Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 1 of 425
Found at i:4652 original size:31 final size:28
Alignment explanation
Indices: 4592--4654 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 28
4582 AAGAAAGAAA
*
4592 GAAACTTGTATAGGTGCACTCTACTGAT
1 GAAACTTGTATAGGTGCACTCTACCGAT
*
4620 GAAACTTGTATAGGTGCTCTCCTCTACCGAT
1 GAAACTTGTATAGGTG--C-ACTCTACCGAT
4651 GAAA
1 GAAA
4655 GTTGGAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 16 0.53
30 1 0.03
31 13 0.43
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (28 bp):
GAAACTTGTATAGGTGCACTCTACCGAT
Found at i:17631 original size:39 final size:39
Alignment explanation
Indices: 17566--17648 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
17556 CGTGGTGACG
*
17566 GGTGGACCGATGGTGACTACCAGACTGGTGAACGATGAT
1 GGTGGACCGATGGTGACTACCAGACTGGTGAACGACGAT
* * * *
17605 GGTGTACCGGTGGTGACTGCCTGACTGGTGAACGACGAT
1 GGTGGACCGATGGTGACTACCAGACTGGTGAACGACGAT
17644 GGTGG
1 GGTGG
17649 TGGTCGGTGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.20, C:0.18, G:0.40, T:0.22
Consensus pattern (39 bp):
GGTGGACCGATGGTGACTACCAGACTGGTGAACGACGAT
Found at i:20145 original size:12 final size:12
Alignment explanation
Indices: 20128--20156 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
20118 ATCAACTTCA
20128 AAACATCATACC
1 AAACATCATACC
20140 AAACATCATACC
1 AAACATCATACC
20152 AAACA
1 AAACA
20157 CAGCCCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.31, G:0.00, T:0.14
Consensus pattern (12 bp):
AAACATCATACC
Found at i:28462 original size:16 final size:16
Alignment explanation
Indices: 28441--28475 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
28431 CTGCTCAGAC
*
28441 ACAAGCCAACCCAATA
1 ACAAGCCAACCAAATA
*
28457 ACAAGCTAACCAAATA
1 ACAAGCCAACCAAATA
28473 ACA
1 ACA
28476 CAGTACTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.31, G:0.06, T:0.09
Consensus pattern (16 bp):
ACAAGCCAACCAAATA
Found at i:29231 original size:5 final size:5
Alignment explanation
Indices: 29218--29251 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
29208 AGAGAAAATT
* *
29218 AAAAA AAAAC AAAAC AAAAC AAAAC AAAAG AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAA
29252 AGAAAGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:30579 original size:16 final size:16
Alignment explanation
Indices: 30558--30588 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30548 TAATATATAC
30558 AAAAGAGGAAAACAGA
1 AAAAGAGGAAAACAGA
*
30574 AAAAGAGGGAAACAG
1 AAAAGAGGAAAACAG
30589 TAAACCAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.29, T:0.00
Consensus pattern (16 bp):
AAAAGAGGAAAACAGA
Found at i:33023 original size:39 final size:39
Alignment explanation
Indices: 32969--33047 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
32959 GTGGTGACGC
* * *
32969 GTGGACCGATGGTGACTACCTGACTGGAGAACGATGATG
1 GTGGAACGATGGTGACTACCTAACTGGAGAACGACGATG
* * *
33008 GTGGAACGGTGGTGACTGCCTAACTGGTGAACGACGATG
1 GTGGAACGATGGTGACTACCTAACTGGAGAACGACGATG
33047 G
1 G
33048 GGGTGGCCGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.24, C:0.18, G:0.38, T:0.20
Consensus pattern (39 bp):
GTGGAACGATGGTGACTACCTAACTGGAGAACGACGATG
Found at i:33946 original size:18 final size:18
Alignment explanation
Indices: 33913--33988 Score: 104
Period size: 18 Copynumber: 4.4 Consensus size: 18
33903 AAGGTTTTCT
33913 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
33928 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
* *
33946 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
33964 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
33982 TATTGAT
1 TATTGAT
33989 CGTGACCTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.20
16 1 0.02
18 43 0.78
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.37
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:36130 original size:35 final size:35
Alignment explanation
Indices: 36084--36233 Score: 182
Period size: 35 Copynumber: 4.3 Consensus size: 35
36074 TCTTAGACAC
* *
36084 AGCCTTCAAGGCATACTTCATCTTCTTCGGCACTT
1 AGCCTTCAAGGCATACTTCGTCTTCTTCGACACTT
* * * *
36119 AGCCTTTAAGGCAAACTTCGTCTTC-TCAAATACTT
1 AGCCTTCAAGGCATACTTCGTCTTCTTC-GACACTT
*
36154 AGCCTTCAAGGCATGCTTCGTCTTCTAT-GACACTT
1 AGCCTTCAAGGCATACTTCGTCTTCT-TCGACACTT
*
36189 AGCCTTCAAGGCATACTTCGTCTTCTTAGACAC--
1 AGCCTTCAAGGCATACTTCGTCTTCTTCGACACTT
36222 AGCCTTCAAGGC
1 AGCCTTCAAGGC
36234 TTCTTAGACA
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
33 12 0.12
34 3 0.03
35 83 0.84
37 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.32
Consensus pattern (35 bp):
AGCCTTCAAGGCATACTTCGTCTTCTTCGACACTT
Found at i:36178 original size:70 final size:70
Alignment explanation
Indices: 36084--36214 Score: 201
Period size: 70 Copynumber: 1.9 Consensus size: 70
36074 TCTTAGACAC
* *
36084 AGCCTTCAAGGCATACTTCATCTTCT-TCGGCACTTAGCCTTTAAGGCAAACTTCGTCTTCTCAA
1 AGCCTTCAAGGCATACTTCATCTTCTAT-GACACTTAGCCTTCAAGGCAAACTTCGTCTTCTCAA
36148 ATACTT
65 ATACTT
* * *
36154 AGCCTTCAAGGCATGCTTCGTCTTCTATGACACTTAGCCTTCAAGGCATACTTCGTCTTCT
1 AGCCTTCAAGGCATACTTCATCTTCTATGACACTTAGCCTTCAAGGCAAACTTCGTCTTCT
36215 TAGACACAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 54 0.98
71 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (70 bp):
AGCCTTCAAGGCATACTTCATCTTCTATGACACTTAGCCTTCAAGGCAAACTTCGTCTTCTCAAA
TACTT
Found at i:36213 original size:18 final size:18
Alignment explanation
Indices: 36157--36213 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
36147 AATACTTAGC
*
36157 CTTCAAGGCATGCTTCGT
1 CTTCAAGGCATACTTCGT
* * * * *
36175 CTTCTATG-ACACTTAGC
1 CTTCAAGGCATACTTCGT
36192 CTTCAAGGCATACTTCGT
1 CTTCAAGGCATACTTCGT
36210 CTTC
1 CTTC
36214 TTAGACACAG
Statistics
Matches: 27, Mismatches: 11, Indels: 2
0.68 0.28 0.05
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (18 bp):
CTTCAAGGCATACTTCGT
Found at i:36236 original size:23 final size:23
Alignment explanation
Indices: 36210--36256 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
36200 CATACTTCGT
36210 CTTCTTAGACACAGCCTTCAAGG
1 CTTCTTAGACACAGCCTTCAAGG
36233 CTTCTTAGACACAGCCTTCAAGG
1 CTTCTTAGACACAGCCTTCAAGG
36256 C
1 C
36257 ATACTTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (23 bp):
CTTCTTAGACACAGCCTTCAAGG
Found at i:40340 original size:22 final size:22
Alignment explanation
Indices: 40293--40340 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
40283 TCCAGACATG
* *
40293 TAAAAACAACTGAACCGGATAC
1 TAAAAACAACAGAACCGGAGAC
*
40315 -AAAAACAACAGAACCGGGGAC
1 TAAAAACAACAGAACCGGAGAC
40336 TAAAA
1 TAAAA
40341 GTATCCGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.54, C:0.21, G:0.17, T:0.08
Consensus pattern (22 bp):
TAAAAACAACAGAACCGGAGAC
Found at i:40481 original size:45 final size:44
Alignment explanation
Indices: 40407--40531 Score: 159
Period size: 42 Copynumber: 2.9 Consensus size: 44
40397 GAAGAATGAA
* * *
40407 AATTTACCCTGTACTTTTTCTTATTCTTTTTTTTTTTTTGAAGGC
1 AATTAACCCAGTACTTTTTCTT-TTCTTTTTTTTTTATTGAAGGC
* * *
40452 AATTAACCCAGTACTTTTTCTTTTC--CTTTTTTTCTTCAAGGC
1 AATTAACCCAGTACTTTTTCTTTTCTTTTTTTTTTATTGAAGGC
40494 AATTAACCCAGTACTTTTTC--TTCTTTTTTTTTTATTGA
1 AATTAACCCAGTACTTTTTCTTTTCTTTTTTTTTTATTGA
40532 CGGGGATATC
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
40 3 0.04
42 44 0.63
44 3 0.04
45 20 0.29
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.56
Consensus pattern (44 bp):
AATTAACCCAGTACTTTTTCTTTTCTTTTTTTTTTATTGAAGGC
Found at i:48818 original size:31 final size:32
Alignment explanation
Indices: 48766--48836 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
48756 AGTGGGGAAT
* * *
48766 CGGGATATTCCTAGAATGGGATAAACCACG-AC
1 CGGGATATACCTAAAATGGGAT-AACAACGAAC
48798 CGGGATATACC-AAAATGGGATAACAACGAAC
1 CGGGATATACCTAAAATGGGATAACAACGAAC
48829 CGGGATAT
1 CGGGATAT
48837 CACTGGAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 6 0.17
31 19 0.54
32 10 0.29
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (32 bp):
CGGGATATACCTAAAATGGGATAACAACGAAC
Found at i:50054 original size:16 final size:16
Alignment explanation
Indices: 50033--50063 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50023 CTAGTTTGTC
*
50033 TTCTAAGGTGCACCTT
1 TTCTAAGGTCCACCTT
50049 TTCTAAGGTCCACCT
1 TTCTAAGGTCCACCT
50064 AGGTGCAGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.29, G:0.16, T:0.35
Consensus pattern (16 bp):
TTCTAAGGTCCACCTT
Found at i:53788 original size:15 final size:15
Alignment explanation
Indices: 53768--53799 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
53758 TGTATATTAC
53768 ACGTGGATCTTGAAT
1 ACGTGGATCTTGAAT
