Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008983.1 Hibiscus syriacus cultivar Beakdansim tig00112347_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1350231
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:1988 original size:20 final size:20
Alignment explanation
Indices: 1917--1999 Score: 85
Period size: 20 Copynumber: 4.0 Consensus size: 20
1907 AGCAGAACCC
*
1917 CAGGGGGGTATCGATTCCCT
1 CAGGGGGGAATCGATTCCCT
** *
1937 GTGGGGGGAATCGGTTCCCCTT
1 CAGGGGGGAATCGATT-CCC-T
** *
1959 CAAAGGGGAATCGGTTCCCT
1 CAGGGGGGAATCGATTCCCT
1979 CAGGGGGGAATCGATTCCCT
1 CAGGGGGGAATCGATTCCCT
1999 C
1 C
2000 TGCACCAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
20 31 0.62
21 6 0.12
22 13 0.26
ACGTcount: A:0.17, C:0.25, G:0.35, T:0.23
Consensus pattern (20 bp):
CAGGGGGGAATCGATTCCCT
Found at i:8674 original size:21 final size:21
Alignment explanation
Indices: 8650--8749 Score: 78
Period size: 21 Copynumber: 4.8 Consensus size: 21
8640 GGAGGGACCA
8650 CTTGAATGATGACAGGGGCTT
1 CTTGAATGATGACAGGGGCTT
* * **
8671 CTTGAAAGGTGGGAGGGGCCTT
1 CTTGAATGATGACAGGGG-CTT
* *
8693 -TTGAAGGATGATAGGGGCTT
1 CTTGAATGATGACAGGGGCTT
* * * *
8713 CTTGAACGAT-AGGAGAGGCCT
1 CTTGAATGATGA-CAGGGGCTT
8734 CTTGAATGATGACAGG
1 CTTGAATGATGACAGG
8750 TGAATCGGGC
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
20 4 0.07
21 52 0.87
22 4 0.07
ACGTcount: A:0.25, C:0.13, G:0.37, T:0.25
Consensus pattern (21 bp):
CTTGAATGATGACAGGGGCTT
Found at i:8682 original size:42 final size:41
Alignment explanation
Indices: 8624--8749 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 41
8614 CATGTGAATC
*
8624 GGGC-TCTTGAACGGTGGGAGGGACCACTTGAATGATGACAG
1 GGGCTTCTTGAACGGTGGGAGGG-CCTCTTGAATGATGACAG
* * * *
8665 GGGCTTCTTGAAAGGTGGGAGGGGCCTTTTGAAGGATGATAG
1 GGGCTTCTTGAACGGTGGGA-GGGCCTCTTGAATGATGACAG
* *
8707 GGGCTTCTTGAACGATAGGAGAGGCCTCTTGAATGATGACAG
1 GGGCTTCTTGAACGGTGGGAG-GGCCTCTTGAATGATGACAG
8749 G
1 G
8750 TGAATCGGGC
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
41 5 0.07
42 63 0.89
43 3 0.04
ACGTcount: A:0.24, C:0.14, G:0.39, T:0.23
Consensus pattern (41 bp):
GGGCTTCTTGAACGGTGGGAGGGCCTCTTGAATGATGACAG
Found at i:9107 original size:63 final size:62
Alignment explanation
Indices: 9040--9161 Score: 147
Period size: 63 Copynumber: 1.9 Consensus size: 62
9030 CGTAGAGCGA
* *
9040 CTACCTCATCACGTAAAGTA-GATACCTCACCACGTAAAGCACCATTGTCATCGCGTAAAACCT
1 CTACCTCACCACGTAAAG-ACG-TACCTCACCACGTAAAGCACCATTGTCATCACGTAAAACCT
* * * * *
9103 CTACCTCACCACTTAAAGACCGTACCTCATCACGTCATGCACCATTGTCGTCACGTAAA
1 CTACCTCACCACGTAAAGA-CGTACCTCACCACGTAAAGCACCATTGTCATCACGTAAA
9162 GTACCGACCT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
62 1 0.02
63 48 0.96
64 1 0.02
ACGTcount: A:0.31, C:0.34, G:0.12, T:0.23
Consensus pattern (62 bp):
CTACCTCACCACGTAAAGACGTACCTCACCACGTAAAGCACCATTGTCATCACGTAAAACCT
Found at i:10908 original size:19 final size:19
Alignment explanation
Indices: 10869--10924 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
10859 TCTGAAACTT
10869 AAAATCGCAACGCGAAAATG
1 AAAATCGCAACGCG-AAATG
10889 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
10908 AAAATCACAACGC-AAAT
1 AAAATCGCAACGCGAAAT
10925 TTCATTTTCG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 4 0.11
19 17 0.49
20 14 0.40
ACGTcount: A:0.52, C:0.21, G:0.16, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:10967 original size:20 final size:21
Alignment explanation
Indices: 10924--10977 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 21
10914 ACAACGCAAA
10924 TTTCATTTTCGTAACGTTGCGAT
1 TTTCATTTTCG--ACGTTGCGAT
*
10947 TTTCATTTTCG-CGTTGTGAT
1 TTTCATTTTCGACGTTGCGAT
10967 TTTCATTTTCG
1 TTTCATTTTCG
10978 TGATACGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 19 0.63
23 11 0.37
ACGTcount: A:0.13, C:0.17, G:0.17, T:0.54
Consensus pattern (21 bp):
TTTCATTTTCGACGTTGCGAT
Found at i:11367 original size:22 final size:22
Alignment explanation
Indices: 11324--11370 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11314 ATAGAGGGGG
* * **
11324 TCGCCGGATATGTGGATGGATT
1 TCGCCGGAGATGGGGACAGATT
11346 TCGCCGGAGATGGGGACAGATT
1 TCGCCGGAGATGGGGACAGATT
11368 TCG
1 TCG
11371 TCGTAGAGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.26
Consensus pattern (22 bp):
TCGCCGGAGATGGGGACAGATT
Found at i:11523 original size:20 final size:20
Alignment explanation
Indices: 11500--11592 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
11490 ATAATATTCG
11500 CGTTGCGATTTACATATTAT
1 CGTTGCGATTTACATATTAT
* *
11520 CGTTACGATTTACCTATT-T
1 CGTTGCGATTTACATATTAT
* **
11539 GAGTTGCGAATTTGAC-T-TTCG
1 -CGTTGCG-ATTT-ACATATTAT
11560 CGTTGCGATTTACATATTAT
1 CGTTGCGATTTACATATTAT
11580 CGTTGCGATTTAC
1 CGTTGCGATTTAC
11593 CTTTTCGCGT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
18 2 0.03
19 6 0.10
20 44 0.75
21 5 0.08
22 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTACATATTAT
Found at i:11566 original size:60 final size:60
Alignment explanation
Indices: 11496--11612 Score: 191
Period size: 60 Copynumber: 1.9 Consensus size: 60
11486 GAAAATAATA
11496 TTCGCGTTGCGATTTACATATTATCGTTACGATTTACCTATTT-GAGTTGCGAATTTGACT
1 TTCGCGTTGCGATTTACATATTATCGTTACGATTTACCT-TTTCGAGTTGCGAATTTGACT
* * *
11556 TTCGCGTTGCGATTTACATATTATCGTTGCGATTTACCTTTTCGCGTTGTGAATTTG
1 TTCGCGTTGCGATTTACATATTATCGTTACGATTTACCTTTTCGAGTTGCGAATTTG
11613 GAAAATCGCG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
59 3 0.06
60 50 0.94
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (60 bp):
TTCGCGTTGCGATTTACATATTATCGTTACGATTTACCTTTTCGAGTTGCGAATTTGACT
Found at i:11603 original size:20 final size:20
Alignment explanation
Indices: 11496--11604 Score: 80
Period size: 20 Copynumber: 5.5 Consensus size: 20
11486 GAAAATAATA
* *
11496 TTCGCGTTGCGATTTACATA
1 TTCGCGTTGCGATTTACCTT
** *
11516 TTATCGTTACGATTTACCTAT
1 TTCGCGTTGCGATTTACCT-T
*
11537 TT-GAGTTGCGAATTTGA-C-T
1 TTCGCGTTGCG-ATTT-ACCTT
* *
11556 TTCGCGTTGCGATTTACATA
1 TTCGCGTTGCGATTTACCTT
**
11576 TTATCGTTGCGATTTACCTT
1 TTCGCGTTGCGATTTACCTT
11596 TTCGCGTTG
1 TTCGCGTTG
11605 TGAATTTGGA
Statistics
Matches: 66, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
18 1 0.02
19 7 0.11
20 50 0.76
21 7 0.11
22 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.44
Consensus pattern (20 bp):
TTCGCGTTGCGATTTACCTT
Found at i:11621 original size:21 final size:21
Alignment explanation
Indices: 11597--11636 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11587 ATTTACCTTT
*
11597 TCGCGTTGTGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
11618 TCGCGTTGCGAATTTGGAA
1 TCGCGTTGCGAATTTGGAA
11637 CCTGTGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (21 bp):
TCGCGTTGCGAATTTGGAAAA
Found at i:11685 original size:19 final size:19
Alignment explanation
Indices: 11597--11687 Score: 58
Period size: 20 Copynumber: 4.6 Consensus size: 19
11587 ATTTACCTTT
* *
11597 TCGCGTTGTGAATTTGGAAAA
1 TCGCGTTGCGAATTT-G-AGA
11618 TCGCGTTGCGAATTTG-GAA
1 TCGCGTTGCGAATTTGAG-A
* * * *
11637 CCTGTGTTGCGAAATTGAAGT
1 TC-GCGTTGCGAATTTG-AGA
*
11658 TCGCATTGCGAATTTGAGA
1 TCGCGTTGCGAATTTGAGA
*
11677 TCGTGTTGCGA
1 TCGCGTTGCGA
11688 TTTTATTGGT
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
19 13 0.25
20 24 0.45
21 15 0.28
22 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (19 bp):
TCGCGTTGCGAATTTGAGA
Found at i:16976 original size:2 final size:2
Alignment explanation
Indices: 16969--17007 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
16959 TGTATCACGC
16969 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17008 CATGTCCGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17534 original size:30 final size:31
Alignment explanation
Indices: 17476--17543 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
17466 TGTTAGATAA
17476 GAAATAATAAATAAATATTAAATAAATCAAAG
1 GAAA-AATAAATAAATATTAAATAAATCAAAG
*
17508 GAAAAATAAAATAAA-A-TAAATGAATCAAAG
1 GAAAAAT-AAATAAATATTAAATAAATCAAAG
17538 GAAAAA
1 GAAAAA
17544 GATAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
30 19 0.56
31 4 0.12
32 11 0.32
ACGTcount: A:0.69, C:0.03, G:0.09, T:0.19
Consensus pattern (31 bp):
GAAAAATAAATAAATATTAAATAAATCAAAG
Found at i:17554 original size:30 final size:30
Alignment explanation
Indices: 17484--17562 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 30
17474 AAGAAATAAT
*
17484 AAATAAATATTAAATAAATCAAAGGAAAAATA
