Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 80 of 208
Found at i:23501428 original size:13 final size:13
Alignment explanation
Indices: 23501412--23501510 Score: 92
Period size: 13 Copynumber: 7.5 Consensus size: 13
23501402 TTACTAAAAT
*
23501412 TTACTTTAATATA
1 TTACTTAAATATA
*
23501425 TTACTTGAATATA
1 TTACTTAAATATA
*
23501438 TTACTTAAATAAA
1 TTACTTAAATATA
*
23501451 TTACTTAAATACA
1 TTACTTAAATATA
*
23501464 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
23501478 TTGGTTAAATTTA
1 TTACTTAAATATA
*
23501491 TTACTTAAATACA
1 TTACTTAAATATA
23501504 TTACTTA
1 TTACTTA
23501511 CTAAAATTTA
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
12 3 0.04
13 58 0.84
14 5 0.07
15 3 0.04
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.45
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:23501486 original size:40 final size:40
Alignment explanation
Indices: 23501442--23501519 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
23501432 AATATATTAC
23501442 TTAAATAAATTACTTAAATACATTACTTACTAAAATTTGG
1 TTAAATAAATTACTTAAATACATTACTTACTAAAATTTGG
**
23501482 TTAAATTTATTACTTAAATACATTACTTACTAAAATTT
1 TTAAATAAATTACTTAAATACATTACTTACTAAAATTT
23501520 AAGTATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (40 bp):
TTAAATAAATTACTTAAATACATTACTTACTAAAATTTGG
Found at i:23501543 original size:9 final size:9
Alignment explanation
Indices: 23501529--23501913 Score: 206
Period size: 9 Copynumber: 44.4 Consensus size: 9
23501519 TAAGTATATA
*
23501529 TTACATTAC
1 TTACATAAC
23501538 TTACATAAC
1 TTACATAAC
*
23501547 TTAAATAAC
1 TTACATAAC
*
23501556 TTACACAAC
1 TTACATAAC
*
23501565 -TACACAAC
1 TTACATAAC
23501573 TTACATAAC
1 TTACATAAC
23501582 TTACATAA-
1 TTACATAAC
23501590 -TACATAAC
1 TTACATAAC
*
23501598 TCT-GATAAC
1 T-TACATAAC
* *
23501607 TAACATTA-
1 TTACATAAC
*
23501615 -TACACAAC
1 TTACATAAC
23501623 TTACATAA-
1 TTACATAAC
* *
23501631 -GACATTAC
1 TTACATAAC
*
23501639 TTACAAAAC
1 TTACATAAC
*
23501648 TTACATTA-
1 TTACATAAC
*
23501656 -TACACAAC
1 TTACATAAC
*
23501664 TTACATAAT
1 TTACATAAC
*** *
23501673 TTTTTTAATAT
1 TTACAT-A-AC
23501684 TATACATAAC
1 T-TACATAAC
* *
23501694 GTACATTA-
1 TTACATAAC
23501702 -TACATAAC
1 TTACATAAC
23501710 TTACATAAC
1 TTACATAAC
23501719 -T-CATAAC
1 TTACATAAC
23501726 TTACATAAC
1 TTACATAAC
*
23501735 TTA-ATTACATT
1 TTACA-TA-A-C
* **
23501746 TTGCA-CCC
1 TTACATAAC
23501754 TTTACATAAC
1 -TTACATAAC
23501764 TTACATAAC
1 TTACATAAC
*
23501773 TTACATAGC
1 TTACATAAC
*
23501782 TTACAT-TC
1 TTACATAAC
*
23501790 -TACACAAC
1 TTACATAAC
23501798 TTACATAAC
1 TTACATAAC
* *
23501807 ATACATTAC
1 TTACATAAC
**
23501816 TTTGATAAC
1 TTACATAAC
23501825 TTACATAAC
1 TTACATAAC
23501834 TTACATAA-
1 TTACATAAC
23501842 -TACATAAC
1 TTACATAAC
*
23501850 TTACATAGC
1 TTACATAAC
*
23501859 TTACTTAA-
1 TTACATAAC
23501867 -TACATAAC
1 TTACATAAC
23501875 TTACATAAC
1 TTACATAAC
23501884 TT--ATACAC
1 TTACATA-AC
*
23501892 GTACATAAC
1 TTACATAAC
*
23501901 TTACATAAT
1 TTACATAAC
23501910 TTAC
1 TTAC
23501914 TTAATACATA
Statistics
Matches: 281, Mismatches: 62, Indels: 66
0.69 0.15 0.16
Matches are distributed among these distances:
7 53 0.19
8 16 0.06
9 195 0.69
10 8 0.03
11 6 0.02
12 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.34
Consensus pattern (9 bp):
TTACATAAC
Found at i:23501595 original size:16 final size:17
Alignment explanation
Indices: 23501530--23501908 Score: 157
Period size: 16 Copynumber: 21.9 Consensus size: 17
23501520 AAGTATATAT
*
23501530 TACATTACTTACATAAC
1 TACATAACTTACATAAC
* *
23501547 TTAAATAACTTACACAAC
1 -TACATAACTTACATAAC
*
23501565 TACACAACTTACATAAC
1 TACATAACTTACATAAC
23501582 TTACATAA--TACATAAC
1 -TACATAACTTACATAAC
* *
23501598 T-CTGATAACTAACATTA-
1 TAC--ATAACTTACATAAC
*
23501615 TACACAACTTACATAA-
1 TACATAACTTACATAAC
* * *
23501631 GACATTACTTACAAAAC
1 TACATAACTTACATAAC
* *
23501648 TTACATTA--TACACAAC
1 -TACATAACTTACATAAC
*
23501664 TTACATAATTTTTTTA-ATATTA-
1 -TACATAA----CTTACATA--AC
* *
23501686 TACATAACGTACATTA-
1 TACATAACTTACATAAC
23501702 TACATAACTTACATAAC
1 TACATAACTTACATAAC
23501719 T-CATAACTTACATAAC
1 TACATAACTTACATAAC
* * **
23501735 TTA-ATTACATTTTGCA-CCC
1 -TACA-TA-A-CTTACATAAC
23501754 TTTACATAACTTACATAAC
1 --TACATAACTTACATAAC
* *
23501773 TTACATAGCTTACAT-TC
1 -TACATAACTTACATAAC
*
23501790 TACACAACTTACATAAC
1 TACATAACTTACATAAC
* **
23501807 ATACATTACTTTGATAAC
1 -TACATAACTTACATAAC
23501825 TTACATAACTTACATAA-
1 -TACATAACTTACATAAC
*
23501842 TACATAACTTACATAGC
1 TACATAACTTACATAAC
*
23501859 TTACTTAA--TACATAAC
1 -TACATAACTTACATAAC
23501875 TTACATAACTT--ATACAC
1 -TACATAACTTACATA-AC
23501892 GTACATAACTTACATAA
1 -TACATAACTTACATAA
23501909 TTTACTTAAT
Statistics
Matches: 275, Mismatches: 51, Indels: 70
0.69 0.13 0.18
Matches are distributed among these distances:
14 1 0.00
15 1 0.00
16 122 0.44
17 34 0.12
18 88 0.32
19 7 0.03
20 9 0.03
21 10 0.04
22 2 0.01
23 1 0.00
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (17 bp):
TACATAACTTACATAAC
Found at i:23501605 original size:25 final size:25
Alignment explanation
Indices: 23501539--23501630 Score: 96
Period size: 25 Copynumber: 3.6 Consensus size: 25
23501529 TTACATTACT
* * *
23501539 TACATAACTTAAATAACTTACACAA
1 TACACAACTTACATAACTTACATAA
23501564 CTACACAACTTACATAACTTACATAA
1 -TACACAACTTACATAACTTACATAA
* * * *
23501590 TACATAACTCT-GATAACTAACATTA
1 TACACAACT-TACATAACTTACATAA
23501615 TACACAACTTACATAA
1 TACACAACTTACATAA
23501631 GACATTACTT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.02
25 31 0.56
26 23 0.42
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (25 bp):
TACACAACTTACATAACTTACATAA
Found at i:23501630 original size:41 final size:41
Alignment explanation
Indices: 23501536--23501672 Score: 134
Period size: 41 Copynumber: 3.3 Consensus size: 41
23501526 ATATTACATT
* * * *
23501536 ACTTACATAACTTAAATAACTTACACAACTACACAACT-TACATA
1 ACTTACATAA--TACATAACTTACAAAACTA-AC-ATTATACACA
* *
23501580 ACTTACATAATACATAACTCT-GATAACTAACATTATACACA
1 ACTTACATAATACATAACT-TACAAAACTAACATTATACACA
* * *
23501621 ACTTACATAAGACATTACTTACAAAACTTACATTATACACA
1 ACTTACATAATACATAACTTACAAAACTAACATTATACACA
23501662 ACTTACATAAT
1 ACTTACATAAT
23501673 TTTTTTAATA
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
40 3 0.04
41 51 0.65
42 14 0.18
43 1 0.01
44 10 0.13
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (41 bp):
ACTTACATAATACATAACTTACAAAACTAACATTATACACA
Found at i:23501793 original size:25 final size:25
Alignment explanation
Indices: 23501765--23501913 Score: 138
Period size: 25 Copynumber: 5.8 Consensus size: 25
23501755 TTACATAACT
*
23501765 TACATAACTTACATAGCTTACATTC
1 TACATAACTTACATAACTTACATTC
* *
23501790 TACACAACTTACATAACATACATTAC
1 TACATAACTTACATAACTTACATT-C
** **
23501816 TTTGATAACTTACATAACTTACATAA
1 -TACATAACTTACATAACTTACATTC
* *
23501842 TACATAACTTACATAGCTTAC-TTAA
1 TACATAACTTACATAACTTACATT-C
* **
23501867 TACATAACTTACATAACTTATACAC
1 TACATAACTTACATAACTTACATTC
*
23501892 GTACATAACTTACATAATTTAC
1 -TACATAACTTACATAACTTAC
23501914 TTAATACATA
Statistics
Matches: 99, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
24 1 0.01
25 59 0.60
26 20 0.20
27 19 0.19
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATTC
Found at i:23501845 original size:34 final size:33
Alignment explanation
Indices: 23501755--23501909 Score: 104
Period size: 34 Copynumber: 4.5 Consensus size: 33
23501745 TTTGCACCCT
* * *
23501755 TTACATAACTTACATAACTTACATAGC-TTA-CAT
1 TTACATAACTTACATAA--TACATAACTTTATAAC
* *
23501788 TCTACACAACTTACATAACATACATTACTTTGATAAC
1 T-TACATAACTTACAT-A-ATACATAACTTT-ATAAC
* *
23501825 TTACATAACTTACATAATACATAACTTACATAGC
1 TTACATAACTTACATAATACATAACTT-TATAAC
*
23501859 TTACTTAA--TACATAACTTACATAAC-TTATACAC
1 TTACATAACTTACATAA--TACATAACTTTATA-AC
*
23501892 GTACATAACTTACATAAT
1 TTACATAACTTACATAAT
23501910 TTACTTAATA
Statistics
Matches: 96, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
32 10 0.10
33 10 0.10
34 48 0.50
35 11 0.11
36 15 0.16
37 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (33 bp):
TTACATAACTTACATAATACATAACTTTATAAC
Found at i:23507947 original size:42 final size:44
Alignment explanation
Indices: 23507774--23507994 Score: 219
Period size: 43 Copynumber: 5.2 Consensus size: 44
23507764 CGCCAAACAA
* * * **
23507774 TAGCGGC-ATTTTTGGAAAAAGCACCGCTAAA-AGTTATGACCTT
1 TAGCGGCGATTTGTGGGAAAAGCGCCGCTAAAGA-ACATGACCTT
*
23507817 TAGCGGCG-TTTGTGGGAAAAGTGCCGCTAAAGAACATGACCTT
1 TAGCGGCGATTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
* ** *
23507860 TAGGGGCGATTT-TGGGAAAAGCGCATCTAAAGAACATGACTTT
1 TAGCGGCGATTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
* *
23507903 TAGCGG-GATTTGTGGG-AAAGCGCCGCTAATGAACTTGACCTT
1 TAGCGGCGATTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
* *
23507945 TAGCGGCGTTTTTATGGTG----GCGCCGCTAAAGAACATGACCTT
1 TAGCGGCG-ATTTGTGG-GAAAAGCGCCGCTAAAGAACATGACCTT
23507987 TAGCGGCG
1 TAGCGGCG
23507995 TTGTCAATAG
Statistics
Matches: 150, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
42 61 0.41
43 78 0.52
44 10 0.07
45 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (44 bp):
TAGCGGCGATTTGTGGGAAAAGCGCCGCTAAAGAACATGACCTT
Found at i:23507995 original size:42 final size:40
Alignment explanation
Indices: 23507839--23507996 Score: 140
Period size: 42 Copynumber: 3.8 Consensus size: 40
23507829 TGGGAAAAGT
* *
23507839 GCCGCTAAAGAACATGACCTTTAGGGGCG-ATTTTGGGAAAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTGGG----GC
** * * *
23507882 GCATCTAAAGAACATGACTTTTAGCGG-GATTTGTGGGAAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTGGG---GC
* *
23507924 GCCGCTAATGAACTTGACCTTTAGCGGCGTTTTTATGGTGGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTTT-TGG-GGC
23507966 GCCGCTAAAGAACATGACCTTTAGCGGCGTT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTT
23507997 GTCAATAGCG
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 59 0.61
43 33 0.34
44 3 0.03
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTGGGGC
Found at i:23513042 original size:17 final size:18
Alignment explanation
Indices: 23513007--23513044 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
23512997 ATTGCAATTC
*
23513007 AAAAACAATGCACTGGAA
1 AAAAACAATGCACTCGAA
*
23513025 AAAAATAATGCA-TCGAA
1 AAAAACAATGCACTCGAA
23513042 AAA
1 AAA
23513045 TCTGGTCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (18 bp):
AAAAACAATGCACTCGAA
Found at i:23523777 original size:43 final size:43
Alignment explanation
Indices: 23523711--23524073 Score: 338
Period size: 43 Copynumber: 8.4 Consensus size: 43
23523701 TTTTAGAAAT
* * *
23523711 AAACGCCGCTAAAGGTCATGACCTTTAGCAGCGCTTCTCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
23523754 AAACGTCGCTATAGATCACGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* *** * ** * *
23523797 AAATGTTTCTATAGATCAAT-ACCTTTAGCGATGTTTTTCCCAG
1 AAACGCCGCTAAAGATC-ATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
23523840 AAACGCCGCTATAGATCATGACTTTTAGCAGCGCTTTTACCTA-
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTT-CCCAC
* * * * * *
23523883 ACATGCCGCTATAGATCATGACTTTTAGCGGCACTTCTT-TCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTT-TTCCCAC
*
23523926 AAACACCGCTAAAGGA-CATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAA-GATCATGACCTTTAGCGGCGCTTTTCCCAC
* * *
23523969 AAACGCCTCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
23524012 AAACGTCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAT
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* *
23524055 AAACACCGCTAAAGGTCAT
1 AAACGCCGCTAAAGATCAT
23524074 AAAAATAAAA
Statistics
Matches: 263, Mismatches: 49, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
42 7 0.03
43 248 0.94
44 8 0.03
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:23524957 original size:23 final size:22
Alignment explanation
Indices: 23524931--23525250 Score: 227
