Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold29
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: 5511024
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 57772 characters in sequence are not A, C, G, or T
File 4 of 34
Found at i:618409 original size:170 final size:171
Alignment explanation
Indices: 618121--618514 Score: 709
Period size: 170 Copynumber: 2.3 Consensus size: 171
618111 TTTTAGAGAT
*
618121 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
618186 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
618251 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
*
618292 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
*
618356 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
618421 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
618462 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
618515 GTGCCAATGT
Statistics
Matches: 214, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
170 123 0.57
171 51 0.24
173 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:618571 original size:49 final size:49
Alignment explanation
Indices: 618429--618796 Score: 454
Period size: 49 Copynumber: 7.6 Consensus size: 49
618419 GATGTCAACG
* *
618429 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
618481 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
618524 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * *
618573 TGCTGATTCAAGGCCAGCAATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
*
618616 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
618665 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
618714 TGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG-A--TGCCAATA
* *
618766 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
618797 GAGGGGTTGC
Statistics
Matches: 273, Mismatches: 28, Indels: 30
0.82 0.08 0.09
Matches are distributed among these distances:
43 70 0.26
44 5 0.02
45 2 0.01
46 3 0.01
47 1 0.00
48 5 0.02
49 122 0.45
50 1 0.00
51 2 0.01
52 62 0.23
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:618602 original size:92 final size:93
Alignment explanation
Indices: 618428--618796 Score: 562
Period size: 92 Copynumber: 3.9 Consensus size: 93
618418 GGATGTCAAC
* * *
618428 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA-GTGCCAATATGCTGATTCAAG
618493 GCCAGCTATATTGGACTTAAAGGTGCCAAT
64 GCCAGCTATATTGGACTTAAAGGTGCCAAT
*
618523 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA-TGCCAATATGCTGATTCAAGGC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
*
618587 CAGCAATATTGGACTTAAAGGTGCCAAT
66 CAGCTATATTGGACTTAAAGGTGCCAAT
618615 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA-TGCCAATATGCTGATTCAAGGC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
*
618679 CAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
66 CAGCTATATTGGACTT----A--AAGGTGCCAAT
*
618713 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG-A-GTGCCAATATGCTGATTCAAG
*
618778 GCCAGCTATATTGGGCTTA
64 GCCAGCTATATTGGACTTA
618797 GAGGGGTTGC
Statistics
Matches: 257, Mismatches: 8, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
92 127 0.49
94 4 0.02
95 36 0.14
96 1 0.00
97 1 0.00
98 51 0.20
99 1 0.00
101 36 0.14
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (93 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
CAGCTATATTGGACTTAAAGGTGCCAAT
Found at i:618865 original size:31 final size:31
Alignment explanation
Indices: 618789--618928 Score: 171
Period size: 34 Copynumber: 4.5 Consensus size: 31
618779 CCAGCTATAT
* *
618789 TGGGCTTAGA-GGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
618819 TGGGCTTT---GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
618847 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
* *
618878 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG--GGGGTTGCCACCAACTTGTG
*
618912 TGGGCTTTAGAGAGGGT
1 TGGGCTTT-GAGGGGGT
618929 GAAAGATGTC
Statistics
Matches: 98, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
28 27 0.28
30 7 0.07
31 28 0.29
32 6 0.06
34 30 0.31
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (31 bp):
TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
Found at i:618909 original size:34 final size:32
Alignment explanation
Indices: 618789--618927 Score: 175
Period size: 31 Copynumber: 4.5 Consensus size: 32
618779 CCAGCTATAT
*
618789 TGGGC-TT-AGAGGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
618819 TGGGCTTT----GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
618847 TGGGCTTTGAG-GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
* *
618878 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG-AGGGGTTGCCACCAACTTGTG
618912 TGGGCTTTAGAGAGGG
1 TGGGCTTT-GAGAGGG
618928 TGAAAGATGT
Statistics
Matches: 99, Mismatches: 3, Indels: 11
0.88 0.03 0.10
Matches are distributed among these distances:
28 27 0.27
30 5 0.05
31 30 0.30
32 3 0.03
33 4 0.04
34 30 0.30
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (32 bp):
TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
Found at i:618980 original size:33 final size:33
Alignment explanation
Indices: 618930--619184 Score: 274
Period size: 33 Copynumber: 7.7 Consensus size: 33
618920 AGAGAGGGTG
* * *
618930 AAAGA-TGTCACGAAGTTGTGGACTTAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
618962 ACAAG-GTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAA
1 A-AAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGG---A
*
619000 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG-A
*
619034 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
619067 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
619100 AAAGAGTGCCACGGAGTCGTGGACTTAAAA-G-
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
619131 ---G-GTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
619160 AAAGAAGGTGCCACGGAGTTGTGGG
1 AAAG-A-GTGCCACGGAGTTGTGGG
619185 AGTGCCACGG
Statistics
Matches: 191, Mismatches: 16, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
27 22 0.12
28 2 0.01
32 3 0.02
33 74 0.39
34 36 0.19
35 24 0.13
36 5 0.03
37 5 0.03
38 20 0.10
ACGTcount: A:0.33, C:0.13, G:0.36, T:0.19
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
Found at i:619137 original size:27 final size:27
Alignment explanation
Indices: 619099--619158 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
619089 GCTTTAAAGG
*
619099 AAAAGAGTGCCACGGAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
* *
619126 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
*
619153 AGAAGG
1 AAAAGG
619159 AAAAGAAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.38, T:0.18
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTCGTGGACTT
Found at i:619191 original size:19 final size:19
Alignment explanation
Indices: 619167--619203 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
619157 GGAAAAGAAG
619167 GTGCCACGGAGTTGTGGGA
1 GTGCCACGGAGTTGTGGGA
619186 GTGCCACGGAGTTGTGGG
1 GTGCCACGGAGTTGTGGG
619204 CTTTAAAAAG
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:0.14, C:0.16, G:0.49, T:0.22
Consensus pattern (19 bp):
GTGCCACGGAGTTGTGGGA
Found at i:619225 original size:54 final size:54
Alignment explanation
Indices: 619132--619238 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
619122 ACTTAAAAGG
* * *
619132 GTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAAGGTGCCACGGAGTTGTGGGA
1 GTGCCACGGAGTTGTGGGCTTAAAAAGAAAAGAAGGTGCCACAGAGTTGTGGGA
619186 GTGCCACGGAGTTGTGGGCTTTAAAAAG-AAA-AAGTGTGCCACAGAGTTGTGGG
1 GTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAGAAG-GTGCCACAGAGTTGTGGG
619239 CTTTGAAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
53 3 0.06
54 39 0.81
55 6 0.12
ACGTcount: A:0.27, C:0.13, G:0.39, T:0.21
Consensus pattern (54 bp):
GTGCCACGGAGTTGTGGGCTTAAAAAGAAAAGAAGGTGCCACAGAGTTGTGGGA
Found at i:619233 original size:35 final size:35
Alignment explanation
Indices: 619186--619387 Score: 278
Period size: 35 Copynumber: 5.6 Consensus size: 35
619176 AGTTGTGGGA
*
619186 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGT
1 GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGT
* *
619221 GTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTT-AAAA-AG-AAAAAGT
* * *
619259 GTGCCATAGAATTGTGGGCTTTGAAAAGAAAAAGT
1 GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGT
* *
619294 GTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTT-AAAA-AGAAAAAGT
*
619331 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGT
1 GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGT
619366 GTGCCACAGAGTTGTGGGCTTT
1 GTGCCACAGAGTTGTGGGCTTT
619388 GAAGAAAAAA
Statistics
Matches: 145, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
35 75 0.52
36 12 0.08
37 32 0.22
38 26 0.18
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.23
Consensus pattern (35 bp):
GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGT
Found at i:619369 original size:72 final size:73
Alignment explanation
Indices: 619184--619390 Score: 371
Period size: 72 Copynumber: 2.8 Consensus size: 73
619174 GGAGTTGTGG
619184 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
619249 GGAAAAAA
66 GGAAAAAA
** * *
619257 GAGTGCCATAGAATTGTGGGCTTTGAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
619322 GG-AAAAA
66 GGAAAAAA
619329 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAA
1 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAA
619391 GAAAAAATGC
Statistics
Matches: 126, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 63 0.50
73 63 0.50
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.22
Consensus pattern (73 bp):
GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
GGAAAAAA
Found at i:619435 original size:30 final size:31
Alignment explanation
Indices: 619367--619509 Score: 200
Period size: 30 Copynumber: 4.6 Consensus size: 31
619357 AGAAAAAGTG
* * *
619367 TGCCACAGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
619398 TGCCACTGAGTCGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
619429 TG-CACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
* *
619458 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAA-GAAAAAA
619490 TGCCACTGAGTCGTGGACTT
1 TGCCACTGAGTCGTGGACTT
619510 AAAAAGAAAA
Statistics
Matches: 102, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
29 9 0.09
30 36 0.35
31 32 0.31
32 25 0.25
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
Found at i:619498 original size:32 final size:31
Alignment explanation
Indices: 619325--619519 Score: 171
Period size: 30 Copynumber: 6.1 Consensus size: 31
619315 TGAAAAGGGA
* * *
619325 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTT--AAAG
* * * * *
619359 AAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAG
1 -AAAAG-ATGCCACTGAGTCGTGGACTTTAAAG
* * *
619392 AAAAAATGCCACTGAGTCGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTAAAG
* *
619423 AAAAAATG-CACTGAGTCGTGGACTTT-GAG
1 AAAAGATGCCACTGAGTCGTGGACTTTAAAG
619452 ACAAA-ATGCCACTGAGTCGTGGACTTTAAAGG
1 A-AAAGATGCCACTGAGTCGTGGACTTTAAA-G
*
619484 AAAAGATGCCACTGAGTCGTGGACTTAAAAAG
1 AAAAGATGCCACTGAGTCGTGGACTT-TAAAG
619516 AAAA
1 AAAA
619520 TGTTCAACTA
Statistics
Matches: 142, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
29 6 0.04
30 38 0.27
31 35 0.25
32 32 0.23
33 6 0.04
35 25 0.18
