Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 39
Found at i:5967343 original size:19 final size:19
Alignment explanation
Indices: 5967321--5967449 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
5967311 AAAATCGCAA
5967321 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
5967340 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
5967354 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
5967373 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
5967387 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
5967406 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
5967425 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
5967445 TGCGA
1 TGCGA
5967450 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:5967363 original size:33 final size:33
Alignment explanation
Indices: 5967321--5967412 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
5967311 AAAATCGCAA
5967321 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
5967354 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
5967387 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
5967413 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:5967766 original size:93 final size:93
Alignment explanation
Indices: 5967497--5967868 Score: 700
Period size: 92 Copynumber: 4.1 Consensus size: 93
5967487 ATGGATTGCA
5967497 TTAC-TTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
5967560 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
5967588 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
5967652 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
5967680 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
5967745 TAGCAGAATTGGCAGCAACCGAAC-AAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
5967772 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
5967837 TAGCAGAA-TGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
5967864 TTACT
1 TTACT
5967869 AAGCAATCTA
Statistics
Matches: 276, Mismatches: 1, Indels: 7
0.97 0.00 0.02
Matches are distributed among these distances:
91 18 0.07
92 183 0.66
93 75 0.27
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:5967812 original size:185 final size:183
Alignment explanation
Indices: 5967497--5967868 Score: 694
Period size: 185 Copynumber: 2.0 Consensus size: 183
5967487 ATGGATTGCA
5967497 TTAC-TTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
1 TTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
5967561 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTAT
66 AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTAT
5967626 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAA-TGGCAGCAACCGAACAAAT
5967680 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
5967745 TAGCAGAATTGGCAGCAACCGAAC-AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
65 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACT
*
5967809 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATGGCAGCAACCGAATAAAT
129 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATGGCAGCAACCGAACAAAT
5967864 TTACT
1 TTACT
5967869 AAGCAATCTA
Statistics
Matches: 185, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
183 4 0.02
184 52 0.28
185 129 0.70
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (183 bp):
TTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTT
AGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTAT
TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATGGCAGCAACCGAACAAAT
Found at i:5969605 original size:32 final size:33
Alignment explanation
Indices: 5969558--5969670 Score: 185
Period size: 32 Copynumber: 3.5 Consensus size: 33
5969548 TCTTTTGGTT
*
5969558 GAAATGAAAATCGCAACGAGAGAATCGTAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
5969591 GAAATG-AAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
5969623 GAAATGAAAATCGCAACGAGAGAATCACAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
5969656 GAAATG-AAATCGCAA
1 GAAATGAAAATCGCAA
5969671 TGCGATTTTG
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
32 39 0.52
33 36 0.48
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:5969636 original size:19 final size:19
Alignment explanation
Indices: 5969612--5969675 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 19
5969602 GCAACTAGAG
5969612 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
5969631 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
*
5969645 AATCACAACGCGAAATG-A
1 AATCGCAACGCGAAATGAA
*
5969663 AATCGCAATGCGA
1 AATCGCAACGCGA
5969676 TTTTGGTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 11
0.69 0.10 0.22
Matches are distributed among these distances:
14 9 0.26
15 1 0.03
16 2 0.06
17 2 0.06
18 12 0.34
19 9 0.26
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:5969704 original size:14 final size:14
Alignment explanation
Indices: 5969687--5969743 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
5969677 TTTGGTTTTG
5969687 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
5969701 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
5969720 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
5969734 CGTTGCGATT
1 CGTTGCGATT
5969744 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:5969723 original size:33 final size:33
Alignment explanation
Indices: 5969671--5969751 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
5969661 GAAATCGCAA
** *
5969671 TGCGATTTTGGTTTTGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
5969704 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
5969737 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
5969752 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.22, T:0.48
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:5969774 original size:20 final size:21
Alignment explanation
Indices: 5969728--5969803 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
5969718 CGCGTTGCGA
5969728 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
5969749 TTCTCTCGTTGCGATAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
5969769 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
5969790 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
5969804 CTCTTCTGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
20 18 0.37
21 31 0.63
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:5969925 original size:33 final size:33
Alignment explanation
Indices: 5969883--5969953 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
5969873 AATACTAACT
* *
5969883 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACAACAGAATAGCAACGCGAAA
* *
5969916 TGAAAATCGCAACAACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACAACAGAATAGCAACGCGAAA
5969949 TGAAA
1 TGAAA
5969954 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.18, G:0.21, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACAACAGAATAGCAACGCGAAA
Found at i:5970394 original size:20 final size:20
Alignment explanation
Indices: 5970329--5970481 Score: 159
Period size: 20 Copynumber: 7.7 Consensus size: 20
5970319 GCTTTAATAT
5970329 CGCGTTGCGA-TTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
5970348 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
5970370 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
5970389 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
5970409 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
5970429 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
5970449 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
5970469 CGCGTTGCGATTT
1 CGCGTTGCGATTT
5970482 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 16, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
19 12 0.11
20 84 0.75
21 14 0.12
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:5970455 original size:40 final size:40
Alignment explanation
Indices: 5970328--5970481 Score: 177
Period size: 40 Copynumber: 3.9 Consensus size: 40
5970318 CGCTTTAATA
*
5970328 TCGCGTTGCGA-TTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
5970368 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
5970408 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
5970448 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
5970482 TGGAAAATCG
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
40 75 0.79
41 20 0.21
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:5970498 original size:21 final size:21
Alignment explanation
Indices: 5970468--5970550 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
5970458 ATTTTCATAT
*
5970468 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
5970489 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
5970510 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
5970531 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
5970551 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:5970541 original size:42 final size:43
Alignment explanation
Indices: 5970448--5970546 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
5970438 ATTTATGTGT
* *
5970448 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