53783 ACGTGGATCTTGAAT
1 ACGTGGATCTTGAAT
53798 AC
1 AC
53800 AAGTTCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (15 bp):
ACGTGGATCTTGAAT
Found at i:54799 original size:78 final size:78
Alignment explanation
Indices: 54665--54820 Score: 258
Period size: 78 Copynumber: 2.0 Consensus size: 78
54655 TTCTGGTACA
* * *
54665 CAAAGTCCATGGTGATCGCTATCAACATGATCACCAACTCTCCTAGCTGATGAGATCAAGGGATC
1 CAAACTCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGGGATC
54730 AGGGTTTAATGGT
66 AGGGTTTAATGGT
* *
54743 CAAACTCCATGGTGATCATTATCAACATGATCACCAACTCTCCCAGCTGGTGAGATCAAGGGATC
1 CAAACTCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGGGATC
*
54808 ATGGTTTAATGGT
66 AGGGTTTAATGGT
54821 AGAATATGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAACTCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGGGATC
AGGGTTTAATGGT
Found at i:58484 original size:3 final size:3
Alignment explanation
Indices: 58476--58504 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
58466 GATCATAAAA
58476 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
58505 ATTCCAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:64281 original size:21 final size:21
Alignment explanation
Indices: 64257--64296 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
64247 AAAAAAAGCT
64257 AAACCAGACACTAAAACTACC
1 AAACCAGACACTAAAACTACC
* *
64278 AAACCAGGCACTAATACTA
1 AAACCAGACACTAAAACTA
64297 GTGAACCGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.30, G:0.07, T:0.12
Consensus pattern (21 bp):
AAACCAGACACTAAAACTACC
Found at i:64361 original size:18 final size:18
Alignment explanation
Indices: 64338--64372 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
64328 CCCGGAGTAG
64338 CCTATTCACTTAAAAGAA
1 CCTATTCACTTAAAAGAA
64356 CCTATTCACTTAAAAGA
1 CCTATTCACTTAAAAGA
64373 TTACAACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.29
Consensus pattern (18 bp):
CCTATTCACTTAAAAGAA
Found at i:66507 original size:14 final size:14
Alignment explanation
Indices: 66488--66515 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66478 AGATGAGTGT
66488 CATGGTCAAAACAA
1 CATGGTCAAAACAA
66502 CATGGTCAAAACAA
1 CATGGTCAAAACAA
66516 AAATGTCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.14, T:0.14
Consensus pattern (14 bp):
CATGGTCAAAACAA
Found at i:66714 original size:47 final size:47
Alignment explanation
Indices: 66660--66753 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
66650 TCTAAAAGAT
66660 CAGAGAAAGACAGAATTCATTTATTAGCTTCCAGCAAAGACCAAAAG
1 CAGAGAAAGACAGAATTCATTTATTAGCTTCCAGCAAAGACCAAAAG
66707 CAGAGAAAGACAGAATTCATTTATTAGCTTCCAGCAAAGACCAAAAG
1 CAGAGAAAGACAGAATTCATTTATTAGCTTCCAGCAAAGACCAAAAG
66754 AAAGAACCTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (47 bp):
CAGAGAAAGACAGAATTCATTTATTAGCTTCCAGCAAAGACCAAAAG
Found at i:92437 original size:20 final size:20
Alignment explanation
Indices: 92414--92451 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
92404 TATGTTAGAA
92414 ATGTTAT-GTTTTAGTTATTT
1 ATGTTATCGTTTT-GTTATTT
92434 ATGTTATCGTTTTGTTAT
1 ATGTTATCGTTTTGTTAT
92452 AAAGTGGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.18, C:0.03, G:0.16, T:0.63
Consensus pattern (20 bp):
ATGTTATCGTTTTGTTATTT
Found at i:107477 original size:18 final size:18
Alignment explanation
Indices: 107443--107476 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
107433 TTGTGTATAT
107443 ATATATTTTTTCCTTTTC
1 ATATATTTTTTCCTTTTC
107461 ATATA-TTTTTCCTTTT
1 ATATATTTTTTCCTTTT
107477 TACCTGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.18, C:0.15, G:0.00, T:0.68
Consensus pattern (18 bp):
ATATATTTTTTCCTTTTC
Found at i:123426 original size:18 final size:18
Alignment explanation
Indices: 123390--123440 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
123380 TAAAAACATC
*
123390 TTATTT-AATAATA-TTT
1 TTATTTCAAAAATATTTT
123406 TTATTTCAAAAATATTTT
1 TTATTTCAAAAATATTTT
*
123424 TTATCTCAAAAATATTT
1 TTATTTCAAAAATATTT
123441 ATGAAAAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.19
17 6 0.19
18 19 0.61
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATTTCAAAAATATTTT
Found at i:125712 original size:20 final size:20
Alignment explanation
Indices: 125689--125738 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
125679 AAATCTAAAT
125689 TAAAATACTAAAATTCAAGA
1 TAAAATACTAAAATTCAAGA
*
125709 TAAAAT-CTTGAAATTCAAGA
1 TAAAATAC-TAAAATTCAAGA
125729 TAAGAATACT
1 TAA-AATACT
125739 GATGTGGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 20 0.77
21 4 0.15
22 1 0.04
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAAGA
Found at i:128288 original size:14 final size:14
Alignment explanation
Indices: 128266--128302 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
128256 GTGGGTTTAG
*
128266 ATGTATTTGGTTAT
1 ATGTCTTTGGTTAT
128280 ATGTCTTTGGTTAT
1 ATGTCTTTGGTTAT
128294 ATGTCTTTG
1 ATGTCTTTG
128303 ACTATTATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.16, C:0.05, G:0.22, T:0.57
Consensus pattern (14 bp):
ATGTCTTTGGTTAT
Found at i:151722 original size:29 final size:29
Alignment explanation
Indices: 151663--151726 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
151653 TAATTAGATT
* * * *
151663 TAAATTTTTAAAATTCAGAAAATAGAGAC
1 TAAATTTTTAAAAATCAAAAAATAAAAAC
151692 TAAATTTTTAAAAAT-AAAAATATAAAAAC
1 TAAATTTTTAAAAATCAAAAA-ATAAAAAC
151721 TAAATT
1 TAAATT
151727 ACAAATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTTTTAAAAATCAAAAAATAAAAAC
Found at i:152033 original size:22 final size:20
Alignment explanation
Indices: 152008--152054 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
151998 TGGTGACTTA
*
152008 AATAAATTTTTTTGAATAATTT
1 AATAAATTATTTT--ATAATTT
152030 AAT-AATTATTTTATAATTT
1 AATAAATTATTTTATAATTT
*
152049 TATAAA
1 AATAAA
152055 ATTAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 9 0.41
20 2 0.09
21 8 0.36
22 3 0.14
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
AATAAATTATTTTATAATTT
Found at i:167538 original size:28 final size:30
Alignment explanation
Indices: 167482--167538 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
167472 TATTTAAAAA
*
167482 ATAAAATAATTTATTTGATTTTTTAATTTT
1 ATAAAATAATTTATTTGATTTTTCAATTTT
* *
167512 ATAAAA-AA-TTATTTTATTTTTCCATTT
1 ATAAAATAATTTATTTGATTTTTCAATTT
167539 AATTTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 16 0.67
29 2 0.08
30 6 0.25
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (30 bp):
ATAAAATAATTTATTTGATTTTTCAATTTT
Found at i:181223 original size:18 final size:18
Alignment explanation
Indices: 181183--181231 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
181173 ATGGTGCTGG
181183 TGATGATGATGATGAAGA
1 TGATGATGATGATGAAGA
* **
181201 CGATGATGATGATGAATT
1 TGATGATGATGATGAAGA
*
181219 TGATGATGCTGAT
1 TGATGATGATGAT
181232 TCAGGAGCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.31, T:0.33
Consensus pattern (18 bp):
TGATGATGATGATGAAGA
Found at i:183815 original size:24 final size:24
Alignment explanation
Indices: 183788--183835 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
183778 TGGAAAGCAG
183788 GAAGGTGGTGTGAATGGTGTTCTT
1 GAAGGTGGTGTGAATGGTGTTCTT
183812 GAAGGTGGTGTGAATGGTGTTCTT
1 GAAGGTGGTGTGAATGGTGTTCTT
183836 TCTTGTGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.04, G:0.42, T:0.38
Consensus pattern (24 bp):
GAAGGTGGTGTGAATGGTGTTCTT
Found at i:195723 original size:21 final size:21
Alignment explanation
Indices: 195697--195737 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
195687 ATCTGCTCAA
* *
195697 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
195718 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
195738 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:203438 original size:12 final size:11
Alignment explanation
Indices: 203418--203482 Score: 58
Period size: 12 Copynumber: 5.5 Consensus size: 11
203408 AAAAATAAAT
*
203418 AAAATAATTTCA
1 AAAAAAATTT-A
203430 AAAAAAATTTA
1 AAAAAAATTTA
203441 AAATTAAAATTCTA
1 AAA--AAAATT-TA
*
203455 GAAAAAATTGTA
1 AAAAAAATT-TA
*
203467 AAAAATATTTA
1 AAAAAAATTTA
203478 AAAAA
1 AAAAA
203483 TTAAAATATT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
11 11 0.24
12 24 0.53
13 6 0.13
14 4 0.09
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (11 bp):
AAAAAAATTTA
Found at i:203490 original size:17 final size:18
Alignment explanation
Indices: 203468--203506 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
203458 AAAATTGTAA
203468 AAAATATTTAAAAAATT-
1 AAAATATTTAAAAAATTC
203485 AAAATATTTAAAAAATTC
1 AAAATATTTAAAAAATTC
203503 AAAA
1 AAAA