Period size: 23 Copynumber: 13.9 Consensus size: 22
23524921 AATGGAAAGT
23524931 AGCACTTTAACACTTCAATTTAC
1 AGCA-TTTAACACTTCAATTTAC
*
23524954 AGCATTTAAACACTTCAATTTGC
1 AGCATTT-AACACTTCAATTTAC
*
23524977 AGCACTTTAACA-TATCAATTAAC
1 AGCA-TTTAACACT-TCAATTTAC
* * * *
23525000 AACATTTATAAACCTCAA-TAAC
1 AGCATTTA-ACACTTCAATTTAC
** *
23525022 AGCGATAAAACA-TCTCAATTTGC
1 AGC-ATTTAACACT-TCAATTTAC
* * *
23525045 AGCAACTAAACACTTCAATTTGC
1 AGC-ATTTAACACTTCAATTTAC
*
23525068 AGCACTTAAACACTTCAATTTAC
1 AGCA-TTTAACACTTCAATTTAC
**
23525091 AGCATTTAAACACTTCAATTTGTGG
1 AGCATTT-AACACTTCAA-TT-TAC
* *
23525116 AGTACTTTAACACTTCAAGTTAC
1 AGCA-TTTAACACTTCAATTTAC
* *
23525139 AACATTTAAACACTTCAATTTGC
1 AGCATTT-AACACTTCAATTTAC
23525162 AGCACTTTAACA-TATCAATTTAC
1 AGCA-TTTAACACT-TCAATTTAC
* *
23525185 AACATTTAAACACTTCAATTTGC
1 AGCATTT-AACACTTCAATTTAC
23525208 AGCACTTTAACA-TATCAATTTAC
1 AGCA-TTTAACACT-TCAATTTAC
*
23525231 AACATTTAAACACTTCAATT
1 AGCATTT-AACACTTCAATT
23525251 ACTTGTAATT
Statistics
Matches: 238, Mismatches: 36, Indels: 46
0.74 0.11 0.14
Matches are distributed among these distances:
22 34 0.14
23 172 0.72
24 15 0.06
25 14 0.06
26 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (22 bp):
AGCATTTAACACTTCAATTTAC
Found at i:23525006 original size:46 final size:45
Alignment explanation
Indices: 23524931--23525250 Score: 376
Period size: 46 Copynumber: 6.9 Consensus size: 45
23524921 AATGGAAAGT
*
23524931 AGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGC
1 AGCACTTTAACA-TTCAATTTACAACATTTAAACACTTCAATTTGC
* * **
23524977 AGCACTTTAACATATCAATTAACAACATTTATAA-ACCTCAA-TAAC
1 AGCACTTTAACAT-TCAATTTACAACATTTA-AACACTTCAATTTGC
** * * **
23525022 AGCGA-TAAAACATCTCAATTTGCAGCAACTAAACACTTCAATTTGC
1 AGC-ACTTTAACAT-TCAATTTACAACATTTAAACACTTCAATTTGC
* * *
23525068 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGTGG
1 AGCACTTTAACA-TTCAATTTACAACATTTAAACACTTCAA-TT-TGC
* *
23525116 AGTACTTTAACACTTCAAGTTACAACATTTAAACACTTCAATTTGC
1 AGCACTTTAACA-TTCAATTTACAACATTTAAACACTTCAATTTGC
23525162 AGCACTTTAACATATCAATTTACAACATTTAAACACTTCAATTTGC
1 AGCACTTTAACAT-TCAATTTACAACATTTAAACACTTCAATTTGC
23525208 AGCACTTTAACATATCAATTTACAACATTTAAACACTTCAATT
1 AGCACTTTAACAT-TCAATTTACAACATTTAAACACTTCAATT
23525251 ACTTGTAATT
Statistics
Matches: 236, Mismatches: 28, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
44 2 0.01
45 32 0.14
46 156 0.66
47 7 0.03
48 39 0.17
ACGTcount: A:0.39, C:0.22, G:0.06, T:0.33
Consensus pattern (45 bp):
AGCACTTTAACATTCAATTTACAACATTTAAACACTTCAATTTGC
Found at i:23526969 original size:42 final size:41
Alignment explanation
Indices: 23526809--23527052 Score: 287
Period size: 41 Copynumber: 5.9 Consensus size: 41
23526799 CCTACCTTTC
* *
23526809 GGGTCTTTAGCGGCGTTTTATTAAGAAGCGCCGCTAATGCTGT
1 GGGTCTTTAGCGGCGTTTT-TGAAAAAGCGCCGCTAATGCT-T
* * *
23526852 AGG-CTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATTCTAT
1 GGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT-T
*
23526893 GGG-CTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTT
1 GGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
* * *
23526933 TGGCCTTTAACGGCGTTTTGTGAAAAAGCGCCGCTAATGC-T
1 GGGTCTTTAGCGGCGTTTT-TGAAAAAGCGCCGCTAATGCTT
* *
23526974 GGGTCTTTAGCGGCGTTTTCTGGAAAAGCGCCGCTAATGCTG
1 GGGTCTTTAGCGGCGTTTT-TGAAAAAGCGCCGCTAATGCTT
* * *
23527016 GGGTATTTAGCAGCGTTTTATGGAAAAGCGCCGCTAA
1 GGGTCTTTAGCGGCGTTTT-TGAAAAAGCGCCGCTAA
23527053 GGACATTTTA
Statistics
Matches: 177, Mismatches: 21, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
40 3 0.02
41 104 0.59
42 68 0.38
43 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (41 bp):
GGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTT
Found at i:23527013 original size:83 final size:81
Alignment explanation
Indices: 23526809--23527052 Score: 296
Period size: 83 Copynumber: 2.9 Consensus size: 81
23526799 CCTACCTTTC
23526809 GGGTCTTTAGCGGCGTTTTAT-TAAGAAGCGCCGCTAATGCTGTAGGCTTTAGCGGCGTTTTTGA
1 GGGTCTTTAGCGGCGTTTT-TGTAA-AAGCGCCGCTAATGCT-TAGGCTTTAGCGGCGTTTTTGA
* *
23526873 ATAAGCGCCGCTAATTCTAT
63 AAAAGCGCCGCTAATGC-AT
* *
23526893 GGG-CTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTTTGGCCTTTAACGGCGTTTTGTGAA
1 GGGTCTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTTAGG-CTTTAGCGGCGTTTT-TGAA
23526957 AAAGCGCCGCTAATGC-T
64 AAAGCGCCGCTAATGCAT
* ** * * *
23526974 GGGTCTTTAGCGGCGTTTTCTGGAAAAGCGCCGCTAATGCTGGGGTATTTAGCAGCGTTTTATGG
1 GGGTCTTTAGCGGCGTTTT-TGTAAAAGCGCCGCTAATGCTTAGG-CTTTAGCGGCGTTTT-TGA
23527039 AAAAGCGCCGCTAA
63 AAAAGCGCCGCTAA
23527053 GGACATTTTA
Statistics
Matches: 142, Mismatches: 13, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
81 7 0.05
82 46 0.32
83 86 0.61
84 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (81 bp):
GGGTCTTTAGCGGCGTTTTTGTAAAAGCGCCGCTAATGCTTAGGCTTTAGCGGCGTTTTTGAAAA
AGCGCCGCTAATGCAT
Found at i:23527803 original size:283 final size:282
Alignment explanation
Indices: 23527460--23528103 Score: 752
Period size: 283 Copynumber: 2.2 Consensus size: 282
23527450 AATAGTTAAG
*
23527460 GATTTAGGGTTTAGGGATTCAGGGGTCAAGTTAGAGTTTTAGGTTTAGATTAATTAGTTTTTTAA
1 GATTTAGGGTTTAGGGATTCAGGGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTTAA
* * *
23527525 TTTATATTTTAAATATGTTT-TTATATAATTGTAAAAGGGATAATAATAAAATTGTTTAAGGTTT
66 TTTATATTTTAAATAT-TTTCTTATATAATTATAAAAGAGATAATAACAAAATTGTTTAAGGTTT
** * *
23527589 TTGGTTTAGGGTATATGATTAATTTAAGATTTAAGACCGGGTTAGGAGTTATTATTTTAAGGTTT
130 AGGGTTTAGGG----T-ATTAATTTAAGATTTAAGACCAGGTTAGGAGTTAATATTTTAAGGTTT
* *
23527654 A-G-G-G-GGTATGGATT-TAGGGATTATGGTTTAAGGGTTGGGATTTAAAGGTTT-GGGGTTTA
190 ATGAGAGAGGTAGGGATTATAGGGATTATGGTTTAAGGATTGGGATTT-AAGGTTTAGGGG-TTA
23527713 -GGGATAGACGTTACGGGTTAAG-A-ATAT
253 GGGGATAGACGTTACGGGTTAAGAATATAT
* ***
23527740 GATTTAGGTTTTAGGTCGAATTCAGGGGTTGGGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTT
1 GATTTAGGGTTTAGG--G-ATTCAGGGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTT
* * * ** *
23527805 TAATTTATATTTTAAATATTTTCTTATATAATTATAAAAGAGATATTTACGACTTTGTTTAGGGT
63 TAATTTATATTTTAAATATTTTCTTATATAATTATAAAAGAGATAATAACAAAATTGTTTAAGGT
* * *
23527870 TTAGGGTTTAGGGTATTAATTTAATATTTAAGGCCAGTTTAGGAGTTAATATTTTAAGGTTTATG
128 TTAGGGTTTAGGGTATTAATTTAAGATTTAAGACCAGGTTAGGAGTTAATATTTTAAGGTTTATG
**
23527935 AAGTATAGATTTAGGGATTAAGGACTAGGGATTATGGTTTAAGGATTGGGATTTAAGGTTTAGGG
193 -AG---AGAGGTAGGGATT----A-TAGGGATTATGGTTTAAGGATTGGGATTTAAGGTTTAGGG
* *
23528000 GTTAGGGGTTAGACGTTAGGGGTTAAGAATTATAT
249 GTTAGGGGATAGACGTTACGGGTTAAGAA-TATAT
* *
23528035 GATTTAGGGTTTAGAGATTCA-GGGTCAATTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTGTA
1 GATTTAGGGTTTAGGGATTCAGGGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTT-TA
23528099 ATTTA
65 ATTTA
23528104 CATGTATTGA
Statistics
Matches: 307, Mismatches: 33, Indels: 36
0.82 0.09 0.10
Matches are distributed among these distances:
278 44 0.14
279 2 0.01
280 14 0.05
281 1 0.00
282 4 0.01
283 105 0.34
285 1 0.00
286 7 0.02
291 46 0.15
292 64 0.21
293 2 0.01
295 17 0.06
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.43
Consensus pattern (282 bp):
GATTTAGGGTTTAGGGATTCAGGGGTCAAGTTAGGGTTTTAGGTTTAGATTAATTAGTTTTTTAA
TTTATATTTTAAATATTTTCTTATATAATTATAAAAGAGATAATAACAAAATTGTTTAAGGTTTA
GGGTTTAGGGTATTAATTTAAGATTTAAGACCAGGTTAGGAGTTAATATTTTAAGGTTTATGAGA
GAGGTAGGGATTATAGGGATTATGGTTTAAGGATTGGGATTTAAGGTTTAGGGGTTAGGGGATAG
ACGTTACGGGTTAAGAATATAT
Found at i:23527976 original size:21 final size:21
Alignment explanation
Indices: 23527942--23527996 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
23527932 ATGAAGTATA
* *
23527942 GATTTAGGGATTAAGGACTAGG
1 GATTTAAGGTTTAAGGA-TAGG
* *
23527964 GA-TTATGGTTTAAGGATTGG
1 GATTTAAGGTTTAAGGATAGG
23527984 GATTTAAGGTTTA
1 GATTTAAGGTTTA
23527997 GGGGTTAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 5 0.18
21 21 0.75
22 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.33, T:0.36
Consensus pattern (21 bp):
GATTTAAGGTTTAAGGATAGG
Found at i:23529340 original size:428 final size:429
Alignment explanation
Indices: 23528768--23529624 Score: 1572
Period size: 428 Copynumber: 2.0 Consensus size: 429
23528758 ATTTAATTTT
23528768 GGCAATTACGCAGGACCACATTATAAGGAAAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCG
1 GGCAATTACGCAGGACCACATTATAAGGAAAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCG
* *
23528833 CAACTATGTACCCATTTTTTTCAAAACGACGTCGTTCGCATTTAGAAATTTAATTTAATTTGTGG
66 CAACTATGTACCCATTTTTTTCAAAACGACGTCATTCCCATTTAGAAATTTAATTTAATTTGTGG
23528898 CATTTTTCGGGAAAACGCCGTAAATATGTATTATAATTTCTCAGAACGGCACCATTTCAGAAGAA
131 CATTTTTCGGGAAAACGCCGTAAATATGTATTATAATTTCTCAGAACGGCACCATTTCAGAAGAA
* *
23528963 GAGTGTAACCTATTAGTGGCGTTTATGCTAAAAACGCCGCAATTATGTTTTAATGTTTTTCAAAA
196 GAGTGTAACCTATTAGTGGCGTTTATGCTAAAAAAGCCGCAATTATGTATTAATGTTTTTCAAAA
* *
23529028 CGTTACCGTTTCTCTTTAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAACGCCAGAACTATA
261 CGTCACCGTTTCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAACGCCAGAACTATA
23529093 GATTAAAGTTTCTTAAAACGGCACCGTTTCTATTCAGTAAGGTAATTTTTAGTGGCGTTTTTGCT
326 GATTAAAGTTTCTTAAAACGGCACCGTTTCTATTCAGTAAGGTAATTTTTAGTGGCGTTTTTGCT
23529158 AAAAACGCCGCAAATATACATTTAAGGTTCTTAAAACGG
391 AAAAACGCCGCAAATATACATTTAAGGTTCTTAAAACGG
*
23529197 GGCAATTACGCAGGACCACATTATAAGG-AAAAAAAACATTAGTGGCGTTTTCATAGAAACGCCG
1 GGCAATTACGCAGGACCACATTATAAGGAAAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCG
23529261 CAACTATGTACCCATTTTTTTCAAAACGACGTCATTCCCATTTAGAAATTTAATTTAATTTGTGG
66 CAACTATGTACCCATTTTTTTCAAAACGACGTCATTCCCATTTAGAAATTTAATTTAATTTGTGG
* * * *
23529326 CGTTTTTTGGGAAAACGCCGTAAATATGTATTATAATTTCTCAGAACGGCACCGTTTCAGAAGAG
131 CATTTTTCGGGAAAACGCCGTAAATATGTATTATAATTTCTCAGAACGGCACCATTTCAGAAGAA
*
23529391 GAGTGTAATCTATTAGTGGCGTTTATGCTAAAAAAGCCGCAATTATGTATTAATGTTTTTCAAAA
196 GAGTGTAACCTATTAGTGGCGTTTATGCTAAAAAAGCCGCAATTATGTATTAATGTTTTTCAAAA
* *
23529456 CGTCACCGTTTCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAATGCCAGAACTATG
261 CGTCACCGTTTCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAACGCCAGAACTATA
23529521 GATTAAAGTTTCTTAAAACGGCACCGTTTCTATTCAGTAAGGTAATTTTTAGTGGCGTTTTTGCT
326 GATTAAAGTTTCTTAAAACGGCACCGTTTCTATTCAGTAAGGTAATTTTTAGTGGCGTTTTTGCT
*
23529586 AAAAACGCCGCAAATATATATTTAAGGTTCTTAAAACGG
391 AAAAACGCCGCAAATATACATTTAAGGTTCTTAAAACGG
23529625 TGCTGTTTCA
Statistics
Matches: 413, Mismatches: 15, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
428 385 0.93
429 28 0.07
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.33
Consensus pattern (429 bp):
GGCAATTACGCAGGACCACATTATAAGGAAAAAAAAACATTAGTGGCGTTTGCATAGAAACGCCG
CAACTATGTACCCATTTTTTTCAAAACGACGTCATTCCCATTTAGAAATTTAATTTAATTTGTGG
CATTTTTCGGGAAAACGCCGTAAATATGTATTATAATTTCTCAGAACGGCACCATTTCAGAAGAA
GAGTGTAACCTATTAGTGGCGTTTATGCTAAAAAAGCCGCAATTATGTATTAATGTTTTTCAAAA
CGTCACCGTTTCTCTTCAGGACTTGAAATTTTAGTGGCGTTTTTCGGGAAAACGCCAGAACTATA
GATTAAAGTTTCTTAAAACGGCACCGTTTCTATTCAGTAAGGTAATTTTTAGTGGCGTTTTTGCT
AAAAACGCCGCAAATATACATTTAAGGTTCTTAAAACGG
Found at i:23529617 original size:83 final size:83
Alignment explanation
Indices: 23529403--23529624 Score: 209
Period size: 83 Copynumber: 2.7 Consensus size: 83
23529393 GTGTAATCTA
* * * * *
23529403 TTAGTGGCGTTTATGCTAAAAAAGCCGCAATTATGTA-TTAATGTTTTTCAAAACGTCACCGTTT
1 TTAGTGGCGTTTTTGCTAAAAAAGCCGCAAATATGTATTTAAGGTTCTT-AAAACGGCACCGTTT
* * *
23529467 CTCTTCAGGACTTGAAATT
65 CTATTCAGAACGTGAAATT
** * * * * *
23529486 TTAGTGGCGTTTTT-CGGGAAAATGCCAG-AACTATGGATTAAAGTTTCTTAAAACGGCACCGTT
1 TTAGTGGCGTTTTTGC-TAAAAAAGCC-GCAAATATGTATTTAAGGTTCTTAAAACGGCACCGTT
* *
23529549 TCTATTCAGTAAGGT-AATTT
64 TCTATTCAG-AACGTGAAATT
* *
23529569 TTAGTGGCGTTTTTGCTAAAAACGCCGCAAATATATATTTAAGGTTCTTAAAACGG
1 TTAGTGGCGTTTTTGCTAAAAAAGCCGCAAATATGTATTTAAGGTTCTTAAAACGG
23529625 TGCTGTTTCA
Statistics
Matches: 109, Mismatches: 24, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
82 2 0.02
83 96 0.88
84 11 0.10
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (83 bp):
