1 TACTGGCTCGTTAGAGCATACTGGCTCGTTTGAGCA
* *
117023 TACTGGCTCGTAAGACCAATACTGG
1 TACTGGCTCGTTAGAGC-ATACTGG
117048 ATCACAAGGA
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
36 78 0.92
37 7 0.08
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (36 bp):
TACTGGCTCGTTAGAGCATACTGGCTCGTTTGAGCA
Found at i:117046 original size:19 final size:18
Alignment explanation
Indices: 116931--117047 Score: 67
Period size: 18 Copynumber: 6.4 Consensus size: 18
116921 CTTGTTAGAG
116931 CATACTGGCTCGTTTAAG--
1 CATACTGGCTCG--TAAGAC
* * *
116949 CATACTGGCTTGTTAGAG
1 CATACTGGCTCGTAAGAC
** *
116967 CATACTGGCTCGTTTGAG
1 CATACTGGCTCGTAAGAC
* * ** *
116985 CATTCTAGCTCGTTTGAG
1 CATACTGGCTCGTAAGAC
** *
117003 CATACTGGCTCGTTTGAG
1 CATACTGGCTCGTAAGAC
117021 CATACTGGCTCGTAAGAC
1 CATACTGGCTCGTAAGAC
117039 CAATACTGG
1 C-ATACTGG
117048 ATCACAAGGA
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
16 3 0.04
18 75 0.88
19 7 0.08
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (18 bp):
CATACTGGCTCGTAAGAC
Found at i:123973 original size:18 final size:18
Alignment explanation
Indices: 123951--124056 Score: 167
Period size: 18 Copynumber: 5.9 Consensus size: 18
123941 TAGCTTGTTA
123951 GAGCATACTGGCTCGTTT
1 GAGCATACTGGCTCGTTT
* * *
123969 AAGCATACTGGCTTGTTA
1 GAGCATACTGGCTCGTTT
123987 GAGCATACTGGCTCGTTT
1 GAGCATACTGGCTCGTTT
* *
124005 GAGCATTCTAGCTCGTTT
1 GAGCATACTGGCTCGTTT
124023 GAGCATACTGGCTCGTTT
1 GAGCATACTGGCTCGTTT
124041 GAGCATACTGGCTCGT
1 GAGCATACTGGCTCGT
124057 AAGACCAATA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 78 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (18 bp):
GAGCATACTGGCTCGTTT
Found at i:123990 original size:36 final size:36
Alignment explanation
Indices: 123938--124049 Score: 179
Period size: 36 Copynumber: 3.1 Consensus size: 36
123928 AGGAATAGTG
*
123938 TACTAGCTTGTTAGAGCATACTGGCTCGTTTAAGCA
1 TACTAGCTTGTTAGAGCATACTGGCTCGTTTGAGCA
*
123974 TACTGGCTTGTTAGAGCATACTGGCTCGTTTGAGCA
1 TACTAGCTTGTTAGAGCATACTGGCTCGTTTGAGCA
* * *
124010 TTCTAGCTCGTTTGAGCATACTGGCTCGTTTGAGCA
1 TACTAGCTTGTTAGAGCATACTGGCTCGTTTGAGCA
124046 TACT
1 TACT
124050 GGCTCGTAAG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.35
Consensus pattern (36 bp):
TACTAGCTTGTTAGAGCATACTGGCTCGTTTGAGCA
Found at i:124055 original size:36 final size:36
Alignment explanation
Indices: 123938--124070 Score: 176
Period size: 36 Copynumber: 3.7 Consensus size: 36
123928 AGGAATAGTG
* * *
123938 TACTAGCTTGTTAGAGCATACTGGCTCGTTTAAGCA
1 TACTGGCTCGTTAGAGCATACTGGCTCGTTTGAGCA
*
123974 TACTGGCTTGTTAGAGCATACTGGCTCGTTTGAGCA
1 TACTGGCTCGTTAGAGCATACTGGCTCGTTTGAGCA
* * *
124010 TTCTAGCTCGTTTGAGCATACTGGCTCGTTTGAGCA
1 TACTGGCTCGTTAGAGCATACTGGCTCGTTTGAGCA
* *
124046 TACTGGCTCGTAAGACCAATACTGG
1 TACTGGCTCGTTAGAGC-ATACTGG
124071 ATCACAAGGA
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
36 78 0.92
