Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 116 of 378
Found at i:32412168 original size:23 final size:23
Alignment explanation
Indices: 32412135--32412212 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
32412125 TTTTGAGTAT
32412135 TGTGA-TATATGCTTAAATGTTA
1 TGTGATTATATGCTTAAATGTTA
* *
32412157 TGTGATTATATG-TTATATGAGTA
1 TGTGATTATATGCTTAAATG-TTA
* * *
32412180 T-TGTTATATATGCTTGAATGTTG
1 TGTGAT-TATATGCTTAAATGTTA
32412203 TGTGATTATA
1 TGTGATTATA
32412213 AGATAATTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
22 14 0.33
23 21 0.49
24 8 0.19
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (23 bp):
TGTGATTATATGCTTAAATGTTA
Found at i:32412171 original size:15 final size:15
Alignment explanation
Indices: 32412151--32412188 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
32412141 ATATGCTTAA
* *
32412151 ATGTTATGTGATTAT
1 ATGTTATATGAGTAT
32412166 ATGTTATATGAGTAT
1 ATGTTATATGAGTAT
32412181 -TGTTATAT
1 ATGTTATAT
32412189 ATGCTTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (15 bp):
ATGTTATATGAGTAT
Found at i:32419957 original size:31 final size:31
Alignment explanation
Indices: 32419918--32419986 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
32419908 CCGCACAGAC
*
32419918 AATG-ACTTAAATTTCTGTTCTGATGAGTTT
1 AATGAACTTAAATATCTGTTCTGATGAGTTT
32419948 AATGAACTTAAATATCTGTTCTGATGAGTTT
1 AATGAACTTAAATATCTGTTCTGATGAGTTT
32419979 AATGAACT
1 AATGAACT
32419987 ATACAAGTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AATGAACTTAAATATCTGTTCTGATGAGTTT
Found at i:32423847 original size:51 final size:49
Alignment explanation
Indices: 32423724--32423827 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
32423714 GTACATAATA
* *
32423724 ATATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
*
32423773 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
32423822 ATATAT
1 ATATAT
32423828 ATGTGGTAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
Found at i:32423951 original size:37 final size:37
Alignment explanation
Indices: 32423910--32423982 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
32423900 TTTCGGGTGA
32423910 GACCCGATGACTACGTGTGAAGATTATGTCCGGGTAC
1 GACCCGATGACTACGTGTGAAGATTATGTCCGGGTAC
*
32423947 GACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 GACCCGATGACTACGTGTGAAGATTATGTCCGGGTA
32423983 AGACTTCGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
GACCCGATGACTACGTGTGAAGATTATGTCCGGGTAC
Found at i:32426512 original size:14 final size:14
Alignment explanation
Indices: 32426493--32426519 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32426483 CATGATAAAA
32426493 TAAAATACAAGTGG
1 TAAAATACAAGTGG
32426507 TAAAATACAAGTG
1 TAAAATACAAGTG
32426520 TGCAAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:32432344 original size:25 final size:25
Alignment explanation
Indices: 32432310--32432358 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
32432300 GCTATATGAA
32432310 AGTTTGCAAAAATAAATCCGCCAAT
1 AGTTTGCAAAAATAAATCCGCCAAT
*
32432335 AGTTTGCAAAAATAAATCTGCCAA
1 AGTTTGCAAAAATAAATCCGCCAA
32432359 GTGCGAGTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.24
Consensus pattern (25 bp):
AGTTTGCAAAAATAAATCCGCCAAT
Found at i:32435458 original size:39 final size:39
Alignment explanation
Indices: 32435408--32435571 Score: 213
Period size: 39 Copynumber: 4.2 Consensus size: 39
32435398 TATGAGATTG
*
32435408 AAAATATCCGAACATGAGGTCCGCAGGCTATATGCTGAA
1 AAAATATCCGAACATGAGATCCGCAGGCTATATGCTGAA
*
32435447 AAAATATCCGAACATGAGATCCGCAGGCTATATGCTGTA
1 AAAATATCCGAACATGAGATCCGCAGGCTATATGCTGAA
32435486 AAAATATCCGAACATGAGATCCGCAGGCTATATGCT-AGA
1 AAAATATCCGAACATGAGATCCGCAGGCTATATGCTGA-A
* * * * * * ** *
32435525 AATATATCCGGACTTAAGGTCCGCAAGCTACGTGCTGGA
1 AAAATATCCGAACATGAGATCCGCAGGCTATATGCTGAA
32435564 AAAATATC
1 AAAATATC
32435572 TGGGTTAAAG
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (39 bp):
AAAATATCCGAACATGAGATCCGCAGGCTATATGCTGAA
Found at i:32439960 original size:16 final size:16
Alignment explanation
Indices: 32439941--32439976 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
32439931 GCATTTATGA
*
32439941 ATTTAAGGATTTACGG
1 ATTTAAGAATTTACGG
*
32439957 ATTTACGAATTTACGG
1 ATTTAAGAATTTACGG
32439973 ATTT
1 ATTT
32439977 TCTACAAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (16 bp):
ATTTAAGAATTTACGG
Found at i:32444892 original size:104 final size:103
Alignment explanation
Indices: 32444716--32444924 Score: 337
Period size: 104 Copynumber: 2.0 Consensus size: 103
32444706 GTTTTCAATA
32444716 AAGCTTCTAATAAAAGTGATATATTCTTATTAATTAAAGAACTAAAATTAAATAGAAAAAAGAGT
1 AAGCTTCTAATAAAAGTGATATATTCTTATTAATTAAAGAACTAAAATTAAATAGAAAAAAGAGT
* * *
32444781 CTTAATCCTAATTAAGAAAATAATTCTCTTATTCTAAT
66 ATTAATCCTAAATAAGAAAATAATTCCCTTATTCTAAT
* * * *
32444819 AAGCTTCTAATAAAAGTGATATATCTTTTATTAATTAAAGAACTGAACTTAAATAGAGAAAAGAG
1 AAGCTTCTAATAAAAGTGATATAT-TCTTATTAATTAAAGAACTAAAATTAAATAGAAAAAAGAG
*
32444884 TATTAATCCTAAATGAGAAAATAATTCCCTTATTCTAAT
65 TATTAATCCTAAATAAGAAAATAATTCCCTTATTCTAAT
32444923 AA
1 AA
32444925 ACTACTAAAA
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
103 24 0.25
104 73 0.75
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (103 bp):
AAGCTTCTAATAAAAGTGATATATTCTTATTAATTAAAGAACTAAAATTAAATAGAAAAAAGAGT
ATTAATCCTAAATAAGAAAATAATTCCCTTATTCTAAT
Found at i:32444959 original size:40 final size:41
Alignment explanation
Indices: 32444899--32444980 Score: 130
Period size: 40 Copynumber: 2.0 Consensus size: 41
32444889 ATCCTAAATG
* *
32444899 AGAAAATAATTCCCTTATTCTAATAAACTACTAAAATATAA
1 AGAAAATAATTCCCTTATTCTAATAAACTACAAAAAGATAA
*
32444940 AGAAAAT-ATTCTCTTATTCTAATAAACTACAAAAAGATAA
1 AGAAAATAATTCCCTTATTCTAATAAACTACAAAAAGATAA
32444980 A
1 A
32444981 ATATAATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 31 0.82
41 7 0.18
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.30
Consensus pattern (41 bp):
AGAAAATAATTCCCTTATTCTAATAAACTACAAAAAGATAA
Found at i:32445048 original size:18 final size:19
Alignment explanation
Indices: 32445002--32445049 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
32444992 TTAAAATATG
32445002 AATAAAATTTATCTACCTA
1 AATAAAATTTATCTACCTA
32445021 AATAAAATTTATCTACCTA
1 AATAAAATTTATCTACCTA
32445040 AAT-AAATTTA
1 AATAAAATTTA
32445050 AAATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 7 0.24
19 22 0.76
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAAAATTTATCTACCTA
Found at i:32445761 original size:31 final size:31
Alignment explanation
Indices: 32445718--32445777 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
32445708 TTTTATTTAA
* *
32445718 AAAATAATAAATTAATTTTTATATGTTAAATT
1 AAAATAATAAATTAATCTTTA-ATATTAAATT
32445750 AAAA-AATAAATTAATCTTTAATATTAAA
1 AAAATAATAAATTAATCTTTAATATTAAA
32445778 AATTTTATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 7 0.27
31 15 0.58
32 4 0.15
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (31 bp):
AAAATAATAAATTAATCTTTAATATTAAATT
Found at i:32449357 original size:9 final size:10
Alignment explanation
Indices: 32449333--32449393 Score: 50
Period size: 11 Copynumber: 5.7 Consensus size: 10
32449323 CCAAAAGTCC
32449333 TCTCATAATTT
1 TCTCA-AATTT
*
32449344 TTTCTAAATTT
1 TCTC-AAATTT
*
32449355 TCTCCAAATTC
1 TCT-CAAATTT
32449366 TCTCAAATTTT
1 TCTCAAA-TTT
* *
32449377 TATCATATTT
1 TCTCAAATTT
32449387 TCTCAAA
1 TCTCAAA
32449394 GCTCTCTTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
10 12 0.31
11 25 0.64
12 2 0.05
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.51
Consensus pattern (10 bp):
TCTCAAATTT
Found at i:32449400 original size:32 final size:32
Alignment explanation
Indices: 32449332--32449409 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 32
32449322 CCCAAAAGTC
*
32449332 CTCTCATAATTTTTTCTAAATTTTCTCCAAATT
1 CTCTCA-AATTTTTTCTAAATTTTCTCCAAACT
*
32449365 CTCTCAAATTTTTATC-ATATTTTCT-CAAAGCT
1 CTCTCAAATTTTT-TCTAAATTTTCTCCAAA-CT
**
32449397 CTCTTTAATTTTT
1 CTCTCAAATTTTT
32449410 GCAAAAAAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
31 4 0.10
32 27 0.69
33 8 0.21
ACGTcount: A:0.26, C:0.21, G:0.01, T:0.53
Consensus pattern (32 bp):
CTCTCAAATTTTTTCTAAATTTTCTCCAAACT
Found at i:32450560 original size:30 final size:30
Alignment explanation
Indices: 32450517--32450590 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
32450507 AGAAGGGATG
* *
32450517 ATCACGCGAGCCCATCAATAGCGTCCACACA
1 ATCAC-CGAGCCCATCAACAGCATCCACACA
* *
32450548 ATCACCGGGCCCATTAACAGCATCCACACA
1 ATCACCGAGCCCATCAACAGCATCCACACA
* *
32450578 GTCACCGTGCCCA
1 ATCACCGAGCCCA
32450591 ACACTTCAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 32 0.86
31 5 0.14
ACGTcount: A:0.30, C:0.41, G:0.16, T:0.14
Consensus pattern (30 bp):
ATCACCGAGCCCATCAACAGCATCCACACA
Found at i:32454776 original size:31 final size:30
Alignment explanation
Indices: 32454735--32454795 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
32454725 TTTAAATTAA
*
32454735 TTAATTAGATAAATATTATTTTATTAATATT
1 TTAATGAGATAAATATTATTTT-TTAATATT
** *
32454766 TTAATGAGATATTTATTATTTTTTATTATT
1 TTAATGAGATAAATATTATTTTTTAATATT
32454796 ATTTATTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (30 bp):
TTAATGAGATAAATATTATTTTTTAATATT
Found at i:32456984 original size:46 final size:46
Alignment explanation
Indices: 32456931--32457158 Score: 323
Period size: 46 Copynumber: 5.0 Consensus size: 46
32456921 AGTGTGCTCT
32456931 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
32456977 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
32457023 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
32457069 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
32457115 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
32457159 TCATGTCAAA
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 165 0.99
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:32458374 original size:8 final size:7
Alignment explanation
Indices: 32458365--32458420 Score: 51
Period size: 7 Copynumber: 7.7 Consensus size: 7
32458355 AAACACAATA
32458365 AAACCTT
1 AAACCTT
32458372 AAACTCTT
1 AAAC-CTT
32458380 AGAACCTT
1 A-AACCTT
*
32458388 -AACCCT
1 AAACCTT
*
32458394 AAACCCT
1 AAACCTT
32458401 AAACCTT
1 AAACCTT
*
32458408 AAAACTTT
1 -AAACCTT
32458416 AAACC
1 AAACC
32458421 CTAATTTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 5 0.12
7 20 0.49
8 13 0.32
9 3 0.07
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.25
Consensus pattern (7 bp):
AAACCTT
Found at i:32458420 original size:29 final size:29
Alignment explanation
Indices: 32458365--32458424 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
32458355 AAACACAATA
* *
32458365 AAACCTTAAACTCTTAGAACCTTAACCCT
1 AAACCCTAAACTCTTAAAACCTTAACCCT
*
32458394 AAACCCTAAAC-CTTAAAACTTTAAACCCT
1 AAACCCTAAACTCTTAAAACCTT-AACCCT
32458423 AA
1 AA
32458425 TTTAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.25