TTAGTGGCGTTTTTGCTAAAAAAGCCGCAAATATGTATTTAAGGTTCTTAAAACGGCACCGTTTC
TATTCAGAACGTGAAATT
Found at i:23530209 original size:16 final size:16
Alignment explanation
Indices: 23530188--23530248 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
23530178 ACCTATTTTC
23530188 TTATTTTGGTATCTAA
1 TTATTTTGGTATCTAA
* **
23530204 TTATTTTGGTATAATTC
1 TTATTTTGGTAT-CTAA
23530221 TTATTTTGGTATCTAA
1 TTATTTTGGTATCTAA
23530237 TTATTTTGGTAT
1 TTATTTTGGTAT
23530249 ACTCAAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 25 0.66
17 13 0.34
ACGTcount: A:0.23, C:0.05, G:0.13, T:0.59
Consensus pattern (16 bp):
TTATTTTGGTATCTAA
Found at i:23530222 original size:33 final size:33
Alignment explanation
Indices: 23530185--23530249 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
23530175 TATACCTATT
23530185 TTCTTATTTTGGTATCTAATTATTTTGGTATAA
1 TTCTTATTTTGGTATCTAATTATTTTGGTATAA
23530218 TTCTTATTTTGGTATCTAATTATTTTGGTATA
1 TTCTTATTTTGGTATCTAATTATTTTGGTATA
23530250 CTCAAATTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.06, G:0.12, T:0.58
Consensus pattern (33 bp):
TTCTTATTTTGGTATCTAATTATTTTGGTATAA
Found at i:23530587 original size:157 final size:157
Alignment explanation
Indices: 23530301--23530614 Score: 610
Period size: 157 Copynumber: 2.0 Consensus size: 157
23530291 AATGTCTTTG
23530301 ACCATTCCTCTAGCTAATCTGCAGCAGAAAATATCATCATTTCATGTTTATTGAGAACTGTTTCT
1 ACCATTCCTCTAGCTAATCTGCAGCAGAAAATATCATCATTTCATGTTTATTGAGAACTGTTTCT
23530366 TAGCATATGTTGCAAAATGATGGGTTTGTTAGTGGCTTTTTTAAGTGCAGGACAGAAAAGGGAAA
66 TAGCATATGTTGCAAAATGATGGGTTTGTTAGTGGCTTTTTTAAGTGCAGGACAGAAAAGGGAAA
23530431 ATCTAGCTAAATTGAATCTCAAAATAA
131 ATCTAGCTAAATTGAATCTCAAAATAA
*
23530458 ACCATTCCTCTATCTAATCTGCAGCAGAAAATATCATCATTTCATGTTTATTGAGAACTGTTTCT
1 ACCATTCCTCTAGCTAATCTGCAGCAGAAAATATCATCATTTCATGTTTATTGAGAACTGTTTCT
*
23530523 TAGCATATGTTGCAAAATGATGGGTTTGTTAGTGGCTTTTTTAAGTGTAGGACAGAAAAGGGAAA
66 TAGCATATGTTGCAAAATGATGGGTTTGTTAGTGGCTTTTTTAAGTGCAGGACAGAAAAGGGAAA
23530588 ATCTAGCTAAATTGAATCTCAAAATAA
131 ATCTAGCTAAATTGAATCTCAAAATAA
23530615 TAATGAAGTT
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (157 bp):
ACCATTCCTCTAGCTAATCTGCAGCAGAAAATATCATCATTTCATGTTTATTGAGAACTGTTTCT
TAGCATATGTTGCAAAATGATGGGTTTGTTAGTGGCTTTTTTAAGTGCAGGACAGAAAAGGGAAA
ATCTAGCTAAATTGAATCTCAAAATAA
Found at i:23531870 original size:29 final size:30
Alignment explanation
Indices: 23531829--23531888 Score: 68
Period size: 33 Copynumber: 1.9 Consensus size: 30
23531819 GATTAGTTTA
*
23531829 TTCGGTTTAATG-TGAATAAATTATCGATT
1 TTCGATTTAATGATGAATAAATTATCGATT
*
23531858 TTCGATTTTATGTCAATGAATAAATTATCGA
1 TTCGATTTAATG---ATGAATAAATTATCGA
23531889 CGTTAGATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.40
33 15 0.60
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (30 bp):
TTCGATTTAATGATGAATAAATTATCGATT
Found at i:23532073 original size:13 final size:13
Alignment explanation
Indices: 23532027--23532153 Score: 55
Period size: 13 Copynumber: 9.4 Consensus size: 13
23532017 TATAACTTAC
*
23532027 ATTACGTAAATAT
1 ATTACTTAAATAT
* *
23532040 ATTAATTACTAAAAT
1 ATTACTTA--AATAT
23532055 -TTACTTAAATAT
1 ATTACTTAAATAT
*
23532067 ATTACTTAAATAC
1 ATTACTTAAATAT
*
23532080 ATTCCTTACTAA-A-
1 ATTACTTA--AATAT
* * *
23532093 ATTAAAGTATATATTAC
1 ATT--ACT-TA-AATAT
*
23532110 ATTACTTACAT-T
1 ATTACTTAAATAT
*
23532122 ACTTACTAAAATAT
1 A-TTACTTAAATAT
23532136 ATTACTTAAATAT
1 ATTACTTAAATAT
23532149 ATTAC
1 ATTAC
23532154 ATTACTTAAA
Statistics
Matches: 85, Mismatches: 17, Indels: 24
0.67 0.13 0.19
Matches are distributed among these distances:
12 5 0.06
13 52 0.61
14 11 0.13
15 11 0.13
16 3 0.04
17 3 0.04
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.42
Consensus pattern (13 bp):
ATTACTTAAATAT
Found at i:23532154 original size:35 final size:35
Alignment explanation
Indices: 23532055--23532161 Score: 96
Period size: 35 Copynumber: 3.1 Consensus size: 35
23532045 TTACTAAAAT
* * *
23532055 TTACTTAAATATATTACTTAAATACATT-CCTTAC
1 TTACTAAAATATATTACTTAAATATATTACATTAC
* * * *
23532089 TAAAATTAAAGTATA-TA-TTACAT-TACTTACATTAC
1 T--TACTAAAATATATTACTTAAATATA-TTACATTAC
23532124 TTACTAAAATATATTACTTAAATATATTACATTAC
1 TTACTAAAATATATTACTTAAATATATTACATTAC
23532159 TTA
1 TTA
23532162 AAATTATTAC
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
33 10 0.18
34 10 0.18
35 25 0.45
36 10 0.18
ACGTcount: A:0.43, C:0.13, G:0.01, T:0.43
Consensus pattern (35 bp):
TTACTAAAATATATTACTTAAATATATTACATTAC
Found at i:23532159 original size:18 final size:18
Alignment explanation
Indices: 23532136--23532225 Score: 92
Period size: 18 Copynumber: 4.6 Consensus size: 18
23532126 ACTAAAATAT
23532136 ATTACTTAAATATATTAC
1 ATTACTTAAATATATTAC
23532154 ATTACTTAAA-ATTATTAC
1 ATTACTTAAATA-TATTAC
23532172 ATTACTTACAAAAATTTATAACTTAC
1 ATTACTT----AAA--TAT-A-TTAC
23532198 ATTACTTAAATATATTAC
1 ATTACTTAAATATATTAC
23532216 ATTACTTAAA
1 ATTACTTAAA
23532226 ATTTATATAT
Statistics
Matches: 62, Mismatches: 0, Indels: 20
0.76 0.00 0.24
Matches are distributed among these distances:
17 1 0.02
18 37 0.60
19 1 0.02
20 3 0.05
22 6 0.10
24 1 0.02
25 2 0.03
26 11 0.18
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTACTTAAATATATTAC
Found at i:23532177 original size:62 final size:62
Alignment explanation
Indices: 23532104--23532228 Score: 180
Period size: 62 Copynumber: 2.0 Consensus size: 62
23532094 TTAAAGTATA
** *
23532104 TATTACATTACTTAC-ATTACTTACTAAAATATATTACTTAAATATATTACATTACTTAAAAT
1 TATTACATTACTTACAAAAACTTA-TAAAATACATTACTTAAATATATTACATTACTTAAAAT
* **
23532166 TATTACATTACTTACAAAAATTTATAACTTACATTACTTAAATATATTACATTACTTAAAAT
1 TATTACATTACTTACAAAAACTTATAAAATACATTACTTAAATATATTACATTACTTAAAAT
23532228 T
1 T
23532229 TATATATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 51 0.91
63 5 0.09
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.43
Consensus pattern (62 bp):
TATTACATTACTTACAAAAACTTATAAAATACATTACTTAAATATATTACATTACTTAAAAT
Found at i:23532305 original size:43 final size:43
Alignment explanation
Indices: 23532257--23532345 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
23532247 TATTTTTAAA
23532257 ATTTATATATATGGTATGGATATATAACCTATATTTCAATTTT
1 ATTTATATATATGGTATGGATATATAACCTATATTTCAATTTT
23532300 ATTTATATATATGGTATGGATATATAACCTATATTTCAATTTT
1 ATTTATATATATGGTATGGATATATAACCTATATTTCAATTTT
23532343 ATT
1 ATT
23532346 GTCAATAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (43 bp):
ATTTATATATATGGTATGGATATATAACCTATATTTCAATTTT
Found at i:23532568 original size:9 final size:9
Alignment explanation
Indices: 23532550--23532748 Score: 128
Period size: 9 Copynumber: 23.8 Consensus size: 9
23532540 CTTATATATA
*
23532550 AACTTGCAT
1 AACTTACAT
23532559 AACTTACAT
1 AACTTACAT
*
23532568 AA-TAACATAAT
1 AACTTAC---AT
23532579 AACTTACAT
1 AACTTACAT
*
23532588 TA--TACAT
1 AACTTACAT
*
23532595 AACCTACAT
1 AACTTACAT
23532604 AACTTACAT
1 AACTTACAT
*
23532613 AA--TACAC
1 AACTTACAT
23532620 AACTTACAT
1 AACTTACAT
*
23532629 AACTTAAAT
1 AACTTACAT
23532638 AACTTACAT
1 AACTTACAT
23532647 AA--T--AT
1 AACTTACAT
**
23532652 AACTTTGAT
1 AACTTACAT
*
23532661 AACTAACAT
1 AACTTACAT
* *
23532670 TA--TACAC
1 AACTTACAT
23532677 AACTTACAT
1 AACTTACAT
23532686 AA--TACAT
1 AACTTACAT
*
23532693 TACTTACAT
1 AACTTACAT
23532702 AACTTACAT
1 AACTTACAT
23532711 AA--TA-AT
1 AACTTACAT
23532717 AACTTACAT
1 AACTTACAT
*
23532726 AA--TACAC
1 AACTTACAT
23532733 AACTTACAT
1 AACTTACAT
23532742 AACTTAC
1 AACTTAC
23532749 CCGTGCAATT
Statistics
Matches: 147, Mismatches: 22, Indels: 42
0.70 0.10 0.20
Matches are distributed among these distances:
5 4 0.03
6 4 0.03
7 32 0.22
8 5 0.03
9 95 0.65
11 4 0.03
12 3 0.02
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:23532582 original size:20 final size:21
Alignment explanation
Indices: 23532556--23532715 Score: 79
Period size: 25 Copynumber: 6.8 Consensus size: 21
23532546 TATAAACTTG
23532556 CATAACTTACATAATAACATA
1 CATAACTTACATAATAACATA
*
23532577 -ATAACTTACATTATACATAACCTA
1 CATAACTTAC---ATA-ATAACATA
23532601 CATAACTTACATAATACACAACTTA
1 CATAACTTACATAATA-AC-A--TA
* *
23532626 CATAACTTAAATAACTTACATAA
1 CATAACTTACATAA-TAACAT-A
* **
23532649 TATAACTTTGATAACTAACATTATA
1 CATAACTTACATAA-TAAC---ATA
* *
23532674 CACAACTTACATAATACATTACTTA
1 CATAACTTACATAAT--A--ACATA
23532699 CATAACTTACATAATAA
1 CATAACTTACATAATAA
23532716 TAACTTACAT
Statistics
Matches: 107, Mismatches: 14, Indels: 36
0.68 0.09 0.23
Matches are distributed among these distances:
20 9 0.08
21 4 0.04
22 6 0.06
23 20 0.19
24 9 0.08
25 53 0.50
26 4 0.04
28 2 0.02
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.32
Consensus pattern (21 bp):
CATAACTTACATAATAACATA
Found at i:23532608 original size:25 final size:25
Alignment explanation
Indices: 23532569--23532648 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
23532559 AACTTACATA
*
23532569 ATAACATA-ATAACTTACATTATAC
1 ATAACATACATAACTTACATAATAC
*
23532593 ATAACCTACATAACTTACATAATAC
1 ATAACATACATAACTTACATAATAC
* * *
23532618 ACAACTTACATAACTTAAATAACTTAC
1 ATAACATACATAACTTACATAA--TAC
23532645 ATAA
1 ATAA
23532649 TATAACTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 7 0.15
25 34 0.72
27 6 0.13
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (25 bp):
ATAACATACATAACTTACATAATAC
Found at i:23532664 original size:82 final size:78
Alignment explanation
Indices: 23532557--23532729 Score: 201
Period size: 82 Copynumber: 2.2 Consensus size: 78
23532547 ATAAACTTGC
* *
23532557 ATAACTTACAT-A-ATAACATAATAACTTACATTATACATAACCTACATAACTTACA-TA-ATAC
1 ATAACTTACATAATATAACATAATAACTAACATTATACACAACCTACATAA--TACATTACATAC
23532618 ACAACTTACATAACTTAA
64 ACAACTTACATAA--T-A
* * * *
23532636 ATAACTTACATAATATAACTTTGATAACTAACATTATACACAACTTACATAATACATTACTTACA
1 ATAACTTACATAATATAAC-ATAATAACTAACATTATACACAACCTACATAATACATTACATACA
*
23532701 TAACTTACATAATA
65 CAACTTACATAATA
23532715 ATAACTTACATAATA
1 ATAACTTACATAATA
23532730 CACAACTTAC
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
79 27 0.33
80 6 0.07
81 7 0.09
82 42 0.51
ACGTcount: A:0.49, C:0.18, G:0.01, T:0.32
Consensus pattern (78 bp):
ATAACTTACATAATATAACATAATAACTAACATTATACACAACCTACATAATACATTACATACAC
AACTTACATAATA
Found at i:23532720 original size:15 final size:16
Alignment explanation
Indices: 23532599--23532743 Score: 99
Period size: 16 Copynumber: 9.0 Consensus size: 16
23532589 ATACATAACC
23532599 TACATAACTTACATAA
1 TACATAACTTACATAA
*
23532615 TACACAACTTACATAA
1 TACATAACTTACATAA
*
23532631 CTTAAATAACTTACATAATA
1 --TACATAACTTACAT-A-A
* *
23532651 TAACTTTGATAACTAACATTA
1 T-AC----ATAACTTACATAA
*
23532672 TACACAACTTACATAA
1 TACATAACTTACATAA
23532688 TAC---A-TTAC-T--
1 TACATAACTTACATAA
23532697 TACATAACTTACATAA
1 TACATAACTTACATAA
23532713 TA-ATAACTTACATAA
1 TACATAACTTACATAA
*
23532728 TACACAACTTACATAA
1 TACATAACTTACATAA
23532744 CTTACCCGTG
Statistics
Matches: 102, Mismatches: 10, Indels: 34
0.70 0.07 0.23
Matches are distributed among these distances:
9 3 0.03
11 1 0.01
12 5 0.05
13 5 0.05
14 1 0.01
15 15 0.15
16 42 0.41
18 13 0.13
19 2 0.02
20 3 0.03
21 2 0.02
23 10 0.10
ACGTcount: A:0.48, C:0.19, G:0.01, T:0.32
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:23538312 original size:66 final size:65
Alignment explanation
Indices: 23538205--23538375 Score: 218
Period size: 66 Copynumber: 2.6 Consensus size: 65
23538195 GAGCAAATTA
* * * * *
23538205 CACAACTTAAAGCGAAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCAGAGGTTCAACAAAAG-TATGAAGAACTCCA
23538269 G
65 G
* *
23538270 CTACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCCGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCAGAGGTTCAACAAAAGTATGAAGAACTCCA
23538335 G
65 G
* * *
23538336 CAGCAGCTTAAAGCAGATGCGGCAGCGAGAGAAGCAGAGG
1 CA-CAACTTAAAGCGGATGCAGCAGCGAGAGAAGCAGAGG
23538376 CTGCAACGAG
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 87 0.94
67 4 0.04