1 AAATAAA-A-TAAATAAATCAAAGGAAAAAGA
*
17516 AAATAAAATAAATGAATCAAAGGAAAAAGA
1 AAATAAAATAAATAAATCAAAGGAAAAAGA
17546 TAAA-AAAATTAAA-AAAT
1 -AAATAAAA-TAAATAAAT
17563 ATTAAATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 27 0.64
31 8 0.19
32 7 0.17
ACGTcount: A:0.71, C:0.03, G:0.08, T:0.19
Consensus pattern (30 bp):
AAATAAAATAAATAAATCAAAGGAAAAAGA
Found at i:17559 original size:41 final size:40
Alignment explanation
Indices: 17509--17676 Score: 112
Period size: 41 Copynumber: 4.1 Consensus size: 40
17499 AAATCAAAGG
*
17509 AAAAATAAAATAA-AATAAATGAATC-AAAGGAAAAAGATAA
1 AAAAATAAAA-AATAATAAATAAATCAAAAGGAAAAA-ATAA
*
17549 AAAAATTAAAAAATATTAAATAAATCAAAAGGAAAAAATAAAA
1 AAAAA-TAAAAAATAATAAATAAATCAAAAGGAAAAAAT--AA
** * * *
17592 ATAAAATAAAAAATTTTAAAT--TTTAAAAGTAATAAAATAA
1 A-AAAATAAAAAATAATAAATAAATCAAAAGGAA-AAAATAA
* * * **
17632 AAATAATAAGAAGTAAAAAATAAAT-AAAATAAATAAAATAA
1 AAA-AATAAAAAATAATAAATAAATCAAAAGGAA-AAAATAA
17673 AAAA
1 AAAA
17677 CATACTAAAA
Statistics
Matches: 104, Mismatches: 14, Indels: 20
0.75 0.10 0.14
Matches are distributed among these distances:
39 2 0.02
40 23 0.22
41 42 0.40
42 16 0.15
43 17 0.16
44 4 0.04
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.21
Consensus pattern (40 bp):
AAAAATAAAAAATAATAAATAAATCAAAAGGAAAAAATAA
Found at i:17586 original size:43 final size:41
Alignment explanation
Indices: 17510--17612 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 41
17500 AATCAAAGGA
* *
17510 AAAATAAAATAA-AATAAATGAATCAAAGGAAAAAGATAAAA-
1 AAAATAAAA-AATATTAAATAAATCAAAGGAAAAAGA-AAAAT
* *
17551 AAATTAAAAAATATTAAATAAATCAAAAGGAAAAAATAAAAAT
1 AAAATAAAAAATATTAAATAAATC-AAAGG-AAAAAGAAAAAT
*
17594 AAAATAAAAAATTTTAAAT
1 AAAATAAAAAATATTAAAT
17613 TTTAAAAGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
40 2 0.04
41 18 0.35
42 9 0.17
43 23 0.44
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (41 bp):
AAAATAAAAAATATTAAATAAATCAAAGGAAAAAGAAAAAT
Found at i:17598 original size:25 final size:25
Alignment explanation
Indices: 17556--17603 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
17546 TAAAAAAATT
* *
17556 AAAAAATATTAAATAAATCAAAAGG
1 AAAAAATATAAAATAAATAAAAAGG
17581 AAAAAATA-AAAATAAAATAAAAA
1 AAAAAATATAAAAT-AAATAAAAA
17604 ATTTTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (25 bp):
AAAAAATATAAAATAAATAAAAAGG
Found at i:17603 original size:42 final size:42
Alignment explanation
Indices: 17510--17637 Score: 122
Period size: 41 Copynumber: 3.0 Consensus size: 42
17500 AATCAAAGGA
*
17510 AAAATAAAATAA-AATAAATGAATC-AAAGGAAAAAGAT-AAAA-
1 AAAATAAAA-AATATTAAAT-AATCAAAAGGAAAAA-ATAAAAAT
*
17551 AAATTAAAAAATATTAAATAAATCAAAAGGAAAAAATAAAAAT
1 AAAATAAAAAATATTAAAT-AATCAAAAGGAAAAAATAAAAAT
* * * *
17594 AAAATAAAAAATTTTAAAT-TTTAAAAGTAATAAAATAAAAAT
1 AAAATAAAAAATATTAAATAATCAAAAGGAA-AAAATAAAAAT
17636 AA
1 AA
17638 TAAGAAGTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
40 2 0.03
41 28 0.38
42 27 0.36
43 17 0.23
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (42 bp):
AAAATAAAAAATATTAAATAATCAAAAGGAAAAAATAAAAAT
Found at i:17638 original size:14 final size:14
Alignment explanation
Indices: 17615--17674 Score: 59
Period size: 14 Copynumber: 4.0 Consensus size: 14
17605 TTTTAAATTT
*
17615 TAAAAGTAATAAAA
1 TAAAAATAATAAAA
17629 TAAAAATAATAAGAA
1 TAAAAATAATAA-AA
17644 GTAAAAAATAAATAAAA
1 -T-AAAAAT-AATAAAA
17661 TAAATAA-AATAAAA
1 TAAA-AATAATAAAA
17675 AACATACTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 18 0.45
15 5 0.12
16 4 0.10
17 8 0.20
18 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (14 bp):
TAAAAATAATAAAA
Found at i:17651 original size:23 final size:24
Alignment explanation
Indices: 17618--17663 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
17608 TAAATTTTAA
17618 AAGTAATAAAATAAA-AATAATAAG
1 AAGTAATAAAATAAATAA-AATAAG
17642 AAGTAA-AAAATAAATAAAATAA
1 AAGTAATAAAATAAATAAAATAA
17664 ATAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (24 bp):
AAGTAATAAAATAAATAAAATAAG
Found at i:17666 original size:27 final size:25
Alignment explanation
Indices: 17626--17676 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
17616 AAAAGTAATA
17626 AAATAAAAATAATAAGAAGTAAAAAAT
1 AAATAAAAATAATAA-AA-TAAAAAAT
17653 AAAT-AAAATAAATAAAATAAAAAA
1 AAATAAAAAT-AATAAAATAAAAAA
17677 CATACTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 7 0.30
26 7 0.30
27 9 0.39
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (25 bp):
AAATAAAAATAATAAAATAAAAAAT
Found at i:17685 original size:26 final size:26
Alignment explanation
Indices: 17626--17687 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
17616 AAAAGTAATA
*
17626 AAATAAAAATAATAAGAAGTAAAAAAT
1 AAAT-AAAATAATAAGAAGTAAAAAAC
17653 AAATAAAATAAATAA-AA-TAAAAAAC
1 AAATAAAAT-AATAAGAAGTAAAAAAC
*
17678 ATACTAAAAT
1 A-AATAAAAT
17688 TAAAAGGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 8 0.26
26 14 0.45
27 9 0.29
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.19
Consensus pattern (26 bp):
AAATAAAATAATAAGAAGTAAAAAAC
Found at i:17711 original size:21 final size:22
Alignment explanation
Indices: 17685--17741 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
17675 AACATACTAA
*
17685 AATTAAAAGGAAAAAATG-AAT
1 AATTAAAAGGAAAAAATGCAAG
* *
17706 AATTAAAA-TAAAAAATGCTAG
1 AATTAAAAGGAAAAAATGCAAG
17727 AATTAAAAAGGAAAA
1 AATT-AAAAGGAAAA
17742 GGAAAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 8 0.28
21 13 0.45
22 4 0.14
23 4 0.14
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (22 bp):
AATTAAAAGGAAAAAATGCAAG
Found at i:17737 original size:43 final size:44
Alignment explanation
Indices: 17659--17741 Score: 116
Period size: 43 Copynumber: 1.9 Consensus size: 44
17649 AAATAAATAA
17659 AATAAATAAAATAAAAAACATACTAAAATTAAAAGGAAAAAATG
1 AATAAATAAAATAAAAAACATACTAAAATTAAAAGGAAAAAATG
* * *
17703 AATAATTAAAAT-AAAAA-ATGCTAGAATTAAAAAGGAAAA
1 AATAAATAAAATAAAAAACATACTAAAATT-AAAAGGAAAA
17742 GGAAAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 9 0.26
43 15 0.43
44 11 0.31
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.19
Consensus pattern (44 bp):
AATAAATAAAATAAAAAACATACTAAAATTAAAAGGAAAAAATG
Found at i:18857 original size:9 final size:9
Alignment explanation
Indices: 18843--18876 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
18833 AATAACAAAG
18843 AAAAAATAAA
1 AAAAAAT-AA
18853 AAAAAATAA
1 AAAAAATAA
18862 AAAAAATAA
1 AAAAAATAA
18871 AAAAAA
1 AAAAAA
18877 ATATTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAAAATAA
Found at i:18858 original size:10 final size:10
Alignment explanation
Indices: 18828--18879 Score: 70
Period size: 10 Copynumber: 5.2 Consensus size: 10
18818 ATTGGACCTT
*
18828 TAAAAAATAA
1 TAAAAAAAAA
*
18838 CAAAGAAAAAA
1 TAAA-AAAAAA
18849 TAAAAAAAAA
1 TAAAAAAAAA
18859 T-AAAAAAAA
1 TAAAAAAAAA
18868 TAAAAAAAAA
1 TAAAAAAAAA
18878 TA
1 TA
18880 TTAATAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.24
10 20 0.54
11 8 0.22
ACGTcount: A:0.85, C:0.02, G:0.02, T:0.12
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:18865 original size:19 final size:19
Alignment explanation
Indices: 18843--18879 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18833 AATAACAAAG
18843 AAAAAATAAAAAAAAATAA
1 AAAAAATAAAAAAAAATAA
18862 AAAAAATAAAAAAAAATA
1 AAAAAATAAAAAAAAATA
18880 TTAATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAAATAAAAAAAAATAA
Found at i:18901 original size:29 final size:30
Alignment explanation
Indices: 18865--18922 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
18855 AAAATAAAAA
18865 AAATAAAAAA-A-AATATTAATAAAATAGT
1 AAATAAAAAATATAATATTAATAAAATAGT
*
18893 AAATAAAAAAATATTAATATTAATATAATA
1 AAAT-AAAAAATA-TAATATTAATAAAATA
18923 AAAATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 6 0.24
30 1 0.04
32 14 0.56
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (30 bp):
AAATAAAAAATATAATATTAATAAAATAGT
Found at i:18924 original size:29 final size:26
Alignment explanation
Indices: 18846--18911 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
18836 AACAAAGAAA
*
18846 AAATAAAAAAA-AATAA-AAAA-AAT
1 AAATAAAAAAATATTAATAAAATAAT
*
18869 -AA-AAAAAAATATTAATAAAATAGT
1 AAATAAAAAAATATTAATAAAATAAT
18893 AAATAAAAAAATATTAATA
1 AAATAAAAAAATATTAATA
18912 TTAATATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
21 7 0.19
22 6 0.17
23 4 0.11
24 2 0.06
25 2 0.06
26 15 0.42