Consensus pattern (29 bp):
AAACCCTAAACTCTTAAAACCTTAACCCT
Found at i:32458521 original size:22 final size:21
Alignment explanation
Indices: 32458488--32458529 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
32458478 TAATAGTTAA
32458488 TTTAATTAATTAACCCTAAAC
1 TTTAATTAATTAACCCTAAAC
32458509 TTTAATTTAATTAACCCTAAA
1 TTTAA-TTAATTAACCCTAAA
32458530 ACCCTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTAATTAATTAACCCTAAAC
Found at i:32458545 original size:180 final size:179
Alignment explanation
Indices: 32458238--32458758 Score: 711
Period size: 180 Copynumber: 2.9 Consensus size: 179
32458228 GACAGTGCAT
* * *
32458238 CCTAATTTAATTAATTAACCTTAAAAATCC-TAATCCCTAAATTAATTAATTTTTTTAAATTAAT
1 CCTAATTTAATTAATTAACCTTAAAAA-CCTTAAACCCTAATTTAATT--GTTTTTTAAATTAAT
* * * *
32458302 AGTTAATTTAATTAATTAACCCTAAACCCTAGTTTAATTAACCCTAAAATCATAAACACAATAAA
63 AGTTAATTTAATTAATTAACCCTAAACCTTAATTTAATTAACCCTAAAACCCTAAACACAATAAA
* *
32458367 ACCTTAAACTCTTAGAACCTTAACCCTAAACCCTAAACCTTAAAA-CTTTAAAC
128 ACCTTAAACTCTTAAAACCTTAACCCTAAACCCTAAACC-TAAAATC-CTAAAC
*
32458420 CCTAATTTAATTAATTAACCTTAAAAACCTTAAACCTTAATTTAATTGTTTTTTAAATTAATAGT
1 CCTAATTTAATTAATTAACCTTAAAAACCTTAAACCCTAATTTAATTGTTTTTTAAATTAATAGT
* *
32458485 TAATTTAATTAATTAACCCTAAACTTTAATTTAATTAACCCTAAAACCCTAAATACAATAAAACC
66 TAATTTAATTAATTAACCCTAAACCTTAATTTAATTAACCCTAAAACCCTAAACACAATAAAACC
*
32458550 TTAAACTCTTAAAACCTTAACCCT--A----AAATCTAAAATCCTAAAC
131 TTAAACTCTTAAAACCTTAACCCTAAACCCTAAACCTAAAATCCTAAAC
*
32458593 CCTGATTTAATTAATTAACCTTAAAAA-CTCTAAACCCTAATTTAATTGATTTTTTAAAATTAAT
1 CCTAATTTAATTAATTAACCTTAAAAACCT-TAAACCCTAATTTAATTG-TTTTTT-AAATTAAT
* * * * **
32458657 GGTTAATTTAATTAATTAACCTTAAACCTTAATTTAATTAACCTTTAAACCCTAAACACAA-CGA
63 AGTTAATTTAATTAATTAACCCTAAACCTTAATTTAATTAACCCTAAAACCCTAAACACAATAAA
32458721 ACTCTTAAACTCTTAAAACCTTAACCCTAAACCCTAAA
128 AC-CTTAAACTCTTAAAACCTTAACCCTAAACCCTAAA
32458759 ATCCCAAATC
Statistics
Matches: 304, Mismatches: 23, Indels: 25
0.86 0.07 0.07
Matches are distributed among these distances:
172 2 0.01
173 53 0.17
174 14 0.05
175 88 0.29
177 1 0.00
178 1 0.00
180 99 0.33
181 5 0.02
182 41 0.13
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (179 bp):
CCTAATTTAATTAATTAACCTTAAAAACCTTAAACCCTAATTTAATTGTTTTTTAAATTAATAGT
TAATTTAATTAATTAACCCTAAACCTTAATTTAATTAACCCTAAAACCCTAAACACAATAAAACC
TTAAACTCTTAAAACCTTAACCCTAAACCCTAAACCTAAAATCCTAAAC
Found at i:32458576 original size:22 final size:22
Alignment explanation
Indices: 32458545--32458595 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
32458535 AAATACAATA
* *
32458545 AAACCTTAAACTCTTAAAA-CCT
1 AAACCCTAAAATC-TAAAATCCT
*
32458567 TAACCCTAAAATCTAAAATCCT
1 AAACCCTAAAATCTAAAATCCT
32458589 AAACCCT
1 AAACCCT
32458596 GATTTAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.25
Consensus pattern (22 bp):
AAACCCTAAAATCTAAAATCCT
Found at i:32458695 original size:22 final size:22
Alignment explanation
Indices: 32458664--32458707 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
32458654 AATGGTTAAT
32458664 TTAATTAATTAACC-TTAAACC
1 TTAATTAATTAACCTTTAAACC
32458685 TTAATTTAATTAACCTTTAAACC
1 TTAA-TTAATTAACCTTTAAACC
32458708 CTAAACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.19
22 10 0.48
23 7 0.33
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (22 bp):
TTAATTAATTAACCTTTAAACC
Found at i:32458711 original size:175 final size:174
Alignment explanation
Indices: 32458238--32458762 Score: 709
Period size: 175 Copynumber: 3.0 Consensus size: 174
32458228 GACAGTGCAT
* * *
32458238 CCTAATTTAATTAATTAACCTTAAAAA-TCCTAATCCCTAAATTAATTAATTTTTTTAAATTAAT
1 CCTAATTTAATTAATTAACCTTAAAAACT-CTAAACCCTAATTTAATTGA-TTTTTTAAATTAAT
* * * *
32458302 AGTTAATTTAATTAATTAACCCTAAACCCTAGTTTAATTAACCCTAAAATCATAAACACAATAAA
64 AGTTAATTTAATTAATTAACCCTAAACCTTAATTTAATTAACCCTAAAACCCTAAACACAATAAA
* *
32458367 ACCTTAAACTCTTAGAACCTTAACCCTAAACCCTAAACCTTAAAA-CTTTAAAC
129 ACCTTAAACTCTTAAAACCTTAACCCT--A----AAACC-TAAAATC-CTAAAC
*
32458420 CCTAATTTAATTAATTAACCTTAAAAAC-CTTAAACCTTAATTTAATTG-TTTTTTAAATTAATA
1 CCTAATTTAATTAATTAACCTTAAAAACTC-TAAACCCTAATTTAATTGATTTTTTAAATTAATA
* *
32458483 GTTAATTTAATTAATTAACCCTAAACTTTAATTTAATTAACCCTAAAACCCTAAATACAATAAAA
65 GTTAATTTAATTAATTAACCCTAAACCTTAATTTAATTAACCCTAAAACCCTAAACACAATAAAA
*
32458548 CCTTAAACTCTTAAAACCTTAACCCTAAAATCTAAAATCCTAAAC
130 CCTTAAACTCTTAAAACCTTAACCCTAAAACCTAAAATCCTAAAC
* *
32458593 CCTGATTTAATTAATTAACCTTAAAAACTCTAAACCCTAATTTAATTGATTTTTTAAAATTAATG
1 CCTAATTTAATTAATTAACCTTAAAAACTCTAAACCCTAATTTAATTGATTTTTT-AAATTAATA
* * * **
32458658 GTTAATTTAATTAATTAACCTTAAACCTTAATTTAATTAACCTTTAAACCCTAAACACAA-CGAA
65 GTTAATTTAATTAATTAACCCTAAACCTTAATTTAATTAACCCTAAAACCCTAAACACAATAAAA
*
32458722 CTCTTAAACTCTTAAAACCTTAACCCTAAACCCTAAAATCC
130 C-CTTAAACTCTTAAAACCTTAACCCTAAAACCTAAAATCC
32458763 CAAATCAAGC
Statistics
Matches: 311, Mismatches: 25, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
173 54 0.17
174 15 0.05
175 100 0.32
178 1 0.00
180 99 0.32
181 1 0.00
182 41 0.13
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (174 bp):
CCTAATTTAATTAATTAACCTTAAAAACTCTAAACCCTAATTTAATTGATTTTTTAAATTAATAG
TTAATTTAATTAATTAACCCTAAACCTTAATTTAATTAACCCTAAAACCCTAAACACAATAAAAC
CTTAAACTCTTAAAACCTTAACCCTAAAACCTAAAATCCTAAAC
Found at i:32460147 original size:2 final size:2
Alignment explanation
Indices: 32460140--32460181 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
32460130 TGGAGCTCGA
32460140 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32460181 A
1 A
32460182 ATTAGGGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32469905 original size:18 final size:18
Alignment explanation
Indices: 32469889--32469952 Score: 101
Period size: 18 Copynumber: 3.6 Consensus size: 18
32469879 ATTCAGTAAT
*
32469889 AGTAAACAGTGCAGTAAC
1 AGTAAACAGTGCAGTATC
32469907 AGTAAACAGTGCAGTATC
1 AGTAAACAGTGCAGTATC
* *
32469925 AATAAACAGTGTAGTATC
1 AGTAAACAGTGCAGTATC
32469943 AGTAAACAGT
1 AGTAAACAGT
32469953 ATGCAAGTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (18 bp):
AGTAAACAGTGCAGTATC
Found at i:32472493 original size:2 final size:2
Alignment explanation
Indices: 32472486--32472512 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32472476 ACATTATTGT
32472486 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32472513 GAATTATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32475157 original size:39 final size:39
Alignment explanation
Indices: 32475103--32475223 Score: 233
Period size: 39 Copynumber: 3.1 Consensus size: 39
32475093 GAAACAAGAG
32475103 ATAGTAAAGAAATAATAATGAAAGCATGTAAAAATGGCT
1 ATAGTAAAGAAATAATAATGAAAGCATGTAAAAATGGCT
32475142 ATAGTAAAGAAATAATAATGAAAGCATGTAAAAATGGCT
1 ATAGTAAAGAAATAATAATGAAAGCATGTAAAAATGGCT
*
32475181 ATAGTAAAGAAATAATAATGAAAGCATGTAAAAATAGCT
1 ATAGTAAAGAAATAATAATGAAAGCATGTAAAAATGGCT
32475220 ATAG
1 ATAG
32475224 AAGCAAAGCC
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.23
Consensus pattern (39 bp):
ATAGTAAAGAAATAATAATGAAAGCATGTAAAAATGGCT
Found at i:32476057 original size:3 final size:3
Alignment explanation
Indices: 32476049--32476113 Score: 60
Period size: 3 Copynumber: 21.7 Consensus size: 3
32476039 CTTTATTAAA
* * * *
32476049 TAT TAT TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT CAC TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
32476094 CAT TAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TA
32476114 GTGTATATTT
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
2 1 0.02
3 47 0.98
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:32476071 original size:21 final size:21
Alignment explanation
Indices: 32476047--32476107 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
32476037 TTCTTTATTA
*
32476047 AATATTATTATTATTATTTCT
1 AATATTATTATTATTATTACT
* *
32476068 AATATTATTAATATTATCACT
1 AATATTATTATTATTATTACT
* *
32476089 ATTATCATTATTATTATTA
1 AATATTATTATTATTATTA
32476108 ATATTAGTGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (21 bp):
AATATTATTATTATTATTACT
Found at i:32476112 original size:21 final size:20
Alignment explanation
Indices: 32476041--32476113 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
32476031 TTTCGTTTCT
32476041 TTATTAAATATTATTATTATTA
1 TTATT-AATATTA-TATTATTA
*
32476063 TT-TCTAATA-T-TATTAATA
1 TTAT-TAATATTATATTATTA
* *
32476081 TTATCACTATTATCATTATTA
1 TTATTAATATTAT-ATTATTA
32476102 TTATTAATATTA
1 TTATTAATATTA
32476114 GTGTATATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
18 12 0.30
19 2 0.05
20 2 0.05
21 21 0.52
22 3 0.08
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTAATATTATATTATTA
Found at i:32476132 original size:21 final size:22
Alignment explanation
Indices: 32476097--32476142 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
32476087 CTATTATCAT
32476097 TATTATTATTAATAT-TAGTGTA
1 TATTATTATTAATATGTA-TGTA
*
32476119 TATTTTTATT-ATATGTATGTA
1 TATTATTATTAATATGTATGTA
32476140 TAT
1 TAT
32476143 GTATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (22 bp):
TATTATTATTAATATGTATGTA
Found at i:32476250 original size:80 final size:80
Alignment explanation
Indices: 32476166--32476406 Score: 251
Period size: 69 Copynumber: 3.1 Consensus size: 80
32476156 TACATAGTAT
32476166 TATTTTTAATTACTTTATTTTAATATTTTTATTATATTGTATTGGTTTTTTGTATTTCAATATTA
1 TATTTTTAATTACTTTATTTTAATATTTTTATTATATTGTATTGGTTTTTTGTATTTCAATATTA
32476231 TTACTATTATTATTA
66 TTACTATTATTATTA
* * * *
32476246 TATTTTT-ATTA-TATATTAGTGT-ATATTTTTATTATA---TA-T-G-TATATGTATAT--ATA
1 TATTTTTAATTACTTTATT--T-TAATATTTTTATTATATTGTATTGGTTTTTTGTATTTCAATA
*
32476300 -T-TTA-TATATAGTATTA
63 TTATTACTAT-TATTATTA
*
32476316 T-TTTTTAATTACTTTATTTTAATATTTTTATTATATTGTATTTGCTTTTTTGTATTTCAATATT
1 TATTTTTAATTACTTTATTTTAATATTTTTATTATATTGTA-TTGGTTTTTTGTATTTCAATATT
32476380 ATTACTACTATTATTATTA
65 A-T--TACTATTATTATTA
32476399 TATTTTTA
1 TATTTTTA
32476407 TTATATATTA
Statistics
Matches: 127, Mismatches: 11, Indels: 42
0.71 0.06 0.23
Matches are distributed among these distances:
68 1 0.01
69 23 0.18
70 15 0.12
71 6 0.05
72 5 0.04
74 9 0.07
75 1 0.01
76 9 0.07
77 2 0.02
78 8 0.06
79 5 0.04
80 22 0.17
81 2 0.02
83 10 0.08
84 9 0.07
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (80 bp):
TATTTTTAATTACTTTATTTTAATATTTTTATTATATTGTATTGGTTTTTTGTATTTCAATATTA
TTACTATTATTATTA
Found at i:32476254 original size:23 final size:22
Alignment explanation
Indices: 32476228--32476906 Score: 99
Period size: 24 Copynumber: 29.8 Consensus size: 22
32476218 TATTTCAATA
32476228 TTATTACTATTATTATTATATTT
1 TTATTA-TATTATTATTATATTT
32476251 TTATTATA-TATTAGTGTATATTT
1 TTATTATATTATTA-T-TATATTT
*
32476274 TTATTATATATGTATATGTATATATAT
1 TTATTATAT-TAT-TAT-TATAT-T-T
*
32476301 TTA-TATA-TAGTATTAT-TTT
1 TTATTATATTATTATTATATTT
32476320 TTAATTACT-TTATT-TTAATATTT
1 TT-ATTA-TATTATTATT-ATATTT
** *
32476343 TTATTATATTGTATT-TGCTTTTT
1 TTATTATA-T-TATTATTATATTT
* *
32476366 TGTATTTCAATATTATTACTACTATTA
