Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011647.1 Kokia drynarioides strain JFW-HI SEQ_126639, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 417821
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Warning! 115 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:5661 original size:22 final size:22
Alignment explanation
Indices: 5635--5677 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
5625 GCAACAGTAG
5635 GCACACAAAGTACTAAACAGAA
1 GCACACAAAGTACTAAACAGAA
* * *
5657 GCACACACAGTGCTGAACAGA
1 GCACACAAAGTACTAAACAGA
5678 GGGCACGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.09
Consensus pattern (22 bp):
GCACACAAAGTACTAAACAGAA
Found at i:7028 original size:23 final size:23
Alignment explanation
Indices: 6971--7059 Score: 85
Period size: 23 Copynumber: 3.9 Consensus size: 23
6961 GGCAATAGTA
*
6971 GGCACACAAAGTGCTAAACA-AA
1 GGCACACAAAGTGCTAAACAGAG
* *
6993 AGCACACACAGTGCTAAACAGAG
1 GGCACACAAAGTGCTAAACAGAG
* * *
7016 GGCGCACATAGTGCTGAACAGAG
1 GGCACACAAAGTGCTAAACAGAG
7039 GGCACGA-AACA-TGCTAAACAG
1 GGCAC-ACAA-AGTGCTAAACAG
7060 TAGGCGCGCT
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
22 18 0.33
23 34 0.63
24 2 0.04
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.10
Consensus pattern (23 bp):
GGCACACAAAGTGCTAAACAGAG
Found at i:7165 original size:24 final size:26
Alignment explanation
Indices: 7127--7174 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
7117 TCAACATGGG
7127 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
7153 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
7175 ACATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:12881 original size:22 final size:22
Alignment explanation
Indices: 12851--12913 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
12841 ACAATAGGCA
*
12851 CACAAAGTGCTAAACAGAAGCG
1 CACACAGTGCTAAACAGAAGCG
* *
12873 CACACAGTGCTACACAG-AGGG
1 CACACAGTGCTAAACAGAAGCG
*
12894 CACACATAGTGCTGAACAGA
1 CACAC--AGTGCTAAACAGA
12914 GGGCACGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 8 0.24
22 15 0.45
23 10 0.30
ACGTcount: A:0.40, C:0.25, G:0.24, T:0.11
Consensus pattern (22 bp):
CACACAGTGCTAAACAGAAGCG
Found at i:12904 original size:23 final size:21
Alignment explanation
Indices: 12847--12919 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 21
12837 GGCAACAATA
12847 GGCACACAAAGTGCTAAACAGAAG
1 GGCACAC-AAGTGCT-AACAG-AG
*
12871 CGCACAC-AGTGCTACACAGAG
1 GGCACACAAGTGCTA-ACAGAG
12892 GGCACACATAGTGCTGAACAGAG
1 GGCACACA-AGTGCT-AACAGAG
12915 GGCAC
1 GGCAC
12920 GAAACATGCT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
21 9 0.21
22 10 0.23
23 17 0.40
24 7 0.16
ACGTcount: A:0.37, C:0.26, G:0.27, T:0.10
Consensus pattern (21 bp):
GGCACACAAGTGCTAACAGAG
Found at i:12929 original size:23 final size:23
Alignment explanation
Indices: 12847--12929 Score: 59
Period size: 23 Copynumber: 3.7 Consensus size: 23
12837 GGCAACAATA
*
12847 GGCACACAA-AGTGCTAAACAGAAG
1 GGCACA-AACAGTGCTGAACAG-AG
*
12871 CGCAC--ACAGTGCT-ACACAGAG
1 GGCACAAACAGTGCTGA-ACAGAG
* *
12892 GGCACACATAGTGCTGAACAGAG
1 GGCACAAACAGTGCTGAACAGAG
12915 GGCACGAAACA-TGCT
1 GGCAC-AAACAGTGCT
12930 AAATAGTAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
21 8 0.17
22 10 0.21
23 22 0.46
24 8 0.17
ACGTcount: A:0.37, C:0.25, G:0.27, T:0.11
Consensus pattern (23 bp):
GGCACAAACAGTGCTGAACAGAG
Found at i:13041 original size:24 final size:26
Alignment explanation
Indices: 13003--13050 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
12993 TCTACGTGGG
13003 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
13029 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
13051 ACATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:18832 original size:22 final size:23
Alignment explanation
Indices: 18806--18892 Score: 79
Period size: 23 Copynumber: 3.8 Consensus size: 23
18796 CAACGGTAGA
*
18806 CACACAAAGTGCTAAACAGA-AG
1 CACACAAAGTGCTAAACAGAGGG
** *
18828 CACACGCAGTGCTAAGCAGAGGG
1 CACACAAAGTGCTAAACAGAGGG
* * *
18851 CACATATAGTGCTGAACAGAGGG
1 CACACAAAGTGCTAAACAGAGGG
*
18874 CACA-AAACATGCTAAACAG
1 CACACAAA-GTGCTAAACAG
18893 TAGGCGTGCT
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
22 19 0.37
23 32 0.63
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.11
Consensus pattern (23 bp):
CACACAAAGTGCTAAACAGAGGG
Found at i:33843 original size:40 final size:39
Alignment explanation
Indices: 33788--33863 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
33778 TAATAATTCA
*
33788 AATAAATAAAATTTATATTCATGA-CATATAATAATAAAT
1 AATAAATAAAATTTATATACAT-ATCATATAATAATAAAT
*
33827 AATACATACAAATTTATATACATATCATATAATAATA
1 AATAAATA-AAATTTATATACATATCATATAATAATA
33864 TTAATTATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 8 0.24
40 25 0.76
ACGTcount: A:0.55, C:0.08, G:0.01, T:0.36
Consensus pattern (39 bp):
AATAAATAAAATTTATATACATATCATATAATAATAAAT
Found at i:36534 original size:17 final size:18
Alignment explanation
Indices: 36462--36539 Score: 58
Period size: 20 Copynumber: 4.5 Consensus size: 18
36452 ACAATTAATT
*
36462 AAAATTATTAAAAAAAGTA
1 AAAATTATTAAAAATA-TA
36481 TAAAATTATTAAAAA-AT-
1 -AAAATTATTAAAAATATA
* * *
36498 -TAATTTTTTAAAAT-TA
1 AAAATTATTAAAAATATA
36514 AAAATT-TTAAAAATATA
1 AAAATTATTAAAAATATA
*
36531 AAAAATATT
1 AAAATTATT
36540 TTAAAATAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
15 11 0.23
16 7 0.15
17 11 0.23
18 3 0.06
19 1 0.02
20 14 0.30
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (18 bp):
AAAATTATTAAAAATATA
Found at i:36556 original size:50 final size:52
Alignment explanation
Indices: 36458--36563 Score: 132
Period size: 51 Copynumber: 2.1 Consensus size: 52
36448 GTCAACAATT
*
36458 AATT-AAAATTATTAAAAAAAGTATAAAATTATTAAAAAATTAATTTTTTAA
1 AATTAAAAATTATTAAAAAAAGTAAAAAATTATTAAAAAATTAATTTTTTAA
* *
36509 AATTAAAAATT-TTAAAAATA-TAAAAAATATTTTAAAATAA-TAA-TTTTTAA
1 AATTAAAAATTATTAAAAAAAGTAAAAAAT-TATTAAAA-AATTAATTTTTTAA
36559 AATTA
1 AATTA
36564 TTAGAAAGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
50 19 0.39
51 22 0.45
52 8 0.16
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (52 bp):
AATTAAAAATTATTAAAAAAAGTAAAAAATTATTAAAAAATTAATTTTTTAA
Found at i:40437 original size:21 final size:21
Alignment explanation
Indices: 40394--40437 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
40384 TAGTGGGGTT
* *
40394 AAGTCCATGAACAATGGAGTC
1 AAGTCCATGAACAATAGAATC
* *
40415 AAGTCCATGGACAGTAGAATC
1 AAGTCCATGAACAATAGAATC
40436 AA
1 AA
40438 ATTATGAACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (21 bp):
AAGTCCATGAACAATAGAATC
Found at i:47604 original size:23 final size:23
Alignment explanation
Indices: 47578--47625 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
47568 TTTTTCTATG
*
47578 TATTTTT-TTATTTAAAAAAAGTT
1 TATTTTTCTAATTT-AAAAAAGTT
*
47601 TATTTTTCTAATTTTAAAAAGTT
1 TATTTTTCTAATTTAAAAAAGTT
47624 TA
1 TA
47626 GAAAAGACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
TATTTTTCTAATTTAAAAAAGTT
Found at i:49743 original size:30 final size:30
Alignment explanation
Indices: 49708--49769 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
49698 CTTTTCTTTT
49708 CTTTGGAAGCATCCCCCCCTTTTCGGAGGC
1 CTTTGGAAGCATCCCCCCCTTTTCGGAGGC
49738 CTTTGGAAGCATCCCCCCCTTTTCGGAGGC
1 CTTTGGAAGCATCCCCCCCTTTTCGGAGGC
49768 CT
1 CT
49770 CACTCAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.13, C:0.37, G:0.23, T:0.27
Consensus pattern (30 bp):
CTTTGGAAGCATCCCCCCCTTTTCGGAGGC
Found at i:50995 original size:85 final size:85
Alignment explanation
Indices: 50860--51019 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 85
50850 GATTTGACCT
* * *
50860 ACTTCTTAGTATCTCATCAAGAAGATGACCACCTCATCGTTTTAATCCACTTCTCTGTATCTCAT
1 ACTTCTTAGTATCTCATCAAGAAGATGACCACCTCATCGCTTTAACCCACTTCTCTGTATCTAAT
*
50925 CAGGAAGATGAATTTGGTTC
66 CAAGAAGATGAATTTGGTTC
* * * * * *
50945 ACTTCTTTGTATCTCATCAAGAAGGTGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTAAT
1 ACTTCTTAGTATCTCATCAAGAAGATGACCACCTCATCGCTTTAACCCACTTCTCTGTATCTAAT
51010 CAAGAAGATG
66 CAAGAAGATG
51020 GGGATTTGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (85 bp):
ACTTCTTAGTATCTCATCAAGAAGATGACCACCTCATCGCTTTAACCCACTTCTCTGTATCTAAT
CAAGAAGATGAATTTGGTTC
Found at i:51350 original size:210 final size:209
Alignment explanation
Indices: 50634--51581 Score: 1371
Period size: 209 Copynumber: 4.5 Consensus size: 209
50624 GTCGATCTCT
* * * *
50634 TTTCATTGATTTGGTCAACTTCTCT-GTATCTCATCATGAAGATGACTGCCTCATTGTTTTAATC
1 TTTCATTGATTTGGCCTACTTCT-TAGTATCTCATCAAGAAGATGACCGCCTCATTGTTTTAATC
* * * * * * *
50698 CACTTCTTTGTCTCTCATCAGGAAGACGGATTTGG-TCTACTTTTCTATATCTCATAAGGAAGAT
65 CACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTC-ACTTCTCTGTATCTCATCAGGAAGGT
* * * * * * **
50762 GACCTCTTTTTTGCTTTGACCTACTTCTCTATATCTCATTAGGAAGATAAGGGTTTGAAGTTTCA
129 GACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCA
*
50827 CTCATATTGAGCTTCG
194 CTCACATTGAGCTTCG
* * *
50843 TTTCATTGATTTGACCTACTTCTTAGTATCTCATCAAGAAGATGACCACCTCATCGTTTTAATCC
1 TTTCATTGATTTGGCCTACTTCTTAGTATCTCATCAAGAAGATGACCGCCTCATTGTTTTAATCC
* * *
50908 ACTTCTCTGTATCTCATCAGGAAGATGAATTTGGTTCACTTCTTTGTATCTCATCAAGAAGGTGA
66 ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTGA
* *
50973 CCACTTTATTGCTTTGACCCACTTCTCTGTATCTAATCAAGAAGATGGGGATTTGAAGTTTCACT
131 CCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACT
51038 CACATTGAGCTTCG
196 CACATTGAGCTTCG
* * ** * * * *
51052 TTTCATTGATTTGACCTACTTCTCAACATCTCATTAGGAAGGTGACAGCCTCATTGTTTTAATCC
1 TTTCATTGATTTGGCCTACTTCTTAGTATCTCATCAAGAAGATGACCGCCTCATTGTTTTAATCC
51117 ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTGA
66 ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTGA
* * * *
51182 TCGCTTTATTGCTTTGACCTACTTCTCTGTATCTTATCAAGAAGATGAGGGGTTTGAAGTTTCAC
131 CCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAAGAAGATG-GGGGTTTGAAGTTTCAC
** *
51247 TCACATTGAATTTAG
195 TCACATTGAGCTTCG
* *
51262 TTTCATTGATTTGGCCTACTTCTTAGTATCTCATCATGAAGATGACCGCCTCATCGTTTTAATCC
1 TTTCATTGATTTGGCCTACTTCTTAGTATCTCATCAAGAAGATGACCGCCTCATTGTTTTAATCC
*
51327 ACTTCTCTGTATCTCATCAGGAAGAAGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTGA
66 ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTGA
51392 CCACTTTATTGCTTTGACCCACTTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCAC
131 CCACTTTATTGCTTTGACCCAC-TTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCAC
*
51457 TCACATTGAGCTCCG
195 TCACATTGAGCTTCG
* *
51472 CTTT-ATTGATTTGGCCTACTTCTCAGTATCTCATCAAGAAGATGACTGCCTCATTGTTTTAATC
1 -TTTCATTGATTTGGCCTACTTCTTAGTATCTCATCAAGAAGATGACCGCCTCATTGTTTTAATC
* *
51536 CACTTCTTTGTATCTCATCAGGAAGACGAATTTGGTTTACTTCTCT
65 CACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCT
51582 CCATTGTTCC
Statistics
Matches: 661, Mismatches: 73, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
208 1 0.00
209 337 0.51
210 296 0.45
211 27 0.04
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.38
Consensus pattern (209 bp):
TTTCATTGATTTGGCCTACTTCTTAGTATCTCATCAAGAAGATGACCGCCTCATTGTTTTAATCC
ACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTGA
CCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACT
CACATTGAGCTTCG
Found at i:52320 original size:22 final size:23
Alignment explanation
Indices: 52262--52321 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 23
52252 ATTTGAGTTG
52262 CCCTTTCGGGTTTTCAACTCAAAAC
1 CCCTTTCGGGTTTTCAA--CAAAAC
**
52287 CCCTTT--GG-TTTCAA-AACGC