37 7 0.08
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (36 bp):
TACTGGCTCGTTAGAGCATACTGGCTCGTTTGAGCA
Found at i:124069 original size:19 final size:18
Alignment explanation
Indices: 123954--124070 Score: 67
Period size: 18 Copynumber: 6.4 Consensus size: 18
123944 CTTGTTAGAG
123954 CATACTGGCTCGTTTAAG--
1 CATACTGGCTCG--TAAGAC
* * *
123972 CATACTGGCTTGTTAGAG
1 CATACTGGCTCGTAAGAC
** *
123990 CATACTGGCTCGTTTGAG
1 CATACTGGCTCGTAAGAC
* * ** *
124008 CATTCTAGCTCGTTTGAG
1 CATACTGGCTCGTAAGAC
** *
124026 CATACTGGCTCGTTTGAG
1 CATACTGGCTCGTAAGAC
124044 CATACTGGCTCGTAAGAC
1 CATACTGGCTCGTAAGAC
124062 CAATACTGG
1 C-ATACTGG
124071 ATCACAAGGA
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
16 3 0.04
18 75 0.88
19 7 0.08
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (18 bp):
CATACTGGCTCGTAAGAC
Found at i:130846 original size:20 final size:21
Alignment explanation
Indices: 130802--130849 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
130792 ACTATATTCC
* *
130802 ACTTATTATATGCTAAGCTTT
1 ACTTGTTATATGCTAAGCCTT
130823 ACTTGTTATATGCTAA-CCTT
1 ACTTGTTATATGCTAAGCCTT
130843 ACTTGTT
1 ACTTGTT
130850 TGGTTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.48
Consensus pattern (21 bp):
ACTTGTTATATGCTAAGCCTT
Found at i:130924 original size:18 final size:18
Alignment explanation
Indices: 130901--131107 Score: 166
Period size: 18 Copynumber: 11.5 Consensus size: 18
130891 AGGAATAACG
* *
130901 TACTGGCTTGTTAGATCA
1 TACTGGCTCGTTAGAGCA
*
130919 TACTGGCTCGTTTGAGCA
1 TACTGGCTCGTTAGAGCA
*
130937 TACTTGCTCGTTTA-AGCA
1 TACTGGCTCG-TTAGAGCA
* *
130955 TACTGGCTCATTTGAGCA
1 TACTGGCTCGTTAGAGCA
* * *
130973 TTCTAGCTCGTTTGAGCA
1 TACTGGCTCGTTAGAGCA
*
130991 TACTGGCTCGTTTGAGCA
1 TACTGGCTCGTTAGAGCA
* * * *
131009 TTCT-ACGTTGTTTGAGCA
1 TACTGGC-TCGTTAGAGCA
*
131027 TACTGGCTCGTAAGAGCA
1 TACTGGCTCGTTAGAGCA
* * *
131045 TATTGGCTCGTAAGAACA
1 TACTGGCTCGTTAGAGCA
* * *
131063 TACTGGCTTGTAAGACCA
1 TACTGGCTCGTTAGAGCA
* * *
131081 TATTGGCTCCTAAGAGCA
1 TACTGGCTCGTTAGAGCA
131099 TACTGGCTC
1 TACTGGCTC
131108 TTAAGAGAAA
Statistics
Matches: 154, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
17 3 0.02
18 148 0.96
19 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.33
Consensus pattern (18 bp):
TACTGGCTCGTTAGAGCA
Found at i:131065 original size:36 final size:36
Alignment explanation
Indices: 131025--131123 Score: 135
Period size: 36 Copynumber: 2.7 Consensus size: 36
131015 GTTGTTTGAG
*
131025 CATACTGGCTCGTAAGAGCATATTGGCTCGTAAGAA
1 CATACTGGCTCGTAAGAGCATATTGGCTCCTAAGAA
* * *
131061 CATACTGGCTTGTAAGACCATATTGGCTCCTAAGAG
1 CATACTGGCTCGTAAGAGCATATTGGCTCCTAAGAA
* *
131097 CATACTGGCTCTTAAGAGAAATATTGG
1 CATACTGGCTCGTAAGAG-CATATTGG
131124 ATCGCAAGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
36 47 0.87
37 7 0.13
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (36 bp):