203507 ATAATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATATTTAAAAAATTC
Found at i:203506 original size:9 final size:9
Alignment explanation
Indices: 203456--203507 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
203446 AAAATTCTAG
203456 AAAAAATTGT
1 AAAAAATT-T
203466 AAAAAATATTT
1 -AAAAA-ATTT
203477 AAAAAA-TT
1 AAAAAATTT
*
203485 AAAATATTT
1 AAAAAATTT
*
203494 AAAAAATTC
1 AAAAAATTT
203503 AAAAA
1 AAAAA
203508 TAATAATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 7 0.19
9 15 0.42
10 5 0.14
11 6 0.17
12 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAAATTT
Found at i:203507 original size:37 final size:36
Alignment explanation
Indices: 203416--203507 Score: 89
Period size: 37 Copynumber: 2.4 Consensus size: 36
203406 TAAAAAATAA
203416 ATAAAATAATTTCAAAAAAAATTTAAAATTAAAATTCT
1 ATAAAA-AA-TTCAAAAAAAATTTAAAATTAAAATTCT
* * *
203454 AGAAAAAATTGTAAAAAATATTTAAAAAATTAAAATAT-T
1 ATAAAAAATT-CAAAAAAAATTT--AAAATTAAAAT-TCT
203493 -TAAAAAATTCAAAAA
1 ATAAAAAATTCAAAAA
203508 TAATAATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
36 2 0.04
37 17 0.38
38 13 0.29
39 12 0.27
40 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.30
Consensus pattern (36 bp):
ATAAAAAATTCAAAAAAAATTTAAAATTAAAATTCT
Found at i:211008 original size:10 final size:10
Alignment explanation
Indices: 210995--211020 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
210985 AAAATAATAA
210995 AAAAATTTTT
1 AAAAATTTTT
211005 AAAAATTTTT
1 AAAAATTTTT
211015 AAAAAT
1 AAAAAT
211021 AATATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAAATTTTT
Found at i:216513 original size:21 final size:21
Alignment explanation
Indices: 216488--216527 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
216478 AAAATTTATT
216488 TTTTAATATTATTTAATAAAA
1 TTTTAATATTATTTAATAAAA
* *
216509 TTTTAATGTTTTTTAATAA
1 TTTTAATATTATTTAATAA
216528 CCACTTCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTTTAATATTATTTAATAAAA
Found at i:218677 original size:31 final size:30
Alignment explanation
Indices: 218640--218701 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 30
218630 TATATTTCTA
*
218640 AATAAATATAATTA-AATCAAAATTAAAGTTT
1 AATAAATATAATTATAA--AAAATTAAAATTT
218671 AATAAATATAATTATAAAAAATTAAAATTT
1 AATAAATATAATTATAAAAAATTAAAATTT
218701 A
1 A
218702 TATCTCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 13 0.45
31 14 0.48
32 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (30 bp):
AATAAATATAATTATAAAAAATTAAAATTT
Found at i:220362 original size:5 final size:5
Alignment explanation
Indices: 220354--220381 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
220344 TAAAAAATTA
220354 TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TAT
220382 ATAAGGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:222501 original size:28 final size:29
Alignment explanation
Indices: 222438--222522 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 29
222428 TACCCATTTA
* * *
222438 TAAATTTATTATTATTTAATGTAGAAAATAT
1 TAAATTAATT-TTATTTTATATA-AAAATAT
222469 TAAATTAATTTTATTTTAT-TAAAAAT-T
1 TAAATTAATTTTATTTTATATAAAAATAT
* * *
222496 TGAAATAAATTATATTTTTTATAAAAA
1 T-AAATTAATTTTATTTTATATAAAAA
222523 AATGAGATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
27 2 0.04
28 20 0.43
29 8 0.17
30 8 0.17
31 9 0.19
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
TAAATTAATTTTATTTTATATAAAAATAT
Found at i:227494 original size:17 final size:17
Alignment explanation
Indices: 227472--227505 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
227462 GGTGGTAGGA
227472 GGAAACAGATCCTCAAC
1 GGAAACAGATCCTCAAC
227489 GGAAACAGATCCTCAAC
1 GGAAACAGATCCTCAAC
227506 TGATTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.18, T:0.12
Consensus pattern (17 bp):
GGAAACAGATCCTCAAC
Found at i:229186 original size:16 final size:16
Alignment explanation
Indices: 229165--229196 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
229155 TACATCTAAT
229165 GTCACTAAGCTATTAG
1 GTCACTAAGCTATTAG
*
229181 GTCACTAAGGTATTAG
1 GTCACTAAGCTATTAG
229197 TAAGTTTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (16 bp):
GTCACTAAGCTATTAG
Found at i:238993 original size:20 final size:19
Alignment explanation
Indices: 238950--238994 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
238940 ATTTTTTCTT
*
238950 TTAAATTTTGTTTATATTA
1 TTAAATTTTGTATATATTA
238969 TTAAATTTTG-ATATAATTGA
1 TTAAATTTTGTATAT-ATT-A
238989 TTAAAT
1 TTAAAT
238995 AATTAATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 13 0.57
20 7 0.30
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (19 bp):
TTAAATTTTGTATATATTA
Found at i:257910 original size:15 final size:15
Alignment explanation
Indices: 257890--257932 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
257880 TGGCACCAAA
257890 AGCTGAGAAGAAGCC
1 AGCTGAGAAGAAGCC
257905 AGCTGAGAAGAAGCC
1 AGCTGAGAAGAAGCC
* *
257920 AGCGGAGGAGAAG
1 AGCTGAGAAGAAG
257933 AAGACGGTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.40, C:0.16, G:0.40, T:0.05
Consensus pattern (15 bp):
AGCTGAGAAGAAGCC
Found at i:260630 original size:33 final size:33
Alignment explanation
Indices: 260593--260658 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
260583 AGGCAAGATT
*
260593 TGAAGAGTTTATAGCCAATTCACACCAAACTAA
1 TGAAGAGTTTATAGCAAATTCACACCAAACTAA
260626 TGAAGAGTTTATAGCAAATTCACACCAAACTAA
1 TGAAGAGTTTATAGCAAATTCACACCAAACTAA
260659 CTTGAGATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (33 bp):
TGAAGAGTTTATAGCAAATTCACACCAAACTAA
Found at i:263519 original size:246 final size:251
Alignment explanation
Indices: 263064--263522 Score: 554
Period size: 246 Copynumber: 1.8 Consensus size: 251
263054 AAAATACAAC
* ** *
263064 AGAGAAAGATAAACAAAAAGATTGAAAATAATTTTAATTTTTGGTAATTGTCACTCAACTTAGAT
1 AGAGAAAGATAAACAAAAAGATTGAAAATAATTTTAACTTTTGGTAACCGTCACTCAACTTAGAA
* * * * * *
263129 TTCTTTTTTTTTTTTCCTTTTCTCTTCTTCTAATGTCTAGTTAGGGTTTTTATTGGAGCTGTTTA
66 TTCTTTTTTCTTTTTCC---TCTCTTCTTATAATATCCAATTAGGGTTTTTATCGGAGCTGTTTA
* * * **
263194 AATGACAACATAGACTCCAGCATGGCTAGTTAAATGTCGCGTCAATTCACCATTATGTTTGTAAC
128 AATGACAACATAGACTCCAACATGGCTAGTTAAATGCCACGTCAATTCACCATTACATTTGTAAC
*
263259 GGAAAACGGTTAGTAGGACCGAGTTGTTGTTTTTTGAAAATTGAGTGATTGTTGTAAAG
193 GGAAAACAGTTAGTAGGACCGAGTTGTTGTTTTTTGAAAATTGAGTGATTGTTGTAAAG
263318 AGAGAAAGATAAACAAAGAA-ATTGAAAATAATTTTAACTTTTGGTAACCGTCACTCAAC-TAGA
1 AGAGAAAGATAAACAAA-AAGATTGAAAATAATTTTAACTTTTGGTAACCGTCACTCAACTTAGA
* * *
263381 ATT-TTTTTTCTTTTT-C-C-CTTCTTATACTATCCAATTAGGGTTTTTATCGGGGTTGTTTAAA
65 ATTCTTTTTTCTTTTTCCTCTCTTCTTATAATATCCAATTAGGGTTTTTATCGGAGCTGTTTAAA
* * * * ***** *
263442 TGACAACATAGGCTCCAACGTGGC-CGTTTAAATGCCATGTCAATTTTTTGTTACATTTGTAATG
130 TGACAACATAGACTCCAACATGGCTAG-TTAAATGCCACGTCAATTCACCATTACATTTGTAACG
*
263506 GAAAATAGTTAGTAGGA
194 GAAAACAGTTAGTAGGA
263523 ATGTTTTGCT
Statistics
Matches: 173, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
245 1 0.01
246 98 0.57
247 1 0.01
251 1 0.01
252 11 0.06
253 6 0.03
254 53 0.31
255 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.39
Consensus pattern (251 bp):
AGAGAAAGATAAACAAAAAGATTGAAAATAATTTTAACTTTTGGTAACCGTCACTCAACTTAGAA
TTCTTTTTTCTTTTTCCTCTCTTCTTATAATATCCAATTAGGGTTTTTATCGGAGCTGTTTAAAT
GACAACATAGACTCCAACATGGCTAGTTAAATGCCACGTCAATTCACCATTACATTTGTAACGGA
AAACAGTTAGTAGGACCGAGTTGTTGTTTTTTGAAAATTGAGTGATTGTTGTAAAG
Found at i:263645 original size:30 final size:31
Alignment explanation
Indices: 263611--263673 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
263601 TAGAAGGGTC
*
263611 TTTATAATTTTTAAAGGATTAAATCA-AATT
1 TTTATAATTTTTAAAGGAGTAAATCATAATT
* *
263641 TTTATAATTTTTAAGGGAGTAAATTATAATT
1 TTTATAATTTTTAAAGGAGTAAATCATAATT
263672 TT
1 TT
263674 ACCTTTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 23 0.79
31 6 0.21
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.49
Consensus pattern (31 bp):
TTTATAATTTTTAAAGGAGTAAATCATAATT
Found at i:268741 original size:107 final size:108
Alignment explanation
Indices: 268571--268786 Score: 398
Period size: 107 Copynumber: 2.0 Consensus size: 108
268561 AAAAAACACG
*
268571 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAAGTTTGTTAGAAATTTTATTATTT
*
268636 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTATTTTGTTAAACTAA
268679 TCAAAAATTTTAT-AGAGTAATTAACAAAAATTTTAATACAAGTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAAGTTTGTTAGAAATTTTATTATTT
*
268743 AAAACTTATTCTAACTTAACATATCATTATTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTATTTTGTTAAACTAA
268786 T
1 T
268787 TTTTTGTTTA
Statistics
Matches: 105, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 92 0.88