1 CCCTTTCGGGTTTTCAACAAAAC
52306 CCCTTTCGGGTTTTCA
1 CCCTTTCGGGTTTTCA
52322 TCTTGACCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
19 9 0.30
21 2 0.07
22 11 0.37
23 2 0.07
25 6 0.20
ACGTcount: A:0.18, C:0.32, G:0.15, T:0.35
Consensus pattern (23 bp):
CCCTTTCGGGTTTTCAACAAAAC
Found at i:55310 original size:23 final size:23
Alignment explanation
Indices: 55283--55392 Score: 93
Period size: 22 Copynumber: 4.9 Consensus size: 23
55273 GTAACAAAGG
* * *
55283 GCACACAGAGTGCTGATCAGAGG
1 GCACACACAGTGCTAATCAGAGA
* *
55306 GCACA-AAACGTGCTAAACAGAGA
1 GCACACACA-GTGCTAATCAGAGA
55329 GCACACACAGTGCTAAAT-AGA-A
1 GCACACACAGTGCT-AATCAGAGA
*
55351 GCACACACAGTGCTGATCAGA-A
1 GCACACACAGTGCTAATCAGAGA
* * *
55373 GCACATACAATGCTGATCAG
1 GCACACACAGTGCTAATCAG
55393 TAAGCGCGCT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.03
22 39 0.53
23 29 0.39
24 4 0.05
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.14
Consensus pattern (23 bp):
GCACACACAGTGCTAATCAGAGA
Found at i:64454 original size:13 final size:13
Alignment explanation
Indices: 64436--64462 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64426 GTGTAACACT
64436 CAAATCCCGAACA
1 CAAATCCCGAACA
64449 CAAATCCCGAACA
1 CAAATCCCGAACA
64462 C
1 C
64463 TGTCGCCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.41, G:0.07, T:0.07
Consensus pattern (13 bp):
CAAATCCCGAACA
Found at i:64534 original size:22 final size:22
Alignment explanation
Indices: 64508--64562 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
64498 ATTTATCACT
*
64508 GTTCAATCTTAAATGCCATGAC
1 GTTCAATCTTAAATACCATGAC
64530 GTTCAATCTTAAATACCATGAC
1 GTTCAATCTTAAATACCATGAC
* *
64552 ATTTAATCTTA
1 GTTCAATCTTA
64563 CTTTATCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (22 bp):
GTTCAATCTTAAATACCATGAC
Found at i:65508 original size:60 final size:62
Alignment explanation
Indices: 65424--65555 Score: 171
Period size: 60 Copynumber: 2.2 Consensus size: 62
65414 ACATCCGAGG
* * * *
65424 TAGGTTTCAATTTGCATTTTATACTCACGATGACACAGAGTCATCGGACC-CTTAATCCGCAA
1 TAGGATTC-ATTTGCATTTAATACTCACGATGACACAGAGTCACCGGACCTCATAATCCGCAA
* * *
65486 TAGGATTCATTT-CATTTAATACTCACGATGACACATAGTCACCGGACCTCATAATTCGTAA
1 TAGGATTCATTTGCATTTAATACTCACGATGACACAGAGTCACCGGACCTCATAATCCGCAA
65547 -AGGATTCAT
1 TAGGATTCAT
65556 ATACTCACGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
60 42 0.68
61 13 0.21
62 7 0.11
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (62 bp):
TAGGATTCATTTGCATTTAATACTCACGATGACACAGAGTCACCGGACCTCATAATCCGCAA
Found at i:65577 original size:52 final size:52
Alignment explanation
Indices: 65504--65845 Score: 531
Period size: 52 Copynumber: 6.6 Consensus size: 52
65494 ATTTCATTTA
* *
65504 ATACTCACGATGACACATAGTCACCGGACCTCATAATTCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* ** *
65556 ATACTCACGATGGCACATAGTCATTAGACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
65608 ATACTCACAATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
65660 ATACTCATGATAACACATAGTCATCGAACCTCATAATCTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
65712 ATACTCACGATGACACATAGTCATCGGACCTCATAATCTGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * * *
65764 ATACTCACAATGACATATAGTCATCGGCCCTCACAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
65816 ATACTCACGATGACACATAGTTATCGGACC
1 ATACTCACGATGACACATAGTCATCGGACC
65846 CTTTTCATTT
Statistics
Matches: 262, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 262 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:67446 original size:29 final size:28
Alignment explanation
Indices: 67406--67475 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
67396 ATCGAAGTTG
* *
67406 AAAAT-GTGATTTTTGAGTACTCGAGGGC
1 AAAATGGTAATTTTAGA-TACTCGAGGGC
*
67434 AAAATGGTAATTTTAGATACTCGAGGGT
1 AAAATGGTAATTTTAGATACTCGAGGGC
67462 AAAATGGTAATTTT
1 AAAATGGTAATTTT
67476 GGAAAAATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 29 0.76
29 9 0.24
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (28 bp):
AAAATGGTAATTTTAGATACTCGAGGGC
Found at i:67503 original size:29 final size:29
Alignment explanation
Indices: 67462--67819 Score: 130
Period size: 29 Copynumber: 12.1 Consensus size: 29
67452 ACTCGAGGGT
67462 AAAATGGTAATTTTGGAAAAATTGGGGTTA
1 AAAATGG-AATTTTGGAAAAATTGGGGTTA
*
67492 AAATTGGAATTTT--AAGAATATTGAGGG-T-
1 AAAATGGAATTTTGGAA-AA-ATTG-GGGTTA
** * *
67520 AAAATGGTATATTTTGGTGAAATCGAGGTTA
1 AAAATGG-A-ATTTTGGAAAAATTGGGGTTA
* * *
67551 AAAATGGAATTTTCG-AAAGTTCACGGG-T-
1 AAAATGGAATTTTGGAAAAATT--GGGGTTA
** *
67579 AAAATGGTAATTTTTGGTGAAATTGAGGTTA
1 AAAATGG-AA-TTTTGGAAAAATTGGGGTTA
* **
67610 AAAATGGAATTTTAGAAAGTTTAGGGG-TA
1 AAAATGGAATTTTGGAAAAATT-GGGGTTA
* * ** *
67639 AAAATGTAATTTTTGGGAAAATTAAGGTCA
1 AAAATGGAA-TTTTGGAAAAATTGGGGTTA
* ** *
67669 AAATTGGAATTTT-GAGAAGTTTGGGGGTA
1 AAAATGGAATTTTGGA-AAAATTGGGGTTA
* * * *
67698 AAAATGTAATTTT-CAAAAAGTTTTGGGTCA
1 AAAATGGAATTTTGGAAAAA--TTGGGGTTA
* *
67728 AAAATGGAATTTTGGGAAATTTAGGGG-TA
1 AAAATGGAATTTTGGAAAAATT-GGGGTTA
* ** *
67757 AAAATGTAATTTTTGGAGAAGTTTAAGGGTTA
1 AAAATGGAA-TTTTGGA-AAAATT-GGGGTTA
*
67789 AAATAT--AATTTTGGAAAATTTAGGGGTTA
1 AAA-ATGGAATTTTGGAAAAATT-GGGGTTA
67818 AA
1 AA
67820 GTATAATTTT
Statistics
Matches: 240, Mismatches: 60, Indels: 57
0.67 0.17 0.16
Matches are distributed among these distances:
27 2 0.01
28 21 0.09
29 93 0.39
30 83 0.35
31 34 0.14
32 5 0.02
33 2 0.01
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (29 bp):
AAAATGGAATTTTGGAAAAATTGGGGTTA
Found at i:67553 original size:30 final size:29
Alignment explanation
Indices: 67426--67622 Score: 124
Period size: 29 Copynumber: 6.8 Consensus size: 29
67416 TTTTGAGTAC
* *
67426 TCGAGGGCAAAATGGTAATTTT--AGATAC
1 TCGAGGGTAAAATGGTAATTTTGGAGA-AA
*
67454 TCGAGGGTAAAATGGTAATTTTGGAAAAA
1 TCGAGGGTAAAATGGTAATTTTGGAGAAA
* *
67483 TTG-GGGTTAAAATTGG-AATTTT-AAGAATA
1 TCGAGGG-TAAAA-TGGTAATTTTGGAGAA-A
* *
67512 TTGAGGGTAAAATGGTATATTTTGGTGAAA
1 TCGAGGGTAAAATGGTA-ATTTTGGAGAAA
* * *
67542 TCGAGGTTAAAAATGG-AATTTTCGA-AAGT
1 TCGAGGGT-AAAATGGTAATTTTGGAGAA-A
*
67571 TC-ACGGGTAAAATGGTAATTTTTGGTGAAA
1 TCGA-GGGTAAAATGGTAA-TTTTGGAGAAA
* *
67601 TTGAGGTTAAAAATGG-AATTTT
1 TCGAGGGT-AAAATGGTAATTTT
67623 AGAAAGTTTA
Statistics
Matches: 133, Mismatches: 19, Indels: 33
0.72 0.10 0.18
Matches are distributed among these distances:
28 40 0.30
29 41 0.31
30 32 0.24
31 20 0.15
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.34
Consensus pattern (29 bp):
TCGAGGGTAAAATGGTAATTTTGGAGAAA
Found at i:67553 original size:59 final size:58
Alignment explanation
Indices: 67434--67710 Score: 271
Period size: 59 Copynumber: 4.7 Consensus size: 58
67424 ACTCGAGGGC
* * * ** *
67434 AAAATGGTAATTTTAGATACTCGAGGGTAAAATGGTAA-TTTTGGAAAAATTGGGGTTA
1 AAAATGG-AATTTTAGAAAGTTGAGGGTAAAATGGTAATTTTTGGTGAAATTGAGGTTA
* *
67492 AAATTGGAATTTTAAGAATA-TTGAGGGTAAAATGGT-ATATTTTGGTGAAATCGAGGTTA
1 AAAATGGAATTTT-AGAA-AGTTGAGGGTAAAATGGTAAT-TTTTGGTGAAATTGAGGTTA
* *
67551 AAAATGGAATTTTCGAAAGTTCACGGGTAAAATGGTAATTTTTGGTGAAATTGAGGTTA
1 AAAATGGAATTTTAGAAAGTTGA-GGGTAAAATGGTAATTTTTGGTGAAATTGAGGTTA
* * *
67610 AAAATGGAATTTTAGAAAGTTTAGGGGTAAAAAT-GTAATTTTTGG-GAAAATTAAGGTCA
1 AAAATGGAATTTTAGAAAGTTGA-GGGT-AAAATGGTAATTTTTGGTG-AAATTGAGGTTA
* *
67669 AAATTGGAATTTT-GAGAAGTTTGGGGGTAAAAAT-GTAATTTT
1 AAAATGGAATTTTAGA-AAG-TTGAGGGT-AAAATGGTAATTTT
67711 CAAAAAGTTT
Statistics
Matches: 189, Mismatches: 19, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
57 8 0.04
58 33 0.17
59 139 0.74
60 9 0.05
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (58 bp):
AAAATGGAATTTTAGAAAGTTGAGGGTAAAATGGTAATTTTTGGTGAAATTGAGGTTA
Found at i:67653 original size:118 final size:116
Alignment explanation
Indices: 67458--67772 Score: 322
Period size: 118 Copynumber: 2.7 Consensus size: 116
67448 AGATACTCGA
* *
67458 GGGTAAAATGGTAATTTTGGAAAAATTGGGGTTAAAATTGGAATTTTAAGAATATTGA-GGGT-A
1 GGGTAAAATGGTAATTTTGGAAAAATT-GGGTTAAAAATGGAATTTTAAGAA-ATTTAGGGGTAA
* *
67521 AAATGGT-ATATTTTGGTG-AAATCGAGGTTAAAAATGGAATTTTCGA-AAGTTCAC
64 AAAT-GTAAT-TTTTGG-GAAAATCAAGGTCAAAAATGGAATTTT-GAGAAGTTCAC
**
67575 GGGTAAAATGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTT-AGAAAGTTTAGGGGTA
1 GGGTAAAATGGTAA-TTTTGGAAAAATTG-GGTTAAAAATGGAATTTTAAGAAA-TTTAGGGGTA
* * ***
67639 AAAATGTAATTTTTGGGAAAATTAAGGTCAAAATTGGAATTTTGAGAAGTTTGG
63 AAAATGTAATTTTTGGGAAAATCAAGGTCAAAAATGGAATTTTGAGAAGTTCAC
* * **
67693 GGGTAAAAAT-GTAATTTT-CAAAAAGTTTTGGGTCAAAAATGGAATTTTGGGAAATTTAGGGGT
1 GGGT-AAAATGGTAATTTTGGAAAAA---TTGGGTTAAAAATGGAATTTTAAGAAATTTAGGGGT
67756 AAAAATGTAATTTTTGG
62 AAAAATGTAATTTTTGG
67773 AGAAGTTTAA
Statistics
Matches: 169, Mismatches: 16, Indels: 25
0.80 0.08 0.12
Matches are distributed among these distances:
116 4 0.02
117 29 0.17
118 117 0.69
119 19 0.11
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.34
Consensus pattern (116 bp):
GGGTAAAATGGTAATTTTGGAAAAATTGGGTTAAAAATGGAATTTTAAGAAATTTAGGGGTAAAA
ATGTAATTTTTGGGAAAATCAAGGTCAAAAATGGAATTTTGAGAAGTTCAC
Found at i:67727 original size:59 final size:58
Alignment explanation
Indices: 67458--67769 Score: 217
Period size: 59 Copynumber: 5.3 Consensus size: 58
67448 AGATACTCGA
* ** * * *
67458 GGGT-AAAATGGTAATTTTGGAAAAATTGGGGTTAAAATTGGAATTTTAAGAA-TATT-G
1 GGGTAAAAAT-GTAATTTTGCAAAAATTAAGGTCAAAAATGGAATTTTGAGAAGT-TTAG
*** ** * * *
67515 AGGGT-AAAATGGTATATTTTGGTGAAATCGAGGTTAAAAATGGAATTTTCGA-AAGTTCAC
1 -GGGTAAAAAT-GTA-ATTTTGCAAAAATTAAGGTCAAAAATGGAATTTT-GAGAAGTTTAG
*** * *
67575 GGGT-AAAATGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTT-AGAAAGTTTAG
1 GGGTAAAAAT-GTAA-TTTTGCAAAAATTAAGGTCAAAAATGGAATTTTGAG-AAGTTTAG
** * *
67634 GGGTAAAAATGTAATTTTTGGGAAAATTAAGGTCAAAATTGGAATTTTGAGAAGTTTGG
1 GGGTAAAAATGTAA-TTTTGCAAAAATTAAGGTCAAAAATGGAATTTTGAGAAGTTTAG
** * *
67693 GGGTAAAAATGTAATTTT-CAAAAAGTTTTGGGTCAAAAATGGAATTTTGGGAAATTTAG
1 GGGTAAAAATGTAATTTTGCAAAAA--TTAAGGTCAAAAATGGAATTTTGAGAAGTTTAG
67752 GGGTAAAAATGTAATTTT
1 GGGTAAAAATGTAATTTT
67770 TGGAGAAGTT
Statistics
Matches: 218, Mismatches: 25, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
57 5 0.02
58 18 0.08
59 186 0.85
60 9 0.04
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (58 bp):
GGGTAAAAATGTAATTTTGCAAAAATTAAGGTCAAAAATGGAATTTTGAGAAGTTTAG
Found at i:67805 original size:59 final size:59
Alignment explanation
Indices: 67546--67903 Score: 279
Period size: 59 Copynumber: 6.0 Consensus size: 59
67536 GTGAAATCGA
* * * * * *
67546 GGTTAAAAATGGAATTTTCGAAAGTTCACGGGT-AAAATGGTAATTTTTGGTGAA-ATTGA-
1 GGTTAAAAAT-GAATTTTGGAAA-TTTAGGGGTAAAAAT-GTAATTTTTGGAGAAGTTTAAG
* **
67605 GGTTAAAAATGGAATTTTAGAAAGTTTAGGGGTAAAAATGTAATTTTTGG-GAAAATTAA-
1 GGTTAAAAAT-GAATTTTGGAAA-TTTAGGGGTAAAAATGTAATTTTTGGAGAAGTTTAAG
* * * * ** * *
67664 GGTCAAAATTGGAATTTTGAGAAGTTTGGGGGTAAAAATGTAA-TTTTCAAAAAGTTT-TG
1 GGTTAAAAAT-GAATTTTG-GAAATTTAGGGGTAAAAATGTAATTTTTGGAGAAGTTTAAG
*
67723 GGTCAAAAATGGAATTTTGGGAAATTTAGGGGTAAAAATGTAATTTTTGGAGAAGTTTAAG
1 GGTTAAAAAT-GAATTTT-GGAAATTTAGGGGTAAAAATGTAATTTTTGGAGAAGTTTAAG
* * * *
67784 GGTTAAAATAT-AATTTTGGAAAATTTAGGGGTTAAAGTATAA-TTTTGGAGAAGTTTAGG
1 GGTTAAAA-ATGAATTTTGG-AAATTTAGGGGTAAAAATGTAATTTTTGGAGAAGTTTAAG
* * * *
67843 GGTTAAAACAT-AATTTTAGAAAAGTTTAGGGGTCAAAATGTGATTTTTGGA-TAGTTTAAG
1 GGTTAAAA-ATGAATTTT-GGAAA-TTTAGGGGTAAAAATGTAATTTTTGGAGAAGTTTAAG
67903 G
1 G
67904 ACCTCGAGGG
Statistics
Matches: 251, Mismatches: 35, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
58 7 0.03
59 158 0.63
60 69 0.27
61 15 0.06