1 T-TA-TT--ATATTATTATTA-TATTT
* *
32476393 TTATTATATTTTTATTATA-TA
1 TTATTATATTATTATTATATTT
* *
32476414 TTAGTGTATT-TT-TT-TATTAT
1 TTATTATATTATTATTATATT-T
*
32476434 ATATGTATATGTA-TA-TATATTT
1 TTAT-TATAT-TATTATTATATTT
* *
32476456 ATATATAGTATTATTCTTTATTACTTT
1 TTAT-TA-TATTATT-ATTA-TA-TTT
*
32476483 GTT-TTAATATTTTTATTATATTGACT
1 -TTATT-ATATTATTATTATATT---T
* * *
32476509 TT-TTGTA-T-TTA-AATATTA
1 TTATTATATTATTATTATATTT
*
32476527 TTA-T-TATTATTATTATTATTA
1 TTATTATATTATTATTA-TATTT
*
32476548 TTATTATTATTATTATTATA-TA
1 TTATTA-TATTATTATTATATTT
**
32476570 TTAGTGTATACTT-TTATTATATAC
1 TTA-T-TATA-TTATTATTATATTT
* *
32476594 GTA-TAT-GTA-TATGTATATTT
1 TTATTATATTATTAT-TATATTT
* * *
32476614 ATA-TATAGTATTATT-T-TTA
1 TTATTATATTATTATTATATTT
32476633 TTACTT-TATT-TTA--ATATTT
1 TTA-TTATATTATTATTATATTT
* * *
32476652 TTATTATATTTGCTTTTTGTA-TT
1 TTATTATA-TT-ATTATTATATTT
* * * *
32476675 TCAATATTATTACTATTATCATTA
1 TTATTA-TATTATTATTAT-ATTT
*
32476699 TTATTATTAATATTAGTGTATA-TT
1 TTATTA-TATTATTA-T-TATATTT
32476723 TTATTATA-TATGTATGTATACGTATAT
1 TTATTATATTAT-TAT-TATA--T-T-T
* * *
32476750 ATATTTATACATAGTATTAT-TTT
1 TTA-TTATA-TTATTATTATATTT
32476773 TTAATTACT-TTATT-TTAATATTT
1 TT-ATTA-TATTATTATT-ATATTT
*
32476796 TTATTATATTA-TATT-TGCTTT
1 TTATTATATTATTATTAT-ATTT
* *
32476817 TGTATT-TCAATATTATTATTATTA
1 T-TATTAT-ATTATTATTA-TATTT
*
32476841 TTATTATTATTATTATTATTATTA
1 TTATTA-TATTATTATTA-TATTT
*
32476865 TTATTATTATTATTATTATTATTA
1 TTATTA-TATTATTATTA-TATTT
32476889 TTATTATTATTATTATTA
1 TTATTA-TATTATTATTA
32476907 CTAGTGTATA
Statistics
Matches: 498, Mismatches: 64, Indels: 187
0.66 0.09 0.25
Matches are distributed among these distances:
17 2 0.00
18 9 0.02
19 27 0.05
20 24 0.05
21 55 0.11
22 78 0.16
23 100 0.20
24 115 0.23
25 31 0.06
26 24 0.05
27 19 0.04
28 9 0.02
29 3 0.01
30 2 0.00
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (22 bp):
TTATTATATTATTATTATATTT
Found at i:32476256 original size:14 final size:13
Alignment explanation
Indices: 32476237--32476571 Score: 69
Period size: 14 Copynumber: 24.9 Consensus size: 13
32476227 ATTATTACTA
32476237 TTATTATTATATTT
1 TTATTA-TATATTT
32476251 TTATTATATA---
1 TTATTATATATTT
* *
32476261 TTAGTGTATATTT
1 TTATTATATATTT
*
32476274 TTATTATATATGT
1 TTATTATATATTT
* *
32476287 ATATGTATATATAT
1 TTAT-TATATATTT
32476301 TTATATATAGTATTAT
1 TTAT-TATA-TATT-T
32476317 TT-TT-TA-ATTACT
1 TTATTATATATT--T
*
32476329 TTATTTTAATATTT
1 TTATTAT-ATATTT
32476343 TTATTATATTGTATTT
1 TTATTATA---TATTT
* *
32476359 GCTT-TTTTGTATTT
1 --TTATTATATATTT
* * *
32476373 CAATATTATTACTACTA
1 --TTATTA-TA-TATTT
32476390 TTATTATTATATTT
1 TTATTA-TATATTT
32476404 TTATTATATA---
1 TTATTATATATTT
* * *
32476414 TTAGTGTATTTTT
1 TTATTATATATTT
*
32476427 TTATTATATATGT
1 TTATTATATATTT
* *
32476440 ATATGTATATATAT
1 TTAT-TATATATTT
32476454 TTATATATAGTATTAT
1 TTAT-TATA-TATT-T
32476470 TCT-TTAT-TACTTT
1 T-TATTATATA-TTT
32476483 GTT-TTA-ATATTT
1 -TTATTATATATTT
32476495 TTATTATATTGACTTTT
1 TTATTATA-T-A--TTT
* *
32476512 TGTATT-TA-AATA
1 T-TATTATATATTT
*
32476524 TTATTAT-TATTA
1 TTATTATATATTT
*
32476536 TTATTAT-TATTA
1 TTATTATATATTT
*
32476548 TTATTAT-TATTA
1 TTATTATATATTT
32476560 TTATTATATATT
1 TTATTATATATT
32476572 AGTGTATACT
Statistics
Matches: 243, Mismatches: 39, Indels: 79
0.67 0.11 0.22
Matches are distributed among these distances:
10 15 0.06
11 9 0.04
12 46 0.19
13 52 0.21
14 65 0.27
15 22 0.09
16 15 0.06
17 13 0.05
18 6 0.02
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (13 bp):
TTATTATATATTT
Found at i:32476530 original size:3 final size:3
Alignment explanation
Indices: 32476522--32476906 Score: 174
Period size: 3 Copynumber: 129.7 Consensus size: 3
32476512 TGTATTTAAA
32476522 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
32476571 TAGT GTA- TACT T-T TAT TAT ATACG TA- TAT GTA- TAT GTA- TAT T-T
1 TA-T -TAT TA-T TAT TAT TAT -TA-T TAT TAT -TAT TAT -TAT TAT TAT
* * * * *
32476614 ATAT ATAG TAT TAT TTT TAT TAC T-T TAT T-T TAA TAT TTT TAT TA-
1 -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * * *
32476658 TAT T-T GCT T-T T-T GTAT T-T CAA TAT TAT TAC TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
32476700 TAT TAT TAA TAT TAGT GTA- TAT T-T TAT TAT ATAT GTAT GTA- TACG
1 TAT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT -TAT -TAT -TAT TA-T
* * *
32476745 TA- TAT ATAT T-T ATACA TAG TAT TAT T-T T-T TAAT TAC T-T TAT T-T
1 TAT TAT -TAT TAT -TA-T TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* * ** * * *
32476788 TAA TAT TTT TAT TA- TAT TA- TAT T-T GCT TTT GTAT T-T CAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
32476830 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32476878 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
32476907 CTAGTGTATA
Statistics
Matches: 298, Mismatches: 41, Indels: 86
0.70 0.10 0.20
Matches are distributed among these distances:
2 43 0.14
3 212 0.71
4 39 0.13
5 4 0.01
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:32476733 original size:22 final size:22
Alignment explanation
Indices: 32476697--32476742 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
32476687 CTATTATCAT
32476697 TATTATTATTAATAT-TAGTGTA
1 TATTATTATTAATATGTA-TGTA
32476719 TATT-TTATTATATATGTATGTA
1 TATTATTATTA-ATATGTATGTA
32476741 TA
1 TA
32476743 CGTATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.27
22 14 0.64
23 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.57
Consensus pattern (22 bp):
TATTATTATTAATATGTATGTA
Found at i:32476941 original size:12 final size:12
Alignment explanation
Indices: 32476924--32476954 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
32476914 ATATTTTTAT
32476924 TATATATGTATA
1 TATATATGTATA
32476936 TATATATGTATA
1 TATATATGTATA
*
32476948 TTTATAT
1 TATATAT
32476955 ATAGTACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (12 bp):
TATATATGTATA
Found at i:32490884 original size:77 final size:75
Alignment explanation
Indices: 32490738--32491036 Score: 370
Period size: 77 Copynumber: 4.0 Consensus size: 75
32490728 ATCCTGATAT
* * * * *
32490738 TTTTATTTCTGTTTTTC--AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTAGTTCTATTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGTCACA
*
32490801 CGCTGAGGCA
66 CGCTGAGGTA
* * ***
32490811 TCTTTAGTTCCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCA
1 T-TTTAGTT-CTATTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGTCA
* *
32490876 CGCACTGAGGTA
64 CACGCTGAGGTA
* **
32490888 TTTTCAATT-TACGTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGTCAC
1 TTTT-AGTTCTATTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGTCAC
*
32490952 ATGCTGAGGTA
65 ACGCTGAGGTA
*
32490963 TTTTTAGTTTCTATTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGACA
1 -TTTTAG-TTCTATTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGTCA
32491028 CACGCTGAG
64 CACGCTGAG
32491037 ATTTTCAATT
Statistics
Matches: 193, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
73 1 0.01
74 6 0.03
75 65 0.34
76 9 0.05
77 112 0.58
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (75 bp):
TTTTAGTTCTATTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGTCACA
CGCTGAGGTA
Found at i:32491036 original size:152 final size:150
Alignment explanation
Indices: 32490755--32491048 Score: 437
Period size: 152 Copynumber: 1.9 Consensus size: 150
32490745 TCTGTTTTTC
* * *
32490755 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGCATCTTTAGTT
1 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGCATCTTTAGTT
* * *
32490820 CCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACGCACTGAG
66 CCTATTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAAATCACACACTGA-
32490885 GTATTTTCAATTTACGTTTCAA
130 G-ATTTTCAATTTACGTTTCAA
* * *
32490907 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTTTTAGTT
1 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGCATCTTTAGTT
* ** *
32490972 TCTATTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGA-CACACGCTGA
66 CCTATTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTC-AAATCACACACTGA
32491036 GATTTTCAATTTA
130 GATTTTCAATTTA
32491049 TGTTCTTTTT
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
150 12 0.09
151 1 0.01
152 114 0.89
153 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (150 bp):
AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGCATCTTTAGTT
CCTATTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAAATCACACACTGAG
ATTTTCAATTTACGTTTCAA
Found at i:32491064 original size:77 final size:76
Alignment explanation
Indices: 32490755--32491097 Score: 313
Period size: 77 Copynumber: 4.5 Consensus size: 76
32490745 TCTGTTTTTC
* * * ***
32490755 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAG-GCATCTTTAGT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACGCTGAGATTTTCTTTAGT
32490819 TCCTATTTTTCAA
66 T-C-ATTTTTCAA
* ** * * * * * *
32490832 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AAATCACGCACTGAGGTATT-TTCAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGA-CACACGCTGAGATTTTCTTTAG
* **
32490895 TTTACGTTTCAA
65 TTCATTTTTCAA
* * * * *
32490907 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATT-TTTAGT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACGCTGAGATTTTCTTTAG-
32490971 TTCTATTTTTCAA
65 TTC-ATTTTTCAA
*
32490984 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGACACACGCTGAGATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACGCTGAGATTTTC--TTTA
32491049 TGTTC-TTTTTC-A
64 -GTTCATTTTTCAA
** *
32491061 AAAAATTGATTCATATTGCGAG-AGTTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCT
32491098 TTTAATCTCT
Statistics
Matches: 221, Mismatches: 35, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
75 59 0.27
76 4 0.02
77 143 0.65
78 7 0.03
80 7 0.03
81 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (76 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACGCTGAGATTTTCTTTAGT
TCATTTTTCAA
Found at i:32491228 original size:135 final size:133
Alignment explanation
Indices: 32490976--32491228 Score: 348
Period size: 133 Copynumber: 1.9 Consensus size: 133
32490966 TTAGTTTCTA
* * *
32490976 TTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGACACACGCTGAGATTT
1 TTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGACACACACTAAGATTT
* * * * *
32491041 TCAATTTATGTTCTTTTTCAAAAAATTGATTCATATTGCGAGAGTTGAGTTGAGCCTTTTAATCT
66 TCAATTTATGTTCTTTTTCAAAAAATTAACTCATAATCCGAGAGATGAGTTGAGCCTTTTAATCT
32491106 CTG
131 CTG
* * *
32491109 TTTTTCAAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAGGTCACACACTAAGGTAT
1 TTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGACACACACTAA-G-AT
*
32491174 TTTCAATTT-TTTTACTTTTTTC-AAAAATTAACTCATAATCCGAGAGATGAGTTGA
64 TTTCAATTTATGTT-C-TTTTTCAAAAAATTAACTCATAATCCGAGAGATGAGTTGA
32491229 ACGTCAGTTT
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
133 54 0.52
134 4 0.04
135 40 0.38
136 6 0.06