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTAAAG
Found at i:627752 original size:52 final size:53
Alignment explanation
Indices: 627671--627792 Score: 219
Period size: 52 Copynumber: 2.3 Consensus size: 53
627661 GAAAAGTTAT
*
627671 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC-AAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTTGC
*
627723 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTTGC
627776 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
627793 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 42 0.63
53 25 0.37
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (53 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAATTTGC
Found at i:627805 original size:53 final size:51
Alignment explanation
Indices: 627671--627812 Score: 205
Period size: 52 Copynumber: 2.7 Consensus size: 51
627661 GAAAAGTTAT
627671 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
627723 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC-AAATTTGC
*
627776 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
627813 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
52 44 0.54
53 38 0.46
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:627819 original size:13 final size:13
Alignment explanation
Indices: 627801--627825 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
627791 CAAAGATCAG
627801 TGTATCGATACAA
1 TGTATCGATACAA
627814 TGTATCGATACA
1 TGTATCGATACA
627826 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:627909 original size:13 final size:13
Alignment explanation
Indices: 627891--627915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
627881 CAAAAAAAAA
627891 TGTATCGATACAT
1 TGTATCGATACAT
627904 TGTATCGATACA
1 TGTATCGATACA
627916 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:628015 original size:21 final size:21
Alignment explanation
Indices: 627974--628015 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
627964 GTTGGGACCT
*
627974 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
627995 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
628016 AAATGTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:628954 original size:49 final size:49
Alignment explanation
Indices: 628808--628965 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
628798 AAAAGTGATA
* * * * *
628808 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
628859 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
628912 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
628960 ATGATG
1 AAGATG
628966 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
48 8 0.09
49 37 0.44
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:629025 original size:170 final size:171
Alignment explanation
Indices: 628737--629130 Score: 709
Period size: 170 Copynumber: 2.3 Consensus size: 171
628727 TTTTAGAGAT
*
628737 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
628802 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
628867 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
*
628908 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
*
628972 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
629037 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
629078 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
629131 GTGCCAATGT
Statistics
Matches: 214, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
170 123 0.57
171 51 0.24
173 40 0.19
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:629187 original size:49 final size:49
Alignment explanation
Indices: 629045--629412 Score: 454
Period size: 49 Copynumber: 7.6 Consensus size: 49
629035 GATGTCAACG
* *
629045 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
629097 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
629140 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * *
629189 TGCTGATTCAAGGCCAGCAATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
*
629232 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
629281 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
629330 TGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG-A--TGCCAATA
* *
629382 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
629413 GAGGGGTTGC
Statistics
Matches: 273, Mismatches: 28, Indels: 30
0.82 0.08 0.09
Matches are distributed among these distances:
43 70 0.26
44 5 0.02
45 2 0.01
46 3 0.01
47 1 0.00
48 5 0.02
49 122 0.45
50 1 0.00
51 2 0.01
52 62 0.23
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:629218 original size:92 final size:93
Alignment explanation
Indices: 629044--629412 Score: 562
Period size: 92 Copynumber: 3.9 Consensus size: 93
629034 GGATGTCAAC
* * *
629044 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA-GTGCCAATATGCTGATTCAAG
629109 GCCAGCTATATTGGACTTAAAGGTGCCAAT
64 GCCAGCTATATTGGACTTAAAGGTGCCAAT
*
629139 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA-TGCCAATATGCTGATTCAAGGC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
*
629203 CAGCAATATTGGACTTAAAGGTGCCAAT
66 CAGCTATATTGGACTTAAAGGTGCCAAT
629231 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA-TGCCAATATGCTGATTCAAGGC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
*
629295 CAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
66 CAGCTATATTGGACTT----A--AAGGTGCCAAT
*
629329 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG-A-GTGCCAATATGCTGATTCAAG
*
629394 GCCAGCTATATTGGGCTTA
64 GCCAGCTATATTGGACTTA
629413 GAGGGGTTGC
Statistics
Matches: 257, Mismatches: 8, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
92 127 0.49
94 4 0.02
95 36 0.14
96 1 0.00
97 1 0.00
98 51 0.20
99 1 0.00
101 36 0.14
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (93 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
CAGCTATATTGGACTTAAAGGTGCCAAT
Found at i:629481 original size:31 final size:31
Alignment explanation
Indices: 629405--629544 Score: 171
Period size: 34 Copynumber: 4.5 Consensus size: 31
629395 CCAGCTATAT
* *
629405 TGGGCTTAGA-GGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
629435 TGGGCTTT---GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
629463 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
* *
629494 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG--GGGGTTGCCACCAACTTGTG
*
629528 TGGGCTTTAGAGAGGGT
1 TGGGCTTT-GAGGGGGT
629545 GAAAGATGTC
Statistics
Matches: 98, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
28 27 0.28
30 7 0.07
31 28 0.29
32 6 0.06
34 30 0.31
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (31 bp):
TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
Found at i:629525 original size:34 final size:32
Alignment explanation
Indices: 629405--629543 Score: 175
Period size: 31 Copynumber: 4.5 Consensus size: 32
629395 CCAGCTATAT
*
629405 TGGGC-TT-AGAGGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
629435 TGGGCTTT----GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
629463 TGGGCTTTGAG-GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
* *
629494 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG-AGGGGTTGCCACCAACTTGTG
629528 TGGGCTTTAGAGAGGG
1 TGGGCTTT-GAGAGGG
629544 TGAAAGATGT
Statistics
Matches: 99, Mismatches: 3, Indels: 11
0.88 0.03 0.10
Matches are distributed among these distances:
28 27 0.27
30 5 0.05
31 30 0.30
32 3 0.03
33 4 0.04
34 30 0.30
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (32 bp):
TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
Found at i:629596 original size:33 final size:33
Alignment explanation
Indices: 629546--629800 Score: 274
Period size: 33 Copynumber: 7.7 Consensus size: 33
629536 AGAGAGGGTG
* * *
629546 AAAGA-TGTCACGAAGTTGTGGACTTAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
629578 ACAAG-GTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAA
1 A-AAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGG---A
*
629616 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG-A
*
629650 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
629683 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
629716 AAAGAGTGCCACGGAGTCGTGGACTTAAAA-G-
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
629747 ---G-GTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
629776 AAAGAAGGTGCCACGGAGTTGTGGG
1 AAAG-A-GTGCCACGGAGTTGTGGG
629801 AGTGCCACGG
Statistics
Matches: 191, Mismatches: 16, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
27 22 0.12
28 2 0.01
32 3 0.02
33 74 0.39
34 36 0.19
35 24 0.13
36 5 0.03
37 5 0.03
38 20 0.10
ACGTcount: A:0.33, C:0.13, G:0.36, T:0.19
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
Found at i:629753 original size:27 final size:27
Alignment explanation
Indices: 629715--629774 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
629705 GCTTTAAAGG
*
629715 AAAAGAGTGCCACGGAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
* *
629742 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
*
629769 AGAAGG
1 AAAAGG
629775 AAAAGAAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.38, T:0.18
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTCGTGGACTT
Found at i:629807 original size:19 final size:19
Alignment explanation
Indices: 629783--629819 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
629773 GGAAAAGAAG
629783 GTGCCACGGAGTTGTGGGA
1 GTGCCACGGAGTTGTGGGA
629802 GTGCCACGGAGTTGTGGG
1 GTGCCACGGAGTTGTGGG
629820 CTTTAAAAAG
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:0.14, C:0.16, G:0.49, T:0.22
Consensus pattern (19 bp):
GTGCCACGGAGTTGTGGGA
Found at i:629841 original size:54 final size:54
Alignment explanation
Indices: 629748--629854 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
629738 ACTTAAAAGG
* * *
629748 GTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAAGGTGCCACGGAGTTGTGGGA
1 GTGCCACGGAGTTGTGGGCTTAAAAAGAAAAGAAGGTGCCACAGAGTTGTGGGA
629802 GTGCCACGGAGTTGTGGGCTTTAAAAAG-AAA-AAGTGTGCCACAGAGTTGTGGG
1 GTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAGAAG-GTGCCACAGAGTTGTGGG
629855 CTTTGAAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
53 3 0.06
54 39 0.81
55 6 0.12
ACGTcount: A:0.27, C:0.13, G:0.39, T:0.21
Consensus pattern (54 bp):
GTGCCACGGAGTTGTGGGCTTAAAAAGAAAAGAAGGTGCCACAGAGTTGTGGGA
Found at i:629849 original size:35 final size:35
Alignment explanation
Indices: 629802--630003 Score: 278
Period size: 35 Copynumber: 5.6 Consensus size: 35
629792 AGTTGTGGGA
*
629802 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGT
1 GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGT
* *
629837 GTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTT-AAAA-AG-AAAAAGT
* * *
629875 GTGCCATAGAATTGTGGGCTTTGAAAAGAAAAAGT
1 GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGT
* *
629910 GTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTT-AAAA-AGAAAAAGT
*
629947 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGT
1 GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGT
629982 GTGCCACAGAGTTGTGGGCTTT
1 GTGCCACAGAGTTGTGGGCTTT
630004 GAAGAAAAAA
Statistics
Matches: 145, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
35 75 0.52
36 12 0.08
37 32 0.22
38 26 0.18
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.23
Consensus pattern (35 bp):
GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGT
Found at i:629985 original size:72 final size:73
Alignment explanation
Indices: 629800--630006 Score: 371
Period size: 72 Copynumber: 2.8 Consensus size: 73
629790 GGAGTTGTGG
629800 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
629865 GGAAAAAA
66 GGAAAAAA
** * *
629873 GAGTGCCATAGAATTGTGGGCTTTGAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
629938 GG-AAAAA
66 GGAAAAAA
629945 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAA
1 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAA
630007 GAAAAAATGC
Statistics
Matches: 126, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 63 0.50
73 63 0.50
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.22
Consensus pattern (73 bp):
GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
GGAAAAAA
Found at i:630051 original size:30 final size:31
Alignment explanation
Indices: 629983--630125 Score: 200
Period size: 30 Copynumber: 4.6 Consensus size: 31
629973 AGAAAAAGTG
* * *
629983 TGCCACAGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
630014 TGCCACTGAGTCGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
630045 TG-CACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
* *
630074 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAA-GAAAAAA
630106 TGCCACTGAGTCGTGGACTT
1 TGCCACTGAGTCGTGGACTT
630126 AAAAAGAAAA
Statistics
Matches: 102, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
29 9 0.09
30 36 0.35
31 32 0.31
32 25 0.25
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
Found at i:630114 original size:32 final size:31
Alignment explanation
Indices: 629941--630135 Score: 171
Period size: 30 Copynumber: 6.1 Consensus size: 31
629931 TGAAAAGGGA
* * *
629941 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTT--AAAG
* * * * *
629975 AAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAG
1 -AAAAG-ATGCCACTGAGTCGTGGACTTTAAAG
* * *
630008 AAAAAATGCCACTGAGTCGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTAAAG
* *
630039 AAAAAATG-CACTGAGTCGTGGACTTT-GAG
1 AAAAGATGCCACTGAGTCGTGGACTTTAAAG
630068 ACAAA-ATGCCACTGAGTCGTGGACTTTAAAGG
1 A-AAAGATGCCACTGAGTCGTGGACTTTAAA-G
*
630100 AAAAGATGCCACTGAGTCGTGGACTTAAAAAG
1 AAAAGATGCCACTGAGTCGTGGACTT-TAAAG
630132 AAAA
1 AAAA
630136 ATGTTCAACT
Statistics
Matches: 142, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
29 6 0.04
30 38 0.27
31 35 0.25
32 32 0.23
33 6 0.04
35 25 0.18
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTAAAG
Found at i:638365 original size:52 final size:52
Alignment explanation
Indices: 638295--638415 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
638285 GAAAATTTAT
*
638295 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
638347 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
638399 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
638416 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:638428 original size:52 final size:51
Alignment explanation
Indices: 638295--638435 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
638285 GAAAATTTAT
638295 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
638347 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
638399 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
638436 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:638442 original size:13 final size:13
Alignment explanation
Indices: 638424--638448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
638414 CAAAGATCAG
638424 TGTATCGATACAA
1 TGTATCGATACAA
638437 TGTATCGATACA
1 TGTATCGATACA
638449 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:638531 original size:13 final size:13
Alignment explanation
Indices: 638513--638537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
638503 CAAAAAAAAA
638513 TGTATCGATACAT
1 TGTATCGATACAT
638526 TGTATCGATACA
1 TGTATCGATACA
638538 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:639545 original size:171 final size:171
Alignment explanation
Indices: 639353--639747 Score: 702
Period size: 171 Copynumber: 2.3 Consensus size: 171
639343 TTTTAGAGAT
*
639353 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
639418 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
639483 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
*
639524 GATGAAGATGCCAATATGCTGATTCAAGGCCAAGCGATATTGGACTTAAA-ATGATGATGAGAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCC-AGCAATATTGGACTTAAAGATGATGATGAGAAA
*
639588 AGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
65 AGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGG
639653 ATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
130 ATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
639695 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
639748 GTGCCAATGT
Statistics
Matches: 214, Mismatches: 5, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
171 153 0.71
172 21 0.10
173 17 0.08
174 23 0.11
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:639804 original size:49 final size:49
Alignment explanation
Indices: 639662--640028 Score: 445
Period size: 49 Copynumber: 7.6 Consensus size: 49
639652 GATGTCAACG
* *
639662 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
639714 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
639757 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * *
639806 TGCTGATTCAAGGCCAGCAATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
*
639849 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
639898 TGCTGATTCAAGGCCAGCGATATTGGAC-TAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
639946 TGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG-A--TGCCAATA
* *
639998 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
640029 GAGGGGTTGC
Statistics
Matches: 271, Mismatches: 28, Indels: 32
0.82 0.08 0.10
Matches are distributed among these distances:
43 70 0.26
44 5 0.02
45 2 0.01
46 3 0.01
47 1 0.00
48 48 0.18
49 77 0.28
50 1 0.00
51 2 0.01
52 62 0.23
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:639835 original size:92 final size:93
Alignment explanation
Indices: 639661--640028 Score: 560
Period size: 92 Copynumber: 3.9 Consensus size: 93
639651 GGATGTCAAC
* * *
639661 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA-GTGCCAATATGCTGATTCAAG
639726 GCCAGCTATATTGGACTTAAAGGTGCCAAT
64 GCCAGCTATATTGGACTTAAAGGTGCCAAT
*
639756 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA-TGCCAATATGCTGATTCAAGGC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
*
639820 CAGCAATATTGGACTTAAAGGTGCCAAT
66 CAGCTATATTGGACTTAAAGGTGCCAAT
639848 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA-TGCCAATATGCTGATTCAAGGC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
* *
639912 CAGCGATATTGGACTAAAGATGAAGGTGCCAAT
66 CAGCTATATTGGACT-----TAAAGGTGCCAAT
*
639945 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG-A-GTGCCAATATGCTGATTCAAG
*
640010 GCCAGCTATATTGGGCTTA
64 GCCAGCTATATTGGACTTA
640029 GAGGGGTTGC
Statistics
Matches: 255, Mismatches: 10, Indels: 16
0.91 0.04 0.06
Matches are distributed among these distances:
92 126 0.49
94 4 0.02
95 37 0.15
97 52 0.20
98 1 0.00
100 35 0.14
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (93 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
CAGCTATATTGGACTTAAAGGTGCCAAT
Found at i:640097 original size:31 final size:31
Alignment explanation
Indices: 640021--640160 Score: 171
Period size: 34 Copynumber: 4.5 Consensus size: 31
640011 CCAGCTATAT
* *
640021 TGGGCTTAGA-GGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
640051 TGGGCTTT---GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
640079 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
* *
640110 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG--GGGGTTGCCACCAACTTGTG
*
640144 TGGGCTTTAGAGAGGGT
1 TGGGCTTT-GAGGGGGT
640161 GAAAGATGTC
Statistics
Matches: 98, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
28 27 0.28
30 7 0.07
31 28 0.29
32 6 0.06
34 30 0.31
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (31 bp):
TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
Found at i:640141 original size:34 final size:32
Alignment explanation
Indices: 640021--640159 Score: 175
Period size: 31 Copynumber: 4.5 Consensus size: 32
640011 CCAGCTATAT
*
640021 TGGGC-TT-AGAGGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
640051 TGGGCTTT----GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
640079 TGGGCTTTGAG-GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
* *
640110 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG-AGGGGTTGCCACCAACTTGTG
640144 TGGGCTTTAGAGAGGG
1 TGGGCTTT-GAGAGGG
640160 TGAAAGATGT
Statistics
Matches: 99, Mismatches: 3, Indels: 11
0.88 0.03 0.10
Matches are distributed among these distances:
28 27 0.27
30 5 0.05
31 30 0.30
32 3 0.03
33 4 0.04
34 30 0.30
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (32 bp):
TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
Found at i:640271 original size:33 final size:32
Alignment explanation
Indices: 640162--640415 Score: 252
Period size: 33 Copynumber: 7.7 Consensus size: 32
640152 AGAGAGGGTG
* * * *
640162 AAAGA-TGTCACGAAGTTGTGGACTTAAAAGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAGGA
*
640193 ACAAG-GTGCCACAGAGTTGTGGGCTTTTAAAAAGGAAAA
1 A-AAGAGTGCCACGGAGTTGTGGGC--TT--AAAGG---A
640232 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTA-AAGGA
640265 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTA-AAGGA
*
640298 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAGGA
* *
640331 AAAGAGTGCCACGGAGTCGTGGACTT-----A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAGGA
*
640358 AAAGGGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTA-AAGGA
640391 AAAGAAGGTGCCACGGAGTTGTGGG
1 AAAG-A-GTGCCACGGAGTTGTGGG
640416 AGTGCCACGG
Statistics
Matches: 189, Mismatches: 14, Indels: 36
0.79 0.06 0.15
Matches are distributed among these distances:
27 24 0.13
31 1 0.01
32 19 0.10
33 88 0.47
34 5 0.03
35 19 0.10
36 8 0.04
37 2 0.01
38 3 0.02
39 20 0.11
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (32 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAGGA
Found at i:640368 original size:27 final size:27
Alignment explanation
Indices: 640330--640389 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
640320 GCTTTAAAGG
*
640330 AAAAGAGTGCCACGGAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
* *
640357 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
*
640384 AGAAGG
1 AAAAGG
640390 AAAAGAAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.38, T:0.18
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTCGTGGACTT
Found at i:640422 original size:19 final size:19
Alignment explanation
Indices: 640398--640434 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
640388 GGAAAAGAAG
640398 GTGCCACGGAGTTGTGGGA
1 GTGCCACGGAGTTGTGGGA
640417 GTGCCACGGAGTTGTGGG
1 GTGCCACGGAGTTGTGGG
640435 CTTTAAAAAG
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:0.14, C:0.16, G:0.49, T:0.22
Consensus pattern (19 bp):
GTGCCACGGAGTTGTGGGA
Found at i:640456 original size:54 final size:54
Alignment explanation
Indices: 640363--640469 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
640353 ACTTAAAAGG
* * *