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (26 bp):
AAATAAAAAAATATTAATAAAATAAT
Found at i:18929 original size:23 final size:21
Alignment explanation
Indices: 18887--18930 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
18877 ATATTAATAA
18887 AATAGTAAATAAAAAAATATT
1 AATAGTAAATAAAAAAATATT
*
18908 AATATTAATATAATAAAAATATT
1 AATAGTAA-ATAA-AAAAATATT
18931 TTAAAACTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 4 0.20
23 9 0.45
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
AATAGTAAATAAAAAAATATT
Found at i:18942 original size:24 final size:24
Alignment explanation
Indices: 18873--18960 Score: 63
Period size: 24 Copynumber: 3.6 Consensus size: 24
18863 AAAAATAAAA
*
18873 AAAAATATTAATAAAA-TAGTA-AAT
1 AAAAATA-TATTAAAACTA-TATAAT
* * *
18897 AAAAAAATATTAATATTAATATAAT
1 AAAAATATATTAAAACT-ATATAAT
* *
18922 AAAAATATTTTAAAACTATATTAT
1 AAAAATATATTAAAACTATATAAT
* *
18946 ATATATATATTAAAA
1 AAAAATATATTAAAA
18961 ATGTTTTCAA
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
23 6 0.12
24 27 0.54
25 17 0.34
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (24 bp):
AAAAATATATTAAAACTATATAAT
Found at i:18989 original size:25 final size:26
Alignment explanation
Indices: 18949--18999 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
18939 ATATTATATA
18949 TATATATTAAAAATG-TTTTCAAAAC
1 TATATATTAAAAATGATTTTCAAAAC
* *
18974 TATATATTATATATGTATTTTCAAAA
1 TATATATTAAAAATG-ATTTTCAAAA
19000 TGTTTTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
27 9 0.41
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (26 bp):
TATATATTAAAAATGATTTTCAAAAC
Found at i:19024 original size:39 final size:38
Alignment explanation
Indices: 18933--19326 Score: 437
Period size: 38 Copynumber: 10.4 Consensus size: 38
18923 AAAATATTTT
* *
18933 AAAACTATAT-TATATATATATATTAAAAATGTTTTC-
1 AAAACTATATATATATATATATTTTCAAAATGTTTTCA
*
18969 AAAACTATATATTATATATGTATTTTCAAAATGTTTTCA
1 AAAACTATATA-TATATATATATTTTCAAAATGTTTTCA
* *
19008 AAAACTATATTATATATATATATATATATATTGAAAATATTTTCA
1 AAAAC-----TATATATATATATATAT-T-TTCAAAATGTTTTCA
*
19053 AAAACTATATAT-TATATATATTTTCACAATGTTTTCA
1 AAAACTATATATATATATATATTTTCAAAATGTTTTCA
19090 AAAAC------TATATATATA--TTCAAAATGTTTTCA
1 AAAACTATATATATATATATATTTTCAAAATGTTTTCA
19120 AAAACTATATATTATATATATATTTTCAAAATGTTTTCA
1 AAAACTATATA-TATATATATATTTTCAAAATGTTTTCA
19159 AAAACTATATAT-TATATATATTTTTCAAAATGTTTTCA
1 AAAACTATATATATATATATA-TTTTCAAAATGTTTTCA
* *
19197 AAAACTATATATTATATATATTTTTTCAAAATGTTTTTTTAA
1 AAAACTATATA-TATATATATATTTTCAAAATG---TTTTCA
*
19239 AAAACTATATAT-TATATATATTTTTCCAAATGTTTTC-
1 AAAACTATATATATATATATA-TTTTCAAAATGTTTTCA
19276 AAAAC--TATATA-ATATATATTTTCGAAAATGTTTTCA
1 AAAACTATATATATATATATATTTTC-AAAATGTTTTCA
19312 AAAACTATAT-TATAT
1 AAAACTATATATATAT
19327 TAATTAATAT
Statistics
Matches: 309, Mismatches: 16, Indels: 64
0.79 0.04 0.16
Matches are distributed among these distances:
30 19 0.06
31 1 0.00
32 8 0.03
34 5 0.02
35 22 0.07
36 15 0.05
37 42 0.14
38 62 0.20
39 52 0.17
40 21 0.07
41 11 0.04
42 16 0.05
43 10 0.03
44 7 0.02
45 18 0.06
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (38 bp):
AAAACTATATATATATATATATTTTCAAAATGTTTTCA
Found at i:19065 original size:47 final size:45
Alignment explanation
Indices: 18938--19073 Score: 157
Period size: 45 Copynumber: 3.2 Consensus size: 45
18928 ATTTTAAAAC
* *
18938 TATAT-TATATATATATATTAAAAATGTTTTC-AAAAC--TA-TA
1 TATATATATATATATATATTCAAAATATTTTCAAAAACTATATTA
* *
18978 TAT-TATATATGTAT-T-TTCAAAATGTTTTCAAAAACTATATTA
1 TATATATATATATATATATTCAAAATATTTTCAAAAACTATATTA
*
19020 TATATATATATATATATATTGAAAATATTTTCAAAAACTATA-TA
1 TATATATATATATATATATTCAAAATATTTTCAAAAACTATATTA
19064 T-TATATATAT
1 TATATATATAT
19074 TTTCACAATG
Statistics
Matches: 83, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
38 13 0.16
39 7 0.08
40 11 0.13
41 2 0.02
42 5 0.06
43 19 0.23
44 4 0.05
45 22 0.27
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (45 bp):
TATATATATATATATATATTCAAAATATTTTCAAAAACTATATTA
Found at i:19071 original size:37 final size:37
Alignment explanation
Indices: 19020--19321 Score: 381
Period size: 37 Copynumber: 8.1 Consensus size: 37
19010 AACTATATTA
* * *
19020 TATATATATATATATATATTGAAAATATTTTCAAAAAC
1 TATATAT-TATATATATTTTCAAAATGTTTTCAAAAAC
*
19058 TATATATTATATATATTTTCACAATGTTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
19095 ----TA-TATATATA--TTCAAAATGTTTTCAAAAAC
1 TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
19125 TATATATTATATATATATTTTCAAAATGTTTTCAAAAAC
1 TATATA-T-TATATATATTTTCAAAATGTTTTCAAAAAC
19164 TATATATTATATATATTTTTCAAAATGTTTTCAAAAAC
1 TATATATTATATATA-TTTTCAAAATGTTTTCAAAAAC
*
19202 TATATATTATATATATTTTTTCAAAATGTTTTTTTAAAAAAC
1 TATATATTATATATA--TTTTCAAAATG---TTTTCAAAAAC
*
19244 TATATATTATATATATTTTTCCAAATGTTTTC-AAAAC
1 TATATATTATATATA-TTTTCAAAATGTTTTCAAAAAC
19281 TATATA--ATATATATTTTCGAAAATGTTTTCAAAAAC
1 TATATATTATATATATTTTC-AAAATGTTTTCAAAAAC
19317 TATAT
1 TATAT
19322 TATATTAATT
Statistics
Matches: 239, Mismatches: 9, Indels: 34
0.85 0.03 0.12
Matches are distributed among these distances:
30 19 0.08
32 8 0.03
33 2 0.01
34 7 0.03
35 17 0.07
36 10 0.04
37 53 0.22
38 49 0.21
39 38 0.16
41 11 0.05
42 25 0.10
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (37 bp):
TATATATTATATATATTTTCAAAATGTTTTCAAAAAC
Found at i:19101 original size:30 final size:30
Alignment explanation
Indices: 19065--19136 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
19055 AACTATATAT
* *
19065 TATATATATTTTCACAATGTTTTCAAAAAC
1 TATATATATATTCAAAATGTTTTCAAAAAC
19095 TATATATATATTCAAAATGTTTTCAAAAAC
1 TATATATATATTCAAAATGTTTTCAAAAAC
19125 TATATATTATAT
1 TATATA-TATAT
19137 ATATATTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 34 0.87
31 5 0.13
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (30 bp):
TATATATATATTCAAAATGTTTTCAAAAAC
Found at i:19145 original size:28 final size:29
Alignment explanation
Indices: 19065--19150 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
19055 AACTATATAT
* * *
19065 TATATATATTTTCACAATGTTTTCAAAAAC
1 TATATATATATT-AAAATATTTTCAAAAAC
*
19095 TATATATATATTCAAAATGTTTTCAAAAAC
1 TATATATATATT-AAAATATTTTCAAAAAC
*
19125 TATATAT-TA-TATATATATTTTCAAAA
1 TATATATATATTA-AAATATTTTCAAAA
19151 TGTTTTCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.02
28 13 0.25
29 2 0.04
30 35 0.69
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (29 bp):
TATATATATATTAAAATATTTTCAAAAAC
Found at i:20062 original size:85 final size:85
Alignment explanation
Indices: 19953--20166 Score: 234
Period size: 85 Copynumber: 2.5 Consensus size: 85
19943 AACTTGACAA
** * *
19953 TTTTTGTTGACATATAGT-TTTTCTCGACTTAAGTTATGCTATAAATTTGATATG-CCATTAAGC
1 TTTTTGTTGACATATA-TCCCTTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCCA-TAAGC
* *
20016 TAAATCTAATTGAACTCGAAGG
64 TAAATCAAATCGAACTCGAAGG
* * * *
20038 TTTTTGTTGACATATATCCCTTCTCGCCTTGAGTTATGCTGTAAATTTTATATGCCCATGAGCTG
1 TTTTTGTTGACATATATCCCTTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCCATAAGCTA
* *
20103 AATGAAATCGAACTTGAAGG
66 AATCAAATCGAACTCGAAGG
* * * * * *
20123 TTCTCGTTGACAGATAGCCCTTCTCGCCTTGAGCTATACTATAA
1 TTTTTGTTGACATATATCCCTTCTCGCCTTGAGTTATGCTATAA
20167 TAGGCTGGGA
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
84 1 0.01
85 104 0.96
86 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (85 bp):
TTTTTGTTGACATATATCCCTTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCCATAAGCTA
AATCAAATCGAACTCGAAGG
Found at i:21671 original size:84 final size:85
Alignment explanation
Indices: 21569--21794 Score: 294
Period size: 93 Copynumber: 2.6 Consensus size: 85
21559 GGCTAGATGA
* * *
21569 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAA-TATTATAATCACCTT
1 ATCCATAAAGCCGAGGCGTTTAACCAATTGCTTTAGAGGGACAGCTCAATTATTATAATCACCTT
*
21633 TATCAGGCTAGCTAAATCTT
66 TATCAGGCTAGCCAAATCTT
21653 ATCCATAAAGCCGAGGCGTTTAACCAATTGCTTTAGAGGGACAGCTCAAGCTTTATTGTATTATA
1 ATCCATAAAGCCGAGGCGTTTAACCAATTGCTTTAGAGGGACAGCTC-A-----A-T-TATTATA
*
21718 ATCACCTTTATCAGGCTAGCCGAATCTT
58 ATCACCTTTATCAGGCTAGCCAAATCTT
* *
21746 ATCCATAAAGTC-AGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAA
1 ATCCATAAAGCCGA-GGCGTTTAACCAATTGCTTTAGAGGGACAGCTCAA
21795 GTTTTATTGT
Statistics
Matches: 125, Mismatches: 7, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
84 44 0.35
85 1 0.01
87 1 0.01
90 1 0.01
92 2 0.02
93 76 0.61
