Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold309
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: 161035
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
File 1 of 2
Found at i:1075 original size:19 final size:20
Alignment explanation
Indices: 1047--1090 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
1037 AAATTTCATT
* *
1047 TTTTTTTATTTTTCATGC-A
1 TTTTTCTATTTTTCAAGCAA
1066 TTTTTCTATTTTTCAAGCAA
1 TTTTTCTATTTTTCAAGCAA
1086 TTTTT
1 TTTTT
1091 GATAAGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTCTATTTTTCAAGCAA
Found at i:9761 original size:17 final size:16
Alignment explanation
Indices: 9741--9776 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
9731 CATATATGTG
9741 TTTATTTATTATTTTAT
1 TTTATTTATT-TTTTAT
9758 TTTATTTATTTTTTAT
1 TTTATTTATTTTTTAT
9774 TTT
1 TTT
9777 CTTAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTATTTTTTAT
Found at i:11607 original size:42 final size:42
Alignment explanation
Indices: 11515--12039 Score: 215
Period size: 42 Copynumber: 12.5 Consensus size: 42
11505 AATCGATGGG
* * * *
11515 CAGACAAAAGATAAAGAAGTCTCCCAAGGTCAAAGTTGATA-A
1 CAGACAAAGGATAAAGAAGTCTCCTAA-GTCAAAGCTGACAGA
11557 GCAGACAAAGGATAAAGAAGTCTCCTAAGTCAAAGCTGACAGA
1 -CAGACAAAGGATAAAGAAGTCTCCTAAGTCAAAGCTGACAGA
* * * * * * *
11600 CATACAAAGGATAAAGAAATCACCT-AGATTAGAA-CCGACGGG
1 CAGACAAAGGATAAAGAAGTCTCCTAAG-TCA-AAGCTGACAGA
* * *** * * *
11642 TAGACAAAGGGTAAAGAAGTCTCCCCGGTTAAAG-TCGACGGG
1 CAGACAAAGGATAAAGAAGTCTCCTAAGTCAAAGCT-GACAGA
* * ** * *
11684 CAGACAAAGG-TAAA-AATGTCTCCCATGTCAAAGCCAACGGG
1 CAGACAAAGGATAAAGAA-GTCTCCTAAGTCAAAGCTGACAGA
* * *
11725 CAGACAAAGG-TAAAAAAGTTTTC-AAGGTCAAAGCTGACTAG-
1 CAGACAAAGGATAAAGAAGTCTCCTAA-GTCAAAGCTGAC-AGA
* * * * * *
11766 TAGAAAAAAGG-TAAAGCAGTCT-CTAGGGTTAAAGCCGACA-A
1 CAG-ACAAAGGATAAAGAAGTCTCCTA-AGTCAAAGCTGACAGA
* * * * *
11807 GCAGACAAAAGATAAAAAAGTCT-CTAGGGTCAAAGTTGA-AAA
1 -CAGACAAAGGATAAAGAAGTCTCCTA-AGTCAAAGCTGACAGA
* * * * * *
11849 GCATATAAAGGATAAAGAAGTCTCCTGAGTCAAAG-TCCACGGG
1 -CAGACAAAGGATAAAGAAGTCTCCTAAGTCAAAGCT-GACAGA
* * * *
11892 TAGACAAAAGG-TAAAGAAGTCT-CTCAAGTTAAAGCCGACAAA
1 CAGAC-AAAGGATAAAGAAGTCTCCT-AAGTCAAAGCTGACAGA
* * * * *
11934 CAAACAAAGGATAAAAAAGTCTCCTAAGTCAAAGCCGATAGG
1 CAGACAAAGGATAAAGAAGTCTCCTAAGTCAAAGCTGACAGA
* * * * *
11976 CATAAAAAGGATAAAGAAATCAT-CT-GGTCAAAGCTGACAGG
1 CAGACAAAGGATAAAGAAGTC-TCCTAAGTCAAAGCTGACAGA
* *
12017 CAAACAAAGGGTAAAGAAGTCTC
1 CAGACAAAGGATAAAGAAGTCTC
12040 TTGGGTTAAA
Statistics
Matches: 369, Mismatches: 85, Indels: 58
0.72 0.17 0.11
Matches are distributed among these distances:
40 4 0.01
41 102 0.28
42 224 0.61
43 39 0.11
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.16
Consensus pattern (42 bp):
CAGACAAAGGATAAAGAAGTCTCCTAAGTCAAAGCTGACAGA
Found at i:11724 original size:41 final size:40
Alignment explanation
Indices: 11637--11758 Score: 127
Period size: 41 Copynumber: 3.0 Consensus size: 40
11627 ATTAGAACCG
* * * * *
11637 ACGGGTAGACAAAGGGTAAAGAAGTCTCCCCGGTTAAAGTCG
1 ACGGGCAGACAAA-GGTAAA-AAGTCTCCCAGGTCAAAGCCA
*
11679 ACGGGCAGACAAAGGTAAAAATGTCTCCCATGTCAAAGCCA
1 ACGGGCAGACAAAGGTAAAAA-GTCTCCCAGGTCAAAGCCA
* * *
11720 ACGGGCAGACAAAGGTAAAAAAGTTTTCAAGGTCAAAGC
1 ACGGGCAGACAAAGGT-AAAAAGTCTCCCAGGTCAAAGC
11759 TGACTAGTAG
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
40 2 0.03
41 49 0.72
42 17 0.25
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.16
Consensus pattern (40 bp):
ACGGGCAGACAAAGGTAAAAAGTCTCCCAGGTCAAAGCCA
Found at i:11905 original size:126 final size:125
Alignment explanation
Indices: 11516--12050 Score: 338
Period size: 126 Copynumber: 4.3 Consensus size: 125
11506 ATCGATGGGC
* * * * ** * * * * *
11516 AGACAAAAGATAAAGAAGTCTCCCAAGGTCAAAGTTGATAAGCAGACAAAGGATAAAGAAGTCTC
1 AGACAAAAGGTAAAGAAGTCT-CTAGGGTTAAAGCCGACAAACAAACAAAAGATAAAAAAGTCTC
* * * * * * *
11581 CTAAGTCAAAGCTG-ACAGACATACAAAGGATAAAGAAATCACCTAGATTAGAA-C-CGACGGGT
65 CTAAGTCAAAGCCGAAAAG-CATAAAAAGGATAAAGAAATCATCT-GGTCA-AAGCTC-ACAGGT
* *** * *** * * *
11643 AGACAAAGGGTAAAGAAGTCTCCCCGGTTAAAGTCGACGGGCAGAC-AAAGGTAAAAATGTCTCC
1 AGACAAAAGGTAAAGAAGTCTCTAGGGTTAAAGCCGACAAACAAACAAAAGATAAAAAAGTCTCC
* * ** * * ** * *
11707 CATGTCAAAGCC-AACGGGCAGACAAAGG-TAAA-AAAGTTTTCAAGGTCAAAGCTGACTA-GT
66 TAAGTCAAAGCCGAA-AAGCATAAAAAGGATAAAGAAA-TCATC-TGGTCAAAGCTCAC-AGGT
* * * *
11767 AGAAAAAAGGTAAAGCAGTCTCTAGGGTTAAAGCCGACAAGCAGACAAAAGATAAAAAAGTCT-C
1 AGACAAAAGGTAAAGAAGTCTCTAGGGTTAAAGCCGACAAACAAACAAAAGATAAAAAAGTCTCC
* ** * * *
11831 TAGGGTCAAAGTTGAAAAGCATATAAAGGATAAAGAAGTC-TCCTGAGTCAAAG-TCCACGGGT
66 TA-AGTCAAAGCCGAAAAGCATAAAAAGGATAAAGAAATCAT-CTG-GTCAAAGCT-CACAGGT
* *
11893 AGACAAAAGGTAAAGAAGTCTCTCA-AGTTAAAGCCGACAAACAAACAAAGGATAAAAAAGTCTC
1 AGACAAAAGGTAAAGAAGTCTCT-AGGGTTAAAGCCGACAAACAAACAAAAGATAAAAAAGTCTC
* * * *
11957 CTAAGTCAAAGCCGATAGGCATAAAAAGGATAAAGAAATCATCTGGTCAAAGCTGACAGGC
65 CTAAGTCAAAGCCGAAAAGCATAAAAAGGATAAAGAAATCATCTGGTCAAAGCTCACAGGT
* * *
12018 AAACAAAGGGTAAAGAAGTCTCTTGGGTTAAAG
1 AGACAAAAGGTAAAGAAGTCTCTAGGGTTAAAG
12051 TCGATGGGTA
Statistics
Matches: 316, Mismatches: 71, Indels: 44
0.73 0.16 0.10
Matches are distributed among these distances:
123 5 0.02
124 53 0.17
125 105 0.33
126 127 0.40
127 26 0.08
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.17
Consensus pattern (125 bp):
AGACAAAAGGTAAAGAAGTCTCTAGGGTTAAAGCCGACAAACAAACAAAAGATAAAAAAGTCTCC
TAAGTCAAAGCCGAAAAGCATAAAAAGGATAAAGAAATCATCTGGTCAAAGCTCACAGGT
Found at i:12364 original size:48 final size:47
Alignment explanation
Indices: 12202--12394 Score: 183
Period size: 47 Copynumber: 4.0 Consensus size: 47
12192 AAGTTTAATT
**
12202 AGGTCCTAACGCTAATATAATCAAACAATGA-TGAAAAGAGTTTGATT
1 AGGTCCTAACGCTAATATAATCAAACAA-GAGTGAAAAGAGTTTGACC
* * * *
12249 AGGTCATAACACCAATACAGTCAATCAAACGAGAGTGAAAGAGAGAGTTTGACC
1 AGGTCCTAACGCTAAT--A-T-AATCAAACAAGAGTG-AA-A-AGAGTTTGACC
* * **
12303 AAG-CCTAATGCTAATATAATTGAACAAGAGTGAAAAAGAGTTTGACC
1 AGGTCCTAACGCTAATATAATCAAACAAGAGTG-AAAAGAGTTTGACC
**
12350 AGGTCCTAACGCTAATATAATTGAACAAGAGTGAAAAGAGTTTGA
1 AGGTCCTAACGCTAATATAATCAAACAAGAGTGAAAAGAGTTTGA
12395 TCAGATATAG
Statistics
Matches: 121, Mismatches: 16, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
47 38 0.31
48 29 0.24
49 16 0.13
50 4 0.03
51 12 0.10
52 2 0.02
53 9 0.07
54 11 0.09
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (47 bp):
AGGTCCTAACGCTAATATAATCAAACAAGAGTGAAAAGAGTTTGACC
Found at i:14659 original size:20 final size:20
Alignment explanation
Indices: 14633--14688 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
14623 CCGTTAAAAC
*
14633 CAATGTATTGATACAATTTA
1 CAATGTATTGATACAATGTA
* *
14653 TAATGTATCGATACAATGTA
1 CAATGTATTGATACAATGTA
*
14673 CCATGTATTGATACAA
1 CAATGTATTGATACAA
14689 ACAATGGTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (20 bp):
CAATGTATTGATACAATGTA
Found at i:14746 original size:20 final size:20
Alignment explanation
Indices: 14721--14774 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
14711 CAGTTTCATA
*
14721 TATCGATACAATTGTCCATG
1 TATCGATACAATTGTACATG
*
14741 TATCGATACAA-TGAACATG
1 TATCGATACAATTGTACATG
*
14760 TATTGATAC-ATTGTA
1 TATCGATACAATTGTA
14775 TCGATACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.59
20 11 0.38
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
TATCGATACAATTGTACATG
Found at i:14799 original size:33 final size:33
Alignment explanation
Indices: 14739--14836 Score: 146
Period size: 33 Copynumber: 3.0 Consensus size: 33
14729 CAATTGTCCA
*
14739 TGTATCGATACAATG-A-ACATGTATTGATACAT
1 TGTATCGATACAAAGCATA-ATGTATTGATACAT
14771 TGTATCGATACAAAGCATAATGTATTGATACAT
1 TGTATCGATACAAAGCATAATGTATTGATACAT
* *
14804 TGTATCGATACAAAACATAATGTATCGATACAT
1 TGTATCGATACAAAGCATAATGTATTGATACAT
14837 CTGGGTGTGT
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
32 14 0.23
33 46 0.75
34 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (33 bp):
TGTATCGATACAAAGCATAATGTATTGATACAT
Found at i:17171 original size:20 final size:21
Alignment explanation
Indices: 17146--17185 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17136 TTTGTTGGTG
*
17146 ATTTTGATG-AAAAATGAAGT
1 ATTTTGAAGTAAAAATGAAGT
17166 ATTTTGAAGTAAAAATGAAG
1 ATTTTGAAGTAAAAATGAAG
17186 AAATTTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (21 bp):
ATTTTGAAGTAAAAATGAAGT
Found at i:17336 original size:13 final size:13
Alignment explanation
Indices: 17313--17352 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
17303 ATAGTAACCC
* *
17313 ATGTATTGATATA
1 ATGTATCGATACA
*
17326 GTGTATCGATACA
1 ATGTATCGATACA
17339 ATGTATCGATACA
1 ATGTATCGATACA
17352 A
1 A
17353 GGAATATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:22863 original size:13 final size:13
Alignment explanation
Indices: 22845--22871 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22835 ACAATTATCC
22845 ATGTATCGATACA
1 ATGTATCGATACA
22858 ATGTATCGATACA
1 ATGTATCGATACA
22871 A
1 A
22872 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:29513 original size:24 final size:24
Alignment explanation
Indices: 29486--29562 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
29476 ATGAAATAAT
29486 TCAAAAATTTAAACATAAATCACA
1 TCAAAAATTTAAACATAAATCACA
** *
29510 TC-AAAATCCAAA-TTGAAA--ACA
1 TCAAAAATTTAAACAT-AAATCACA
29531 TTCCAAAAATTTAAACATAAATCACA
1 -T-CAAAAATTTAAACATAAATCACA
29557 TCAAAA
1 TCAAAA
29563 TCCAAATTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
21 3 0.08
22 2 0.05
23 12 0.30
24 18 0.45
25 2 0.05
26 3 0.08
ACGTcount: A:0.57, C:0.18, G:0.01, T:0.23
Consensus pattern (24 bp):
TCAAAAATTTAAACATAAATCACA
Found at i:29515 original size:23 final size:23
Alignment explanation
Indices: 29489--29563 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
29479 AAATAATTCA
29489 AAAATTTAAACATAAATCACATC
1 AAAATTTAAACATAAATCACATC
** *
29512 AAAATCCAAA-TTGAAA--ACATTCC
1 AAAATTTAAACAT-AAATCACA-T-C
29535 AAAAATTTAAACATAAATCACATC
1 -AAAATTTAAACATAAATCACATC
29559 AAAAT
1 AAAAT
29564 CCAAATTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
21 3 0.08
22 2 0.05
23 17 0.44
24 12 0.31
25 2 0.05
26 3 0.08
ACGTcount: A:0.57, C:0.17, G:0.01, T:0.24
Consensus pattern (23 bp):
AAAATTTAAACATAAATCACATC
Found at i:29538 original size:47 final size:47
Alignment explanation
Indices: 29487--29587 Score: 202
Period size: 47 Copynumber: 2.1 Consensus size: 47
29477 TGAAATAATT