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (133 bp):
TTTTTCAAAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGACACACACTAAGATTT
TCAATTTATGTTCTTTTTCAAAAAATTAACTCATAATCCGAGAGATGAGTTGAGCCTTTTAATCT
CTG
Found at i:32492734 original size:12 final size:12
Alignment explanation
Indices: 32492699--32492765 Score: 53
Period size: 12 Copynumber: 5.0 Consensus size: 12
32492689 TTTCGTTTCT
32492699 TTATTAAATATTA
1 TTATT-AATATTA
**
32492712 TTATTTCTATTA
1 TTATTAATATTA
32492724 TTATTAATATTA
1 TTATTAATATTA
32492736 TCACTATTATCATCATTA
1 T---TATTA--AT-ATTA
32492754 TTATTAATATTA
1 TTATTAATATTA
32492766 GTGTATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
12 20 0.45
13 7 0.16
15 10 0.23
17 2 0.05
18 5 0.11
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.55
Consensus pattern (12 bp):
TTATTAATATTA
Found at i:32492784 original size:21 final size:22
Alignment explanation
Indices: 32492754--32492794 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
32492744 ATCATCATTA
32492754 TTATTAATAT-TAGTGTATATTT
1 TTATTAATATGTA-TGTATATTT
32492776 TTATT-ATATGTATGTATAT
1 TTATTAATATGTATGTATAT
32492795 GTATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (22 bp):
TTATTAATATGTATGTATATTT
Found at i:32492933 original size:23 final size:21
Alignment explanation
Indices: 32492881--32493600 Score: 123
Period size: 21 Copynumber: 33.8 Consensus size: 21
32492871 TATTTCAATA
32492881 TTATTACTATTATTATTATATTT
1 TTATTA-TA-TATTATTATATTT
32492904 TTAATTATATATTAGTGTATATTT
1 TT-ATTATATATTA-T-TATATTT
32492928 TTATTATATATGTATATGTATATATAT
1 TTATTATATA--T-TAT-TATAT-T-T
*
32492955 TTA-TATATAGTATTAT-TTT
1 TTATTATATATTATTATATTT
*
32492974 TTAATTACTTTATT-TTAATATTT
1 TT-ATTA-TATATTATT-ATATTT
**
32492997 TTATTATAT-TGTATT-TGCTT
1 TTATTATATAT-TATTATATTT
* * *
32493017 TT-TTGTA-ACTCA--ATATTA
1 TTATTATATA-TTATTATATTT
*
32493035 TTACTACTATTATTATTATATTT
1 TTATTA-TA-TATTATTATATTT
32493058 TTATTATATATTAGTGTAT-TTT
1 TTATTATATATTA-T-TATATTT
*
32493080 TTATTATATATGTA-TACGTATAT
1 TTATTATATAT-TATTA--TATTT
* * *
32493103 ATA-TATATATTTATATATAGTA
1 TTATTATATA-TTAT-TATATTT
*
32493125 TTATT-T-T-TTATTACTTTGTT
1 TTATTATATATTATTA-TAT-TT
* *
32493145 TTAATAT-TTTTATTATATTGGCT
1 TTATTATATATTATTATATT---T
* *
32493168 TT-TTGTAT-TTCA--ATATTA
1 TTATTATATATT-ATTATATTT
* *
32493186 TTACTAT-TATTATTATTATTA
1 TTATTATATATTATTA-TATTT
*
32493207 TTATTAT-TATTATTATTATTA
1 TTATTATATATTATTA-TATTT
*
32493228 TTATTATATTATTATTATA-TA
1 TTATTATA-TATTATTATATTT
* * * *
32493249 TTAGTGTATACT-TGATA-TT
1 TTATTATATATTATTATATTT
* * *
32493268 ATA-TACGTATATGTATATGTATAT
1 TTATTA--TATAT-TAT-TATATTT
*
32493292 TTA-TATATAGTATTAT-TTT
1 TTATTATATATTATTATATTT
*
32493311 TTATTAGTCTATT-TTAATATTT
1 TTATTA-TATATTATT-ATATTT
**
32493333 TTATTATAT-TTGCT-T-TTT
1 TTATTATATATTATTATATTT
* *
32493351 GTATT-TCAATATTATTACTATTA
1 TTATTAT--ATATTATTA-TATTT
*
32493374 TTATTAT-TATTA-T-TATTA
1 TTATTATATATTATTATATTT
32493392 TTATTA-ATATTAGTGTATATTT
1 TTATTATATATTA-T-TATATTT
**
32493414 TTATTATATATGTATGTATACAT
1 TTATTATATAT-TAT-TATATTT
* * * *
32493437 ATA-TATAT-TTATACATAGTA
1 TTATTATATATTAT-TATATTT
* *
32493457 TTATTTTTTAATTACTT-TATTT
1 TTATTATAT-ATTA-TTATATTT
*
32493479 TAATATTTTAT-TATATTATATTT
1 T--TATTATATAT-TATTATATTT
* * *
32493502 GCTT-TT-TGTATT-TCAATATTA
1 --TTATTATATATTAT-TATATTT
*
32493523 TTATTAT-TATTATTATTATTA
1 TTATTATATATTATTA-TATTT
*
32493544 TTATTAT-TATTATTATTATTA
1 TTATTATATATTATTA-TATTT
*
32493565 TTATTAT-TATTATTATTATTA
1 TTATTATATATTATTA-TATTT
32493586 TTATTAT-TATTATTA
1 TTATTATATATTATTA
32493601 ATACTAGTGT
Statistics
Matches: 529, Mismatches: 77, Indels: 184
0.67 0.10 0.23
Matches are distributed among these distances:
17 1 0.00
18 34 0.06
19 35 0.07
20 55 0.10
21 160 0.30
22 104 0.20
23 87 0.16
24 31 0.06
25 9 0.02
26 9 0.02
27 4 0.01
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (21 bp):
TTATTATATATTATTATATTT
Found at i:32492979 original size:150 final size:150
Alignment explanation
Indices: 32492740--32493571 Score: 841
Period size: 150 Copynumber: 5.3 Consensus size: 150
32492730 ATATTATCAC
* *
32492740 TATTATCATCATTATTATTA-ATATTAGTGTATATTTTTATTATATGTATGTATATGTATATATA
1 TATTATTAT-ATTTTTATTATATATTAGTGTATATTTTTATTATA-GTATGTATATGTATATATA
* *
32492804 TCTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTGTATTGGCTTTT
64 TTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTGTATTGGCTTTT
32492869 TGTATTTCAATATTATTACTAT
129 TGTATTTCAATATTATTACTAT
32492891 TATTATTATATTTTTAATTATATATTAGTGTATATTTTTATTATA-TATGTATATGTATATATAT
1 TATTATTATATTTTT-ATTATATATTAGTGTATATTTTTATTATAGTATGTATATGTATATATAT
*
32492955 TTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTGTATTTGCTTTTT
65 TTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTGTATTGGC-TTTT
**
32493020 TGTAACTCAATATTATTACTACTAT
129 TGTATTTCAATATTA-T--TACTAT
*
32493045 TATTATTATATTTTTATTATATATTAGTGTAT-TTTTTATTATATATGTATACGTATATATATAT
1 TATTATTATATTTTTATTATATATTAGTGTATATTTTTA-T-TATA-GTAT--GTATATGTATAT
*
32493109 ATATTTATATATAGTATTATTTTTT-ATTACTTTGTTTTAATATTTTTA-T-TA---TATTGGCT
61 ATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTGTATTGGCT
32493168 TTTTGTATTTCAATATTATTACTAT
126 TTTTGTATTTCAATATTATTACTAT
* * *
32493193 TATTATTATTATTATTATTATTATTATTA-T-TATTATTATTATATTATTATTATATATTAGTGT
1 TATTATTA-TATTTTTATTA-TA-TATTAGTGTA-TATT-TT-TATTA-TAGTATGTA-TA-TGT
*
32493256 ATACTTGATATTATATACGTATATGTA-TATGTATATTTATATATAGTATTATTTTTTATTAGTC
57 ATA--T-ATATT-TATA--TATA-GTATTAT-T-T-TTTA-AT-TACT-TTA--TTTTA--A---
* * *
32493320 TATTTTAATATTTTTATTATATTTGCTTTTTGTATTTCAATATTATTACTAT
102 TATTTT--TA-TTATATTGTATTGGCTTTTTGTATTTCAATATTATTACTAT
**
32493372 TATTATTATTATTATTATTATTATTAATATTAGTGTATATTTTTATTATATATGTATGTATACAT
1 TATTATTA-TA-T-TT-TTATTA-T-ATATTAGTGTATATTTTTA-T-TATA-GTATGTATATGT
* *
32493437 ATATATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATA-TTTTATTATATTATATT
57 ATATATATTTATATATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTGTATT
* *
32493501 TGCTTTTTGTATTTCAATATTATTATTAT
122 GGCTTTTTGTATTTCAATATTATTACTAT
* *
32493530 TATTATTATTATTATTATTAT-TATTA-T-TATTATTATTATTAT
1 TATTATTA-TATTTTTATTATATATTAGTGTA-TATTTTTATTAT
32493572 TATTATTATT
Statistics
Matches: 589, Mismatches: 30, Indels: 126
0.79 0.04 0.17
Matches are distributed among these distances:
148 14 0.02
149 17 0.03
150 91 0.15
151 71 0.12
152 47 0.08
153 21 0.04
154 31 0.05
155 12 0.02
156 5 0.01
157 30 0.05
158 90 0.15
159 3 0.01
160 3 0.01
161 3 0.01
162 4 0.01
163 3 0.01
164 2 0.00
165 1 0.00
166 5 0.01
167 5 0.01
168 1 0.00
169 3 0.01
170 3 0.01
171 8 0.01
172 4 0.01
173 3 0.01
174 4 0.01
175 7 0.01
176 2 0.00
177 4 0.01
178 5 0.01
179 44 0.07
180 1 0.00
181 7 0.01
182 20 0.03
183 13 0.02
184 2 0.00
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (150 bp):
TATTATTATATTTTTATTATATATTAGTGTATATTTTTATTATAGTATGTATATGTATATATATT
TATATATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTGTATTGGCTTTTTG
TATTTCAATATTATTACTAT
Found at i:32493196 original size:3 final size:3
Alignment explanation
Indices: 32493181--32493600 Score: 221
Period size: 3 Copynumber: 140.7 Consensus size: 3
32493171 TGTATTTCAA
*
32493181 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
32493229 TAT TA- TAT TAT TAT TAT ATAT TAGT GTA- TACT TGA- TAT TAT ATACG
1 TAT TAT TAT TAT TAT TAT -TAT TA-T -TAT TA-T T-AT TAT TAT -TA-T
*
32493275 TA- TAT GTA- TAT GTA- TAT T-T ATAT ATAG TAT TAT T-T T-T TAT TAGT
1 TAT TAT -TAT TAT -TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TA-T
* * ** * *
32493319 CTAT T-T TAA TAT TTT TAT TA- TAT T-T GCT T-T T-T GTAT T-T CAA
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* *
32493360 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * *
32493406 GTA- TAT TTT TAT TAT ATAT GTAT GTAT ACAT ATAT ATAT T-T ATACA
1 -TAT TAT TAT TAT TAT -TAT -TAT -TAT -TAT -TAT -TAT TAT -TA-T
* * *
32493452 TAG TAT TAT T-T T-T TAAT TAC T-T TAT T-T TAA TAT T-T TAT TA-
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * *
32493492 TAT TA- TAT T-T GCT T-T T-T GTAT T-T CAA TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
32493533 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32493581 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
32493601 ATACTAGTGT
Statistics
Matches: 335, Mismatches: 38, Indels: 88
0.73 0.08 0.19
Matches are distributed among these distances:
2 46 0.14
3 237 0.71
4 45 0.13
5 7 0.02
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:32493461 original size:16 final size:16
Alignment explanation
Indices: 32493419--32493462 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
32493409 TATTTTTATT
* *
32493419 ATATATGTATGTATAC
1 ATATATATATTTATAC
32493435 ATATATATATTTATAC
1 ATATATATATTTATAC
32493451 ATAGTAT-TATTT
1 ATA-TATATATTT
32493463 TTTAATTACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 22 0.88
17 3 0.12
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (16 bp):
ATATATATATTTATAC
Found at i:32493648 original size:16 final size:15
Alignment explanation
Indices: 32493609--32493661 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
32493599 TAATACTAGT
*
32493609 GTATATTTTTAT-TA
1 GTATATTTATATATA
*
32493623 -TATATGTATATATA
1 GTATATTTATATATA
32493637 TGTATATTTATATATA
1 -GTATATTTATATATA
32493653 GTACTATTT
1 GTA-TATTT
32493662 TTAATTACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 9 0.28
14 2 0.06
15 3 0.09
16 18 0.56
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.57
Consensus pattern (15 bp):
GTATATTTATATATA
Found at i:32493713 original size:203 final size:201
Alignment explanation
Indices: 32493360--32493758 Score: 581
Period size: 203 Copynumber: 2.0 Consensus size: 201
32493350 TGTATTTCAA
*
32493360 TATTATTACTATTATTATTATTATTATTATTATTATTAATATTAGTGTATATTTTTATTATATAT
1 TATTATTACTATTATTATTATTATTATTATTATTATTAATACTAGTGTATATTTTTATTATATAT
* *
32493425 GTATGTATACATATATATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTAT
66 GTA-GTATA-ATATATATATTTATACATAGTACTATTTTTTAATTACTTTATTTTAACATTTTAT
* * * *
32493490 TATATTATATTTGCTTTTTGTATTTCAATATTATTATTA-TTATTATTATTATTATTATTATTAT
129 TATATTATATTTGCTTTTTGTATTTCAATATTATTACTAGTT-TTATTATCATTATCATCATTAT
32493554 TATTATTAT
193 TATTATTAT
*
32493563 TATTATTATTATTATTATTATTATTATTATTATTATTAATACTAGTGTATATTTTTATTATATAT
1 TATTATTACTATTATTATTATTATTATTATTATTATTAATACTAGTGTATATTTTTATTATATAT
* *
32493628 GTA-TAT-ATATGTATATTTATATATAGTACTA-TTTTTAATTACTTTATTTTAACATTATTATT
66 GTAGTATAATATATATATTTATACATAGTACTATTTTTTAATTACTTTATTTTAACATT-TTATT
* * *
32493690 ATTTTATATTTGCTTTTTTTTTGTATTTCATTATTATTGCTAGTTTTATTATCATTATCATCATT
130 ATATTATATTTGC----TTTTTGTATTTCAATATTATTACTAGTTTTATTATCATTATCATCATT
32493755 ATTA
191 ATTA
32493759 ATATATACAT
Statistics
Matches: 177, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
198 24 0.14
199 39 0.22
201 3 0.02
203 109 0.62
204 2 0.01
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (201 bp):