62 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.35
Consensus pattern (59 bp):
GGTTAAAAATGAATTTTGGAAATTTAGGGGTAAAAATGTAATTTTTGGAGAAGTTTAAG
Found at i:67900 original size:30 final size:30
Alignment explanation
Indices: 67549--67900 Score: 226
Period size: 30 Copynumber: 11.9 Consensus size: 30
67539 AAATCGAGGT
* * * *
67549 TAAAAATGGAA-TTTTCGAAAGTTCACGGG
1 TAAAAATGTAATTTTTGGAAAGTTTAGGGG
* *
67578 T-AAAATGGTAATTTTTGGTGAAA-TTGA-GGT
1 TAAAAAT-GTAATTTTT-G-GAAAGTTTAGGGG
* *
67608 TAAAAATGGAA-TTTTAGAAAGTTTAGGGG
1 TAAAAATGTAATTTTTGGAAAGTTTAGGGG
* *
67637 TAAAAATGTAATTTTTGGGAAA-ATTA-AGG
1 TAAAAATGTAATTTTT-GGAAAGTTTAGGGG
* * *
67666 TCAAAATTGGAA-TTTT-GAGAAGTTTGGGGG
1 T-AAAAATGTAATTTTTGGA-AAGTTTAGGGG
*** *
67696 TAAAAATGTAATTTTCAAAAAGTTT-TGGG
1 TAAAAATGTAATTTTTGGAAAGTTTAGGGG
* *
67725 TCAAAAATGGAATTTTGGGAAA-TTTAGGGG
1 T-AAAAATGTAATTTTTGGAAAGTTTAGGGG
*
67755 TAAAAATGTAATTTTTGGAGAAGTTTAAGGG
1 TAAAAATGTAATTTTTGGA-AAGTTTAGGGG
* * *
67786 TTAAAATATAA-TTTTGGAAAATTTAGGGG
1 TAAAAATGTAATTTTTGGAAAGTTTAGGGG
* * *
67815 TTAAAGTATAA-TTTTGGAGAAGTTTAGGGG
1 TAAAAATGTAATTTTTGGA-AAGTTTAGGGG
* ** * *
67845 TTAAAACATAATTTTAGAAAAGTTTAGGGG
1 TAAAAATGTAATTTTTGGAAAGTTTAGGGG
* * *
67875 TCAAAATGTGATTTTTGGATAGTTTA
1 TAAAAATGTAATTTTTGGAAAGTTTA
67901 AGGACCTCGA
Statistics
Matches: 255, Mismatches: 47, Indels: 41
0.74 0.14 0.12
Matches are distributed among these distances:
27 6 0.02
28 10 0.04
29 86 0.34
30 115 0.45
31 34 0.13
32 4 0.02
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (30 bp):
TAAAAATGTAATTTTTGGAAAGTTTAGGGG
Found at i:69021 original size:3 final size:3
Alignment explanation
Indices: 69015--69057 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
69005 ATTATTAACG
69015 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
69058 AACCATTATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:71646 original size:52 final size:52
Alignment explanation
Indices: 71566--71666 Score: 168
Period size: 52 Copynumber: 1.9 Consensus size: 52
71556 TTTGTGGATA
*
71566 TCGGGGTAGTAGATTGGTTGATGGTGATCTGCCCCAAGCTCAAGGTAAATGC
1 TCGGGGTAGTAGATTGGTTGATGATGATCTGCCCCAAGCTCAAGGTAAATGC
*
71618 TCGGGGTAAG-AGATTGGTTGATGATGATCTGCCCCAAGCTCGAGGTAAA
1 TCGGGGT-AGTAGATTGGTTGATGATGATCTGCCCCAAGCTCAAGGTAAA
71667 AGATCAATGG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 44 0.96
53 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (52 bp):
TCGGGGTAGTAGATTGGTTGATGATGATCTGCCCCAAGCTCAAGGTAAATGC
Found at i:83593 original size:28 final size:28
Alignment explanation
Indices: 83562--83665 Score: 111
Period size: 28 Copynumber: 3.6 Consensus size: 28
83552 GAGTACCCGG
* *
83562 GGGCAAAATGGTAATTTTAGACACTCGA
1 GGGCAAAATGGTAATTTTAGAAAATCGA
*
83590 GGGCAAAATGGTAATTTTGGAAAAATCGA
1 GGGCAAAATGGTAATTTTAG-AAAATCGA
* *
83619 GGTCAAAAATGG-AATTTTAGAAAGATCAA
1 GGGC-AAAATGGTAATTTTAGAAA-ATCGA
* *
83648 GAGTAAAATGGTAATTTT
1 GGGCAAAATGGTAATTTT
83666 TGGTGAAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
28 29 0.46
29 27 0.43
30 7 0.11
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (28 bp):
GGGCAAAATGGTAATTTTAGAAAATCGA
Found at i:83629 original size:58 final size:58
Alignment explanation
Indices: 83566--83683 Score: 141
Period size: 58 Copynumber: 2.0 Consensus size: 58
83556 ACCCGGGGGC
* * * *
83566 AAAATGGTAATTTTAGACA-CTCGAGGGCAAAATGGTAA-TTTTGGAAAAATCGAGGTCA
1 AAAATGG-AATTTTAGAAAGATCAAGAGCAAAATGGTAATTTTTGGAAAAATCG-GGTCA
* **
83624 AAAATGGAATTTTAGAAAGATCAAGAGTAAAATGGTAATTTTTGGTGAAATCGGGTCA
1 AAAATGGAATTTTAGAAAGATCAAGAGCAAAATGGTAATTTTTGGAAAAATCGGGTCA
83682 AA
1 AA
83684 TGGTATTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
57 10 0.20
58 29 0.57
59 12 0.24
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.27
Consensus pattern (58 bp):
AAAATGGAATTTTAGAAAGATCAAGAGCAAAATGGTAATTTTTGGAAAAATCGGGTCA
Found at i:83630 original size:30 final size:30
Alignment explanation
Indices: 83566--83785 Score: 99
Period size: 29 Copynumber: 7.5 Consensus size: 30
83556 ACCCGGGGGC
* * * *
83566 AAAATGGTAATTTTAG-ACACTCGAGGGC-
1 AAAATGGTAATTTTGGAAAAATCGAGGTCA
83594 AAAATGGTAATTTTGGAAAAATCGAGGTCA
1 AAAATGGTAATTTTGGAAAAATCGAGGTCA
* * *
83624 AAAATGG-AATTTTAGAAAGATCAAGAGT--
1 AAAATGGTAATTTTGGAAAAATCGAG-GTCA
**
83652 AAAATGGTAATTTTTGGTGAAATCG-GGTC-
1 AAAATGGTAA-TTTTGGAAAAATCGAGGTCA
* * **
83681 -AAATGGTATTTTTTTTGTGAAATC-AGGGTCA
1 AAAATGGTA--ATTTTGGAAAAATCGA-GGTCA
* * **
83712 AAAAAGG-AATTTTAGAAAGTTCGAGGGT-A
1 AAAATGGTAATTTTGGAAAAATCGA-GGTCA
*
83741 AAAAT-GTAATTTTTAGG-AAAATCAAGGTCA
1 AAAATGGTAA-TTTT-GGAAAAATCGAGGTCA
83771 AAAATGG-AACTTTTG
1 AAAATGGTAA-TTTTG
83786 CAAGTTTGAG
Statistics
Matches: 147, Mismatches: 27, Indels: 35
0.70 0.13 0.17
Matches are distributed among these distances:
28 33 0.22
29 58 0.39
30 48 0.33
31 3 0.02
32 5 0.03
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAATGGTAATTTTGGAAAAATCGAGGTCA
Found at i:83805 original size:29 final size:30
Alignment explanation
Indices: 83705--83973 Score: 168
Period size: 29 Copynumber: 9.1 Consensus size: 30
83695 TTGTGAAATC
*
83705 AGGGTCAAAAAA-GGAA-TTTTAGAAAGTTCG
1 AGGGT-AAAAAATGGAATTTTTAGAAAGTT-T
* * *
83735 AGGGT-AAAAATGTAATTTTTAGGAAA-ATC
1 AGGGTAAAAAATGGAATTTTTA-GAAAGTTT
* * * *
83764 AAGGTCAAAAATGGAACTTTT-GCAAGTTT
1 AGGGTAAAAAATGGAATTTTTAGAAAGTTT
* *
83793 GAGGGT-AAAAATGTAATTTTTGGAAAGTTT
1 -AGGGTAAAAAATGGAATTTTTAGAAAGTTT
* *
83823 TGGGTAAAAAATGGAATTTTAAG-AAGTTT
1 AGGGTAAAAAATGGAATTTTTAGAAAGTTT
* * *
83852 GAGGGT-AAAAGTGTAATTTTTGGAAAGTTT
1 -AGGGTAAAAAATGGAATTTTTAGAAAGTTT
* ** *
83882 AGGGTCAAAAATATAA-TTTTAGAAAGTTC
1 AGGGTAAAAAATGGAATTTTTAGAAAGTTT
* *
83911 ATGGGT-GAAAATGTAATTTTTAGAAAGTTT
1 A-GGGTAAAAAATGGAATTTTTAGAAAGTTT
* *
83941 GGGGTCAAAATAT--AATTTTGTAG-AAGTTT
1 AGGGT-AAAAAATGGAATTTT-TAGAAAGTTT
83970 AGGG
1 AGGG
83974 GTCAAAATAT
Statistics
Matches: 190, Mismatches: 33, Indels: 33
0.74 0.13 0.13
Matches are distributed among these distances:
28 8 0.04
29 88 0.46
30 86 0.45
31 8 0.04
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.33
Consensus pattern (30 bp):
AGGGTAAAAAATGGAATTTTTAGAAAGTTT
Found at i:83833 original size:30 final size:29
Alignment explanation
Indices: 83721--84091 Score: 241
Period size: 30 Copynumber: 12.5 Consensus size: 29
83711 AAAAAAGGAA
*
83721 TTTTAGAAAGTTCGAGGGTAAAAATGTAAT
1 TTTTAGAAAGTT-TAGGGTAAAAATGTAAT
* * * * *
83751 TTTTAGGAAA-ATCAAGGTCAAAAATGGAAC
1 TTTTA-GAAAGTTTAGGGT-AAAAATGTAAT
*
83781 TTTT-GCAAGTTTGAGGGTAAAAATGTAAT
1 TTTTAGAAAGTTT-AGGGTAAAAATGTAAT
* * *
83810 TTTTGGAAAGTTTTGGGTAAAAAATGGAAT
1 TTTTAGAAAGTTTAGGGT-AAAAATGTAAT
* *
83840 TTTAAG-AAGTTTGAGGGTAAAAGTGTAAT
1 TTTTAGAAAGTTT-AGGGTAAAAATGTAAT
* *
83869 TTTTGGAAAGTTTAGGGTCAAAAATATAA-
1 TTTTAGAAAGTTTAGGGT-AAAAATGTAAT
* *
83898 TTTTAGAAAGTTCATGGGTGAAAATGTAAT
1 TTTTAGAAAGTTTA-GGGTAAAAATGTAAT
* * *
83928 TTTTAGAAAGTTTGGGGTCAAAATATAAT
1 TTTTAGAAAGTTTAGGGTAAAAATGTAAT
* *
83957 TTTGTAG-AAGTTTAGGGGTCAAAATATAAT
1 TTT-TAGAAAGTTTA-GGGTAAAAATGTAAT
* * * * *
83987 ATCTAAAAAGTTTAAGGGTCAAAATAT-AT
1 TTTTAGAAAGTTT-AGGGTAAAAATGTAAT
* * **
84016 TTTTGGAGAAGTTTAGGGGTCAAAACATAAT
1 TTTTAGA-AAGTTTA-GGGTAAAAATGTAAT
* * * *
84047 TTTGGAAAAAGTTTAGGGGTCAAAATGTGAT
1 TTT-TAGAAAGTTTA-GGGTAAAAATGTAAT
* *
84078 TTTTGGATAGTTTA
1 TTTTAGAAAGTTTA
84092 AGGACCTCCA
Statistics
Matches: 272, Mismatches: 50, Indels: 38
0.76 0.14 0.11
Matches are distributed among these distances:
28 3 0.01
29 96 0.35
30 139 0.51
31 33 0.12
32 1 0.00
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (29 bp):
TTTTAGAAAGTTTAGGGTAAAAATGTAAT
Found at i:83937 original size:59 final size:59
Alignment explanation
Indices: 83705--84071 Score: 259
Period size: 59 Copynumber: 6.2 Consensus size: 59
83695 TTGTGAAATC
* *
83705 AGGGTCAAAAA-AGGAATTTTAGA-AAGTTCGAGGGTAAAAATGTAATTTTTAGGAAA-ATC
1 AGGGTCAAAAATA-GAATTTTAGAGAAGTTC-AGGGTAAAAATGTAATTTTTA-GAAAGTTT
* * * * *
83764 AAGGTCAAAAATGGAACTTTT-G-CAAGTTTGAGGGTAAAAATGTAATTTTTGGAAAGTTT
1 AGGGTCAAAAATAGAA-TTTTAGAGAAG-TTCAGGGTAAAAATGTAATTTTTAGAAAGTTT
* * * * * *
83823 TGGGTAAAAAATGGAATTTTA-AGAAGTTTGAGGGTAAAAGTGTAATTTTTGGAAAGTTT
1 AGGGTCAAAAATAGAATTTTAGAGAAG-TTCAGGGTAAAAATGTAATTTTTAGAAAGTTT
* *
83882 AGGGTCAAAAATATAATTTTAGA-AAGTTCATGGGTGAAAATGTAATTTTTAGAAAGTTT
1 AGGGTCAAAAATAGAATTTTAGAGAAGTTCA-GGGTAAAAATGTAATTTTTAGAAAGTTT
* * * * * * * *
83941 GGGGTC-AAAATATAATTTT-GTAGAAGTTTAGGGGTCAAAATATAATATCTAAAAAGTTT
1 AGGGTCAAAAATAGAATTTTAG-AGAAGTTCA-GGGTAAAAATGTAATTTTTAGAAAGTTT
* * * * * ** * *
84000 AAGGGTC-AAAATATATTTTTGGAGAAGTTTAGGGGTCAAAACATAATTTTGGAAAAAGTTT
1 -AGGGTCAAAAATAGAATTTTAGAGAAGTTCA-GGGTAAAAATGTAATTTT-TAGAAAGTTT
84061 AGGGGTCAAAA
1 A-GGGTCAAAA
84072 TGTGATTTTT
Statistics
Matches: 259, Mismatches: 33, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
57 1 0.00
58 25 0.10
59 165 0.64
60 50 0.19
61 15 0.06
62 3 0.01
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.32
Consensus pattern (59 bp):
AGGGTCAAAAATAGAATTTTAGAGAAGTTCAGGGTAAAAATGTAATTTTTAGAAAGTTT
Found at i:83966 original size:118 final size:115
Alignment explanation
Indices: 83706--84081 Score: 287
Period size: 118 Copynumber: 3.2 Consensus size: 115
83696 TGTGAAATCA
* * * * * *
83706 GGGTCAAAAAAGGAATTTT-AGAAAGTTCGAGGGTAAAAATGTAATTTTTAGGAAA-ATCAAGGT
1 GGGTCAAAATATGAATTTTAAG-AAGTTTGAGGGT-AAAATGTAATTTTT-GGAAAGTTTAGGGT
** * * * *
83769 CAAAAATGGAACTTTTGCAAGTTTGAGGGTAAAAATGTAATTTTTGGAAAGTTTT
63 CAAAAATATAA-TTTTGAAAG-TTCAGGGTAAAAATGTAATTTTTAGAAAGTTTG
*
83824 GGGT-AAAAAATGGAATTTTAAGAAGTTTGAGGGTAAAAGTGTAATTTTTGGAAAGTTTAGGGTC
1 GGGTCAAAATAT-GAATTTTAAGAAGTTTGAGGGTAAAA-TGTAATTTTTGGAAAGTTTAGGGTC
*
83888 AAAAATATAATTTTAGAAAGTTCATGGGTGAAAATGTAATTTTTAGAAAGTTTG
64 AAAAATATAATTTT-GAAAGTTCA-GGGTAAAAATGTAATTTTTAGAAAGTTTG
* * * * **
83942 GGGTCAAAATAT-AATTTTGTAGAAGTTT-AGGGGTCAAAATATAATATCTAAAAAGTTTAAGGG
1 GGGTCAAAATATGAATTTT-AAGAAGTTTGA-GGGT-AAAATGTAATTTTTGGAAAGTTT-AGGG
* * * ** * *
84005 TC-AAAATATATTTTTGGAGAAGTTTAGGGGTCAAAACATAATTTTGGAAAAAGTTTAG
62 TCAAAAATATAATTTT-GA-AAGTTCA-GGGTAAAAATGTAATTTT-TAGAAAGTTT-G
* *
84063 GGGTCAAAATGTGATTTTT
1 GGGTCAAAATATGAATTTT
84082 GGATAGTTTA
Statistics
Matches: 213, Mismatches: 30, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
117 29 0.14
118 120 0.56
119 39 0.18
120 8 0.04
121 12 0.06
122 5 0.02
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (115 bp):
GGGTCAAAATATGAATTTTAAGAAGTTTGAGGGTAAAATGTAATTTTTGGAAAGTTTAGGGTCAA
AAATATAATTTTGAAAGTTCAGGGTAAAAATGTAATTTTTAGAAAGTTTG
Found at i:85867 original size:11 final size:11
Alignment explanation
Indices: 85851--85880 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
85841 TGGACTTTTT
85851 AAATTCAATTC
1 AAATTCAATTC
*
85862 AAATTCAATTT
1 AAATTCAATTC
85873 AAATTCAA
1 AAATTCAA
85881 ACTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATTCAATTC
Found at i:85935 original size:17 final size:17
Alignment explanation
Indices: 85849--85936 Score: 61
Period size: 17 Copynumber: 5.0 Consensus size: 17
85839 ATTGGACTTT
* *
85849 TTAAATTCAATTCAAA-
1 TTAAATTAAATTTAAAC
* *
85865 TTCAATTTAAATTCAAAC
1 TT-AAATTAAATTTAAAC
* *
85883 TTAATTTAAGTTTAAAC
1 TTAAATTAAATTTAAAC
**
85900 TTTAAAAGAAAAGTTTAAAC
1 -TT-AAATTAAA-TTTAAAC
85920 TTAAATTAAATTTAAAC
1 TTAAATTAAATTTAAAC
85937 CCAAAATGAA
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
16 2 0.04
17 32 0.56
18 10 0.18
19 6 0.11
20 7 0.12
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (17 bp):
TTAAATTAAATTTAAAC
Found at i:89766 original size:439 final size:442