29487 CAAAAATTTAAACATAAATCACATCAAAATCCAAATTGAAAACATTC
1 CAAAAATTTAAACATAAATCACATCAAAATCCAAATTGAAAACATTC
29534 CAAAAATTTAAACATAAATCACATCAAAATCCAAATTGAAAACATTC
1 CAAAAATTTAAACATAAATCACATCAAAATCCAAATTGAAAACATTC
29581 CAAAAAT
1 CAAAAAT
29588 CATTCAATAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.56, C:0.19, G:0.02, T:0.23
Consensus pattern (47 bp):
CAAAAATTTAAACATAAATCACATCAAAATCCAAATTGAAAACATTC
Found at i:29584 original size:23 final size:23
Alignment explanation
Indices: 29511--29585 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
29501 TAAATCACAT
29511 CAAAATCCAAATTGAAAACATTC
1 CAAAATCCAAATTGAAAACATTC
** *
29534 CAAAAATTTAAACAT-AAATCACA-T-
1 C-AAAATCCAAA-TTGAAA--ACATTC
29558 CAAAATCCAAATTGAAAACATTC
1 CAAAATCCAAATTGAAAACATTC
29581 CAAAA
1 CAAAA
29586 ATCATTCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
21 3 0.08
22 2 0.05
23 17 0.44
24 12 0.31
25 2 0.05
26 3 0.08
ACGTcount: A:0.56, C:0.20, G:0.03, T:0.21
Consensus pattern (23 bp):
CAAAATCCAAATTGAAAACATTC
Found at i:29916 original size:11 final size:10
Alignment explanation
Indices: 29871--29918 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 10
29861 TTTCTACCTA
29871 TTTTCTCTTATT
1 TTTTCTC-T-TT
29883 TTTCTCTCTTT
1 TTT-TCTCTTT
29894 TCTTTCTCTTT
1 T-TTTCTCTTT
29905 TTTTCTCGTTT
1 TTTTCTC-TTT
29916 TTT
1 TTT
29919 AGCTGACCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
10 6 0.18
11 17 0.52
12 6 0.18
13 4 0.12
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.75
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:33536 original size:13 final size:13
Alignment explanation
Indices: 33518--33542 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33508 CATAAAGTGT
33518 TGTATCGATACAA
1 TGTATCGATACAA
33531 TGTATCGATACA
1 TGTATCGATACA
33543 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:33553 original size:32 final size:33
Alignment explanation
Indices: 33498--33566 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
33488 TTCAACGATT
33498 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
33531 TGTATCGATACAT-AAGTGTTGTATTGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
33563 TGTA
1 TGTA
33567 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:33638 original size:52 final size:52
Alignment explanation
Indices: 33603--33731 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
33593 CACTAATCTT
33603 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
33655 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
33707 TGTATCGATACATGTAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
33732 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:36748 original size:30 final size:30
Alignment explanation
Indices: 36712--36771 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
36702 TGCCATAGAA
36712 ATCCCCAATCGCGAGGGATACTAAGTCGAG
1 ATCCCCAATCGCGAGGGATACTAAGTCGAG
36742 ATCCCCAATCGCGAGGGATACTAAGTCGAG
1 ATCCCCAATCGCGAGGGATACTAAGTCGAG
36772 CGTGCCTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.17
Consensus pattern (30 bp):
ATCCCCAATCGCGAGGGATACTAAGTCGAG
Found at i:41291 original size:19 final size:19
Alignment explanation
Indices: 41267--41324 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
41257 AGCGATACAT
41267 TGTATCGATTCAACACTTA
1 TGTATCGATTCAACACTTA
41286 TGTATCGA-T--ACA--T-
1 TGTATCGATTCAACACTTA
*
41299 TGTATCGATACAACACTTA
1 TGTATCGATTCAACACTTA
41318 TGTATCG
1 TGTATCG
41325 TTACAGTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
13 8 0.25
14 1 0.03
16 6 0.19
18 2 0.06
19 15 0.47
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (19 bp):
TGTATCGATTCAACACTTA
Found at i:41300 original size:32 final size:32
Alignment explanation
Indices: 41259--41329 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
41249 AGCTTCGTAG
*
41259 CGATACATTGTATCGATTCAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
41291 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
41323 CGTTACA
1 CGATACA
41330 GTTACTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:41304 original size:13 final size:13
Alignment explanation
Indices: 41286--41310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41276 TCAACACTTA
41286 TGTATCGATACAT
1 TGTATCGATACAT
41299 TGTATCGATACA
1 TGTATCGATACA
41311 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:42263 original size:49 final size:49
Alignment explanation
Indices: 42094--42564 Score: 432
Period size: 49 Copynumber: 10.0 Consensus size: 49
42084 TCGAAGATGC
* * * * * * * *
42094 GAAGAATGACAATGTGCTGATTCATGGCTAGTGACATTAGACTTGAAGAA
1 GAAG-ATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
** * * *
42144 G-A-ATGCCAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGAA-AT
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGAT
* * *
42191 GTTAAAGATGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGAT
1 G---AAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * * * *
42243 GAAGATACCAATGTGCTGATTCAAGGTCGGTGACATTGGACTT-AA-A-
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * *
42289 G--G-TGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAGGAT
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
42335 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
*
42384 GAAGATGCCAATGTGCTAATTCAAGGCCAGCGATATTGGACTTAAAGAT
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * *
42433 GAAGATACCAATCTGCTGATTCAAGGCCAGCGACATTGG--TT-----T
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * *
42475 GAAG-TGCCAATATGCTGATTCAAGGCCAGTGATATTGG--TTTAA-A-
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
*
42519 G--G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
42565 AAATGCCACC
Statistics
Matches: 353, Mismatches: 47, Indels: 46
0.79 0.11 0.10
Matches are distributed among these distances:
41 32 0.09
42 39 0.11
43 31 0.09
44 5 0.01
45 3 0.01
46 3 0.01
47 35 0.10
48 5 0.01
49 159 0.45
50 1 0.00
51 3 0.01
52 37 0.10
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (49 bp):
GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
Found at i:42426 original size:98 final size:96
Alignment explanation
Indices: 42141--42559 Score: 458
Period size: 92 Copynumber: 4.5 Consensus size: 96
42131 TAGACTTGAA
** * *
42141 GAAGAATGCCAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGAAATGTTAAAGATGCCAAT
1 GAAG-ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-AAATG---AAG-TGCCAAT
* *
42206 ATGCTGATTCAAGGCCAACGATATCGGACTTAAAGAT
60 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* * * * *
42243 GAAGATACCAATGTGCTGATTCAAGGTCGGTGACATTGGACTT-AAA-G--GTGCCAATATGTTG
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAATGAAGTGCCAATATGCTG
*
42304 ATTCAAGGCCAGCGATATTGGACTTAAGGAT
66 ATTCAAGGCCAGCGATATTGGACTTAAAGAT
* *
42335 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGC
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA-ATGAAG-TGCCAATATGC
*
42400 TAATTCAAGGCCAGCGATATTGGACTTAAAGAT
64 TGATTCAAGGCCAGCGATATTGGACTTAAAGAT
* *
42433 GAAGATACCAATCTGCTGATTCAAGGCCAGCGACATTGG--TT----TGAAGTGCCAATATGCTG
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAATGAAGTGCCAATATGCTG
* *
42492 ATTCAAGGCCAGTGATATTGG--TTTAA-A-
66 ATTCAAGGCCAGCGATATTGGACTTAAAGAT
* *
42519 G--G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
42560 GAAGAAAATG
Statistics
Matches: 277, Mismatches: 31, Indels: 34
0.81 0.09 0.10
Matches are distributed among these distances:
83 31 0.11
84 1 0.00
85 2 0.01
86 1 0.00
87 1 0.00
88 4 0.01
90 31 0.11
91 5 0.02
92 78 0.28
93 3 0.01
94 1 0.00
95 1 0.00
96 2 0.01
97 1 0.00
98 77 0.28
99 3 0.01
101 31 0.11
102 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (96 bp):
GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAATGAAGTGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAAAGAT
Found at i:42491 original size:41 final size:42
Alignment explanation
Indices: 42440--42554 Score: 187
Period size: 41 Copynumber: 2.8 Consensus size: 42
42430 GATGAAGATA
* * *
42440 CCAATCTGCTGATTCAAGGCCAGCGACATTGGTTTGAA-GTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTTTAAAGGTG
*
42481 CCAATATGCTGATTCAAGGCCAGTGATATTGGTTTAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGTTTAAAGGTG
42523 CCAATATGCTGATTCAAGGCCAGCGATATTGG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGG
42555 ACTTAGAAGA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
41 34 0.50
42 34 0.50
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (42 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGTTTAAAGGTG
Found at i:42541 original size:21 final size:21
Alignment explanation
Indices: 42478--42541 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
42468 TTGGTTTGAA
42478 GTGCCAATATGCTGATTCAA-
1 GTGCCAATATGCTGATTCAAG
* ** * *
42498 G-GCCAGTGATATTGGTTTAAAG
1 GTGCCAAT-ATGCT-GATTCAAG
42520 GTGCCAATATGCTGATTCAAG
1 GTGCCAATATGCTGATTCAAG
42541 G
1 G
42542 CCAGCGATAT
Statistics
Matches: 30, Mismatches: 10, Indels: 7
0.64 0.21 0.15
Matches are distributed among these distances:
19 5 0.17
20 4 0.13
21 12 0.40
22 4 0.13
23 5 0.17
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (21 bp):
GTGCCAATATGCTGATTCAAG
Found at i:42646 original size:28 final size:28
Alignment explanation
Indices: 42581--42791 Score: 230
Period size: 28 Copynumber: 7.4 Consensus size: 28
42571 CACCAACTTG
**
42581 TGTGGGCTTTTGATAGGGTTG-CACCAACT
1 TGTGGGCTTTTGA-A-GGTTGCCACTGACT
*
42610 TGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* * *
42638 TGTGGGCTTTTGAAAAGATACCACTGACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
* *
42667 TGTGGGC-TTTGAAAAAGGGTGTCACTGACT
1 TGTGGGCTTTTG---AAGGTTGCCACTGACT
42697 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* * *
42725 TGTGGGCTTTGGAAAAGATGCCAC-GAACT
1 TGTGGGCTTTTG-AAGGTTGCCACTG-ACT
42754 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
42782 TGTGGGCTTT
1 TGTGGGCTTT
42792 GGAAAAGATG
Statistics
Matches: 155, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
27 5 0.03
28 70 0.45
29 56 0.36
30 20 0.13
31 4 0.03
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.34
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:42668 original size:57 final size:57
Alignment explanation
Indices: 42627--42825 Score: 267
Period size: 57 Copynumber: 3.5 Consensus size: 57
42617 TTTTGAAGGT
* * * *