5970489 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
5970531 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
5970547 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:5970935 original size:20 final size:20
Alignment explanation
Indices: 5970912--5970958 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
5970902 GGAATGTAAA
5970912 ATTACCAATGGGAATAAAAG
1 ATTACCAATGGGAATAAAAG
* *
5970932 ATTATCAGTGGGAATAAAAG
1 ATTACCAATGGGAATAAAAG
5970952 ATTACCA
1 ATTACCA
5970959 GGGAATAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (20 bp):
ATTACCAATGGGAATAAAAG
Found at i:5970964 original size:18 final size:19
Alignment explanation
Indices: 5970921--5970965 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
5970911 AATTACCAAT
*
5970921 GGGAATAAAAGATTATCAG
1 GGGAATAAAAGATTACCAG
5970940 TGGGAATAAAAGATTACCA-
1 -GGGAATAAAAGATTACCAG
5970959 GGGAATA
1 GGGAATA
5970966 GGATTACTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
20 17 0.71
ACGTcount: A:0.47, C:0.07, G:0.27, T:0.20
Consensus pattern (19 bp):
GGGAATAAAAGATTACCAG
Found at i:5971331 original size:22 final size:22
Alignment explanation
Indices: 5971305--5971349 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
5971295 AATTTAACCT
5971305 TCGTAGAATTTTTATTATTCAA
1 TCGTAGAATTTTTATTATTCAA
5971327 TCGTAGAATTTTTATTATTCAA
1 TCGTAGAATTTTTATTATTCAA
5971349 T
1 T
5971350 GACAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (22 bp):
TCGTAGAATTTTTATTATTCAA
Found at i:5986111 original size:21 final size:21
Alignment explanation
Indices: 5986085--5986157 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
5986075 TATGCCATCT
*
5986085 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
*
5986106 CCGCAGGGTTACATTCCTATC
1 CCGCAGGGTTACATTCCTAGC
*
5986127 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
5986148 CCGCAGGGTT
1 CCGCAGGGTT
5986158 TTATACCATA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.04
21 42 0.91
22 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.26, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:5986728 original size:34 final size:34
Alignment explanation
Indices: 5986678--5986775 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 34
5986668 AAATGTTTTT
* *
5986678 AAAATACAAATTATATTATTCGAAAGTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
5986712 AAAATAAAAATAATATTATTCGAAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
5986746 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
5986776 CATTAAATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:5988218 original size:128 final size:128
Alignment explanation
Indices: 5987849--5988221 Score: 633
Period size: 128 Copynumber: 2.9 Consensus size: 128
5987839 TTACCTGATT
*
5987849 TACTGATATATCTAATGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *** *
5987914 TAACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCT-GAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
5987977 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
5988042 TGACAAAATAATGGAAGGCGTC-CCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCG-CGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
5988105 TACTGATATATCTAGTGTCCTCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
5988170 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
5988222 ACTCCGATTA
Statistics
Matches: 232, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
127 2 0.01
128 229 0.99
129 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:5988302 original size:8 final size:8
Alignment explanation
Indices: 5988289--5988329 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
5988279 TCACAAGCTT
5988289 TCAAATTC
1 TCAAATTC
5988297 TCAAATTC
1 TCAAATTC
* *
5988305 CCAAACTC
1 TCAAATTC
5988313 T-AAATTC
1 TCAAATTC
5988320 TCAAATTC
1 TCAAATTC
5988328 TC
1 TC
5988330 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:5991163 original size:19 final size:19
Alignment explanation
Indices: 5991139--5991175 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
5991129 GAAACATCGG
5991139 CACAATAGAAAAAAATGTC
1 CACAATAGAAAAAAATGTC
5991158 CACAATAGAAAAAAATGT
1 CACAATAGAAAAAAATGT
5991176 TACAGCTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.14, G:0.11, T:0.16
Consensus pattern (19 bp):
CACAATAGAAAAAAATGTC
Found at i:5992186 original size:7 final size:7
Alignment explanation
Indices: 5992176--5992239 Score: 128
Period size: 7 Copynumber: 9.1 Consensus size: 7
5992166 CGTGGAGTTT
5992176 GGATCTA
1 GGATCTA
5992183 GGATCTA
1 GGATCTA
5992190 GGATCTA
1 GGATCTA
5992197 GGATCTA
1 GGATCTA
5992204 GGATCTA
1 GGATCTA
5992211 GGATCTA
1 GGATCTA
5992218 GGATCTA
1 GGATCTA
5992225 GGATCTA
1 GGATCTA
5992232 GGATCTA
1 GGATCTA
5992239 G
1 G
5992240 AGATTAGGGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 57 1.00
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (7 bp):
GGATCTA
Found at i:5992202 original size:21 final size:21
Alignment explanation
Indices: 5992176--5992247 Score: 128
Period size: 21 Copynumber: 3.4 Consensus size: 21
5992166 CGTGGAGTTT
5992176 GGATCTAGGATCTAGGATCTA
1 GGATCTAGGATCTAGGATCTA
5992197 GGATCTAGGATCTAGGATCTA
1 GGATCTAGGATCTAGGATCTA
5992218 GGATCTAGGATCTAGGATCTA
1 GGATCTAGGATCTAGGATCTA
5992239 GAGAT-TAGG
1 G-GATCTAGG
5992248 GTAGTGATCC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 47 0.94
22 3 0.06
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.28
Consensus pattern (21 bp):
GGATCTAGGATCTAGGATCTA
Found at i:5992405 original size:6 final size:6
Alignment explanation
Indices: 5992394--5992425 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
5992384 AGCCACGCAC
5992394 ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA AT
1 ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA AT
5992426 TGATTCACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.19
Consensus pattern (6 bp):
ATCAAA
Found at i:5993943 original size:14 final size:14
Alignment explanation
Indices: 5993926--5993969 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
5993916 ATCCGAGGTT
*
5993926 ATCCGAGCGAGGCC
1 ATCCGACCGAGGCC
*
5993940 ATCCGACCGAGGGC
1 ATCCGACCGAGGCC
5993954 ATCCGACCGAGGCC
1 ATCCGACCGAGGCC
5993968 AT
1 AT
5993970 GCACGTCCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.23, C:0.36, G:0.32, T:0.09
Consensus pattern (14 bp):
ATCCGACCGAGGCC
Found at i:5994478 original size:28 final size:27
Alignment explanation
Indices: 5994452--5994574 Score: 151
Period size: 28 Copynumber: 4.5 Consensus size: 27
5994442 AAGGTTTAGG
5994452 GTTTAAGTTAT-TTAATTAGTTTGTTA
1 GTTTAAGTTATATTAATTAGTTTGTTA
* *
5994478 GTTTAAGTTATATTATTTAGTTAGTTA
1 GTTTAAGTTATATTAATTAGTTTGTTA
* *
5994505 GTTTGTTAGTATAAATT-ATTAGTTTGTTA
1 G-TT-TAAGT-TATATTAATTAGTTTGTTA
*
5994534 GTTTAAGTTATATTATATTAGTTTGCTA
1 GTTTAAGTTATATTA-ATTAGTTTGTTA
5994562 GTTTAAGTTATAT
1 GTTTAAGTTATAT
5994575 ATTAGATTAT
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
26 16 0.20
27 18 0.22
28 28 0.34
29 15 0.18
30 5 0.06
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.55
Consensus pattern (27 bp):
GTTTAAGTTATATTAATTAGTTTGTTA
Found at i:5994526 original size:21 final size:21
Alignment explanation
Indices: 5994502--5994544 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
5994492 ATTTAGTTAG
5994502 TTAGTTTGTTAGTATAAATTA
1 TTAGTTTGTTAGTATAAATTA
* *
5994523 TTAGTTTGTTAGTTTAAGTTA
1 TTAGTTTGTTAGTATAAATTA
5994544 T
1 T
5994545 ATTATATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (21 bp):
TTAGTTTGTTAGTATAAATTA
Found at i:5996559 original size:11 final size:11
Alignment explanation
Indices: 5996543--5996590 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
5996533 CTCTTGATGA
5996543 TAATAATGATT
1 TAATAATGATT
5996554 TAATAATGATT
1 TAATAATGATT
* *
5996565 TTATAATTATT
1 TAATAATGATT
5996576 AGTAATAATGATT
1 --TAATAATGATT
5996589 TA
1 TA
5996591 TTATTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (11 bp):
TAATAATGATT
Found at i:5996571 original size:14 final size:12
Alignment explanation
Indices: 5996537--5996588 Score: 54
Period size: 11 Copynumber: 4.4 Consensus size: 12
5996527 CATGTACTCT
*
5996537 TGATGATAATAA
1 TGATTATAATAA
5996549 TGATT-TAATAA
1 TGATTATAATAA
*
5996560 TGATT-TTATAA
1 TGATTATAATAA
*
5996571 TTATTAGTAATAA
1 TGATTA-TAATAA
5996584 TGATT
1 TGATT
5996589 TATTATTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
11 20 0.61
12 4 0.12
13 9 0.27
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (12 bp):
TGATTATAATAA
Found at i:5996596 original size:23 final size:24
Alignment explanation
Indices: 5996554--5996599 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
5996544 AATAATGATT
5996554 TAATAATGATTTTATAATTATTAG
1 TAATAATGATTTTATAATTATTAG
*
5996578 TAATAATGA-TTTATTATTATTA
1 TAATAATGATTTTATAATTATTA
5996600 TTTAATGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (24 bp):
TAATAATGATTTTATAATTATTAG
Found at i:5996605 original size:24 final size:25
Alignment explanation
Indices: 5996542--5996605 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
5996532 ACTCTTGATG
* *