TATTATTACTATTATTATTATTATTATTATTATTATTAATACTAGTGTATATTTTTATTATATAT
GTAGTATAATATATATATTTATACATAGTACTATTTTTTAATTACTTTATTTTAACATTTTATTA
TATTATATTTGCTTTTTGTATTTCAATATTATTACTAGTTTTATTATCATTATCATCATTATTAT
TATTAT
Found at i:32495632 original size:31 final size:31
Alignment explanation
Indices: 32495597--32495677 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
32495587 CTTCCTGCAT
* * *
32495597 TAAAATTCAACCAAATACAACAAATATAGTA
1 TAAAATGCAACCAAAAACAACAAATATAGCA
* *
32495628 TAAAATGCAGCCAAAAACAACAAATTTAGCA
1 TAAAATGCAACCAAAAACAACAAATATAGCA
*
32495659 TAAAAAATACAACCAAAAA
1 T--AAAATGCAACCAAAAA
32495678 TATTAATTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 27 0.66
33 14 0.34
ACGTcount: A:0.60, C:0.17, G:0.05, T:0.17
Consensus pattern (31 bp):
TAAAATGCAACCAAAAACAACAAATATAGCA
Found at i:32495935 original size:21 final size:21
Alignment explanation
Indices: 32495911--32496007 Score: 99
Period size: 21 Copynumber: 4.6 Consensus size: 21
32495901 TCTTCTTCCA
32495911 TCGCTGCTGCCTCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
*
32495932 TCGCTTG-TGCGTCTGCCTCCC
1 TCGC-TGCTGCCTCTGCCTCCC
*
32495953 TCGCCGCTG-CTGCTGCCTCCC
1 TCGCTGCTGCCT-CTGCCTCCC
* * *
32495974 TCGTTGCTGTCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
* *
32495995 TCTCTGTTGCCTC
1 TCGCTGCTGCCTC
32496008 GGCTCTAAGT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.03
21 56 0.92
22 3 0.05
ACGTcount: A:0.00, C:0.46, G:0.22, T:0.32
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:32496445 original size:13 final size:14
Alignment explanation
Indices: 32496420--32496448 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32496410 TAAGGAATTG
32496420 AATTAAACAATTAT
1 AATTAAACAATTAT
32496434 AATTAAAC-ATTAT
1 AATTAAACAATTAT
32496447 AA
1 AA
32496449 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:32499750 original size:12 final size:12
Alignment explanation
Indices: 32499733--32499757 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32499723 ATCATCTCTC
32499733 CATCAGATTCAT
1 CATCAGATTCAT
32499745 CATCAGATTCAT
1 CATCAGATTCAT
32499757 C
1 C
32499758 CCTCGATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CATCAGATTCAT
Found at i:32501630 original size:9 final size:9
Alignment explanation
Indices: 32501616--32501940 Score: 320
Period size: 9 Copynumber: 36.7 Consensus size: 9
32501606 TATTTAAGTA
32501616 TTATGTAAG
1 TTATGTAAG
32501625 TTATGTAAG
1 TTATGTAAG
*
32501634 TTATGATATG
1 TTATG-TAAG
* * *
32501644 ATATAT-AT
1 TTATGTAAG
32501652 TTATGTAAG
1 TTATGTAAG
* *
32501661 TTATAT-AT
1 TTATGTAAG
*
32501669 TTATCTAAG
1 TTATGTAAG
**
32501678 TTACATAAG
1 TTATGTAAG
32501687 TTATGTAAG
1 TTATGTAAG
32501696 TTATGTAAG
1 TTATGTAAG
* *
32501705 TTATAT-AT
1 TTATGTAAG
*
32501713 TTATCTAAG
1 TTATGTAAG
*
32501722 TTATATAAG
1 TTATGTAAG
*
32501731 TTATCTAAG
1 TTATGTAAG
32501740 TTATGTAAG
1 TTATGTAAG
*
32501749 TTATATAAG
1 TTATGTAAG
32501758 TTATGTAAG
1 TTATGTAAG
32501767 TTATGTAAG
1 TTATGTAAG
* *
32501776 TTATAT-AT
1 TTATGTAAG
*
32501784 TTATCTAAG
1 TTATGTAAG
*
32501793 TTATATAAG
1 TTATGTAAG
32501802 TTATGTAAG
1 TTATGTAAG
32501811 TTATGTAAG
1 TTATGTAAG
* *
32501820 TTATAT-AT
1 TTATGTAAG
*
32501828 TTATCTAAG
1 TTATGTAAG
*
32501837 TTATATAAG
1 TTATGTAAG
32501846 TTATGTAAG
1 TTATGTAAG
32501855 TTATGTAAG
1 TTATGTAAG
* *
32501864 TTATAT-AT
1 TTATGTAAG
*
32501872 TTATCTAAG
1 TTATGTAAG
* *
32501881 TTATATATG
1 TTATGTAAG
*
32501890 TTATATAAG
1 TTATGTAAG
32501899 TTATGTAAG
1 TTATGTAAG
*
32501908 TTATATAAG
1 TTATGTAAG
32501917 TTATGTAAG
1 TTATGTAAG
*
32501926 TTTTGTAAG
1 TTATGTAAG
32501935 TTATGT
1 TTATGT
32501941 TAAATATTTA
Statistics
Matches: 260, Mismatches: 49, Indels: 14
0.80 0.15 0.04
Matches are distributed among these distances:
8 34 0.13
9 220 0.85
10 6 0.02
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:32501687 original size:53 final size:53
Alignment explanation
Indices: 32501616--32501920 Score: 289
Period size: 53 Copynumber: 5.6 Consensus size: 53
32501606 TATTTAAGTA
* * * *
32501616 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAGTTATATATTT
1 TTATCTAAGTTATGTAAGTTATGATAAGTTATATATTTATCTAAGTTATATA--T
*
32501671 ATCTAAGTTACATAAGTTATGTAAGTTATG-TAAGTTATATATTTATCTAAGTTATATAAG
1 -T-T-A--T-C-TAAGTTATGTAAGTTATGATAAGTTATATATTTATCTAAGTTATAT-AT
* * *
32501731 TTATCTAAGTTATGTAAGTTAT-ATAAGTTATGTAAGTTATGTAAGTTATATAT
1 TTATCTAAGTTATGTAAGTTATGATAAGTTATAT-ATTTATCTAAGTTATATAT
* * * * * * *
32501784 TTATCTAAGTTATATAAGTTATG-TAAGTTATGTAAGTTATAT-ATTTATCTAAG
1 TTATCTAAGTTATGTAAGTTATGATAAGTTATAT-ATTTATCTAAGTTATAT-AT
*
32501837 TTATATAAGTTATGTAAGTTATG-TAAGTTATATATTTATCTAAGTTATATAT
1 TTATCTAAGTTATGTAAGTTATGATAAGTTATATATTTATCTAAGTTATATAT
*
32501889 GTTATATAAGTTATGTAAGTTAT-ATAAGTTAT
1 -TTATCTAAGTTATGTAAGTTATGATAAGTTAT
32501921 GTAAGTTTTG
Statistics
Matches: 213, Mismatches: 22, Indels: 31
0.80 0.08 0.12
Matches are distributed among these distances:
52 13 0.06
53 133 0.62
54 16 0.08
55 1 0.00
56 1 0.00
57 2 0.01
58 2 0.01
59 1 0.00
60 1 0.00
61 24 0.11
62 19 0.09
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (53 bp):
TTATCTAAGTTATGTAAGTTATGATAAGTTATATATTTATCTAAGTTATATAT
Found at i:32501700 original size:44 final size:44
Alignment explanation
Indices: 32501616--32501940 Score: 393
Period size: 44 Copynumber: 7.3 Consensus size: 44
32501606 TATTTAAGTA
* * * *
32501616 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTAAG
1 TTATATAAGTTATGTAAGTTATG-TAAGTTATATAGTTATGTAAG
* * ** *
32501661 TTATAT-ATTTATCTAAGTTACATAAGTTATGTAAGTTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTAAGTTATAT-AGTTATGTAAG
* * * *
32501705 TTATAT-ATTTATCTAAGTTATATAAGTTATCTAAGTTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTAAGTTATAT-AGTTATGTAAG
* *
32501749 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAG
1 TTATATAAGTTATGTAAGTTATGTAAGTTATATAGTTATGTAAG
* *
32501793 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAG
1 TTATATAAGTTATGTAAGTTATGTAAGTTATATAGTTATGTAAG
* *
32501837 TTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAG
1 TTATATAAGTTATGTAAGTTATGTAAGTTATATAGTTATGTAAG
* *
32501881 TTATATATGTTATATAAGTTATGTAAGTTATATAAGTTATGTAAG
1 TTATATAAGTTATGTAAGTTATGTAAGTTATAT-AGTTATGTAAG
* *
32501926 TTTTGTAAGTTATGT
1 TTATATAAGTTATGT
32501941 TAAATATTTA
Statistics
Matches: 252, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
43 7 0.03
44 198 0.79
45 47 0.19
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (44 bp):
TTATATAAGTTATGTAAGTTATGTAAGTTATATAGTTATGTAAG
Found at i:32501771 original size:115 final size:115
Alignment explanation
Indices: 32501616--32501938 Score: 497
Period size: 115 Copynumber: 2.8 Consensus size: 115
32501606 TATTTAAGTA
* * *
32501616 TTATGTAAGTTATGTAAGTTATGATATGATATAT-ATTTATGTAAGTTATATATTTATCTAAGTT
1 TTATGTAAGTTATGTAAGTTAT-ATAAGTTATATAAGTTATGTAAGTTATATATTTATCTAAGTT
*
32501680 ACATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATATAAG
65 ATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATATAAG
* *
32501731 TTATCTAAGTTATGTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTA
1 TTATGTAAGTTATGTAAGTTATATAAGTTATATAAGTTATGTAAGTTATATATTTATCTAAGTTA
32501796 TATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATATAAG
66 TATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATATAAG
* * * * * *
32501846 TTATGTAAGTTATGTAAGTTATAT-ATTTATCTAAGTTATATATGTTATATAAGTTATGTAAGTT
1 TTATGTAAGTTATGTAAGTTATATAAGTTATATAAGTTATGTAAGTTATAT-ATTTATCTAAGTT
*
32501910 ATATAAGTTATGTAAGTTTTGTAAGTTAT
65 ATATAAGTTATGTAAGTTATGTAAGTTAT
32501939 GTTAAATATT
Statistics
Matches: 192, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
114 30 0.16
115 162 0.84
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (115 bp):
TTATGTAAGTTATGTAAGTTATATAAGTTATATAAGTTATGTAAGTTATATATTTATCTAAGTTA
TATAAGTTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATATAAG
Found at i:32501916 original size:71 final size:71
Alignment explanation
Indices: 32501616--32501938 Score: 366
Period size: 71 Copynumber: 4.5 Consensus size: 71
32501606 TATTTAAGTA
* * * * * * * *
32501616 TTATGTAAGTTATGTAAGTTATGATA-TGATATATATTTATGTAAGTTATAT-ATTTATCTAAGT
1 TTATGTAAGTTATATAAGTTAT-ATAGTTATCTA-AGTTATATAAGTTATCTAAGTTATGTAAGT
*
32501679 TACATAAG
64 TATATAAG
* *
32501687 TTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATCTAAGTTATGTAAGTTA
1 TTATGTAAGTTATATAAGTTATATAGTTATCTAAGTTATATAAGTTATCTAAGTTATGTAAGTTA
32501752 TATAAG
66 TATAAG
* * *
32501758 TTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTA
1 TTATGTAAGTTATATAAGTTATATAGTTATCTAAGTTATATAAGTTATCTAAGTTATGTAAGTTA
*
32501823 TAT-AT
66 TATAAG
* * * * * *
32501828 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATAT-ATTTATCTAAGTTATATATGTT
1 TTATGTAAGTTATATAAGTTATAT-AGTTATCTAAGTTATATAAGTTATCTAAGTTATGTAAGTT
32501892 ATATAAG
65 ATATAAG
* * *
32501899 TTATGTAAGTTATATAAGTTATGTAAGTTTTGTAAGTTAT
1 TTATGTAAGTTATATAAGTTATAT-AGTTATCTAAGTTAT
32501939 GTTAAATATT
Statistics
Matches: 226, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
70 61 0.27
71 165 0.73
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (71 bp):
TTATGTAAGTTATATAAGTTATATAGTTATCTAAGTTATATAAGTTATCTAAGTTATGTAAGTTA
TATAAG
Found at i:32502071 original size:15 final size:15
Alignment explanation
Indices: 32502051--32502105 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
32502041 TAAGCTGCGG
32502051 ATTAAATAATATTTA
1 ATTAAATAATATTTA
32502066 ATTAAATAATATTT-
1 ATTAAATAATATTTA
32502080 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
32502095 ATTAAATAATA
1 ATTAAATAATA
32502106 CTGAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 15 0.43
16 6 0.17
17 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:32502099 original size:29 final size:29
Alignment explanation
Indices: 32502062--32502135 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
32502052 TTAAATAATA
* *
32502062 TTTAATTAAATAATATTTATAAAAATTAT
1 TTTAATTAAATAATATTGAAAAAAATTAT
*
32502091 TTTAATTAAATAATACTGAAAAAAATTAT
1 TTTAATTAAATAATATTGAAAAAAATTAT
*
32502120 TTTAATTCAATAATAT
1 TTTAATTAAATAATAT
32502136 AATGTCGGTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (29 bp):
TTTAATTAAATAATATTGAAAAAAATTAT
Found at i:32502340 original size:24 final size:24
Alignment explanation
Indices: 32502308--32502378 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
32502298 TTAACTTAAA
*
32502308 TGATAAAACGGGCGATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
32502332 TGATAAAACGGACAATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
32502356 TGATAAAACGGACGAGAATATTT
1 TGATAAAACGGACGATAATATTT
32502379 CAATAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.28
Consensus pattern (24 bp):
TGATAAAACGGACGATAATATTTG
Found at i:32502495 original size:64 final size:64
Alignment explanation
Indices: 32502426--32502559 Score: 259
Period size: 64 Copynumber: 2.1 Consensus size: 64