42627 TGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGAAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTG-AAAGTTGCCACTGACTTGTGGGCTTTGGAAAA-GA
* *
42686 TGTCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAGTTGCCACTGACTTGTGGGCTTTGGAAAAGA
*
42743 TGCCAC-GAACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGA
1 TGCCACTG-ACTTGTGGGCTTTTGAAAGTTGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
42800 TGTCA-TGGACTTGTGGGCTTTGGAAA
1 TGCCACT-GACTTGTGGGCTTTTGAAA
42826 AGGTGAGGAA
Statistics
Matches: 127, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
56 1 0.01
57 75 0.59
58 29 0.23
59 22 0.17
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (57 bp):
TGCCACTGACTTGTGGGCTTTTGAAAGTTGCCACTGACTTGTGGGCTTTGGAAAAGA
Found at i:42669 original size:29 final size:29
Alignment explanation
Indices: 42607--42827 Score: 238
Period size: 29 Copynumber: 7.7 Consensus size: 29
42597 GGTTGCACCA
* * *
42607 ACTTGTGTGCTTTTG-AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGATGCCACTG
*
42635 ACTTGTGGGCTTTTGAAAAGATACCACTG
1 ACTTGTGGGCTTTTGAAAAGATGCCACTG
* *
42664 ACTTGTGGGC-TTTGAAAAAGGGTGTCACTG
1 ACTTGTGGGCTTTTG-AAAA-GATGCCACTG
* *
42694 ACTTGTGGGCTTTTG-AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGATGCCACTG
*
42722 ACTTGTGGGCTTTGGAAAAGATGCCAC-G
1 ACTTGTGGGCTTTTGAAAAGATGCCACTG
* *
42750 AACTTGTGGGCTTTTG-AAGGTTGCCACTG
1 -ACTTGTGGGCTTTTGAAAAGATGCCACTG
* *
42779 ACTTGTGGGCTTTGGAAAAGATGTCA-TGG
1 ACTTGTGGGCTTTTGAAAAGATGCCACT-G
*
42808 ACTTGTGGGCTTTGGAAAAG
1 ACTTGTGGGCTTTTGAAAAG
42828 GTGAGGAATG
Statistics
Matches: 164, Mismatches: 20, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
28 65 0.40
29 78 0.48
30 17 0.10
31 4 0.02
ACGTcount: A:0.21, C:0.15, G:0.31, T:0.32
Consensus pattern (29 bp):
ACTTGTGGGCTTTTGAAAAGATGCCACTG
Found at i:44279 original size:1 final size:1
Alignment explanation
Indices: 44275--44347 Score: 65
Period size: 1 Copynumber: 73.0 Consensus size: 1
44265 TTTGTTGTTG
* * * * * * * * *
44275 TTTTTTTTTGTTTTTTTTTTTTTGTTTTTTTTGTTTTTGTTTTGTTTTGTGTTTTTTTTCTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
44340 TTTTTTTT
1 TTTTTTTT
44348 GCGGAGGACG
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:44287 original size:10 final size:10
Alignment explanation
Indices: 44272--44344 Score: 78
Period size: 10 Copynumber: 7.2 Consensus size: 10
44262 CTTTTTGTTG
44272 TTGTTTTTTT
1 TTGTTTTTTT
44282 TTGTTTTTTT
1 TTGTTTTTTT
44292 TT-TTTTGTTT
1 TTGTTTT-TTT
*
44302 TT-TTTGTTT
1 TTGTTTTTTT
*
44311 TTGTTTTGTT
1 TTGTTTTTTT
44321 TTGTGTTTTTT
1 TTGT-TTTTTT
*
44332 TTCTTTCTTTT
1 TTGTTT-TTTT
44343 TT
1 TT
44345 TTTGCGGAGG
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
9 9 0.17
10 31 0.57
11 14 0.26
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (10 bp):
TTGTTTTTTT
Found at i:44293 original size:27 final size:26
Alignment explanation
Indices: 44263--44345 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 26
44253 ATCCGGACCC
44263 TTTTTGTTGTTGTTTTTTTTTG-TTTT
1 TTTTTGTT-TTGTTTTTTTTTGTTTTT
44289 TTTTT-TTTTG-TTTTTTTTGTTTTT
1 TTTTTGTTTTGTTTTTTTTTGTTTTT
* *
44313 GTTTTGTTTTGTGTTTTTTTTCTTTCTT
1 TTTTTGTTTTGT-TTTTTTTTGTTT-TT
44341 TTTTT
1 TTTTT
44346 TTGCGGAGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
23 9 0.18
24 11 0.22
25 7 0.14
26 5 0.10
27 11 0.22
28 6 0.12
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (26 bp):
TTTTTGTTTTGTTTTTTTTTGTTTTT
Found at i:44315 original size:39 final size:40
Alignment explanation
Indices: 44263--44346 Score: 125
Period size: 39 Copynumber: 2.1 Consensus size: 40
44253 ATCCGGACCC
* * *
44263 TTTTTGTTGTTGTTTTTTTTTGT-TTTTTTTTTTTTGTTT
1 TTTTTGTTGTTGTTTTGTTTTGTGTTTTTTTTCTTTCTTT
*
44302 TTTTTGTTTTTGTTTTGTTTTGTGTTTTTTTTCTTTCTTT
1 TTTTTGTTGTTGTTTTGTTTTGTGTTTTTTTTCTTTCTTT
44342 TTTTT
1 TTTTT
44347 TGCGGAGGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 21 0.52
40 19 0.47
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (40 bp):
TTTTTGTTGTTGTTTTGTTTTGTGTTTTTTTTCTTTCTTT
Found at i:44323 original size:16 final size:14
Alignment explanation
Indices: 44263--44347 Score: 86
Period size: 14 Copynumber: 6.1 Consensus size: 14
44253 ATCCGGACCC
44263 TTTTTGTTGTTGTTTT
1 TTTTTGTT-TT-TTTT
44279 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
44293 TTTTTGTTTTTTTT
1 TTTTTGTTTTTTTT
*
44307 GTTTTTG--TTTTGT
1 -TTTTTGTTTTTTTT
*
44320 TTTGTG-TTTTTTT
1 TTTTTGTTTTTTTT
* *
44333 TCTTTCTTTTTTTT
1 TTTTTGTTTTTTTT
44347 T
1 T
44348 GCGGAGGACG
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
12 5 0.08
13 13 0.22
14 26 0.43
15 8 0.13
16 8 0.13
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (14 bp):
TTTTTGTTTTTTTT
Found at i:44344 original size:15 final size:15
Alignment explanation
Indices: 44263--44348 Score: 84
Period size: 15 Copynumber: 5.4 Consensus size: 15
44253 ATCCGGACCC
*
44263 TTTTTGTTGTTGTTTT
1 TTTTTGTT-TTTTTTT
44279 TTTTTG-TTTTTTTT
1 TTTTTGTTTTTTTTT
*
44293 TTTTTGTTTTTTTTG
1 TTTTTGTTTTTTTTT
44308 TTTTTGTTTTGTTTTGT
1 TTTTTGTTTT-TTTT-T
*
44325 GTTTTTTTTCTTTCTTTT
1 -TTTTTGTT-TTT-TTTT
44343 TTTTTG
1 TTTTTG
44349 CGGAGGACGC
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
14 12 0.20
15 18 0.31
16 10 0.17
17 5 0.08
18 9 0.15
19 5 0.08
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (15 bp):
TTTTTGTTTTTTTTT
Found at i:50067 original size:34 final size:35
Alignment explanation
Indices: 50029--50095 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
50019 CCTTACAACA
50029 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
50063 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
50096 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:50570 original size:13 final size:13
Alignment explanation
Indices: 50552--50577 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50542 CAATTTTTTG
50552 TGTATCGATACAT
1 TGTATCGATACAT
50565 TGTATCGATACAT
1 TGTATCGATACAT
50578 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:50642 original size:21 final size:21
Alignment explanation
Indices: 50616--50691 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
50606 CTGCCAAGAA
50616 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
50637 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
50657 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
50678 ATGTATCGATACAT
1 ATGTATCGATACAT
50692 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:50661 original size:20 final size:20
Alignment explanation
Indices: 50636--50709 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
50626 ACATCTTTTT
50636 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
50656 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
50677 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
50697 CATGTATCGATAC
1 CATGTATCGATAC
50710 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:50673 original size:41 final size:41
Alignment explanation
Indices: 50616--50709 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
50606 CTGCCAAGAA
50616 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
50657 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
50698 ATGTATCGATAC
1 ATGTATCGATAC
50710 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:52531 original size:13 final size:13
Alignment explanation
Indices: 52513--52537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52503 ACTGAAGCAA
52513 TGTATCGATACAT
1 TGTATCGATACAT
52526 TGTATCGATACA
1 TGTATCGATACA
52538 ATTTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:55698 original size:34 final size:35
Alignment explanation
Indices: 55660--55726 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
55650 CCTTACAACA
55660 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
55694 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
55727 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:56201 original size:13 final size:13
Alignment explanation
Indices: 56183--56208 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56173 CAATTTTTTG
56183 TGTATCGATACAT
1 TGTATCGATACAT
56196 TGTATCGATACAT
1 TGTATCGATACAT
56209 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:56273 original size:21 final size:21
Alignment explanation
Indices: 56247--56322 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
56237 CTGCCAAGAA
56247 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
56268 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
56288 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
56309 ATGTATCGATACAT
1 ATGTATCGATACAT
56323 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:56292 original size:20 final size:20
Alignment explanation
Indices: 56267--56340 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
56257 ACATCTTTTT
56267 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
56287 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
56308 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
56328 CATGTATCGATAC
1 CATGTATCGATAC
56341 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:56304 original size:41 final size:41
Alignment explanation
Indices: 56247--56340 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
56237 CTGCCAAGAA
56247 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
56288 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
56329 ATGTATCGATAC
1 ATGTATCGATAC
56341 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:65218 original size:32 final size:32
Alignment explanation
Indices: 65177--65247 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
65167 AGCTTCGTAG
*
65177 CGATACATTGTATCAATACAATACTTATGTAT
1 CGATACATTGTATCAATACAACACTTATGTAT
*
65209 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCAATACAACACTTATGTAT
65241 CGATACA
1 CGATACA
65248 GTTACTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCAATACAACACTTATGTAT
Found at i:65222 original size:13 final size:13
Alignment explanation
Indices: 65204--65228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65194 ACAATACTTA
65204 TGTATCGATACAT
1 TGTATCGATACAT
65217 TGTATCGATACA
1 TGTATCGATACA
65229 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:65241 original size:19 final size:19
Alignment explanation
Indices: 65185--65247 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
65175 AGCGATACAT
* *
65185 TGTATCAATACAATACTTA
1 TGTATCGATACAACACTTA