5996542 ATAATAATGATTTAATAATGATTTT
1 ATAATTATTATTTAATAATGATTTT
*
5996567 ATAATTATTA-GTAATAATGA-TTT
1 ATAATTATTATTTAATAATGATTTT
*
5996590 ATTATTATTATTTAAT
1 ATAATTATTATTTAAT
5996606 GATTTGATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 12 0.36
24 13 0.39
25 8 0.24
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (25 bp):
ATAATTATTATTTAATAATGATTTT
Found at i:5996616 original size:24 final size:22
Alignment explanation
Indices: 5996553--5996622 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 22
5996543 TAATAATGAT
5996553 TTAATAATGATTTTATAATTATTA
1 TTAATAATGA-TTTAT-ATTATTA
*
5996577 GTAATAATGATTTATTATTATTA
1 TTAATAATGATTTA-TATTATTA
*
5996600 TT--TAATGATTTGATATTAATA
1 TTAATAATGATTT-ATATTATTA
5996621 TT
1 TT
5996623 TAAGAGATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 18 0.44
22 1 0.02
23 12 0.29
24 10 0.24
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (22 bp):
TTAATAATGATTTATATTATTA
Found at i:5996802 original size:12 final size:12
Alignment explanation
Indices: 5996785--5996841 Score: 62
Period size: 12 Copynumber: 4.7 Consensus size: 12
5996775 TAATGATTTG
*
5996785 ATAATAACCATT
1 ATAATAATCATT
*
5996797 ATAATAATGATTT
1 ATAATAATCA-TT
5996810 AGTAATAATCATT
1 A-TAATAATCATT
*
5996823 ATAATAATGATT
1 ATAATAATCATT
5996835 -TAATAAT
1 ATAATAAT
5996842 AATTTAGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
11 7 0.18
12 18 0.46
13 6 0.15
14 8 0.21
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (12 bp):
ATAATAATCATT
Found at i:5996805 original size:26 final size:25
Alignment explanation
Indices: 5996775--5996865 Score: 109
Period size: 26 Copynumber: 3.7 Consensus size: 25
5996765 GATTATTTAG
5996775 TAATGATTTGATAATAACCATTATAA
1 TAATGATTTGATAATAA-CATTATAA
5996801 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAA-CATTATAA
* *
5996827 TAATGATTTAATAAT-A-ATT-TAG
1 TAATGATTTGATAATAACATTATAA
5996849 TAATGATTTGATAATAA
1 TAATGATTTGATAATAA
5996866 TGATTTATTA
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
22 16 0.27
23 4 0.07
25 2 0.03
26 36 0.61
27 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (25 bp):
TAATGATTTGATAATAACATTATAA
Found at i:5996840 original size:11 final size:11
Alignment explanation
Indices: 5996798--5996863 Score: 60
Period size: 11 Copynumber: 5.6 Consensus size: 11
5996788 ATAACCATTA
5996798 TAATAATGATTT
1 TAATAATGA-TT
*
5996810 AGTAATAATCATT
1 --TAATAATGATT
5996823 ATAATAATGATT
1 -TAATAATGATT
*
5996835 TAATAATAATT
1 TAATAATGATT
*
5996846 TAGTAATGATT
1 TAATAATGATT
*
5996857 TGATAAT
1 TAATAAT
5996864 AATGATTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
11 24 0.55
12 10 0.23
13 2 0.05
14 8 0.18
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (11 bp):
TAATAATGATT
Found at i:5996880 original size:14 final size:13
Alignment explanation
Indices: 5996775--5996873 Score: 84
Period size: 14 Copynumber: 7.8 Consensus size: 13
5996765 GATTATTTAG
5996775 TAATGATTTGATAA
1 TAATGATTT-ATAA
**
5996789 TAACCA-TTATAA
1 TAATGATTTATAA
5996801 TAATGATTTAGTAA
1 TAATGATTTA-TAA
*
5996815 TAATCA-TTATAA
1 TAATGATTTATAA
5996827 TAATGA-TT-TAA
1 TAATGATTTATAA
* *
5996838 TAAT-AATT-TAG
1 TAATGATTTATAA
5996849 TAATGATTTGATAA
1 TAATGATTT-ATAA
5996863 TAATGATTTAT
1 TAATGATTTAT
5996874 TATTAATATT
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
10 1 0.01
11 15 0.21
12 21 0.30
13 10 0.14
14 23 0.33
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.43
Consensus pattern (13 bp):
TAATGATTTATAA
Found at i:5996901 original size:21 final size:21
Alignment explanation
Indices: 5996863--5996902 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5996853 GATTTGATAA
*
5996863 TAATGATTTATTATTAATATT
1 TAATGATTTATTACTAATATT
5996884 TAATGATTTGA-TACTAATA
1 TAATGATTT-ATTACTAATA
5996903 ATCATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (21 bp):
TAATGATTTATTACTAATATT
Found at i:5999197 original size:15 final size:16
Alignment explanation
Indices: 5999177--5999210 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
5999167 CAAAAAAAAT
5999177 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
5999192 TAATATAATAAACTTA
1 TAATATAATAAACTTA
5999208 TAA
1 TAA
5999211 AGTAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:5999298 original size:30 final size:30
Alignment explanation
Indices: 5999264--5999351 Score: 140
Period size: 30 Copynumber: 2.9 Consensus size: 30
5999254 TTTTCTTAAA
5999264 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAACTT
5999294 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTTAATATAACTT
* * *
5999324 AAACTAATAAACGATTTTTTAATTATAA
1 CAACTAATAAACTATTCTTTAA-TATAA
5999352 TTTACTACTA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 49 0.91
31 5 0.09
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (30 bp):
CAACTAATAAACTATTCTTTAATATAACTT
Found at i:5999316 original size:15 final size:16
Alignment explanation
Indices: 5999268--5999322 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
5999258 CTTAAACAAC
5999268 TAATA-AACTATTCTT
1 TAATATAACTATTCTT
**
5999283 TAATATAAC--TTCAAC
1 TAATATAACTATTC-TT
5999298 TAATA-AACTATTCTT
1 TAATATAACTATTCTT
5999313 TAATATAACT
1 TAATATAACT
5999323 TAAACTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 6 0.19
15 15 0.48
16 10 0.32
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATAACTATTCTT
Found at i:5999524 original size:40 final size:42
Alignment explanation
Indices: 5999439--5999538 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 42
5999429 AACTAACACA
*
5999439 AACTAATTACATTTTTTTTATATATAACTAACGACTAACAAACT
1 AACTAATTA-ATTTTTTTAATATATAACTAACGAC-AACAAACT
* *
5999483 AACTAATT-ATTTTTATTAATATATAACTATC-A-AACATACT
1 AACTAATTAATTTTT-TTAATATATAACTAACGACAACAAACT
* *
5999523 AATTAAATAATTTTTT
1 AACTAATTAATTTTTT
5999539 ATTTCTATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
40 14 0.29
41 6 0.12
42 7 0.14
43 14 0.29
44 8 0.16
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.43
Consensus pattern (42 bp):
AACTAATTAATTTTTTTAATATATAACTAACGACAACAAACT
Found at i:5999574 original size:21 final size:21
Alignment explanation
Indices: 5999550--5999589 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
5999540 TTTCTATATG
5999550 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
5999571 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
5999590 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:6000302 original size:22 final size:22
Alignment explanation
Indices: 6000274--6000320 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
6000264 CTTGTGGATT
*
6000274 GCAGC-AATAATTGTTGCATGAA
1 GCAGCAAATAA-TGCTGCATGAA
*
6000296 GCAGCAAATGATGCTGCATGAA
1 GCAGCAAATAATGCTGCATGAA
6000318 GCA
1 GCA
6000321 ACGAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (22 bp):
GCAGCAAATAATGCTGCATGAA
Found at i:6000333 original size:24 final size:22
Alignment explanation
Indices: 6000288--6000337 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 22
6000278 CAATAATTGT
*
6000288 TGCATGAAGCAGCAAATGATGC
1 TGCATGAAGCAGAAAATGATGC
*
6000310 TGCATGAAGCAACGAAAATTATGC
1 TGCATGAAGC-A-GAAAATGATGC
6000334 TGCA
1 TGCA
6000338 ATAATGCAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
23 1 0.04
24 13 0.54
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (22 bp):
TGCATGAAGCAGAAAATGATGC
Found at i:6000410 original size:22 final size:21
Alignment explanation
Indices: 6000362--6000413 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
6000352 AAAGGTGCAT
* * *
6000362 GGAGCAGACGAGCATGTAGTG
1 GGAGCAGGCGAGCATGCAGAG
6000383 GAGAGCAGGCGAGCATGCAGCAG
1 G-GAGCAGGCGAGCATGCAG-AG
6000406 GGAGCAGG
1 GGAGCAGG
6000414 TGTAGGAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.29, C:0.17, G:0.46, T:0.08
Consensus pattern (21 bp):
GGAGCAGGCGAGCATGCAGAG
Found at i:6001929 original size:18 final size:17
Alignment explanation
Indices: 6001901--6001964 Score: 83
Period size: 18 Copynumber: 3.5 Consensus size: 17
6001891 AGGGATTATC
6001901 AGTGGTCTTCGGGACAT
1 AGTGGTCTTCGGGACAT
*
6001918 AGTGGTTCTTCGGAACAATT
1 AGTGG-TCTTCGGGAC-A-T
6001938 AGTGGTCATTCGGGACAT
1 AGTGGTC-TTCGGGACAT
6001956 AGTGGTCTT
1 AGTGGTCTT
6001965 TCGTGATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.17
18 17 0.41
19 4 0.10
20 13 0.32
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (17 bp):
AGTGGTCTTCGGGACAT
Found at i:6007809 original size:12 final size:12
Alignment explanation
Indices: 6007792--6007816 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6007782 AATAGTTGAT
6007792 AAGTTGAATTTG
1 AAGTTGAATTTG
6007804 AAGTTGAATTTG
1 AAGTTGAATTTG
6007816 A
1 A
6007817 CTTGTCATCG
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:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AAGTTGAATTTG
Found at i:6008197 original size:64 final size:63
Alignment explanation
Indices: 6008121--6008241 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 63
6008111 ATTGTTCAAT
* * **
6008121 GTGTATCGATGCACATGAAGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGTCATCA
1 GTGTATCGATGCACAAGAAGTGCATCGATGCAC-CCCCTAAAATAAAAACATCGAATGTCATCA