32502416 ATATTTTATT
*
32502426 AAATATTTGTATATTAGATGGGACATATTATATTAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
32502490 AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
32502554 AAATAT
1 AAATAT
32502560 AGAAATATTA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (64 bp):
AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
Found at i:32503362 original size:6 final size:7
Alignment explanation
Indices: 32503343--32503368 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32503333 ACTTATAAAC
32503343 GCAAAAA
1 GCAAAAA
32503350 GCAAAAA
1 GCAAAAA
32503357 GCAAAAA
1 GCAAAAA
32503364 GCAAA
1 GCAAA
32503369 TCTATAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.15, G:0.15, T:0.00
Consensus pattern (7 bp):
GCAAAAA
Found at i:32505266 original size:19 final size:19
Alignment explanation
Indices: 32505227--32505278 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
32505217 TTTCGATTTT
* *
32505227 GATTCGGGGAAATATTTAGG
1 GATTAGGGGAAA-AGTTAGG
32505247 GATTAGGGGAAAAGTTAGG
1 GATTAGGGGAAAAGTTAGG
*
32505266 GATTTGGGGAAAA
1 GATTAGGGGAAAA
32505279 TTGGGTGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.35, C:0.02, G:0.38, T:0.25
Consensus pattern (19 bp):
GATTAGGGGAAAAGTTAGG
Found at i:32506519 original size:14 final size:14
Alignment explanation
Indices: 32506498--32506548 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
32506488 AGTTTAGATC
32506498 ATGGGTTATGATTT
1 ATGGGTTATGATTT
* *
32506512 AGGGGTTATGCGA-TC
1 ATGGGTTAT--GATTT
32506527 ATGGGTTATGATTT
1 ATGGGTTATGATTT
32506541 ATGGGTTA
1 ATGGGTTA
32506549 AGCTTCATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 2 0.07
14 17 0.57
15 9 0.30
16 2 0.07
ACGTcount: A:0.22, C:0.04, G:0.33, T:0.41
Consensus pattern (14 bp):
ATGGGTTATGATTT
Found at i:32507219 original size:41 final size:41
Alignment explanation
Indices: 32507119--32507272 Score: 192
Period size: 41 Copynumber: 3.8 Consensus size: 41
32507109 TTTTGTGGCG
* * *
32507119 TTTGGA-AATAAAGCGCCACTATATCTCAG-TTTTTGCGGTGT
1 TTTGGATAA-AAA-CGCCACTATTTCTCAGTTTTTTGCAGCGT
32507160 TTT-GA-AAAAACGCCACTATTTCTCAGTTTTTTGCAGCGT
1 TTTGGATAAAAACGCCACTATTTCTCAGTTTTTTGCAGCGT
* * *
32507199 TTTGGATGAAAACGCCACTATTACTCAGTTTTTAGCAGCGT
1 TTTGGATAAAAACGCCACTATTTCTCAGTTTTTTGCAGCGT
32507240 TTTGGATAAAAACGCCACTATTGT-TCAGTTTTT
1 TTTGGATAAAAACGCCACTATT-TCTCAGTTTTT
32507273 AACGGCGTTT
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
38 15 0.15
39 16 0.16
40 6 0.06
41 64 0.63
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (41 bp):
TTTGGATAAAAACGCCACTATTTCTCAGTTTTTTGCAGCGT
Found at i:32510240 original size:33 final size:34
Alignment explanation
Indices: 32510172--32510238 Score: 116
Period size: 36 Copynumber: 1.9 Consensus size: 34
32510162 TGTTGATATC
32510172 ATCTTTCTTAATCACCATATTTCAAAAAAAAAAATT
1 ATCTTTCTTAATCACCATATTTC--AAAAAAAAATT
32510208 ATCTTTCTTAATCACCATATTTCAAAAAAAA
1 ATCTTTCTTAATCACCATATTTCAAAAAAAA
32510239 TTTTACTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 8 0.26
36 23 0.74
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (34 bp):
ATCTTTCTTAATCACCATATTTCAAAAAAAAATT
Found at i:32515074 original size:15 final size:15
Alignment explanation
Indices: 32515046--32515088 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
32515036 TTTAATTCTT
32515046 AATTTTAAAA-TTTA
1 AATTTTAAAATTTTA
32515060 AATTTTAAAATTTTA
1 AATTTTAAAATTTTA
* *
32515075 AATTATAATATTTT
1 AATTTTAAAATTTT
32515089 TTAGAGAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTTTAAAATTTTA
Found at i:32515077 original size:7 final size:7
Alignment explanation
Indices: 32515032--32515088 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
32515022 TACCGAATTT
*
32515032 AATTTTT
1 AATTTTA
32515039 AATTCTT-
1 AATT-TTA
32515046 AATTTTA
1 AATTTTA
*
32515053 AAATTTA
1 AATTTTA
32515060 AATTTTAA
1 AATTTT-A
32515068 AATTTTA
1 AATTTTA
*
32515075 AATTATA
1 AATTTTA
32515082 ATATTTT
1 A-ATTTT
32515089 TTAGAGAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
6 2 0.05
7 27 0.64
8 13 0.31
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:32516953 original size:22 final size:22
Alignment explanation
Indices: 32516910--32516953 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
32516900 GCCCACCTGT
** *
32516910 AAAATTAATAATTTTTTTAAAC
1 AAAATTAATAATTAATTCAAAC
*
32516932 AAAATTAATGATTAATTCAAAC
1 AAAATTAATAATTAATTCAAAC
32516954 CTTTGTTTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (22 bp):
AAAATTAATAATTAATTCAAAC
Found at i:32517298 original size:88 final size:88
Alignment explanation
Indices: 32517188--32517367 Score: 299
Period size: 88 Copynumber: 2.0 Consensus size: 88
32517178 GCACAACGGA
*
32517188 CATATATACAAGAGAGAGAAGAATTGAATAAAACCCATACATGACATACACACAAGATAGGGAAG
1 CATATACACAAGAGAGAGAAGAATTGAATAAAACCCATACATGACATACACACAAGATAGGGAAG
32517253 AACTGGATAAAACCCACACATAG
66 AACTGGATAAAACCCACACATAG
* * *
32517276 CATATACACAAGATAG-GAAAGAATTGGATAAAATCCATACATGACATACACACAAGATAGGGAA
1 CATATACACAAGAGAGAG-AAGAATTGAATAAAACCCATACATGACATACACACAAGATAGGGAA
*
32517340 GAACTGGATAAAACTCACACATAG
65 GAACTGGATAAAACCCACACATAG
32517364 CATA
1 CATA
32517368 CGTACAAGAT
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
87 1 0.01
88 85 0.99
ACGTcount: A:0.49, C:0.18, G:0.17, T:0.16
Consensus pattern (88 bp):
CATATACACAAGAGAGAGAAGAATTGAATAAAACCCATACATGACATACACACAAGATAGGGAAG
AACTGGATAAAACCCACACATAG
Found at i:32517375 original size:88 final size:88
Alignment explanation
Indices: 32517206--32517425 Score: 293
Period size: 88 Copynumber: 2.5 Consensus size: 88
32517196 CAAGAGAGAG
* *
32517206 AAGAATTGAATAAAACCCATACATGACATACACACAAGATAGGGAAGAACTGGATAAAACCCACA
1 AAGAATTGGATAAAATCCATACATGACATACACACAAGATAGGGAAGAACTGGATAAAACCCACA
*
32517271 CATAGCATATACACAAGATAG-GA
66 CATAGCATACACACAAGAT-GTGA
*
32517294 AAGAATTGGATAAAATCCATACATGACATACACACAAGATAGGGAAGAACTGGATAAAACTCACA
1 AAGAATTGGATAAAATCCATACATGACATACACACAAGATAGGGAAGAACTGGATAAAACCCACA
** *
32517359 CATAGCATACGTACAAGATGTGG
66 CATAGCATACACACAAGATGTGA
** * * *
32517382 AAGAACGGGATAAAATGCACACATTG-CATACACATAAGAT-GGGA
1 AAGAATTGGATAAAATCCATACA-TGACATACACACAAGATAGGGA
32517426 TTAGAGACCC
Statistics
Matches: 118, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
87 5 0.04
88 111 0.94
89 2 0.02
ACGTcount: A:0.47, C:0.18, G:0.19, T:0.16
Consensus pattern (88 bp):
AAGAATTGGATAAAATCCATACATGACATACACACAAGATAGGGAAGAACTGGATAAAACCCACA
CATAGCATACACACAAGATGTGA
Found at i:32517403 original size:44 final size:44
Alignment explanation
Indices: 32517195--32517425 Score: 238
Period size: 44 Copynumber: 5.3 Consensus size: 44
32517185 GGACATATAT
* * * * * *
32517195 ACAAGAGAGAGAAGAATTGAATAAAACCCATACAT-GACATACAC
1 ACAAGATAGGGAAGAACTGGATAAAATCCACACATAG-CATACAC
* *
32517239 ACAAGATAGGGAAGAACTGGATAAAACCCACACATAGCATATAC
1 ACAAGATAGGGAAGAACTGGATAAAATCCACACATAGCATACAC
* * *
32517283 ACAAGATAGGAAAGAATTGGATAAAATCCATACAT-GACATACAC
1 ACAAGATAGGGAAGAACTGGATAAAATCCACACATAG-CATACAC
**
32517327 ACAAGATAGGGAAGAACTGGATAAAA-CTCACACATAGCATACGT
1 ACAAGATAGGGAAGAACTGGATAAAATC-CACACATAGCATACAC
* * *
32517371 ACAAGAT-GTGGAAGAACGGGATAAAATGCACACATTGCATACAC
1 ACAAGATAG-GGAAGAACTGGATAAAATCCACACATAGCATACAC
*
32517415 ATAAGAT-GGGA
1 ACAAGATAGGGA
32517426 TTAGAGACCC
Statistics
Matches: 159, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
43 6 0.04
44 151 0.95
45 2 0.01
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.16
Consensus pattern (44 bp):
ACAAGATAGGGAAGAACTGGATAAAATCCACACATAGCATACAC
Found at i:32518311 original size:43 final size:43
Alignment explanation
Indices: 32518261--32518347 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
32518251 AACATTGATA
32518261 ATTTTATTGAAACAATTAATAATATTAAATATTTAGACTAACT
1 ATTTTATTGAAACAATTAATAATATTAAATATTTAGACTAACT
* *
32518304 ATTTTATTGAAATAGTTAATAATATTAAATATTTAGACTAACT
1 ATTTTATTGAAACAATTAATAATATTAAATATTTAGACTAACT
32518347 A
1 A
32518348 ATGACATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (43 bp):
ATTTTATTGAAACAATTAATAATATTAAATATTTAGACTAACT
Found at i:32524505 original size:19 final size:20
Alignment explanation
Indices: 32524472--32524514 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
32524462 AGTAATCCAA
* *
32524472 ATTTTTATATTATTTTTTTT
1 ATTTTTATATAATTTTATTT
32524492 ATTTTTATA-AATTTTATTT
1 ATTTTTATATAATTTTATTT
32524511 ATTT
1 ATTT
32524515 ATTTTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTTATATAATTTTATTT
Found at i:32524508 original size:24 final size:22
Alignment explanation
Indices: 32524473--32524529 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
32524463 GTAATCCAAA
*
32524473 TTTTTATATTATT-TTT-TTTAT
1 TTTTTAAATT-TTATTTATTTAT
32524494 TTTTATAAATTTTATTTATTTAT
1 TTTT-TAAATTTTATTTATTTAT
*
32524517 TTTTTAGATTTTA
1 TTTTTAAATTTTA
32524530 AAATGTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 6 0.19
22 16 0.52
23 9 0.29
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTAAATTTTATTTATTTAT
Found at i:32524531 original size:29 final size:29
Alignment explanation
Indices: 32524474--32524531 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
32524464 TAATCCAAAT
**
32524474 TTTTATATTATTTTTTTTATTTTTATAAA
1 TTTTATATTATTTTTTTTAGATTTATAAA
32524503 TTTTAT-TTATTTATTTTTTAGATTT-TAAA
1 TTTTATATTA-TT-TTTTTTAGATTTATAAA
32524532 ATGTAAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 3 0.12
29 12 0.48
30 10 0.40
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.71
Consensus pattern (29 bp):
TTTTATATTATTTTTTTTAGATTTATAAA
Found at i:32525418 original size:2 final size:2
Alignment explanation
Indices: 32525375--32525402 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32525365 ATGTTTTAGC
32525375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32525403 GAGATTTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32526243 original size:21 final size:20
Alignment explanation
Indices: 32526213--32526268 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
32526203 GAGTGAATTT
32526213 TTTTTATTTATGAAAATTTGGA
1 TTTTT-TTTAT-AAAATTTGGA
*
32526235 TTTTTTTTATAAATATTTTGA
1 TTTTTTTTATAAA-ATTTGGA
*
32526256 ATTTTTTTA-AAAA
1 TTTTTTTTATAAAA
32526269 AATTTTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 1 0.03
20 6 0.19
21 19 0.61
22 5 0.16
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (20 bp):
TTTTTTTTATAAAATTTGGA
Found at i:32526254 original size:22 final size:21
Alignment explanation
Indices: 32526213--32526263 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
32526203 GAGTGAATTT
*
32526213 TTTTTATTTATGAAAATTTGGA
1 TTTTT-TTTATGAAAATTTGAA
32526235 TTTTTTTTAT-AAATATTTTGAA
1 TTTTTTTTATGAAA-A-TTTGAA
32526257 TTTTTTT
1 TTTTTTT
32526264 AAAAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 6 0.23
22 17 0.65
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (21 bp):
TTTTTTTTATGAAAATTTGAA
Found at i:32526273 original size:21 final size:21