Alignment explanation
Indices: 88947--89832 Score: 1481
Period size: 439 Copynumber: 2.0 Consensus size: 442
88937 GTAAAAAAAT
* *
88947 TACAACTGCAATTGCTTGGCTTTTATAGCCGAAAATACAAGATCTGTTATTCTCTCTTTTTCTAA
1 TACAACTGCAATTGCTTGGCTTTTATAGCCAAAAATACAAGATATGTTATTCTCTCTTTTTCTAA
**
89012 TTTGTTTTGTGGGTAATGATGGTGGTTGCAAGAGCACTTTCGACCGTCCAATGGTAGTGGTGGCA
66 TTTGTTTTGCAGGTAATGATGGTGGTTGCAAGAGCACTTTCGACCGTCCAATGGTAGTGGTGGCA
* * ** *
89077 TGGTGGATAGCATCGAGAATCAGTGGCTAAAGTGGAAGGGGTGTGCGGCGTCGAGGGTTGAGTCA
131 TGGTGGATAGCATCGAGAATCAGTGGCTAAAGTGGAAAGGGTGCGCAACGCCGAGGGTTGAGTCA
* *
89142 AGTATTAGGGTTTTTTTATTTTTCATGTATTTGGGCTTTTTGGGCTTACATTGATTTGGACTAGA
196 AGTATTAGGGTTTTCTGATTTTTCATGTATTTGGGCTTTTTGGGCTTACATTGATTTGGACTAGA
89207 GTGAGTTAATTGGGTTTGTGTATTGGGTTAGATTTATGTGGGTAAATGAGATTTGAGTTTGGTTT
261 GTGAGTTAATTGGGTTTGTGTATTGGGTTAGATTTATGTGGGTAAATGAGATTTGAGTTTGGTTT
*
89272 TGGCAATTGGATATTTTGTAAAGAGACTTTTTGAACCAAAATAAATTTAAATTTAAAATGTTTAT
326 TGGCAATTGGATATTTTGTAAAGAGACATTTTGAACCAAAATAAATTTAAATTTAAAATGTTTAT
*
89337 TTTTTTG-TTTT-TTGGATTTTGAATTTTGGGCCCGGACAAATTGGGCCTTC
391 TTTTTTGTTTTTATTGGATTTTGAATTTTGGGCCCGGACAAATTAGGCCTTC
* * *
89387 TACAACTGCATTTGCTTGGCTTTTATAGCCAAAAATACAAGATATGTTCTTCTCTCTTTTTCTGA
1 TACAACTGCAATTGCTTGGCTTTTATAGCCAAAAATACAAGATATGTTATTCTCTCTTTTTCTAA
* * *
89452 TTTGTTTTGCAGGTGATGATGGTGGTTGTAAGAGCACTTTCGACCGTCCAATGGTGGTGGTGGCA
66 TTTGTTTTGCAGGTAATGATGGTGGTTGCAAGAGCACTTTCGACCGTCCAATGGTAGTGGTGGCA
* * * * *
89517 TGGTGGATAGCCTCGGGAATCAGTGGTTGAAGTGGAAAGGG-GCGCAATGCCGAGGGTTGAGTCA
131 TGGTGGATAGCATCGAGAATCAGTGGCTAAAGTGGAAAGGGTGCGCAACGCCGAGGGTTGAGTCA
89581 AGTATTAGGGTTTTCTGATTTTTCATGTATTTGGGCTTTTTGGGCTTACATTGATTTGGACTAGA
196 AGTATTAGGGTTTTCTGATTTTTCATGTATTTGGGCTTTTTGGGCTTACATTGATTTGGACTAGA
* *
89646 GTGAGTTAGTTGGGTTTGTGTATTGGGTTAGATTTATGTGGGTAAATGGGATTTGAGTTTGGTTT
261 GTGAGTTAATTGGGTTTGTGTATTGGGTTAGATTTATGTGGGTAAATGAGATTTGAGTTTGGTTT
* *
89711 TGGCAATTGGATATTTTGTAAAGGGACATTTTGAATCAAAATAAATTTAAATTTAAAATGTTTAT
326 TGGCAATTGGATATTTTGTAAAGAGACATTTTGAACCAAAATAAATTTAAATTTAAAATGTTTAT
* *
89776 TTTTTTGTTTTTATTTGATTTTGAGTTTTGGGCCCGGACAAATTAGGCCTTC
391 TTTTTTGTTTTTATTGGATTTTGAATTTTGGGCCCGGACAAATTAGGCCTTC
89828 TACAA
1 TACAA
89833 GGGTAATGCG
Statistics
Matches: 414, Mismatches: 30, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
439 213 0.51
440 160 0.39
441 41 0.10
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.40
Consensus pattern (442 bp):
TACAACTGCAATTGCTTGGCTTTTATAGCCAAAAATACAAGATATGTTATTCTCTCTTTTTCTAA
TTTGTTTTGCAGGTAATGATGGTGGTTGCAAGAGCACTTTCGACCGTCCAATGGTAGTGGTGGCA
TGGTGGATAGCATCGAGAATCAGTGGCTAAAGTGGAAAGGGTGCGCAACGCCGAGGGTTGAGTCA
AGTATTAGGGTTTTCTGATTTTTCATGTATTTGGGCTTTTTGGGCTTACATTGATTTGGACTAGA
GTGAGTTAATTGGGTTTGTGTATTGGGTTAGATTTATGTGGGTAAATGAGATTTGAGTTTGGTTT
TGGCAATTGGATATTTTGTAAAGAGACATTTTGAACCAAAATAAATTTAAATTTAAAATGTTTAT
TTTTTTGTTTTTATTGGATTTTGAATTTTGGGCCCGGACAAATTAGGCCTTC
Found at i:92430 original size:48 final size:49
Alignment explanation
Indices: 92373--92468 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 49
92363 ACTTTGAACA
92373 TTAAAAAATA-TTTCTTTATTT-TTTTTTCCATATAATATATTTTAACT
1 TTAAAAAATATTTTCTTTATTTCTTTTTTCCATATAATATATTTTAACT
* *
92420 TTAAATAAATATTTTTTTTATTTCTTTTTTCCATATCATATATTTTAAC
1 TTAAA-AAATATTTTCTTTATTTCTTTTTTCCATATAATATATTTTAAC
92469 CTTTTAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
47 5 0.11
48 5 0.11
49 10 0.23
50 24 0.55
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.58
Consensus pattern (49 bp):
TTAAAAAATATTTTCTTTATTTCTTTTTTCCATATAATATATTTTAACT
Found at i:103184 original size:56 final size:56
Alignment explanation
Indices: 103074--103201 Score: 168
Period size: 56 Copynumber: 2.3 Consensus size: 56
103064 TGCTAAACCT
*
103074 TGTGTACATACTGTTTAGTGACACACGGGCTGGGCACACAGGCTTGTGTCAGACCG
1 TGTGTACATACTGTTTAGTGACACACGGGCTGGGCACACAGGCTTATGTCAGACCG
* * * * *
103130 TGTGTACATACTGTTTGGTGACACACGGGCTGGGCATAC-GGGTGTATGTTAGACCT
1 TGTGTACATACTGTTTAGTGACACACGGGCTGGGCACACAGGCT-TATGTCAGACCG
* *
103186 TATGTGCATACTGTTT
1 TGTGTACATACTGTTT
103202 TGGGAACTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 3 0.05
56 60 0.95
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (56 bp):
TGTGTACATACTGTTTAGTGACACACGGGCTGGGCACACAGGCTTATGTCAGACCG
Found at i:103595 original size:40 final size:40
Alignment explanation
Indices: 103545--103657 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 40
103535 GGGATTACTA
*
103545 TTACTGAACTGGCAGTGATACTGTAAACACTGCGGTATT-
1 TTACTGAACTGGCAGTGATACTGTAAACACTGCAGTATTG
* * * * *
103584 TCTACTAAACTGGCGGTGACACTTTAGAA-ACTGCATTATTG
1 T-TACTGAACTGGCAGTGATACTGTA-AACACTGCAGTATTG
* *
103625 TTACTGAACTAGCCGTGATACTGTAAACACTGC
1 TTACTGAACTGGCAGTGATACTGTAAACACTGC
103658 TAGACTGACA
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
39 3 0.05
40 53 0.90
41 3 0.05
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (40 bp):
TTACTGAACTGGCAGTGATACTGTAAACACTGCAGTATTG
Found at i:106211 original size:18 final size:17
Alignment explanation
Indices: 106190--106235 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
106180 ATTTTTATTT
106190 ATTAAGTTATTATTTTTA
1 ATTAA-TTATTATTTTTA
*
106208 ATTAATTTTTATTTTTA
1 ATTAATTATTATTTTTA
106225 A--AATTATTATT
1 ATTAATTATTATT
106236 ATTGTTCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 9 0.35
17 12 0.46
18 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTAATTATTATTTTTA
Found at i:108203 original size:12 final size:11
Alignment explanation
Indices: 108177--108220 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
108167 TTTAATAAAA
*
108177 TTTATATTATT
1 TTTATATTTTT
108188 TTTATGATTTTT
1 TTTAT-ATTTTT
108200 TTTAATATTTTT
1 TTT-ATATTTTT
108212 TTTA-ATTTT
1 TTTATATTTT
108221 AAAAAAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 5 0.17
11 6 0.20
12 17 0.57
13 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTATATTTTT
Found at i:112407 original size:34 final size:34
Alignment explanation
Indices: 112364--112431 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
112354 TTTGAATTCG
112364 GTCTATGAACTTCCTAAACA-AATTCAGGCTATCT
1 GTCTATGAACTTCCTAAACAGAA-TCAGGCTATCT
112398 GTCTATGAACTTCCTAAACAGAATCAGGCTATCT
1 GTCTATGAACTTCCTAAACAGAATCAGGCTATCT
112432 AATTAACTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 31 0.94
35 2 0.06
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (34 bp):
GTCTATGAACTTCCTAAACAGAATCAGGCTATCT
Found at i:119771 original size:18 final size:18
Alignment explanation
Indices: 119744--119779 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
119734 ATTATTTTTA
*
119744 ATTTTTTTTTAATTATTT
1 ATTTTATTTTAATTATTT
*
119762 ATTTTATTTTATTTATTT
1 ATTTTATTTTAATTATTT
119780 TAATATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
ATTTTATTTTAATTATTT
Found at i:122862 original size:18 final size:19
Alignment explanation
Indices: 122836--122879 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
122826 TAACTAAATT
122836 TCAA-ATATAAAATATTCA
1 TCAATATATAAAATATTCA
*
122854 TCAATTATATAAAATGTTCA
1 TCAA-TATATAAAATATTCA
122874 TCAATA
1 TCAATA
122880 AACTTCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 2 0.09
20 17 0.74
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.36
Consensus pattern (19 bp):
TCAATATATAAAATATTCA
Found at i:122865 original size:20 final size:20
Alignment explanation
Indices: 122840--122878 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
122830 TAAATTTCAA
122840 ATATAAAATATTCATCAATT
1 ATATAAAATATTCATCAATT
*
122860 ATATAAAATGTTCATCAAT
1 ATATAAAATATTCATCAAT
122879 AAACTTCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (20 bp):
ATATAAAATATTCATCAATT
Found at i:126720 original size:24 final size:24
Alignment explanation
Indices: 126693--126741 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
126683 AAGTTTACCG
* * *
126693 ACTAGGTTACTACACTTTTAGTAA
1 ACTAGGTAACTAAACTTTTAATAA
*
126717 ACTAGGTAATTAAACTTTTAATAA
1 ACTAGGTAACTAAACTTTTAATAA
126741 A
1 A
126742 TTTACATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (24 bp):
ACTAGGTAACTAAACTTTTAATAA
Found at i:127397 original size:58 final size:58
Alignment explanation
Indices: 127327--127444 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
127317 TATATGGAGG
127327 TATTATATTGGGAGTTAAATTATATTTTGCCCCATTTATTTAAAAATAAATAAATTAA
1 TATTATATTGGGAGTTAAATTATATTTTGCCCCATTTATTTAAAAATAAATAAATTAA
127385 TATTATATTGGGAGTTAAATTATATTTTGCCCCATTTATTTAAAAATAAATAAATTAA
1 TATTATATTGGGAGTTAAATTATATTTTGCCCCATTTATTTAAAAATAAATAAATTAA
127443 TA
1 TA
127445 CCTGTACATT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (58 bp):
TATTATATTGGGAGTTAAATTATATTTTGCCCCATTTATTTAAAAATAAATAAATTAA
Found at i:129844 original size:16 final size:18
Alignment explanation
Indices: 129818--129850 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
129808 AACATACATT
129818 TTAATAATTTT-TTTTTC
1 TTAATAATTTTCTTTTTC
129835 TTAA-AATTTTCTTTTT
1 TTAATAATTTTCTTTTT
129851 AGATTATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (18 bp):
TTAATAATTTTCTTTTTC
Found at i:132906 original size:49 final size:49
Alignment explanation
Indices: 132834--132931 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
132824 CATCTATTTA
* * *
132834 AAGGTTGAAAAACCTTATTCTAATCAATGTGAAGTAGAAAAAGTGTAGT
1 AAGGTTGAAAAACCTGATTCTAATCAATGTCAAATAGAAAAAGTGTAGT
*
132883 AAGGTTGAAAAACCTGATTCTAATCAATGTCAAATAGAATAAGTGTAGT
1 AAGGTTGAAAAACCTGATTCTAATCAATGTCAAATAGAAAAAGTGTAGT
132932 TCTATACGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (49 bp):
AAGGTTGAAAAACCTGATTCTAATCAATGTCAAATAGAAAAAGTGTAGT
Found at i:138947 original size:6 final size:6
Alignment explanation
Indices: 138936--138960 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
138926 ACAGAAAAGT
138936 AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA A
138961 TGGAACTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:141867 original size:18 final size:18
Alignment explanation
Indices: 141840--141893 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
141830 CTAAAATAGT
141840 AACAAA-ATTAACAATAA
1 AACAAACATTAACAATAA
*
141857 AACAAACATTATATAAT-A
1 AACAAACATTA-ACAATAA
**
141875 TCCAAACATTAACAA-AA
1 AACAAACATTAACAATAA
141892 AA
1 AA
141894 GTAGGGAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
17 10 0.36
18 14 0.50
19 4 0.14
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.20
Consensus pattern (18 bp):
AACAAACATTAACAATAA
Found at i:141958 original size:24 final size:22
Alignment explanation
Indices: 141919--141964 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 22
141909 TAAAACATTG
141919 GCAAAAAGAAAAAACAACAACA
1 GCAAAAAGAAAAAACAACAACA
141941 GCAAAACATGAAAAAACAACAACA
1 GCAAAA-A-GAAAAAACAACAACA
141965 AAAACAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.27
23 1 0.05
24 15 0.68
ACGTcount: A:0.70, C:0.20, G:0.09, T:0.02
Consensus pattern (22 bp):
GCAAAAAGAAAAAACAACAACA
Found at i:142797 original size:25 final size:24
Alignment explanation
Indices: 142762--142810 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
142752 AATGTAAATT
* *
142762 TTATATTAATATTAAATAAATATAA
1 TTATATCAATATAAAATAAA-ATAA
142787 TTATATCAATATAAAATAAAATAA
1 TTATATCAATATAAAATAAAATAA
142811 ATATCTTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TTATATCAATATAAAATAAAATAA
Found at i:142846 original size:6 final size:6
Alignment explanation
Indices: 142835--142860 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
142825 CACCATCGTA