108 13 0.12
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (108 bp):
TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAAGTTTGTTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTATTTTGTTAAACTAA
Found at i:273087 original size:23 final size:24
Alignment explanation
Indices: 273054--273100 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
273044 AGGTTTCGTC
273054 TTTCGTAGAAAT-GGGGGTAAGGG
1 TTTCGTAGAAATGGGGGGTAAGGG
*
273077 TTTCGTTGAAATGGGGGGTAAGGG
1 TTTCGTAGAAATGGGGGGTAAGGG
273101 GTTTGAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.23, C:0.04, G:0.45, T:0.28
Consensus pattern (24 bp):
TTTCGTAGAAATGGGGGGTAAGGG
Found at i:273487 original size:9 final size:9
Alignment explanation
Indices: 273462--273507 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
273452 TCGAAAAAAA
273462 AATTCGAGTT
1 AATTCGA-TT
*
273472 GATTCGATT
1 AATTCGATT
273481 AATTCGATT
1 AATTCGATT
*
273490 AACTCGATT
1 AATTCGATT
*
273499 AACTCGATT
1 AATTCGATT
273508 CGAATAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (9 bp):
AATTCGATT
Found at i:275767 original size:890 final size:872
Alignment explanation
Indices: 274041--276671 Score: 2492
Period size: 890 Copynumber: 3.0 Consensus size: 872
274031 GTAGAATTAA
* * *
274041 ATTTTGAAGTTGAAGGTTTGAGTTTAGGTTTTATCATACTCATTAAGCTTT---A-CTAA--A--
1 ATTTTAAAGTTGAAGGTTTGAGTTTGGGTTTTATCATACTCATTAAGCTTTACCACCAAACCACG
* * * *
274098 ACGATTCTACTCGTTATCCATTAAGCAAAGAGAAATTAAAGAT---AAAAAATAAAATAACAACC
66 ACGATTATACTCGTTATCCATTAAGCAAAAAG-AATTAAAGATAAAAAAAAATCAAACAACAACC
* * * * * * * * *
274160 CATAAAAATTAAACTCCAATTCTAAAATCAA-TCACTTCAATTTTAAAAAAGAAGTCAAGATACA
130 TATCAAAATTAACCT-AAATTCTAAAAT-AAGTCTCTTCAATGTCAAGAAAGAAGTCAAGATAAA
* * *
274224 TGAAACCCTTAAATTCTTTTCCAAAAGAGAACGAAAATAATGAGGTAAAAATAATTGTTTGATAC
193 TGAAACCCTTAAATTATTTTCCAAAA-AGAAAG-GAATAATGAGGTAAAAATAATTGTTTGATAC
* * * * * * *
274289 AAAATC-AAAAAGCAAAGAGAGAGA-AA-CAAACAG-AGAAAATACAGCTTTCGTGAAATCAAAT
256 AAAA-CAAAAAAGCAAAAAGAAAGATAAGCAAACGGAAAAAAATACAGCTTTCATGAAATTAAAG
274350 GATTAAAATTGGGGGAAGAAAAAAGAAAATAATACCTAAATTTCCCCTCTATTTTCTCTCTTTGA
320 GATTAAAATTGGGGG-A-AAAAAAGAAAATAATACCTAAATTT-CCCTCTATTTTC-CT-TTTGA
* * * * * * *
274415 TTGTTAGAA-AAAACATTATCTTCATCTTTTCAGGATTTATT---AAT--A---A------AGAT
380 TCGTTGGAAGAAATC-TTATCTTCCTCTTTCCAGGATTTGTTAACAATGCATTGAGTTTTTGGAT
* * *
274465 GAATGGATTATTCTAAAGAGAGAAAAATACAACAGAGAAAGATAAATAAAAAGATTGAAAATAAT
444 GAAGGGATTATTCTAAAGAGAGAAAAATATAACAGAGAAAGATAAACAAAAA-ATTGAAAATAAT
* * *
274530 TTTAATTTTTGGTAACCGTCACTCAACTTGGATTTCTATTTTTTTTTCTTTTTCTCTTCTTCTTC
508 TTTAATTTTTGGTAACTGTCACTCAACTAGG------A-TTTTTTTTCTTTTTC-C--CTTCTTA
* * * * * * * * *
274595 TAATGTCTAGTTAGGGTTTTTATTGGAGCTGTTTAAATAACAACATAGACTCCAACGTGGCTAG-
563 TACTATCCAATTAGGGTTTTTATAGG-GTTGTTTAAATGACAACATAGGCTCCAACGTGG-TCGT
** * * * * *
274659 TTAAATGCCGCGAT-AATCTACCATTATATTTGTAACGGAAAATGGTTAG-TAGAACCGATTTGT
626 TTAAATGCCATG-TCAATTTATCGTTACATTTGTAACGGAAAATGGTTAGTTGGAA-CGA-TT-T
* * * *
274722 TGTTTTTTAAAAATTGAGTGACTGTTTTATCATTAAAATCAAAATTAAACGGCTGTTGGACATGA
687 TGTTTTTTAAAAGTTGAGTGACTGTTTTATCATTGAAATCAAAATTAAATGACTGTTGGACATGA
*
274787 GGAGCAAAAGGGTCTTCTTCATCTTCTAAAACTGGTCCCTTCTTTCTTTTCCCCCATTTT-TTTC
752 GGAGCAGAAGGGTCTTCTT--TCTTCTAAAACTGGTCCCTTCTTTCTTTTCCCCCATTTTCTTT-
* * *
274851 ATTTTAATTTTCTTTT-TTTCTTGTGTTCTATATTTAAAATAATCTCATTTGATAGATTTTG
814 ATTTT--TTTTCTTTTGTTT-TTGTGTTCTATATCTAGAATAATCTCATTTGATAGAGTTTG
* * * ** *
274912 ATTTTAAAGTTGAAGGTTTGGGTTTGGGTTTTGTCATATTTGTTAAGCTTTACCATCAAACCACG
1 ATTTTAAAGTTGAAGGTTTGAGTTTGGGTTTTATCATACTCATTAAGCTTTACCACCAAACCACG
* * * *
274977 ACGATTATATTCGTTATCTATTAATCAAAAAGAAATT-AA-AT-ATAAAAAATCAAACAACAATC
66 ACGATTATACTCGTTATCCATTAAGCAAAAAG-AATTAAAGATAAAAAAAAATCAAACAACAA-C
* *
275039 C-AT-AAATATTAAACCCTAAA-TCTAAAATAAGT-TGTTTTAATGTCAAGAAAGAAGTCAAATA
129 CTATCAAA-ATT-AA-CCTAAATTCTAAAATAAGTCT-CTTCAATGTCAAGAAAGAAG-------
* *
275100 ATCAAAAGATAAATGAAACCCTTAAATTTTTTTTTCAAACAAGAAAGGAATCAATGAGGTAAAAA
183 -TC--AAGATAAATGAAACCCTTAAA-TTATTTTCCAAA-AAGAAAGGAAT-AATGAGGTAAAAA
* *
275165 TAATTGTTTGTTACAAAACAAAAAAGCAAAAAGAAAGATAAGGAAACGGAAAAAAATACAGCTTT
242 TAATTGTTTGATACAAAACAAAAAAGCAAAAAGAAAGATAAGCAAACGGAAAAAAATACAGCTTT
* *
275230 CATAAAATTAAAGGATTAAAATT-GGGGAAAAAAAGAACATAATACCTAAATTTCCTCTCTATTT
307 CATGAAATTAAAGGATTAAAATTGGGGGAAAAAAAGAAAATAATACCTAAATTTCC-CTCTATTT
*
275294 TCCCTATTTGATCGTTGGAAGAAATCTTATATTCCTCTTTCCAGGATTTGTTAACAATTGCATTG
371 T-CCT-TTTGATCGTTGGAAGAAATCTTATCTTCCTCTTTCCAGGATTTGTTAACAA-TGCATTG
* *
275359 AGTTTTTGGATGAAGGGACTGTTCTAAAGAGAGAAAAATATAACAGAGAAATG-TAAACAAACAA
433 AGTTTTTGGATGAAGGGATTATTCTAAAGAGAGAAAAATATAACAGAGAAA-GATAAACAAA-AA
* * *
275423 ATTGAAAATAATTTTAAGTTTTGGTAACTGTCACTCAACTAGGATTTTTTTTCTTTTTCCCATAT
496 ATTGAAAATAATTTTAATTTTTGGTAACTGTCACTCAACTAGGATTTTTTTTCTTTTTCCCTTCT
* *
275488 TATACTATCCAATTAGGGTTTTTATCAGGGTTATTTAAATGACAACATAGGCTCCACCGTGGTCG
561 TATACTATCCAATTAGGGTTTTTAT-AGGGTTGTTTAAATGACAACATAGGCTCCAACGTGGTCG
* * * *
275553 TTTAAATGCCATGTCAATTTTTCGTTACCTTTGTAACGGAAAATAGTTAGTTGGAATGATTTTGT
625 TTTAAATGCCATGTCAATTTATCGTTACATTTGTAACGGAAAATGGTTAGTTGGAACGATTTTGT
* * * * *
275618 AATTTTTGAAAGTTGAATGTCTATTTTATCATTGAAATCAAATTTAAATGACTGTTGGACATGAG
690 --TTTTTAAAAGTTGAGTGACTGTTTTATCATTGAAATCAAAATTAAATGACTGTTGGACATGAG
*
275683 GAGCAGAAGGGTCTTC-TTCTTCTAAAACTGGTCCCTTATTTCTTTTCCCCTC-TTTTCTTTATT
753 GAGCAGAAGGGTCTTCTTTCTTCTAAAACTGGTCCCTTCTTTCTTTTCCCC-CATTTTCTTTATT
** *
275746 TTTTTTCTTTTGTTTTTGTGTTCTATATCTAGACCAATCTCATTTGGTAGAGTTTG
817 TTTTTTCTTTTGTTTTTGTGTTCTATATCTAGAATAATCTCATTTGATAGAGTTTG
*
275802 ATTTTGAAGTTGAAGGTTTGAGTTTGGGTTTTATCATACTCATTAAGCTTTACCACCAAACCACG
1 ATTTTAAAGTTGAAGGTTTGAGTTTGGGTTTTATCATACTCATTAAGCTTTACCACCAAACCACG
275867 ACGATTATACTCGTTATCCATTAAGCAAAAAGAATTAAAAGATAAAAAAAAATCAAACAACAACC
66 ACGATTATACTCGTTATCCATTAAGCAAAAAGAATT-AAAGATAAAAAAAAATCAAACAACAACC
* * *
275932 TATCAAAATTAACCTAAATTCTGAAATCAGTCTCTTCAATTTCAAGAAAGAAGTCAAGATAAATG
130 TATCAAAATTAACCTAAATTCTAAAATAAGTCTCTTCAATGTCAAGAAAGAAGTCAAGATAAATG
* ** * *
275997 ACACCCTTAAAAAATTTTCCAAATGAGAAAGGAAATAATGAGGTAAAAATAATTATTTGATACAA
195 AAACCCTTAAATTATTTTCCAAA-AAGAAAGG-AATAATGAGGTAAAAATAATTGTTTGATAC-A
* *
276062 AAAAAAAAAAG-AAGGTAAAGAGACAAATAAGCAAACGGAAAAAAAATACAGCTTTCATGAAATT
257 AAACAAAAAAGCAA---AAAGA-A-AGATAAGCAAACGG-AAAAAAATACAGCTTTCATGAAATT
* *** **
276126 AAAGGATTAAAATTAGGGGGGGGGGAGGGAAGAAAATAATACCTGGATTT-CC-C----TT--TT
316 AAAGGATTAAAATT-----GGGGGAAAAAAAGAAAATAATACCTAAATTTCCCTCTATTTTCCTT
* * * * * * **
276183 TTGATCATTGGAAGAAATTTTCTCTTCCTCTTTCTAGGGTTTGCTAACAGCCGCATTGAGTTTTT
376 TTGATCGTTGGAAGAAATCTTATCTTCCTCTTTCCAGGATTTGTTAACA-ATGCATTGAG-TTTT
* * * * *
276248 TCGGA-GAAGGGATTCTTTTAAA-A-AGAGAAATATAATAGAGAAAGATAAACAAAGAATTTGAA
439 T-GGATGAAGGGATTATTCTAAAGAGAGAAAAATATAACAGAGAAAGATAAACAAA-AAATTGAA
* * *
276310 AATAAATTTAATTTTTGGTAATTGTCACTCAAATCTA--TTTTCTTTTTCTTTTTCCCTTCTTCA
502 AATAATTTTAATTTTTGGTAACTGTCACTC-AA-CTAGGATTT-TTTTTCTTTTTCCCTTCTT-A
* * * **
276373 TGTACTATCCAATTAGGGTTTTTATTGGGGTTGTTTAAATGACAACATAGGCTTCAACATGACCG
563 --TACTATCCAATTAGGGTTTTTA-TAGGGTTGTTTAAATGACAACATAGGCTCCAACGTGGTCG
* * ** * * * * *
276438 TTTAAATGGCATGTCAAATCGTCGTTACATTTGTAACAGAAAATGGTTAATAGGACCAATTTGTT
625 TTTAAATGCCATGTCAATTTATCGTTACATTTGTAACGGAAAATGGTTAGTTGGAACGA-TT-TT
* * * *
276503 GGTTTTTT-AAAGTTGAGTAACTGTTTTATTATTGAAATGAAAATCAAATGACTGTTGGACATGA
688 -GTTTTTTAAAAGTTGAGTGACTGTTTTATCATTGAAATCAAAATTAAATGACTGTTGGACATGA
* ** * *
276567 AGAGC-GAAATAGTCTTCTTTTTCTTCTAAAA-TCAGTCCCTTCTTTATTTTCCCCCATTTTCTT
752 GGAGCAG-AAGGGTCTTC--TTTCTTCTAAAACT-GGTCCCTTCTTTCTTTTCCCCCATTTTCTT
* **
276630 CAAATTTTTTCTTTTGTTTTTGTGTTCTATATCTAGAATAAT
813 TATTTTTTTTCTTTTGTTTTTGTGTTCTATATCTAGAATAAT
276672 ATCAATTATT
Statistics
Matches: 1462, Mismatches: 194, Indels: 191
0.79 0.11 0.10
Matches are distributed among these distances:
871 44 0.03
874 1 0.00
875 3 0.00
877 3 0.00
878 7 0.00
879 76 0.05
880 7 0.00
881 107 0.07
882 105 0.07
883 24 0.02
884 11 0.01
885 162 0.11
886 22 0.02
887 44 0.03
888 75 0.05
889 30 0.02
890 262 0.18
891 21 0.01
892 84 0.06
893 90 0.06
894 10 0.01
895 160 0.11
896 7 0.00
897 1 0.00
898 15 0.01
899 2 0.00
905 86 0.06
906 3 0.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (872 bp):
ATTTTAAAGTTGAAGGTTTGAGTTTGGGTTTTATCATACTCATTAAGCTTTACCACCAAACCACG
ACGATTATACTCGTTATCCATTAAGCAAAAAGAATTAAAGATAAAAAAAAATCAAACAACAACCT
ATCAAAATTAACCTAAATTCTAAAATAAGTCTCTTCAATGTCAAGAAAGAAGTCAAGATAAATGA
AACCCTTAAATTATTTTCCAAAAAGAAAGGAATAATGAGGTAAAAATAATTGTTTGATACAAAAC
AAAAAAGCAAAAAGAAAGATAAGCAAACGGAAAAAAATACAGCTTTCATGAAATTAAAGGATTAA