640363 GTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAAGGTGCCACGGAGTTGTGGGA
1 GTGCCACGGAGTTGTGGGCTTAAAAAGAAAAGAAGGTGCCACAGAGTTGTGGGA
640417 GTGCCACGGAGTTGTGGGCTTTAAAAAG-AAA-AAGTGTGCCACAGAGTTGTGGG
1 GTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAGAAG-GTGCCACAGAGTTGTGGG
640470 CTTTGAAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
53 3 0.06
54 39 0.81
55 6 0.12
ACGTcount: A:0.27, C:0.13, G:0.39, T:0.21
Consensus pattern (54 bp):
GTGCCACGGAGTTGTGGGCTTAAAAAGAAAAGAAGGTGCCACAGAGTTGTGGGA
Found at i:640504 original size:37 final size:36
Alignment explanation
Indices: 640417--640651 Score: 297
Period size: 35 Copynumber: 6.7 Consensus size: 36
640407 AGTTGTGGGA
*
640417 GTGCCACGGAGTTGTGGGCTTT-AAAAAGAAAAAGT
1 GTGCCACAGAGTTGTGGGCTTTGAAAAAGAAAAAGT
* *
640452 GTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTTGAAAAAG-AAAAAGT
* *
640489 GTGCCATAGAATTGTGGGCTTTG-AAAAGAAAAAGT
1 GTGCCACAGAGTTGTGGGCTTTGAAAAAGAAAAAGT
* *
640524 GTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTTGAAAA-AGAAAAAGT
*
640561 GTGCCACGGAGTTGTGGGCTTT-AAAAAGAAAAAGT
1 GTGCCACAGAGTTGTGGGCTTTGAAAAAGAAAAAGT
640596 GTGCCACAGAGTTGTGGGCTTTG---AAGAAAAA--
1 GTGCCACAGAGTTGTGGGCTTTGAAAAAGAAAAAGT
* * *
640627 ATGCCACTGAGTCGTGGGCTTTGAA
1 GTGCCACAGAGTTGTGGGCTTTGAA
640652 GAAAAAATGC
Statistics
Matches: 175, Mismatches: 18, Indels: 16
0.84 0.09 0.08
Matches are distributed among these distances:
31 20 0.11
33 8 0.05
35 76 0.43
36 16 0.09
37 55 0.31
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.23
Consensus pattern (36 bp):
GTGCCACAGAGTTGTGGGCTTTGAAAAAGAAAAAGT
Found at i:640532 original size:72 final size:72
Alignment explanation
Indices: 640415--640620 Score: 349
Period size: 72 Copynumber: 2.9 Consensus size: 72
640405 GGAGTTGTGG
* *
640415 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 GAGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
640480 GAAAAAA
66 GAAAAAA
* *
640487 GAGTGCCATAGAATTGTGGGCTTTGAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 GAGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
*
640552 GGAAAAA
66 GAAAAAA
* *
640559 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAA
1 GAGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAA
640621 GAAAAAATGC
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 125 1.00
ACGTcount: A:0.34, C:0.11, G:0.33, T:0.22
Consensus pattern (72 bp):
GAGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
GAAAAAA
Found at i:640665 original size:30 final size:31
Alignment explanation
Indices: 640597--640739 Score: 193
Period size: 31 Copynumber: 4.6 Consensus size: 31
640587 AGAAAAAGTG
* * *
640597 TGCCACAGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
640628 TGCCACTGAGTCGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
640659 TG-CACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
640688 TGCCACTGAGTCGTGGAC-TTAAAGGAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAA-GAAAAA-A
640720 TGCCACTGAGTCGTGGACTT
1 TGCCACTGAGTCGTGGACTT
640740 AAAAAGAAAA
Statistics
Matches: 101, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
29 11 0.11
30 34 0.34
31 36 0.36
32 19 0.19
33 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
Found at i:640691 original size:60 final size:63
Alignment explanation
Indices: 640588--640739 Score: 195
Period size: 60 Copynumber: 2.4 Consensus size: 63
640578 GCTTTAAAAA
* * * * * *
640588 GAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAGAAAAAATGCCACTGAGTCGTGGGCTTTGAA-
1 GAAAAAG-ATGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGAC-TTAAAG
*
640652 GAAAAA-ATG-CACTGAGTCGTGGACTTTG-AGACAAAATGCCACTGAGTCGTGGACTTAAAG
1 GAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTAAAG
640712 GAAAAAGATGCCACTGAGTCGTGGACTT
1 GAAAAAGATGCCACTGAGTCGTGGACTT
640740 AAAAAGAAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
59 4 0.05
60 30 0.38
61 19 0.24
62 19 0.24
64 6 0.08
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (63 bp):
GAAAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTAAAG
Found at i:641673 original size:1 final size:1
Alignment explanation
Indices: 641662--641694 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
641652 TGAAAAGGGG
*
641662 TTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
641695 AGGTGAGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:649084 original size:52 final size:46
Alignment explanation
Indices: 648957--649091 Score: 171
Period size: 52 Copynumber: 2.8 Consensus size: 46
648947 TGAAAAGTTA
648957 CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCATT
1 CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCATT
* *
649003 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTT
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC--A-TT
**
649053 GCCTGCATGTATCGATACAAAAATCAGTGTATCGATACA
1 --CTGCATGTATCGATACATTAAT-AGTGTATCGATACA
649092 ATGTATCGAT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
46 17 0.22
47 24 0.32
49 1 0.01
50 2 0.03
51 2 0.03
52 30 0.39
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (46 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCATT
Found at i:649098 original size:13 final size:13
Alignment explanation
Indices: 649080--649104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
649070 CAAAAATCAG
649080 TGTATCGATACAA
1 TGTATCGATACAA
649093 TGTATCGATACA
1 TGTATCGATACA
649105 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:649188 original size:13 final size:13
Alignment explanation
Indices: 649170--649194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
649160 TACAAAAAAA
649170 TGTATCGATACAT
1 TGTATCGATACAT
649183 TGTATCGATACA
1 TGTATCGATACA
649195 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:650351 original size:168 final size:171
Alignment explanation
Indices: 650021--650412 Score: 668
Period size: 171 Copynumber: 2.3 Consensus size: 171
650011 TTTTAGAGAT
*
650021 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCATATTGGACTTAAAGATGATGATGAGAAAAG
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCATATTGGACTTAAAGATGATGATGAGAAAAG
650086 TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGGAGAAAAAGGA
66 TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGGAGAAAAAGGA
650151 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
650192 GATGAAGATGCCAATATGCTGATTCAAGG-CAGCGATATTGGAACTTAAA-ATGATGATGAGAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGC-ATATTGG-ACTTAAAGATGATGATGAGAAA
*
650255 AGTGATAAAGATGCCAATATGTTGA-TCATGGCCAACGATA-TGGGCTTAAAGAT-GAGAAAAAG
64 AGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGGAGAAAAAG
650317 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
129 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
*
650360 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGC-ATATTGGACTTAAAG
650413 GTGCCAATGT
Statistics
Matches: 210, Mismatches: 4, Indels: 13
0.93 0.02 0.06
Matches are distributed among these distances:
168 55 0.26
169 16 0.08
170 19 0.09
171 102 0.49
172 18 0.09
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCATATTGGACTTAAAGATGATGATGAGAAAAG
TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:650469 original size:49 final size:49
Alignment explanation
Indices: 650317--650693 Score: 397
Period size: 49 Copynumber: 7.8 Consensus size: 49
650307 TGAGAAAAAG
* * *
650317 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAA
* * *
650367 AATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--
1 GA--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
*
650413 G-TGCCAATGTGCTGATGCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
650461 GATGCCAAT-AGCTGATTCAAGGCCAGCAATATTGGACTT--A-A-G--
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
*
650503 G-TGCCAATTGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GATGCCAA-TGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
650552 GA-GCCAAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAA
1 GATGCC-AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
650601 GGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
* * *
650650 GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 G-A--TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
650694 GAGGGGTTGC
Statistics
Matches: 271, Mismatches: 34, Indels: 42
0.78 0.10 0.12
Matches are distributed among these distances:
41 6 0.02
42 2 0.01
43 61 0.23
44 3 0.01
45 3 0.01
46 3 0.01
47 1 0.00
48 28 0.10
49 88 0.32
50 7 0.03
51 2 0.01
52 67 0.25
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
Found at i:650516 original size:91 final size:93
Alignment explanation
Indices: 650326--650693 Score: 514
Period size: 91 Copynumber: 3.9 Consensus size: 93
650316 GGATGTCAAC
* * *
650326 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA-GTGCCAATATGCTGATTCAAG
650391 GCCAGCTATATTGGACTTAAAGGTGCCAAT
64 GCCAGCTATATTGGACTTAAAGGTGCCAAT
650421 GTGCTGA-TGCAAGGCCAGCTACATTGGACTTAAAGATGAAGA-TGCCAATA-GCTGATTCAAGG
1 GTGCTGAGT-CAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGG
*
650483 CCAGCAATATTGGACTT-AAGGTGCCAATT
65 CCAGCTATATTGGACTTAAAGGTGCCAA-T
650512 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA--GCCAAATATGCTGATTCAAGG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCC-AATATGCTGATTCAAGG
*
650575 CCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
65 CCAGCTATATTGGACTT----A--AAGGTGCCAAT
*
650610 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG-A-GTGCCAATATGCTGATTCAAG
*
650675 GCCAGCTATATTGGGCTTA
64 GCCAGCTATATTGGACTTA
650694 GAGGGGTTGC
Statistics
Matches: 250, Mismatches: 7, Indels: 30
0.87 0.02 0.10
Matches are distributed among these distances:
90 13 0.05
91 73 0.29
92 37 0.15
94 5 0.02
95 34 0.14
97 1 0.00
98 41 0.16
99 11 0.04
101 32 0.13
102 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (93 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
CAGCTATATTGGACTTAAAGGTGCCAAT
Found at i:650762 original size:31 final size:31
Alignment explanation
Indices: 650686--650825 Score: 171
Period size: 34 Copynumber: 4.5 Consensus size: 31
650676 CCAGCTATAT
* *
650686 TGGGCTTAGA-GGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
650716 TGGGCTTT---GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
650744 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
* *
650775 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG--GGGGTTGCCACCAACTTGTG
*
650809 TGGGCTTTAGAGAGGGT
1 TGGGCTTT-GAGGGGGT
650826 GAAAGATGTC
Statistics
Matches: 98, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
28 27 0.28
30 7 0.07
31 28 0.29
32 6 0.06
34 30 0.31
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (31 bp):
TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
Found at i:650806 original size:34 final size:32
Alignment explanation
Indices: 650686--650824 Score: 175
Period size: 31 Copynumber: 4.5 Consensus size: 32
650676 CCAGCTATAT
*
650686 TGGGC-TT-AGAGGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
650716 TGGGCTTT----GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
650744 TGGGCTTTGAG-GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
* *
650775 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG-AGGGGTTGCCACCAACTTGTG
650809 TGGGCTTTAGAGAGGG
1 TGGGCTTT-GAGAGGG
650825 TGAAAGATGT
Statistics