142835 CCTCTC CCTCTC CCTCTC CCTCTC CC
1 CCTCTC CCTCTC CCTCTC CCTCTC CC
142861 NNNNNNNNNN
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCTCTC
Found at i:145330 original size:138 final size:137
Alignment explanation
Indices: 145073--145347 Score: 498
Period size: 138 Copynumber: 2.0 Consensus size: 137
145063 TTAGAAATAA
145073 TTTATGTTAATTTTTTTATTATAGTTTTGATTATATGGAAATGGAGAAATATTGGTGTGGAGTTC
1 TTTATGTTAATTTTTTTATTATAGTTTTGATTATATGGAAATGGAGAAATATTGGTGTGGAGTTC
*
145138 CAAGCTTAATTGATGGTGGATTGGTGTTCATGTCAGCTTAATTAAGTGTTAGGAAACATCCATCA
66 CAAGCTTAATTGATGGTGGATTGATGTTCATGTCAGCTTAATTAAGTGTTAGGAAACATCCATCA
145203 AGGTAAG
131 AGGTAAG
145210 TTTATGTTAA-TTTTTTATTATAGTTTTGATTATATGGAAATGGAGAAATATTGGTTTGTGGAGT
1 TTTATGTTAATTTTTTTATTATAGTTTTGATTATATGGAAATGGAGAAATATTGG--TGTGGAGT
* *
145274 TCCGAGCTTAATTGATGGTGGATTGATGTTCATGTGAGCTTAATTAAGTGTTAGGAAACATCCAT
64 TCCAAGCTTAATTGATGGTGGATTGATGTTCATGTCAGCTTAATTAAGTGTTAGGAAACATCCAT
145339 CAAGGTAAG
129 CAAGGTAAG
145348 AATCATGGAT
Statistics
Matches: 133, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
136 44 0.33
137 10 0.08
138 79 0.59
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (137 bp):
TTTATGTTAATTTTTTTATTATAGTTTTGATTATATGGAAATGGAGAAATATTGGTGTGGAGTTC
CAAGCTTAATTGATGGTGGATTGATGTTCATGTCAGCTTAATTAAGTGTTAGGAAACATCCATCA
AGGTAAG
Found at i:148412 original size:29 final size:29
Alignment explanation
Indices: 148375--148440 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
148365 AAAAGTTTAA
148375 GGGT-AAAATTGTAATTTTGG-GAAAGTAT-
1 GGGTCAAAA-TGTAATTTTGGTG-AAGTATG
* *
148403 GGGTCAAAATGTGATTTTGGTGAAGTTTG
1 GGGTCAAAATGTAATTTTGGTGAAGTATG
148432 GGGTCAAAA
1 GGGTCAAAA
148441 CATGATTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 19 0.58
29 14 0.42
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTGGTGAAGTATG
Found at i:148419 original size:28 final size:30
Alignment explanation
Indices: 148366--148717 Score: 187
Period size: 29 Copynumber: 11.9 Consensus size: 30
148356 TATTTTTAGA
*
148366 AAAGTTTAAGGGT-AAAATTGTAATTTTGG-G
1 AAAGTTT-AGGGTCAAAA-TGTGATTTTGGAG
* *
148396 AAAGTAT-GGGTCAAAATGTGATTTTGGTG
1 AAAGTTTAGGGTCAAAATGTGATTTTGGAG
* **
148425 -AAGTTTGGGGTCAAAACATGATTTTGGA-
1 AAAGTTTAGGGTCAAAATGTGATTTTGGAG
* *
148453 AAGGTTTAGGGTTAAAATGTGATTTTGGAG
1 AAAGTTTAGGGTCAAAATGTGATTTTGGAG
* * *
148483 AAA-TTTAAGATTAAAATGTGATTTT-GA-
1 AAAGTTTAGGGTCAAAATGTGATTTTGGAG
*
148510 AAAGTTTAAGGGTTAAAAAAATGTGATTTTGGAG
1 AAAGTTT-AGGG-T--CAAAATGTGATTTTGGAG
* * *
148544 AAA-TTTAAGATTAAAATGTGATTTT-GA-
1 AAAGTTTAGGGTCAAAATGTGATTTTGGAG
* * * *
148571 AAACTTTAGGGGTTAAAATGTAATTTT-GAA
1 AAAGTTTA-GGGTCAAAATGTGATTTTGGAG
* *
148601 AAAGTTTAGGGGTTAAAAT-TTATTTTTGGA-
1 AAAGTTTA-GGGTCAAAATGTGA-TTTTGGAG
* * * * * *
148631 AAATTTTTAGGGACAAATTATAATTTTAG-G
1 AAA-GTTTAGGGTCAAAATGTGATTTTGGAG
* * * * *
148661 AAAGTTTTGAGGTTAAAATGTAATGTTAGA-
1 AAAGTTTAG-GGTCAAAATGTGATTTTGGAG
*
148691 AAAGTTTGATGGTCAAAATGTGATTTT
1 AAAGTTT-AGGGTCAAAATGTGATTTT
148718 CAAGAAGTTC
Statistics
Matches: 256, Mismatches: 43, Indels: 46
0.74 0.12 0.13
Matches are distributed among these distances:
27 6 0.02
28 30 0.12
29 104 0.41
30 84 0.33
31 9 0.04
32 15 0.06
33 5 0.02
34 3 0.01
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.38
Consensus pattern (30 bp):
AAAGTTTAGGGTCAAAATGTGATTTTGGAG
Found at i:148499 original size:87 final size:87
Alignment explanation
Indices: 148344--148508 Score: 203
Period size: 87 Copynumber: 1.9 Consensus size: 87
148334 CAGAGAATTC
* *
148344 GGGGTCAAAACATATTTTTAGAAAAGTTTAAGGGTAAAATTGTAATTTTGGGAAAGTATGGGTCA
1 GGGGTCAAAACATATTTTTAGAAAAGTTTAAGGGTAAAATTGTAATTTTGGGAAAGTATAGATCA
148409 AAATGTGATTTTGGTGAAGTTT
66 AAATGTGATTTTGGTGAAGTTT
* * * *
148431 GGGGTCAAAACATGA-TTTTGGAAAGGTTT-AGGGTTAAAA-TGTGATTTTGGAGAAA-TTTAAG
1 GGGGTCAAAACAT-ATTTTTAGAAAAGTTTAAGGG-TAAAATTGTAATTTTGG-GAAAGTAT-AG
*
148492 ATTAAAATGTGATTTTG
62 ATCAAAATGTGATTTTG
148509 AAAAGTTTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
86 16 0.24
87 50 0.75
88 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.36
Consensus pattern (87 bp):
GGGGTCAAAACATATTTTTAGAAAAGTTTAAGGGTAAAATTGTAATTTTGGGAAAGTATAGATCA
AAATGTGATTTTGGTGAAGTTT
Found at i:148544 original size:61 final size:61
Alignment explanation
Indices: 148443--148588 Score: 228
Period size: 61 Copynumber: 2.4 Consensus size: 61
148433 GGTCAAAACA
*
148443 TGATTTTGGAAAGGTTT-AGGGTT---AAAATGTGATTTTGGAGAAATTTAAGATTAAAATG
1 TGATTTT-GAAAAGTTTAAGGGTTAAAAAAATGTGATTTTGGAGAAATTTAAGATTAAAATG
148501 TGATTTTGAAAAGTTTAAGGGTTAAAAAAATGTGATTTTGGAGAAATTTAAGATTAAAATG
1 TGATTTTGAAAAGTTTAAGGGTTAAAAAAATGTGATTTTGGAGAAATTTAAGATTAAAATG
* *
148562 TGATTTTGAAAACTTTAGGGGTTAAAA
1 TGATTTTGAAAAGTTTAAGGGTTAAAA
148589 TGTAATTTTG
Statistics
Matches: 81, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
57 8 0.10
58 13 0.16
61 60 0.74
ACGTcount: A:0.39, C:0.01, G:0.23, T:0.37
Consensus pattern (61 bp):
TGATTTTGAAAAGTTTAAGGGTTAAAAAAATGTGATTTTGGAGAAATTTAAGATTAAAATG
Found at i:151846 original size:13 final size:13
Alignment explanation
Indices: 151827--151864 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
151817 TACATTAATA
151827 TATTTATTACTA-
1 TATTTATTACTAC
*
151839 TCATTTATTGCTAC
1 T-ATTTATTACTAC
151853 TATTTATTACTA
1 TATTTATTACTA
151865 AACGTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 1 0.05
13 20 0.91
14 1 0.05
ACGTcount: A:0.29, C:0.13, G:0.03, T:0.55
Consensus pattern (13 bp):
TATTTATTACTAC
Found at i:152923 original size:30 final size:30
Alignment explanation
Indices: 152886--153266 Score: 311
Period size: 30 Copynumber: 12.9 Consensus size: 30
152876 CTTAAGAGAT
* *
152886 CCCT-AACTTTTCAAAAATTATATTTTAAC
1 CCCTAAACTTTTCTAAAATTACATTTTAAC
* * *
152915 CCCTTAACTTTTCTAAAATTATATTTTGA-
1 CCCTAAACTTTTCTAAAATTACATTTTAAC
* * *
152944 CGCTCGAACTTTT-TCAAAATCACATTTTAAC
1 CCCT-AAACTTTTCT-AAAATTACATTTTAAC
*
152975 CCCT-AAC-TTTCCAAAATTACATTTTAAC
1 CCCTAAACTTTTCTAAAATTACATTTTAAC
* * * * *
153003 CCCCAAAATTTCCCAAAATTAAATTTTAA-
1 CCCTAAACTTTTCTAAAATTACATTTTAAC
* *
153032 CCCTCAAA-TTTTCCTAAAATCACATTTTGAC
1 CCCT-AAACTTTT-CTAAAATTACATTTTAAC
* *
153063 CCCTAAACTTTCCTAAAATTACATTTTGAC
1 CCCTAAACTTTTCTAAAATTACATTTTAAC
* * *
153093 CCTTAAAC-TTCCTAAAATCACATTTTAAC
1 CCCTAAACTTTTCTAAAATTACATTTTAAC
* * * ** *
153122 CCCTAAACTCTCCTAAAATCATGTTTTCAC
1 CCCTAAACTTTTCTAAAATTACATTTTAAC
* * * *
153152 CCCTAAACCTTTCCAAAATCACATTTTAGC
1 CCCTAAACTTTTCTAAAATTACATTTTAAC
*
153182 CCC-AAACTTTAT-TAAAATTACATTATAAC
1 CCCTAAACTTT-TCTAAAATTACATTTTAAC
*
153211 CCCTAAATTTTTCTAAAATTACATTTTAAC
1 CCCTAAACTTTTCTAAAATTACATTTTAAC
153241 CCC-AAACTTCTTC-AAAACTT-CATTTT
1 CCCTAAACTT-TTCTAAAA-TTACATTTT
153267 TGACCCCATT
Statistics
Matches: 289, Mismatches: 46, Indels: 34
0.78 0.12 0.09
Matches are distributed among these distances:
28 21 0.07
29 83 0.29
30 175 0.61
31 10 0.03
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (30 bp):
CCCTAAACTTTTCTAAAATTACATTTTAAC
Found at i:153125 original size:59 final size:59
Alignment explanation
Indices: 152959--153249 Score: 295
Period size: 59 Copynumber: 4.9 Consensus size: 59
152949 GAACTTTTTC
* * * * *
152959 AAAATCACATTTTAACCCCTAACT-TTCC-AAAATTACATTTTAACCCCCAAAATTTCCC
1 AAAATTACATTTTAACCCCTAAATCTTCCTAAAATCACATTTTAA-CCCCAAACTTTCCT
* * *
153017 AAAATTAAATTTTAA-CCCTCAAATTTTCCTAAAATCACATTTTGACCCCTAAACTTTCCT
1 AAAATTACATTTTAACCCCT-AAATCTTCCTAAAATCACATTTTAACCCC-AAACTTTCCT
* * *
153077 AAAATTACATTTTGACCCTTAAA-CTTCCTAAAATCACATTTTAACCCCTAAACTCTCCT
1 AAAATTACATTTTAACCCCTAAATCTTCCTAAAATCACATTTTAACCCC-AAACTTTCCT
* ** * * * **
153136 AAAATCATGTTTTCACCCCTAAACCTTTCC-AAAATCACATTTTAGCCCCAAACTTTATT
1 AAAATTACATTTTAACCCCTAAATC-TTCCTAAAATCACATTTTAACCCCAAACTTTCCT
* * * *
153195 AAAATTACATTATAACCCCTAAATTTTTCTAAAATTACATTTTAACCCCAAACTT
1 AAAATTACATTTTAACCCCTAAATCTTCCTAAAATCACATTTTAACCCCAAACTT
153250 CTTCAAAACT
Statistics
Matches: 193, Mismatches: 32, Indels: 15
0.80 0.13 0.06
Matches are distributed among these distances:
57 4 0.02
58 19 0.10
59 107 0.55
60 56 0.29
61 7 0.04
ACGTcount: A:0.37, C:0.27, G:0.01, T:0.34
Consensus pattern (59 bp):
AAAATTACATTTTAACCCCTAAATCTTCCTAAAATCACATTTTAACCCCAAACTTTCCT
Found at i:153274 original size:89 final size:88
Alignment explanation
Indices: 152886--153274 Score: 344
Period size: 89 Copynumber: 4.4 Consensus size: 88
152876 CTTAAGAGAT
* * * * * * * * *
152886 CCCT-AACTTTTCAAAAATTATATTTTAACCCCTTAACTTTTCTAAAATTATATTTTGACGCTCG
1 CCCTAAAC-TTTCCAAAATTACATTTTGACCCC-AAACTTTCCTAAAATTACATTTTAAC-CCCT
* *
152950 AACTTTTTC-AAAATCACATTTTAAC
63 AAATTTTCCTAAAATCACATTTTAAC
* * * *
152975 CCCT-AACTTTCCAAAATTACATTTTAACCCCCAAAATTTCCCAAAATTAAATTTTAA-CCCTCA
1 CCCTAAACTTTCCAAAATTACATTTTGA-CCCCAAACTTTCCTAAAATTACATTTTAACCCCT-A
*
153038 AATTTTCCTAAAATCACATTTTGAC
64 AATTTTCCTAAAATCACATTTTAAC
* *
153063 CCCTAAACTTTCCTAAAATTACATTTTGACCCTTAAAC-TTCCTAAAATCACATTTTAACCCCTA
1 CCCTAAACTTTCC-AAAATTACATTTTGACCC-CAAACTTTCCTAAAATTACATTTTAACCCCTA
* * ** *
153127 AACTCTCCTAAAATCATGTTTTCAC
64 AATTTTCCTAAAATCACATTTTAAC
* ** *
153152 CCCTAAACCTTTCCAAAATCACATTTT-AGCCCCAAACTTTATTAAAATTACATTATAACCCCTA
1 CCCTAAA-CTTTCCAAAATTACATTTTGA-CCCCAAACTTTCCTAAAATTACATTTTAACCCCTA
* *
153216 AATTTTTCTAAAATTACATTTTAAC
64 AATTTTCCTAAAATCACATTTTAAC
*
153241 CCC-AAACTTCTTCAAAACTT-CATTTTTGACCCCA
1 CCCTAAACTT-TCCAAAA-TTACA-TTTTGACCCCA
153275 TTTTTTCCTC
Statistics
Matches: 247, Mismatches: 39, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
86 2 0.01
87 10 0.04
88 72 0.29
89 135 0.55
90 28 0.11
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.36
Consensus pattern (88 bp):
CCCTAAACTTTCCAAAATTACATTTTGACCCCAAACTTTCCTAAAATTACATTTTAACCCCTAAA
TTTTCCTAAAATCACATTTTAAC
Found at i:164084 original size:85 final size:85
Alignment explanation
Indices: 163976--164143 Score: 214
Period size: 85 Copynumber: 2.0 Consensus size: 85
163966 CAAACCCCTA
*
163976 TCTTCCTTATGAGATAAAGAGAAGTGGGTCAAAGCAATAAAGCGATCATCTACCTGATGAGATAC
1 TCTTCCTTATGAGATAAAGAGAAGTGGATCAAAGCAATAAAGCGATCATCTACCTGATGAGATAC
* *
164041 AGAGAAGTGGATCAAATCCG
66 AGAGAAGTAGACCAAATCCG
* * * * * * *
164061 TCTT-CTTGATGAGATACAA-AGAAGTGTATTAAATCAATGAGGCGGTCATCTTCCTGATGAGAT
1 TCTTCCTT-ATGAGATA-AAGAGAAGTGGATCAAAGCAATAAAGCGATCATCTACCTGATGAGAT
164124 ACAGAGAAGTAGACCAAATC
64 ACAGAGAAGTAGACCAAATC
164144 AATGAAGCAA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
84 3 0.04
85 66 0.93
86 2 0.03
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (85 bp):
TCTTCCTTATGAGATAAAGAGAAGTGGATCAAAGCAATAAAGCGATCATCTACCTGATGAGATAC
AGAGAAGTAGACCAAATCCG
Found at i:164539 original size:85 final size:85
Alignment explanation
Indices: 164392--164549 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 85
164382 TCAAACCCCA
* * * * * **
164392 TCTTCCTGATGAGATACAGAGAAGTAGGTCAAAGCAATAAAGTGGTTATCTTCTTGACGAGATGT
1 TCTTCCTGATGAAATACAGAGAAGTAGATCAAAACAATAAAGCGGTCATCTTCTTGACGAGATAC
164457 AGAGAAGTGAATCAAATCCG
66 AGAGAAGTGAATCAAATCCG
* * *
164477 TCTTCCTGATGAAATACAGAGAAGT-GAATTAAAACAATGAAGCGGTCATCTTCTTGATGAGATA
1 TCTTCCTGATGAAATACAGAGAAGTAG-ATCAAAACAATAAAGCGGTCATCTTCTTGACGAGATA
164541 CAGAGAAGT
65 CAGAGAAGT
164550 AGACCAATTC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
84 1 0.02
85 61 0.98
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (85 bp):
TCTTCCTGATGAAATACAGAGAAGTAGATCAAAACAATAAAGCGGTCATCTTCTTGACGAGATAC
AGAGAAGTGAATCAAATCCG
Found at i:164718 original size:208 final size:208
Alignment explanation