AATTGGGGGAAAAAAAGAAAATAATACCTAAATTTCCCTCTATTTTCCTTTTGATCGTTGGAAGA
AATCTTATCTTCCTCTTTCCAGGATTTGTTAACAATGCATTGAGTTTTTGGATGAAGGGATTATT
CTAAAGAGAGAAAAATATAACAGAGAAAGATAAACAAAAAATTGAAAATAATTTTAATTTTTGGT
AACTGTCACTCAACTAGGATTTTTTTTCTTTTTCCCTTCTTATACTATCCAATTAGGGTTTTTAT
AGGGTTGTTTAAATGACAACATAGGCTCCAACGTGGTCGTTTAAATGCCATGTCAATTTATCGTT
ACATTTGTAACGGAAAATGGTTAGTTGGAACGATTTTGTTTTTTAAAAGTTGAGTGACTGTTTTA
TCATTGAAATCAAAATTAAATGACTGTTGGACATGAGGAGCAGAAGGGTCTTCTTTCTTCTAAAA
CTGGTCCCTTCTTTCTTTTCCCCCATTTTCTTTATTTTTTTTCTTTTGTTTTTGTGTTCTATATC
TAGAATAATCTCATTTGATAGAGTTTG
Found at i:289703 original size:12 final size:12
Alignment explanation
Indices: 289650--289715 Score: 51
Period size: 13 Copynumber: 5.2 Consensus size: 12
289640 TTTTTTATGA
289650 TTTAAAATTAAT
1 TTTAAAATTAAT
* *
289662 TTCAATATTTAAT
1 TTTAA-AATTAAT
**
289675 TTTTTAATTAAATT
1 TTTAAAATT-AA-T
289689 TTTAAAATTAAT
1 TTTAAAATTAAT
*
289701 TTTAATATTTAAT
1 TTTAA-AATTAAT
289714 TT
1 TT
289716 GATACTTAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
12 13 0.32
13 20 0.49
14 8 0.20
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (12 bp):
TTTAAAATTAAT
Found at i:289712 original size:13 final size:13
Alignment explanation
Indices: 289657--289728 Score: 51
Period size: 13 Copynumber: 5.6 Consensus size: 13
289647 TGATTTAAAA
*
289657 TTAATTTCAATAT
1 TTAATTTTAATAT
*
289670 TTAATTTT-TTAAT
1 TTAATTTTAAT-AT
* *
289683 TAAATTTTTAA-AA
1 TTAA-TTTTAATAT
289696 TTAATTTTAATAT
1 TTAATTTTAATAT
* *
289709 TTAA-TTTGATAC
1 TTAATTTTAATAT
289721 TTAATTTT
1 TTAATTTT
289729 TTTATTTCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
12 17 0.38
13 24 0.53
14 4 0.09
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (13 bp):
TTAATTTTAATAT
Found at i:289730 original size:39 final size:39
Alignment explanation
Indices: 289650--289730 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
289640 TTTTTTATGA
**
289650 TTTAAAATTAATTTCAATATTTAATTTTTTAATTAAATT
1 TTTAAAATTAATTTCAATATTTAATTTGATAATTAAATT
* * *
289689 TTTAAAATTAATTTTAATATTTAATTTGATACTTAATTT
1 TTTAAAATTAATTTCAATATTTAATTTGATAATTAAATT
289728 TTT
1 TTT
289731 TATTTCAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.58
Consensus pattern (39 bp):
TTTAAAATTAATTTCAATATTTAATTTGATAATTAAATT
Found at i:293887 original size:53 final size:53
Alignment explanation
Indices: 293825--293930 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
293815 GACATGGATT
293825 AGGTACGGATTGATTTAAACTGCAAGGGGCCCTCTGATCATCCAATGTGGGAC
1 AGGTACGGATTGATTTAAACTGCAAGGGGCCCTCTGATCATCCAATGTGGGAC
293878 AGGTACGGATTGATTTAAACTGCAAGGGGCCCTCTGATCATCCAATGTGGGAC
1 AGGTACGGATTGATTTAAACTGCAAGGGGCCCTCTGATCATCCAATGTGGGAC
293931 CAGCTTACCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (53 bp):
AGGTACGGATTGATTTAAACTGCAAGGGGCCCTCTGATCATCCAATGTGGGAC
Found at i:302534 original size:35 final size:35
Alignment explanation
Indices: 302490--302656 Score: 183
Period size: 35 Copynumber: 4.6 Consensus size: 35
302480 TCCTCATTGA
** *
302490 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* * ** *
302525 AATGCCATACTTACATTTCTTAACTTAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
302565 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
302600 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
302635 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
302657 CTTTGCCATG
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
35 85 0.75
39 3 0.03
40 25 0.22
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:302576 original size:75 final size:73
Alignment explanation
Indices: 302485--302656 Score: 208
Period size: 75 Copynumber: 2.4 Consensus size: 73
302475 GGTTTTCCTC
** * * * **
302485 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACTTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
*
302549 TTAGTATGG
65 TCAGTATGG
*
302558 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
302623 CTCAGTATGG
64 CTCAGTATGG
302633 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
302657 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 56 0.64
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.33
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:304053 original size:65 final size:66
Alignment explanation
Indices: 303965--304089 Score: 189
Period size: 65 Copynumber: 1.9 Consensus size: 66
303955 AATCTTATTT
303965 GTCGAATTTAGTGATCTCAAATCACCATTTCCGACACCACTG-AAAATTAGGCCGTTACATTACT
1 GTCGAATTTAGTGATCTCAAATCACCATTTCCGACACCACTGAAAAATTAGGCCGTTACATTACT
304029 C
66 C
* * ** * *
304030 GTCGGATTTAGTGATCTCGAATCACTGTTTCCGACACCACTGAAAAATTTGGCTGTTACA
1 GTCGAATTTAGTGATCTCAAATCACCATTTCCGACACCACTGAAAAATTAGGCCGTTACA
304090 CAACATCATA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
65 38 0.72
66 15 0.28
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (66 bp):
GTCGAATTTAGTGATCTCAAATCACCATTTCCGACACCACTGAAAAATTAGGCCGTTACATTACT
C
Found at i:305716 original size:47 final size:47
Alignment explanation
Indices: 305647--305768 Score: 133
Period size: 47 Copynumber: 2.6 Consensus size: 47
305637 GTGCCGTTGT
* * * *
305647 CATGTCCCATACATGGCCTTACACTGGCTCAT-ATCTC-AAGTCAATG
1 CATGTCCCAGACAAGGTCTTACACTGGCT-ATCATCTCGAAGCCAATG
* *
305693 CCATGTCCCAGACAAGGTCTTACACTGGCTATCATCTCGTAGCCGATG
1 -CATGTCCCAGACAAGGTCTTACACTGGCTATCATCTCGAAGCCAATG
* *
305741 CATGTCCCAGAC-ATGTCTTACACCGGCT
1 CATGTCCCAGACAAGGTCTTACACTGGCT
305769 TAAGTCTAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
46 16 0.25
47 43 0.66
48 6 0.09
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACAAGGTCTTACACTGGCTATCATCTCGAAGCCAATG
Found at i:311098 original size:26 final size:26
Alignment explanation
Indices: 311063--311170 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
311053 TGAAATGCCC
* *
311063 ATCATAGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
311089 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
311115 ATTATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
311141 ATCACGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
311167 ATCA
1 ATCA
311171 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:311924 original size:28 final size:28
Alignment explanation
Indices: 311892--311946 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
311882 TTTTATCGAA
311892 TTTCTTCGCATCTTAAGCCTAGCGGAAG
1 TTTCTTCGCATCTTAAGCCTAGCGGAAG
311920 TTTCTTCGCATCTTAAGCCTAGCGGAA
1 TTTCTTCGCATCTTAAGCCTAGCGGAA
311947 CTCTTTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (28 bp):
TTTCTTCGCATCTTAAGCCTAGCGGAAG
Found at i:316050 original size:13 final size:13
Alignment explanation
Indices: 316032--316107 Score: 70
Period size: 13 Copynumber: 5.8 Consensus size: 13
316022 CTAATTCTAA
316032 CACCCCACTAAAC
1 CACCCCACTAAAC
* *
316045 CACCCCATTAACTCCAA
1 CACCCCACTAA----AC
316062 CACCCCACTAAAC
1 CACCCCACTAAAC
316075 CACCCCACT--A-
1 CACCCCACTAAAC
316085 -ACCCCACTAAAC
1 CACCCCACTAAAC
316097 CACCCCACTAA
1 CACCCCACTAA
316108 TTCCAACACC
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
9 8 0.16
11 2 0.04
13 30 0.59
17 11 0.22
ACGTcount: A:0.37, C:0.53, G:0.00, T:0.11
Consensus pattern (13 bp):
CACCCCACTAAAC
Found at i:316064 original size:30 final size:30
Alignment explanation
Indices: 316018--316253 Score: 223
Period size: 30 Copynumber: 7.8 Consensus size: 30
316008 CCCAAATCAT
* *
316018 CCCACTAATTCTAACACCCCACTAAACCAC
1 CCCACTAACTCCAACACCCCACTAAACCAC
*
316048 CCCATTAACTCCAACACCCCACTAAACCAC
1 CCCACTAACTCCAACACCCCACTAAACCAC
* *
316078 CCCACTAACCCCACTAAACCACCCCACTAATTCCAACAC
1 CCCACTAA-CTC-C--AA-CACCCCACTAA----ACCAC
*
316117 CCCACTAACTCCAACACCCCACTAAACCAT
1 CCCACTAACTCCAACACCCCACTAAACCAC
** *
316147 CCCACTAACTCCATTACCCCACT------T
1 CCCACTAACTCCAACACCCCACTAAACCAC
* *
316171 GCCACTAACTCCAATACCCCACTAAACCAC
1 CCCACTAACTCCAACACCCCACTAAACCAC
316201 CCCACTAACTCCAACACCCCACTAAACCAC
1 CCCACTAACTCCAACACCCCACTAAACCAC
* * *
316231 TCCACCAACTCCATCACCCCACT
1 CCCACTAACTCCAACACCCCACT
316254 TGCCTACAAA
Statistics
Matches: 172, Mismatches: 19, Indels: 30
0.78 0.09 0.14
Matches are distributed among these distances:
24 22 0.13
30 106 0.62
31 2 0.01
32 1 0.01
34 13 0.08
35 13 0.08
37 1 0.01
38 2 0.01
39 12 0.07
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.15
Consensus pattern (30 bp):
CCCACTAACTCCAACACCCCACTAAACCAC
Found at i:316088 original size:22 final size:22
Alignment explanation
Indices: 316063--316107 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
316053 TAACTCCAAC
316063 ACCCCACTAAACCACCCCACTA
1 ACCCCACTAAACCACCCCACTA
316085 ACCCCACTAAACCACCCCACTA
1 ACCCCACTAAACCACCCCACTA