CATACTGGCTCGTAAGAGCATATTGGCTCCTAAGAA
Found at i:139919 original size:19 final size:19
Alignment explanation
Indices: 139891--139932 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
139881 GCCACGTCAG
*
139891 AAAATAAATTTAAACTTAAA
1 AAAATAAA-TTAAAATTAAA
139911 AAAAT-AATTAAAATTAAA
1 AAAATAAATTAAAATTAAA
139929 AAAA
1 AAAA
139933 CATTTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 2 0.10
20 5 0.24
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATAAATTAAAATTAAA
Found at i:141116 original size:21 final size:22
Alignment explanation
Indices: 141076--141119 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
141066 AAAATTATTT
*
141076 AATAATTTTATTATTTAAAAAA
1 AATAATTTTATTACTTAAAAAA
141098 AATAATTTTA-TACTTAAAAAA
1 AATAATTTTATTACTTAAAAAA
141119 A
1 A
141120 TTTCTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AATAATTTTATTACTTAAAAAA
Found at i:141121 original size:17 final size:17
Alignment explanation
Indices: 141095--141137 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
141085 ATTATTTAAA
141095 AAAAATAATTT-TATACTT
1 AAAAA-AATTTCTAT-CTT
*
141113 AAAAAAATTTCTATTTT
1 AAAAAAATTTCTATCTT
141130 AAAAAAAT
1 AAAAAAAT
141138 AATTTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAAAAATTTCTATCTT
Found at i:148074 original size:34 final size:34
Alignment explanation
Indices: 148025--148125 Score: 157
Period size: 34 Copynumber: 3.0 Consensus size: 34
148015 AGAACCTGAA
* * *
148025 TGCCTGAATGCTCTTAAGTGGAACTAGCTAACAT
1 TGCCTAAATGTTCTTAAGAGGAACTAGCTAACAT
*
148059 TGCCTAAATGTTCTTAAGAGGAACTAGATAACAT
1 TGCCTAAATGTTCTTAAGAGGAACTAGCTAACAT
*
148093 TGCCTAAATGTTCTCAAGAGGAACTAGCTAACA
1 TGCCTAAATGTTCTTAAGAGGAACTAGCTAACA
148126 CTGATAGTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 61 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (34 bp):
TGCCTAAATGTTCTTAAGAGGAACTAGCTAACAT
Found at i:150129 original size:21 final size:21
Alignment explanation
Indices: 150067--150130 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
150057 GGGGTTTGTT
*
150067 GCAACGTAGGCATGCTATGTC
1 GCAACATAGGCATGCTATGTC
* *
150088 ACAACATA-GCAT--T-TGTT
1 GCAACATAGGCATGCTATGTC
150105 GCAACATAGGCATGCTATGTC
1 GCAACATAGGCATGCTATGTC
150126 GCAAC
1 GCAAC
150131 GAAGAAGGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 10 0.29
18 5 0.15
20 5 0.15
21 14 0.41
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (21 bp):
GCAACATAGGCATGCTATGTC
Found at i:150962 original size:26 final size:23
Alignment explanation
Indices: 150922--150978 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 23
150912 TCTCTATTCT
150922 CCTCCTTAATGCCCCATTTCATCTCA
1 CCTCCTTAATGCCCC--TTC-TCTCA
* *
150948 CCTCCTTATTTCCCCTTCTCTCA
1 CCTCCTTAATGCCCCTTCTCTCA
150971 CCTTCCTT
1 CC-TCCTT
150979 TCTCTCCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.25
24 8 0.29