Alignment explanation
Indices: 32526225--32526274 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
32526215 TTTATTTATG
* * *
32526225 AAAATTTGGATTTTTTTTATA
1 AAAATTTTGAATTTTTTTAAA
*
32526246 AATATTTTGAATTTTTTTAAA
1 AAAATTTTGAATTTTTTTAAA
32526267 AAAATTTT
1 AAAATTTT
32526275 CATTGAGAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
AAAATTTTGAATTTTTTTAAA
Found at i:32527252 original size:26 final size:26
Alignment explanation
Indices: 32527215--32527298 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
32527205 TGATACAAAT
* *
32527215 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
32527241 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
32527267 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
32527293 TGATAA
1 TGATAA
32527299 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:32528803 original size:26 final size:26
Alignment explanation
Indices: 32528774--32528826 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
32528764 TTTACAGTTT
32528774 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
32528800 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
32528826 T
1 T
32528827 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:32530262 original size:77 final size:77
Alignment explanation
Indices: 32530135--32530290 Score: 303
Period size: 77 Copynumber: 2.0 Consensus size: 77
32530125 ACAACCCAAA
32530135 TAAGGAGAATGTCAAAGAAGGACCATATAGTATTATGTTTGACGACAACAAACATATAACAGACT
1 TAAGGAGAATGTCAAAGAAGGACCATATAGTATTATGTTTGACGACAACAAACATATAACAGACT
32530200 TGCCACCTAGCT
66 TGCCACCTAGCT
*
32530212 TAAGGAGAATGTCAAAGAAGGACCATATAGTATTATGTTTGATGACAACAAACATATAACAGACT
1 TAAGGAGAATGTCAAAGAAGGACCATATAGTATTATGTTTGACGACAACAAACATATAACAGACT
32530277 TGCCACCTAGCT
66 TGCCACCTAGCT
32530289 TA
1 TA
32530291 CCACATGAAC
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.24
Consensus pattern (77 bp):
TAAGGAGAATGTCAAAGAAGGACCATATAGTATTATGTTTGACGACAACAAACATATAACAGACT
TGCCACCTAGCT
Found at i:32530659 original size:19 final size:19
Alignment explanation
Indices: 32530637--32530679 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
32530627 TCCATAAATG
*
32530637 TATTAATGAAAATTAAAAA
1 TATTAATAAAAATTAAAAA
*
32530656 TATTATTAAAAATTAAAAA
1 TATTAATAAAAATTAAAAA
32530675 T-TTAA
1 TATTAA
32530680 ATATTTTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TATTAATAAAAATTAAAAA
Found at i:32531474 original size:10 final size:10
Alignment explanation
Indices: 32531405--32531478 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
32531395 TGATATGATA
*
32531405 TAAAAATTCT
1 TAAAAATTAT
*
32531415 T-AAAATTTT
1 TAAAAATTAT
32531424 TAAAAATTA-
1 TAAAAATTAT
32531433 T--AAATT-T
1 TAAAAATTAT
*
32531440 CAATAAATTA-
1 TAA-AAATTAT
32531450 TAAAATATTATT
1 TAAAA-ATTA-T
32531462 TAAAAATTAT
1 TAAAAATTAT
32531472 TAAAAAT
1 TAAAAAT
32531479 CCAAAAAAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
7 5 0.10
9 11 0.22
10 26 0.51
11 4 0.08
12 5 0.10
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:32539824 original size:4 final size:4
Alignment explanation
Indices: 32539810--32539872 Score: 62
Period size: 4 Copynumber: 16.2 Consensus size: 4
32539800 CGCCCCCTCC
*
32539810 CTTT CTCTT CTTT CTTT -TCTT -TTT CTTT CTTT CTCT C-TT CTTT CTTT
1 CTTT CT-TT CTTT CTTT CT-TT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
*
32539857 CTTT C-CT CTTT CTTT C
1 CTTT CTTT CTTT CTTT C
32539873 CCTTTCTTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
3 7 0.14
4 39 0.78
5 4 0.08
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
CTTT
Found at i:32539837 original size:15 final size:14
Alignment explanation
Indices: 32539817--32539872 Score: 67
Period size: 15 Copynumber: 3.8 Consensus size: 14
32539807 TCCCTTTCTC
32539817 TTCTTTCTTTTCTTT
1 TTCTTTC-TTTCTTT
*
32539832 TTCTTTCTTTCTCTC
1 TTCTTTCTTTCT-TT
32539847 TTCTTTCTTTCTTT
1 TTCTTTCTTTCTTT
*
32539861 CCTCTTTCTTTC
1 -TTCTTTCTTTC
32539873 CCTTTCTTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
TTCTTTCTTTCTTT
Found at i:32539849 original size:30 final size:30
Alignment explanation
Indices: 32539813--32539880 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
32539803 CCCCTCCCTT
*
32539813 TCTCTTCTTTCTTTTCTTT-TTCTTTCTTTC
1 TCTCTTCTTTC-TTTCTTTCCTCTTTCTTTC
32539843 TCTCTTCTTTCTTTCTTTCCTCTTTCTTTC
1 TCTCTTCTTTCTTTCTTTCCTCTTTCTTTC
*
32539873 CCT-TTCTT
1 TCTCTTCTT
32539881 CTTCCCTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
29 12 0.34
30 23 0.66
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (30 bp):
TCTCTTCTTTCTTTCTTTCCTCTTTCTTTC
Found at i:32539872 original size:11 final size:10
Alignment explanation
Indices: 32539810--32539880 Score: 78
Period size: 10 Copynumber: 7.3 Consensus size: 10
32539800 CGCCCCCTCC
32539810 CTTTCTC-TT
1 CTTTCTCTTT
32539819 CTTTCT-TTT
1 CTTTCTCTTT
*
32539828 CTTTTTCTTT
1 CTTTCTCTTT
32539838 CTTTCTCTCTT
1 CTTTCTCT-TT
32539849 C-TT-TCTTT
1 CTTTCTCTTT
32539857 CTTTCCTCTTT
1 CTTT-CTCTTT
*
32539868 CTTTCCCTTT
1 CTTTCTCTTT
32539878 CTT
1 CTT
32539881 CTTCCCTCAT
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
8 3 0.06
9 18 0.34
10 20 0.38
11 12 0.23
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
CTTTCTCTTT
Found at i:32541649 original size:3 final size:3
Alignment explanation
Indices: 32541641--32541701 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
32541631 TTTGAGTCCC
32541641 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32541689 TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TT
32541702 TTGTCTCTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 55 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:32543585 original size:30 final size:30
Alignment explanation
Indices: 32543551--32543608 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
32543541 TGGGCACTTC
32543551 CACACGGGT-GATCCACACGCCCATGTGTGA
1 CACACGGGTAGA-CCACACGCCCATGTGTGA
* *
32543581 CACACGGGTAGACCACATGCCCGTGTGT
1 CACACGGGTAGACCACACGCCCATGTGT
32543609 AATGGCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCATGTGTGA
Found at i:32545181 original size:65 final size:63
Alignment explanation
Indices: 32545064--32545185 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 63
32545054 TATAACTTGC
* *
32545064 AAGAAAATAAACATAGTTAAAATAACATAAAAATGCCAAAATAACATAAACTTATTCTTTATGA
1 AAGAAAATAAACATAGTTAAAACAACATAAAAATGCCAAAATAACACAAACTT-TTCTTTATGA
* * *
32545128 AAGAAAATGAAACATATTTAAAAACAACAT-AAAATGCTAAAATAACACCAACTTTTCT
1 AAGAAAAT-AAACATAGTT-AAAACAACATAAAAATGCCAAAATAACACAAACTTTTCT
32545186 AATGATTCTC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 12 0.24
65 30 0.59
66 9 0.18
ACGTcount: A:0.56, C:0.13, G:0.06, T:0.25
Consensus pattern (63 bp):
AAGAAAATAAACATAGTTAAAACAACATAAAAATGCCAAAATAACACAAACTTTTCTTTATGA
Found at i:32547183 original size:28 final size:29
Alignment explanation
Indices: 32547159--32547216 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
32547149 ACTTTTACCA
*
32547159 AATATTTTAACATA-TTTTTATTTTAAAT
1 AATATTTTAAAATATTTTTTATTTTAAAT
*
32547187 AATTTTTTAAAATATTTTTTATTTTTAAAT
1 AATATTTTAAAATATTTTTTA-TTTTAAAT
32547217 TTTATTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 12 0.46
29 6 0.23
30 8 0.31
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (29 bp):
AATATTTTAAAATATTTTTTATTTTAAAT
Found at i:32547195 original size:17 final size:16
Alignment explanation
Indices: 32547161--32547193 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32547151 TTTTACCAAA
32547161 TATTTTAACATATTTT
1 TATTTTAACATATTTT
32547177 TATTTTAA-ATAATTTT
1 TATTTTAACAT-ATTTT
32547193 T
1 T
32547194 TAAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTTAACATATTTT
Found at i:32547230 original size:28 final size:28
Alignment explanation
Indices: 32547158--32547222 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
32547148 TACTTTTACC
*
32547158 AAATA-TT-TTAACATA-TTTTTATTTT
1 AAATATTTATTAAAATATTTTTTATTTT
*
32547183 AAATAATTTTTTAAAATATTTTTTATTTTT
1 AAAT-ATTTATTAAAATATTTTTTA-TTTT
32547213 AAAT-TTTATT
1 AAATATTTATT
32547223 GAATTATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
25 4 0.12
26 1 0.03
27 2 0.06
28 12 0.36
29 6 0.18
30 8 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
AAATATTTATTAAAATATTTTTTATTTT
Found at i:32548400 original size:29 final size:28
Alignment explanation
Indices: 32548350--32548405 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
32548340 TTCAAGCAAT
*
32548350 AAATATTAATTATTTATAAAATTTAATTA
1 AAATATAAATTATTTATAAAA-TTAATTA
*
32548379 AAATATAAATTATATT-TTAAATTAATT
1 AAATATAAATTAT-TTATAAAATTAATT
32548406 TTTATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.25
29 16 0.67
30 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
AAATATAAATTATTTATAAAATTAATTA
Found at i:32548476 original size:31 final size:31
Alignment explanation
Indices: 32548440--32548503 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
32548430 ATATTTTTCC
32548440 GTAAAATTATGTTGTTAAATGCTTATTTTGA
1 GTAAAATTATGTTGTTAAATGCTTATTTTGA
32548471 GTAAAATTATGTTGTTAAATGCTTATTTTGA
1 GTAAAATTATGTTGTTAAATGCTTATTTTGA
32548502 GT
1 GT
32548504 TATATATAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.48
Consensus pattern (31 bp):
GTAAAATTATGTTGTTAAATGCTTATTTTGA
Found at i:32549277 original size:11 final size:11
Alignment explanation
Indices: 32549261--32549287 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
32549251 TAAATTAGTT
32549261 TTTTTTTTTAA
1 TTTTTTTTTAA
32549272 TTTTTTTTTAA
1 TTTTTTTTTAA
32549283 TTTTT
1 TTTTT
32549288 AAAATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTAA
Found at i:32549650 original size:17 final size:17
Alignment explanation
Indices: 32549615--32549663 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
32549605 TTCAATTTTG
* *
32549615 TTTATATTTTTGTAAAAT
1 TTTAAATTTTT-TATAAT
32549633 TTTAAATTTTTTATAAT
1 TTTAAATTTTTTATAAT
*
32549650 TTTAAATTATTTAT
1 TTTAAATTTTTTAT
32549664 TGATGTGCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 18 0.64
18 10 0.36
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTAAATTTTTTATAAT
Found at i:32551762 original size:21 final size:21
Alignment explanation
Indices: 32551708--32551784 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
32551698 GTGGTTGTCT
32551708 ACACGCCCATGTGAAGGCCAC
1 ACACGCCCATGTGAAGGCCAC
* *
32551729 ACATGCCTATGTGAAGGCCAC
1 ACACGCCCATGTGAAGGCCAC
* * * **
32551750 ACACACCCGTGTGTAGGGGAC
1 ACACGCCCATGTGAAGGCCAC
*
32551771 ACACGCCCGTGTGA
1 ACACGCCCATGTGA
32551785 CCAGCCGTGT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.26, C:0.32, G:0.27, T:0.14
Consensus pattern (21 bp):
ACACGCCCATGTGAAGGCCAC
Found at i:32554905 original size:24 final size:24
Alignment explanation
Indices: 32554878--32554927 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
32554868 GAGATAATAC
*
32554878 TAAGTTGTTTATGGCTATATATGT
1 TAAGTTGTTTATGCCTATATATGT