316107 A
1 A
316108 TTCCAACACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.53, G:0.00, T:0.09
Consensus pattern (22 bp):
ACCCCACTAAACCACCCCACTA
Found at i:316117 original size:17 final size:17
Alignment explanation
Indices: 316097--316225 Score: 85
Period size: 17 Copynumber: 7.6 Consensus size: 17
316087 CCCACTAAAC
*
316097 CACCCCACTAATTCCAA
1 CACCCCACTAACTCCAA
316114 CACCCCACTAACTCCAA
1 CACCCCACTAACTCCAA
*
316131 CACCCCACTAA----AC
1 CACCCCACTAACTCCAA
*
316144 CATCCCACTAACTCCATTA
1 CACCCCACTAACTCCA--A
*
316163 CCCCACTTGCCACTAACTCCAA
1 ---CAC--CCCACTAACTCCAA
* *
316185 TACCCCACTAA----AC
1 CACCCCACTAACTCCAA
316198 CACCCCACTAACTCCAA
1 CACCCCACTAACTCCAA
316215 CACCCCACTAA
1 CACCCCACTAA
316226 ACCACTCCAC
Statistics
Matches: 86, Mismatches: 11, Indels: 30
0.68 0.09 0.24
Matches are distributed among these distances:
13 22 0.26
17 47 0.55
19 2 0.02
22 3 0.03
24 12 0.14
ACGTcount: A:0.34, C:0.50, G:0.01, T:0.16
Consensus pattern (17 bp):
CACCCCACTAACTCCAA
Found at i:316180 original size:24 final size:24
Alignment explanation
Indices: 316148--316193 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
316138 CTAAACCATC
*
316148 CCACTAACTCCATTACCCCACTTG
1 CCACTAACTCCAATACCCCACTTG
316172 CCACTAACTCCAATACCCCACT
1 CCACTAACTCCAATACCCCACT
316194 AAACCACCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.48, G:0.02, T:0.22
Consensus pattern (24 bp):
CCACTAACTCCAATACCCCACTTG
Found at i:316182 original size:54 final size:54
Alignment explanation
Indices: 316118--316223 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
316108 TTCCAACACC
* **
316118 CCACTAACTCCAACACCCCACTAAACCATCCCACTAACTCCATTACCCCACTTG
1 CCACTAACTCCAACACCCCACTAAACCACCCCACTAACTCCAACACCCCACTTG
*
316172 CCACTAACTCCAATACCCCACTAAACCACCCCACTAACTCCAACACCCCACT
1 CCACTAACTCCAACACCCCACTAAACCACCCCACTAACTCCAACACCCCACT
316224 AAACCACTCC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.33, C:0.50, G:0.01, T:0.16
Consensus pattern (54 bp):
CCACTAACTCCAACACCCCACTAAACCACCCCACTAACTCCAACACCCCACTTG
Found at i:316725 original size:3 final size:3
Alignment explanation
Indices: 316717--316745 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
316707 GGGAGAGTGC
316717 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
316746 CTACCACTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:316814 original size:29 final size:30
Alignment explanation
Indices: 316772--316829 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
316762 TATTAACATA
316772 TTATCATCATTTTTAC-TATATTATTATTC
1 TTATCATCATTTTTACTTATATTATTATTC
* * *
316801 TTATTATCATTTTTTCTTATTTTATTATT
1 TTATCATCATTTTTACTTATATTATTATT
316830 AGTACATGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (30 bp):
TTATCATCATTTTTACTTATATTATTATTC
Found at i:318432 original size:26 final size:26
Alignment explanation
Indices: 318403--318506 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
318393 TGGTACAAAT
318403 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
318429 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
318455 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
318481 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
318507 AGATGGGAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:320047 original size:26 final size:26
Alignment explanation
Indices: 319995--320047 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
319985 TTTACAGTTT
*
319995 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
320021 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
320047 T
1 T
320048 GCATGTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:322970 original size:28 final size:28
Alignment explanation
Indices: 322930--323112 Score: 192
Period size: 28 Copynumber: 6.5 Consensus size: 28
322920 AAACGAACGG
*
322930 CACTTAGCGTGCGAAGTATTGAGGATGA
1 CACTTAGTGTGCGAAGTATTGAGGATGA
*
322958 CACTTAGTGTGCGAAGTATTGAGGATGG
1 CACTTAGTGTGCGAAGTATTGAGGATGA
* *
322986 CACTTAGTGTGC-AAGACATCTGA-AATGA
1 CACTTAGTGTGCGAAG-TAT-TGAGGATGA
** *
323014 CACTTAGTGTATGAAGTATTGATGATGA
1 CACTTAGTGTGCGAAGTATTGAGGATGA
** * * *
323042 CACTTAGTGTGCGAAACATCCGA-AATGG
1 CACTTAGTGTGCGAAGTAT-TGAGGATGA
* *
323070 CACTTAGTGTGCGAAGTATCGAGGATGG
1 CACTTAGTGTGCGAAGTATTGAGGATGA
323098 CACTTAGTGTGCGAA
1 CACTTAGTGTGCGAA
323113 ACATCCGGTA
Statistics
Matches: 130, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
27 9 0.07
28 113 0.87
29 8 0.06
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (28 bp):
CACTTAGTGTGCGAAGTATTGAGGATGA
Found at i:323017 original size:56 final size:56
Alignment explanation
Indices: 322954--323119 Score: 253
Period size: 56 Copynumber: 3.0 Consensus size: 56
322944 AGTATTGAGG
*
322954 ATGACACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCTGAA
1 ATGACACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGAA
** * *
323010 ATGACACTTAGTGTATGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGAA
1 ATGACACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAA
* *
323066 ATGGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCG
1 ATGACACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCG
323120 GTATAGCACT
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
56 96 0.98
57 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (56 bp):
ATGACACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAA
Found at i:323102 original size:84 final size:84
Alignment explanation
Indices: 322928--323112 Score: 214
Period size: 84 Copynumber: 2.2 Consensus size: 84
322918 CCAAACGAAC
* * ** * *
322928 GGCACTTAGCGTGCGAAGTATTGAGGATGACACTTAGTGTGCGAAGTATTGAGGATGGCACTTAG
1 GGCACTTAGTGTACGAAGTATTGAGGATGACACTTAGTGTGCGAAACATCGAGAATGGCACTTAG
322993 TGTGCAAGACATCTGAAAT
66 TGTGCAAGACATCTGAAAT
* * *
323012 GACACTTAGTGTATGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGA-AATGGCACTTA
1 GGCACTTAGTGTACGAAGTATTGAGGATGACACTTAGTGTGCGAAACAT-CGAGAATGGCACTTA
* *
323076 GTGTGCGAAG-TATC-GAGGAT
65 GTGTGC-AAGACATCTGA-AAT
*
323096 GGCACTTAGTGTGCGAA
1 GGCACTTAGTGTACGAA
323113 ACATCCGGTA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
83 2 0.02
84 77 0.92
85 5 0.06
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (84 bp):
GGCACTTAGTGTACGAAGTATTGAGGATGACACTTAGTGTGCGAAACATCGAGAATGGCACTTAG
TGTGCAAGACATCTGAAAT
Found at i:323128 original size:28 final size:28
Alignment explanation
Indices: 323042--323145 Score: 113
Period size: 28 Copynumber: 3.7 Consensus size: 28
323032 TTGATGATGA
*
323042 CACTTAGTGTGCGAAACATCCGAAATGG
1 CACTTAGTGTGCGAAACATCCGGAATGG
** *
323070 CACTTAGTGTGCGAAGTAT-CGAGGATGG
1 CACTTAGTGTGCGAAACATCCG-GAATGG
* *
323098 CACTTAGTGTGCGAAACATCCGGTATAG
1 CACTTAGTGTGCGAAACATCCGGAATGG
*
323126 CACTTAGCGTGC-AAGACATC
1 CACTTAGTGTGCGAA-ACATC
323146 GATTGTGCAG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
27 4 0.06
28 58 0.91
29 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (28 bp):
CACTTAGTGTGCGAAACATCCGGAATGG
Found at i:323147 original size:56 final size:56
Alignment explanation
Indices: 322958--323147 Score: 179
Period size: 56 Copynumber: 3.4 Consensus size: 56
322948 TTGAGGATGA
* * * * *
322958 CACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCTGAAAT-G
1 CACTTAGCGTGCGAAGCATCGAGGATGACACTTAGTGTGCGAA-ACATCCGAAATAG
* ** * * * *
323013 ACACTTAGTGTATGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGAAATGG
1 -CACTTAGCGTGCGAAGCATCGAGGATGACACTTAGTGTGCGAAACATCCGAAATAG
* * * **
323070 CACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGCGAAACATCCGGTATAG
1 CACTTAGCGTGCGAAGCATCGAGGATGACACTTAGTGTGCGAAACATCCGAAATAG
323126 CACTTAGCGTGC-AAGACATCGA
1 CACTTAGCGTGCGAAG-CATCGA
323148 TTGTGCAGCG
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
55 3 0.03
56 110 0.95
57 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (56 bp):
CACTTAGCGTGCGAAGCATCGAGGATGACACTTAGTGTGCGAAACATCCGAAATAG
Found at i:330811 original size:22 final size:22
Alignment explanation
Indices: 330783--330828 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
330773 CCTCTACTCT
330783 TCCAAAATTTGAATTTGGTACA
1 TCCAAAATTTGAATTTGGTACA
330805 TCCAAAATTTGAATTTGGTACA
1 TCCAAAATTTGAATTTGGTACA
330827 TC
1 TC
330829 TACTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (22 bp):
TCCAAAATTTGAATTTGGTACA
Found at i:334021 original size:23 final size:23
Alignment explanation
Indices: 333948--334029 Score: 71
Period size: 23 Copynumber: 3.5 Consensus size: 23
333938 CCAGTTTGTT
333948 AACTATAGTTAACTCTTCTGTAA
1 AACTATAGTTAACTCTTCTGTAA
* * * *
333971 AACTTTAGATAGGA-TAAGTT-TGT-T
1 AACTATAGTTA--ACT--CTTCTGTAA