** *
6008185 GTGTATCGATGCACAAGTGGTGCATCGATGCACCCCCTAAAATACAAACATCGAATG
1 GTGTATCGATGCACAAGAAGTGCATCGATGCACCCCCTAAAATAAAAACATCGAATG
6008242 GGATTTATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 21 0.42
64 29 0.58
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (63 bp):
GTGTATCGATGCACAAGAAGTGCATCGATGCACCCCCTAAAATAAAAACATCGAATGTCATCA
Found at i:6008864 original size:18 final size:18
Alignment explanation
Indices: 6008841--6008932 Score: 130
Period size: 18 Copynumber: 5.0 Consensus size: 18
6008831 GAGGGATTAT
6008841 TAGTGGTCCTTCGGGACA
1 TAGTGGTCCTTCGGGACA
* * *
6008859 TAGTGGTTCTTTGGAACAA
1 TAGTGGTCCTTCGGGAC-A
6008878 TCAGTGGTCCTTCGGGACA
1 T-AGTGGTCCTTCGGGACA
*
6008897 TAGTGGTCATTCGGGACA
1 TAGTGGTCCTTCGGGACA
6008915 TAGTGGTCCTTCGGGACA
1 TAGTGGTCCTTCGGGACA
6008933 AATATTCAGT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
18 47 0.73
19 4 0.06
20 13 0.20
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.29
Consensus pattern (18 bp):
TAGTGGTCCTTCGGGACA
Found at i:6008893 original size:38 final size:36
Alignment explanation
Indices: 6008841--6008932 Score: 132
Period size: 38 Copynumber: 2.5 Consensus size: 36
6008831 GAGGGATTAT
*
6008841 TAGTGGTCCTTCGGGACATAGTGGTTC-TTTGGAACAA
1 TAGTGGTCCTTCGGGACATAGTGG-TCATTCGGAAC-A
*
6008878 TCAGTGGTCCTTCGGGACATAGTGGTCATTCGGGACA
1 T-AGTGGTCCTTCGGGACATAGTGGTCATTCGGAACA
6008915 TAGTGGTCCTTCGGGACA
1 TAGTGGTCCTTCGGGACA
6008933 AATATTCAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
36 17 0.33
37 5 0.10
38 29 0.57
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.29
Consensus pattern (36 bp):
TAGTGGTCCTTCGGGACATAGTGGTCATTCGGAACA
Found at i:6009605 original size:14 final size:14
Alignment explanation
Indices: 6009586--6009634 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
6009576 CCCTTGCTCG
*
6009586 CTCGCTCGGATGCC
1 CTCGCTCAGATGCC
6009600 CTCGCTCAGATGCC
1 CTCGCTCAGATGCC
* *
6009614 CTCGGTCAGATGGC
1 CTCGCTCAGATGCC
6009628 CTCGCTC
1 CTCGCTC
6009635 GAATGCTCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.10, C:0.41, G:0.27, T:0.22
Consensus pattern (14 bp):
CTCGCTCAGATGCC
Found at i:6010201 original size:83 final size:83
Alignment explanation
Indices: 6010110--6010278 Score: 320
Period size: 83 Copynumber: 2.0 Consensus size: 83
6010100 ATTAAACTTA
6010110 TCAAACTTATATACTCATTATATGATTTCTTTTTTTAATTTGGAGTTAGTAGAATGTAGTATCTG
1 TCAAACTTATATACTCATTATATGATTTCTTTTTTTAATTTGGAGTTAGTAGAATGTAGTATCTG
*
6010175 TTCAAAAATAAGTTTCAG
66 TTCAAAAATAAATTTCAG
6010193 TCAAACTTATATACTCATTATATGATTTCTTTTTTTAATTTGGAGTTAGTAGAATGTAGTATCTG
1 TCAAACTTATATACTCATTATATGATTTCTTTTTTTAATTTGGAGTTAGTAGAATGTAGTATCTG
*
6010258 TTCAAAAATAAATTTCTG
66 TTCAAAAATAAATTTCAG
6010276 TCA
1 TCA
6010279 TTTGACATTT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (83 bp):
TCAAACTTATATACTCATTATATGATTTCTTTTTTTAATTTGGAGTTAGTAGAATGTAGTATCTG
TTCAAAAATAAATTTCAG
Found at i:6011094 original size:81 final size:81
Alignment explanation
Indices: 6011009--6011171 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 81
6010999 GATAGCGGTC
* *
6011009 GTTCATTTTTTTTAGAAGAGCTTGGTTGATGACAAATAAGTTGTGTCGACCATTGACAATTCGCT
1 GTTCATTTTTTTTAGAAGAGCATGGTTGATGACAAATAAATTGTGTCGACCATTGACAATTCGCT
6011074 CATTTTAATTTAGACA
66 CATTTTAATTTAGACA
6011090 GTTCATTTTTTTTAGAAGAGCATGGTTGATGACAAATAAATTGTGTCGACCATTGACAATTCGCT
1 GTTCATTTTTTTTAGAAGAGCATGGTTGATGACAAATAAATTGTGTCGACCATTGACAATTCGCT
6011155 CATTTTAATTTAGACA
66 CATTTTAATTTAGACA
6011171 G
1 G
6011172 AAAGTTACGG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (81 bp):
GTTCATTTTTTTTAGAAGAGCATGGTTGATGACAAATAAATTGTGTCGACCATTGACAATTCGCT
CATTTTAATTTAGACA
Found at i:6012436 original size:16 final size:15
Alignment explanation
Indices: 6012415--6012481 Score: 73
Period size: 16 Copynumber: 4.3 Consensus size: 15
6012405 ATTATTTAGA
6012415 AAAATATTTAAAATTT
1 AAAATA-TTAAAATTT
*
6012431 AAAATA-TACAAATATA
1 AAAATATTA-AAAT-TT
*
6012447 AAAATATTAAAAATT
1 AAAATATTAAAATTT
6012462 AAAATATTAAAATATT
1 AAAATATTAAAAT-TT
6012478 AAAA
1 AAAA
6012482 ATAAATATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 2 0.05
15 17 0.40
16 22 0.51
17 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATATTAAAATTT
Found at i:6012445 original size:8 final size:8
Alignment explanation
Indices: 6012431--6012484 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
6012421 TTTAAAATTT
6012431 AAAATATA
1 AAAATATA
*
6012439 CAAATATA
1 AAAATATA
6012447 AAAATATTA
1 AAAATA-TA
6012456 AAAAT-T-
1 AAAATATA
*
6012462 AAAATATT
1 AAAATATA
6012470 AAAATATTA
1 AAAATA-TA
6012479 AAAATA
1 AAAATA
6012485 AATATATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
6 5 0.13
7 2 0.05
8 18 0.46
9 14 0.36
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAATATA
Found at i:6012448 original size:15 final size:15
Alignment explanation
Indices: 6012423--6012491 Score: 72
Period size: 15 Copynumber: 4.5 Consensus size: 15
6012413 GAAAAATATT
6012423 TAAAAT-TTAAAATA
1 TAAAATATTAAAATA
*
6012437 TACAAATATAAAAATA
1 TA-AAATATTAAAATA
6012453 TTAAAA-ATTAAAATA
1 -TAAAATATTAAAATA
6012468 TTAAAATATTAAAA-A
1 -TAAAATATTAAAATA
6012483 TAAATATAT
1 TAAA-ATAT
6012492 ATATATATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
14 6 0.12
15 23 0.48
16 17 0.35
17 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (15 bp):
TAAAATATTAAAATA
Found at i:6012460 original size:32 final size:32
Alignment explanation
Indices: 6012414--6012484 Score: 101
Period size: 31 Copynumber: 2.2 Consensus size: 32
6012404 TATTATTTAG
*
6012414 AAAAATATTTAAAATTTAAAATA-TACAAATA-T
1 AAAAATA-TTAAAAATTAAAATATTA-AAATATT
6012446 AAAAATATTAAAAATTAAAATATTAAAATATT
1 AAAAATATTAAAAATTAAAATATTAAAATATT
6012478 AAAAATA
1 AAAAATA
6012485 AATATATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
31 19 0.53
32 17 0.47
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (32 bp):
AAAAATATTAAAAATTAAAATATTAAAATATT
Found at i:6012482 original size:23 final size:23
Alignment explanation
Indices: 6012415--6012491 Score: 88
Period size: 23 Copynumber: 3.3 Consensus size: 23
6012405 ATTATTTAGA
6012415 AAAATATTTAAAAT-TT-AAAATAT
1 AAAATA-TTAAAATATTAAAAAT-T
*
6012438 ACAAATATAAAAATATTAAAAATT
1 A-AAATATTAAAATATTAAAAATT
6012462 AAAATATTAAAATATTAAAAA-T
1 AAAATATTAAAATATTAAAAATT
6012484 AAATATAT
1 AAA-ATAT
6012492 ATATATATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
22 4 0.08
23 30 0.62
24 9 0.19
25 5 0.10
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAATATTAAAATATTAAAAATT
Found at i:6012493 original size:2 final size:2
Alignment explanation
Indices: 6012486--6012537 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
6012476 TTAAAAATAA
*
6012486 AT AT AT AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6012528 AT AT AT AT AT
1 AT AT AT AT AT
6012538 CATACTGATC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6014352 original size:28 final size:28
Alignment explanation
Indices: 6014299--6014370 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
6014289 TTTTCAACTT
6014299 TGAAGTATTGAAGTTATTGAATGAAATC
1 TGAAGTATTGAAGTTATTGAATGAAATC
* *
6014327 T-ATAGTATTGAAGTTATTCTAA-GAAATT
1 TGA-AGTATTGAAGTTATT-GAATGAAATC
*
6014355 TGAAGTTTTGAAGTTA
1 TGAAGTATTGAAGTTA
6014371 CTTATAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 1 0.03
28 34 0.89
29 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (28 bp):
TGAAGTATTGAAGTTATTGAATGAAATC
Found at i:6015616 original size:149 final size:149
Alignment explanation
Indices: 6015346--6015643 Score: 596
Period size: 149 Copynumber: 2.0 Consensus size: 149
6015336 TTTTTCTAGG
6015346 CAATTATTTGATATGCACTTAAATTACTTTGCCAGCAGCTTAAAATTTATAATTGAATTACCTCA
1 CAATTATTTGATATGCACTTAAATTACTTTGCCAGCAGCTTAAAATTTATAATTGAATTACCTCA
6015411 TTTTTTGTTTCCTTTTTGGTTGATGATTAGTGAATTGTCTATTTATCCTCACAGGCATTGGCAGC
66 TTTTTTGTTTCCTTTTTGGTTGATGATTAGTGAATTGTCTATTTATCCTCACAGGCATTGGCAGC
6015476 ATTAGGACTTAAAACTGGA
131 ATTAGGACTTAAAACTGGA
6015495 CAATTATTTGATATGCACTTAAATTACTTTGCCAGCAGCTTAAAATTTATAATTGAATTACCTCA
1 CAATTATTTGATATGCACTTAAATTACTTTGCCAGCAGCTTAAAATTTATAATTGAATTACCTCA
6015560 TTTTTTGTTTCCTTTTTGGTTGATGATTAGTGAATTGTCTATTTATCCTCACAGGCATTGGCAGC
66 TTTTTTGTTTCCTTTTTGGTTGATGATTAGTGAATTGTCTATTTATCCTCACAGGCATTGGCAGC
6015625 ATTAGGACTTAAAACTGGA
131 ATTAGGACTTAAAACTGGA
6015644 AGTACTGTCC
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (149 bp):
CAATTATTTGATATGCACTTAAATTACTTTGCCAGCAGCTTAAAATTTATAATTGAATTACCTCA
TTTTTTGTTTCCTTTTTGGTTGATGATTAGTGAATTGTCTATTTATCCTCACAGGCATTGGCAGC
ATTAGGACTTAAAACTGGA
Found at i:6019074 original size:64 final size:62
Alignment explanation
Indices: 6018952--6019101 Score: 176
Period size: 64 Copynumber: 2.3 Consensus size: 62
6018942 ATGCACATTC
* * * * *
6018952 ATAAGTGCATCGATGCATTCC-TTTAAAAGAAGACATCGAATGCCTTTGATGCATCGATGCATA
1 ATAA-TGCATCGATGCA-TCCTTTTAAAAAAAAACATCGAATGCATTTGATGCACCGATGCACA
*
6019015 GATAATGCATCGATGCATCCTTTTAAAATAAAAACATCGAATGCATTTTATGCACCGATGCACA
1 -ATAATGCATCGATGCATCCTTTTAAAA-AAAAACATCGAATGCATTTGATGCACCGATGCACA
*
6019079 AGTAGTGCATCGATGCATACCTT
1 A-TAATGCATCGATGCAT-CCTT