Matches: 99, Mismatches: 3, Indels: 11
0.88 0.03 0.10
Matches are distributed among these distances:
28 27 0.27
30 5 0.05
31 30 0.30
32 3 0.03
33 4 0.04
34 30 0.30
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (32 bp):
TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
Found at i:650877 original size:33 final size:33
Alignment explanation
Indices: 650827--651081 Score: 274
Period size: 33 Copynumber: 7.7 Consensus size: 33
650817 AGAGAGGGTG
* * *
650827 AAAGA-TGTCACGAAGTTGTGGACTTAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
650859 ACAAG-GTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAA
1 A-AAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGG---A
*
650897 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG-A
*
650931 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
650964 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
650997 AAAGAGTGCCACGGAGTCGTGGACTTAAAA-G-
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
651028 ---G-GTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
651057 AAAGAAGGTGCCACGGAGTTGTGGG
1 AAAG-A-GTGCCACGGAGTTGTGGG
651082 AGTGCCACGG
Statistics
Matches: 191, Mismatches: 16, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
27 22 0.12
28 2 0.01
32 3 0.02
33 74 0.39
34 36 0.19
35 24 0.13
36 5 0.03
37 5 0.03
38 20 0.10
ACGTcount: A:0.33, C:0.13, G:0.36, T:0.19
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
Found at i:651034 original size:27 final size:27
Alignment explanation
Indices: 650996--651055 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
650986 GCTTTAAAGG
*
650996 AAAAGAGTGCCACGGAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
* *
651023 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
*
651050 AGAAGG
1 AAAAGG
651056 AAAAGAAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.38, T:0.18
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTCGTGGACTT
Found at i:651088 original size:19 final size:19
Alignment explanation
Indices: 651064--651100 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
651054 GGAAAAGAAG
651064 GTGCCACGGAGTTGTGGGA
1 GTGCCACGGAGTTGTGGGA
651083 GTGCCACGGAGTTGTGGG
1 GTGCCACGGAGTTGTGGG
651101 CTTTAAAAGA
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:0.14, C:0.16, G:0.49, T:0.22
Consensus pattern (19 bp):
GTGCCACGGAGTTGTGGGA
Found at i:651113 original size:54 final size:53
Alignment explanation
Indices: 651029--651134 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 53
651019 ACTTAAAAGG
* *
651029 GTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAAG-GTGCCACGGAGTTGTGGGA
1 GTGCCACGGAGTTGTGGGCTTAGAAAG-AAA-AAGTGTGCCACAGAGTTGTGGGA
651083 GTGCCACGGAGTTGTGGGCTTTA-AAAGAAAAAGTGTGCCACAGAGTTGTGGG
1 GTGCCACGGAGTTGTGGGC-TTAGAAAGAAAAAGTGTGCCACAGAGTTGTGGG
651135 CTTTGAAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
52 3 0.06
53 20 0.42
54 22 0.46
55 3 0.06
ACGTcount: A:0.26, C:0.13, G:0.40, T:0.21
Consensus pattern (53 bp):
GTGCCACGGAGTTGTGGGCTTAGAAAGAAAAAGTGTGCCACAGAGTTGTGGGA
Found at i:651129 original size:34 final size:34
Alignment explanation
Indices: 651083--651321 Score: 247
Period size: 34 Copynumber: 6.9 Consensus size: 34
651073 AGTTGTGGGA
*
651083 GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGT
1 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGT
*
651117 GTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTT-AAAA--G-AAAAAGT
* *
651155 GTGCCATAGAATTGTGGGCTTTGAAAAGAAAAAGT
1 GTGCCACAGAGTTGTGGGCTTT-AAAAGAAAAAGT
* *
651190 GTGCCACAGATTTGT-GGCTTTGAAAAGGGAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTT-AAAA--GAAAAAGT
*
651226 GTGCCACGGAGTTGTGGGCTTTAAAA-AGAAAAGT
1 GTGCCACAGAGTTGTGGGCTTTAAAAGA-AAAAGT
*
651260 GTGCCACAGAGTTGTGGGCTTT-GAAGAAAAA--
1 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGT
* * * *
651291 ATGCCACTGAGTCGTGGGCTTT-GAAGAAAAA
1 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAA
651322 AATGCACTGA
Statistics
Matches: 180, Mismatches: 16, Indels: 21
0.83 0.07 0.10
Matches are distributed among these distances:
31 28 0.16
33 7 0.04
34 59 0.33
35 23 0.13
36 25 0.14
37 7 0.04
38 31 0.17
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.23
Consensus pattern (34 bp):
GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGT
Found at i:651308 original size:31 final size:31
Alignment explanation
Indices: 651261--651403 Score: 184
Period size: 31 Copynumber: 4.6 Consensus size: 31
651251 AAGAAAAGTG
* * *
651261 TGCCACAGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
651292 TGCCACTGAGTCGTGGGCTTTGAAGAAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAG-AAAAAA
*
651324 TG-CACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
* *
651353 TGCCACTGAGTCGTGGAC-TTAAAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAA-GAAAAAA
651384 TGCCACTGAGTCGTGGACTT
1 TGCCACTGAGTCGTGGACTT
651404 AAAAAAGAAA
Statistics
Matches: 100, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
29 9 0.09
30 18 0.18
31 64 0.64
32 9 0.09
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
Found at i:651362 original size:61 final size:62
Alignment explanation
Indices: 651261--651403 Score: 191
Period size: 61 Copynumber: 2.3 Consensus size: 62
651251 AAGAAAAGTG
* * * * *
651261 TGCCACAGAGTTGTGGGCTTTGAAGAAAAAATGCCACTGAGTCGTGGGCTTTGAAGAAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGAC-TTAAAGAAAAAAA
* * *
651324 TG-CACTGAGTCGTGGACTTTG-AGACAAAATGCCACTGAGTCGTGGACTTAAAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTAAAGAAAAAAA
651384 TGCCACTGAGTCGTGGACTT
1 TGCCACTGAGTCGTGGACTT
651404 AAAAAAGAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
60 12 0.17
61 41 0.58
62 16 0.23
63 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (62 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTAAAGAAAAAAA
Found at i:663435 original size:52 final size:52
Alignment explanation
Indices: 663302--663442 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
663292 TGAAAAGTTA
663302 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
663354 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
663406 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
663443 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:663449 original size:13 final size:13
Alignment explanation
Indices: 663431--663455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
663421 CAAAAATCAG
663431 TGTATCGATACAA
1 TGTATCGATACAA
663444 TGTATCGATACA
1 TGTATCGATACA
663456 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:663540 original size:13 final size:13
Alignment explanation
Indices: 663522--663546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
663512 TACAAAAAAA
663522 TGTATCGATACAT
1 TGTATCGATACAT
663535 TGTATCGATACA
1 TGTATCGATACA
663547 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:664578 original size:49 final size:49
Alignment explanation
Indices: 664432--664589 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
664422 AAAAGTGATA
* * * * *
664432 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
664483 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
664536 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
664584 ATGATG
1 AAGATG
664590 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
48 8 0.09
49 37 0.44
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:664606 original size:170 final size:171
Alignment explanation
Indices: 664363--664754 Score: 691
Period size: 170 Copynumber: 2.3 Consensus size: 171
664353 TTTTAGAGAT
*
664363 GATGAAGGTGCC-A-ATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
664426 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
664491 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
*
664532 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
*
664596 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
664661 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
664702 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
664755 GTGCCAATGT
Statistics
Matches: 212, Mismatches: 5, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
169 11 0.05
170 124 0.58
171 37 0.17
173 40 0.19
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:664811 original size:49 final size:49
Alignment explanation
Indices: 664669--665036 Score: 454
Period size: 49 Copynumber: 7.6 Consensus size: 49
664659 GATGTCAACG
* *
664669 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
664721 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
664764 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * *
664813 TGCTGATTCAAGGCCAGCAATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
*
664856 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
664905 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
664954 TGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG-A--TGCCAATA
* *
665006 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
665037 GAGGGGTTGC
Statistics
Matches: 273, Mismatches: 28, Indels: 30
0.82 0.08 0.09
Matches are distributed among these distances:
43 70 0.26
44 5 0.02
45 2 0.01
46 3 0.01
47 1 0.00
48 5 0.02
49 122 0.45
50 1 0.00
51 2 0.01
52 62 0.23
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:664842 original size:92 final size:93
Alignment explanation
Indices: 664668--665036 Score: 562
Period size: 92 Copynumber: 3.9 Consensus size: 93
664658 GGATGTCAAC
* * *
664668 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA-GTGCCAATATGCTGATTCAAG
664733 GCCAGCTATATTGGACTTAAAGGTGCCAAT
64 GCCAGCTATATTGGACTTAAAGGTGCCAAT
*
664763 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA-TGCCAATATGCTGATTCAAGGC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
*
664827 CAGCAATATTGGACTTAAAGGTGCCAAT
66 CAGCTATATTGGACTTAAAGGTGCCAAT
664855 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA-TGCCAATATGCTGATTCAAGGC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
*
664919 CAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
66 CAGCTATATTGGACTT----A--AAGGTGCCAAT
*
664953 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG-A-GTGCCAATATGCTGATTCAAG
*
665018 GCCAGCTATATTGGGCTTA
64 GCCAGCTATATTGGACTTA
665037 GAGGGGTTGC
Statistics
Matches: 257, Mismatches: 8, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
92 127 0.49
94 4 0.02
95 36 0.14
96 1 0.00
97 1 0.00
98 51 0.20
99 1 0.00
101 36 0.14
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (93 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
CAGCTATATTGGACTTAAAGGTGCCAAT
Found at i:665105 original size:31 final size:31
Alignment explanation
Indices: 665029--665168 Score: 171
Period size: 34 Copynumber: 4.5 Consensus size: 31
665019 CCAGCTATAT
* *
665029 TGGGCTTAGA-GGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
665059 TGGGCTTT---GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
665087 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
* *
665118 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG--GGGGTTGCCACCAACTTGTG
*
665152 TGGGCTTTAGAGAGGGT
1 TGGGCTTT-GAGGGGGT
665169 GAAAGATGTC
Statistics
Matches: 98, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
28 27 0.28
30 7 0.07
31 28 0.29
32 6 0.06
34 30 0.31
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (31 bp):
TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
Found at i:665149 original size:34 final size:32
Alignment explanation
Indices: 665029--665167 Score: 175
Period size: 31 Copynumber: 4.5 Consensus size: 32
665019 CCAGCTATAT
*
665029 TGGGC-TT-AGAGGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
665059 TGGGCTTT----GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
665087 TGGGCTTTGAG-GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
* *
665118 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG-AGGGGTTGCCACCAACTTGTG
665152 TGGGCTTTAGAGAGGG
1 TGGGCTTT-GAGAGGG
665168 TGAAAGATGT
Statistics
Matches: 99, Mismatches: 3, Indels: 11
0.88 0.03 0.10
Matches are distributed among these distances:
28 27 0.27
30 5 0.05
31 30 0.30
32 3 0.03
33 4 0.04
34 30 0.30
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (32 bp):
TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
Found at i:665220 original size:33 final size:33
Alignment explanation
Indices: 665170--665424 Score: 274
Period size: 33 Copynumber: 7.7 Consensus size: 33
665160 AGAGAGGGTG
* * *
665170 AAAGA-TGTCACGAAGTTGTGGACTTAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
665202 ACAAG-GTGCCACAGAGTTGTGGGCTTTAAAAAGGAAAA
1 A-AAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGG---A
*
665240 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG-A
*
665274 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
665307 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
665340 AAAGAGTGCCACGGAGTCGTGGACTTAAAA-G-
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
665371 ---G-GTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
665400 AAAGAAGGTGCCACGGAGTTGTGGG
1 AAAG-A-GTGCCACGGAGTTGTGGG
665425 AGTGCCACGG
Statistics
Matches: 191, Mismatches: 16, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
27 22 0.12
28 2 0.01
32 3 0.02
33 74 0.39
34 36 0.19
35 24 0.13
36 5 0.03
37 5 0.03
38 20 0.10
ACGTcount: A:0.33, C:0.13, G:0.36, T:0.19
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
Found at i:665293 original size:72 final size:69
Alignment explanation
Indices: 665170--665424 Score: 250
Period size: 67 Copynumber: 3.8 Consensus size: 69
665160 AGAGAGGGTG
* * * * *
665170 AAAGA-TGTCACGAAGTTGTGGACTTAAAAGGAACAAG-GTGCCACAGAGTTGTGGGCTTTAAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
665233 AGGAAAA
66 A-G--AA
* *
665240 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
*
665303 AGGA
66 AGAA
* * * *
665307 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG-AAAAGAGTGCCACGGAGTCGTGGAC-TT-AAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
665369 AG--
66 AGAA
*
665371 ---G-GTGCCACGGAGTTGTGGGCTTAGAAGG-AAAAGAAGGTGCCACGGAGTTGTGGG
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAG-A-GTGCCACGGAGTTGTGGG
665425 AGTGCCACGG
Statistics
Matches: 162, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
60 29 0.18
61 2 0.01
62 16 0.10
66 29 0.18
67 30 0.19
69 1 0.01
70 8 0.05
71 29 0.18
72 18 0.11
ACGTcount: A:0.33, C:0.13, G:0.36, T:0.19
Consensus pattern (69 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
AGAA
Found at i:665377 original size:27 final size:27
Alignment explanation
Indices: 665339--665398 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
665329 GCTTTAAAGG
*
665339 AAAAGAGTGCCACGGAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
* *
665366 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
*
665393 AGAAGG
1 AAAAGG
665399 AAAAGAAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.38, T:0.18
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTCGTGGACTT
Found at i:665431 original size:19 final size:19
Alignment explanation
Indices: 665407--665443 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
665397 GGAAAAGAAG
665407 GTGCCACGGAGTTGTGGGA
1 GTGCCACGGAGTTGTGGGA
665426 GTGCCACGGAGTTGTGGG
1 GTGCCACGGAGTTGTGGG
665444 CTTTAAAAAG
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:0.14, C:0.16, G:0.49, T:0.22
Consensus pattern (19 bp):
GTGCCACGGAGTTGTGGGA
Found at i:665530 original size:35 final size:35
Alignment explanation
Indices: 665424--665659 Score: 286
Period size: 35 Copynumber: 6.8 Consensus size: 35
665414 GGAGTTGTGG
* *
665424 GAGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAA
1 GAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAA
*
665457 GTGTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAA
1 GAGTGCCACAGAGTTGTGGGCTTTGAAAA--G-AAAAA
* *
665495 GAGTGCCATAGAATTGTGGGCTTTGAAAAGAAAAA
1 GAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAA
*
665530 GTGTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAA
1 GAGTGCCACAGAGTTGTGGGCTTTGAAAA--GAAAAA
* *
665567 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 GAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAA
*
665602 GTGTGCCACAGAGTTGTGGGCTTTG--AAGAAAAA
1 GAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAA
* *
665635 -A-TGCCACTGAGTCGTGGGCTTTGAA
1 GAGTGCCACAGAGTTGTGGGCTTTGAA
665660 GAAAAAATGC
Statistics
Matches: 176, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
31 20 0.11
33 30 0.17
34 4 0.02
35 59 0.34
36 1 0.01
37 32 0.18
38 30 0.17
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22
Consensus pattern (35 bp):
GAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAA
Found at i:665607 original size:72 final size:73
Alignment explanation
Indices: 665424--665628 Score: 353
Period size: 72 Copynumber: 2.8 Consensus size: 73
665414 GGAGTTGTGG
665424 GAGTGCCACGGAGTTGTGGGCTTTAAAAAG--AAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
665487 GGAAAAAA
66 GGAAAAAA
** * *
665495 GAGTGCCATAGAATTGTGGGCTTTGAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
665560 GG-AAAAA
66 GGAAAAAA
665567 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAA
1 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAA
665629 GAAAAAATGC
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
71 26 0.21
72 63 0.51
73 35 0.28
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (73 bp):
GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
GGAAAAAA
Found at i:665673 original size:30 final size:31
Alignment explanation
Indices: 665605--665747 Score: 200
Period size: 30 Copynumber: 4.6 Consensus size: 31
665595 AGAAAAAGTG
* * *
665605 TGCCACAGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
665636 TGCCACTGAGTCGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
665667 TG-CACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
* *
665696 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAA-GAAAAAA
665728 TGCCACTGAGTCGTGGACTT
1 TGCCACTGAGTCGTGGACTT
665748 AAAAAGAAAA
Statistics
Matches: 102, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
29 9 0.09
30 36 0.35
31 32 0.31
32 25 0.25
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
Found at i:665736 original size:32 final size:31
Alignment explanation
Indices: 665563--665757 Score: 171
Period size: 30 Copynumber: 6.1 Consensus size: 31
665553 TGAAAAGGGA
* * *
665563 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTT--AAAG
* * * * *
665597 AAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAG
1 -AAAAG-ATGCCACTGAGTCGTGGACTTTAAAG
* * *
665630 AAAAAATGCCACTGAGTCGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTAAAG
* *
665661 AAAAAATG-CACTGAGTCGTGGACTTT-GAG
1 AAAAGATGCCACTGAGTCGTGGACTTTAAAG
665690 ACAAA-ATGCCACTGAGTCGTGGACTTTAAAGG
1 A-AAAGATGCCACTGAGTCGTGGACTTTAAA-G
*
665722 AAAAGATGCCACTGAGTCGTGGACTTAAAAAG
1 AAAAGATGCCACTGAGTCGTGGACTT-TAAAG
665754 AAAA
1 AAAA
665758 ATGTTCAACT
Statistics
Matches: 142, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
29 6 0.04
30 38 0.27
31 35 0.25
32 32 0.23
33 6 0.04
35 25 0.18
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTAAAG
Found at i:671799 original size:29 final size:29
Alignment explanation
Indices: 671737--671800 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
671727 TTTTTGGTTG
**
671737 AAAAATGGGGTTAGAGTGTCCCCTCGGAA
1 AAAAATGGGGTTAGAGTGTCCCCGAGGAA
* *
671766 AAAAATGGGGTTGGAGTGTCCCCGATGAA
1 AAAAATGGGGTTAGAGTGTCCCCGAGGAA
*
671795 TAAAAT
1 AAAAAT
671801 TTTGATATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (29 bp):
AAAAATGGGGTTAGAGTGTCCCCGAGGAA
Found at i:674071 original size:52 final size:52
Alignment explanation
Indices: 673938--674078 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
673928 TGAAAAGTTA
673938 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
673990 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
674042 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
674079 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:674085 original size:13 final size:13
Alignment explanation
Indices: 674067--674091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
674057 CAAAAATCAG
674067 TGTATCGATACAA
1 TGTATCGATACAA
674080 TGTATCGATACA
1 TGTATCGATACA
674092 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:674175 original size:13 final size:13
Alignment explanation
Indices: 674157--674181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
674147 TACAAAAAAA
674157 TGTATCGATACAT
1 TGTATCGATACAT
674170 TGTATCGATACA
1 TGTATCGATACA
674182 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:675221 original size:49 final size:49
Alignment explanation
Indices: 675075--675232 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
675065 AAACGTGATA
* * * * *
675075 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
675126 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
675179 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
675227 ATGATG
1 AAGATG
675233 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
48 8 0.09
49 37 0.44
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:675259 original size:170 final size:171
Alignment explanation
Indices: 675005--675397 Score: 691
Period size: 170 Copynumber: 2.3 Consensus size: 171
674995 TTTTAGAGAT
* *
675005 GATGAAGGTGCC-ATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAC
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
675069 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
675134 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
*
675175 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATGATGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
*
675239 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
675304 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
675345 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
675398 GTGCCAATGT
Statistics
Matches: 212, Mismatches: 6, Indels: 6
0.95 0.03 0.03
Matches are distributed among these distances:
170 133 0.63
171 39 0.18
173 40 0.19
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (171 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGATGATGAGAAAA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:675416 original size:43 final size:43
Alignment explanation
Indices: 675355--675678 Score: 315
Period size: 43 Copynumber: 6.9 Consensus size: 43
675345 GATGGAAAAT
675355 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* *
675398 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAGATG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA-A-G
*