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (85 bp):
ATCCATAAAGCCGAGGCGTTTAACCAATTGCTTTAGAGGGACAGCTCAATTATTATAATCACCTT
TATCAGGCTAGCCAAATCTT
Found at i:21777 original size:93 final size:93
Alignment explanation
Indices: 21618--21806 Score: 317
Period size: 93 Copynumber: 2.0 Consensus size: 93
21608 GACAGCTCAA
* *
21618 TATTATAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGCCGAGGCGTTTAACCAATTG
1 TATTATAATCACCTTTATCAGGCTAGCCAAATCTTATCCATAAAGCAGAGGCGTTTAACCAATTG
*
21683 CTTTAGAGGGACAGCTCAAGCTTTATTG
66 CTTTAGAGGGACAACTCAAGCTTTATTG
*
21711 TATTATAATCACCTTTATCAGGCTAGCCGAATCTTATCCATAAAGTCAG-GGCGTTTAACCAATT
1 TATTATAATCACCTTTATCAGGCTAGCCAAATCTTATCCATAAAG-CAGAGGCGTTTAACCAATT
*
21775 GCTTTAGAGGGACAACTCAAGTTTTATTG
65 GCTTTAGAGGGACAACTCAAGCTTTATTG
21804 TAT
1 TAT
21807 ACATAAAATA
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
93 88 0.98
94 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (93 bp):
TATTATAATCACCTTTATCAGGCTAGCCAAATCTTATCCATAAAGCAGAGGCGTTTAACCAATTG
CTTTAGAGGGACAACTCAAGCTTTATTG
Found at i:25592 original size:22 final size:22
Alignment explanation
Indices: 25564--25617 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
25554 CAAGAAAGGG
25564 GTATCGATACCATAGTATAGAA
1 GTATCGATACCATAGTATAGAA
25586 GTATCGATACCATAGTATAGAA
1 GTATCGATACCATAGTATAGAA
25608 GTATCGATAC
1 GTATCGATAC
25618 TAGGGTAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (22 bp):
GTATCGATACCATAGTATAGAA
Found at i:26723 original size:18 final size:18
Alignment explanation
Indices: 26697--26743 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
26687 GCTATACAAG
*
26697 TGTGACTATTCCAAGACT
1 TGTGTCTATTCCAAGACT
*
26715 TGTGTCTATTCTAAGACT
1 TGTGTCTATTCCAAGACT
*
26733 TATGTCTATTC
1 TGTGTCTATTC
26744 TAGATATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (18 bp):
TGTGTCTATTCCAAGACT
Found at i:26744 original size:18 final size:18
Alignment explanation
Indices: 26702--26745 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
26692 ACAAGTGTGA
* *
26702 CTATTCCAAGACTTGTGT
1 CTATTCTAAGACTTATGT
26720 CTATTCTAAGACTTATGT
1 CTATTCTAAGACTTATGT
26738 CTATTCTA
1 CTATTCTA
26746 GATATAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.43
Consensus pattern (18 bp):
CTATTCTAAGACTTATGT
Found at i:27135 original size:90 final size:89
Alignment explanation
Indices: 27019--27192 Score: 303
Period size: 90 Copynumber: 1.9 Consensus size: 89
27009 TAATCTCGAA
* *
27019 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
*
27084 TAGTGTAACTTGGATATAAAGGGAT
65 TAGGGTAACTTGGATATAAAGGGAT
27109 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
*
27174 AGGGTAACTTGGCTATAAA
66 AGGGTAACTTGGATATAAA
27193 ATGGTGTGTT
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 30 0.38
90 50 0.62
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATAAAGGGAT
Found at i:33778 original size:89 final size:88
Alignment explanation
Indices: 33669--33843 Score: 296
Period size: 89 Copynumber: 2.0 Consensus size: 88
33659 TAATCCCGAA
* *
33669 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCATAATATAAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAA-CCATAATATAAT
33734 TAGGGTAACTTGGATATAAAAGAT
65 TAGGGTAACTTGGATATAAAAGAT
* *
33758 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAACCCTAATATGATT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAACCATAATATAATT
*
33823 AGGGTAACTTGGCTATAAAAG
66 AGGGTAACTTGGATATAAAAG
33844 GGTGTGTTAA
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
88 31 0.38
89 50 0.62
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (88 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAACCATAATATAATT
AGGGTAACTTGGATATAAAAGAT
Found at i:34300 original size:54 final size:56
Alignment explanation
Indices: 34162--34305 Score: 195
Period size: 57 Copynumber: 2.6 Consensus size: 56
34152 TGGTCCCAAC
*
34162 AATTCATACTAAGTGTATGAATTTCTGTATGGGCACTTTGTGTTCAAAAATAAGGAA
1 AATTCATACTAAGTGTATGAATTTC-GTATGGGCACTTTGTGTGCAAAAATAAGGAA
* *
34219 AATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGC-GAACTAA-G-A
1 AATTCATACTAAGTGTATGAA-TTTCGTATGGGCACTTTGTGTGCAAAAATAAGGAA
* *
34273 AATTCATACCAAATGTATGAATGTTCGTATGGG
1 AATTCATACTAAGTGTATGAAT-TTCGTATGGG
34306 AAAATATTTG
Statistics
Matches: 80, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
53 1 0.01
54 30 0.38
55 1 0.01
56 5 0.06
57 39 0.49
58 4 0.05
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (56 bp):
AATTCATACTAAGTGTATGAATTTCGTATGGGCACTTTGTGTGCAAAAATAAGGAA
Found at i:34646 original size:68 final size:68
Alignment explanation
Indices: 34521--34826 Score: 414
Period size: 68 Copynumber: 4.5 Consensus size: 68
34511 GATTAATAGG
* * * * *
34521 CCTAACTGTGTTTATAACAGAAATGTGTCATTTAATCCAGTTAGATGAAAGGTTAAGTGCATTTG
1 CCTAACTGTGCTTATAACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
34586 AGA
66 AGA
* * * *
34589 CGTAATTGTGCTTATAACATAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCTTATAACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
*
34654 AGG
66 AGA
* *
34657 CCTAACTGTACTTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCTTATAACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
34722 AGA
66 AGA
* * * * *
34725 CCTAACTGTTCTTATGACATAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTTCCTTTA
1 CCTAACTGTGCTTATAACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
*
34790 AGG
66 AGA
* * **
34793 CCTAACTGTGCTTATGATAGAAATATGTCATTTA
1 CCTAACTGTGCTTATAACAGAAAGGTGTCATTTA
34827 TGATAAAAAT
Statistics
Matches: 211, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 211 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (68 bp):
CCTAACTGTGCTTATAACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
AGA
Found at i:34764 original size:136 final size:136
Alignment explanation
Indices: 34518--34826 Score: 474
Period size: 136 Copynumber: 2.3 Consensus size: 136
34508 AAAGATTAAT
* * * *
34518 AGGCCTAACTGTGTTTATAACAGAAATGTGTCATTTAATCCAGTTAGATGAAAGGTTAAGTGCAT
1 AGGCCTAACTGTGCTTATGACAGAAATGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCAT
* * *
34583 TTGAGACGTAATTGTGCTTATAACATAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTG
66 TTGAGACCTAACTGTGCTTATAACATAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTG
*
34648 CCTTTG
131 CCTTTA
* * *
34654 AGGCCTAACTGTACTTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCTTATGACAGAAATGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCAT
* * *
34719 TTGAGACCTAACTGTTCTTATGACATAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTT
66 TTGAGACCTAACTGTGCTTATAACATAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTG
34784 CCTTTA
131 CCTTTA
* *
34790 AGGCCTAACTGTGCTTATGATAGAAATATGTCATTTA
1 AGGCCTAACTGTGCTTATGACAGAAATGTGTCATTTA
34827 TGATAAAAAT
Statistics
Matches: 155, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
136 155 1.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (136 bp):
AGGCCTAACTGTGCTTATGACAGAAATGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCAT
TTGAGACCTAACTGTGCTTATAACATAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTG
CCTTTA
Found at i:34829 original size:20 final size:20
Alignment explanation
Indices: 34804--34866 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
34794 CTAACTGTGC
*
34804 TTATGATAGAAATATGTCAT
1 TTATGATAGAAATGTGTCAT
*
34824 TTATGATAAAAATGTGTCAT
1 TTATGATAGAAATGTGTCAT
34844 TTATGATAGAAATGTGTCAT
1 TTATGATAGAAATGTGTCAT
34864 TTA
1 TTA
34867 AGCCAGTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (20 bp):
TTATGATAGAAATGTGTCAT
Found at i:34958 original size:68 final size:68
Alignment explanation
Indices: 34844--35153 Score: 451
Period size: 68 Copynumber: 4.6 Consensus size: 68
34834 AATGTGTCAT
* * * *
34844 TTATGATAGAAATGTGTCATTTAAGCCAGTTAGATGAAAGGTTAAGTGCCTTTGAGGCATAACTG
1 TTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
34909 TGC
66 TGC
34912 TTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
1 TTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
34977 TGC
66 TGC
* * * *
34980 TTATGACAGAAAGGTGTCATTTAAGCCAGCTAGATGAAAGACTAACTGCCTTTGACGCCTAACTG
1 TTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
35045 TGC
66 TGC
* * * *
35048 TTATGACATAAAGGTGTCATTTAAGCCGGTTAAATGAAATGCTAAGTGCCTTTGAGGCCTAACTG
1 TTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
35113 TGC
66 TGC
* ** * *