6019102 CATTGAAAGA
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
62 3 0.04
63 20 0.27
64 48 0.64
65 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (62 bp):
ATAATGCATCGATGCATCCTTTTAAAAAAAAACATCGAATGCATTTGATGCACCGATGCACA
Found at i:6019609 original size:19 final size:19
Alignment explanation
Indices: 6019585--6019622 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
6019575 GATTTACATG
6019585 AATACATGTGTATAT-ATAT
1 AATACATGTG-ATATGATAT
6019604 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
6019623 GAGATATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:6019844 original size:31 final size:31
Alignment explanation
Indices: 6019756--6019863 Score: 94
Period size: 31 Copynumber: 3.5 Consensus size: 31
6019746 AGTCGAGGGT
* * *
6019756 TTTACCTATG-TCTTTTGAGACATATGGATAG
1 TTTACCTAGGTTC-TTTGGGACATATGGACAG
* * ** *
6019787 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
6019818 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
6019849 -TTGCCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
6019864 ATGACCTCTG
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
30 13 0.21
31 47 0.76
32 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:6019870 original size:30 final size:30
Alignment explanation
Indices: 6019809--6019884 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
6019799 CTAAGGAACA
* *
6019809 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTACCGAGGTTCTTTAGGACC
* *
6019840 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
6019870 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
6019885 GGGTCTGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 29 0.76
31 9 0.24
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:6023205 original size:64 final size:63
Alignment explanation
Indices: 6023116--6023266 Score: 187
Period size: 64 Copynumber: 2.3 Consensus size: 63
6023106 ATGCACATTC
* * * *
6023116 ATAAGTGCATCGATGCATTCC-TTTAAAAGAAGAACATCGAATGCCTTTGATGCATCGATGCATA
1 ATAA-TGCATCGATGCA-TCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
* *
6023180 GATAATGCATCGATGCATCCTTTTAAAATAAAAACATCGAATGCATTTTATGCACCGATGCACA
1 -ATAATGCATCGATGCATCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
*
6023244 AGTAGTGCATCGATGCATACCTT
1 A-TAATGCATCGATGCAT-CCTT
6023267 CATTGAAAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
63 4 0.05
64 64 0.84
65 8 0.11
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (63 bp):
ATAATGCATCGATGCATCCTTTTAAAAGAAAAACATCGAATGCATTTGATGCACCGATGCACA
Found at i:6024010 original size:31 final size:31
Alignment explanation
Indices: 6023922--6024029 Score: 94
Period size: 31 Copynumber: 3.5 Consensus size: 31
6023912 AGTCGAGGGT
* * *
6023922 TTTACCTATG-TCTTTCGAGACATATGGATAG
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * ** *
6023953 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
6023984 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
6024015 -TTGCCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
6024030 ATGACCTCTG
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
30 13 0.21
31 46 0.74
32 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:6024036 original size:30 final size:30
Alignment explanation
Indices: 6023975--6024050 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
6023965 CTAAGGAACA
* *
6023975 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTACCGAGGTTCTTTAGGACC
* *
6024006 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
6024036 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
6024051 GGGTCTGTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 29 0.76
31 9 0.24
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:6025369 original size:25 final size:24
Alignment explanation
Indices: 6025341--6025389 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
6025331 CACCACAACT
6025341 CGTATAAATTTGCACCGTAGTGTCA
1 CGTA-AAATTTGCACCGTAGTGTCA
*
6025366 CGTAGAATTTGCACCGTAGTGTCA
1 CGTAAAATTTGCACCGTAGTGTCA
6025390 TATAAGATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (24 bp):
CGTAAAATTTGCACCGTAGTGTCA
Found at i:6033065 original size:24 final size:24
Alignment explanation
Indices: 6033008--6033065 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
6032998 CCATAAGAAC
* *
6033008 TGTGTCACAAGAGTAGAGAAAACA
1 TGTGTCACAAGAGCAGAGAAAAAA
**
6033032 CATGTCACAAGAGCAGAGAAAAAA
1 TGTGTCACAAGAGCAGAGAAAAAA
*
6033056 TGTGTTACAA
1 TGTGTCACAA
6033066 AGATAAATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.17
Consensus pattern (24 bp):
TGTGTCACAAGAGCAGAGAAAAAA
Found at i:6034995 original size:18 final size:17
Alignment explanation
Indices: 6034941--6034989 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
6034931 TTGGACCCTT
* *
6034941 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
6034959 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
6034977 AGTGCATTCGATG
1 AGTGCA-TCGATG
6034990 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:6035159 original size:65 final size:64
Alignment explanation
Indices: 6034961--6035170 Score: 214
Period size: 65 Copynumber: 3.2 Consensus size: 64
6034951 TGCACTAAGA
* * *
6034961 GTGCATCGATGCATCAAGTGCATTCGATGTT-TCA-AAATAGC-CAGAGTGCATCGATGCATGGC
1 GTGCATCGATGCATCAAATGCATTCGATGTTATCATAAA-ATCTC--AGTGCATCGATGCATGGT
6035023 TG
63 TG
* * * **
6035025 GTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTAA
1 GTGCATCGATGCATCAAATGCATTCGATGTTATCATAAAAT-CTCAGTGCATCGATGCATGGTTG
* **
6035090 GTGCATCGATGCATGAAATGCATTCGATGTTAT-ATTTAAT-TCATGGTGCATCGATGCATGGAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTATCATAAAATCTCA--GTGCATCGATGCATGG-T
6035153 TG
63 TG
*
6035155 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
6035171 CTCTGAAAAA
Statistics
Matches: 122, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
62 3 0.02
64 49 0.40
65 65 0.53
66 4 0.03
67 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTATCATAAAATCTCAGTGCATCGATGCATGGTTG
Found at i:6035636 original size:2 final size:2
Alignment explanation
Indices: 6035629--6035653 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6035619 AATTGATTAA
6035629 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6035654 GCTTAAGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6037295 original size:13 final size:13
Alignment explanation
Indices: 6037269--6037307 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
6037259 TGGGCAATGT
6037269 TTTGAAAA-AATA
1 TTTGAAAATAATA
6037281 TTTGAAAATAATA
1 TTTGAAAATAATA
*
6037294 TTTGTAAATAATA
1 TTTGAAAATAATA
6037307 T
1 T
6037308 GTATAGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (13 bp):
TTTGAAAATAATA
Found at i:6043751 original size:46 final size:45
Alignment explanation
Indices: 6043653--6043758 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 45
6043643 GTGCACTAAG
* *
6043653 AGTGCATCGATGCATCAAGTGAATTCGATGTTTCAAAACAGCCAG
1 AGTGCATCGATGCATCAAATGAATTCGATGTTTCAAAACAGCCAC
* * *
6043698 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTC
1 AGTGCATCGATGCATCAAATGAATTCGATG-TTTCA-AAACAGCCAC
*
6043744 AGTGCATCGGTGCAT
1 AGTGCATCGATGCAT
6043759 GGTAAGTGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
45 28 0.53
46 22 0.42
47 3 0.06
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (45 bp):
AGTGCATCGATGCATCAAATGAATTCGATGTTTCAAAACAGCCAC
Found at i:6043836 original size:65 final size:63
Alignment explanation
Indices: 6043698--6043824 Score: 159
Period size: 65 Copynumber: 2.0 Consensus size: 63
6043688 AAACAGCCAG
*
6043698 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTA
1 AGTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGTA
* **
6043763 AGTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGG
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG
6043825 ATTGATGCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
62 3 0.05
63 3 0.05
64 20 0.36
65 29 0.53
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (63 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTA
Found at i:6044181 original size:22 final size:22
Alignment explanation
Indices: 6044156--6044198 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6044146 GTGAAATTTA
* *
6044156 TCCCGAAGGACCACTGTATATG
1 TCCCAAAGGACCACTATATATG
6044178 TCCCAAAGGACCACTATATAT
1 TCCCAAAGGACCACTATATAT
6044199 TCCTCGACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (22 bp):
TCCCAAAGGACCACTATATATG
Found at i:6051020 original size:21 final size:19
Alignment explanation
Indices: 6050978--6051028 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 19
6050968 AATATACGTT
**
6050978 TATGAACAGTAAAATATGG
1 TATGAACAGTAAAATAAAG
6050997 TATGAACAGTGAACAATAAAG
1 TATGAACAGT-AA-AATAAAG
6051018 TATGAACAGTA
1 TATGAACAGTA
6051029 CTTCTACAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 10 0.36
20 3 0.11
21 15 0.54
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.24
Consensus pattern (19 bp):
TATGAACAGTAAAATAAAG
Found at i:6052851 original size:20 final size:20
Alignment explanation
Indices: 6052826--6052863 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6052816 CACATGTTAA