675443 AAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAG
1 --G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
* * *
675489 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G
*
675535 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAG
1 --G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAG
* * *
675587 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T--A-AAG
*
675639 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
675679 GAGGGGTTGC
Statistics
Matches: 235, Mismatches: 24, Indels: 43
0.78 0.08 0.14
Matches are distributed among these distances:
43 73 0.31
44 5 0.02
45 2 0.01
46 3 0.01
47 2 0.01
48 38 0.16
49 66 0.28
50 2 0.01
51 1 0.00
52 39 0.17
53 2 0.01
54 1 0.00
55 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (43 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
Found at i:675479 original size:91 final size:93
Alignment explanation
Indices: 675311--675678 Score: 553
Period size: 91 Copynumber: 3.9 Consensus size: 93
675301 GGATGTCAAC
* * *
675311 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA-GTGCCAATATGCTGATTCAAG
675376 GCCAGCTATATTGGACTTAAAGGTGCCAAT
64 GCCAGCTATATTGGACTTAAAGGTGCCAAT
*
675406 GTGCTGATTCAAGGCCAGCTACATTGGACTT-AAGATGAAGA-TGCCAATATGCTGATTCAAGGC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
*
675469 CAGCAATATTGGACTTAAAGGTGCCAAT
66 CAGCTATATTGGACTTAAAGGTGCCAAT
675497 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA-TGCCAATATGCTGATTCAAGGC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
*
675561 CAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
66 CAGCTATATTGGACTT----A--AAGGTGCCAAT
*
675595 GTGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAG-A-GTGCCAATATGCTGATTCAAG
*
675660 GCCAGCTATATTGGGCTTA
64 GCCAGCTATATTGGACTTA
675679 GAGGGGTTGC
Statistics
Matches: 255, Mismatches: 8, Indels: 18
0.91 0.03 0.06
Matches are distributed among these distances:
91 79 0.31
92 47 0.18
93 4 0.02
94 5 0.02
95 30 0.12
96 1 0.00
97 1 0.00
98 51 0.20
99 1 0.00
101 36 0.14
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (93 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGAGTGCCAATATGCTGATTCAAGGC
CAGCTATATTGGACTTAAAGGTGCCAAT
Found at i:675562 original size:49 final size:49
Alignment explanation
Indices: 675312--675678 Score: 445
Period size: 49 Copynumber: 7.6 Consensus size: 49
675302 GATGTCAACG
* *
675312 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
675364 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
675407 TGCTGATTCAAGGCCAGCTACATTGGACTT-AAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * *
675455 TGCTGATTCAAGGCCAGCAATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
*
675498 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
675547 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
675596 TGCTGAGTCAAGGCCAGCTACATTGGACTTCAAGATGAAGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG-A--TGCCAATA
* *
675648 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTA
675679 GAGGGGTTGC
Statistics
Matches: 273, Mismatches: 28, Indels: 28
0.83 0.09 0.09
Matches are distributed among these distances:
43 72 0.26
44 4 0.01
45 2 0.01
46 2 0.01
47 2 0.01
48 39 0.14
49 87 0.32
50 1 0.00
51 2 0.01
52 62 0.23
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:675747 original size:31 final size:31
Alignment explanation
Indices: 675671--675810 Score: 171
Period size: 34 Copynumber: 4.5 Consensus size: 31
675661 CCAGCTATAT
* *
675671 TGGGCTTAGA-GGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
675701 TGGGCTTT---GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
675729 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
* *
675760 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG--GGGGTTGCCACCAACTTGTG
*
675794 TGGGCTTTAGAGAGGGT
1 TGGGCTTT-GAGGGGGT
675811 GAAAGATGTC
Statistics
Matches: 98, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
28 27 0.28
30 7 0.07
31 28 0.29
32 6 0.06
34 30 0.31
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (31 bp):
TGGGCTTTGAGGGGGTTGCCACCAACTTGTG
Found at i:675791 original size:34 final size:32
Alignment explanation
Indices: 675671--675809 Score: 175
Period size: 31 Copynumber: 4.5 Consensus size: 32
675661 CCAGCTATAT
*
675671 TGGGC-TT-AGAGGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
675701 TGGGCTTT----GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
675729 TGGGCTTTGAG-GGGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
* *
675760 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTT-GAG-AGGGGTTGCCACCAACTTGTG
675794 TGGGCTTTAGAGAGGG
1 TGGGCTTT-GAGAGGG
675810 TGAAAGATGT
Statistics
Matches: 99, Mismatches: 3, Indels: 11
0.88 0.03 0.10
Matches are distributed among these distances:
28 27 0.27
30 5 0.05
31 30 0.30
32 3 0.03
33 4 0.04
34 30 0.30
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.29
Consensus pattern (32 bp):
TGGGCTTTGAGAGGGGTTGCCACCAACTTGTG
Found at i:675862 original size:33 final size:33
Alignment explanation
Indices: 675812--676065 Score: 281
Period size: 33 Copynumber: 7.7 Consensus size: 33
675802 AGAGAGGGTG
* * *
675812 AAAGA-TGTCACGAAGTTGTGGACTTAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
675844 ACAAG-GTGCCACAGAGTTGTGGGCTTTAAAAAGGAAA
1 A-AAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGG--A
*
675881 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGG-A
*
675915 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
675948 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
* *
675981 AAAGAGTGCCACGGAGTCGTGGACTTAAAA-G-
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
*
676012 ---G-GTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
676041 AAAGAAGGTGCCACGGAGTTGTGGG
1 AAAG-A-GTGCCACGGAGTTGTGGG
676066 AGTGCCACGG
Statistics
Matches: 191, Mismatches: 16, Indels: 27
0.82 0.07 0.12
Matches are distributed among these distances:
27 22 0.12
28 2 0.01
32 3 0.02
33 74 0.39
34 36 0.19
35 29 0.15
36 5 0.03
37 20 0.10
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.19
Consensus pattern (33 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
Found at i:676018 original size:27 final size:27
Alignment explanation
Indices: 675980--676039 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
675970 GCTTTAAAGG
*
675980 AAAAGAGTGCCACGGAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
* *
676007 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
*
676034 AGAAGG
1 AAAAGG
676040 AAAAGAAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.38, T:0.18
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTCGTGGACTT
Found at i:676072 original size:19 final size:19
Alignment explanation
Indices: 676048--676084 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
676038 GGAAAAGAAG
676048 GTGCCACGGAGTTGTGGGA
1 GTGCCACGGAGTTGTGGGA
676067 GTGCCACGGAGTTGTGGG
1 GTGCCACGGAGTTGTGGG
676085 CTTTAAAAAG
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:0.14, C:0.16, G:0.49, T:0.22
Consensus pattern (19 bp):
GTGCCACGGAGTTGTGGGA
Found at i:676178 original size:35 final size:35
Alignment explanation
Indices: 676067--676301 Score: 291
Period size: 35 Copynumber: 6.7 Consensus size: 35
676057 AGTTGTGGGA
* *
676067 GTGCCACGGAGTTGTGGGCTTTAAAAAG-AAAAGT
1 GTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGT
*
676101 GTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTTGAAAA--G-AAAAAGT
* *
676139 GTGCCATAGAATTGTGGGCTTTGAAAAGAAAAAGT
1 GTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGT
*
676174 GTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTTGAAAA--GAAAAAGT
* *
676211 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGT
1 GTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGT
676246 GTGCCACAGAGTTGTGGGCTTTG--AAGAAAAA--
1 GTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGT
* * *
676277 ATGCCACTGAGTCGTGGGCTTTGAA
1 GTGCCACAGAGTTGTGGGCTTTGAA
676302 GAAAAAATGC
Statistics
Matches: 176, Mismatches: 17, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
31 20 0.11
33 8 0.05
34 25 0.14
35 59 0.34
36 2 0.01
37 32 0.18
38 30 0.17
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.23
Consensus pattern (35 bp):
GTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGT
Found at i:676190 original size:107 final size:103
Alignment explanation
Indices: 676066--676301 Score: 289
Period size: 107 Copynumber: 2.3 Consensus size: 103
676056 GAGTTGTGGG
* *
676066 AGTGCCACGGAGTTGTGGGCTTT-AAAA-AG-AAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAA
1 AGTGCCACAGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAA
* *
676128 GGGAAAAAAGAGTGCCATAGAATTGTGGGCTTTGAAAAGAAAA
65 -AG-AAAAAGAGTGCCACAGAATTGTGGGCTTTG--AAGAAAA
* *
676171 AGTGTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 A--GTGCCACAGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
* *
676236 AAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAGAAAA
64 AAGAAAAAGAGTGCCACAGAATTGTGGGCTTTGAAGAAAA
* * *
676276 AATGCCACTGAGTCGTGGGCTTTGAA
1 AGTGCCACAGAGTTGTGGGCTTTGAA
676302 GAAAAAATGC
Statistics
Matches: 115, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
103 22 0.19
105 9 0.08
107 48 0.42
108 5 0.04
109 5 0.04
110 26 0.23
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.22
Consensus pattern (103 bp):
AGTGCCACAGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA
GAAAAAGAGTGCCACAGAATTGTGGGCTTTGAAGAAAA
Found at i:676208 original size:72 final size:73
Alignment explanation
Indices: 676065--676270 Score: 344
Period size: 72 Copynumber: 2.8 Consensus size: 73
676055 GGAGTTGTGG
* *
676065 GAGTGCCACGGAGTTGTGGGCTTTAAAAAG-AAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 GAGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
676129 GGAAAAAA
66 GGAAAAAA
* *
676137 GAGTGCCATAGAATTGTGGGCTTTGAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
1 GAGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
676202 GG-AAAAA
66 GGAAAAAA
* *
676209 GAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAA
1 GAGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAA
676271 GAAAAAATGC
Statistics
Matches: 125, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
72 89 0.71
73 36 0.29
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (73 bp):
GAGTGCCACAGAATTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAAAG
GGAAAAAA
Found at i:676315 original size:30 final size:31
Alignment explanation
Indices: 676247--676398 Score: 200
Period size: 31 Copynumber: 4.9 Consensus size: 31
676237 AGAAAAAGTG
* * *
676247 TGCCACAGAGTTGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
676278 TGCCACTGAGTCGTGGGCTTTGAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
*
676309 TG-CACTGAGTCGTGGACTTTG-AGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
* *
676338 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAA-GAAAAAA
**
676370 TGCCACTGAGTCGTGGACTTAAAAGAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAA
676399 TGTTCAACTA
Statistics
Matches: 110, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
29 9 0.08
30 36 0.33
31 37 0.34
32 28 0.25
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAA
Found at i:676341 original size:60 final size:63
Alignment explanation
Indices: 676247--676398 Score: 202