35116 -AATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 TTA-TGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAA
35154 TGGATAAATA
Statistics
Matches: 217, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
67 1 0.00
68 216 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (68 bp):
TTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
TGC
Found at i:34975 original size:176 final size:176
Alignment explanation
Indices: 34668--35002 Score: 562
Period size: 176 Copynumber: 1.9 Consensus size: 176
34658 CTAACTGTAC
*
34668 TTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACCTAACTG
1 TTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACATAACTG
* * *
34733 TTCTTATGACATAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTTCCTTTAAGGCCTAA
66 TGCTTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAA
* *
34798 CTGTGCTTATGATAGAAATATGTCATTTATGATAAAAATGTGTCAT
131 CTGTGCTTATGACAGAAAGATGTCATTTATGATAAAAATGTGTCAT
* * * *
34844 TTATGATAGAAATGTGTCATTTAAGCCAGTTAGATGAAAGGTTAAGTGCCTTTGAGGCATAACTG
1 TTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACATAACTG
*
34909 TGCTTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
66 TGCTTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAA
*
34974 CTGTGCTTATGACAGAAAGGTGTCATTTA
131 CTGTGCTTATGACAGAAAGATGTCATTTA
35003 AGCCAGCTAG
Statistics
Matches: 147, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
176 147 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (176 bp):
TTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACATAACTG
TGCTTATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAA
CTGTGCTTATGACAGAAAGATGTCATTTATGATAAAAATGTGTCAT
Found at i:35042 original size:244 final size:244
Alignment explanation
Indices: 34613--35053 Score: 765
Period size: 244 Copynumber: 1.8 Consensus size: 244
34603 TAACATAAAG
* *
34613 GTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTACTTATGACAGA
1 GTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCATAACTGTACTTATGACAGA
*
34678 AAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACCTAACTGTTCTTATGAC
66 AAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACCTAACTGTGCTTATGAC
* * * * * *
34743 ATAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTTCCTTTAAGGCCTAACTGTGCTTAT
131 AGAAAGGTGTCATTTAAGCCAGCTAGATGAAAGACTAACTGCCTTTAACGCCTAACTGTGCTTAT
34808 GATAGAAATATGTCATTTATGATAAAAATGTGTCATTTATGATAGAAAT
196 GATAGAAATATGTCATTTATGATAAAAATGTGTCATTTATGATAGAAAT
* *
34857 GTGTCATTTAAGCCAGTTAGATGAAAGGTTAAGTGCCTTTGAGGCATAACTGTGCTTATGACAGA
1 GTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCATAACTGTACTTATGACAGA
*
34922 AAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCTTATGAC
66 AAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACCTAACTGTGCTTATGAC
*
34987 AGAAAGGTGTCATTTAAGCCAGCTAGATGAAAGACTAACTGCCTTTGACGCCTAACTGTGCTTAT
131 AGAAAGGTGTCATTTAAGCCAGCTAGATGAAAGACTAACTGCCTTTAACGCCTAACTGTGCTTAT
35052 GA
196 GA
35054 CATAAAGGTG
Statistics
Matches: 184, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
244 184 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (244 bp):
GTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCATAACTGTACTTATGACAGA
AAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACCTAACTGTGCTTATGAC
AGAAAGGTGTCATTTAAGCCAGCTAGATGAAAGACTAACTGCCTTTAACGCCTAACTGTGCTTAT
GATAGAAATATGTCATTTATGATAAAAATGTGTCATTTATGATAGAAAT
Found at i:35108 original size:312 final size:312
Alignment explanation
Indices: 34539--35115 Score: 976
Period size: 312 Copynumber: 1.8 Consensus size: 312
34529 TGTTTATAAC
* * *
34539 AGAAATGTGTCATTTAATCCAGTTAGATGAAAGGTTAAGTGCATTTGAGACGTAATTGTGCTTAT
1 AGAAATGTGTCATTTAAGCCAGTTAGATGAAAGGTTAAGTGCATTTGAGACATAACTGTGCTTAT
* *
34604 AACATAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTACT
66 AACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTACT
* * *
34669 TATGACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGACCTAACTGT
131 TATGACAGAAAGGTGTCATTTAAGCCAGCTAGATGAAAGACTAACTGCCTTTGAGACCTAACTGT
* * *
34734 TCTTATGACATAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTTCCTTTAAGGCCTAAC
196 GCTTATGACATAAAGGTGTCATTTAAGCCAGTTAAATGAAAGGCTAAGTGCCTTTAAGGCCTAAC
34799 TGTGCTTATGATAGAAATATGTCATTTATGATAAAAATGTGTCATTTATGAT
261 TGTGCTTATGATAGAAATATGTCATTTATGATAAAAATGTGTCATTTATGAT
* *
34851 AGAAATGTGTCATTTAAGCCAGTTAGATGAAAGGTTAAGTGCCTTTGAGGCATAACTGTGCTTAT
1 AGAAATGTGTCATTTAAGCCAGTTAGATGAAAGGTTAAGTGCATTTGAGACATAACTGTGCTTAT
* *
34916 GACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCT
66 AACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTACT
34981 TATGACAGAAAGGTGTCATTTAAGCCAGCTAGATGAAAGACTAACTGCCTTTGACG-CCTAACTG
131 TATGACAGAAAGGTGTCATTTAAGCCAGCTAGATGAAAGACTAACTGCCTTTGA-GACCTAACTG
* * *
35045 TGCTTATGACATAAAGGTGTCATTTAAGCCGGTTAAATGAAATGCTAAGTGCCTTTGAGGCCTAA
195 TGCTTATGACATAAAGGTGTCATTTAAGCCAGTTAAATGAAAGGCTAAGTGCCTTTAAGGCCTAA
35110 CTGTGC
260 CTGTGC
35116 AATTGGTAGA
Statistics
Matches: 246, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
312 245 1.00
313 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (312 bp):
AGAAATGTGTCATTTAAGCCAGTTAGATGAAAGGTTAAGTGCATTTGAGACATAACTGTGCTTAT
AACAGAAAGGTGTCATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTACT
TATGACAGAAAGGTGTCATTTAAGCCAGCTAGATGAAAGACTAACTGCCTTTGAGACCTAACTGT
GCTTATGACATAAAGGTGTCATTTAAGCCAGTTAAATGAAAGGCTAAGTGCCTTTAAGGCCTAAC
TGTGCTTATGATAGAAATATGTCATTTATGATAAAAATGTGTCATTTATGAT
Found at i:35240 original size:81 final size:81
Alignment explanation
Indices: 35103--35581 Score: 663
Period size: 81 Copynumber: 5.9 Consensus size: 81
35093 GTGCCTTTGA
* * *
35103 GGCCTAACTGTGCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGATAAATATCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGATAAATACCGT
*
35168 TGAATAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * *
35184 GGCCTAACTGTACAATTGGTAGAAATGTGCCAATTATGCCAGTTAGATGAACGGATAAATACCAT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGATAAATACCGT
35249 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * * ***
35265 GGCTTAACTGTGCAATTGGTAGAAAGATGCCAATTAAGTCAGTTAGATGAATGAATAAATTTTGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGATAAATACCGT
*
35330 TGAATAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * **
35346 GGCCTAACAGTGCAATTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACGTTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGATAAATACCGT
35411 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
35427 GGCCTAACTGTCCAATTGGTAGAAAGGTACTAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGATAAATACCGT
35492 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
35508 GGCTTATCTGTGCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAAC-GATTAAACACTG
1 GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGA-TAAATACCG
35572 TTGAGTAAAA
65 TTGAGTAAAA
35582 ATAAAATGTT
Statistics
Matches: 347, Mismatches: 50, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
80 1 0.00
81 346 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGGTAGAAAGGTGCCAATTATGCCAGTTAGATGAACGGATAAATACCGT
TGAGTAAAAGAATAAT
Found at i:35531 original size:243 final size:243
Alignment explanation
Indices: 35103--35558 Score: 750
Period size: 243 Copynumber: 1.9 Consensus size: 243
35093 GTGCCTTTGA
* * *
35103 GGCCTAACTGTGCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGATAAATATCGT
1 GGCCTAACAGTGCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGATAAATACCGT
* *
35168 TGAATAAAAGAATAATGGCCTAACTGTACAATTGGTAGAAATGTGCCAATTATGCCAGTTAGATG
66 TGAATAAAAGAATAATGGCCTAACTGTACAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATG
35233 AACGGATAAATACCATTGAGTAAAAGAATAATGGCTTAACTGTGCAATTGGTAGAAAGATGCCAA
131 AACGGATAAATACCATTGAGTAAAAGAATAATGGCTTAACTGTGCAATTGGTAGAAAGATGCCAA
*
35298 TTAAGTCAGTTAGATGAATGAATAAATTTTGTTGAATAAAAGAATAAT
196 TTAAGCCAGTTAGATGAATGAATAAATTTTGTTGAATAAAAGAATAAT
* **
35346 GGCCTAACAGTGCAATTGGTAGAAATGTGTCAATTATGCCAGTTAGATGAACGTTTAAATACCGT
1 GGCCTAACAGTGCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGATAAATACCGT
* * *
35411 TGAGTAAAAGAATAATGGCCTAACTGTCCAATTGGTAGAAAGGTACTAATTATGCCAGTTAGATG
66 TGAATAAAAGAATAATGGCCTAACTGTACAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATG
* * * * *
35476 AACGGTTAAATACCGTTGAGTAAAAGAATAATGGCTTATCTGTGCAATTGGTAGAAAGGTGTCAA
131 AACGGATAAATACCATTGAGTAAAAGAATAATGGCTTAACTGTGCAATTGGTAGAAAGATGCCAA
*
35541 TTATGCCAGTTAGATGAA