Indices: 163962--164718 Score: 1058
Period size: 208 Copynumber: 3.6 Consensus size: 208
163952 AAGAGTGAAA
* * *
163962 ACTTCAAACCCCTATCTTCCTTATGAGATA-AAGAGAAGTGGGTCAAAGCAATAAAGCGATCATC
1 ACTTCAAA-CCCTATCTTCCTGATGAGATACAA-AGAAGTGAGTCAAAGCAATAAAGCGGTCATC
* * * * * *
164026 TACCTGATGAGATACAGAGAAGTGGATCAAATCCGTCTTCTTGATGAGATACAAAGAAGTGTATT
64 TTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATT
* *
164091 AAATCAATGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCA-AA
129 AAAACAATGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAATTCAATGAAG-AGAA
** * *
164155 GCTCAATGTGAGTGAA
193 GCTCAATACGAATGAG
* * *
164171 ACTTCAAACCC-ATCTTCCTGATGAGATAACAGAGAAGTGGGTCAAAGCAATAAAGCAGTCATCT
1 ACTTCAAACCCTATCTTCCTGATGAGAT-ACAAAGAAGTGAGTCAAAGCAATAAAGCGGTCATCT
* *
164235 TCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTG
65 TCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTA
* * *
164300 AAACAATGAGGCGGTCATCTTCCTGATGAGATACAAAGGAGTAAACCTAATT-AATG-AGACGAA
130 AAACAATGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACC-AATTCAATGAAGA-GAA
164363 GCTCAATACGAATGAG
193 GCTCAATACGAATGAG
* * * *
164379 ACTTCAAACCCCATCTTCCTGATGAGATACAGAGAAGT-AGGTCAAAGCAATAAAGTGGTTATCT
1 ACTTCAAACCCTATCTTCCTGATGAGATACAAAGAAGTGA-GTCAAAGCAATAAAGCGGTCATCT
* * ** * * *
164443 TCTTGACGAGATGTAGAGAAGTGAATCAAATCCGTCTTCCTGATGAAATACAGAGAAGTGAATTA
65 TCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTA
* *
164508 AAACAATGAAGCGGTCATCTTCTTGATGAGATACAGAGAAGTAGACCAATTCAATGAAGAGAAGC
130 AAACAATGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAATTCAATGAAGAGAAGC
164573 TCAATACGAATGAG
195 TCAATACGAATGAG
*
164587 ACTTCAAACCCTATCTTCCTGATGAGATACAAAGAAGTGAGTCAAAGCAATAAAGGGGTCATCTT
1 ACTTCAAACCCTATCTTCCTGATGAGATACAAAGAAGTGAGTCAAAGCAATAAAGCGGTCATCTT
* *
164652 CCTGATGAGATGCAGAGAAGTGAACCAAATCTGTCTTCCTGATGAGATACAGAGAAGTGGATTAA
66 CCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAA
164717 AA
131 AA
164719 TGAGTTAAAA
Statistics
Matches: 490, Mismatches: 48, Indels: 21
0.88 0.09 0.04
Matches are distributed among these distances:
206 1 0.00
207 21 0.04
208 436 0.89
209 32 0.07
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (208 bp):
ACTTCAAACCCTATCTTCCTGATGAGATACAAAGAAGTGAGTCAAAGCAATAAAGCGGTCATCTT
CCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGGATTAA
AACAATGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAATTCAATGAAGAGAAGCT
CAATACGAATGAG
Found at i:165799 original size:13 final size:13
Alignment explanation
Indices: 165781--165817 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
165771 ACATTAATAT
165781 ATTTATTACTATA
1 ATTTATTACTATA
* *
165794 ATTTATTGCTATT
1 ATTTATTACTATA
165807 ATTTATTACTA
1 ATTTATTACTA
165818 AGCATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (13 bp):
ATTTATTACTATA
Found at i:166960 original size:29 final size:30
Alignment explanation
Indices: 166828--167088 Score: 271
Period size: 30 Copynumber: 8.9 Consensus size: 30
166818 CTTAAGAGAT
** * * *
166828 CCCTAAACTTTCAAAAAATTATATTTTGAC
1 CCCTAAACTTTCCCAAAATCACATTTTAAC
* * * *
166858 CCTTTAACTTTTCCAAAATCACA--TTGAC
1 CCCTAAACTTTCCCAAAATCACATTTTAAC
* *
166886 CCCTAAACTTTTCCAAAATCACA--TTGAC
1 CCCTAAACTTTCCCAAAATCACATTTTAAC
* *
166914 CCCTAAACTTTTCCAAAATTACATTTTAAC
1 CCCTAAACTTTCCCAAAATCACATTTTAAC
*
166944 CCC-AAGCTTTCCCAAAATCACATTTTAAC
1 CCCTAAACTTTCCCAAAATCACATTTTAAC
* * * *
166973 CCTTGAACTTTTCCAAAATCATATTTTAAC
1 CCCTAAACTTTCCCAAAATCACATTTTAAC
*
167003 CCCTAAACTTTCCCAAAATTACATTTTAAC
1 CCCTAAACTTTCCCAAAATCACATTTTAAC
* * *
167033 CCTTAAATTTTCCCAAAATCATATTTTAAC
1 CCCTAAACTTTCCCAAAATCACATTTTAAC
* *
167063 CCCTAAACTCTCCCAAAATAACATTT
1 CCCTAAACTTTCCCAAAATCACATTT
167089 CACCCAAACC
Statistics
Matches: 195, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
28 53 0.27
29 25 0.13
30 117 0.60
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (30 bp):
CCCTAAACTTTCCCAAAATCACATTTTAAC
Found at i:167035 original size:60 final size:59
Alignment explanation
Indices: 166828--167088 Score: 305
Period size: 60 Copynumber: 4.4 Consensus size: 59
166818 CTTAAGAGAT
** * * * *
166828 CCCTAAACTTTCAAAAAATTATATTTTGACCCTTTAACTTTTCCAAAATCACA--TTGAC
1 CCCTAAACTTTCCCAAAATCACATTTTAACCC-TTAACTTTTCCAAAATCACATTTTAAC
* * * * *
166886 CCCTAAACTTTTCCAAAATCACA-TTGACCCCTAAACTTTTCCAAAATTACATTTTAAC
1 CCCTAAACTTTCCCAAAATCACATTTTAACCCTTAACTTTTCCAAAATCACATTTTAAC
* *
166944 CCC-AAGCTTTCCCAAAATCACATTTTAACCCTTGAACTTTTCCAAAATCATATTTTAAC
1 CCCTAAACTTTCCCAAAATCACATTTTAACCCTT-AACTTTTCCAAAATCACATTTTAAC
* * *
167003 CCCTAAACTTTCCCAAAATTACATTTTAACCCTTAAATTTTCCCAAAATCATATTTTAAC
1 CCCTAAACTTTCCCAAAATCACATTTTAACCCTTAACTTTT-CCAAAATCACATTTTAAC
* *
167063 CCCTAAACTCTCCCAAAATAACATTT
1 CCCTAAACTTTCCCAAAATCACATTT
167089 CACCCAAACC
Statistics
Matches: 174, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
56 18 0.10
57 22 0.13
58 32 0.18
59 32 0.18
60 70 0.40
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (59 bp):
CCCTAAACTTTCCCAAAATCACATTTTAACCCTTAACTTTTCCAAAATCACATTTTAAC
Found at i:170028 original size:13 final size:13
Alignment explanation
Indices: 170010--170035 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
170000 TAATAATATA
170010 GGATAGAGAAATT
1 GGATAGAGAAATT
170023 GGATAGAGAAATT
1 GGATAGAGAAATT
170036 CTTATGGTAG
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:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (13 bp):
GGATAGAGAAATT
Found at i:171198 original size:40 final size:40
Alignment explanation
Indices: 171136--171216 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
171126 GACTAGTTTG
* * * *
171136 TCACTAATCTCATGAGGGAGCTTCGCTGATACATAACTTA
1 TCACTAAGCTCACGAGGGAGCTTCACTGATACACAACTTA
*
171176 TCACTAAGCTCACG-GGGAAGCTTCATTGATACACAACTTA
1 TCACTAAGCTCACGAGGG-AGCTTCACTGATACACAACTTA
171216 T
1 T
171217 AAAATTGTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.09
40 32 0.91
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (40 bp):
TCACTAAGCTCACGAGGGAGCTTCACTGATACACAACTTA
Found at i:171563 original size:18 final size:18
Alignment explanation
Indices: 171540--171592 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
171530 GAATTGAGGT
171540 TTTAATAAATTGTAATTG
1 TTTAATAAATTGTAATTG
* **
171558 TTTAATGAATTGT-GGT-
1 TTTAATAAATTGTAATTG
*
171574 TTTAATAAATTATAATTG
1 TTTAATAAATTGTAATTG
171592 T
1 T
171593 AGCACGAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
16 11 0.42
17 2 0.08
18 13 0.50
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (18 bp):
TTTAATAAATTGTAATTG
Found at i:171565 original size:34 final size:34
Alignment explanation
Indices: 171527--171592 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
171517 AAAAAAAATG
*
171527 AATGAATTGAGGTTTTAATAAATTGTAATTGTTT
1 AATGAATTGAGGTTTTAATAAATTATAATTGTTT
*
171561 AATGAATTGTGGTTTTAATAAATTATAATTGT
1 AATGAATTGAGGTTTTAATAAATTATAATTGT
171593 AGCACGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (34 bp):
AATGAATTGAGGTTTTAATAAATTATAATTGTTT
Found at i:171579 original size:16 final size:16
Alignment explanation
Indices: 171531--171584 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
171521 AAAATGAATG
*
171531 AATTGAGGTTTTAATA
1 AATTGTGGTTTTAATA
** *
171547 AATTGTAATTGTTTAATG
1 AATTGT-GGT-TTTAATA
171565 AATTGTGGTTTTAATA
1 AATTGTGGTTTTAATA
171581 AATT
1 AATT
171585 ATAATTGTAG
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 15 0.52
17 2 0.07
18 12 0.41
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (16 bp):
AATTGTGGTTTTAATA
Found at i:174417 original size:105 final size:104
Alignment explanation
Indices: 174297--174492 Score: 295
Period size: 105 Copynumber: 1.9 Consensus size: 104
174287 GCATCAAATA
* * * *
174297 TATTGGCCCTTTTGACGCGAAATGGAATGACAACCCAAGCACAACATCTCGGTTACTCAACCCAA
1 TATTGACCCTTTTGACGCAAAATGGAATGACAACCCAAGC-C-ACATCCCAGTTACTCAACCCAA
174362 CACACTCCCAATTTA-TTTTTTATTTTTTTACTTAAGAATG
64 CACACTCCCAATTTATTTTTTTATTTTTTTACTTAAGAATG
* * *
174402 TATTGACCCTTTTGACGCAAAATGGAATGACAACCTAAGCCCCATCCCAGTTACTCAACCCAAGA
1 TATTGACCCTTTTGACGCAAAATGGAATGACAACCCAAGCCACATCCCAGTTACTCAACCCAACA
*
174467 CACTCCTAATTTATTTTTTTATTTTT
66 CACTCCCAATTTATTTTTTTATTTTT
174493 ATCCATAATT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
103 32 0.39
104 13 0.16
105 37 0.45
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (104 bp):
TATTGACCCTTTTGACGCAAAATGGAATGACAACCCAAGCCACATCCCAGTTACTCAACCCAACA
CACTCCCAATTTATTTTTTTATTTTTTTACTTAAGAATG
Found at i:175207 original size:11 final size:11
Alignment explanation
Indices: 175171--175200 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
175161 AATATGCAAG
175171 AAAATAAATAA
1 AAAATAAATAA
175182 AAAATAAATAA
1 AAAATAAATAA
175193 AAAATAAA
1 AAAATAAA
175201 AATAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:179473 original size:13 final size:13
Alignment explanation
Indices: 179455--179479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
179445 TAAGTTAAAA
179455 ATGCTAAAAATGC
1 ATGCTAAAAATGC
179468 ATGCTAAAAATG
1 ATGCTAAAAATG
179480 ATAAAATGGG
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:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGCTAAAAATGC
Found at i:181086 original size:21 final size:19
Alignment explanation
Indices: 181036--181091 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
181026 AATAGTGCAG
* *
181036 ACTTCTACCGATACAAGTG
1 ACTTTTACCGATACAAGTC
181055 ACTGTTCTACCGATACAAGTCTC
1 ACT-TT-TACCGATACAAG--TC
181078 ACTTTTACCGATAC
1 ACTTTTACCGATAC
181092 TAAAAACTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 3 0.10
20 1 0.03
21 21 0.68
22 2 0.06
23 4 0.13
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (19 bp):
ACTTTTACCGATACAAGTC
Found at i:185997 original size:25 final size:24
Alignment explanation
Indices: 185934--186001 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
185924 GTATACTGGT
* *
185934 TAACCTTTCTGGGCTCGTCAGAGC
1 TAACCTTTCTGGGCTCATAAGAGC
185958 TAACCTTTCTGGGCTCATAAGAGC
1 TAACCTTTCTGGGCTCATAAGAGC
**
185982 TAATTTTGTCTGGGCTCATA
1 TAACCTT-TCTGGGCTCATA
186002 TGAGTTAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 27 0.69
25 12 0.31
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.34
Consensus pattern (24 bp):
TAACCTTTCTGGGCTCATAAGAGC
Found at i:190886 original size:21 final size:21
Alignment explanation
Indices: 190862--190906 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
190852 GAAGTAAGAT
* * *
190862 TTGTTTCGGTAGAAGAGTCAC
1 TTGTATCGATAGAACAGTCAC
*
190883 TTGTATCGATAGAACTGTCAC
1 TTGTATCGATAGAACAGTCAC
190904 TTG
1 TTG
190907 CATCAATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (21 bp):
TTGTATCGATAGAACAGTCAC
Found at i:193083 original size:30 final size:30
Alignment explanation
Indices: 193047--193163 Score: 141
Period size: 30 Copynumber: 3.9 Consensus size: 30
193037 AACATCCGTG
* *
193047 AACATTAGATAGCTAGAAAGGCGTCCACAT
1 AACATTAGATAGCCACAAAGGCGTCCACAT
* *
193077 AACATTAGATCA-CCACAAAGGTGTCCTCAT
1 AACATTAGAT-AGCCACAAAGGCGTCCACAT
*
193107 AATATTAGATAGCCACAAAGGCG-CCTACAT
1 AACATTAGATAGCCACAAAGGCGTCC-ACAT
193137 AACATTAGATAGCCACAACA-GCGTCCA
1 AACATTAGATAGCCACAA-AGGCGTCCA
193164 AACGCATACA
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
29 3 0.04
30 67 0.91
31 4 0.05
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (30 bp):
AACATTAGATAGCCACAAAGGCGTCCACAT
Found at i:193197 original size:27 final size:26
Alignment explanation
Indices: 193167--193218 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