6052826 AGAATGCATCGATGCACTAT
1 AGAATGCATCGATGCACTAT
*
6052846 AGAATGTATCGATGCACT
1 AGAATGCATCGATGCACT
6052864 TCAAAGGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATGCACTAT
Found at i:6054213 original size:20 final size:20
Alignment explanation
Indices: 6054188--6054283 Score: 92
Period size: 20 Copynumber: 5.0 Consensus size: 20
6054178 GGGATTATAT
6054188 CAGTGGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
6054208 CAGTGGTCCTTCGGGAC--A
1 CAGTGGTCCTTCGGGACAAA
* * * * *
6054226 TAGTGGTTCTTCGGAATAAT
1 CAGTGGTCCTTCGGGACAAA
*
6054246 CAGTGGTCTTTCGGGAC--A
1 CAGTGGTCCTTCGGGACAAA
* *
6054264 TAGTAGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
6054284 TATTCAGTGC
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
18 28 0.48
20 30 0.52
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (20 bp):
CAGTGGTCCTTCGGGACAAA
Found at i:6054232 original size:18 final size:18
Alignment explanation
Indices: 6054189--6054281 Score: 96
Period size: 18 Copynumber: 4.9 Consensus size: 18
6054179 GGATTATATC
*
6054189 AGTGGTCCTTCGGGACAAAC
1 AGTGGTCCTTCGGGAC--AT
6054209 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* * *
6054227 AGTGGTTCTTCGGAATAAT
1 AGTGGTCCTTCGGGA-CAT
*
6054246 CAGTGGTCTTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
6054265 AGTAGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
6054282 AATATTCAGT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
18 29 0.48
19 4 0.07
20 28 0.46
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:6054250 original size:38 final size:38
Alignment explanation
Indices: 6054189--6054283 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 38
6054179 GGATTATATC
*
6054189 AGTGGTCCTTCGGGACAAACAGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGAACAAACAGTGGTCCTTCGGGACAT
* * * *
6054227 AGTGGTTCTTCGGAATAATCAGTGGTCTTTCGGGACAT
1 AGTGGTCCTTCGGAACAAACAGTGGTCCTTCGGGACAT
* *
6054265 AGTAGTCCTTCGGGACAAA
1 AGTGGTCCTTCGGAACAAA
6054284 TATTCAGTGC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (38 bp):
AGTGGTCCTTCGGAACAAACAGTGGTCCTTCGGGACAT
Found at i:6056516 original size:12 final size:13
Alignment explanation
Indices: 6056499--6056531 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
6056489 CTTCCACGGT
6056499 TGAAGAAGA-AAA
1 TGAAGAAGAGAAA
6056511 TGAAGAAGAGAAA
1 TGAAGAAGAGAAA
6056524 -GAAGAAGA
1 TGAAGAAGA
6056532 TAACTCTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.85
13 3 0.15
ACGTcount: A:0.64, C:0.00, G:0.30, T:0.06
Consensus pattern (13 bp):
TGAAGAAGAGAAA
Found at i:6059636 original size:159 final size:160
Alignment explanation
Indices: 6059339--6059658 Score: 633
Period size: 159 Copynumber: 2.0 Consensus size: 160
6059329 ACTAAGGTAA
6059339 CACTACTCCGCTATCCTAGTTTTAAGCCTTCATAAATTCAAATGACAGAAACGTATAAAAAGTAG
1 CACTACTCCGCTATCCTAGTTTTAAGCCTTCATAAATTCAAATGACAGAAACGTATAAAAAGTAG
6059404 AAGTCATGAAAATTACTATAAATGCATTAAAAGAAGACATAGATGACACACCCTATAGATGTGAC
66 AAGTCATGAAAATTACTATAAATGCATTAAAAGAAGACATAGATGACACACCCTATAGATGTGAC
6059469 CCGCACTACTCTGCTACCCTGGTCGTAAGT
131 CCGCACTACTCTGCTACCCTGGTCGTAAGT
6059499 CACTACT-CGCTATCCTAGTTTTAAGCCTTCATAAATTCAAATGACAGAAACGTATAAAAAGTAG
1 CACTACTCCGCTATCCTAGTTTTAAGCCTTCATAAATTCAAATGACAGAAACGTATAAAAAGTAG
6059563 AAGTCATGAAAATTACTATAAATGCATTAAAAGAAGACATAGATGACACACCCTATAGATGTGAC
66 AAGTCATGAAAATTACTATAAATGCATTAAAAGAAGACATAGATGACACACCCTATAGATGTGAC
6059628 CCGCACTACTCTGCTACCCTGGTCGTAAGT
131 CCGCACTACTCTGCTACCCTGGTCGTAAGT
6059658 C
1 C
6059659 TCCATAATTT
Statistics
Matches: 160, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
159 153 0.96
160 7 0.04
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.26
Consensus pattern (160 bp):
CACTACTCCGCTATCCTAGTTTTAAGCCTTCATAAATTCAAATGACAGAAACGTATAAAAAGTAG
AAGTCATGAAAATTACTATAAATGCATTAAAAGAAGACATAGATGACACACCCTATAGATGTGAC
CCGCACTACTCTGCTACCCTGGTCGTAAGT
Found at i:6066413 original size:16 final size:16
Alignment explanation
Indices: 6066388--6066418 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6066378 ATCAAGCGTG
*
6066388 GATGAGCACCATTAAC
1 GATGAACACCATTAAC
6066404 GATGAACACCATTAA
1 GATGAACACCATTAA
6066419 ATTAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (16 bp):
GATGAACACCATTAAC
Found at i:6066901 original size:693 final size:677
Alignment explanation
Indices: 6065592--6066954 Score: 2233
Period size: 693 Copynumber: 2.0 Consensus size: 677
6065582 AGAATAGTTT
* * *
6065592 TTTTAGTGGGTCTAGAATTAATGATCTAAGGAAATATCAAGGAACAAAAATGAATAACATAATCA
1 TTTTAGTGGGTCTAGAATTAATGATATAAGGAAATATCAAGAAACAAAAATGAACAACATAATCA
* * *
6065657 TTCGACAAAATATGTTTGTTGTTACGAAAAATTCTACAAAGTTCGTCGAGCGTGGATGAACACCA
66 TTCGACAAAATATGCTTGTTCTTACGAAAAATTCTACAAAGTTCGTCGAGCGTCGATGAACACCA
*
6065722 TTAAATTAATTTATAAAGCATTAAATTATAAAGTACTAAACATATAATTAAAAATTAATTAAAAA
131 TTAAATTAATTTATAAAACATTAAATTATAAAGTACTAAACATATAATTAAAAATTAATTAAAAA
*
6065787 TCTAAATGTAATTTAACTAAAAGACAATATTTATAGAACATTAGTTTTTATTATCTTATTTTAAT
196 TCTAAATGTAATTTAACTAAAAGACAATATTTATAAAACATTAGTTTTTATTATCTTATTTTAAT
6065852 TATAATTAGATCAAATATTAGTTTGGAAAATTTATAAACTCTAATTTAATTTCATAGCTTTGAAG
261 TATAATTAGATCAAATATTAGTTTGGAAAATTTATAAACTCTAATTTAATTTCATAGCTTTGAAG
*
6065917 TCTCCGTCGTCGCCACCACCGATATCATCTTTCGCCGACGATTTAGTCTTTGTCGTTCGTCAGCG
326 TCTCCGTCGTCACCACCACCGATATCATCTTTCGCCGACGATTTAGTCTTTGTCGTTCGTCAGCG
* * *
6065982 GTGAAAAATGATACCAGTGACAGCGACGATGGTGGCGGCGGTGACGACGGTGGCGGAGGCGGGAG
391 GTGAAAAATGATACCAGTGACAGCGACGATGGTGGCGACGGTGACGACGGCGGCGGAGGCGAGAG
* *
6066047 CTTCAAAGCTATAAAAATAAATTAGGATTTATAAATTTCTCATATTAAAATTTGATCTAATTATA
456 CTTCAAAGCTATAAAAATAAATTAGGATTTATAAATTTCTCAAATTAAAATTCGATCTAATTATA
*
6066112 ATTAAAATAAGATTATAAAAAGTAATATTTTATAAATATTGTATTTTAATTAAATTACATTTAGA
521 ATTAAAATAAGATTATAAAAAGTAATATTTTATAAATATTATATTTTAATTAAATTACATTTAGA
*
6066177 TTTTTAACTAATTTATAATTATACTTTTAGTACTTCATAATTTAACGTTTTATAAATTAATTTAA
586 TTTTTAACTAATTTATAATTATACTTTTAGTACTTCATAATTTAACATTTTATAAATTAATTTAA
6066242 TGGTGCTCATCATTAATTGTTCTTTTC
651 TGGTGCTCATCATTAATTGTTCTTTTC
* * **
6066269 TTTTAGTGGGTCTATAATTAATGATATAAGGAAATATGAAGAAACAAAAATGAACAATGTAA-CT
1 TTTTAGTGGGTCTAGAATTAATGATATAAGGAAATATCAAGAAACAAAAATGAACAACATAATC-
*
6066333 ATTCGACAAAATATGCTTGTTCTTACGAAAAATTCTACAAAGCTCATCAAGCGTGGATGAGCACC
65 ATTCGACAAAATATGCTTGTTCTTACGAAAAATTCTACAAAG-T--T----CGT---CGAG---C
*
6066398 ATTAACGATGAACACCATTAAATTAATTTATAAAACATTAAATTATAAAGTACTAAACATATAAT
117 -GT--CGATGAACACCATTAAATTAATTTATAAAACATTAAATTATAAAGTACTAAACATATAAT
* *
6066463 TATAAATTAGTTAAAAATCTAAATGTAATTTAACTAAAAGACAATATTTATAAAACATTAGTTTT
179 TAAAAATTAATTAAAAATCTAAATGTAATTTAACTAAAAGACAATATTTATAAAACATTAGTTTT
6066528 TATTATCTTATTTTAATTATAATTAGATCAAATATTAGTTTGGAAAATTTATAAACTCTAATTTA
244 TATTATCTTATTTTAATTATAATTAGATCAAATATTAGTTTGGAAAATTTATAAACTCTAATTTA
* * * *
6066593 TTTTCATAGCTTTGAAGTCTTCGTCGTCACCACCACCGATATCATCTTTCGCCTATGATTTAGTC
309 ATTTCATAGCTTTGAAGTCTCCGTCGTCACCACCACCGATATCATCTTTCGCCGACGATTTAGTC
* * * *
6066658 TTTTTCGTTCGTCAGCGGTGAAAGATGATACCAGTGACAGTGACGATGGTGGCGACGGTGATGAC
374 TTTGTCGTTCGTCAGCGGTGAAAAATGATACCAGTGACAGCGACGATGGTGGCGACGGTGACGAC
* *
6066723 GGCGGCGGAGGCGAGAGCTTCAAAGTTATAAAAATAAATTAGGGTTTATAAATTTCTCAAATTAA
439 GGCGGCGGAGGCGAGAGCTTCAAAGCTATAAAAATAAATTAGGATTTATAAATTTCTCAAATTAA
*
6066788 TATTCGATCTAATTATAATTAAAATAAGATTATAAAAAGTAATATTTTATAAATATTATATTTTA
504 AATTCGATCTAATTATAATTAAAATAAGATTATAAAAAGTAATATTTTATAAATATTATATTTTA
*
6066853 ATTAAATTACATTTAGATTTTTAACTAATTTATAATTATACTTTTAGTACTTTATAATTTAACAT
569 ATTAAATTACATTTAGATTTTTAACTAATTTATAATTATACTTTTAGTACTTCATAATTTAACAT
*
6066918 TTTATAAATTAATTTAATGGTGTTCATCATTAATTGT
634 TTTATAAATTAATTTAATGGTGCTCATCATTAATTGT
6066955 GCTCATTCGT
Statistics
Matches: 632, Mismatches: 37, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
676 1 0.00
677 95 0.15
678 1 0.00
680 1 0.00
684 3 0.00
687 3 0.00
690 1 0.00
691 1 0.00
693 526 0.83
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (677 bp):
TTTTAGTGGGTCTAGAATTAATGATATAAGGAAATATCAAGAAACAAAAATGAACAACATAATCA
TTCGACAAAATATGCTTGTTCTTACGAAAAATTCTACAAAGTTCGTCGAGCGTCGATGAACACCA
TTAAATTAATTTATAAAACATTAAATTATAAAGTACTAAACATATAATTAAAAATTAATTAAAAA
TCTAAATGTAATTTAACTAAAAGACAATATTTATAAAACATTAGTTTTTATTATCTTATTTTAAT
TATAATTAGATCAAATATTAGTTTGGAAAATTTATAAACTCTAATTTAATTTCATAGCTTTGAAG
TCTCCGTCGTCACCACCACCGATATCATCTTTCGCCGACGATTTAGTCTTTGTCGTTCGTCAGCG
GTGAAAAATGATACCAGTGACAGCGACGATGGTGGCGACGGTGACGACGGCGGCGGAGGCGAGAG
CTTCAAAGCTATAAAAATAAATTAGGATTTATAAATTTCTCAAATTAAAATTCGATCTAATTATA
ATTAAAATAAGATTATAAAAAGTAATATTTTATAAATATTATATTTTAATTAAATTACATTTAGA
TTTTTAACTAATTTATAATTATACTTTTAGTACTTCATAATTTAACATTTTATAAATTAATTTAA
TGGTGCTCATCATTAATTGTTCTTTTC
Found at i:6070399 original size:168 final size:170
Alignment explanation
Indices: 6070086--6070434 Score: 578
Period size: 174 Copynumber: 2.0 Consensus size: 170
6070076 AGTGTGATAT
* *
6070086 TCGGGTCGGGTTCGAGTTTAGGGTGAAAAAATCGGACCGACTCGAAAATATATATAATTTTACCT
1 TCGGGTCGGGTTCGAGTTTAGGGTGAAAAAAACGGACCGACCCGAAAATATATATAATTTTACCT
*
6070151 TATATATTTATGAATAATTACAATAATACCCCTCTATATATATATTTTTTTTTCAATTAAGTCAC