196 TTAAGCCAGTTAGATGAA
35559 CGATTAAACA
Statistics
Matches: 195, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
243 195 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (243 bp):
GGCCTAACAGTGCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGATAAATACCGT
TGAATAAAAGAATAATGGCCTAACTGTACAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATG
AACGGATAAATACCATTGAGTAAAAGAATAATGGCTTAACTGTGCAATTGGTAGAAAGATGCCAA
TTAAGCCAGTTAGATGAATGAATAAATTTTGTTGAATAAAAGAATAAT
Found at i:38126 original size:12 final size:12
Alignment explanation
Indices: 38109--38134 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38099 TTGTTGTGCT
38109 TGCTCCTCGGGC
1 TGCTCCTCGGGC
38121 TGCTCCTCGGGC
1 TGCTCCTCGGGC
38133 TG
1 TG
38135 TTCAGGCTCA
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:0.00, C:0.38, G:0.35, T:0.27
Consensus pattern (12 bp):
TGCTCCTCGGGC
Found at i:43538 original size:15 final size:15
Alignment explanation
Indices: 43518--43554 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
43508 CTTTGAAAGT
43518 AAATTTTGCAAATCC
1 AAATTTTGCAAATCC
43533 AAATTTTGCAAATCC
1 AAATTTTGCAAATCC
43548 AAATTTT
1 AAATTTT
43555 TCTTTTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (15 bp):
AAATTTTGCAAATCC
Found at i:46772 original size:65 final size:65
Alignment explanation
Indices: 46616--46800 Score: 254
Period size: 65 Copynumber: 2.9 Consensus size: 65
46606 TGACTGTTGG
* * * *
46616 ACCCTTAGTGCATCGATGCACTAG-A-GTGCATCGATGCATGAAGTGCATTCGATG-TTTCAAAC
1 ACCCTAAGTGCATCGATGCA-TGGTATGTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAC
46678 A
65 A
* *
46679 AGCC-AGAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCATTCGATGTTTTCATTA
1 ACCCTA-AGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AA
46743 -A
64 CA
46744 ACCCTAAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCATTCGATGTT
1 ACCCTAAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCATTCGATGTT
46801 CAATTTATTC
Statistics
Matches: 109, Mismatches: 7, Indels: 10
0.87 0.06 0.08
Matches are distributed among these distances:
62 2 0.02
63 18 0.17
64 27 0.25
65 60 0.55
66 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (65 bp):
ACCCTAAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCATTCGATGTTTTCAAACA
Found at i:49497 original size:23 final size:22
Alignment explanation
Indices: 49467--49545 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
49457 GCATGGCAGT
49467 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
49489 AGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
49511 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
49534 GATGCATCGATG
1 G-TGCATCGATG
49546 TACTGTTAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 19 0.42
24 9 0.20
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:49523 original size:21 final size:22
Alignment explanation
Indices: 49467--49529 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
49457 GCATGGCAGT
49467 GTGCATCGATGCACATTCAAGGA
1 GTGCATCGATGCACATTC-AGGA
* * *
49490 GTGCATCGGTGCACCTTCATG-
1 GTGCATCGATGCACATTCAGGA
*
49511 GTGTATCGATGCACATTCA
1 GTGCATCGATGCACATTCA
49530 AAGGGATGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 16 0.47
22 2 0.06
23 16 0.47
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAGGA
Found at i:55346 original size:45 final size:46
Alignment explanation
Indices: 55296--55402 Score: 137
Period size: 45 Copynumber: 2.3 Consensus size: 46
55286 TTGGACCCTT
* *
55296 AGTGCATCGATGCATGAAGTGCATTCGATG-TTTCA-AACAAGCCAA
1 AGTGCATCGATGCATGAAATGCATTCGATGTTTTCATAA-AACCCAA
* * **
55341 AGTGCATCGATGTATAAAATGCATTCGATGTTTTCATAAAACCCTG
1 AGTGCATCGATGCATGAAATGCATTCGATGTTTTCATAAAACCCAA
55387 AGTGCATCGATGCATG
1 AGTGCATCGATGCATG
55403 GTATGTGCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
45 27 0.52
46 23 0.44
47 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (46 bp):
AGTGCATCGATGCATGAAATGCATTCGATGTTTTCATAAAACCCAA
Found at i:55412 original size:19 final size:19
Alignment explanation
Indices: 55388--55458 Score: 142
Period size: 19 Copynumber: 3.7 Consensus size: 19
55378 AAAACCCTGA
55388 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
55407 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
55426 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
55445 GTGCATCGATGCAT
1 GTGCATCGATGCAT
55459 AAAATGCATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCATGGTAT
Found at i:57023 original size:7 final size:6
Alignment explanation
Indices: 56997--57027 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
56987 TTAATTGCGA
56997 AAAATT AAAATT AAAATT AAAATTT AAAATT
1 AAAATT AAAATT AAAATT AAAA-TT AAAATT
57028 CGATTCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AAAATT
Found at i:57199 original size:40 final size:37
Alignment explanation
Indices: 57097--57204 Score: 132
Period size: 36 Copynumber: 2.9 Consensus size: 37
57087 GATAAGAAAT
*
57097 AATAAATAAATATTAAATAAATCAAA-GAAAAAATAA
1 AATAAAAAAATATTAAATAAATCAAAGGAAAAAATAA
* *
57133 AATAAAAATAA-A-AAAATGAATCAAAGGAAAAAGATAAA
1 AATAAAAA-AATATTAAATAAATCAAAGGAAAAA-AT-AA
57171 AATAAAAAAATATTAAATAAATCAAAAGGAAAAA
1 AATAAAAAAATATTAAATAAATC-AAAGGAAAAA
57205 TAATACAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
35 11 0.18
36 14 0.23
37 6 0.10
38 11 0.18
39 8 0.13
40 10 0.17
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (37 bp):
AATAAAAAAATATTAAATAAATCAAAGGAAAAAATAA
Found at i:57227 original size:24 final size:25
Alignment explanation
Indices: 57169--57227 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
57159 GAAAAAGATA
*
57169 AAAATAAAAAAATATTAAATAAATC
1 AAAATAAAAAAATAATAAATAAATC
**
57194 AAAA-GGAAAAATAATACAA-AAAT-
1 AAAATAAAAAAATAATA-AATAAATC
57217 AAAATAAAAAA
1 AAAATAAAAAA
57228 TGTTAAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
23 4 0.15
24 17 0.63
25 6 0.22
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (25 bp):
AAAATAAAAAAATAATAAATAAATC
Found at i:57311 original size:22 final size:22
Alignment explanation
Indices: 57281--57349 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
57271 ATACAAATAA
57281 AAAATAAAAAAATACTAAAATT
1 AAAATAAAAAAATACTAAAATT
* * *
57303 AAAAGAAAAAAATGA--ATAACT
1 AAAATAAAAAAAT-ACTAAAATT
*
57324 AAAATAAAAAAATGCTAAAATT
1 AAAATAAAAAAATACTAAAATT
57346 AAAA
1 AAAA
57350 AGGAAAAAGA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
21 16 0.43
22 20 0.54
23 1 0.03
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (22 bp):
AAAATAAAAAAATACTAAAATT
Found at i:58534 original size:20 final size:21
Alignment explanation
Indices: 58509--58548 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
58499 AAATATTAAT
*
58509 AAAATAGTAA-ATGAAAATAA
1 AAAATAGTAATATAAAAATAA
*
58529 AAAATATTAATATAAAAATA
1 AAAATAGTAATATAAAAATA
58549 TTTTAAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (21 bp):
AAAATAGTAATATAAAAATAA
Found at i:58668 original size:39 final size:39
Alignment explanation
Indices: 58553--58937 Score: 486
Period size: 39 Copynumber: 10.3 Consensus size: 39
58543 AAAATATTTT
*
58553 AAAACTATATATTATATAT-TTTTTTTAAAATGTTTTC-
1 AAAACTATATATTATATATATTTTTTCAAAATGTTTTCA
58590 AAAACTATAT-TATATATATATGTATTTTCAAAATGTTTTCA
1 AAAACTATATAT-TATATATAT-T-TTTTCAAAATGTTTTCA
* *
58631 AAAACTATATATTATTTATATTTTTTCAAAATATTTTCA
1 AAAACTATATATTATATATATTTTTTCAAAATGTTTTCA
58670 AAAACTATATATTATATATA-TTTTTCAAAATGTTTTCA
1 AAAACTATATATTATATATATTTTTTCAAAATGTTTTCA
* *
58708 AAAAC--TA-A-TGT-T-T-TTTTTT--AAATGATTTCA
1 AAAACTATATATTATATATATTTTTTCAAAATGTTTTCA
* *
58738 AAAACTATATATTAAATATATTTTTTCAAAATGATTTCA
1 AAAACTATATATTATATATATTTTTTCAAAATGTTTTCA
* *
58777 AAAACTATATATTATATATATATATTCAAAATGTTTT-A
1 AAAACTATATATTATATATATTTTTTCAAAATGTTTTCA
*
58815 AAAACTATATATTATATAAATTTTTTTCAAAATGTTTTCA
1 AAAACTATATATTATATATA-TTTTTTCAAAATGTTTTCA
*
58855 AAAACTATATA-T-TATATATTTTTTCAAAATGTTTT-T
1 AAAACTATATATTATATATATTTTTTCAAAATGTTTTCA
58891 AAAACTATATA--ATATATA-TTTTTCGAAAATGTTTTCA
1 AAAACTATATATTATATATATTTTTTC-AAAATGTTTTCA
58928 AAAACTATAT
1 AAAACTATAT
58938 TATATTAATA
Statistics
Matches: 308, Mismatches: 19, Indels: 42
0.83 0.05 0.11
Matches are distributed among these distances:
30 15 0.05
32 8 0.03
33 2 0.01
34 3 0.01
35 8 0.03
36 31 0.10
37 50 0.16
38 48 0.16
39 96 0.31
40 28 0.09
41 18 0.06
42 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (39 bp):