333995 AACTATAGTTAACTCTTCTGTAA
1 AACTATAGTTAACTCTTCTGTAA
334018 AACTATAGTTAA
1 AACTATAGTTAA
334030 ATATATAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
21 2 0.05
22 4 0.09
23 22 0.50
24 10 0.23
25 4 0.09
26 2 0.05
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (23 bp):
AACTATAGTTAACTCTTCTGTAA
Found at i:341554 original size:23 final size:21
Alignment explanation
Indices: 341516--341564 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
341506 TATTTTAACA
*
341516 ATTTAAGATTTATTAATT-AT
1 ATTTAAGATTTATTTATTAAT
* *
341536 -TTCAAGATTTATTTTTTAAT
1 ATTTAAGATTTATTTATTAAT
341556 ATTTAAGAT
1 ATTTAAGAT
341565 GAATGTAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 14 0.61
20 2 0.09
21 7 0.30
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (21 bp):
ATTTAAGATTTATTTATTAAT
Found at i:344113 original size:2 final size:2
Alignment explanation
Indices: 344108--344140 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
344098 TCTCTCTGTC
344108 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
344141 CCATTTCTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:354153 original size:24 final size:24
Alignment explanation
Indices: 354126--354171 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
354116 TATGCATTAA
354126 ATTAAAAAATAAATTAATTTTTTT
1 ATTAAAAAATAAATTAATTTTTTT
* **
354150 ATTAAAAATTTTATTAATTTTT
1 ATTAAAAAATAAATTAATTTTT
354172 AGTGTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTAAAAAATAAATTAATTTTTTT
Found at i:354179 original size:25 final size:24
Alignment explanation
Indices: 354138--354184 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
354128 TAAAAAATAA
*
354138 ATTAATTTTTTTATTAAAAATTTT
1 ATTAATTTTTGTATTAAAAATTTT
*
354162 ATTAATTTTTAGTGTTAAAAATT
1 ATTAATTTTT-GTATTAAAAATT
354185 GACATGATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTAATTTTTGTATTAAAAATTTT
Found at i:357338 original size:29 final size:29
Alignment explanation
Indices: 357305--357361 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
357295 AGAAAGTCAC
*
357305 GAACTCTAAATATAAACTGTAAAATTGAT
1 GAACTCTAAATATAAACTATAAAATTGAT
357334 GAACTCTAAATATAAACTATAAAATTGA
1 GAACTCTAAATATAAACTATAAAATTGA
357362 CAAAGTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.30
Consensus pattern (29 bp):
GAACTCTAAATATAAACTATAAAATTGAT
Found at i:366503 original size:2 final size:2
Alignment explanation
Indices: 366496--366524 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
366486 GAATCTAAGT
366496 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
366525 ATAAACATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:388148 original size:23 final size:24
Alignment explanation
Indices: 388122--388171 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
388112 TTTTGAGCAA
*
388122 TTTAA-TTTTCTTTCTTTTATTCT
1 TTTAACTTTCCTTTCTTTTATTCT
* *
388145 TTTAACTTTCCTTTTTTTTTTTCT
1 TTTAACTTTCCTTTCTTTTATTCT
388169 TTT
1 TTT
388172 TTTTTCATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTAACTTTCCTTTCTTTTATTCT
Found at i:390297 original size:17 final size:17
Alignment explanation
Indices: 390275--390308 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
390265 AAAAGCTACT
390275 GTACAAGAGCCAAATCA
1 GTACAAGAGCCAAATCA
*
390292 GTACAAGTGCCAAATCA
1 GTACAAGAGCCAAATCA
390309 TAAATACTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.15
Consensus pattern (17 bp):
GTACAAGAGCCAAATCA
Found at i:393261 original size:31 final size:31
Alignment explanation
Indices: 393225--393331 Score: 117
Period size: 31 Copynumber: 3.5 Consensus size: 31
393215 CATTGTGAAG
* * *
393225 TATTTAAAATTTTTTATTTAAATCATTAAAT
1 TATTTAAAAATTTTTATTTAAATCACTAAAC
* * *
393256 TATTTAAAAATTTTCATTCAAGTCACTAAAC
1 TATTTAAAAATTTTTATTTAAATCACTAAAC
* *
393287 TATTTAAAAAATTTTATTTAAATAACTAAAC
1 TATTTAAAAATTTTTATTTAAATCACTAAAC
* *
393318 T-GTTAAATATTTTT
1 TATTTAAAAATTTTT
393332 TTATTTATTT
Statistics
Matches: 62, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
30 10 0.16
31 52 0.84
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (31 bp):
TATTTAAAAATTTTTATTTAAATCACTAAAC
Found at i:398549 original size:5 final size:5
Alignment explanation
Indices: 398539--398563 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
398529 TATATTTAAA
398539 ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT
398564 TTTCAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:401450 original size:16 final size:17
Alignment explanation
Indices: 401429--401461 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
401419 AAAAATATTC
401429 AAACAAAACAAA-AAAA
1 AAACAAAACAAAGAAAA
401445 AAACAAAACAAAGAAAA
1 AAACAAAACAAAGAAAA
401462 GAAAAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (17 bp):
AAACAAAACAAAGAAAA
Found at i:407103 original size:22 final size:22
Alignment explanation
Indices: 407077--407121 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
407067 TCTCATGAGA
407077 AACCTTAATAGGCAACAACATG
1 AACCTTAATAGGCAACAACATG
*
407099 AACCTTAATAGGCAGCAACATG
1 AACCTTAATAGGCAACAACATG
407121 A
1 A
407122 TCTTCATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (22 bp):
AACCTTAATAGGCAACAACATG
Found at i:408822 original size:2 final size:2
Alignment explanation
Indices: 408815--408847 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
408805 CATGACATTC
408815 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
408848 AAACTATACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:411758 original size:19 final size:19
Alignment explanation
Indices: 411731--411788 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
411721 TAGATTTATT
* *
411731 TAAAATAAAACATTAAATA
1 TAAATTAAAAAATTAAATA
*
411750 TAAATTAAAAAATAAAATA
1 TAAATTAAAAAATTAAATA
* *
411769 -AAATTTATAATATTAAATA
1 TAAA-TTAAAAAATTAAATA
411788 T
1 T
411789 TTAAATATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 3 0.10
19 28 0.90
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAATTAAAAAATTAAATA
Found at i:411795 original size:15 final size:15
Alignment explanation
Indices: 411767--411799 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
411757 AAAAATAAAA
411767 TAAAATTTATAATAT
1 TAAAATTTATAATAT
411782 TAAATATTTA-AATAT
1 TAAA-ATTTATAATAT
411797 TAA
1 TAA
411800 GAAATACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAAATTTATAATAT
Found at i:411915 original size:21 final size:23
Alignment explanation
Indices: 411890--411941 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
411880 TATAATATAT
* *
411890 AAAATGTTTTTT-TTAAATT-TA
1 AAAATATTTTTTATAAAATTCTA
411911 AAAATATTTTTTATAAAATTCTA
1 AAAATATTTTTTATAAAATTCTA
411934 AAATATAT
1 AAA-ATAT
411942 ATTTATTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 11 0.42
22 6 0.23
23 5 0.19
24 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
AAAATATTTTTTATAAAATTCTA
Found at i:412921 original size:26 final size:26
Alignment explanation
Indices: 412859--413016 Score: 201
Period size: 27 Copynumber: 5.9 Consensus size: 26
412849 GCGAGACTGC
* *
412859 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGA-A
*
412886 CAGATATTGTGGCAGATCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
412912 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
412938 CAGATAATTGTGGCATAGCCACCAGGA
1 CAGAT-ATTGTGGCAGAGCCACCAGAA
*
412965 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
*
412992 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
413017 GACGCTTCCT
Statistics
Matches: 117, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
26 33 0.28
27 81 0.69
28 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:412934 original size:53 final size:54
Alignment explanation
Indices: 412859--413016 Score: 225
Period size: 53 Copynumber: 3.0 Consensus size: 54
412849 GCGAGACTGC
* * * *
412859 CAGATATTGTGAC-GAAGTCACCAGATACAGAT-ATTGTGGCAGATCCACCAGAA
1 CAGATATTGTGGCAG-AGCCACCAGATACAGATAATTGTGGCATAGCCACCAGAA
*
412912 CAGATATTGTGGCAGAGCCACCAGA-ACAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATTGTGGCAGAGCCACCAGATACAGATAATTGTGGCATAGCCACCAGAA
412965 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAG
1 CAGATAT-TGTGGCAGAGCCACCAGATACAGATAATTGTGGCATAGCCACCAG
413017 GACGCTTCCT
Statistics
Matches: 96, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
52 6 0.06
53 46 0.48
54 44 0.46
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CAGATATTGTGGCAGAGCCACCAGATACAGATAATTGTGGCATAGCCACCAGAA
Found at i:412997 original size:54 final size:53
Alignment explanation
Indices: 412859--413019 Score: 227
Period size: 54 Copynumber: 3.0 Consensus size: 53
412849 GCGAGACTGC