32554902 TAAGTTGTTTATGCCTATATATGT
1 TAAGTTGTTTATGCCTATATATGT
32554926 TA
1 TA
32554928 TACTTAATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.50
Consensus pattern (24 bp):
TAAGTTGTTTATGCCTATATATGT
Found at i:32557026 original size:46 final size:46
Alignment explanation
Indices: 32556959--32557050 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
32556949 CCGAGAAAAG
32556959 GGGCGTATGTGAAGGTAATTGATAAACCGTAATTTATACATATTTT
1 GGGCGTATGTGAAGGTAATTGATAAACCGTAATTTATACATATTTT
32557005 GGGCGTATGTGAAGGTAATTGATAAACCGTAATTTATACATATTTT
1 GGGCGTATGTGAAGGTAATTGATAAACCGTAATTTATACATATTTT
32557051 TACCCCATGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.37
Consensus pattern (46 bp):
GGGCGTATGTGAAGGTAATTGATAAACCGTAATTTATACATATTTT
Found at i:32557312 original size:13 final size:13
Alignment explanation
Indices: 32557294--32557320 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32557284 GAAGTAATTG
32557294 CACACGGGCGTGT
1 CACACGGGCGTGT
32557307 CACACGGGCGTGT
1 CACACGGGCGTGT
32557320 C
1 C
32557321 CTTGTCGAGC
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:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:32558102 original size:20 final size:20
Alignment explanation
Indices: 32558079--32558118 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
32558069 TTTTTCCAAA
32558079 AGTAATTCTCCAATTCCATT
1 AGTAATTCTCCAATTCCATT
32558099 AGTAATTCTCCAATTCCATT
1 AGTAATTCTCCAATTCCATT
32558119 CTCTGTGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (20 bp):
AGTAATTCTCCAATTCCATT
Found at i:32562349 original size:20 final size:20
Alignment explanation
Indices: 32562324--32562361 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32562314 ATGATATAAC
*
32562324 ACATTTAACCATCACATGAA
1 ACATTTAACCATAACATGAA
*
32562344 ACATTTAAGCATAACATG
1 ACATTTAACCATAACATG
32562362 CACAATTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (20 bp):
ACATTTAACCATAACATGAA
Found at i:32564943 original size:24 final size:24
Alignment explanation
Indices: 32564916--32564974 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
32564906 GATGTTCAAT
32564916 CTTTCATCTTCCTTAAC-CTTTCAC
1 CTTTCATCTTCCTTAACTC-TTCAC
32564940 CTTTCATCTTCCTTAACTCTTCAC
1 CTTTCATCTTCCTTAACTCTTCAC
32564964 CTTTCATCTTC
1 CTTTCATCTTC
32564975 TTGCCCCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 33 0.97
25 1 0.03
ACGTcount: A:0.15, C:0.37, G:0.00, T:0.47
Consensus pattern (24 bp):
CTTTCATCTTCCTTAACTCTTCAC
Found at i:32565031 original size:2 final size:2
Alignment explanation
Indices: 32565024--32565061 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
32565014 CTAATCTCCC
*
32565024 TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32565062 GGAGTATACT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:32566498 original size:27 final size:27
Alignment explanation
Indices: 32566420--32566503 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 27
32566410 TATAAAAAAA
32566420 ATTT-AAAATATATTTTAAATTT-AAT
1 ATTTAAAAATATATTTTAAATTTAAAT
* * ** * * **
32566445 TTTTTATTATTTATTTTTAATAAAAAT
1 ATTTAAAAATATATTTTAAATTTAAAT
32566472 ATTTAAAAATATATTTTAAATTTAAAT
1 ATTTAAAAATATATTTTAAATTTAAAT
*
32566499 TTTTA
1 ATTTA
32566504 TTTATTTTGT
Statistics
Matches: 41, Mismatches: 16, Indels: 2
0.69 0.27 0.03
Matches are distributed among these distances:
25 3 0.07
26 12 0.29
27 26 0.63
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTTAAAAATATATTTTAAATTTAAAT
Found at i:32577506 original size:20 final size:20
Alignment explanation
Indices: 32577469--32577521 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
32577459 TTTTACAAAC
* *
32577469 TAAAATAT-AATCTTAAAAA
1 TAAAATATAAATATCAAAAA
* *
32577488 TTAAATCTAAATATCAAAAA
1 TAAAATATAAATATCAAAAA
32577508 TAAAATATAAATAT
1 TAAAATATAAATAT
32577522 ATAATATACA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATATAAATATCAAAAA
Found at i:32580386 original size:61 final size:61
Alignment explanation
Indices: 32580264--32580546 Score: 269
Period size: 61 Copynumber: 4.6 Consensus size: 61
32580254 ATTTACTAAA
* * * ** * * * * * *
32580264 ATATGAAAGCCTTTGTAGTTGTTCTTTGCTGTATGTGAGCCATTGTGGTGAAAAATTTTAT
1 ATATGAAAGCCTTTGTGGCTGTTCTCTATTATATCTGAGCCTTTGTGGTGGAATATGTTAT
* * * * * ** *
32580325 ATGTGAAAGCTTTTGCGGCTATTATCTACCATAACTGAGCCTTTGTGGTGGAATATGTTAT
1 ATATGAAAGCCTTTGTGGCTGTTCTCTATTATATCTGAGCCTTTGTGGTGGAATATGTTAT
* * ** *
32580386 ATATGGAAGCCTTTGTGGCTGTTCCCTATTATATCTGAGCCTTTGTGGCAGAACATGTTAT
1 ATATGAAAGCCTTTGTGGCTGTTCTCTATTATATCTGAGCCTTTGTGGTGGAATATGTTAT
* * * * *
32580447 ATAAGAAAGCCTTTGTGGCTGTTCTTTGTTATATCTGAGCCTTTGTGGAGTAATATGTTAT
1 ATATGAAAGCCTTTGTGGCTGTTCTCTATTATATCTGAGCCTTTGTGGTGGAATATGTTAT
* * * *
32580508 ATGTGGAAGCCTTTATGGCTGTTCTCTATTATATGTGAG
1 ATATGAAAGCCTTTGTGGCTGTTCTCTATTATATCTGAG
32580547 TCTTACGATG
Statistics
Matches: 176, Mismatches: 46, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
61 176 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (61 bp):
ATATGAAAGCCTTTGTGGCTGTTCTCTATTATATCTGAGCCTTTGTGGTGGAATATGTTAT
Found at i:32580400 original size:31 final size:31
Alignment explanation
Indices: 32580362--32580521 Score: 105
Period size: 31 Copynumber: 5.2 Consensus size: 31
32580352 ACCATAACTG
*
32580362 AGCCTTTGTGGTGGAATATGTTATATATGGA
1 AGCCTTTGTGGTGTAATATGTTATATATGGA
**** * *
32580393 AGCCTTTGTGGCTGTTCCCTATTATATCT-G-
1 AGCCTTTGTGG-TGTAATATGTTATATATGGA
* * * *
32580423 AGCCTTTGTGGCAG-AACATGTTATATAAGAA
1 AGCCTTTGTGG-TGTAATATGTTATATATGGA
** * *
32580454 AGCCTTTGTGGCTGTTCTTTGTTATATCT-G-
1 AGCCTTTGTGG-TGTAATATGTTATATATGGA
* *
32580484 AGCCTTTGTGGAGTAATATGTTATATGTGGA
1 AGCCTTTGTGGTGTAATATGTTATATATGGA
32580515 AGCCTTT
1 AGCCTTT
32580522 ATGGCTGTTC
Statistics
Matches: 95, Mismatches: 28, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
29 20 0.21
30 25 0.26
31 32 0.34
32 18 0.19
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (31 bp):
AGCCTTTGTGGTGTAATATGTTATATATGGA
Found at i:32580427 original size:30 final size:30
Alignment explanation
Indices: 32580379--32580494 Score: 99
Period size: 30 Copynumber: 3.8 Consensus size: 30
32580369 GTGGTGGAAT
*
32580379 ATGTTATATATGGAAGCCTTTGTGGCTGTTCC
1 ATGTTATATCT-G-AGCCTTTGTGGCTGTTCC
* * * **
32580411 CTATTATATCTGAGCCTTTGTGGCAG-AAC
1 ATGTTATATCTGAGCCTTTGTGGCTGTTCC
** *
32580440 ATGTTATATAAGAAAGCCTTTGTGGCTGTTCT
1 ATGTTATATCTG--AGCCTTTGTGGCTGTTCC
*
32580472 TTGTTATATCTGAGCCTTTGTGG
1 ATGTTATATCTGAGCCTTTGTGG
32580495 AGTAATATGT
Statistics
Matches: 64, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
29 9 0.14
30 24 0.38
31 14 0.22
32 17 0.27
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.41
Consensus pattern (30 bp):
ATGTTATATCTGAGCCTTTGTGGCTGTTCC
Found at i:32581984 original size:41 final size:41
Alignment explanation
Indices: 32581939--32582069 Score: 210
Period size: 41 Copynumber: 3.2 Consensus size: 41
32581929 TCTCTGAATC
*
32581939 AATGAAAAGGTTGAAAAGGATGTTATCTAAAAAGAATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCTAAAAAGGATATCA
*
32581980 AATGAAAAGGTTGAAAAGGATGTTATCTGAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCTAAAAAGGATATCA
* *
32582021 AATGAAAAGGTTGAAAAGGATATTATCCAAAAAGGATAAT-A
1 AATGAAAAGGTTGAAAAGGATGTTATCTAAAAAGGAT-ATCA
32582062 AATGAAAA
1 AATGAAAA
32582070 TGATGTATTT
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
41 82 0.98
42 2 0.02
ACGTcount: A:0.52, C:0.05, G:0.21, T:0.23
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGATGTTATCTAAAAAGGATATCA
Found at i:32584986 original size:86 final size:86
Alignment explanation
Indices: 32584757--32585015 Score: 371
Period size: 86 Copynumber: 3.0 Consensus size: 86
32584747 TTACGGCTAA
* *
32584757 TTTTTTT-TATTACTATTTATTTGTATGTTTGTTACTTAATTAGTATAAACAAACTAATTAAATA
1 TTTTTTTGTATTATTATTTATTTGTATGCTTGTTACTTAATTAGTATAAACAAACTAATTAAATA
* *
32584821 CTGAACTGACATATTTGAGA-
66 CTGAAATGATATATTTGAGAT
* * * *
32584841 TTTTTTTGTATTATTATTTTTTTGTATGCTTGTCACTTAATTAGTATAAAGAAATTAATTAAATA
1 TTTTTTTGTATTATTATTTATTTGTATGCTTGTTACTTAATTAGTATAAACAAACTAATTAAATA
*
32584906 CTAAAATGATATATTTGAGAT
66 CTGAAATGATATATTTGAGAT
*
32584927 TTTTTTTGTATTATTATTTATTTGTATGCTTCTTACTTAATTAGTATGAAA-AAACTAATTAAAT
1 TTTTTTTGTATTATTATTTATTTGTATGCTTGTTACTTAATTAGTAT-AAACAAACTAATTAAAT
* * *
32584991 ATTGAAATGATATGTTTGAGGT
65 ACTGAAATGATATATTTGAGAT
32585013 TTT
1 TTT
32585016 CAGAGTTTTT
Statistics
Matches: 155, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
84 7 0.05
85 68 0.44
86 77 0.50
87 3 0.02
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.50
Consensus pattern (86 bp):
TTTTTTTGTATTATTATTTATTTGTATGCTTGTTACTTAATTAGTATAAACAAACTAATTAAATA
CTGAAATGATATATTTGAGAT
Found at i:32590823 original size:40 final size:40
Alignment explanation
Indices: 32590759--32590926 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
32590749 CCTTTGGGAT
** *
32590759 TTAA-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAACCCGGATATAATAACTAGCACAATTGCCTTCGGGTC
* * *
32590798 TTAACCCGGATTTAGTAACTTGCACAATTGCCTTCGGGTC
1 TTAACCCGGATATAATAACTAGCACAATTGCCTTCGGGTC
* *
32590838 TTAACCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTC
1 TTAACCCGGATATAATAACTAGCAC-AATTGCCTTCGGGTC
* * * *
32590878 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGAC
1 TTAACCCGGATATAATAACTAGCACAATTGCCTTCGGGTC
*
32590918 TTAGCCCGG
1 TTAACCCGG
32590927 GTATCATTCA
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 6 0.05
40 103 0.93
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
TTAACCCGGATATAATAACTAGCACAATTGCCTTCGGGTC
Found at i:32590903 original size:80 final size:80
Alignment explanation
Indices: 32590749--32590926 Score: 216
Period size: 80 Copynumber: 2.2 Consensus size: 80
32590739 GAGTCACGTA
* * * * *
32590749 CCTTTGGGATTTAA-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTAG
1 CCTTCGGGACTTAACCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
* *
32590813 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* ** *
32590828 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAACCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
*
32590892 ATCACTAGCACAAATG
65 ATAACTAGCACAAATG
*
32590908 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAACCCGG
32590927 GTATCATTCA
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 11 0.13
80 70 0.84
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
TAACTAGCACAAATG
Found at i:32605008 original size:66 final size:67
Alignment explanation
Indices: 32604879--32605008 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 67
32604869 GGGATGTATC
*
32604879 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
32604944 AGGACA
62 AGGACA
* *
32604950 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
32605009 TTCACCATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
66 24 0.44
67 9 0.16
68 1 0.02
71 21 0.38
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Done.