66 TATATATTTAGGAATAATTACAATAATACCCCTC---ATATATA-TTTTTTTTCAATTAAGTCAC
6070216 TGTTTTTATTAAATAAAAATA-TTTTTTATTATTTCGGGTCGGG
127 TGTTTTTATTAAATAAAAATATTTTTTTATTATTTCGGGTCGGG
* *
6070259 TCGGGTCGGGTTCGGGTTTAGGGTGAAAAAAACTGGACCGCCCCGAAAATATATATAATTTTACC
1 TCGGGTCGGGTTCGAGTTTAGGGTGAAAAAAAC-GGACCGACCCGAAAATATATATAATTTTACC
*
6070324 TTATATATTTAGGAATAATTACAATAATATCCCTC-TATATA-TTTTTTTCAATTAAGTCACTGT
65 TTATATATTTAGGAATAATTACAATAATACCCCTCATATATATTTTTTTTCAATTAAGTCACTGT
6070387 TTTTATTAAATAAAAATATTTTTTTATTATTTCGGGTCGGG
130 TTTTATTAAATAAAAATATTTTTTTATTATTTCGGGTCGGG
6070428 TCGGGTC
1 TCGGGTC
6070435 TCTAATTCAT
Statistics
Matches: 168, Mismatches: 6, Indels: 8
0.92 0.03 0.04
Matches are distributed among these distances:
168 40 0.24
169 29 0.17
170 6 0.04
173 31 0.18
174 62 0.37
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (170 bp):
TCGGGTCGGGTTCGAGTTTAGGGTGAAAAAAACGGACCGACCCGAAAATATATATAATTTTACCT
TATATATTTAGGAATAATTACAATAATACCCCTCATATATATTTTTTTTCAATTAAGTCACTGTT
TTTATTAAATAAAAATATTTTTTTATTATTTCGGGTCGGG
Found at i:6070537 original size:33 final size:33
Alignment explanation
Indices: 6070479--6070563 Score: 136
Period size: 33 Copynumber: 2.6 Consensus size: 33
6070469 CTTTATTTTG
*
6070479 TTCGGGTCAGGTCGGG-TTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
6070511 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
*
6070544 TTCGGGTCGGATTCGGGTTT
1 TTCGGGTCGG-GTCGGGTTT
6070564 AGAGTGAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 15 0.31
33 26 0.53
34 8 0.16
ACGTcount: A:0.12, C:0.11, G:0.36, T:0.41
Consensus pattern (33 bp):
TTCGGGTCGGGTCGGGTTTTTTTAAGTGTGATA
Found at i:6090019 original size:21 final size:21
Alignment explanation
Indices: 6089968--6090020 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
6089958 ATTATTACTA
6089968 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
6089989 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
6090010 TCGCAATGCGA
1 TCGCAATGCGA
6090021 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:6090163 original size:20 final size:20
Alignment explanation
Indices: 6090051--6090163 Score: 154
Period size: 20 Copynumber: 5.7 Consensus size: 20
6090041 ATTTGGAAAA
* * *
6090051 TCGCAATGCAATACTGACTA
1 TCGCAACGCGATACTGACTT
*
6090071 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATACTGACTT
6090091 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
6090111 TCGCAACGCGATACTTACTT
1 TCGCAACGCGATACTGACTT
*
6090131 TCGCAACGCGATACTAACTT
1 TCGCAACGCGATACTGACTT
* *
6090151 TCGTAACGAGATA
1 TCGCAACGCGATA
6090164 ATACATAATC
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 84 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:6090705 original size:20 final size:20
Alignment explanation
Indices: 6090656--6090714 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
6090646 TTTATTCTCT
* **
6090656 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
6090676 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
6090696 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
6090715 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:6090905 original size:25 final size:24
Alignment explanation
Indices: 6090851--6090905 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
6090841 TGTTTATTAT
* *
6090851 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
6090875 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
6090901 TGTTT
1 TGTTT
6090906 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:6091490 original size:41 final size:42
Alignment explanation
Indices: 6091400--6091490 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 42
6091390 CCCGACTCAC
* * * *
6091400 CTGTCATCCCTCAAGAGTCCCCTCCAATCGTTTAAGAGGCCC
1 CTGTCATCCCTCAAAAGTCCCCTCCAACCGTTCAAGAGGCCA
* *
6091442 CTATCATCCCTCAAAAGTCCCC-CCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAAAGTCCCCTCCAACCGTTCAAGAGGCCA
6091483 CTGTCATC
1 CTGTCATC
6091491 GTTGAAGAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 22 0.52
42 20 0.48
ACGTcount: A:0.23, C:0.41, G:0.14, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAAAAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:6092934 original size:14 final size:14
Alignment explanation
Indices: 6092900--6092938 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
6092890 TTGATTATTT
6092900 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
6092914 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
6092928 TGTTGATTTGT
1 AATTGATTTGT
6092939 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:6093068 original size:20 final size:20
Alignment explanation
Indices: 6093043--6093080 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6093033 GAAAAACAAA
*
6093043 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
6093063 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
6093081 CGCAATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:6093084 original size:14 final size:14
Alignment explanation
Indices: 6093065--6093118 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
6093055 GAAAATGGCT
6093065 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
6093079 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
6093098 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
6093112 ATCGCAA
1 ATCGCAA
6093119 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:6093167 original size:20 final size:20
Alignment explanation
Indices: 6093142--6093217 Score: 143
Period size: 20 Copynumber: 3.8 Consensus size: 20
6093132 TCGCTTTGCG
*
6093142 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
6093162 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
6093182 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
6093202 ATTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
6093218 TTTCCCGTTG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:6093175 original size:34 final size:34
Alignment explanation
Indices: 6093130--6093233 Score: 127
Period size: 40 Copynumber: 2.9 Consensus size: 34
6093120 GCGATTTTCA
* *
6093130 TTTCGCTTTGCGATTTTCTCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCCCGTTGCGATAGCCAT
*
6093164 TTTCGCGTTGCGATAGCCATTTTCGCGTTGCGATAGCCAT
1 TTTCGCGTTGC----G--ATTTTCCCGTTGCGATAGCCAT
6093204 TTTCGCGTTGCGATTTTCCCGTTGCGATAG
1 TTTCGCGTTGCGATTTTCCCGTTGCGATAG
6093234 TCAAATGAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
34 27 0.44
36 1 0.02
38 1 0.02
40 32 0.52
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.39
Consensus pattern (34 bp):
TTTCGCGTTGCGATTTTCCCGTTGCGATAGCCAT
Found at i:6093221 original size:14 final size:14
Alignment explanation
Indices: 6093202--6093231 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6093192 TGCGATAGCC
*
6093202 ATTTTCGCGTTGCG
1 ATTTTCCCGTTGCG
6093216 ATTTTCCCGTTGCG
1 ATTTTCCCGTTGCG
6093230 AT
1 AT
6093232 AGTCAAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.43
Consensus pattern (14 bp):
ATTTTCCCGTTGCG
Found at i:6093789 original size:20 final size:20
Alignment explanation
Indices: 6093768--6093855 Score: 131
Period size: 20 Copynumber: 4.4 Consensus size: 20
6093758 TGTATTATCT
* *
6093768 CGTTGCGATAGTCAGAATCT
1 CGTTGCGAAAGTCAGAATCG
6093788 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
* *
6093808 CGTTACGAAAGTCAGAATCA
1 CGTTGCGAAAGTCAGAATCG
*
6093828 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
6093848 CGTTGCGA
1 CGTTGCGA
6093856 TTTTGTATTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:6093911 original size:41 final size:41
Alignment explanation
Indices: 6093830--6093918 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
6093820 CAGAATCACG
* * ** *
6093830 TTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCGCA
1 TTGCGATAGTCAGTATCGCATTGCGATTTTCAAATATCGCA
6093871 TTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT-TCGCA
1 TTGCGATAGTCAGTATCGCATTGCGATTTT-CAAATATCGCA
6093912 TTGCGAT
1 TTGCGAT
6093919 TTACTTATTC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 40 0.95
42 2 0.05
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (41 bp):
TTGCGATAGTCAGTATCGCATTGCGATTTTCAAATATCGCA
Found at i:6093930 original size:20 final size:21
Alignment explanation
Indices: 6093886--6093937 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
6093876 ATAGTCAGTA
*
6093886 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
6093907 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
6093927 TCGCATTGCGA
1 TCGCATTGCGA
6093938 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:6093979 original size:21 final size:22
Alignment explanation
Indices: 6093927--6093979 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
6093917 ATTTACTTAT
6093927 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
6093948 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
6093969 TCGCATTGCGA
1 TCGCATTGCGA
6093980 TAGTAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:6094585 original size:2 final size:2
Alignment explanation
Indices: 6094578--6094632 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
6094568 ATTTTGAGTA