65204 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
65217 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
65236 TGTATCGATACA
1 TGTATCGATACA
65248 GTTACTTGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 9 0.25
14 1 0.03
16 5 0.14
18 1 0.03
19 20 0.56
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:67485 original size:10 final size:9
Alignment explanation
Indices: 67466--67502 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
67456 ACTAGCTTAG
67466 TTTTTTCTA
1 TTTTTTCTA
67475 TTTTTTCCTA
1 TTTTTT-CTA
67485 TTTTCTTCTA
1 TTTT-TTCTA
67495 TTTTTTCT
1 TTTTTTCT
67503 TACCTTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 10 0.38
10 14 0.54
11 2 0.08
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTCTA
Found at i:68392 original size:168 final size:165
Alignment explanation
Indices: 68058--68504 Score: 558
Period size: 167 Copynumber: 2.7 Consensus size: 165
68048 AAAATAAGGT
* * * ***
68058 TTTCGAGAAAAGAAAAATTTCAAAG-AAAAATTCAAAACTCATGAAAATGAATTACCATTTGAAA
1 TTTCGA-AAAAGAAAAATTTCAAGGAAAAAATTCAAAACTAATGAAAATGAATGAATTTTTGAAA
* * * * * **
68122 ACTGATTTAATATGCAATAAATTATAATATTTGACAAATTTAAAAAAATTAAAAACCAAGAAAAA
65 ACTAATTTAATGTGAAATAAATAATAATATTTTATGAATTT-AAAAAATTAAAAACCAAGAAAAA
* *
68187 TCTCCCAAAAAATAATTTATGGAGTAGAAACTTCGTA
129 TCTCCCAAAAAATAATTTACGGAGTAAAAACTTCGTA
*
68224 TTTCGAAAACAGAAAAATTGCAAGGAAACAAATTCAAAACCTAATGAAAATGAATGAATTTTTGA
1 TTTCGAAAA-AGAAAAATTTCAAGGAAA-AAATTCAAAA-CTAATGAAAATGAATGAATTTTTGA
* * *
68289 AAAATAATTTAATGTGAAATAAATAATAATATTTTATGAATTTAAAAAATTAAGAACTAAGAAAA
63 AAACTAATTTAATGTGAAATAAATAATAATATTTTATGAATTTAAAAAATTAAAAACCAAGAAAA
** *
68354 ATCTCCCCGAAAA-AATTTACGTAGTACAAAACTTCGTA
128 ATCTCCCAAAAAATAATTTACGGAGTA-AAAACTTCGTA
* * * *
68392 TTTCGAAAATAGAAAAATTTCAAGGAAAAAATTTAAAAATTAATGAAAATGAAGGAATTTTTTAA
1 TTTCGAAAA-AGAAAAATTTCAAGGAAAAAA-TTCAAAACTAATGAAAATGAATGAATTTTTGAA
68457 AACTAATTTAATAG-GAAATAAATAATAATATTTTATGAATTTAAAAAA
64 AACTAATTTAAT-GTGAAATAAATAATAATATTTTATGAATTTAAAAAA
68505 ATTTAAACCC
Statistics
Matches: 245, Mismatches: 29, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
165 3 0.01
166 19 0.08
167 84 0.34
168 84 0.34
169 55 0.22
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (165 bp):
TTTCGAAAAAGAAAAATTTCAAGGAAAAAATTCAAAACTAATGAAAATGAATGAATTTTTGAAAA
CTAATTTAATGTGAAATAAATAATAATATTTTATGAATTTAAAAAATTAAAAACCAAGAAAAATC
TCCCAAAAAATAATTTACGGAGTAAAAACTTCGTA
Found at i:68506 original size:168 final size:167
Alignment explanation
Indices: 68058--68534 Score: 561
Period size: 168 Copynumber: 2.9 Consensus size: 167
68048 AAAATAAGGT
* * * * ***
68058 TTTCGAGAAAAGAAAAATTTCAAAG-AAAAA-TTCAAAACTCATGAAAATGAATTACCATTTGAA
1 TTTCGA-AAAAGAAAAATTTCAAGGAAAAAATTTAAAAACTAATGAAAATGAATGAATTTTTGAA
* * * * * **
68121 AACTGATTTAATATGCAATAAATTATAATATTTGACAAATTTAAAAAAATTAAAAACCAAGAAAA
65 AACTAATTTAATAGGAAATAAATAATAATATTTTATGAATTTAAAAAAATTAAAAACCAAGAAAA
* *
68186 ATCTCCCAAAAAATAATTTATGGAGTAGAAACTTCGTA
130 ATCTCCCAAAAAATAATTTACGGAGTAAAAACTTCGTA
* * *
68224 TTTCGAAAACAGAAAAATTGCAAGGAAACAAATTCAAAACCTAATGAAAATGAATGAATTTTTGA
1 TTTCGAAAA-AGAAAAATTTCAAGGAAA-AAATTTAAAAACTAATGAAAATGAATGAATTTTTGA
* * *
68289 AAAATAATTTAAT-GTGAAATAAATAATAATATTTTATGAATTT-AAAAAATTAAGAACTAAGAA
64 AAACTAATTTAATAG-GAAATAAATAATAATATTTTATGAATTTAAAAAAATTAAAAACCAAGAA
** *
68352 AAATCTCCCCGAAAA-AATTTACGTAGTACAAAACTTCGTA
128 AAATCTCCCAAAAAATAATTTACGGAGTA-AAAACTTCGTA
* * *
68392 TTTCGAAAATAGAAAAATTTCAAGGAAAAAATTTAAAAATTAATGAAAATGAAGGAATTTTTTAA
1 TTTCGAAAA-AGAAAAATTTCAAGGAAAAAATTTAAAAACTAATGAAAATGAATGAATTTTTGAA
* * *
68457 AACTAATTTAATAGGAAATAAATAATAATATTTTATGAATTTAAAAAAATTTAAACCCATG-AAA
65 AACTAATTTAATAGGAAATAAATAATAATATTTTATGAATTTAAAAAAATTAAAAACCAAGAAAA
*
68521 ATCCTCTCAAAAAA
130 AT-CTCCCAAAAAA
68535 ATTACGGAGA
Statistics
Matches: 261, Mismatches: 41, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
165 3 0.01
166 19 0.07
167 89 0.34
168 92 0.35
169 58 0.22
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (167 bp):
TTTCGAAAAAGAAAAATTTCAAGGAAAAAATTTAAAAACTAATGAAAATGAATGAATTTTTGAAA
ACTAATTTAATAGGAAATAAATAATAATATTTTATGAATTTAAAAAAATTAAAAACCAAGAAAAA
TCTCCCAAAAAATAATTTACGGAGTAAAAACTTCGTA
Found at i:68575 original size:167 final size:168
Alignment explanation
Indices: 68058--68581 Score: 543
Period size: 167 Copynumber: 3.1 Consensus size: 168
68048 AAAATAAGGT
* * * * * ***
68058 TTTCGAGAA-AAGAAAAATTTCAAAG-AAAAA-TTCAAAACTCATGAAAATGAATTACCATTTGA
1 TTTCGAAAATAAGAAAAATTTCAAGGAAAAAATTTAAAAACTAATGAAAATGAATGAATTTTTGA
* * * * * ** *
68120 AAACTGATTTAATATGCAATAAATTATAATATTTGACAAATTTAAAAAAATTAAAAACCAAGAAA
66 AAACTAATTTAATAGGAAATAAATAATAATATTTTATGAATTTAAAAAAATTTAAAACCAAGAAA
* *
68185 AATCTCCCAAAAAATAATTTATGGAGTAGAAACT-TCGTA
131 AATCTCCCAAAAAA-AA-TTACGGAGTAGAAAATCTCGTA
* * * *
68224 TTTCGAAAA-CAGAAAAATTGCAAGGAAACAAATTCAAAACCTAATGAAAATGAATGAATTTTTG
1 TTTCGAAAATAAGAAAAATTTCAAGGAAA-AAATTTAAAAACTAATGAAAATGAATGAATTTTTG
* *
68288 AAAAATAATTTAAT-GTGAAATAAATAATAATATTTTATGAATTT-AAAAAA-TTAAGAACTAAG
65 AAAACTAATTTAATAG-GAAATAAATAATAATATTTTATGAATTTAAAAAAATTTAA-AACCAAG
* * * *
68350 AAAAATCTCCCCGAAAAAATTTACGTAGTACAAAA-CTTCGTA
128 AAAAATCT-CCCAAAAAAAATTACGGAGTAGAAAATC-TCGTA
* * *
68392 TTTCGAAAAT-AGAAAAATTTCAAGGAAAAAATTTAAAAATTAATGAAAATGAAGGAATTTTTTA
1 TTTCGAAAATAAGAAAAATTTCAAGGAAAAAATTTAAAAACTAATGAAAATGAATGAATTTTTGA
* *
68456 AAACTAATTTAATAGGAAATAAATAATAATATTTTATGAATTTAAAAAAATTTAAACCCATG-AA
66 AAACTAATTTAATAGGAAATAAATAATAATATTTTATGAATTTAAAAAAATTTAAAACCAAGAAA
* * *
68520 AATCCTCTC-AAAAAAATTACGGAGAAGAAAATCCCGTAA
131 AAT-CTCCCAAAAAAAATTACGGAGTAGAAAATCTCGT-A
*
68559 TTT-AAAAATAAGAAAAATTTCAA
1 TTTCGAAAATAAGAAAAATTTCAA
68582 AAGAAAGTGA
Statistics
Matches: 297, Mismatches: 45, Indels: 31
0.80 0.12 0.08
Matches are distributed among these distances:
166 47 0.16
167 112 0.38
168 68 0.23
169 70 0.24
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (168 bp):
TTTCGAAAATAAGAAAAATTTCAAGGAAAAAATTTAAAAACTAATGAAAATGAATGAATTTTTGA
AAACTAATTTAATAGGAAATAAATAATAATATTTTATGAATTTAAAAAAATTTAAAACCAAGAAA
AATCTCCCAAAAAAAATTACGGAGTAGAAAATCTCGTA
Found at i:70547 original size:153 final size:152
Alignment explanation
Indices: 70220--70600 Score: 446
Period size: 153 Copynumber: 2.5 Consensus size: 152
70210 ATTGCAAAAG
* * * * * **
70220 GGATGAACCTATCCTAAATATCCACCTTCGGCATAAAAATAGACTCAGTGACAACTTAGGACTTT
1 GGATGAACCTATCCTAAATACCCACATTCGGCATAAAAGTAGACCCAGTGAAAACTTAGGACTCG
* * *
70285 ATTTTGAAAAAATTACTAAAATACCCCTAAGAGATATCTTTGACGTGAAAGTGCATGATACCCCA
66 ATTCT-AAAAAATTACTAAAATACCCCTAAGAGATACCTTCGACGTGAAAGTGCA-GATACCCCA
* **
70350 AAAAGACTTAAAAACTTTAAGATG
129 AAAAGACTTAAAAAATTTAAGAAA
* * * *
70374 GGATGAACCTATCCTAAATACCCACATTCGGCATAAAAGTGGACCCGGTGATAACCTAGGACTCG
1 GGATGAACCTATCCTAAATACCCACATTCGGCATAAAAGTAGACCCAGTGAAAACTTAGGACTCG
* * *
70439 ATTCTAAAAAATTACTAAAATA-CCCTAAGGGATACCTTCGATGT-AGAAGTGTCCA-ATACCTC
66 ATTCTAAAAAATTACTAAAATACCCCTAAGAGATACCTTCGACGTGA-AAGTG--CAGATACCCC
*
70501 TAAAAGACTTAAAAAGATTCT-AGAAA
128 AAAAAGACTTAAAAA-ATT-TAAGAAA
* * *
70527 GGATGAACCTATCCTAAATACCCACTTTCGGCATAAAAGTAGACCTAGTGAAAACTTAAGACTCG
1 GGATGAACCTATCCTAAATACCCACATTCGGCATAAAAGTAGACCCAGTGAAAACTTAGGACTCG
*
70592 GTTCTAAAA
66 ATTCTAAAA
70601 TTACCAAGAT
Statistics
Matches: 194, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
151 1 0.01
152 43 0.22
153 88 0.45
154 62 0.32
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.25
Consensus pattern (152 bp):
GGATGAACCTATCCTAAATACCCACATTCGGCATAAAAGTAGACCCAGTGAAAACTTAGGACTCG
ATTCTAAAAAATTACTAAAATACCCCTAAGAGATACCTTCGACGTGAAAGTGCAGATACCCCAAA
AAGACTTAAAAAATTTAAGAAA
Found at i:71738 original size:20 final size:20
Alignment explanation
Indices: 71700--71740 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
71690 AACAAAACTT
*
71700 TTAAAAATAAAATACTAAAA
1 TTAAAAATAAAACACTAAAA
71720 TTAAATAATAAAACA-TAAAA
1 TTAAA-AATAAAACACTAAAA
71740 T
1 T
71741 AATTTACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (20 bp):
TTAAAAATAAAACACTAAAA
Found at i:72521 original size:20 final size:20
Alignment explanation
Indices: 72498--72571 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
72488 ACAATTCAAA
72498 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
72518 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
72539 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
72559 GTATCGATACATG
1 GTATCGATACATG
72572 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:72542 original size:21 final size:21
Alignment explanation
Indices: 72516--72591 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
72506 ACATGTTGCA
72516 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
72537 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
72557 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
72578 ATGTATCGATACAT
1 ATGTATCGATACAT
72592 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:72549 original size:41 final size:41
Alignment explanation
Indices: 72498--72591 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
72488 ACAATTCAAA
72498 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
72539 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
72580 GTATCGATACAT
1 GTATCGATACAT
72592 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:72648 original size:13 final size:13
Alignment explanation
Indices: 72630--72655 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72620 TACAGCAAGT
72630 ATGTATCGATACA
1 ATGTATCGATACA
72643 ATGTATCGATACA
1 ATGTATCGATACA
72656 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:74902 original size:21 final size:21
Alignment explanation
Indices: 74869--74913 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
74859 TTGCAAGTTG
*
74869 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
74891 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
74911 AAA
1 AAA
74914 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:78839 original size:20 final size:20
Alignment explanation
Indices: 78760--78839 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
78750 AATGTCCAAA
*
78760 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
78780 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
78805 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
78825 TTGTATCGATACATT
1 ATGTATCGATACATT
78840 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:78843 original size:13 final size:13