* * * * *
412859 CAGATATTGTGAC-GAAGTCACCAGATACAGAT-ATTGTGGCAGATCCACCAGAA
1 CAGATATTGTGGCAG-AGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
412912 CAGATATTGTGGCAGAGCCACCAGAACAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATTGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
412965 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATAT-TGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
413019 C
1 C
413020 GCTTCCTCCA
Statistics
Matches: 98, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
52 5 0.05
53 46 0.47
54 47 0.48
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (53 bp):
CAGATATTGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:415143 original size:20 final size:19
Alignment explanation
Indices: 415106--415157 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
415096 TTTTATAAAA
*
415106 AATATTTTTA-AACCTTTTT
1 AATATTTTTACAA-ATTTTT
415125 AATATTTTTACAAATTTTT
1 AATATTTTTACAAATTTTT
*
415144 AATAAATTTTACAA
1 AAT-ATTTTTACAA
415158 TTTATTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATTTTTACAAATTTTT
Found at i:415159 original size:19 final size:19
Alignment explanation
Indices: 415120--415171 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
415110 TTTTTAAACC
*
415120 TTTTTAATATTTTTACAAA
1 TTTTTAATAATTTTACAAA
*
415139 TTTTTAATAAATTTTACAAT
1 TTTTTAAT-AATTTTACAAA
415159 TTATTGTAATAAT
1 TT-TT-TAATAAT
415172 ATTATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 8 0.29
20 11 0.39
21 5 0.18
22 4 0.14
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTTTAATAATTTTACAAA
Found at i:416935 original size:17 final size:17
Alignment explanation
Indices: 416894--416935 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
416884 CCTTTTAAAG
* *
416894 AATTAAATTGTAATTTT
1 AATTTAATTATAATTTT
416911 -ATTATAATTATAATTTT
1 AATT-TAATTATAATTTT
416928 AATTTAAT
1 AATTTAAT
416936 CACTTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 3 0.14
17 15 0.71
18 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
AATTTAATTATAATTTT
Found at i:418570 original size:2 final size:2
Alignment explanation
Indices: 418563--418592 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
418553 AGCAATAGGG
418563 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
418593 TTGGGTACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:422076 original size:29 final size:29
Alignment explanation
Indices: 422034--422093 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
422024 TTAATATAAC
422034 GTATAAGGACTAATTAACCTATTTTCTTA
1 GTATAAGGACTAATTAACCTATTTTCTTA
*
422063 GTATAGGGACTAATTAACCTATTTTCTTA
1 GTATAAGGACTAATTAACCTATTTTCTTA
422092 GT
1 GT
422094 TGAAAGAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (29 bp):
GTATAAGGACTAATTAACCTATTTTCTTA
Found at i:428729 original size:25 final size:25
Alignment explanation
Indices: 428695--428745 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
428685 TTCCTTATAA
**
428695 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
428720 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
428745 A
1 A
428746 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:428744 original size:12 final size:12
Alignment explanation
Indices: 428698--428745 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
428688 CTTATAAACT
428698 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
428710 TTCTATTAGGACT
1 TTAAATTAGGA-A
428723 TTAAATTAGGAA
1 TTAAATTAGGAA
*
428735 TTAGATTAGGA
1 TTAAATTAGGA
428746 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:433396 original size:25 final size:25
Alignment explanation
Indices: 433362--433412 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
433352 TTCCTTATAA
**
433362 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
433387 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
433412 A
1 A
433413 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:433411 original size:12 final size:12
Alignment explanation
Indices: 433365--433412 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
433355 CTTATAAACT
433365 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
433377 TTCTATTAGGACT
1 TTAAATTAGGA-A
433390 TTAAATTAGGAA
1 TTAAATTAGGAA
*
433402 TTAGATTAGGA
1 TTAAATTAGGA
433413 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:438058 original size:25 final size:25
Alignment explanation
Indices: 438024--438074 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
438014 TTCCTTATAA
**
438024 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
438049 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
438074 A
1 A
438075 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:438073 original size:12 final size:12
Alignment explanation
Indices: 438027--438074 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
438017 CTTATAAACT
438027 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
438039 TTCTATTAGGACT
1 TTAAATTAGGA-A
438052 TTAAATTAGGAA
1 TTAAATTAGGAA
*
438064 TTAGATTAGGA
1 TTAAATTAGGA
438075 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:440436 original size:21 final size:21
Alignment explanation
Indices: 440397--440437 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
440387 CTCACTTCAC
440397 TTTCCTTCTTCTCTTCTTCCCT
1 TTTCCTTCTTCTC-TCTTCCCT
440419 TTTCCTCTCTTCTC-CTTCC
1 TTTCCT-TCTTCTCTCTTCC
440438 TCTAAACTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTCCTTCTTCTCTCTTCCCT
Found at i:443385 original size:22 final size:22
Alignment explanation
Indices: 443352--443402 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
443342 AACATTTAGA
443352 AAATGTTAAAATAAT-TAAATATT
1 AAAT-TTAAAATAATATAAATA-T
*
443375 AAATTTAAAATAGTATAAATAT
1 AAATTTAAAATAATATAAATAT
443397 AAATTT
1 AAATTT
443403 TTTTATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (22 bp):
AAATTTAAAATAATATAAATAT
Found at i:444270 original size:3 final size:3
Alignment explanation
Indices: 444262--444296 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
444252 CCTGGTGTAA
444262 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
444297 AGAGTATGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:447115 original size:26 final size:26
Alignment explanation
Indices: 447056--447107 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
447046 AAAAAAACTT
447056 ATTAATATATGTATTTTTTAAATATG
1 ATTAATATATGTATTTTTTAAATATG
447082 ATTAATATATGTATTTTTTAAATATG
1 ATTAATATATGTATTTTTTAAATATG
447108 CTTCATATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (26 bp):
ATTAATATATGTATTTTTTAAATATG
Found at i:447141 original size:22 final size:22
Alignment explanation
Indices: 447116--447158 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
447106 TGCTTCATAT
447116 CAGTTTATATTAAAAGTTAAAC
1 CAGTTTATATTAAAAGTTAAAC
447138 CAGTTTATATTAAAAGTTAAA
1 CAGTTTATATTAAAAGTTAAA
447159 TCAATGGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (22 bp):
CAGTTTATATTAAAAGTTAAAC
Found at i:450002 original size:31 final size:31
Alignment explanation
Indices: 449967--450057 Score: 94
Period size: 33 Copynumber: 2.9 Consensus size: 31
449957 TTCAATCGAG
449967 AATAATTATTAAATTCAAGTCTTAATATAAA
1 AATAATTATTAAATTCAAGTCTTAATATAAA
* *** *
449998 AATAATTATTAAATTTAGAGATAAAAATATAAG
1 AATAATTATTAAATTCA-AG-TCTTAATATAAA
*
450031 AATAATTATCT-AATTCATGTCTTAATA
1 AATAATTAT-TAAATTCAAGTCTTAATA
450058 CGAGAATAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
31 21 0.45
32 3 0.06
33 22 0.47
34 1 0.02
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (31 bp):
AATAATTATTAAATTCAAGTCTTAATATAAA
Found at i:453484 original size:9 final size:9
Alignment explanation
Indices: 453466--453494 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
453456 TTAAATTTTC
453466 AAAT-GTAT
1 AAATAGTAT
453474 AAATAGTAT
1 AAATAGTAT
453483 AAATAGTAT
1 AAATAGTAT
453492 AAA
1 AAA
453495 GGCTTGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (9 bp):
AAATAGTAT
Found at i:454930 original size:3 final size:3
Alignment explanation
Indices: 454917--454963 Score: 85
Period size: 3 Copynumber: 15.3 Consensus size: 3
454907 AAATGTTTGA
454917 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
454963 A
1 A
454964 CCTGTTGGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:456269 original size:2 final size:2
Alignment explanation
Indices: 456258--456301 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
456248 TTATGTAATT
* *
456258 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
456299 TA T
1 TA T
456302 GGGTTAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Done.