26 13 0.46
ACGTcount: A:0.12, C:0.46, G:0.02, T:0.40
Consensus pattern (23 bp):
CCTCCTTAATGCCCCTTCTCTCA
Found at i:154499 original size:667 final size:668
Alignment explanation
Indices: 153216--154554 Score: 2358
Period size: 667 Copynumber: 2.0 Consensus size: 668
153206 TTTCACCGTA
* *
153216 GCATAATGTCCATAGCTTACCGTAATGTGCAATGTAATTTGACCGTTAGCATTGGTTTGGAATAG
1 GCATAATGTCCATAGCTTACCATAATGTGCAATGGAATTTGACCGTTAGCATTGGTTTGGAATAG
* **
153281 TTGTGATAGACACCTTTTTTTTAAAGGTAGTTGTGATTGACCATCGATTAGAATTTGTGCGACAA
66 TTGTGATAGACACCATTTTTTTAAAGGTAGTTGTGAACGACCATCGATTAGAATTTGTGCGACAA
* *
153346 AATTTAATATGGATCTTGGTTTAAAAGATCAAGCACTGACAATACAATTGTGGTTTTCCAAGTTA
131 AATCTAATATGGATCTTGGTTTAAAAGATCAAGCACTGACAATACAATTGTGATTTTCCAAGTTA
* * * *
153411 ACCTAGAATACTTTATCATGGTTGGGGGGAGAGGTCTATAGCAACTATTCATTTTAACATTGTTA
196 ACCTAGAATACTTTATCATGGCTGGGAGGAGAGGTCTATAGAAACTATTCATTTTAACAGTGTTA
* *
153476 TAGTCCAAAGGCCAGTAGTGACAAGATAAAACGTTATGAACTATTCATGATAAAAAAATCATCGA
261 TAGTCCAAAGGCCACTAGTGACAAGATAAAACGTTATGAACTATTCATGACAAAAAAATCATCGA
* *
153541 GGATCGATTTGGTAATTAAGGCATAGTTCAAAGCCTAAAGGAGAAAGCAATATAAAGGAAAATCA
326 GCACCGATTTGGTAATTAAGGCATAGTTCAAAGCCTAAAGGAGAAAGCAATATAAAGGAAAATCA
* *
153606 ATGGTGATCGTTGATGTTTATAACCAATAACTCCAACTTAGCAATGATAATTCTATAGAGAAAAT
391 ATGGTGATCATTGATGTTTATAACCAATAACTCCAACTTAGCAATGATAATCCTATAGAGAAAAT
* * *
153671 GTAATGTCTTCGAAGCTAACAACCTTGACAATTAAAGAACCAAGAAAAAAGAAAATAAAAGATGG
456 GTAATGTCTTCGAAGCTAACAACCATGACAAGTAAAGAACCAAGAAAAAAGAAAAGAAAAGATGG
153736 AATGAATGGAACAAAGAATGCAAAAGAACCCTAAGTTCCTCTACAAAATTTATTTCGAATAACAT
521 AATGAATGGAACAAAGAATGCAAAAGAACCCTAAGTTCCTCTACAAAATTTATTTCGAATAACAT
153801 AAAAAATGCTTTGCTCAACATGGAGATAGCATTGATCTCCATGTTCAAGAAAAATCCGCTTCTTA
586 AAAAAATGCTTTGCTCAACATGGAGATAGCATTGATCTCCATGTTCAAGAAAAATCCGCTTCTTA
153866 GAAGGAGTACGTCTTGAT
651 GAAGGAGTACGTCTTGAT
*
153884 GCATACTGT-CATAGCTTACCATAATGTGCAATGGAATTTGACCGTTAGCATTGGTTTGGAATAG
1 GCATAATGTCCATAGCTTACCATAATGTGCAATGGAATTTGACCGTTAGCATTGGTTTGGAATAG
* *
153948 TTGTGATAGATA-CATTTTTTTAAAGGTAGTTGTGAACGACCATTGATTAGAATTTGTGCGACAA
66 TTGTGATAGACACCATTTTTTTAAAGGTAGTTGTGAACGACCATCGATTAGAATTTGTGCGACAA
*
154012 AATCTAATATGGATCTTGGTTTAAAAGATCAAGCACTGACATTACAATTGTGATTTTCCAAGTTA
131 AATCTAATATGGATCTTGGTTTAAAAGATCAAGCACTGACAATACAATTGTGATTTTCCAAGTTA
** * * *
154077 ACCTAGTGTACTTTATCGTGGCTGGGAGGAGAGGTTTGTAGAAACTATTCATTTTAACAGTGTTA
196 ACCTAGAATACTTTATCATGGCTGGGAGGAGAGGTCTATAGAAACTATTCATTTTAACAGTGTTA
*
154142 TAGTCCAGAGGCCACTAGTGACAAGATAAAACGTTATGAACTATTCATGACAAAAAAGATCATCG
261 TAGTCCAAAGGCCACTAGTGACAAGATAAAACGTTATGAACTATTCATGACAAAAAA-ATCATCG
* *
154207 AGCACCGATTTGGTAATTAAGGTATAGTTCAAAGCCTAAAGGAGAAAGCCATATAAAGGAAAATC
325 AGCACCGATTTGGTAATTAAGGCATAGTTCAAAGCCTAAAGGAGAAAGCAATATAAAGGAAAATC
154272 AATGGTGATCATTGATGTTTATAACCAATAACTCCAACTTAGCAATGATAATCCTATAGAGAAAA
390 AATGGTGATCATTGATGTTTATAACCAATAACTCCAACTTAGCAATGATAATCCTATAGAGAAAA