ACGTcount: A:0.40, C:0.20, G:0.28, T:0.12
Consensus pattern (65 bp):
CACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCAGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:23538371 original size:21 final size:21
Alignment explanation
Indices: 23538346--23538437 Score: 121
Period size: 21 Copynumber: 4.4 Consensus size: 21
23538336 CAGCAGCTTA
* * *
23538346 AAGCAGATGCGGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
*
23538367 AAGCAGAGGCTGCAACGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
**
23538388 AAGCAGAGGCTAAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
23538409 AAGTAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
23538430 AAGCAGAG
1 AAGCAGAG
23538438 CAGCGTAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.35, C:0.16, G:0.43, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:23539184 original size:43 final size:43
Alignment explanation
Indices: 23538800--23539178 Score: 496
Period size: 43 Copynumber: 8.8 Consensus size: 43
23538790 AAGAGAAGGG
* * * *
23538800 TCTTTAGCGGCGTTTGTGTAGAAAACGCCGCTAAAGATAAGGA
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCAGGT
* *
23538843 TCTTTTGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGAT-AGGGG
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCA-GGT
* * * * *
23538886 TCTTTTGCGGTGTTTGTAGAGAAAGCGCCGCTAAAGACCAGAT
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCAGGT
23538929 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGCA-CAGGT
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAG-ATCAGGT
* *
23538972 TCTTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGATCAGGT
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCAGGT
* *
23539015 TCTTTAGCGGCGTTTGTGGAGAAAGCGTCACTAAAGATCAGGT
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCAGGT
* *
23539058 TCTTTAGCGGCATTTGTGGAGAAAGCACCGCTAAAGATCAGGT
1 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCAGGT
* * ** *
23539101 TCTTTAGCGGCGTTTGTGG-GAAAAGAGCCGCTAAAGGTCCTGC
1 TCTTTAGCGGCGTTTGTGGAG-AAAGCGCCGCTAAAGATCAGGT
23539144 TCTTTAGCGGCGTTTGT-GAGAAAAGCGCCGCTAAA
1 TCTTTAGCGGCGTTTGTGGAG-AAAGCGCCGCTAAA
23539179 AGTCCTCGTG
Statistics
Matches: 299, Mismatches: 31, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
42 4 0.01
43 293 0.98
44 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATCAGGT
Found at i:23539224 original size:43 final size:42
Alignment explanation
Indices: 23538800--23539224 Score: 145
Period size: 43 Copynumber: 9.9 Consensus size: 42
23538790 AAGAGAAGGG
** * *** *
23538800 TCTTTAGCGGCGTTTGTGTAGAAAACGCCGCTAAAGATAAGGA
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAG-TCCTGC
* ** * * *** *
23538843 TCTTTTGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATAGGGG
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAG-TCCTGC
* * * * * * * *
23538886 TCTTTTGCGGTGTTTGTAGAGAAAGCGCCGCTAAAGACCAGAT
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAGTCCTG-C
** * * * *
23538929 TCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAG-CACAGGT
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAGTC-C-TGC
* ** * ** *
23538972 TCTTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGATCAGGT
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAG-TCCTGC
** * * * * ** *
23539015 TCTTTAGCGGCGTTTGTGGAGAAAGCGTCACTAAAGATCAGGT
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAG-TCCTGC
* ** * * * ** *
23539058 TCTTTAGCGGCATTTGTGGAGAAAGCACCGCTAAAGATCAGGT
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAG-TCCTGC
** *
23539101 TCTTTAGCGGCGTTTGTGGGAAAAGA-GCCGCTAAAGGTCCTGC
1 TCTTTAGCGGCGTTTGT-AAAAAAAACGCCGCTAAA-GTCCTGC
* * *
23539144 TCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCCT-C
1 TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCT-AAAGTCCTGC
* *
23539186 GTGTTTAGCGGCGTTTTTAATAAAAAACGCCGCTAAAGT
1 -TCTTTAGCGGCGTTTGTAA-AAAAAACGCCGCTAAAGT
23539225 TAGCGACGCC
Statistics
Matches: 327, Mismatches: 44, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
42 7 0.02
43 298 0.91
44 21 0.06
45 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (42 bp):
TCTTTAGCGGCGTTTGTAAAAAAAACGCCGCTAAAGTCCTGC
Found at i:23541790 original size:7 final size:7
Alignment explanation
Indices: 23541780--23541821 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
23541770 ATAAACCTTA
23541780 AACCCCT
1 AACCCCT
23541787 AACCCCT
1 AACCCCT
*
23541794 AACCTCT
1 AACCCCT
23541801 AACCCCT
1 AACCCCT
23541808 AACCCCT
1 AACCCCT
23541815 AACCCCT
1 AACCCCT
23541822 CATTTACAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.29, C:0.55, G:0.00, T:0.17
Consensus pattern (7 bp):
AACCCCT
Found at i:23541952 original size:14 final size:14
Alignment explanation
Indices: 23541935--23541980 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
23541925 CACTAACTCT
* *
23541935 TAACCTTTAACCTC
1 TAACCCTTAACCCC
23541949 TAACCCTTAACCCC
1 TAACCCTTAACCCC
*
23541963 AAACCCTTAACCCC
1 TAACCCTTAACCCC
23541977 TAAC
1 TAAC
23541981 TACTAACCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.24
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:23542111 original size:74 final size:75
Alignment explanation
Indices: 23541974--23542116 Score: 225
Period size: 74 Copynumber: 1.9 Consensus size: 75
23541964 AACCCTTAAC
* *
23541974 CCCTAACTACTAACCCATAAACCTTATTTAATAAATAAATTAAAAAACATTAATTAATCTAAACC
1 CCCTAACCACTAACCCATAAACATTATTTAAT-AATAAATTAAAAAACATTAATTAATCTAAACC
23542039 CTAACCCGAAT
65 CTAACCCGAAT
* * *
23542050 CCCTAACCCCTAACCCCTAAACATTATTTAAT-ATAAATTAAAACACATTAATTAATCTAAACCC
1 CCCTAACCACTAACCCATAAACATTATTTAATAATAAATTAAAAAACATTAATTAATCTAAACCC
23542114 TAA
66 TAA
23542117 ACCCTAACTT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 34 0.55
76 28 0.45
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (75 bp):
CCCTAACCACTAACCCATAAACATTATTTAATAATAAATTAAAAAACATTAATTAATCTAAACCC
TAACCCGAAT
Found at i:23542314 original size:14 final size:14
Alignment explanation
Indices: 23542295--23542328 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
23542285 CTAAATTAAT
23542295 CATATACCCTAAAC
1 CATATACCCTAAAC
23542309 CATATACCCTAAAC
1 CATATACCCTAAAC
23542323 CATATA
1 CATATA
23542329 TATTAAACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (14 bp):
CATATACCCTAAAC
Found at i:23542619 original size:20 final size:19
Alignment explanation
Indices: 23542588--23542633 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
23542578 ATTAAATTTT
23542588 AATT-AATATAAATAAACA
1 AATTAAATATAAATAAACA
*
23542606 AATTAAATAGTAAATAGACA
1 AATTAAATA-TAAATAAACA
*
23542626 AATAAAAT
1 AATTAAAT
23542634 GTTTTTGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 16 0.67
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (19 bp):
AATTAAATATAAATAAACA
Found at i:23542728 original size:41 final size:41
Alignment explanation
Indices: 23542642--23542915 Score: 277
Period size: 41 Copynumber: 6.7 Consensus size: 41
23542632 ATGTTTTTGA
* * *
23542642 GGCGCTTTTTTAAAAACGCCGCTAAAG-CCAAAGCATTAGC
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGC
* ** * * *
23542682 GGCGCTTCCTGGAAAACGTCGCTAAAGCTCTGAGCATTAGC
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGC
* * *
23542723 GGCGCTTT-TGAAAAAACGCTGCTAGAG-CCTCAAGCATTAGC
1 GGCGCTTTCT-CAAAAACGCCGCTAAAGCCCT-AAGCATTAGC
* * * * ** *
23542764 GGCACTTTTTTAAAAAAGCCGCTAAAGCCCCGAGCATTAGT
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGC
* *
23542805 GGCGCTTTCTCAAAAACGCCGCTAAATCCCTAAGCATTAGT
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGC
* **
23542846 GGCGCATTT-TCAAAAACGCCGCGAAAGCCCCGAGCATTAGC
1 GGCGC-TTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGC
23542887 GGCGCTTTCTCAAAAACGCCGCTAAAGCC
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCC
23542916 TCGAAAGGTC
Statistics
Matches: 190, Mismatches: 37, Indels: 13
0.79 0.15 0.05
Matches are distributed among these distances:
40 28 0.15
41 156 0.82
42 6 0.03
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (41 bp):
GGCGCTTTCTCAAAAACGCCGCTAAAGCCCTAAGCATTAGC
Found at i:23542787 original size:82 final size:81
Alignment explanation
Indices: 23542642--23542915 Score: 325
Period size: 82 Copynumber: 3.4 Consensus size: 81
23542632 ATGTTTTTGA
* * * ** ** *
23542642 GGCGCTTTTTTAAAAACGCCGCTAAAGCCAAAGCATTAGCGGCGCTTCCTGGAAAACGTCGCTAA
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCCCAAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
* *
23542707 AGCTCTGAGCATTAGC
66 AGCCCCGAGCATTAGC
* * * * * *
23542723 GGCGCTTT-TGAAAAAACGCTGCTAGAGCCTCAAGCATTAGCGGCACTTTTTTAAAAAAGCCGCT
1 GGCGCTTTCT-CAAAAACGCCGCTAAAGCC-CAAGCATTAGCGGCGCTTTTTCAAAAACGCCGCT
*
23542787 AAAGCCCCGAGCATTAGT
64 AAAGCCCCGAGCATTAGC
* * * *
23542805 GGCGCTTTCTCAAAAACGCCGCTAAATCCCTAAGCATTAGTGGCGCATTTTCAAAAACGCCGCGA
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCCC-AAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTA
23542870 AAGCCCCGAGCATTAGC
65 AAGCCCCGAGCATTAGC
23542887 GGCGCTTTCTCAAAAACGCCGCTAAAGCC
1 GGCGCTTTCTCAAAAACGCCGCTAAAGCC
23542916 TCGAAAGGTC
Statistics
Matches: 163, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 25 0.15
82 136 0.83
83 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (81 bp):
GGCGCTTTCTCAAAAACGCCGCTAAAGCCCAAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
AGCCCCGAGCATTAGC
Found at i:23542864 original size:123 final size:123
Alignment explanation
Indices: 23542646--23542915 Score: 328
Period size: 123 Copynumber: 2.2 Consensus size: 123
23542636 TTTTGAGGCG
** *
23542646 CTTTTTTAAAAACGCCGCTAAAG-CCAAAGCATTAGCGGCGCTTCCTGGAAAACGTCGCTAAAGC
1 CTTTTTTAAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGC
* * * * * *
23542710 TCTGAGCATTAGCGGCGCTTTTGAAAAAACGCTGCTAGAGCCTCAAGCATTAGCGGCA
66 CCTAAGCATTAGCGGCGCTTTTGAAAAAACGCCGCGAAAGCCCCAAGCATTAGCGGCA
* ** * * *
23542768 CTTTTTTAAAAAAGCCGCTAAAGCCCCGAGCATTAGTGGCGCTTTCTCAAAAACGCCGCTAAATC
1 CTTTTTTAAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGC
* * * *
23542833 CCTAAGCATTAGTGGCGCATTTT-CAAAAACGCCGCGAAAGCCCCGAGCATTAGCGGCG
66 CCTAAGCATTAGCGGCGC-TTTTGAAAAAACGCCGCGAAAGCCCCAAGCATTAGCGGCA
* *
23542891 CTTTCTCAAAAACGCCGCTAAAGCC
1 CTTTTTTAAAAACGCCGCTAAAGCC
23542916 TCGAAAGGTC
Statistics
Matches: 124, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
122 22 0.18
123 98 0.79
124 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (123 bp):
CTTTTTTAAAAACGCCGCTAAAGCCCAAAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGC
CCTAAGCATTAGCGGCGCTTTTGAAAAAACGCCGCGAAAGCCCCAAGCATTAGCGGCA
Found at i:23543070 original size:12 final size:12
Alignment explanation
Indices: 23543053--23543078 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23543043 TTTTTTATCC
23543053 AAATGCCACTAA
1 AAATGCCACTAA
23543065 AAATGCCACTAA
1 AAATGCCACTAA
23543077 AA
1 AA
23543079 GCCTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.23, G:0.08, T:0.15
Consensus pattern (12 bp):
AAATGCCACTAA
Found at i:23547950 original size:16 final size:16
Alignment explanation
Indices: 23547929--23547963 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23547919 GAAAAAATAA
**
23547929 CCCCAAATCGTGAAAT
1 CCCCAAATCACGAAAT
23547945 CCCCAAATCACGAAAT
1 CCCCAAATCACGAAAT
23547961 CCC
1 CCC
23547964 TAAAAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.40, G:0.09, T:0.14
Consensus pattern (16 bp):
CCCCAAATCACGAAAT
Found at i:23548057 original size:30 final size:30
Alignment explanation
Indices: 23548021--23548080 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
23548011 TCTACATCCT
23548021 TAATCCCTTATTCCCAAATCATGAAATCTC
1 TAATCCCTTATTCCCAAATCATGAAATCTC
* *
23548051 TAATCCCTTATTCTCAAATCGTGAAATCTC
1 TAATCCCTTATTCCCAAATCATGAAATCTC
23548081 ATAAACTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (30 bp):
TAATCCCTTATTCCCAAATCATGAAATCTC
Found at i:23556655 original size:3 final size:3
Alignment explanation