Period size: 60 Copynumber: 2.5 Consensus size: 63
676237 AGAAAAAGTG
* * * * *
676247 TGCCACAGAGTTGTGGGCTTTGAAGAAAAAATGCCACTGAGTCGTGGGCTTTGAA-GAAAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTAAAGGAAAAAA
* *
676309 TG-CACTGAGTCGTGGACTTTG-AGACAAAATGCCACTGAGTCGTGGACTTTAAAGGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTAAAGGAAAAAA
**
676370 TGCCACTGAGTCGTGGACTTAAAAGAAAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAA
676399 TGTTCAACTA
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
60 29 0.38
61 24 0.31
62 19 0.25
63 5 0.06
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTAAAGGAAAAAA
Found at i:676378 original size:32 final size:31
Alignment explanation
Indices: 676205--676398 Score: 178
Period size: 31 Copynumber: 6.1 Consensus size: 31
676195 TGAAAAGGGA
* * *
676205 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTT--AAAG
* * * * *
676239 AAAAAGTGTGCCACAGAGTTGTGGGCTTTGAAG
1 -AAAAG-ATGCCACTGAGTCGTGGACTTTAAAG
* * *
676272 AAAAAATGCCACTGAGTCGTGGGCTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTAAAG
* *
676303 AAAAAATG-CACTGAGTCGTGGACTTT-GAG
1 AAAAGATGCCACTGAGTCGTGGACTTTAAAG
676332 ACAAA-ATGCCACTGAGTCGTGGACTTTAAAGG
1 A-AAAGATGCCACTGAGTCGTGGACTTTAAA-G
*
676364 AAAAGATGCCACTGAGTCGTGGACTTAAAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTAAAG
676395 AAAA
1 AAAA
676399 TGTTCAACTA
Statistics
Matches: 142, Mismatches: 11, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
29 6 0.04
30 38 0.27
31 40 0.28
32 30 0.21
33 3 0.02
35 25 0.18
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTAAAG
Found at i:684685 original size:52 final size:52
Alignment explanation
Indices: 684552--684692 Score: 230
Period size: 52 Copynumber: 2.7 Consensus size: 52
684542 TGAAAAGTTA
684552 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
684604 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
**
684656 CTGCATGTATCGATACA-AAAATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTTAAT-AGTGTATCGATACA
684693 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:684699 original size:13 final size:13
Alignment explanation
Indices: 684681--684705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
684671 CAAAAATCAG
684681 TGTATCGATACAA
1 TGTATCGATACAA
684694 TGTATCGATACA
1 TGTATCGATACA
684706 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:684790 original size:13 final size:13
Alignment explanation
Indices: 684772--684796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
684762 TACAAAAAAA
684772 TGTATCGATACAT
1 TGTATCGATACAT
684785 TGTATCGATACA
1 TGTATCGATACA
684797 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:698285 original size:28 final size:28
Alignment explanation
Indices: 698241--698718 Score: 499
Period size: 28 Copynumber: 16.5 Consensus size: 28
698231 ATATGACCCT
* *
698241 TTTCAAAGCCTACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
698269 TTTCAAAGCCCATAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
698297 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
698325 TTCTCAAAGGCCACAAGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCC
* *
698354 TCTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
698382 TTTTCAAAGCCCACACAAATCGGTGGTAACCTC
1 -TTTCAAAG-CC-CACAAGTCAGTGG-CATC-C
*
698415 TTTCAAAGCCCACAAGTCAATGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
698443 TTTCAAAGCCTACACAAGTCGGTGGCAACC
1 TTTCAAAGCC--CACAAGTCAGTGGCATCC
698473 TCTCTCAAAGCCCACAAGTCAGTGGCATCC
1 T-T-TCAAAGCCCACAAGTCAGTGGCATCC
*
698503 TTTCAAAGCCCACATAAGTCAGTGGCAACC
1 TTTCAAAGCCCAC--AAGTCAGTGGCATCC
* *
698533 TCTCTCAAAGCCTACAAGTCAGTGGCACCC
1 T-T-TCAAAGCCCACAAGTCAGTGGCATCC
* * *
698563 TTTCAAAGCCCACAAGTTAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
698591 TTTCGAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * * *
698619 TTTCGAAGCCCACAAGTTAGCGACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
698647 GTTT-GAAGCCCACAAGTTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
698675 TTTTAAAGCACACAAGTTAGTGGCAACC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
698703 TTCTTCAAAGCCCACA
1 -T-TTCAAAGCCCACA
698719 CAAGTTGGTG
Statistics
Matches: 390, Mismatches: 42, Indels: 34
0.84 0.09 0.07
Matches are distributed among these distances:
27 3 0.01
28 217 0.56
29 41 0.11
30 86 0.22
31 14 0.04
32 28 0.07
33 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:699738 original size:20 final size:20
Alignment explanation
Indices: 699709--699850 Score: 104
Period size: 20 Copynumber: 6.6 Consensus size: 20
699699 TACCCAGATA
699709 TATCGATACATTTTTTAATG
1 TATCGATACATTTTTTAATG
*
699729 TATTGATACATTTTTTAATG
1 TATCGATACATTTTTTAATG
699749 TATCGATACATTCTGTCTTTTACTCAGATG
1 TATCGATACA-----T-TTTT--T-A-ATG
* * *
699779 TATCGTTACATTTATCAATG
1 TATCGATACATTTTTTAATG
* * * *
699799 TATTGATACATGTATGAATG
1 TATCGATACATTTTTTAATG
* *
699819 TATCGATACATTCTTCAATG
1 TATCGATACATTTTTTAATG
699839 TATCGATACATT
1 TATCGATACATT
699851 CTGTCTTTTT
Statistics
Matches: 98, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
20 74 0.76
21 1 0.01
24 3 0.03
25 2 0.02
26 4 0.04
28 1 0.01
29 1 0.01
30 12 0.12
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (20 bp):
TATCGATACATTTTTTAATG
Found at i:699809 original size:70 final size:70
Alignment explanation
Indices: 699696--699832 Score: 202
Period size: 70 Copynumber: 2.0 Consensus size: 70
699686 AAAGTCATAT
* * * * *
699696 TTTTACCCAGATATATCGATACATTTTTTAATGTATTGATACATTTTTTAATGTATCGATACATT
1 TTTTACCCAGATATATCGATACATTTATCAATGTATTGATACATGTATGAATGTATCGATACATT
699761 CTGTC
66 CTGTC
* * *
699766 TTTTACTCAGATGTATCGTTACATTTATCAATGTATTGATACATGTATGAATGTATCGATACATT
1 TTTTACCCAGATATATCGATACATTTATCAATGTATTGATACATGTATGAATGTATCGATACATT
699831 CT
66 CT
699833 TCAATGTATC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (70 bp):
TTTTACCCAGATATATCGATACATTTATCAATGTATTGATACATGTATGAATGTATCGATACATT
CTGTC
Found at i:712545 original size:31 final size:31
Alignment explanation
Indices: 712507--712578 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
712497 TCATTTTATC
712507 AATACATTCTGGGTTTTGACCCAAATGTATT
1 AATACATTCTGGGTTTTGACCCAAATGTATT
712538 AATACATTCTGGGTTTTGACCCAAATGTATT
1 AATACATTCTGGGTTTTGACCCAAATGTATT
*
712569 GATACATTCT
1 AATACATTCT
712579 TCAATGTATC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (31 bp):
AATACATTCTGGGTTTTGACCCAAATGTATT
Found at i:718053 original size:20 final size:20
Alignment explanation
Indices: 718005--718081 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 20
717995 CTTGAAATGG
718005 CTTA-GTATCGATACATTGAA
1 CTTATGTATCGATACATT-AA
*** *
718025 AGCATGTATCGATACATTCA
1 CTTATGTATCGATACATTAA
* *
718045 CTTATGTATCAATATATTAA
1 CTTATGTATCGATACATTAA
718065 CTTATTGTATCGATACA
1 CTTA-TGTATCGATACA
718082 AAATTATAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
20 20 0.47
21 23 0.53
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (20 bp):
CTTATGTATCGATACATTAA
Found at i:719440 original size:28 final size:28
Alignment explanation
Indices: 719373--719440 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
719363 TTTATGTCGT
* * *
719373 ATCCCCAATGGAGCATAGACAACTTGCA
1 ATCCCTAATGGAGCATAGACAACCTACA
* * * *
719401 ATCCTTAGTGGAGCCTGGACAACCTACA
1 ATCCCTAATGGAGCATAGACAACCTACA
719429 ATCCCTAATGGA
1 ATCCCTAATGGA
719441 ATCAGGAAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (28 bp):
ATCCCTAATGGAGCATAGACAACCTACA
Found at i:719789 original size:13 final size:13
Alignment explanation
Indices: 719698--719801 Score: 74
Period size: 13 Copynumber: 8.2 Consensus size: 13
719688 CAAAGTGCTA
* *
719698 TTGTCAAGAAATCA
1 TTGTCAAGAACT-T
*
719712 TTGTCAAGAACTA
1 TTGTCAAGAACTT
719725 TTGTCAAGAACTT
1 TTGTCAAGAACTT
*
719738 TTGTCGAGAACGTT
1 TTGTCAAGAAC-TT
719752 TT-TC-AGAAAC-T
1 TTGTCAAG-AACTT
* *
719763 ATGTTAAGAA-TT
1 TTGTCAAGAACTT
*
719775 TTGTTAAGAACTT
1 TTGTCAAGAACTT
*
719788 TTGTCTAG-ACTT
1 TTGTCAAGAACTT
719800 TT
1 TT
719802 TTGAAAGCTT
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
11 2 0.03
12 21 0.28
13 38 0.50
14 15 0.20
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (13 bp):
TTGTCAAGAACTT
Found at i:720497 original size:20 final size:21
Alignment explanation
Indices: 720472--720510 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
720462 TTCCCGTGTG
720472 AATGTATCGATACA-ATTTTT
1 AATGTATCGATACATATTTTT
*
720492 AATGTATCGTTACATATTT
1 AATGTATCGATACATATTT
720511 GAAAATATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (21 bp):
AATGTATCGATACATATTTTT
Found at i:720583 original size:13 final size:13
Alignment explanation
Indices: 720565--720590 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
720555 CAATTTTTTG
720565 TGTATCGATACAT
1 TGTATCGATACAT
720578 TGTATCGATACAT
1 TGTATCGATACAT
720591 CCTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:720587 original size:33 final size:33
Alignment explanation
Indices: 720545--720609 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
720535 TACAAGCCAA
* *
720545 TGTATCGATACAAT-TTTTTGTGTATCGATACAT
1 TGTATCGATAC-ATCCTTTGGTGTATCGATACAT
720578 TGTATCGATACATCCTTTGGTGTATCGATACA
1 TGTATCGATACATCCTTTGGTGTATCGATACA
720610 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 2 0.07
33 27 0.93
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATCCTTTGGTGTATCGATACAT
Found at i:722722 original size:21 final size:20
Alignment explanation
Indices: 722693--722735 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
722683 GGCTAGTATG
* *
722693 GGGACTGCCTGGTTGCGACCT
1 GGGACTGCC-GGTCGCAACCT
*
722714 GGGAGTGCCGGTCGCAACCT
1 GGGACTGCCGGTCGCAACCT
722734 GG
1 GG
722736 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.12, C:0.28, G:0.42, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCAACCT
Found at i:723194 original size:13 final size:13
Alignment explanation
Indices: 723176--723214 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
723166 ATAATCCCCC
*
723176 TGTATCGATACAG
1 TGTATCGATACAA
723189 TGTATCGATACAA
1 TGTATCGATACAA
*
723202 TGTATTGATACAA
1 TGTATCGATACAA
723215 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:729324 original size:20 final size:21
Alignment explanation
Indices: 729299--729337 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
729289 TTCTCGTGTG
729299 AATGTATCGATACA-ATTTTT
1 AATGTATCGATACATATTTTT
729319 AATGTATCGATACATATTT
1 AATGTATCGATACATATTT
729338 GAAAATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
AATGTATCGATACATATTTTT
Found at i:729390 original size:13 final size:13
Alignment explanation
Indices: 729372--729397 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
729362 TACAAGCCAA
729372 TGTATCGATACAT
1 TGTATCGATACAT
729385 TGTATCGATACAT
1 TGTATCGATACAT
729398 CCTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:730270 original size:29 final size:29
Alignment explanation
Indices: 730185--730270 Score: 109
Period size: 29 Copynumber: 3.0 Consensus size: 29
730175 AGTTGAACCC
* * * *
730185 TTTCAAAGCCTACAAGTTAGTGACACCCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCTA
*
730214 TTTCAAAGCCCACAAGTCAGTGGCACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCTA
* *
730243 TTTCAAATCTCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCT
730271 CATCAAAGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCTA
Done.