*
154337 TGTAATGTCTTCGAAGCTAACAACCATGACAAGTGAAGAACCAAGAAAAAAGAAAAGAAAAGATG
455 TGTAATGTCTTCGAAGCTAACAACCATGACAAGTAAAGAACCAAGAAAAAAGAAAAGAAAAGATG
154402 GAATGAATGGAACAAAGAATGCAAAAGAACCCTAAGTTCCTCTACAAAATTTATTTCGAATAACA
520 GAATGAATGGAACAAAGAATGCAAAAGAACCCTAAGTTCCTCTACAAAATTTATTTCGAATAACA
154467 TAAAAAATGCTTTGCTCAACATGGAGATAGCATTGATCTCCATGTTCAAGAAAAATCCGCTTCTT
585 TAAAAAATGCTTTGCTCAACATGGAGATAGCATTGATCTCCATGTTCAAGAAAAATCCGCTTCTT
154532 AGAAGGAGTACGTCTTGAT
650 AGAAGGAGTACGTCTTGAT
154551 GCAT
1 GCAT
154555 TTTAATTGTT
Statistics
Matches: 637, Mismatches: 33, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
666 220 0.35
667 409 0.64
668 8 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (668 bp):
GCATAATGTCCATAGCTTACCATAATGTGCAATGGAATTTGACCGTTAGCATTGGTTTGGAATAG
TTGTGATAGACACCATTTTTTTAAAGGTAGTTGTGAACGACCATCGATTAGAATTTGTGCGACAA
AATCTAATATGGATCTTGGTTTAAAAGATCAAGCACTGACAATACAATTGTGATTTTCCAAGTTA
ACCTAGAATACTTTATCATGGCTGGGAGGAGAGGTCTATAGAAACTATTCATTTTAACAGTGTTA
TAGTCCAAAGGCCACTAGTGACAAGATAAAACGTTATGAACTATTCATGACAAAAAAATCATCGA
GCACCGATTTGGTAATTAAGGCATAGTTCAAAGCCTAAAGGAGAAAGCAATATAAAGGAAAATCA
ATGGTGATCATTGATGTTTATAACCAATAACTCCAACTTAGCAATGATAATCCTATAGAGAAAAT
GTAATGTCTTCGAAGCTAACAACCATGACAAGTAAAGAACCAAGAAAAAAGAAAAGAAAAGATGG
AATGAATGGAACAAAGAATGCAAAAGAACCCTAAGTTCCTCTACAAAATTTATTTCGAATAACAT
AAAAAATGCTTTGCTCAACATGGAGATAGCATTGATCTCCATGTTCAAGAAAAATCCGCTTCTTA
GAAGGAGTACGTCTTGAT
Found at i:158596 original size:15 final size:15
Alignment explanation
Indices: 158568--158602 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
158558 TCTTGCCATG
*
158568 AAAA-TAATATCACT
1 AAAATTAATACCACT
158582 AAAATTAATACCACT
1 AAAATTAATACCACT
158597 AAAATT
1 AAAATT
158603 TACATTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTAATACCACT
Found at i:161212 original size:25 final size:25
Alignment explanation
Indices: 161175--161232 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
161165 TACAATGATG
161175 AAGCAAAGCAATATAAAGAAAAGCA
1 AAGCAAAGCAATATAAAGAAAAGCA
* *
161200 AAGCAAAGTAATATAAAGCAAAGCA
1 AAGCAAAGCAATATAAAGAAAAGCA
161225 AAGCAAAG
1 AAGCAAAG
161233 AGCAATAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.62, C:0.12, G:0.17, T:0.09
Consensus pattern (25 bp):
AAGCAAAGCAATATAAAGAAAAGCA
Found at i:162800 original size:27 final size:27
Alignment explanation
Indices: 162728--162810 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 27
162718 ATTTGAATTT
* *
162728 CTTTTTATTTTGCTTTGATTTTCTTTG
1 CTTTTTATATTGCTTTGCTTTTCTTTG
*
162755 CTTTTTATATTGCTCTGCTTTTCTTTG
1 CTTTTTATATTGCTTTGCTTTTCTTTG
* * *
162782 CTTTTTATCTTGCTTTGCTATGCTTTG
1 CTTTTTATATTGCTTTGCTTTTCTTTG
162809 CT
1 CT
162811 AAACTTTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.07, C:0.17, G:0.12, T:0.64
Consensus pattern (27 bp):
CTTTTTATATTGCTTTGCTTTTCTTTG
Done.