Indices: 23556647--23556699 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
23556637 TGTAGACTGC
23556647 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
23556695 TAT TA
1 TAT TA
23556700 GTCAATTTCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:23562105 original size:13 final size:12
Alignment explanation
Indices: 23562087--23562116 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
23562077 AAAATAACTA
23562087 ATATATTAATACT
1 ATATATTAAT-CT
23562100 ATATATTAATCT
1 ATATATTAATCT
23562112 ATATA
1 ATATA
23562117 AGTATATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATTAATCT
Found at i:23562495 original size:15 final size:14
Alignment explanation
Indices: 23562471--23562510 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 14
23562461 AAAGAGGAAT
23562471 TTTAAAATAACTAA
1 TTTAAAATAACTAA
23562485 TTTAAAGATAACTAAA
1 TTTAAA-ATAACT-AA
23562501 TTTTAAAATA
1 -TTTAAAATA
23562511 TCATATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.26
15 6 0.26
16 5 0.22
17 6 0.26
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (14 bp):
TTTAAAATAACTAA
Found at i:23563744 original size:27 final size:27
Alignment explanation
Indices: 23563713--23563772 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
23563703 TTGGACTATT
23563713 TTTA-TTGGACTTTTGATTTTAATTTTA
1 TTTATTTGG-CTTTTGATTTTAATTTTA
* *
23563740 TTTATTTGGCTTTTTATTTTTA-TTTA
1 TTTATTTGGCTTTTGATTTTAATTTTA
*
23563766 CTTATTT
1 TTTATTT
23563773 TTTTATATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 15 0.52
28 4 0.14
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.68
Consensus pattern (27 bp):
TTTATTTGGCTTTTGATTTTAATTTTA
Found at i:23564108 original size:50 final size:49
Alignment explanation
Indices: 23564039--23564264 Score: 173
Period size: 50 Copynumber: 4.5 Consensus size: 49
23564029 TGATGTCGGA
* * *
23564039 GAAGCAAGATTCGCCATTGTGGCTTTAATCTGTTCCACTGCACCGCCAGG
1 GAAGCAAGATTCACGA-TGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
* * * * * * ** * *
23564089 GAAGTAAGATTCACTATTGTAGCTTTAATCTTTTTAACCGCAATGTCGGG
1 GAAGCAAGATTCACGA-TGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
* * *
23564139 GAAGCGAGATTCACCGATGTGGCTTTAATCTGCTCTACTGCACCGCCAGG
1 GAAGCAAGATTCA-CGATGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
* * * * * ** * *
23564189 GAAGTAGGATTCGCCGATGTGGCTTTAATCTTTTTAACTGCAATGTCGGG
1 GAAGCAAGATTC-ACGATGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
*
23564239 GAAGCAAAATTCACCGATGTGGCTTT
1 GAAGCAAGATTCA-CGATGTGGCTTT
23564265 GACCTGCTCC
Statistics
Matches: 132, Mismatches: 41, Indels: 6
0.74 0.23 0.03
Matches are distributed among these distances:
50 130 0.98
51 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (49 bp):
GAAGCAAGATTCACGATGTGGCTTTAATCTGTTCAACTGCACCGCCAGG
Found at i:23564149 original size:100 final size:100
Alignment explanation
Indices: 23564031--23564298 Score: 355
Period size: 100 Copynumber: 2.7 Consensus size: 100
23564021 CTTAACTGTG
* * *
23564031 ATGTCGGAGAAGCAAGATTCGCC-ATTGTGGCTTTAATCTGTTCCACTGCACCGCCAGGGAAGTA
1 ATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTA
*
23564095 AGATTC-ACTATTGTAGCTTTAATCTTTTTAACCGCA
65 AGATTCGACGA-TGTAGCTTTAATCTTTTTAACCGCA
* * *
23564131 ATGTCGGGGAAGCGAGATTCACCGATGTGGCTTTAATCTGCTCTACTGCACCGCCAGGGAAGTAG
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAA
* * *
23564196 GATTCGCCGATGTGGCTTTAATCTTTTTAACTGCA
66 GATTCGACGATGTAGCTTTAATCTTTTTAACCGCA
* * * *
23564231 ATGTCGGGGAAGCAAAATTCACCGATGTGGCTTTGACCTGCTCCACTGTACCG-CAGGG-AGATA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGGAAG-TA
23564294 AGATT
65 AGATT
23564299 TCTGGTTTCA
Statistics
Matches: 148, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
98 2 0.01
99 11 0.07
100 132 0.89
101 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (100 bp):
ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGGAAGTAA
GATTCGACGATGTAGCTTTAATCTTTTTAACCGCA
Found at i:23564514 original size:44 final size:44
Alignment explanation
Indices: 23564465--23564619 Score: 242
Period size: 44 Copynumber: 3.5 Consensus size: 44
23564455 TCCGCTCTAT
* *
23564465 TGTAACTTCAAGGAGATAGGATTATC-GGCTTCAATCTGCTCCAC
1 TGTAACCTCAAGGAGATAAGATT-TCTGGCTTCAATCTGCTCCAC
*
23564509 TGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCAC
1 TGTAACCTCAAGGAGATAAGATTTCTGGCTTCAATCTGCTCCAC
*
23564553 TGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCAC
1 TGTAACCTCAAGGAGATAAGATTTCTGGCTTCAATCTGCTCCAC
23564597 TGTAACCTC-AGAGAGATAAGATT
1 TGTAACCTCAAG-GAGATAAGATT
23564620 CACCATTTTC
Statistics
Matches: 105, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
43 3 0.03
44 102 0.97
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
TGTAACCTCAAGGAGATAAGATTTCTGGCTTCAATCTGCTCCAC
Found at i:23564528 original size:88 final size:89
Alignment explanation
Indices: 23564410--23564895 Score: 325
Period size: 88 Copynumber: 5.4 Consensus size: 89
23564400 ACCTGATGCG
* ** * *
23564410 ATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTT-ATTTTAATCCGCTCTATTGTAACTTC
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTGATTTCAATCTGCTCTATTGTAACTTC
*
23564474 AAGGAGATAGGATTATCGGCTTCA
66 AAGGAGATAAGATTATCGGCTTCA
* * ** * * *
23564498 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT--TTCTGGCTTCAATCTGCTCCACTGTAACCT
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTT-TGATTTCAATCTGCTCTATTGTAACTT
*
23564561 CAGGGAGATAAGATT-TCTGGCTTCA
65 CAAGGAGATAAGATTATC-GGCTTCA
* ** *
23564586 ATCTGCTCCACTGTAACCTCAGAGAGATAAGATTCACCATTTTCGATTAGGAATTCTTTGGTCTA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGA-T--CC--TTT-GATT-TCAA-TC--TGCTCTA
* * * *
23564651 TTCCACTGTAA-TCTC-AGAGAGATAAG---ACCTGATGCA
56 -T----TGTAACT-TCAAG-GAGATAAGATTATCGGCTTCA
* ** * * *
23564687 ATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTT-ATTTTAATCCGCTCCATTGTAACTTC
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTGATTTCAATCTGCTCTATTGTAACTTC
*
23564751 AAGGAGATAGGATTATCGGCTTCA
66 AAGGAGATAAGATTATCGGCTTCA
* ** * *
23564775 ATCTACTCCACTGTAATCTCA-AGGAGATAAGAT--TTCTGGCTTCAATCTGCTCTACTGTAACC
1 ATCTACTCCACTGTAACCTCAGA-GAGATAAGATCCTT-TGATTTCAATCTGCTCTATTGTAACT
* *
23564837 TCAGGGAGATAAGATT-TCTGGCTCCA
64 TCAAGGAGATAAGATTATC-GGCTTCA
* * *
23564863 ATCTGCTCCATTGTAACCTCAGGGAGATAAGAT
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGAT
23564896 TCACCATTTT
Statistics
Matches: 307, Mismatches: 58, Indels: 66
0.71 0.13 0.15
Matches are distributed among these distances:
85 14 0.05
86 7 0.02
87 7 0.02
88 197 0.64
89 2 0.01
90 4 0.01
92 2 0.01
93 2 0.01
94 4 0.01
95 4 0.01
96 5 0.02
97 2 0.01
98 2 0.01
99 5 0.02
100 1 0.00
101 32 0.10
102 1 0.00
103 1 0.00
104 15 0.05
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (89 bp):
ATCTACTCCACTGTAACCTCAGAGAGATAAGATCCTTTGATTTCAATCTGCTCTATTGTAACTTC
AAGGAGATAAGATTATCGGCTTCA
Found at i:23564778 original size:277 final size:277
Alignment explanation
Indices: 23564268--23565056 Score: 1427
Period size: 277 Copynumber: 2.9 Consensus size: 277
23564258 TGGCTTTGAC
* * *
23564268 CTGCTCCACTGT-ACCGCAGGGAGATAAGATTTCTGGTTTCAATCTGTTCCACTGTAACCTCAGG
1 CTGCTCCACTGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
* *
23564332 GAGATAAGATTCACCATTTTCGATTAGGAGTTCTTCGGTCTATTCCACTGTAATCTCAGGGAGAT
66 GAGATAAGATTCACCATTTTCGATTAGGAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGAT
23564397 AAGACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTC
131 AAGACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTC
* *
23564462 TATTGTAACTTCAAGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATA
196 CATTGTAACTTCAAGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATA
23564527 AGATTTCTGGCTTCAAT
261 AGATTTCTGGCTTCAAT
*
23564544 CTGCTCCACTGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGA
1 CTGCTCCACTGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
*
23564609 GAGATAAGATTCACCATTTTCGATTAGGAATTCTTTGGTCTATTCCACTGTAATCTCAGAGAGAT
66 GAGATAAGATTCACCATTTTCGATTAGGAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGAT
*
23564674 AAGACCTGATGCAATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTC
131 AAGACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTC
* *
23564739 CATTGTAACTTCAAGGAGATAGGATTATCGGCTTCAATCTACTCCACTGTAATCTCAAGGAGATA
196 CATTGTAACTTCAAGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATA
23564804 AGATTTCTGGCTTCAAT
261 AGATTTCTGGCTTCAAT
* * *
23564821 CTGCTCTACTGTAACCTCAGGGAGATAAGATTTCTGGCTCCAATCTGCTCCATTGTAACCTCAGG
1 CTGCTCCACTGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
23564886 GAGATAAGATTCACCATTTTCGATTAGGAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGAT
66 GAGATAAGATTCACCATTTTCGATTAGGAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGAT
23564951 AAGACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTC
131 AAGACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTC
*
23565016 CATTGTAACTTAAAGGAGATAGGATTATCGGCTTCAATCTG
196 CATTGTAACTTCAAGGAGATAGGATTATCGGCTTCAATCTG
23565057 TTTCCCTACT
Statistics
Matches: 492, Mismatches: 20, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
276 12 0.02
277 480 0.98
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (277 bp):
CTGCTCCACTGTAACCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
GAGATAAGATTCACCATTTTCGATTAGGAATTCTTTGGTCTATTCCACTGTAATCTCAGGGAGAT
AAGACCTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTC
CATTGTAACTTCAAGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGTAACCTCAAGGAGATA
AGATTTCTGGCTTCAAT
Found at i:23564784 original size:44 final size:44
Alignment explanation
Indices: 23564730--23564896 Score: 219
Period size: 44 Copynumber: 3.8 Consensus size: 44
23564720 CCTTTATTTT
* * * *
23564730 AATCCGCTCCATTGTAACTTCAAGGAGATAGGATTATC-GGCTTC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATT-TCTGGCTTC
* *
23564774 AATCTACTCCACTGTAATCTCAAGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATTTCTGGCTTC
* * *
23564818 AATCTGCTCTACTGTAACCTCAGGGAGATAAGATTTCTGGCTCC
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATTTCTGGCTTC
* *
23564862 AATCTGCTCCATTGTAACCTCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAACCTCAAGGAGATAAGATT
23564897 CACCATTTTC
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 2 0.02
44 107 0.98
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGTAACCTCAAGGAGATAAGATTTCTGGCTTC
Found at i:23565221 original size:130 final size:130
Alignment explanation
Indices: 23565030--23565343 Score: 515
Period size: 130 Copynumber: 2.4 Consensus size: 130
23565020 GTAACTTAAA
* * * *
23565030 GGAGATAGGATTA-TCGGCTTCAATCTGTTTCCCTACTCCTGGGGAAGATAATATTCGCCGCTTA
1 GGAGATAGGACTAGT-GGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGCTTA
23565094 GATCTGCTTCCCCACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCA
65 GATCTGCTTCCCCACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCA
*
23565159 T
130 G
23565160 GGAGATAGGACTAGTGGCTTAAATCTGTTTCCCTAC-CCTTGGGGAAGATAAGATTCACCGCTTA
1 GGAGATAGGACTAGTGGCTTAAATCTGTTTCCCTACTCC-TGGGGAAGATAAGATTCACCGCTTA
* *
23565224 GATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCA
65 GATCTGCTTCCCCACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCA
23565289 G
130 G
* *
23565290 GGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGAT
1 GGAGATAGGACTAGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGAT
23565344 CCGTAATCTT
Statistics
Matches: 172, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
129 2 0.01
130 167 0.97
131 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (130 bp):
GGAGATAGGACTAGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGCTTAG
ATCTGCTTCCCCACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCTGACCAG
Found at i:23565365 original size:87 final size:87
Alignment explanation
Indices: 23565219--23565430 Score: 415
Period size: 87 Copynumber: 2.4 Consensus size: 87
23565209 AAGATTCACC