193157 GCGTCCAAAC
193167 GCATACAATAGACTTC-ACCACGAAGGT
1 GCATACAATAGA-TTCAACCAC-AAGGT
**
193194 GCATTTAATAGATTCAACCACAAGG
1 GCATACAATAGATTCAACCACAAGG
193219 GCTCTTCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.21
Consensus pattern (26 bp):
GCATACAATAGATTCAACCACAAGGT
Found at i:193608 original size:56 final size:56
Alignment explanation
Indices: 193522--193640 Score: 177
Period size: 56 Copynumber: 2.1 Consensus size: 56
193512 TCATACTATG
* **
193522 TGGTCTTTATTTCTCCATACGATGTCATAGCCATCTAGACTAGGTCTTACATGATA
1 TGGTCTTCATTTCTCCATACGATGTCATAGCCATCTAGACTAGGTCTTACACAATA
* *
193578 TGGTCTTCATTTC-CTCATATGATGTCATAGCCATCTGGACTAGGTCTTACACAATA
1 TGGTCTTCATTTCTC-CATACGATGTCATAGCCATCTAGACTAGGTCTTACACAATA
193634 TGGTCTT
1 TGGTCTT
193641 TGATCGCGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 1 0.02
56 56 0.98
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.38
Consensus pattern (56 bp):
TGGTCTTCATTTCTCCATACGATGTCATAGCCATCTAGACTAGGTCTTACACAATA
Found at i:196164 original size:3 final size:3
Alignment explanation
Indices: 196139--196216 Score: 122
Period size: 3 Copynumber: 26.3 Consensus size: 3
196129 ATGTAAAGAT
* *
196139 ATA A-A ATA ATG ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
196186 ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
196217 ACCCAAAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
2 2 0.03
3 66 0.97
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:196383 original size:39 final size:39
Alignment explanation
Indices: 196318--196397 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
196308 AAAGTTAGTA
*
196318 AAAAAATGAATCACAAATAAATAATTAATTAATAAAAAT
1 AAAAAATGAATCACAAATAAATAATTAAATAATAAAAAT
* * *
196357 AAAAAATTAATTAGCAAATAAA-AATTAAATAATGAAAAT
1 AAAAAATGAATCA-CAAATAAATAATTAAATAATAAAAAT
196396 AA
1 AA
196398 TATGAAAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 28 0.78
40 8 0.22
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (39 bp):
AAAAAATGAATCACAAATAAATAATTAAATAATAAAAAT
Found at i:197854 original size:44 final size:44
Alignment explanation
Indices: 197790--197908 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 44
197780 TTATATCTTC
* * *
197790 AATCTGCCTCTCTGGATTAGGGGTAAGAGATTGGATGATGGTTTT
1 AATCTGCCTCTCTAGATTA-GGGTAAAAGATTGGATGATGGCTTT
* *
197835 AATCTGTC-CTCTAGATTAGGGTAAAAGATTGGATGGTGGCTTT
1 AATCTGCCTCTCTAGATTAGGGTAAAAGATTGGATGATGGCTTT
* *
197878 AATCTACCT-TCTTG-TTAGGGTAAAAGATTGG
1 AATCTGCCTCTCTAGATTAGGGTAAAAGATTGG
197909 GTGGCTTCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
42 17 0.26
43 32 0.49
44 9 0.14
45 7 0.11
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (44 bp):
AATCTGCCTCTCTAGATTAGGGTAAAAGATTGGATGATGGCTTT
Found at i:197864 original size:43 final size:43
Alignment explanation
Indices: 197790--198071 Score: 139
Period size: 42 Copynumber: 6.8 Consensus size: 43
197780 TTATATCTTC
* * * *
197790 AATCTGCCTCTCTGGATTAGGGGTAAGAGATTGGATGATGGTTTT
1 AATCTGAC-CTCTAGATTA-GGGTAAAAGATTGGATGATGGCTTT
* *
197835 AATCTGTCCTCTAGATTAGGGTAAAAGATTGGATGGTGGCTTT
1 AATCTGACCTCTAGATTAGGGTAAAAGATTGGATGATGGCTTT
* *
197878 AATCT-ACCTTCTTG-TTAGGGTAAAAGATTGG--G-TGGCTTC
1 AATCTGACC-TCTAGATTAGGGTAAAAGATTGGATGATGGCTTT
* ** ** * * *
197917 AATCT-ACC-CTATGGTCGGGGTAAGTGATTGGATGGTGTCTTC
1 AATCTGACCTCTA-GATTAGGGTAAAAGATTGGATGATGGCTTT
* *
197959 AATCT-ACCCTCT-GGTTATGGTAAAA-ATTGGATGA---CTTT
1 AATCTGA-CCTCTAGATTAGGGTAAAAGATTGGATGATGGCTTT
* * * * * * * *
197997 AATCTG-CCGC-ACG-GTCGGGTAAGAGATTGAATGGTGTCTTC
1 AATCTGACCTCTA-GATTAGGGTAAAAGATTGGATGATGGCTTT
* *
198038 AATTTGCCCTCTAG-TTAGGGTAAAAGATTGGATG
1 AATCTGACCTCTAGATTAGGGTAAAAGATTGGATG
198072 GCTTCAATCT
Statistics
Matches: 185, Mismatches: 35, Indels: 37
0.72 0.14 0.14
Matches are distributed among these distances:
37 12 0.06
38 17 0.09
39 27 0.15
40 1 0.01
41 17 0.09
42 59 0.32
43 34 0.18
44 11 0.06
45 7 0.04
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.34
Consensus pattern (43 bp):
AATCTGACCTCTAGATTAGGGTAAAAGATTGGATGATGGCTTT
Found at i:197948 original size:81 final size:80
Alignment explanation
Indices: 197853--198109 Score: 320
Period size: 81 Copynumber: 3.2 Consensus size: 80
197843 CTCTAGATTA
* * * * * *
197853 GGGTAAAAGATTGGATGGTGGCTTTAATCTACCTTCTTGTTAGGGTAAAAGATTGGGTGGCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
*
197918 ATCTACCCTATGGTCG
66 ATCTGCCC-ATGGTCG
* * * * *
197934 GGGTAAGTGATTGGATGGTGTCTTCAATCTACCCTCTGGTTATGGTAAAA-ATTGGATGACTTTA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
*
197998 ATCTGCCGCACGGTC-
66 ATCTGCC-CATGGTCG
* * *
198013 GGGTAAGAGATTGAATGGTGTCTTCAATTTGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
1 GGGTAAGAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
*
198078 ATCTGCCCCATGGTTG
66 ATCTG-CCCATGGTCG
198094 GGGTAAGAGATTGGAT
1 GGGTAAGAGATTGGAT
198110 AGGATGATGT
Statistics
Matches: 149, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
79 44 0.30
80 44 0.30
81 61 0.41
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (80 bp):
GGGTAAGAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
ATCTGCCCATGGTCG
Found at i:197981 original size:42 final size:42
Alignment explanation
Indices: 197785--198109 Score: 210
Period size: 39 Copynumber: 7.9 Consensus size: 42
197775 TGGTGTTATA
* * *
197785 TCTTCAATCTGCCTCTCTGGATTAGGGGTAAGAGATTGGATGATGG
1 TCTTCAATCTACC-CTCTGG-TTA-GGGTAAAAGATTGGATGGT-G
* ** *
197831 T-TTTAATCTGTCCTCTAGATTAGGGTAAAAGATTGGATGGTG
1 TCTTCAATCTACCCTCT-GGTTAGGGTAAAAGATTGGATGGTG
* * * *
197873 GCTTTAATCTACCTTCTTGTTAGGGTAAAAGATT-G--GGTG
1 TCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGTG
* * ** **
197912 GCTTCAATCTACCCTATGGTCGGGGTAAGTGATTGGATGGTG
1 TCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGTG
*
197954 TCTTCAATCTACCCTCTGGTTATGGTAAAA-ATTGGA---TG
1 TCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGTG
* * * * * * *
197992 ACTTTAATCTGCCGCAC-GG-TCGGGTAAGAGATTGAATGGTG
1 TCTTCAATCTACC-CTCTGGTTAGGGTAAAAGATTGGATGGTG
* * *
198033 TCTTCAATTTGCCCTCTAGTTAGGGTAAAAGATTGGAT-G-G
1 TCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGTG
* * *
198073 -CTTCAATCTGCCC-CATGGTTGGGGTAAGAGATTGGAT
1 TCTTCAATCTACCCTC-TGGTTAGGGTAAAAGATTGGAT
198110 AGGATGATGT
Statistics
Matches: 220, Mismatches: 46, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
37 7 0.03
38 20 0.09
39 63 0.29
40 4 0.02
41 21 0.10
42 58 0.26
43 29 0.13
44 7 0.03
45 10 0.05
46 1 0.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (42 bp):
TCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGTG
Found at i:208740 original size:34 final size:34
Alignment explanation
Indices: 208697--208764 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
208687 AAAGGTACCT
208697 AAACCAATAGATTCCTTAATCCTCACCCATTATA
1 AAACCAATAGATTCCTTAATCCTCACCCATTATA
208731 AAACCAATAGATTCCTTAATCCTCACCCATTATA
1 AAACCAATAGATTCCTTAATCCTCACCCATTATA
208765 GGCTTATAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.29, G:0.03, T:0.29
Consensus pattern (34 bp):
AAACCAATAGATTCCTTAATCCTCACCCATTATA
Found at i:208839 original size:11 final size:11
Alignment explanation
Indices: 208823--208850 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
208813 GCACGGAAGT
208823 GAAAACCTCAC
1 GAAAACCTCAC
208834 GAAAACCTCAC
1 GAAAACCTCAC
208845 GAAAAC
1 GAAAAC
208851 ATAGGTACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.50, C:0.32, G:0.11, T:0.07
Consensus pattern (11 bp):
GAAAACCTCAC
Found at i:209018 original size:15 final size:14
Alignment explanation
Indices: 208991--209039 Score: 64
Period size: 15 Copynumber: 3.5 Consensus size: 14
208981 TAAATACAAC
*
208991 ATACATACAATAAA
1 ATACAAACAATAAA
209005 ATACAAAGCAATAAA
1 ATACAAA-CAATAAA
*
209020 ATGCAAA-AATAAA
1 ATACAAACAATAAA
209033 ATACAAA
1 ATACAAA
209040 TGATCACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.39
14 6 0.19
15 13 0.42
ACGTcount: A:0.67, C:0.12, G:0.04, T:0.16
Consensus pattern (14 bp):
ATACAAACAATAAA
Found at i:210095 original size:19 final size:19
Alignment explanation
Indices: 210071--210108 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
210061 AATTACAAAT
*
210071 AAATAATTAATAAATAAAA
1 AAATAATTAACAAATAAAA
*
210090 AAATAATTAGCAAATAAAA
1 AAATAATTAACAAATAAAA
210109 TTTAAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (19 bp):
AAATAATTAACAAATAAAA
Found at i:211322 original size:17 final size:16
Alignment explanation
Indices: 211297--211330 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
211287 GTAATTTTAT
211297 TTGGGTTGTAAACAAA
1 TTGGGTTGTAAACAAA
211313 TTGGGCTTGTAAACAAA
1 TTGGG-TTGTAAACAAA
211330 T
1 T
211331 AAATGAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (16 bp):
TTGGGTTGTAAACAAA
Found at i:215087 original size:16 final size:16
Alignment explanation
Indices: 215041--215089 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
215031 CGTGTTATAT
*
215041 TATTA-ATTTAATAATA
1 TATTATATTT-ATAAAA
215057 TATT-TATTT-TCAAAA
1 TATTATATTTAT-AAAA
215072 TATTATATTTATAAAA
1 TATTATATTTATAAAA
215088 TA
1 TA
215090 ATTGATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
14 1 0.04
15 7 0.25
16 19 0.68
17 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTATATTTATAAAA
Found at i:216010 original size:89 final size:90
Alignment explanation
Indices: 215903--216091 Score: 247
Period size: 89 Copynumber: 2.1 Consensus size: 90
215893 ATATAACATT
* * * * *
215903 TGGTACTTGAACTTGACACTTTTTCTTAATTTGATACTTAAACTTTTTTGGGTCCAATTTGGTA-
1 TGGTACCTAAACTTGACACTTTTTCTTAAGTTGATACTTAAACTTTTTGGGGTCCAATTTAGTAC
215967 CTCAAACTTGACACTTTTT-CTAATA
66 CT-AAACTTGACACTTTTTCCTAATA
* * *
215992 TGGTATCTAAACTTGACACTTTTTTTTAAGTTGGTACTTAAACTTTTTGGGGTCCAATTTAGTAC
1 TGGTACCTAAACTTGACACTTTTTCTTAAGTTGATACTTAAACTTTTTGGGGTCCAATTTAGTAC
** * *
216057 CTGGACTTGACTCTTTTTCCTAATT
66 CTAAACTTGACACTTTTTCCTAATA
216082 TGGTACCTAA
1 TGGTACCTAA
216092 TCTTTTTTTA
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
89 69 0.81
90 16 0.19
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.44
Consensus pattern (90 bp):
TGGTACCTAAACTTGACACTTTTTCTTAAGTTGATACTTAAACTTTTTGGGGTCCAATTTAGTAC
CTAAACTTGACACTTTTTCCTAATA
Found at i:216027 original size:31 final size:28
Alignment explanation
Indices: 215961--216036 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 28
215951 TGGGTCCAAT
215961 TTGGTACTCAAACTTGACACTTTTTCTAA
1 TTGGTACT-AAACTTGACACTTTTTCTAA
*
215990 TATGGTATCTAAACTTGACACTTTTTTTTAA
1 T-TGGTA-CTAAACTTGACAC-TTTTTCTAA
216021 GTTGGTACTTAAACTT
1 -TTGGTAC-TAAACTT
216037 TTTGGGGTCC
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
29 1 0.02
30 17 0.41
31 22 0.54
32 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.45
Consensus pattern (28 bp):
TTGGTACTAAACTTGACACTTTTTCTAA
Found at i:216341 original size:31 final size:30
Alignment explanation
Indices: 216270--216342 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
216260 AAAAAAGCTT
* *
216270 AGGTACCAAATTAGGAAAAATGCCTAGTTC
1 AGGTACCAAATTAAGAAAAATGCCAAGTTC
* *
216300 ATGTACCAAATTAAGAAAAATTGTCAAGTTC
1 AGGTACCAAATTAAGAAAAA-TGCCAAGTTC
*
216331 AGGTATCAAATT
1 AGGTACCAAATT
216343 GTTTCAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 18 0.50
31 18 0.50
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.27
Consensus pattern (30 bp):
AGGTACCAAATTAAGAAAAATGCCAAGTTC
Found at i:220512 original size:30 final size:30
Alignment explanation
Indices: 220476--220537 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