Alignment explanation
Indices: 78825--78863 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
78815 ACATTTTTCT
78825 TTGTATCGATACA
1 TTGTATCGATACA
78838 TTGTATCGATACA
1 TTGTATCGATACA
*
78851 CTGTATCGATACA
1 TTGTATCGATACA
78864 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:81337 original size:20 final size:20
Alignment explanation
Indices: 81314--81387 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
81304 ACAATTCAAA
81314 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
81334 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
81355 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
81375 GTATCGATACATG
1 GTATCGATACATG
81388 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:81358 original size:21 final size:21
Alignment explanation
Indices: 81332--81407 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
81322 ACATGTTGCA
81332 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
81353 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
81373 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
81394 ATGTATCGATACAT
1 ATGTATCGATACAT
81408 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:81365 original size:41 final size:41
Alignment explanation
Indices: 81314--81407 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
81304 ACAATTCAAA
81314 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
81355 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
81396 GTATCGATACAT
1 GTATCGATACAT
81408 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:81464 original size:13 final size:13
Alignment explanation
Indices: 81446--81471 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
81436 TACAGCAAGT
81446 ATGTATCGATACA
1 ATGTATCGATACA
81459 ATGTATCGATACA
1 ATGTATCGATACA
81472 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:99638 original size:79 final size:78
Alignment explanation
Indices: 99479--99627 Score: 205
Period size: 76 Copynumber: 1.9 Consensus size: 78
99469 TTTTGGAGAT
* * ***
99479 AATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAGGTCGGGGTTGG
1 AATAACGGGGTTGGAGTATCCCC-ATGATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGG
*
99544 GGTATCCCCTCGAA
65 AGTATCCCCTCGAA
*
99558 AATAACGGGGTTGGAGTAT-CCC-TGATGAAAAATTAATGTTTTAGAAA-AAAACCGGGGTTGGA
1 AATAACGGGGTTGGAGTATCCCCATGATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGA
99620 GTATCCCC
66 GTATCCCC
99628 GATTGTGAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
75 19 0.30
76 22 0.35
78 3 0.05
79 19 0.30
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (78 bp):
AATAACGGGGTTGGAGTATCCCCATGATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGA
GTATCCCCTCGAA
Found at i:99720 original size:51 final size:51
Alignment explanation
Indices: 99594--99721 Score: 127
Period size: 51 Copynumber: 2.5 Consensus size: 51
99584 GAAAAATTAA
* * *
99594 TGTTTTAGAAA-AAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAGTCGG
1 TGTTTTAGAAATAAAACTGGGGTTGGAATATCCCCGATTGGGAAAAGTCGG
* *** * *
99644 TGTTTTGGAAATAAAA-TCAAAGTTGGAATATCCCCGATTGCGGAGAA-TTGG
1 TGTTTTAGAAATAAAACT-GGGGTTGGAATATCCCCGATTG-GGAAAAGTCGG
*
99695 TGTTTCAGAAATAAAACTGGGGTTGGA
1 TGTTTTAGAAATAAAACTGGGGTTGGA
99722 GTACCACCTC
Statistics
Matches: 60, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
50 10 0.17
51 45 0.75
52 5 0.08
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (51 bp):
TGTTTTAGAAATAAAACTGGGGTTGGAATATCCCCGATTGGGAAAAGTCGG
Found at i:101556 original size:524 final size:524
Alignment explanation
Indices: 100568--101617 Score: 1974
Period size: 524 Copynumber: 2.0 Consensus size: 524
100558 CATGCTACGG
* *
100568 ACATTCGAACGTCCATAATCAAGAAAGGGAGGTAATGTGGGCATCACGTGTTCATTCCACATTCT
1 ACATTCGAACGTCCATAATCAAGAAAGGGAGGTAACGTGGGCATCACGTGTTCATTCCACATTCC
100633 CGGAGTAGTTTAGGATGATGGAACAACCCGTTGACCATGTCACCAACAAGGATTTTGGACTCTAG
66 CGGAGTAGTTTAGGATGATGGAACAACCCGTTGACCATGTCACCAACAAGGATTTTGGACTCTAG
100698 GCCAAGGCTAACCTACATCTATTGGACAAAGGAGACTTTTTGTTGAAAAACATCATTTTGGAGAT
131 GCCAAGGCTAACCTACATCTATTGGACAAAGGAGACTTTTTGTTGAAAAACATCATTTTGGAGAT
100763 TATCTCACCATGAATCCAAATCTGAGTATTGCTATTTCCCCAAGGTTGGTGTCGTAACGTGCGCT
196 TATCTCACCATGAATCCAAATCTGAGTATTGCTATTTCCCCAAGGTTGGTGTCGTAACGTGCGCT
* *
100828 CAACCCCGGTGATAAGGCAAATGAGGCGCGCTCGACTTAATATCTCTCTCGAATGGGGATTTCTG
261 CAACCCCGGCGATAAGGCAAATGAGGCGCGCTCGACTTAATATCTCTCACGAATGGGGATTTCTG
*
100893 TGGCATGATGAAAAATATGTTGATTAAAGGGGGAAGATCAGTAGATGAATCGCCCATCTAATTGA
326 TGGCATGAAGAAAAATATGTTGATTAAAGGGGGAAGATCAGTAGATGAATCGCCCATCTAATTGA
*
100958 TCTTCAACGGTCACTACGAAGTGACCAAAATTTTGGATTCGCCACCGATCATTTCGGGCTAGGCA
391 TCTTCAACGGTCACTACGAAGTGACCAAAATTTTGGAGTCGCCACCGATCATTTCGGGCTAGGCA
* * *
101023 TGATCGGATGCCAATTGAAACCTATATCTTGAGTTGCGAAACTCAAAACTTCGATCCCGTGGTCT
456 TGATCGGATGCCAATTGAAACCTATATCTTGAGTTACGAAACTCAAAACATCAATCCCGTGGTCT
101088 GCGT
521 GCGT
101092 ACATTCGAACGTCCATAATCAAGAAAGGGAGGTAACGTGGGCATCACGTGTTCATTCCACATTCC
1 ACATTCGAACGTCCATAATCAAGAAAGGGAGGTAACGTGGGCATCACGTGTTCATTCCACATTCC
101157 CGGAGTAGTTTAGGATGATGGAACAACCCGTTGACCATGTCACCAACAAGGATTTTGGACTCTAG
66 CGGAGTAGTTTAGGATGATGGAACAACCCGTTGACCATGTCACCAACAAGGATTTTGGACTCTAG
*
101222 GCCAAGGCTAACCTACATCTATTGGACAGAGGAGACTTTTTGTTGAAAAACATCATTTTGGAGAT
131 GCCAAGGCTAACCTACATCTATTGGACAAAGGAGACTTTTTGTTGAAAAACATCATTTTGGAGAT
*
101287 TATCTCACCATGAATCCAAATCTGAGTTTTGCTATTTCCCCAAGGTTGGTGTCGTAACGTGCGCT
196 TATCTCACCATGAATCCAAATCTGAGTATTGCTATTTCCCCAAGGTTGGTGTCGTAACGTGCGCT
101352 CAACCCCGGCGATAAGGCAAATGAGGCGCGCTCGACTTAATATCTCTCACGAATGGGGATTTCTG
261 CAACCCCGGCGATAAGGCAAATGAGGCGCGCTCGACTTAATATCTCTCACGAATGGGGATTTCTG
*
101417 TGGCATGAAGAAAAGTATGTTGATTAAAGGGGGAAGATCAGTAGATGAATCGCCCATCTAATTGA
326 TGGCATGAAGAAAAATATGTTGATTAAAGGGGGAAGATCAGTAGATGAATCGCCCATCTAATTGA
*
101482 TCTTCAATGGTCACTACGAAGTGACCAAAATTTTGGAGTCGCCACCGATCATTTCGGGCTAGGCA
391 TCTTCAACGGTCACTACGAAGTGACCAAAATTTTGGAGTCGCCACCGATCATTTCGGGCTAGGCA
*
101547 TGATCGGATGCCTATTGAAACCTATATCTTGAGTTACGAAACTCAAAACATCAATCCCGTGGTCT
456 TGATCGGATGCCAATTGAAACCTATATCTTGAGTTACGAAACTCAAAACATCAATCCCGTGGTCT
101612 GCGT
521 GCGT
101616 AC
1 AC
101618 TTTATAGATT
Statistics
Matches: 512, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
524 512 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (524 bp):
ACATTCGAACGTCCATAATCAAGAAAGGGAGGTAACGTGGGCATCACGTGTTCATTCCACATTCC
CGGAGTAGTTTAGGATGATGGAACAACCCGTTGACCATGTCACCAACAAGGATTTTGGACTCTAG
GCCAAGGCTAACCTACATCTATTGGACAAAGGAGACTTTTTGTTGAAAAACATCATTTTGGAGAT
TATCTCACCATGAATCCAAATCTGAGTATTGCTATTTCCCCAAGGTTGGTGTCGTAACGTGCGCT
CAACCCCGGCGATAAGGCAAATGAGGCGCGCTCGACTTAATATCTCTCACGAATGGGGATTTCTG
TGGCATGAAGAAAAATATGTTGATTAAAGGGGGAAGATCAGTAGATGAATCGCCCATCTAATTGA
TCTTCAACGGTCACTACGAAGTGACCAAAATTTTGGAGTCGCCACCGATCATTTCGGGCTAGGCA
TGATCGGATGCCAATTGAAACCTATATCTTGAGTTACGAAACTCAAAACATCAATCCCGTGGTCT
GCGT
Found at i:103995 original size:52 final size:52
Alignment explanation
Indices: 103847--103975 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
103837 CGAAATATGA
103847 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
103899 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
103951 AAATTTGCTTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
103976 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:104002 original size:13 final size:13
Alignment explanation
Indices: 103984--104008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
103974 CAAAGATCAG
103984 TGTATCGATACAA
1 TGTATCGATACAA
103997 TGTATCGATACA
1 TGTATCGATACA
104009 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:104085 original size:19 final size:19
Alignment explanation
Indices: 104061--104144 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
104051 AGCGATGCAT
104061 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
104080 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
104099 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
104112 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
*
104131 TGTATTGATACAAA
1 TGTATCGATACAAA
104145 TCATTGAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 41 0.73
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:104117 original size:13 final size:13
Alignment explanation
Indices: 104099--104123 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104089 ACAACACTTA
104099 TGTATCGATACAT
1 TGTATCGATACAT
104112 TGTATCGATACA
1 TGTATCGATACA
104124 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:104121 original size:32 final size:32
Alignment explanation
Indices: 104080--104142 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
104070 ACAAAACTTA
104080 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
*
104112 TGTATCGATACAACACTTATGTATTGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
104143 AATCATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:105356 original size:13 final size:13
Alignment explanation
Indices: 105338--105363 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105328 TACAGCAAGT
105338 ATGTATCGATACA
1 ATGTATCGATACA
105351 ATGTATCGATACA
1 ATGTATCGATACA
105364 TTGGCTTGTA
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:111525 original size:20 final size:20
Alignment explanation
Indices: 111446--111525 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
111436 AATGTCCAAA
*
111446 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
111466 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
111491 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
111511 TTGTATCGATACATT
1 ATGTATCGATACATT
111526 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:111529 original size:13 final size:13
Alignment explanation
Indices: 111511--111575 Score: 112
Period size: 13 Copynumber: 5.0 Consensus size: 13
111501 ACATTTTTCT
111511 TTGTATCGATACA
1 TTGTATCGATACA
111524 TTGTATCGATACA
1 TTGTATCGATACA
*
111537 CTGTATCGATACA
1 TTGTATCGATACA
111550 TTGTATCGATACA
1 TTGTATCGATACA
*
111563 CTGTATCGATACA
1 TTGTATCGATACA
111576 GGGTGATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 49 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:111548 original size:26 final size:26
Alignment explanation
Indices: 111512--111575 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
111502 CATTTTTCTT
111512 TGTATCGATACATTGTATCGATACAC
1 TGTATCGATACATTGTATCGATACAC