*
23565219 GCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCT
23565284 GACCAGGGACATAGGACTTGTG
66 GACCAGGGACATAGGACTTGTG
23565306 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCT
23565371 GACCAGGGACATAGGACTTGTG
66 GACCAGGGACATAGGACTTGTG
23565393 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGAT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGAT
23565431 TTACCGCTTA
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 124 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (87 bp):
GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCT
GACCAGGGACATAGGACTTGTG
Found at i:23565371 original size:217 final size:217
Alignment explanation
Indices: 23565089--23565560 Score: 820
Period size: 217 Copynumber: 2.2 Consensus size: 217
23565079 AATATTCGCC
* * *
23565089 GCTTAGATCTGCTTCCCCACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCT
* *
23565154 GACCATGGAGATAGGACTAGTGGCTTAAATCTGTTTCCCTAC-CCTTGGGGAAGATAAGATTCAC
66 GACCAGGGACATAGGACTAGTGGCTTAAATCTGTTTCCCTACTCC-TGGGGAAGATAAGATTCAC
* * * *
23565218 CGCTTAGATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGC
130 CGCTTAGATATGTTTCCCTAATCCTGGGGAAGATAAGATCCATAATCTTCAACCTATCCCACTAC
23565283 TGACCAGGGACATAGGACTTGTG
195 TGACCAGGGACATAGGACTTGTG
23565306 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCT
* *
23565371 GACCAGGGACATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTTACC
66 GACCAGGGACATAGGACTAGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACC
23565436 GCTTAGATATGTTTCCCTAATCCTGGGGAAGATAAGATCCATAATCTTCAACCTATCCCACTACT
131 GCTTAGATATGTTTCCCTAATCCTGGGGAAGATAAGATCCATAATCTTCAACCTATCCCACTACT
23565501 GACCAGGGACATAGGACTTGTG
196 GACCAGGGACATAGGACTTGTG
*
23565523 GCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGAT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGAT
23565561 TCGCCGTCTT
Statistics
Matches: 242, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
217 240 0.99
218 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (217 bp):
GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATCCGTAATCTTCAACCTATCCCACTGCT
GACCAGGGACATAGGACTAGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACC
GCTTAGATATGTTTCCCTAATCCTGGGGAAGATAAGATCCATAATCTTCAACCTATCCCACTACT
GACCAGGGACATAGGACTTGTG
Found at i:23565816 original size:132 final size:131
Alignment explanation
Indices: 23565335--23565917 Score: 807
Period size: 132 Copynumber: 4.4 Consensus size: 131
23565325 CTCCTGGGGA
* * *
23565335 AGATAAGATCCGTAATCTT-CAACCTATCCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAA
1 AGATAAGATCTGTAAT-TTCCAACCTATTCCACTGCTGGCCAGGGACATAGGACTTGTGGCTTAA
** * * ** * *
23565399 ATCTGTTTCCCTACTCCTGGGGAAGATAAGATTTACCG-CTTAGATATGTTTCC-CTAAT-CCTG
65 ATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCT-ACTCCACTATTGCCTA
23565461 GGG
129 GGG
** * * *
23565464 AAGATAAGATCCATAATCTT-CAACCTATCCCACTACTGACCAGGGACATAGGACTTGTGGCTTA
1 -AGATAAGATCTGTAAT-TTCCAACCTATTCCACTGCTGGCCAGGGACATAGGACTTGTGGCTTA
* *
23565528 AATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTATTGCTTA
64 AATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTATTGCCTA
23565593 GGG
129 GGG
23565596 AGATAAGATCTGTAATTTCCAACCTATTCCACTGCTGGCCAGGGACATAGGACTTGTGGCTTAAA
1 AGATAAGATCTGTAATTTCCAACCTATTCCACTGCTGGCCAGGGACATAGGACTTGTGGCTTAAA
*
23565661 TCTGTTTCCCTACTCCTGGGGAAGAAAAGATTCGCCGTCTTCGATCTACTCCACTATTGCCTAGG
66 TCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTATTGCCTAGG
23565726 G
131 G
* * *
23565727 AGATAAGATCTGTAGTTTCCCAACCTATTCCACTACTGGCCAGGGATATAGGACTTGTGGCTTAA
1 AGATAAGATCTGTAATTT-CCAACCTATTCCACTGCTGGCCAGGGACATAGGACTTGTGGCTTAA
* * * *
23565792 ATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCATCTTCGATCTGCTTCACTATTTCCTAG
65 ATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTATTGCCTAG
23565857 GG
130 GG
* * * *
23565859 AGACAAGATTTGTAGTTTCTCAACCTATTCCACTGCTGGCCAGGGATATAGGACTTGTG
1 AGATAAGATCTGTAATTTC-CAACCTATTCCACTGCTGGCCAGGGACATAGGACTTGTG
23565918 ATTTGACCGA
Statistics
Matches: 416, Mismatches: 31, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
130 102 0.25
131 149 0.36
132 165 0.40
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (131 bp):
AGATAAGATCTGTAATTTCCAACCTATTCCACTGCTGGCCAGGGACATAGGACTTGTGGCTTAAA
TCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTATTGCCTAGG
G
Found at i:23567178 original size:7 final size:7
Alignment explanation
Indices: 23567159--23567207 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
23567149 TTAGCCTCTC
23567159 CATTTTT
1 CATTTTT
23567166 -ACTTTTT
1 CA-TTTTT
23567173 CATTTTTT
1 CA-TTTTT
23567181 CATTTTT
1 CATTTTT
23567188 CA-TTTT
1 CATTTTT
23567194 CATTTTT
1 CATTTTT
*
23567201 AATTTTT
1 CATTTTT
23567208 TTAACTCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 7 0.19
7 22 0.59
8 8 0.22
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:23567193 original size:13 final size:13
Alignment explanation
Indices: 23567177--23567206 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23567167 CTTTTTCATT
*
23567177 TTTTCATTTTTCA
1 TTTTCATTTTTAA
23567190 TTTTCATTTTTAA
1 TTTTCATTTTTAA
23567203 TTTT
1 TTTT
23567207 TTTAACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTTAA
Found at i:23568146 original size:6 final size:6
Alignment explanation
Indices: 23568137--23568162 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
23568127 GACCTTGACC
23568137 TTGATT TTGATT TTGATT TTGATT TT
1 TTGATT TTGATT TTGATT TTGATT TT
23568163 TCTTGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (6 bp):
TTGATT
Found at i:23568186 original size:7 final size:7
Alignment explanation
Indices: 23568174--23568203 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
23568164 CTTGTTTTTG
23568174 TTTATTT
1 TTTATTT
23568181 TTTATTT
1 TTTATTT
23568188 TTTATTT
1 TTTATTT
23568195 TTTATTT
1 TTTATTT
23568202 TT
1 TT
23568204 GGATCTGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTATTT
Found at i:23572410 original size:13 final size:12
Alignment explanation
Indices: 23572392--23572421 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
23572382 AAATTAACTA
23572392 ATATATTAATACT
1 ATATATTAAT-CT
23572405 ATATATTAATCT
1 ATATATTAATCT
23572417 ATATA
1 ATATA
23572422 AGTAGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATTAATCT
Found at i:23572447 original size:17 final size:17
Alignment explanation
Indices: 23572421--23572454 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23572411 TAATCTATAT
*
23572421 AAGTAGTATATAGAAAA
1 AAGTAATATATAGAAAA
*
23572438 AAGTAATATATATAAAA
1 AAGTAATATATAGAAAA
23572455 TGGAGAACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (17 bp):
AAGTAATATATAGAAAA
Found at i:23572801 original size:15 final size:14
Alignment explanation
Indices: 23572777--23572816 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 14
23572767 AAAGAGGAAT
23572777 TTTAAAATAACTAA
1 TTTAAAATAACTAA
23572791 TTTAAAGATAACTAAA
1 TTTAAA-ATAACT-AA
23572807 TTTTAAAATA
1 -TTTAAAATA
23572817 TCATATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.26
15 6 0.26
16 5 0.22
17 6 0.26
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (14 bp):
TTTAAAATAACTAA
Found at i:23573839 original size:21 final size:23
Alignment explanation
Indices: 23573791--23573842 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
23573781 AAGGCAGTGG
**
23573791 GCGTGGCGTGTACGGAGGTGCGA
1 GCGTGGCACGTACGGAGGTGCGA
*
23573814 ACGTGGCACGTACGGA-G-GCGA
1 GCGTGGCACGTACGGAGGTGCGA
23573835 GCGTGGCA
1 GCGTGGCA
23573843 GTGTGTGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 11 0.44
22 1 0.04
23 13 0.52
ACGTcount: A:0.17, C:0.21, G:0.48, T:0.13
Consensus pattern (23 bp):
GCGTGGCACGTACGGAGGTGCGA
Found at i:23574049 original size:27 final size:27
Alignment explanation
Indices: 23574019--23574070 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
23574009 TTGGACTGTT
23574019 TTTATTAGACTTTTGATTTTAATTTTA
1 TTTATTAGACTTTTGATTTTAATTTTA
* * * *
23574046 TTTATTTGGCTTTTTATTTTTATTT
1 TTTATTAGACTTTTGATTTTAATTT
23574071 ACTTGTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.19, C:0.04, G:0.08, T:0.69
Consensus pattern (27 bp):
TTTATTAGACTTTTGATTTTAATTTTA
Found at i:23574081 original size:22 final size:22
Alignment explanation
Indices: 23574035--23574084 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
23574025 AGACTTTTGA
* *
23574035 TTTTAATTTTATTTATTTGGCT
1 TTTTATTTTTATTTACTTGGCT
**
23574057 TTTTATTTTTATTTACTTGTTT
1 TTTTATTTTTATTTACTTGGCT
23574079 TTTTAT
1 TTTTAT
23574085 ATGCATGTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.16, C:0.04, G:0.06, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTATTTACTTGGCT
Found at i:23574342 original size:21 final size:22
Alignment explanation
Indices: 23574292--23574343 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
23574282 TAGTAAATAC
* *
23574292 ATCAAAAATTAAACTTACCATT
1 ATCAATAATTAAACTTAACATT
**
23574314 A-CCTTAATTAAACTTAAC-TT
1 ATCAATAATTAAACTTAACATT
23574334 ATCAATAATT
1 ATCAATAATT
23574344 TAAATATAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
20 3 0.13
21 19 0.83
22 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (22 bp):
ATCAATAATTAAACTTAACATT
Found at i:23574524 original size:23 final size:23
Alignment explanation
Indices: 23574498--23574588 Score: 119
Period size: 23 Copynumber: 4.0 Consensus size: 23
23574488 CATCACTAAT
*
23574498 TTGCACCAAAGTGCCACTGTCAA
1 TTGCACCAAAGTGCCACTTTCAA
*
23574521 TTGCACCAGAGTGCCACTTTCAA
1 TTGCACCAAAGTGCCACTTTCAA
* * **
23574544 TTGCATCGAAGTGTTACTTTCAA
1 TTGCACCAAAGTGCCACTTTCAA
*
23574567 TTGCACCGAAGTGCCACTTTCA
1 TTGCACCAAAGTGCCACTTTCA
23574589 GTTTGCGCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (23 bp):
TTGCACCAAAGTGCCACTTTCAA
Found at i:23577500 original size:11 final size:11
Alignment explanation
Indices: 23577478--23577534 Score: 60
Period size: 11 Copynumber: 4.8 Consensus size: 11
23577468 ATTTGCTTTA
23577478 ATTAATTAAAAT
1 ATTAA-TAAAAT
23577490 ATTAATAAAATAT
1 ATTAAT-AAA-AT
23577503 ATTTAATAAAAT
1 A-TTAATAAAAT
*
23577515 ATTATTAAAAT
1 ATTAATAAAAT
*
23577526 ATTATTAAA
1 ATTAATAAA
23577535 TAATTTTATC
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
11 19 0.46
12 11 0.27
13 6 0.15
14 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATTAATAAAAT
Found at i:23577510 original size:14 final size:13
Alignment explanation
Indices: 23577478--23577522 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
23577468 ATTTGCTTTA
*
23577478 ATTAATTAAA-AT
1 ATTAATAAAATAT
23577490 ATTAATAAAATAT
1 ATTAATAAAATAT
23577503 ATTTAATAAAATATT
1 A-TTAATAAAATA-T
23577518 ATTAA
1 ATTAA
23577523 AATATTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 9 0.31
13 3 0.10
14 15 0.52
15 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTAATAAAATAT
Found at i:23577514 original size:25 final size:26
Alignment explanation
Indices: 23577479--23577537 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
23577469 TTTGCTTTAA
23577479 TTAATTAAAATATTAATAAAATA-TAT
1 TTAA-TAAAATATTAATAAAATATTAT
*
23577505 TTAATAAAATATTATTAAAATATTAT
1 TTAATAAAATATTAATAAAATATTAT
*
23577531 TAAATAA
1 TTAATAA
23577538 TTTTATCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAATAAAATATTAATAAAATATTAT
Found at i:23578903 original size:29 final size:29
Alignment explanation
Indices: 23578859--23578917 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
23578849 GTTTTCATAG
* * *
23578859 TTTTAGATTAGGTTTTCTTTTTGTTTTTT
1 TTTTAGAATAGATTTTCTTTTTGTTGTTT
23578888 TTTTAGAATAGATTTTCTTTTTGTTGTTT
1 TTTTAGAATAGATTTTCTTTTTGTTGTTT
23578917 T
1 T
23578918 CTTTCTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.14, C:0.03, G:0.14, T:0.69
Consensus pattern (29 bp):
TTTTAGAATAGATTTTCTTTTTGTTGTTT
Found at i:23584253 original size:50 final size:52
Alignment explanation
Indices: 23584127--23584258 Score: 141