220466 GGTGCATGTG
220476 TTTATATTAAGGATTGATGAACGAATGAAT
1 TTTATATTAAGGATTGATGAACGAATGAAT
*
220506 TTTATATTAAGGATTGATGAATGAATGAAT
1 TTTATATTAAGGATTGATGAACGAATGAAT
220536 TT
1 TT
220538 CTATTGAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.40
Consensus pattern (30 bp):
TTTATATTAAGGATTGATGAACGAATGAAT
Found at i:223917 original size:10 final size:10
Alignment explanation
Indices: 223896--223942 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
223886 GTAAAAGTCA
223896 AAATATATAAT
1 AAATA-ATAAT
223907 AAATAATAAT
1 AAATAATAAT
*
223917 AATTAATAA-
1 AAATAATAAT
223926 AAATTAATAAT
1 AAA-TAATAAT
223937 -AATAAT
1 AAATAAT
223943 GGAAGAGGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 6 0.19
10 21 0.66
11 5 0.16
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
AAATAATAAT
Found at i:223924 original size:13 final size:13
Alignment explanation
Indices: 223897--223942 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
223887 TAAAAGTCAA
*
223897 AATATATAATAAAT
1 AATA-ATAATTAAT
223911 AATAATAATTAAT
1 AATAATAATTAAT
223924 -A-AA-AATTAAT
1 AATAATAATTAAT
223934 AATAATAAT
1 AATAATAAT
223943 GGAAGAGGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
10 7 0.25
11 3 0.11
12 3 0.11
13 11 0.39
14 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATAATAATTAAT
Found at i:234148 original size:27 final size:27
Alignment explanation
Indices: 234110--234163 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
234100 TGGAAAATCC
234110 CTTATGGATCTCCCAATATGGTGTCAA
1 CTTATGGATCTCCCAATATGGTGTCAA
234137 CTTATGGATCTCCCAATATGGTGTCAA
1 CTTATGGATCTCCCAATATGGTGTCAA
234164 TGCTTCCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
CTTATGGATCTCCCAATATGGTGTCAA
Found at i:237251 original size:25 final size:25
Alignment explanation
Indices: 237197--237251 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
237187 AAATATTTAA
*
237197 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
237222 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
237246 TATTAA
1 T-TTAA
237252 GATCAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:252906 original size:158 final size:158
Alignment explanation
Indices: 252609--252934 Score: 494
Period size: 158 Copynumber: 2.1 Consensus size: 158
252599 TACGGGTTAT
* * * * * * *
252609 TTACAGGATATATGGGTGCTGGTCTTAGATGTCCTACCGATGGTTGAGGTCTTGTATTTGTTGCA
1 TTACAGGTTATATGGATCCTGGTCTTAGATGTCCTACCGATGGCTAAGGTCTTGCATTTATTGCA
*
252674 GATTCTCTACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCACAGCACGTGTGAG
66 GATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCACAGCACGTGTGAG
252739 CAGAACCATTTCACAGCTCGTGTGAGCA
131 CAGAACCATTTCACAGCTCGTGTGAGCA
252767 TTACAGGTTATATGGATCCTGGTCTTAGATGTCCTACCGATGGCTAAGGTC-TGACATTTATTGC
1 TTACAGGTTATATGGATCCTGGTCTTAGATGTCCTACCGATGGCTAAGGTCTTG-CATTTATTGC
* * * *
252831 GGATTCTCCACAGCTCGTGTGAGCAGCATCGTGTAGCCTCACATCTCGACCCACAGCTCGTGTGA
65 AGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCACAGCACGTGTGA
* *
252896 GTAGACCCATTTCACAGCTCGTGTGAGCA
130 GCAGAACCATTTCACAGCTCGTGTGAGCA
252925 TATA-AGGTTA
1 T-TACAGGTTA
252935 CAGGTTATAG
Statistics
Matches: 152, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
157 2 0.01
158 148 0.97
159 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (158 bp):
TTACAGGTTATATGGATCCTGGTCTTAGATGTCCTACCGATGGCTAAGGTCTTGCATTTATTGCA
GATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCACAGCACGTGTGAG
CAGAACCATTTCACAGCTCGTGTGAGCA
Found at i:259163 original size:30 final size:30
Alignment explanation
Indices: 259129--259365 Score: 234
Period size: 30 Copynumber: 8.0 Consensus size: 30
259119 AAATCAGGTT
* *
259129 AAATTTGAATTTTTGGAAACTTCAAGGGTC
1 AAATTTGAATTTTTGGAAAGTTTAAGGGTC
* * *
259159 AAATTAGAATTTTTGGAAAATTT-GGTGGTC
1 AAATTTGAATTTTTGGAAAGTTTAAG-GGTC
**
259189 AAAATTCAAATTTTTGGAAAGTTTAAGGGTC
1 -AAATTTGAATTTTTGGAAAGTTTAAGGGTC
259220 AAATTTGAATTTTTGGAAAGTTTAAGGGTC
1 AAATTTGAATTTTTGGAAAGTTTAAGGGTC
** *
259250 AAATTCAAATTTTTGGAAAGTTTAAGGGTT
1 AAATTTGAATTTTTGGAAAGTTTAAGGGTC
* *
259280 AAATTTGAATTATTGGAAAG-TT-AGGGTT
1 AAATTTGAATTTTTGGAAAGTTTAAGGGTC
* *
259308 AAATTTGAAATTTTGGCAAA-TTT-GGGGTC
1 AAATTTGAATTTTTGG-AAAGTTTAAGGGTC
** * *
259337 AAAACAT-AATTTTTAGAAAGTTTAGGGGT
1 -AAATTTGAATTTTTGGAAAGTTTAAGGGT
259366 TAAAACATGA
Statistics
Matches: 175, Mismatches: 24, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
28 23 0.13
29 22 0.13
30 105 0.60
31 24 0.14
32 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (30 bp):
AAATTTGAATTTTTGGAAAGTTTAAGGGTC
Found at i:259371 original size:30 final size:31
Alignment explanation
Indices: 259331--259408 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 31
259321 TGGCAAATTT
259331 GGGGTCAAAACATAATTTTTAGAA-AGTTTA
1 GGGGTCAAAACATAATTTTTAGAATAGTTTA
* * * *
259361 GGGGTTAAAACATGA-TTTTCGAATAGTTTG
1 GGGGTCAAAACATAATTTTTAGAATAGTTTA
*
259391 GGGGTCAAAAAATAATTT
1 GGGGTCAAAACATAATTT
259409 CAAAATAAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 7 0.18
30 30 0.77
31 2 0.05
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.33
Consensus pattern (31 bp):
GGGGTCAAAACATAATTTTTAGAATAGTTTA
Found at i:261207 original size:40 final size:40
Alignment explanation
Indices: 261002--261305 Score: 276
Period size: 40 Copynumber: 7.7 Consensus size: 40
260992 TTCTATAGCT
* * *
261002 TTAGAGGTAAAAGATTGGATTGT-TTCAATTTTCCC-CATGA
1 TTAG-GGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TGA
** * *
261042 TCGGGGTAAAAGATCGGATGGTCTTTAATCTGCCCTCTGA
1 TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGA
* * * * * * *
261082 TTAAGGCAAAAGATTAGATTG-CTTCAATCTACCCTATGG
1 TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGA
* * * * * * *
261121 TTGGGGTAAAAGACTGAATTG-CTTCAATCTACCCTATGG
1 TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGA
**
261160 TCGGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCT-A
1 TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGA
* * * *
261199 GTTAGGGTAAAAAATTGGATGATCTTTAACCTGCCCTCTGA
1 -TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGA
* * *
261240 TTAAGGTAAAAGATTGGATGGTCTTCAACCTTCCCTCTGA
1 TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGA
261280 TTAGGGTAAAAGATTGGATGGTCTTC
1 TTAGGGTAAAAGATTGGATGGTCTTC
261306 TCTCCATTTC
Statistics
Matches: 216, Mismatches: 43, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
39 80 0.37
40 134 0.62
41 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (40 bp):
TTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGA
Found at i:261260 original size:80 final size:79
Alignment explanation
Indices: 261006--261304 Score: 282
Period size: 79 Copynumber: 3.8 Consensus size: 79
260996 ATAGCTTTAG
* * * ** *
261006 AGGTAAAAGATTGGATTGT-TTCAATTTTCCC-CATGATCGGGGTAAAAGATCGGATGGTCTTTA
1 AGGTAAAAGATTGGATGGTCTTCAATCTACCCTC-TG-TTAGGGTAAAAGATTGGATGGTCTTTA
261069 ATCTGCCCTCTGATTA
64 ATCTGCCCTCTGATTA
* * * * * * * * *
261085 AGGCAAAAGATTAGATTG-CTTCAATCTACCCTATGGTTGGGGTAAAAGACTGAATTG-CTTCAA
1 AGGTAAAAGATTGGATGGTCTTCAATCTACCCTCT-GTTAGGGTAAAAGATTGGATGGTCTTTAA
* * * **
261148 TCTACCCTATGGTCG
65 TCTGCCCTCTGATTA
* * * *
261163 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAAATTGGATGATCTTTAA
1 AGGTAAAAGATTGGATGGTCTTCAATCTACCCTCT-GTTAGGGTAAAAGATTGGATGGTCTTTAA
*
261228 CCTGCCCTCTGATTA
65 TCTGCCCTCTGATTA
* *
261243 AGGTAAAAGATTGGATGGTCTTCAACCTTCCCTCTGATTAGGGTAAAAGATTGGATGGTCTT
1 AGGTAAAAGATTGGATGGTCTTCAATCTACCCTCTG-TTAGGGTAAAAGATTGGATGGTCTT
261305 CTCTCCATTT
Statistics
Matches: 173, Mismatches: 41, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
78 29 0.17
79 74 0.43
80 70 0.40
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (79 bp):
AGGTAAAAGATTGGATGGTCTTCAATCTACCCTCTGTTAGGGTAAAAGATTGGATGGTCTTTAAT
CTGCCCTCTGATTA
Found at i:261450 original size:50 final size:50
Alignment explanation
Indices: 261341--261450 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 50
261331 AGATTCGTCC
* * * *
261341 TTGCAACTTCAATCTGCCCCTCTATAGCTTTAGGTGAATGAGATTTTCAA
1 TTGCAGCTTCAATCTACCCCTCTACAGCTTTAGGTGAATGAGATTTGCAA
* * * *
261391 TTACGGCTTCAATCTACCCCTCTACAGCTTTAGGTGTATGAGATTTGCCA
1 TTGCAGCTTCAATCTACCCCTCTACAGCTTTAGGTGAATGAGATTTGCAA
261441 TTGCAGCTTC
1 TTGCAGCTTC
261451 GATTCATTCC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (50 bp):
TTGCAGCTTCAATCTACCCCTCTACAGCTTTAGGTGAATGAGATTTGCAA
Found at i:261606 original size:14 final size:14
Alignment explanation
Indices: 261587--261616 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
261577 GAATGAATTC
261587 AAATGCTCTTATCT
1 AAATGCTCTTATCT
261601 AAATGCTCTTATCT
1 AAATGCTCTTATCT
261615 AA
1 AA
261617 CATTGATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (14 bp):
AAATGCTCTTATCT
Found at i:279646 original size:30 final size:29
Alignment explanation
Indices: 279612--279797 Score: 149
Period size: 30 Copynumber: 6.2 Consensus size: 29
279602 TTAAAATCGA
* *
279612 GTCAAATTTGAATTTTTAGAAACTTCAGTG
1 GTCAAATTTGAATTTTTAGAAA-TTTAGGG
*** * **
279642 GTCAAATCAAAATTTTTGGAAATTTAATG
1 GTCAAATTTGAATTTTTAGAAATTTAGGG
* *
279671 GTTAAATTGGAATTTTTAGAAAATTTAGGG
1 GTCAAATTTGAATTTTTAG-AAATTTAGGG
*
279701 GTCAAATTTAAATTTTTAGAAATTTAAGGG
1 GTCAAATTTGAATTTTTAGAAATTT-AGGG
* *
279731 GTCAAATTTGAATTTATGGAAATTTAGTGG
1 GTCAAATTTGAATTTTTAGAAATTTAG-GG
* ** *
279761 GTTAAAACAT-AATTTTTGGAAAGTTTAGGG
1 G-TCAAATTTGAATTTTTAGAAA-TTTAGGG
*
279791 GTTAAAT
1 GTCAAAT
279798 CATGATTTTC
Statistics
Matches: 126, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
29 31 0.25
30 85 0.67
31 10 0.08
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.39
Consensus pattern (29 bp):
GTCAAATTTGAATTTTTAGAAATTTAGGG
Found at i:279687 original size:59 final size:58
Alignment explanation
Indices: 279615--279797 Score: 195
Period size: 59 Copynumber: 3.1 Consensus size: 58
279605 AAATCGAGTC
* *
279615 AAATTTGAATTTTTAGAAACTTCAGTGGTCAAATCAAAATTTTTGGAAATTTAATGGTT
1 AAATTTGAATTTTTAGAAA-TTTAGTGGTCAAATCAAAATTTTTGGAAATTTAAGGGTT
* * ** * *
279674 AAATTGGAATTTTTAGAAAATTTAGGGGTCAAATTTAAATTTTTAGAAATTTAAGGGGTC
1 AAATTTGAATTTTTAG-AAATTTAGTGGTCAAATCAAAATTTTTGGAAATTTAA-GGGTT
* * * * * *
279734 AAATTTGAATTTATGGAAATTTAGTGGGTTAAAACATAATTTTTGGAAAGTTTAGGGGTT
1 AAATTTGAATTTTTAGAAATTTAGT-GGTCAAATCAAAATTTTTGGAAA-TTTAAGGGTT
279794 AAAT
1 AAAT
279798 CATGATTTTC
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
59 52 0.52
60 44 0.44
61 4 0.04
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.39
Consensus pattern (58 bp):
AAATTTGAATTTTTAGAAATTTAGTGGTCAAATCAAAATTTTTGGAAATTTAAGGGTT
Found at i:279816 original size:30 final size:31
Alignment explanation
Indices: 279749--279816 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 31
279739 TGAATTTATG
**
279749 GAAA-TTTAGTGGGTTAAAACATAATTTTTG
1 GAAAGTTTAGTGGGTTAAAACATAATTTTCA
* *
279779 GAAAGTTTAG-GGGTTAAATCATGATTTTCA
1 GAAAGTTTAGTGGGTTAAAACATAATTTTCA
*
279809 GATAGTTT
1 GAAAGTTT
279817 GGAGGTCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (31 bp):
GAAAGTTTAGTGGGTTAAAACATAATTTTCA
Found at i:281309 original size:19 final size:19
Alignment explanation
Indices: 281281--281324 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
281271 TTAGATTTTA
* *
281281 AAATTTAATTACATTTAGT
1 AAATTAAATTACATTGAGT
**
281300 AAATTAAATTTTATTGAGT
1 AAATTAAATTACATTGAGT
281319 AAATTA
1 AAATTA
281325 CACTCATAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (19 bp):
AAATTAAATTACATTGAGT
Done.