111538 TGTATCGATACATTGTATCGATACAC
1 TGTATCGATACATTGTATCGATACAC
111564 TGTATCGATACA
1 TGTATCGATACA
111576 GGGTGATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (26 bp):
TGTATCGATACATTGTATCGATACAC
Found at i:111720 original size:21 final size:21
Alignment explanation
Indices: 111696--111742 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
111686 AAATCTTTTG
111696 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
111717 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
111737 CAAAAT
1 CAAAAT
111743 CAGCATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:111739 original size:20 final size:19
Alignment explanation
Indices: 111698--111740 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
111688 ATCTTTTGCA
111698 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
111718 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
111738 AAA
1 AAA
111741 ATCAGCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:114112 original size:13 final size:13
Alignment explanation
Indices: 114094--114119 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
114084 TACAGCAAGT
114094 ATGTATCGATACA
1 ATGTATCGATACA
114107 ATGTATCGATACA
1 ATGTATCGATACA
114120 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:120248 original size:20 final size:20
Alignment explanation
Indices: 120222--120299 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
120212 AATGTCCAAA
120222 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* *
120242 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACA--T-G--TTTCT
*
120267 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
120287 TTGTATCGATACA
1 ATGTATCGATACA
120300 GGGTGATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 28 0.60
22 1 0.02
23 2 0.04
25 16 0.34
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:120444 original size:21 final size:21
Alignment explanation
Indices: 120420--120466 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
120410 AAATCTTTTG
120420 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
120441 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
120461 CAAAAT
1 CAAAAT
120467 CAGCATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:120463 original size:20 final size:19
Alignment explanation
Indices: 120422--120464 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
120412 ATCTTTTGCA
120422 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
120442 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
120462 AAA
1 AAA
120465 ATCAGCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:122835 original size:13 final size:13
Alignment explanation
Indices: 122817--122842 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122807 TACAGCAAGT
122817 ATGTATCGATACA
1 ATGTATCGATACA
122830 ATGTATCGATACA
1 ATGTATCGATACA
122843 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:123772 original size:102 final size:102
Alignment explanation
Indices: 123593--123892 Score: 377
Period size: 102 Copynumber: 3.0 Consensus size: 102
123583 ATAAGCTTTC
**
123593 AAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 AAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAAAAGGTGC
* * *
123658 CAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAA
66 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * * *
123695 AGGATGACAAAGGCGCCAATATGCTGATTTAAGGCCAGCGGTATTGGACTTAAAGACAAAGGTGC
1 AAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAAAAGGTGC
* *
123760 CAATATGCTGATTCAAGGCTAGCGATATTGGGCTTAA
66 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
* * * *
123797 AAG-T-CCCAA--CG-----A-GCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAGGTGC
1 AAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAAAAGGTGC
**
123852 CAATATGCTGATTCAAGGCCAGCGATATTGGGGTTAA
66 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
123889 AAGA
1 AAGA
123893 AGATGCCACC
Statistics
Matches: 177, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
92 76 0.43
93 1 0.01
98 2 0.01
100 3 0.02
101 1 0.01
102 94 0.53
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (102 bp):
AAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAAAAAGGTGC
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
Found at i:123876 original size:92 final size:92
Alignment explanation
Indices: 123717--123891 Score: 287
Period size: 92 Copynumber: 1.9 Consensus size: 92
123707 GCGCCAATAT
* ** * *
123717 GCTGATTTAAGGCCAGCGGTATTGGACTTAAAGACAAAGGTGCCAATATGCTGATTCAAGGCTAG
1 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAG
123782 CGATATTGGGCTTAAAAGTCCCAACGA
66 CGATATTGGGCTTAAAAGTCCCAACGA
*
123809 GCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAG
1 GCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAG
*
123874 CGATATTGGGGTTAAAAG
66 CGATATTGGGCTTAAAAG
123892 AAGATGCCAC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (92 bp):
GCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAG
CGATATTGGGCTTAAAAGTCCCAACGA
Found at i:123889 original size:49 final size:49
Alignment explanation
Indices: 123601--123882 Score: 326
Period size: 49 Copynumber: 5.8 Consensus size: 49
123591 TCAAGATGAC
* *
123601 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAA
* * * *
123650 GAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGGATGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-GA--A
* * * *
123702 CAAAGGCGCCAATATGCTGATTTAAGGCCAGCGGTATTGGACTTAAAGAC
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAA
* *
123752 AAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTT-----A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAA
* * * *
123796 AAA-GTCCCAACGA-GCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAA
1 AAAGGTGCCAA-TATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAA
123844 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
123883 GGTTAAAAGA
Statistics
Matches: 193, Mismatches: 28, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
43 32 0.17
44 4 0.02
48 5 0.03
49 109 0.56
50 2 0.01
52 2 0.01
53 39 0.20
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (49 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAA
Found at i:123966 original size:28 final size:29
Alignment explanation
Indices: 123909--124004 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 29
123899 CACCAACTTG
* * *
123909 TGTGGGCTTTTGAAAGGGTTG-TACCAACT
1 TGTGGGCTTTTAAAAGGG-TGCCACTAACT
* * *
123938 TGTGTGCTTTT-AAAGGTTGCCACTGACT
1 TGTGGGCTTTTAAAAGGGTGCCACTAACT
*
123966 TGTGGGTTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTT-AAAAGGGTGCCACTAACT
123996 TGTGGGCTT
1 TGTGGGCTT
124005 AACAGGAGAA
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
27 2 0.04
28 19 0.35
29 10 0.19
30 23 0.43
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.36
Consensus pattern (29 bp):
TGTGGGCTTTTAAAAGGGTGCCACTAACT
Found at i:124285 original size:35 final size:34
Alignment explanation
Indices: 124025--124284 Score: 373
Period size: 34 Copynumber: 7.6 Consensus size: 34
124015 ATATGCCATG
124025 GAGTTGTGGACTTAAAAGGAACAAAGG-TGCCAC-
1 GAGTTGTGGACTTAAAAGGAAC-AAGGATGCCACA
*
124058 GAAGTTGTGGACTTAAAAGGAACAAGGATGCCACG
1 G-AGTTGTGGACTTAAAAGGAACAAGGATGCCACA
*
124093 GAGTTGTGGACTTAAAAGGAACAAGGATGCCACG
1 GAGTTGTGGACTTAAAAGGAACAAGGATGCCACA
124127 GAGTTGTGGACTTAAAAGGAACAAGGATGCCACA
1 GAGTTGTGGACTTAAAAGGAACAAGGATGCCACA
124161 GAGTTGTGGACTTAAAAAGGAACAAGGATGCCAC-
1 GAGTTGTGGACTT-AAAAGGAACAAGGATGCCACA
124195 GAAGTTGTGGACTTAAAAAGGAACAAGGATGCCACA
1 G-AGTTGTGGACTT-AAAAGGAACAAGGATGCCACA
* * * * *
124231 GAGTTGTGGGCTTAAAAGGGAAAAAGGGTGCTATA
1 GAGTTGTGGACTTAAAA-GGAACAAGGATGCCACA
*
124266 GAGTCGTGGACTTAAAAGG
1 GAGTTGTGGACTTAAAAGG
124285 GTGCCACGGA
Statistics
Matches: 212, Mismatches: 8, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.02
34 113 0.53
35 93 0.44
36 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.32, T:0.18
Consensus pattern (34 bp):
GAGTTGTGGACTTAAAAGGAACAAGGATGCCACA
Found at i:124296 original size:27 final size:28
Alignment explanation
Indices: 124251--124334 Score: 98
Period size: 29 Copynumber: 3.0 Consensus size: 28
124241 CTTAAAAGGG
* **
124251 AAAAAGGGTGCTATAGAGTCGTGGACTT
1 AAAAAGGGTGCCACGGAGTCGTGGACTT
* *
124279 -AAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGGTGCCACGGAGTCGTGGAC-TT
*
124307 AAAAAGAGTGCCACGGAGTCGTGGACTT
1 AAAAAGGGTGCCACGGAGTCGTGGACTT
124335 TGAGGAGAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 20 0.43
28 4 0.09
29 22 0.48
ACGTcount: A:0.29, C:0.14, G:0.35, T:0.23
Consensus pattern (28 bp):
AAAAAGGGTGCCACGGAGTCGTGGACTT
Found at i:124317 original size:29 final size:29
Alignment explanation
Indices: 124266--124372 Score: 119
Period size: 29 Copynumber: 3.7 Consensus size: 29
124256 GGGTGCTATA
*
124266 GAGTCGTGGAC-TT-AAAAGGGTGCCACG
1 GAGTCGTGGACTTTAAAAAGAGTGCCACG
* *
124293 GAGTTGTGGGCTTTAAAAAGAGTGCCACG
1 GAGTCGTGGACTTTAAAAAGAGTGCCACG
* * * *
124322 GAGTCGTGGACTTTGAGGAGAGATTGCCACT
1 GAGTCGTGGACTTT-A-AAAAGAGTGCCACG
124353 GAGTCGTGGACTTTAAAAAG
1 GAGTCGTGGACTTTAAAAAG
124373 GTATTTGAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
27 9 0.14
28 2 0.03
29 28 0.43
30 2 0.03
31 24 0.37
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (29 bp):
GAGTCGTGGACTTTAAAAAGAGTGCCACG
Found at i:125389 original size:17 final size:18
Alignment explanation
Indices: 125367--125411 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
125357 CTCACCGAGA
*
125367 TTTTCTGTTT-TGTTTTT
1 TTTTCTGTTTCTCTTTTT
*
125384 TTTTCTTTTTCTCTTTTT
1 TTTTCTGTTTCTCTTTTT
*
125402 TTTTGTGTTT
1 TTTTCTGTTT
125412 GGAAAAGAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (18 bp):
TTTTCTGTTTCTCTTTTT
Found at i:131368 original size:52 final size:52
Alignment explanation
Indices: 131222--131350 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
131212 CGAAATATGA
*
131222 AAATTTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
131274 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
131326 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
131351 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:131460 original size:19 final size:19
Alignment explanation
Indices: 131436--131498 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
131426 AGCGATACAT
131436 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
131455 TGTATCG--A-AAAA--T-