Period size: 50 Copynumber: 2.6 Consensus size: 52
23584117 ATGAACAAAT
* *
23584127 GAGTTACTTAATGCA-AGACTTAATTTAATGATGCAGACTTAAACTAACATTG
1 GAGTTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTAACATTG
* *
23584179 GAGTTACATAATGCATGTAA--TTATTT-ATGATGCATACTT-AACTAGCA-TG
1 GAGTTACATAATGCA--TAACTTTATTTAATGATGCAGACTTAAACTAACATTG
*
23584228 GAAGTTACATAATGCATAACTTTATTAAATG
1 G-AGTTACATAATGCATAACTTTATTTAATG
23584259 TAGAACACAC
Statistics
Matches: 68, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
48 3 0.04
49 3 0.04
50 26 0.38
51 15 0.22
52 19 0.28
54 1 0.01
55 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (52 bp):
GAGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATTG
Found at i:23587779 original size:17 final size:15
Alignment explanation
Indices: 23587757--23587800 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 15
23587747 GGGTGTTTTG
23587757 ATAAATTAAAATAGTT
1 ATAAATTAAAATA-TT
23587773 AATAAATTAATAATATT
1 -ATAAATTAA-AATATT
*
23587790 ATAAGTTAAAA
1 ATAAATTAAAA
23587801 ACATAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 8 0.32
17 11 0.44
18 4 0.16
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (15 bp):
ATAAATTAAAATATT
Found at i:23588856 original size:20 final size:20
Alignment explanation
Indices: 23588753--23588904 Score: 96
Period size: 20 Copynumber: 7.6 Consensus size: 20
23588743 TGCTTTCGTA
* *
23588753 CTCCTGTTAGCATTACGGTG
1 CTCCTGTTAGCACTACGATG
*
23588773 CTCCTTTTAGCACTAC-ACTG
1 CTCCTGTTAGCACTACGA-TG
* *
23588793 CTCTTGATAGCAC-ACTCG-TG
1 CTCCTGTTAGCACTA--CGATG
* * * * * *
23588813 CTACTGTTGGAACTATGGTT
1 CTCCTGTTAGCACTACGATG
*
23588833 CTCCTGTTACCACTACGATG
1 CTCCTGTTAGCACTACGATG
**
23588853 CTCCTACTAGCACTAC-AGTG
1 CTCCTGTTAGCACTACGA-TG
*
23588873 CTCCTGTTAGCACTACGGTG
1 CTCCTGTTAGCACTACGATG
*
23588893 CTCCTGATAGCA
1 CTCCTGTTAGCA
23588905 TATTTATGCT
Statistics
Matches: 97, Mismatches: 27, Indels: 16
0.69 0.19 0.11
Matches are distributed among these distances:
19 3 0.03
20 92 0.95
21 2 0.02
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.32
Consensus pattern (20 bp):
CTCCTGTTAGCACTACGATG
Found at i:23588904 original size:40 final size:40
Alignment explanation
Indices: 23588753--23588904 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 40
23588743 TGCTTTCGTA
* ** *
23588753 CTCCTGTTAGCATTACGGTGCTCCTTTTAGCACTACACTG
1 CTCCTGTTAGCACTACGGTGCTCCTGATAGCACTACAGTG
* * * * * * * ** *
23588793 CTCTTGATAGCAC-ACTCGTGCTACTGTTGGAACTATGGTT
1 CTCCTGTTAGCACTAC-GGTGCTCCTGATAGCACTACAGTG
* *
23588833 CTCCTGTTACCACTACGATGCTCCT-ACTAGCACTACAGTG
1 CTCCTGTTAGCACTACGGTGCTCCTGA-TAGCACTACAGTG
23588873 CTCCTGTTAGCACTACGGTGCTCCTGATAGCA
1 CTCCTGTTAGCACTACGGTGCTCCTGATAGCA
23588905 TATTTATGCT
Statistics
Matches: 82, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
39 2 0.02
40 77 0.94
41 3 0.04
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.32
Consensus pattern (40 bp):
CTCCTGTTAGCACTACGGTGCTCCTGATAGCACTACAGTG
Found at i:23589003 original size:20 final size:19
Alignment explanation
Indices: 23588940--23589004 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
23588930 ATACCCTGAC
23588940 TGCACATTT-GTGCCA-GTTA
1 TGCAC-TTTGGTGCCATG-TA
* * *
23588959 TGCACTCTGGTGCCCTGTT
1 TGCACTTTGGTGCCATGTA
23588978 TGCACTTTGGTGCTCATGTA
1 TGCACTTTGGTGC-CATGTA
23588998 TGCACTT
1 TGCACTT
23589005 CCATGCCTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 2 0.05
19 23 0.62
20 12 0.32
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (19 bp):
TGCACTTTGGTGCCATGTA
Found at i:23589329 original size:20 final size:20
Alignment explanation
Indices: 23589179--23589330 Score: 92
Period size: 20 Copynumber: 7.6 Consensus size: 20
23589169 TGCTTTCATA
* *
23589179 CTCCTGTTAGCATTACGGTG
1 CTCCTGATAGCACTACGGTG
* * *
23589199 CACCTGTTAGCACTACAGTG
1 CTCCTGATAGCACTACGGTG
* **
23589219 CTCTTGATAGCAC-ACTCATG
1 CTCCTGATAGCACTAC-GGTG
* * * * * *
23589239 CTACTGTTGGAACTATGGTT
1 CTCCTGATAGCACTACGGTG
* *
23589259 CTCCTGTTACCACTACGGTG
1 CTCCTGATAGCACTACGGTG
* *
23589279 CTCCT-ACTAGCACTTCAGTG
1 CTCCTGA-TAGCACTACGGTG
*
23589299 CTCCTGTTAGCACTACGGTG
1 CTCCTGATAGCACTACGGTG
*
23589319 CTCTTGATAGCA
1 CTCCTGATAGCA
23589331 TATTTATACT
Statistics
Matches: 96, Mismatches: 32, Indels: 8
0.71 0.24 0.06
Matches are distributed among these distances:
19 2 0.02
20 93 0.97
21 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (20 bp):
CTCCTGATAGCACTACGGTG
Found at i:23592791 original size:21 final size:21
Alignment explanation
Indices: 23592767--23592807 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23592757 CCATTTTAGG
*
23592767 ATTTTAAATTAGTTCTATTTT
1 ATTTTAAAATAGTTCTATTTT
*
23592788 ATTTTAAAATAGTTTTATTT
1 ATTTTAAAATAGTTCTATTT
23592808 CTTGTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
ATTTTAAAATAGTTCTATTTT
Found at i:23600764 original size:15 final size:15
Alignment explanation
Indices: 23600725--23600776 Score: 77
Period size: 15 Copynumber: 3.3 Consensus size: 15
23600715 AATCTCAGAT
23600725 TTTGATACCCATATC
1 TTTGATACCCATATC
*
23600740 TTTCTGATACCTATATC
1 -TT-TGATACCCATATC
23600757 TTTGATACCCATATC
1 TTTGATACCCATATC
23600772 TTTGA
1 TTTGA
23600777 CTTTCTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 17 0.52
16 4 0.12
17 12 0.36
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.44
Consensus pattern (15 bp):
TTTGATACCCATATC
Found at i:23604319 original size:17 final size:17
Alignment explanation
Indices: 23604297--23604346 Score: 91
Period size: 17 Copynumber: 2.9 Consensus size: 17
23604287 TCTCAGATTT
23604297 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
*
23604314 TGATACCTATATCTTTC
1 TGATACCCATATCTTTC
23604331 TGATACCCATATCTTT
1 TGATACCCATATCTTT
23604347 GACTTTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:23607531 original size:6 final size:6
Alignment explanation
Indices: 23607520--23607570 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
23607510 TCTTAGGAAA
* *
23607520 TTTATG TTTATG TTTATG TTTAGG TTTACTG -TTAT- TTTAGTT TTTATG
1 TTTATG TTTATG TTTATG TTTATG TTTA-TG TTTATG TTTA-TG TTTATG
23607568 TTT
1 TTT
23607571 TATTTTTCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 4 0.11
6 29 0.76
7 5 0.13
ACGTcount: A:0.16, C:0.02, G:0.16, T:0.67
Consensus pattern (6 bp):
TTTATG
Found at i:23607546 original size:18 final size:17
Alignment explanation
Indices: 23607520--23607576 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
23607510 TCTTAGGAAA
*
23607520 TTTATGTTTATGTTTAT
1 TTTAGGTTTATGTTTAT
23607537 GTTTAGGTTTACTG-TTAT
1 -TTTAGGTTTA-TGTTTAT
*
23607555 TTTAGTTTTTATGTTTTAT
1 TTTAG-GTTTATG-TTTAT
23607574 TTT
1 TTT
23607577 TCTTGTCGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
17 7 0.21
18 17 0.52
19 9 0.27
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.68
Consensus pattern (17 bp):
TTTAGGTTTATGTTTAT
Found at i:23611968 original size:50 final size:50
Alignment explanation
Indices: 23611843--23612036 Score: 190
Period size: 50 Copynumber: 3.8 Consensus size: 50
23611833 ATTTGGGTAA
* *
23611843 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
23611899 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * * *
23611949 TGAGGTCCCTTGTAAGACCATGTCCGGGACATGGAATGGGTACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
23611999 AGAACTCCCATGTAAGACCATATCTGGGATATGACATT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATT
23612037 TGTAGTACAA
Statistics
Matches: 115, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 72 0.63
53 3 0.03
55 1 0.01
56 39 0.34
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:23615678 original size:51 final size:50
Alignment explanation
Indices: 23615551--23615733 Score: 154
Period size: 51 Copynumber: 3.6 Consensus size: 50
23615541 AAAGTGATGG
** *
23615551 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGGTAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACACGTACCGGAATGGTAGA
* * ** * * *
23615601 TCTCATGTGTAGTACTATGTATAGGCTACTATACGTACCGG-ATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACACGTACCGGAAT-G-GTAGA
** ** * *
23615652 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-TTGAATAGTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACACGTACCGGAATGGT-A-GA
* *
23615703 TCACATGTGTAGTACTATGTGCAGCCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
23615734 TGTGAACCGA
Statistics
Matches: 103, Mismatches: 25, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
49 3 0.03
50 36 0.35
51 64 0.62
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACACGTACCGGAATGGTAGA
Found at i:23615795 original size:45 final size:45
Alignment explanation
Indices: 23615739--23615833 Score: 145
Period size: 45 Copynumber: 2.1 Consensus size: 45
23615729 TACTATGTGA
* *
23615739 ACCGAACATCATTGATTAGTAAAGTGGTTGTTATATGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATATGCTGAATCC
* * *
23615784 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAAGTGGTTGCTATATGCTGAATCC
23615829 ACCGA
1 ACCGA
23615834 GTATCTATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAAGTGGTTGCTATATGCTGAATCC
Found at i:23628729 original size:50 final size:50
Alignment explanation
Indices: 23628648--23628832 Score: 171
Period size: 50 Copynumber: 3.7 Consensus size: 50
23628638 GGTAAAGAGA
* * **
23628648 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * *
23628698 TCCCCCGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * * * * * * *
23628748 TCCCATGCAAGACCATATCTGGGATATGGCATTTGTA--GTACAAGA-AAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC
* *
23628796 ATCTCATGTAAGACCATGTCTGGGACATGGC-TTGGCA
1 -TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
23628833 TGTTATTATC
Statistics
Matches: 110, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
48 8 0.07
49 30 0.27
50 72 0.65
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
Found at i:23629749 original size:11 final size:11
Alignment explanation
Indices: 23629733--23629777 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
23629723 GTTATAACAC
23629733 CATATGAAAAT
1 CATATGAAAAT
23629744 CATATGAAAAT
1 CATATGAAAAT
* *
23629755 --TAT-AACAC
1 CATATGAAAAT
23629763 CATATGAAAAT
1 CATATGAAAAT
23629774 CATA
1 CATA
23629778 CAATGAGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
8 3 0.11
9 3 0.11
10 3 0.11
11 18 0.67
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (11 bp):
CATATGAAAAT
Found at i:23633707 original size:22 final size:24
Alignment explanation
Indices: 23633655--23633712 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 24
23633645 TTTGAAATGT
*
23633655 TTAGAAACTAAATAATTGAAACAA
1 TTAGAAACTAAATAATTGAAAAAA
* *
23633679 -CATAAA-TAAATAATT-AAAAAA
1 TTAGAAACTAAATAATTGAAAAAA
*
23633700 TTAGAAATTAAAT
1 TTAGAAACTAAAT
23633713 TAGAAATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
21 5 0.19
22 13 0.48
23 9 0.33
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (24 bp):
TTAGAAACTAAATAATTGAAAAAA
Found at i:23633712 original size:12 final size:12
Alignment explanation
Indices: 23633697--23633725 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
23633687 AATAATTAAA
23633697 AAATTAGAAATT
1 AAATTAGAAATT
23633709 AAATTAGAAATT
1 AAATTAGAAATT
23633721 AAATT
1 AAATT
23633726 CGGATTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (12 bp):
AAATTAGAAATT
Found at i:23641050 original size:22 final size:21
Alignment explanation
Indices: 23641022--23641063 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
23641012 AAGTAGGACC
*
23641022 CTGTTATGCATATTTGATTATT
1 CTGTTATACATATTTG-TTATT
*
23641044 CTGTTATATATATTTGTTAT
1 CTGTTATACATATTTGTTAT
23641064 CTATATGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.24, C:0.07, G:0.12, T:0.57
Consensus pattern (21 bp):
CTGTTATACATATTTGTTATT
Found at i:23645413 original size:20 final size:19
Alignment explanation
Indices: 23645388--23645481 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 19