AAAACTATATATTATATATATTTTTTCAAAATGTTTTCA
Found at i:58865 original size:185 final size:184
Alignment explanation
Indices: 58553--58894 Score: 546
Period size: 185 Copynumber: 1.9 Consensus size: 184
58543 AAAATATTTT
* * * * *
58553 AAAACTATATATTATATATTTTTTTTAAAATGTTTTCAAAACTATATTATATATATATGTATTTT
1 AAAACTATATATTAAATATTTTTTTCAAAATGATTTCAAAACTATATTATATATATATATATATT
* *
58618 CAAAATGTTTTCAAAAACTATATATTATTTATATTTTTTCAAAATATTTTCAAAAACTATATATT
66 CAAAATGTTTTCAAAAACTATATATTATATAAATTTTTTCAAAATATTTTCAAAAACTATATATT
58683 ATATATATTTTTCAAAATGTTTTCAAAAACTAATGTTTTTTTTTAAATGATTTCA
131 ATATAT-TTTTTCAAAATGTTTTCAAAAACTAATGTTTTTTTTTAAATGATTTCA
58738 AAAACTATATATTAAATATATTTTTTCAAAATGATTTCAAAAACTATA-TAT-TATATATATATA
1 AAAACTATATATTAAATAT-TTTTTTCAAAATGATTTC-AAAACTATATTATATATATATATATA
*
58801 TTCAAAATGTTTT-AAAAACTATATATTATATAAATTTTTTTCAAAATGTTTTCAAAAACTATAT
64 TTCAAAATGTTTTCAAAAACTATATATTATATAAA-TTTTTTCAAAATATTTTCAAAAACTATAT
*
58865 ATTATATATTTTTTCAAAATGTTTTTAAAA
128 ATTATATATTTTTTCAAAATGTTTTCAAAA
58895 CTATATAATA
Statistics
Matches: 145, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
184 39 0.27
185 78 0.54
186 19 0.13
187 9 0.06
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (184 bp):
AAAACTATATATTAAATATTTTTTTCAAAATGATTTCAAAACTATATTATATATATATATATATT
CAAAATGTTTTCAAAAACTATATATTATATAAATTTTTTCAAAATATTTTCAAAAACTATATATT
ATATATTTTTTCAAAATGTTTTCAAAAACTAATGTTTTTTTTTAAATGATTTCA
Found at i:58943 original size:76 final size:73
Alignment explanation
Indices: 58752--58951 Score: 255
Period size: 76 Copynumber: 2.7 Consensus size: 73
58742 CTATATATTA
*
58752 AATATATTTTTTCAAAATGATTTCAAAAACTATATAT-TATATATATATATTCAAAATGTTTTAA
1 AATATATTTTTTCAAAATGTTTTCAAAAACTATATATAT-TATATATATATTCAAAATGTTTTAA
58816 AAACTATAT
65 AAACTATAT
* *
58825 ATTATATAAATTTTTTTCAAAATGTTTTCAAAAAC--TATATATTATATATTTTTTCAAAATGTT
1 A--ATAT--A-TTTTTTCAAAATGTTTTCAAAAACTATATATATTATATATATATTCAAAATGTT
*
58888 TTTAAAACTATAT
61 TTAAAAACTATAT
58901 AATATATATTTTTCGAAAATGTTTTCAAAAACTATATTATATTA-ATATATA
1 AATATAT-TTTTTC-AAAATGTTTTCAAAAACTATA-TATATTATATATATA
58952 CTAAATAAAC
Statistics
Matches: 110, Mismatches: 6, Indels: 20
0.81 0.04 0.15
Matches are distributed among these distances:
71 1 0.01
72 7 0.06
73 18 0.16
74 4 0.04
75 11 0.10
76 44 0.40
77 2 0.02
78 23 0.21
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.47
Consensus pattern (73 bp):
AATATATTTTTTCAAAATGTTTTCAAAAACTATATATATTATATATATATTCAAAATGTTTTAAA
AACTATAT
Found at i:61076 original size:6 final size:6
Alignment explanation
Indices: 61058--61093 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
61048 AGTTGCTCGC
* *
61058 CCTCTT CCCCTT CCTCTT CCTCTG CCTCTT CCTCTT
1 CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT CCTCTT
61094 GCACCAAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.53, G:0.03, T:0.44
Consensus pattern (6 bp):
CCTCTT
Found at i:64904 original size:13 final size:13
Alignment explanation
Indices: 64886--64914 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
64876 CCACCGTACT
64886 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
64899 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
64912 CCG
1 CCG
64915 TAACGGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.62, G:0.31, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:65663 original size:3 final size:3
Alignment explanation
Indices: 65657--65701 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
65647 AATAATTATT
* *
65657 TAA TAA TAA T-A TAC TAA TAA TAA TATT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
65702 ATTTAAATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 32 0.89
4 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:65665 original size:14 final size:13
Alignment explanation
Indices: 65646--65694 Score: 71
Period size: 14 Copynumber: 3.6 Consensus size: 13
65636 TTTGGGCTTG
65646 TAATAATTATTTAA
1 TAATAA-TATTTAA
*
65660 TAATAATATACTAA
1 TAATAATAT-TTAA
65674 TAATAATATTTAA
1 TAATAATATTTAA
65687 TAATAATA
1 TAATAATA
65695 ATAATAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
13 14 0.44
14 18 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
TAATAATATTTAA
Found at i:75138 original size:30 final size:30
Alignment explanation
Indices: 75104--75162 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
75094 GCATTAGTGG
75104 CGAGGTTGATGGGAGCAGATAAATTTCCTC
1 CGAGGTTGATGGGAGCAGATAAATTTCCTC
*
75134 CGAGGTTGATGGGAGTAGATAAATTTCCT
1 CGAGGTTGATGGGAGCAGATAAATTTCCT
75163 GGATTCCGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.29
Consensus pattern (30 bp):
CGAGGTTGATGGGAGCAGATAAATTTCCTC
Found at i:76973 original size:60 final size:60
Alignment explanation
Indices: 76894--77068 Score: 210
Period size: 59 Copynumber: 2.9 Consensus size: 60
76884 TTATATCTCA
* *
76894 CCTAAACTATAACTTTCATTTTAAATTAGTCCTTAAATTTTTGAATATTTTAATTTCATC
1 CCTAAACTATGACTCTCATTTTAAATTAGTCCTTAAATTTTTGAATATTTTAATTTCATC
* * * *
76954 CCTAAACTATGACTCTCATTTT-AATTAGTCCTTAAATTTTTTAACATTCTAATTGCATC
1 CCTAAACTATGACTCTCATTTTAAATTAGTCCTTAAATTTTTGAATATTTTAATTTCATC
* * ** * * *
77013 CCTAAACTATGACCCTC-TTTATAAATTGGTCCCCAAAATTTTGAATCTTTCAATTT
1 CCTAAACTATGACTCTCATTT-TAAATTAGTCCTTAAATTTTTGAATATTTTAATTT
77069 TATCTCCAAA
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
58 3 0.03
59 50 0.52
60 43 0.45
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.44
Consensus pattern (60 bp):
CCTAAACTATGACTCTCATTTTAAATTAGTCCTTAAATTTTTGAATATTTTAATTTCATC
Found at i:77289 original size:60 final size:58
Alignment explanation
Indices: 77196--77356 Score: 153
Period size: 60 Copynumber: 2.7 Consensus size: 58
77186 AGTATATACA
* * * *
77196 TATAGTTTGGGATAAAATTGGAATGTTCAAAAAGTTTGGGAATCAATTTAGAATGA-AGGT
1 TATAGTTTGGGATGAAATTGAAATATTC-AAAAGTTTGGGAAT-AATTTAGAATGATA-AT
* * * *
77256 TATAGTTTGAGGATGAAATTAAAATATTCAAAAGTATGCAGACTAATTTAGAATGATAAT
1 TATAGTTTG-GGATGAAATTGAAATATTCAAAAGTTTG-GGAATAATTTAGAATGATAAT
* * * * *
77316 CATACTTTGGGATGAAATTGAAATATTTAAAAATTTAGGAA
1 TATAGTTTGGGATGAAATTGAAATATTCAAAAGTTTGGGAA
77357 CCATTTTAAA
Statistics
Matches: 81, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
58 2 0.02
59 23 0.28
60 37 0.46
61 19 0.23
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (58 bp):
TATAGTTTGGGATGAAATTGAAATATTCAAAAGTTTGGGAATAATTTAGAATGATAAT
Found at i:79653 original size:23 final size:21
Alignment explanation
Indices: 79603--79662 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 21
79593 CCAAACGACT
79603 TAAAAACGTGTCA-AAAGGCA
1 TAAAAACGTGTCATAAAGGCA
79623 TAAGAAAACGTGTCATAAAGGCA
1 T-A-AAAACGTGTCATAAAGGCA
79646 GGTAAAAACGTGTCATA
1 --TAAAAACGTGTCATA
79663 TATGCAGACT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 11 0.31
23 20 0.57
24 1 0.03
25 1 0.03
ACGTcount: A:0.47, C:0.13, G:0.22, T:0.18
Consensus pattern (21 bp):
TAAAAACGTGTCATAAAGGCA
Found at i:83259 original size:60 final size:60
Alignment explanation
Indices: 83164--83283 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
83154 ATGATGAATT
* * * * *
83164 CTTTTATTTTAAATTGATTCTTAAATTTTTAAATATTTTAATTTTATCCTAAAACTATGA
1 CTTTTAATTTAAATTGATCCTTAAATTTTTAAATATTCTAAATTCATCCTAAAACTATGA
* *
83224 CTTTTAATTTAAATTGATCCTTAAATTTTTGAATATTCTAAATTCATCCTCAAACTATGA
1 CTTTTAATTTAAATTGATCCTTAAATTTTTAAATATTCTAAATTCATCCTAAAACTATGA
83284 TACTCAGTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.49
Consensus pattern (60 bp):
CTTTTAATTTAAATTGATCCTTAAATTTTTAAATATTCTAAATTCATCCTAAAACTATGA
Found at i:83295 original size:60 final size:60
Alignment explanation
Indices: 83171--83298 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 60
83161 ATTCTTTTAT
* * * * * *
83171 TTTAAATTGATTCTTAAATTTTTAAATATTTTAATTTTATCCTAAAACTATGACTTTTAA
1 TTTAAATTGATCCTTAAATTTTTAAATATTCTAAATTCATCCTAAAACTATGACTCTCAA
* * *
83231 TTTAAATTGATCCTTAAATTTTTGAATATTCTAAATTCATCCTCAAACTATGA-TACTCAG
1 TTTAAATTGATCCTTAAATTTTTAAATATTCTAAATTCATCCTAAAACTATGACT-CTCAA
83291 TTTAAATT
1 TTTAAATT
83299 AGTGATCAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 1 0.02
60 57 0.98
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.48
Consensus pattern (60 bp):
TTTAAATTGATCCTTAAATTTTTAAATATTCTAAATTCATCCTAAAACTATGACTCTCAA
Found at i:85072 original size:22 final size:22
Alignment explanation
Indices: 85047--85097 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
85037 TCCTCTAATC
85047 AGATTAAAGTTCATTATCTGCA
1 AGATTAAAGTTCATTATCTGCA