1 TGTATCGATACAAAACTTA
*
131468 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
131487 TGTATCGATACA
1 TGTATCGATACA
131499 TTGCATCGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 7 0.19
14 1 0.03
15 1 0.03
16 7 0.19
17 1 0.03
18 1 0.03
19 19 0.51
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:131527 original size:32 final size:32
Alignment explanation
Indices: 131428--131530 Score: 161
Period size: 32 Copynumber: 3.2 Consensus size: 32
131418 AGCTTCGTAG
*
131428 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
* *
131460 CGAAAAATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
* *
131492 CGATACATTGCATCGATACAACACTTATATAT
1 CGATACATTGTATCGATACAACACTTATGTAT
131524 CGATACA
1 CGATACA
131531 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:132195 original size:219 final size:218
Alignment explanation
Indices: 131817--132257 Score: 864
Period size: 219 Copynumber: 2.0 Consensus size: 218
131807 TAGCCCGGAC
*
131817 AAAATGAGGTGTTTACAGTTGGAAAACCAATTCATAAAAGCCTTAAGTTCATGTTATTCTCCATG
1 AAAATGAGGTGTTTACAGTTGGAAAACCAACTCATAAAAGCCTTAAGTTCATGTTATTCTCCATG
131882 TATGGGAGGTAGCATGAGCTTGGCTTGGGGATATCTTTAAAATCCGATTTTGGCACCCAAATGAG
66 TATGGGAGGTAGCATGAGCTTGGCTTGGGGATATCTTTAAAATCCGATTTTGGCACCCAAATGAG
131947 CATCTTGGCACAAACAACATGCAGCAAACACAACATATGTCATGGAGGACAAAAATGCATGAACC
131 CATCTTGGCACAAACAACATGCAGCAAACACAACATATGTCATGGAGGACAAAAATGCATGAACC
132012 AAGATGACATTTTTATGGGAGGA
196 AAGATGACATTTTTATGGGAGGA
132035 AAAATGAGGTGTTTACAGTTGGAAAACCAACTCATAAAAGCCTTAAGTTCATGTTATTCTCCATG
1 AAAATGAGGTGTTTACAGTTGGAAAACCAACTCATAAAAGCCTTAAGTTCATGTTATTCTCCATG
132100 TATGGGAGGGTAGCATGAGCTTGGCTTGGGGATATCTTTAAAATCCGATTTTGGCACCCAAATGA
66 TATGGGA-GGTAGCATGAGCTTGGCTTGGGGATATCTTTAAAATCCGATTTTGGCACCCAAATGA
132165 GCATCTTGGCACAAACAACATGCAGCAAACACAACATATGTCATGGAGGACAAAAATGCATGAAC
130 GCATCTTGGCACAAACAACATGCAGCAAACACAACATATGTCATGGAGGACAAAAATGCATGAAC
132230 CAAGATGACATTTTTATGGGAGGA
195 CAAGATGACATTTTTATGGGAGGA
132254 AAAA
1 AAAA
132258 GAAAGAAAAG
Statistics
Matches: 221, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
218 71 0.32
219 150 0.68
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (218 bp):
AAAATGAGGTGTTTACAGTTGGAAAACCAACTCATAAAAGCCTTAAGTTCATGTTATTCTCCATG
TATGGGAGGTAGCATGAGCTTGGCTTGGGGATATCTTTAAAATCCGATTTTGGCACCCAAATGAG
CATCTTGGCACAAACAACATGCAGCAAACACAACATATGTCATGGAGGACAAAAATGCATGAACC
AAGATGACATTTTTATGGGAGGA
Found at i:133377 original size:20 final size:21
Alignment explanation
Indices: 133352--133394 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
133342 AAAATGCTTG
133352 AATGTATCGATACAT-TGGGT
1 AATGTATCGATACATCTGGGT
133372 AATGTATCGATACATCTGGGT
1 AATGTATCGATACATCTGGGT
133393 AA
1 AA
133395 AATTTTCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATCTGGGT
Found at i:133465 original size:21 final size:21
Alignment explanation
Indices: 133439--133479 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
133429 ATCTATACAG
* *
133439 TGTATCGATATATTTTCTTAA
1 TGTATCGATACATTTCCTTAA
133460 TGTATCGATACATTTCCTTA
1 TGTATCGATACATTTCCTTA
133480 GCAGTAGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.49
Consensus pattern (21 bp):
TGTATCGATACATTTCCTTAA
Found at i:133513 original size:13 final size:13
Alignment explanation
Indices: 133495--133546 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
133485 AGCTTCGTAA
133495 CGATACATTGTAT
1 CGATACATTGTAT
133508 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
133527 CGATACATTGTAT
1 CGATACATTGTAT
133540 CGATACA
1 CGATACA
133547 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:133527 original size:19 final size:19
Alignment explanation
Indices: 133503--133588 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
133493 AACGATACAT
133503 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
133522 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
133535 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
133554 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-AAACT-TA
133575 TGTATCGATACAAA
1 TGTATCGATACAAA
133589 TTGTTTGAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 23 0.43
20 3 0.06
21 13 0.24
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:133536 original size:32 final size:32
Alignment explanation
Indices: 133495--133567 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
133485 AGCTTCGTAA
133495 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
133527 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
133559 CGATACATT
1 CGATACATT
133568 TACTGTTTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:133595 original size:19 final size:19
Alignment explanation
Indices: 133534--133595 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
133524 TATCGATACA
133534 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ACTGT
* *
133553 ATGTATCGATACATTTACTGT
1 TTGTATCGATACA--AACTGT
*
133574 TTGTATCGATACAAATTGT
1 TTGTATCGATACAAACTGT
133593 TTG
1 TTG
133596 AAATTCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 19 0.54
20 3 0.09
21 13 0.37
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACAAACTGT
Found at i:134427 original size:119 final size:118
Alignment explanation
Indices: 134212--134434 Score: 267
Period size: 119 Copynumber: 1.9 Consensus size: 118
134202 TGGAAGGGGT
* * *
134212 GTCCCACTTTTTGAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCCTTGAGGACAAAGGGA
1 GTCCCACTTTTTGAGGACAAAGGAAAAGAGAACGAAATACGTCTTGCTCCTTGAGGACAAAGAGA
* *
134277 GAGAAGAAAAGGAAAGTGTCCTGCTTCTTGAGGA-TAAAGTGAAAAAGAGTAC
66 AAGAAGAAAAGGAAAGTGTCATGCTTCTTGAGGACTAAAGTGAAAAAGAGTAC
* * *
134329 GTCCCA-TTTTTCGAGGATAAAGGAAAAAGGGAAACGAAATACGTCTTGCTCTTTGAGGACAAA-
1 GTCCCACTTTTT-GAGGACAAAGG-AAAAGAG-AACGAAATACGTCTTGCTCCTTGAGGACAAAG
* *
134392 AGAAAGAGGAAAA-TAAAGTGCATCATGC-TCTTTGAGGACTAAA
63 AGAAAGAAGAAAAGGAAAGTG--TCATGCTTC-TTGAGGACTAAA
134435 AAGTGCCACC
Statistics
Matches: 89, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
116 5 0.06
117 22 0.25
118 18 0.20
119 40 0.45
120 4 0.04
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (118 bp):
GTCCCACTTTTTGAGGACAAAGGAAAAGAGAACGAAATACGTCTTGCTCCTTGAGGACAAAGAGA
AAGAAGAAAAGGAAAGTGTCATGCTTCTTGAGGACTAAAGTGAAAAAGAGTAC
Found at i:134549 original size:61 final size:56
Alignment explanation
Indices: 134417--134717 Score: 322
Period size: 61 Copynumber: 5.3 Consensus size: 56
134407 AAGTGCATCA
** * * *
134417 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGTGCCC
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT--AAA-G--AGGCGTCC
* * * * *
134478 TACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCT
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT--AAAGAG---GCGTCC
* * * *
134539 TGCTCCTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAA-AGGCGTTC
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCC
* *
134594 TGCTCTTTGAGGACTGGAAAATGCCACCAACATGTGTGGGC-TT-AAGAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCC
* *
134648 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAA-AGGCATCC
1 TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCC
134703 TGCTCTTTGAGGACT
1 TGCTCTTTGAGGACT
134718 AAAGGGCGAA
Statistics
Matches: 208, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
53 2 0.01
54 47 0.23
55 65 0.31
56 2 0.01
58 4 0.02
59 3 0.01
60 1 0.00
61 84 0.40
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (56 bp):
TGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGGCGTCC
Found at i:134673 original size:54 final size:55
Alignment explanation
Indices: 134417--135187 Score: 479
Period size: 55 Copynumber: 13.8 Consensus size: 55
134407 AAGTGCATCA
* * *
134417 TGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAGGTGCCC
1 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAAAGG---CGT--CC
* * ** * *
134478 TACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATCT
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAA-AG---GCGTCC
* * *
134539 TGCTCCTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCGTTC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
* *
134594 TGCTCTTTGAGGACTGGAAAATGCCACCAACATGTGTGGGC-TTAAGAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
* * *
134648 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
** * * * * *** *
134703 TGCTCTTTGAGGACT--AAAGGGCGA--AA--GGAG-GGAGC-GT--CCTGC-TCTT
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGG-GCTTTAAAAGGCGTC-C
***** * ** * *** * *** ** *
134749 TGAGGACTG-GGA-AGCG-CCA--CCAAC-TTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACTG-GAAAATGCCACCAACTTGTGTGGGCT----TTAAAAGGCGTCC
** * * *
134803 TGCTCTTTGAGGACT-GAAGGTGCCACTAGCTTATGTGGGCTTTAAAAGAAAAAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCC
*** *
134863 TGCTCTTTGAGGACTGGAGGGTGCCACCAACTTTTGTGGGCTTTAAAAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
* *
134918 TGCTCTTTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCC
1 TGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCC
* *
134979 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
* *
135034 TGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
* * *
135089 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTGAAAGGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
* * *
135144 TGCTCTTTAAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 TGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT
135188 GAATGAACAA
Statistics
Matches: 561, Mismatches: 102, Indels: 100
0.74 0.13 0.13
Matches are distributed among these distances:
44 2 0.00
45 5 0.01
46 6 0.01
47 2 0.00
48 4 0.01
49 4 0.01
51 2 0.00
52 1 0.00
53 6 0.01
54 63 0.11
55 268 0.48
57 3 0.01
58 7 0.01
59 3 0.01
60 25 0.04
61 147 0.26
62 9 0.02
63 3 0.01
66 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (55 bp):
TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCC
Found at i:134925 original size:55 final size:55
Alignment explanation
Indices: 134739--135187 Score: 499
Period size: 55 Copynumber: 7.9 Consensus size: 55
134729 GGAGGGAGCG
* *
134739 TCCTGCTCTTTGAGGACTGGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCA
* * * * *
134800 TCCTGCTCTTTGAGGACT-GAAGGTGCCACTAGCTTATGTGGGCTTTAAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCA
** * *
134860 TCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTTTTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* *