23645378 TACGGGATAT
23645388 CACTTTGGTGCCTCTGTTAG
1 CACTTTGGTGCCTCTGTT-G
* *
23645408 CACTTTTGTGCCTCTGTTTC
1 CACTTTGGTGCCTCTG-TTG
*
23645428 CACTTTGGTGTCTCTGATTG
1 CACTTTGGTGCCTCTG-TTG
** * *
23645448 CACAATCGTGCCTCTATCTG
1 CACTTTGGTGCCTCTGT-TG
23645468 CACTTTGGTGCCTC
1 CACTTTGGTGCCTC
23645482 AGTTACGCAT
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
19 1 0.02
20 55 0.95
21 2 0.03
ACGTcount: A:0.11, C:0.29, G:0.20, T:0.40
Consensus pattern (19 bp):
CACTTTGGTGCCTCTGTTG
Found at i:23645432 original size:40 final size:40
Alignment explanation
Indices: 23645388--23645486 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
23645378 TACGGGATAT
** * * *
23645388 CACTTTGGTGCCTCTGTTAGCACTTTTGTGCCTCTGTTTC
1 CACTTTGGTGCCTCTGTTAGCACAATCGTGCCTCTATCTC
* *
23645428 CACTTTGGTGTCTCTGATT-GCACAATCGTGCCTCTATCTG
1 CACTTTGGTGCCTCTG-TTAGCACAATCGTGCCTCTATCTC
*
23645468 CACTTTGGTGCCTCAGTTA
1 CACTTTGGTGCCTCTGTTA
23645487 CGCATCTGTG
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
39 2 0.04
40 44 0.92
41 2 0.04
ACGTcount: A:0.12, C:0.27, G:0.20, T:0.40
Consensus pattern (40 bp):
CACTTTGGTGCCTCTGTTAGCACAATCGTGCCTCTATCTC
Found at i:23646523 original size:25 final size:26
Alignment explanation
Indices: 23646495--23646546 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
23646485 ACAGTGATAC
23646495 ATAACATAAAGCA-AACAGTCATTTT
1 ATAACATAAAGCATAACAGTCATTTT
** *
23646520 ATAACATAGGGCATAACATTCATTTT
1 ATAACATAAAGCATAACAGTCATTTT
23646546 A
1 A
23646547 CCACATGGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (26 bp):
ATAACATAAAGCATAACAGTCATTTT
Found at i:23646552 original size:26 final size:27
Alignment explanation
Indices: 23646508--23646571 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
23646498 ACATAAAGCA
*
23646508 AACAGTCATTTTATAACAT-AGGGCAT
1 AACAGTCATTTTACAACATGAGGGCAT
* * *
23646534 AACATTCATTTTACCACATGGGGGCAT
1 AACAGTCATTTTACAACATGAGGGCAT
*
23646561 AATAGTCATTT
1 AACAGTCATTT
23646572 CATATCAGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 16 0.52
27 15 0.48
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (27 bp):
AACAGTCATTTTACAACATGAGGGCAT
Found at i:23652543 original size:29 final size:29
Alignment explanation
Indices: 23652496--23652558 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
23652486 AATTCACGGC
23652496 AACTCAGTAATTTGCTAACTTATGAGCAT
1 AACTCAGTAATTTGCTAACTTATGAGCAT
23652525 AACTCAGTAATTT-CTTAACTTATGAGCAT
1 AACTCAGTAATTTGC-TAACTTATGAGCAT
23652554 -ACTCA
1 AACTCA
23652559 CCTATCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
28 6 0.18
29 27 0.82
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (29 bp):
AACTCAGTAATTTGCTAACTTATGAGCAT
Found at i:23653791 original size:21 final size:22
Alignment explanation
Indices: 23653761--23653805 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
23653751 TATTTAACCC
*
23653761 AAAATAAATTGGATTA-AAATT
1 AAAATAAATTAGATTATAAATT
* *
23653782 AAAATTAATTATATTATAAATT
1 AAAATAAATTAGATTATAAATT
23653804 AA
1 AA
23653806 TACTCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAATAAATTAGATTATAAATT
Found at i:23655963 original size:3 final size:3
Alignment explanation
Indices: 23655955--23655983 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
23655945 CTCTGTGGGA
23655955 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
23655984 GTTGCTGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:23657039 original size:20 final size:20
Alignment explanation
Indices: 23657010--23657050 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
23657000 GTGTCTTGAT
23657010 GGTGTGGTGCGA-TAGGCAAG
1 GGTGTGGTGCGAGTAGG-AAG
*
23657030 GGTGTTGTGCGAGTAGGAAG
1 GGTGTGGTGCGAGTAGGAAG
23657050 G
1 G
23657051 CACAGTGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.20, C:0.07, G:0.51, T:0.22
Consensus pattern (20 bp):
GGTGTGGTGCGAGTAGGAAG
Found at i:23667105 original size:18 final size:19
Alignment explanation
Indices: 23667083--23667123 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 19
23667073 TAATAAAATT
23667083 TATATTTAAAATTTTAAAA
1 TATATTTAAAATTTTAAAA
23667102 -ATA-TTAAAATTTTAAAA
1 TATATTTAAAATTTTAAAA
23667119 TATAT
1 TATAT
23667124 CAAATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATATTTAAAATTTTAAAA
Found at i:23667204 original size:16 final size:16
Alignment explanation
Indices: 23667180--23667212 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23667170 TTATATTTAA
23667180 TAATATAAATTATTAT
1 TAATATAAATTATTAT
*
23667196 TAATCTAAATTATTAT
1 TAATATAAATTATTAT
23667212 T
1 T
23667213 TTAATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATATAAATTATTAT
Found at i:23669646 original size:24 final size:21
Alignment explanation
Indices: 23669614--23669659 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 21
23669604 AAAATTCTTC
23669614 TTTTGTTACAATAATTTTAATATT
1 TTTTGTTAC-A-AATTTT-ATATT
*
23669638 TTTTTTTACAAATTTTATATT
1 TTTTGTTACAAATTTTATATT
23669659 T
1 T
23669660 CTTTACATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 1 0.05
24 8 0.38
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTGTTACAAATTTTATATT
Found at i:23669732 original size:31 final size:31
Alignment explanation
Indices: 23669696--23669803 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 31
23669686 ACTTTATTAA
*
23669696 ATTTTATAATTTTTTTTCTATATTTCTACAT
1 ATTTTATAATTTTTTTTCTATATTTTTACAT
* * * *
23669727 ATTTTATAATTGTTTTTACGAT-TTTTTATAAA
1 ATTTTATAATT-TTTTTTCTATATTTTTA-CAT
* *
23669759 ATTTTAGAATTTTTTTTATA-ATTTTTTACGAT
1 ATTTTATAATTTTTTTTCTATA-TTTTTAC-AT
23669791 -TTTTATAATTTTT
1 ATTTTATAATTTTT
23669804 AATAAATTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
31 34 0.57
32 26 0.43
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.64
Consensus pattern (31 bp):
ATTTTATAATTTTTTTTCTATATTTTTACAT
Found at i:23669763 original size:32 final size:31
Alignment explanation
Indices: 23669688--23669803 Score: 83
Period size: 32 Copynumber: 3.7 Consensus size: 31
23669678 TTCTTATGAC
* * *
23669688 TTTATTAAATTTTATAATTTTTTTTCTATATT
1 TTTATAAAATTTTATAATTTTTTTACAAT-TT
* * * *
23669720 TCTA-CATATTTTATAATTGTTTTTACGATTT
1 TTTATAAAATTTTATAATT-TTTTTACAATTT
* *
23669751 TTTATAAAATTTTAGAATTTTTTTTATAATTT
1 TTTATAAAATTTTATAA-TTTTTTTACAATTT
** *
23669783 TTTA-CGATTTTTATAATTTTT
1 TTTATAAAATTTTATAATTTTT
23669804 AATAAATTTT
Statistics
Matches: 66, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
30 5 0.08
31 25 0.38
32 34 0.52
33 2 0.03
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.64
Consensus pattern (31 bp):
TTTATAAAATTTTATAATTTTTTTACAATTT
Found at i:23669773 original size:10 final size:10
Alignment explanation
Indices: 23669728--23669826 Score: 60
Period size: 10 Copynumber: 9.6 Consensus size: 10
23669718 TTTCTACATA
23669728 TTTTATAATT
1 TTTTATAATT
23669738 GTTTT-TACGATT
1 -TTTTATA--ATT
**
23669750 TTTTATAAAA
1 TTTTATAATT
*
23669760 TTTTAGAATTTT
1 TTTTATAA--TT
23669772 TTTTATAATT
1 TTTTATAATT
**
23669782 TTTTACGA-T
1 TTTTATAATT
23669791 TTTTATAATT
1 TTTTATAATT
* *
23669801 TTTAATAAAT
1 TTTTATAATT
23669811 TTTTA-ATATT
1 TTTTATA-ATT
23669821 TTTTAT
1 TTTTAT
23669827 TTTTATTTTT
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
9 8 0.12
10 38 0.58
11 8 0.12
12 12 0.18
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:23669783 original size:9 final size:9
Alignment explanation
Indices: 23669771--23669866 Score: 60
Period size: 9 Copynumber: 10.8 Consensus size: 9
23669761 TTTAGAATTT
23669771 TTTTTATAA
1 TTTTTATAA
23669780 TTTTT-TACGA
1 TTTTTATA--A
23669790 TTTTTATAA
1 TTTTTATAA
23669799 TTTTTAATAAA
1 TTTTT-AT-AA
23669810 TTTTTA-ATA
1 TTTTTATA-A
23669819 TTTTT-T-A
1 TTTTTATAA
*
23669826 TTTTTAT-T
1 TTTTTATAA
23669834 TTTTTA-AA
1 TTTTTATAA
* *
23669842 ATTTAATAA
1 TTTTTATAA
*
23669851 CTTTTATAA
1 TTTTTATAA
*
23669860 ATTTTAT
1 TTTTTAT
23669867 TGATTTTCAT
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
7 6 0.09
8 14 0.20
9 32 0.46
10 9 0.13
11 9 0.13
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:23669785 original size:22 final size:22
Alignment explanation
Indices: 23669740--23669794 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
23669730 TTATAATTGT
23669740 TTTTACGA--TTTTTTATAAAA
1 TTTTACGATTTTTTTTATAAAA
**
23669760 TTTTA-GAATTTTTTTTATAATT
1 TTTTACG-ATTTTTTTTATAAAA
23669782 TTTTACGATTTTT
1 TTTTACGATTTTT
23669795 ATAATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 1 0.03
20 6 0.21
22 21 0.72
23 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTTACGATTTTTTTTATAAAA
Found at i:23669813 original size:29 final size:27
Alignment explanation
Indices: 23669770--23669831 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
23669760 TTTTAGAATT
* * *
23669770 TTTTTTATAATTTTTTACGATTTTTATAA
1 TTTTTAATAAATTTTTAAGATTTTT-T-A
*
23669799 TTTTTAATAAATTTTTAATATTTTTTA
1 TTTTTAATAAATTTTTAAGATTTTTTA
23669826 TTTTTA
1 TTTTTA
23669832 TTTTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.24
28 1 0.03
29 21 0.72
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (27 bp):
TTTTTAATAAATTTTTAAGATTTTTTA
Found at i:23670156 original size:89 final size:90
Alignment explanation
Indices: 23669976--23670204 Score: 256
Period size: 90 Copynumber: 2.6 Consensus size: 90
23669966 GTCAAAGGGT
* *
23669976 TTTTTTGATGCATTTTGACAA--TACAAGTATTCAATTGAGTGTAAAAAAAATCAAGGGCTTAAT
1 TTTTTTGATGCATTTTGA-AAGCT-CAAGTACTCAATTGAGTGAAAAAAAAATCAAGGGCTTAAT
* *
23670039 TGCTTGATTTGAAAAAGTTTGAGAGTC
64 TGCTTCATTTGAAAAAGTTTAAGAGTC
* * ***
23670066 TTTTTT-ATGCATTTT-AAATGTTCAAGTACTCAATTGAGTGCAAAAAAAA-GGGGGGCTTAATT
1 TTTTTTGATGCATTTTGAAA-GCTCAAGTACTCAATTGAGTGAAAAAAAAATCAAGGGCTTAATT
*
23670128 GCTTTTCTTTTGAAAAAGTTTAAG-GTC
65 GC--TTCATTTGAAAAAGTTTAAGAGTC
*
23670155 TTTTTTGTTGCATTTTGAAAGCTCAAGTAC-CTAATTGAGTGAAAAAAAAA
1 TTTTTTGATGCATTTTGAAAGCTCAAGTACTC-AATTGAGTGAAAAAAAAA
23670205 AGAGATAAAG
Statistics
Matches: 120, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
87 2 0.02
88 13 0.11
89 44 0.37
90 58 0.48
91 3 0.03
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (90 bp):
TTTTTTGATGCATTTTGAAAGCTCAAGTACTCAATTGAGTGAAAAAAAAATCAAGGGCTTAATTG
CTTCATTTGAAAAAGTTTAAGAGTC
Found at i:23670648 original size:10 final size:10
Alignment explanation
Indices: 23670630--23670672 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
23670620 TATTGTTACC
*
23670630 TTTTCCTTTT
1 TTTTTCTTTT
23670640 TTTTTC--TT
1 TTTTTCTTTT
23670648 TTTTTCTTTT
1 TTTTTCTTTT
*
23670658 TCTTTCTTTT
1 TTTTTCTTTT
23670668 TTTTT
1 TTTTT
23670673 TTGAATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 8 0.29
10 20 0.71
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:23670656 original size:18 final size:18
Alignment explanation
Indices: 23670630--23670674 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
23670620 TATTGTTACC
* *
23670630 TTTTCCTTTTTTTTTCTT
1 TTTTTCTTTTTCTTTCTT
23670648 TTTTTCTTTTTCTTTCTT
1 TTTTTCTTTTTCTTTCTT
23670666 TTTTT-TTTT
1 TTTTTCTTTT
23670675 GAATTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTCTTTTTCTTTCTT
Found at i:23670659 original size:14 final size:14
Alignment explanation
Indices: 23670635--23670672 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
23670625 TTACCTTTTC
23670635 CTTTTTTTTTCTTT
1 CTTTTTTTTTCTTT
23670649 -TTTTCTTTTTCTTT
1 CTTTT-TTTTTCTTT
23670663 CTTTTTTTTT
1 CTTTTTTTTT
23670673 TTGAATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
CTTTTTTTTTCTTT
Found at i:23670673 original size:24 final size:24
Alignment explanation
Indices: 23670629--23670674 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
23670619 CTATTGTTAC
23670629 CTTTTCCTTTTTTTTTCTTTTTTT
1 CTTTTCCTTTTTTTTTCTTTTTTT
* *
23670653 CTTTTTCTTTCTTTTT-TTTTTT
1 CTTTTCCTTTTTTTTTCTTTTTT
23670675 GAATTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (24 bp):
CTTTTCCTTTTTTTTTCTTTTTTT
Done.