6094578 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6094620 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
6094633 GTAAATGAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6096050 original size:4 final size:4
Alignment explanation
Indices: 6096041--6096068 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
6096031 TACTATATTT
6096041 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
6096069 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:6107009 original size:23 final size:23
Alignment explanation
Indices: 6106983--6107035 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
6106973 TTTCTTTGAG
6106983 GTTTTGCGATTTAACTTTAATTA
1 GTTTTGCGATTTAACTTTAATTA
6107006 GTTTTGCGATTTAACTTTAATTA
1 GTTTTGCGATTTAACTTTAATTA
6107029 GTTTTGC
1 GTTTTGC
6107036 TTGCTTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.09, G:0.15, T:0.53
Consensus pattern (23 bp):
GTTTTGCGATTTAACTTTAATTA
Found at i:6107418 original size:52 final size:52
Alignment explanation
Indices: 6107357--6107459 Score: 179
Period size: 52 Copynumber: 2.0 Consensus size: 52
6107347 AATGTTGACA
6107357 TGTTAATCGAGATATGATAACATATGATCCTAGAATATTAAACAACTATACC
1 TGTTAATCGAGATATGATAACATATGATCCTAGAATATTAAACAACTATACC
* * *
6107409 TGTTAATCGAGATATGATAACATCTGATCCTAGAATCTTAAACAGCTATAC
1 TGTTAATCGAGATATGATAACATATGATCCTAGAATATTAAACAACTATAC
6107460 AATTCAAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.31
Consensus pattern (52 bp):
TGTTAATCGAGATATGATAACATATGATCCTAGAATATTAAACAACTATACC
Found at i:6107665 original size:59 final size:59
Alignment explanation
Indices: 6107585--6107714 Score: 163
Period size: 59 Copynumber: 2.2 Consensus size: 59
6107575 GGGTGACTAT
* *
6107585 TTTGTAACTTTTAATAGTTGAAAGACTCAACAAAGCAACACCCTATAGTCAA-GGACCA
1 TTTGTAACTTTTAATAATTGAAAGACTCAACAAAGCAACACCATATAGTCAAGGGACCA
* * * ***
6107643 TTATGTAATTTTTAATAATTGAAGGACTTAACAAAGCATTGCCATATAGTCAAGGGACCA
1 TT-TGTAACTTTTAATAATTGAAAGACTCAACAAAGCAACACCATATAGTCAAGGGACCA
6107703 TTTGTATACTTT
1 TTTGTA-ACTTT
6107715 ACCCTTCAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
58 2 0.03
59 46 0.77
60 12 0.20
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (59 bp):
TTTGTAACTTTTAATAATTGAAAGACTCAACAAAGCAACACCATATAGTCAAGGGACCA
Found at i:6116131 original size:2 final size:2
Alignment explanation
Indices: 6116124--6116166 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
6116114 AATTAGGGAA
*
6116124 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6116166 A
1 A
6116167 ATGATTGGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6117580 original size:24 final size:26
Alignment explanation
Indices: 6117538--6117585 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
6117528 TTAATGATCT
6117538 AATTTGATACTCCCTAAATTTTTATA
1 AATTTGATACTCCCTAAATTTTTATA
*
6117564 AATTT-ATAC-CCTTAAATTTTTA
1 AATTTGATACTCCCTAAATTTTTA
6117586 ATATAACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (26 bp):
AATTTGATACTCCCTAAATTTTTATA
Found at i:6118600 original size:201 final size:203
Alignment explanation
Indices: 6118319--6118712 Score: 546
Period size: 201 Copynumber: 2.0 Consensus size: 203
6118309 GTAGATGTAA
** * *
6118319 AGTATTGCAACTTGTCTTTAATTTGAGCCTAATATCGACACATTCGAGACATTCTAAGTGGTGTA
1 AGTATTGCAACTTGTCTTTAAGATGAGCCTAATATCGACACATTCGAGACATTCTAAGCGGGGTA
* * *
6118384 AAAATCGTCCTGAAAATGGATCGAAAGCATGATTTTT-TTCATCAAGTGTAAGGCAAAATGACTT
66 AAAAACGTCCTGAAAATGGATAGAAAGAATGATTTTTGTTCATCAAGTGTAAGGCAAAATGACTT
* *
6118448 CATAGGCATGTTCGAGTCTTATTT-CAGGGTTGTAAATAGCATA-TTATTCATAATTTATAAGCA
131 CATAGGAATGTTCGAGTCTTATTTCCA-GGTTGTAAATAGCAGATTTATTCATAATTTATAAGCA
6118511 TAGAAGCCT
195 TAGAAGCCT
* *
6118520 AGTATTGCAACTTTTCTTTAAGATGAGCCTAATATCGCCACATT-GAAGACATTCTAAGCGGGGT
1 AGTATTGCAACTTGTCTTTAAGATGAGCCTAATATCGACACATTCG-AGACATTCTAAGCGGGGT
* * * *
6118584 AAAAAACG-CTCTGAAAATGGTTAGGAAGAATGATTTTTGTTCATCAAGTTTAAGGCAAAATGGC
65 AAAAAACGTC-CTGAAAATGGATAGAAAGAATGATTTTTGTTCATCAAGTGTAAGGCAAAATGAC
* * * * *
6118648 TTCATATGAATGTTCTAGTGTTATTTCCAGGTTGTAAATAGCAGATTTTTTCGTAATTTATAAGC
129 TTCATAGGAATGTTCGAGTCTTATTTCCAGGTTGTAAATAGCAGATTTATTCATAATTTATAAGC
6118713 TTAATATCGT
Statistics
Matches: 168, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
200 2 0.01
201 87 0.52
202 60 0.36
203 19 0.11
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.34
Consensus pattern (203 bp):
AGTATTGCAACTTGTCTTTAAGATGAGCCTAATATCGACACATTCGAGACATTCTAAGCGGGGTA
AAAAACGTCCTGAAAATGGATAGAAAGAATGATTTTTGTTCATCAAGTGTAAGGCAAAATGACTT
CATAGGAATGTTCGAGTCTTATTTCCAGGTTGTAAATAGCAGATTTATTCATAATTTATAAGCAT
AGAAGCCT
Found at i:6118791 original size:33 final size:34
Alignment explanation
Indices: 6118714--6118792 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 34
6118704 TTTATAAGCT
* * **
6118714 TAATATCGTTATAACTTTTCTTTAAGTTTAGAGG
1 TAATATCATTACAACTTTTCTTTAAGTTTAGACC
*
6118748 T-CTAGT-ATTACAACTTTTCTTTAAGTTTAG-CC
1 TAATA-TCATTACAACTTTTCTTTAAGTTTAGACC
6118780 TAATATCATTACA
1 TAATATCATTACA
6118793 TTTGAGACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
32 2 0.06
33 32 0.89
34 2 0.06
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (34 bp):
TAATATCATTACAACTTTTCTTTAAGTTTAGACC
Found at i:6126701 original size:19 final size:19
Alignment explanation
Indices: 6126677--6126715 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6126667 TCGAATGCAT
6126677 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
6126696 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
6126715 T
1 T
6126716 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:6126732 original size:65 final size:64
Alignment explanation
Indices: 6126614--6126822 Score: 203
Period size: 65 Copynumber: 3.2 Consensus size: 64
6126604 TTATCAAAGG
* *
6126614 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAACATCGAATGC
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAATAT-TTTCAAACATCGAATGC
*
6126675 ATTC
61 ATTT
6126679 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTT
* * * *** * **
6126744 GATGCATCGATGTACAAGCCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATTT
*
6126808 CATGCATCGATGCAC
1 CATGCACCGATGCAC
6126823 ACTTGGTGCA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
63 7 0.06
64 51 0.41
65 64 0.52
66 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTT
Found at i:6126840 original size:64 final size:65
Alignment explanation
Indices: 6126663--6126825 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 65
6126653 GAATTAATTG
* * * *
6126663 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* * ** **
6126728 AACATCGAATGCATTTGATGCATCGATGTACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
6126791 A
65 A
6126792 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
6126826 TGGTGCACCG
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 35 0.42
65 48 0.58
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:6128381 original size:116 final size:117
Alignment explanation
Indices: 6128172--6128384 Score: 263
Period size: 116 Copynumber: 1.8 Consensus size: 117
6128162 ATCTTATTTT
*
6128172 GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGGAGTTAGAGCTTTCAAAAA
1 GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGAAGTTAGAGCTTTCAAAAA
*
6128237 TAAAATCGGAAAACTTTGAAAAAGAAATTTTCAAATTAAACAACTTCTTATA
66 TAAAATCGGAAAACTTGGAAAAAGAAATTTTCAAATTAAACAACTTCTTATA
* * * * *
6128289 GAAA-CTAAAATGGATTTTGAAAA-ACAAAATGAAAT-TTCGAAGAAGAATTTAGAGCTTTCAAA
1 GAAAGCTAAAAAGGACTTGGAAAATA-AAAATGAAATGTT-GAAAAAGAAGTTAGAGCTTTCAAA
* ** * *
6128351 GATAAAATTTG-AAAGTATGGAAAAGGAAATTTTC
64 AATAAAATCGGAAAACT-TGGAAAAAGAAATTTTC
6128385 GACTTAGAAG
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
115 7 0.09
116 70 0.86
117 4 0.05
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (117 bp):
GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGAAGTTAGAGCTTTCAAAAA
TAAAATCGGAAAACTTGGAAAAAGAAATTTTCAAATTAAACAACTTCTTATA
Found at i:6128954 original size:20 final size:21
Alignment explanation
Indices: 6128921--6128960 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6128911 TTTTAACGTA
6128921 ATTGATATTCATTTT-AAACC
1 ATTGATATTCATTTTCAAACC
6128941 ATTGATA-TCAATTTTCAAAC
1 ATTGATATTC-ATTTTCAAAC
6128961 AATTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.67
21 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATTCATTTTCAAACC
Found at i:6128968 original size:22 final size:20
Alignment explanation
Indices: 6128920--6128964 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
6128910 ATTTTAACGT
6128920 AATTGATATTCATTTTAAAC
1 AATTGATATTCATTTTAAAC
*
6128940 CATTGATA-TCAATTTTCAAAC
1 AATTGATATTC-ATTTT-AAAC
6128961 AATT
1 AATT
6128965 TGATTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (20 bp):
AATTGATATTCATTTTAAAC
Found at i:6133892 original size:19 final size:19
Alignment explanation
Indices: 6133868--6133906 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6133858 TCGAATGCAT
6133868 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
6133887 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
6133906 T
1 T
6133907 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Done.