134915 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT------AAAAGGCA
* *
134976 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* *
135031 TCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * *
135086 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* *
135141 TCCTGCTCTTTAAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT
135188 GAATGAACAA
Statistics
Matches: 349, Mismatches: 29, Indels: 26
0.86 0.07 0.06
Matches are distributed among these distances:
54 7 0.02
55 196 0.56
60 52 0.15
61 90 0.26
62 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
Found at i:135004 original size:116 final size:115
Alignment explanation
Indices: 134736--135187 Score: 594
Period size: 116 Copynumber: 3.9 Consensus size: 115
134726 AAAGGAGGGA
* **
134736 GCGTCCTGCTCTTTGAGGACTGGGAAGCGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT------AAAAGGCAT
* * * *
134801 CCTGCTCTTTGAGGACTG-AAGGTGCCACTAGCTTATGTGGGCTTTAAAAGAAAAAG
60 CCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG-AAAAG
*** * *
134857 GCGTCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTTTTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
* *
134922 CTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAG
66 CTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG
*
134973 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
*
135038 CTTTAAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-----AAAAG
66 CTTTAAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
* * *
135083 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTCTGTGGGCTTTGAAAGGCATCCTGCT
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
*
135148 CTTTAAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTT
66 CTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
135188 GAATGAACAA
Statistics
Matches: 304, Mismatches: 23, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
109 4 0.01
110 101 0.33
115 26 0.09
116 119 0.39
117 9 0.03
121 45 0.15
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (115 bp):
GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCT
CTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAG
Found at i:135351 original size:21 final size:21
Alignment explanation
Indices: 135325--135366 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
135315 GTATTGATAC
*
135325 AATGTATCGATACATTTCCTT
1 AATGTATCGAAACATTTCCTT
135346 AATGTATCGAAACATTTCCTT
1 AATGTATCGAAACATTTCCTT
135367 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (21 bp):
AATGTATCGAAACATTTCCTT
Found at i:135426 original size:32 final size:32
Alignment explanation
Indices: 135385--135455 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
135375 CTTCGTAGCG
* *
135385 ATACATTGTATCTATATAAAACTTATGTATCC
1 ATACATTGTATCGATACAAAACTTATGTATCC
* *
135417 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAAAACTTATGTATCC
135449 ATACATT
1 ATACATT
135456 TACTGTTTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (32 bp):
ATACATTGTATCGATACAAAACTTATGTATCC
Found at i:140897 original size:13 final size:13
Alignment explanation
Indices: 140879--140906 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
140869 ATACAAAGAT
140879 CAATGTATCGATA
1 CAATGTATCGATA
140892 CAATGTATCGATA
1 CAATGTATCGATA
140905 CA
1 CA
140907 TTGGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:140983 original size:19 final size:18
Alignment explanation
Indices: 140959--141015 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
140949 AGCGGTACAT
140959 TGTATCGATACAACACTTA
1 TGTATCGATACAACA-TTA
140978 TGTATCGAT---ACA-T-
1 TGTATCGATACAACATTA
140991 TGTATCGATACAACATTTA
1 TGTATCGATACAACA-TTA
141010 TGTATC
1 TGTATC
141016 ATTACAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.28
14 1 0.03
16 6 0.19
18 1 0.03
19 15 0.47
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (18 bp):
TGTATCGATACAACATTA
Found at i:140995 original size:32 final size:32
Alignment explanation
Indices: 140954--141015 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
140944 TTCGTAGCGG
140954 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
140986 TACATTGTATCGATACAACATTTATGTATC
1 TACATTGTATCGATACAACACTTATGTATC
141016 ATTACAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:140996 original size:13 final size:13
Alignment explanation
Indices: 140978--141002 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
140968 ACAACACTTA
140978 TGTATCGATACAT
1 TGTATCGATACAT
140991 TGTATCGATACA
1 TGTATCGATACA
141003 ACATTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:141043 original size:22 final size:19
Alignment explanation
Indices: 140958--141044 Score: 53
Period size: 19 Copynumber: 4.7 Consensus size: 19
140948 TAGCGGTACA
*
140958 TTGTATCGATACAACACTT
1 TTGTATCGATACAACATTT
*
140977 ATGTATCGAT---ACA---
1 TTGTATCGATACAACATTT
140990 TTGTATCGATACAACATTT
1 TTGTATCGATACAACATTT
* *
141009 ATGTATC-ATTACAATTACTTGT
1 TTGTATCGA-TACAA-CA-TT-T
141031 TTGTATCGATACAA
1 TTGTATCGATACAA
141045 ATTGTTGAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 19
0.68 0.07 0.25
Matches are distributed among these distances:
13 9 0.17
16 6 0.12
18 1 0.02
19 20 0.38
20 1 0.02
21 2 0.04
22 12 0.23
23 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACAACATTT
Found at i:141943 original size:49 final size:49
Alignment explanation
Indices: 141754--142243 Score: 459
Period size: 49 Copynumber: 10.3 Consensus size: 49
141744 ATATGCGGCT
* * * * * *
141754 AGCGATATTGGGCTCAAAGATGCGAAGAATGACAATGTGTTGATTCATGGCC
1 AGCGATATTGGACTTAAAGAT--GAAG-ATGCCAATATGCTGATTCAAGGCC
* * * * * **
141806 AGCGACATTAGACTTGAAGAAG-A-ATGCCAATGTGCTGAGACAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* * * * *
141853 AGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCT
1 AGCGATATTGGACTTA--AA-GATGAAGATGCCAATATGCTGATTCAAGGCC
* ** * *
141905 AACGATATCAGACTTAAAGATGAAGATACCAATGTGCTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* *
141954 GGTGATATTGGACTT-AA-A-G--G-TGCCAATATGCTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
141997 AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
*
142046 AGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* * *
142095 A-CTGATATTGGACTAAAAGATGAAGATACCAATCTGCTGATTCAAGGCC
1 AGC-GATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* *
142144 AGCGACATTGG--TTTAA-A-G--G-TGCCAATATGCTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* *
142186 AGTGATATTGG--TTTAA-A-G--G-TGCCAATATGCTGATTCAAGGCC
1 AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
142228 AGCGATATTGGACTTA
1 AGCGATATTGGACTTA
142244 GAAAAAGATG
Statistics
Matches: 370, Mismatches: 53, Indels: 38
0.80 0.11 0.08
Matches are distributed among these distances:
42 71 0.19
43 35 0.09
44 5 0.01
45 2 0.01
46 3 0.01
47 36 0.10
48 4 0.01
49 162 0.44
50 5 0.01
51 1 0.00
52 46 0.12
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.25
Consensus pattern (49 bp):
AGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
Found at i:142035 original size:92 final size:92
Alignment explanation
Indices: 141875--142243 Score: 459
Period size: 92 Copynumber: 4.0 Consensus size: 92
141865 CTTAGGAATG
* * * ** *
141875 TTAAAGATGCCAATATGCTGATTCAAGGCTAACGATATCAGACTTAAAGATGAAGATACCAATGT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATAT
* *
141940 GCTGATTCAAGGCCGGTGATATTGGAC
66 GCTGATTCAAGGCCAGCGATATTGGAC
*
141967 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATAT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATAT
142032 GCTGATTCAAGGCCAGCGATATTGGAC
66 GCTGATTCAAGGCCAGCGATATTGGAC
* *
142059 TTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA-CTGATATTGGACTAAAAGATGAAGATA
1 TT-AA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGC-GATATTGGACTTAAAGATGAAGATA
* * *
142123 CCAATCTGCTGATTCAAGGCCAGCGACATTGG-T
59 CCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
142156 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGG--TTTAA-A-G--G-TGCCAATAT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATAT
142214 GCTGATTCAAGGCCAGCGATATTGGAC
66 GCTGATTCAAGGCCAGCGATATTGGAC
142241 TTA
1 TTA
142244 GAAAAAGATG
Statistics
Matches: 245, Mismatches: 23, Indels: 25
0.84 0.08 0.09
Matches are distributed among these distances:
84 31 0.13
85 4 0.02
87 1 0.00
88 1 0.00
89 3 0.01
91 31 0.13
92 86 0.35
93 2 0.01
94 2 0.01
95 2 0.01
96 2 0.01
97 4 0.02
98 76 0.31
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (92 bp):
TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATACCAATAT
GCTGATTCAAGGCCAGCGATATTGGAC
Found at i:142052 original size:141 final size:145
Alignment explanation
Indices: 141786--142193 Score: 437
Period size: 141 Copynumber: 2.9 Consensus size: 145
141776 CGAAGAATGA
* * * * ** * * **
141786 CAATGTGTTGATTCATGGCCAGC-GACATTAGACTTGAAGAAGA-ATGCCAATGTGCTGAGACAA
1 CAATGTGCTGATTCAAGGCCA-CTGATATTGGACTAAAAGATGAGATGCCAATATGCTGATTCAA
* * * *
141849 GGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCTAACGATATC
65 GGCCAGCGACATT-GGCTTA--AA-GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATC
141914 AGACTTAAAGATGAAGATAC
126 AGACTTAAAGATGAAGATAC
** *
141934 CAATGTGCTGATTCAAGGCCGGTGATATTGGACT-TAA-A-G-G-TGCCAATATGCTGATTCAAG
1 CAATGTGCTGATTCAAGGCCACTGATATTGGACTAAAAGATGAGATGCCAATATGCTGATTCAAG
* **
141994 GCCAGCGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
66 GCCAGCGACATTGG-CTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATCAGAC
*
142059 TTAAAGATGAAGATGC
130 TTAAAGATGAAGATAC
* *
142075 CAATGTGCTGATTCAAGGCCACTGATATTGGACTAAAAGATGAAGATACCAATCTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCACTGATATTGGACTAAAAGATG-AGATGCCAATATGCTGATTCAA
* *
142140 GGCCAGCGACATTGG-TTTAA-A-G--G-TGCCAATATGCTGATTCAAGGCCAGTGATAT
65 GGCCAGCGACATTGGCTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATAT
142194 TGGTTTAAAG
Statistics
Matches: 225, Mismatches: 26, Indels: 26
0.81 0.09 0.09
Matches are distributed among these distances:
140 30 0.13
141 86 0.38
142 4 0.02
143 4 0.02
144 34 0.15
145 5 0.02
146 2 0.01
147 33 0.15
148 27 0.12
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (145 bp):
CAATGTGCTGATTCAAGGCCACTGATATTGGACTAAAAGATGAGATGCCAATATGCTGATTCAAG
GCCAGCGACATTGGCTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATCAGACT
TAAAGATGAAGATAC
Done.