85069 AGATTAAAGTTCATTATCTGCA
1 AGATTAAAGTTCATTATCTGCA
85091 AGATTAA
1 AGATTAA
85098 TCATTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (22 bp):
AGATTAAAGTTCATTATCTGCA
Found at i:95406 original size:29 final size:29
Alignment explanation
Indices: 95364--95495 Score: 140
Period size: 29 Copynumber: 4.5 Consensus size: 29
95354 ACAAATATAA
* *
95364 CTTTTTTAAATAATTACCAAAATAGCACC
1 CTTTTTGAATTAATTACCAAAATAGCACC
*
95393 CTTTTTGAATTAATTCCCAAAATAGCACC
1 CTTTTTGAATTAATTACCAAAATAGCACC
* * *
95422 AATTTTTGAATTAATTCCCAGAATAGCA-C
1 -CTTTTTGAATTAATTACCAAAATAGCACC
* **
95451 CTTTTTCAAAAAAATTACCAAAATAGCACC
1 CTTTTT-GAATTAATTACCAAAATAGCACC
* *
95481 CATTTCGAATTAATT
1 CTTTTTGAATTAATT
95496 TCCCGAATAG
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
28 5 0.06
29 49 0.58
30 30 0.36
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.34
Consensus pattern (29 bp):
CTTTTTGAATTAATTACCAAAATAGCACC
Found at i:95563 original size:13 final size:13
Alignment explanation
Indices: 95545--95574 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
95535 ACTGGTCAAC
95545 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
95558 GGTCAACGGGTTG
1 GGTCAACGGGTCG
95571 GGTC
1 GGTC
95575 GGGTCAACGG
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:0.13, C:0.20, G:0.47, T:0.20
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:95592 original size:17 final size:17
Alignment explanation
Indices: 95551--95624 Score: 130
Period size: 17 Copynumber: 4.3 Consensus size: 17
95541 CAACGGTCAA
95551 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAAC-GGT
*
95569 TGGGTCGGGTCAACGGT
1 CGGGTCGGGTCAACGGT
95586 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTCAACGGT
95603 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTCAACGGT
95620 CGGGT
1 CGGGT
95625 AAACGGGTCG
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
17 41 0.76
18 13 0.24
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.19
Consensus pattern (17 bp):
CGGGTCGGGTCAACGGT
Found at i:95652 original size:10 final size:10
Alignment explanation
Indices: 95639--95690 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 10
95629 GGGTCGTGAT
95639 CGGTCAAAAC
1 CGGTCAAAAC
95649 CGGTTCAAAAC
1 CGG-TCAAAAC
*
95660 CGGTTTAAAAC
1 CGG-TCAAAAC
* *
95671 CGGT-TAAAT
1 CGGTCAAAAC
95680 CGGTCAAAAC
1 CGGTCAAAAC
95690 C
1 C
95691 AGTTTTCAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
9 7 0.20
10 8 0.23
11 20 0.57
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (10 bp):
CGGTCAAAAC
Found at i:95658 original size:11 final size:11
Alignment explanation
Indices: 95642--95675 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
95632 TCGTGATCGG
95642 TCAAAACCGGT
1 TCAAAACCGGT
95653 TCAAAACCGGT
1 TCAAAACCGGT
*
95664 TTAAAACCGGT
1 TCAAAACCGGT
95675 T
1 T
95676 AAATCGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (11 bp):
TCAAAACCGGT
Found at i:98226 original size:19 final size:19
Alignment explanation
Indices: 98202--98238 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
98192 CAAAATTTCC
* *
98202 TAGAAAATACGATTTTAAA
1 TAGAAAAAACGATCTTAAA
98221 TAGAAAAAACGATCTTAA
1 TAGAAAAAACGATCTTAA
98239 TTGATTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.08, G:0.11, T:0.27
Consensus pattern (19 bp):
TAGAAAAAACGATCTTAAA
Found at i:98586 original size:2 final size:2
Alignment explanation
Indices: 98579--98604 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
98569 TAATTTAAAC
98579 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
98605 GTAGTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:100202 original size:18 final size:17
Alignment explanation
Indices: 100148--100196 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
100138 TTGGACTCCT
* *
100148 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
100166 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
100184 AGTGCATTCGATG
1 AGTGCA-TCGATG
100197 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:100261 original size:19 final size:19
Alignment explanation
Indices: 100237--100287 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
100227 TAATTAAATC
100237 AGAGTGCATCGATGCATGA
1 AGAGTGCATCGATGCATGA
*
100256 AGAGTGCATCGGTGCATGA
1 AGAGTGCATCGATGCATGA
100275 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
100288 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGA
Found at i:102949 original size:24 final size:23
Alignment explanation
Indices: 102878--102957 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 23
102868 CATGGTTTTG
*
102878 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGGGA
* *
102901 TGCATCGGTG--CA-TCATGCGGA
1 TGCATCGATGCACATTCAAG-GGA
102922 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
102946 TGCATCGATGCA
1 TGCATCGATGCA
102958 TTGTTAAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.09
21 13 0.28
23 11 0.23
24 17 0.36
25 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:102970 original size:44 final size:43
Alignment explanation
Indices: 102855--102977 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 43
102845 AAAACCCGAC
* **
102855 GGATGCATCGATGCATGGTTTTGTGCATCGATGCACATTCAAG
1 GGATGCATCGATGCATTGTTAAGTGCATCGATGCACATTCAAG
* * ***
102898 GCATGCATCGGTGCATCATGCGGA-TGCATCGATGCACATTCAAAG
1 GGATGCATCGATGCAT--TGTTAAGTGCATCGATGCACATTC-AAG
*
102943 GGATGCATCGATGCATTGTTAAGTGCATCGGTGCA
1 GGATGCATCGATGCATTGTTAAGTGCATCGATGCA
102978 TTAAGCACAA
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
43 17 0.27
44 28 0.44
45 18 0.29
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (43 bp):
GGATGCATCGATGCATTGTTAAGTGCATCGATGCACATTCAAG
Found at i:106678 original size:22 final size:21
Alignment explanation
Indices: 106637--106676 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
106627 GAGTTTGTTT
*
106637 TCATTTTTCAATTTTGAAATG
1 TCATTTTTCAATTTTAAAATG
106658 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
106677 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATG
Found at i:108737 original size:64 final size:64
Alignment explanation
Indices: 108604--108788 Score: 162
Period size: 64 Copynumber: 2.9 Consensus size: 64
108594 TTGGACTCCT
* * * * * *
108604 AGTGCATCGGTGCACT-AAGAGTGCATCGATTCATGAAGTGCATTTGATGTTTGAA--AAAT-AG
1 AGTGCATCGATGCA-TGAAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAATCAG
* **** * *
108665 CCTGGTGCATCGATGCATGGCTTGTGTATCGATGCATCAAATGCATTCGATGTTTTAATTAAATC
1 ---AGTGCATCGATGCATGAAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAATC
108730 AG
63 AG
* * *
108732 AGTGCATTGATGCATGAAGAGTGCATCGGTGCATGAAATGCATTCGATGTTTCAATT
1 AGTGCATCGATGCATGAAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAATT
108789 TATTCATTGA
Statistics
Matches: 95, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
63 1 0.01
64 88 0.93
66 4 0.04
67 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (64 bp):
AGTGCATCGATGCATGAAGAGTGCATCGATGCATCAAATGCATTCGATGTTTCAATTAAATCAG
Found at i:108754 original size:19 final size:19
Alignment explanation
Indices: 108730--108780 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
108720 TAATTAAATC
108730 AGAGTGCATTGATGCATGA
1 AGAGTGCATTGATGCATGA
* *
108749 AGAGTGCATCGGTGCATGA
1 AGAGTGCATTGATGCATGA
108768 A-A-TGCATTCGATG
1 AGAGTGCATT-GATG
108781 TTTCAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 18 0.67
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.25
Consensus pattern (19 bp):
AGAGTGCATTGATGCATGA
Found at i:110487 original size:26 final size:27
Alignment explanation
Indices: 110440--110493 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
110430 TAAATAATTT
110440 TCAAATAAATTTTGGTTAGATTAATGG
1 TCAAATAAATTTTGGTTAGATTAATGG
*
110467 TCAAAT-AATTTAT-GTTCGATTAATGG
1 TCAAATAAATTT-TGGTTAGATTAATGG
110493 T
1 T
110494 TAAAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.43
Consensus pattern (27 bp):
TCAAATAAATTTTGGTTAGATTAATGG
Found at i:110503 original size:94 final size:94
Alignment explanation
Indices: 110333--110515 Score: 312
Period size: 94 Copynumber: 1.9 Consensus size: 94
110323 ACCAGATTAA
* * * *
110333 CGGTTAATAATTTTTAAATAAATTTTGGTTCGATTAATGGTCAAATAATTTCGGTTCGATTAATG
1 CGGTAAATAATTTTCAAATAAATTTTGGTTAGATTAATGGTCAAATAATTTAGGTTCGATTAATG
110398 TTAAAGAAAAAAATTCGGTTAATTTGGTT
66 TTAAAGAAAAAAATTCGGTTAATTTGGTT
*
110427 CGGTAAATAATTTTCAAATAAATTTTGGTTAGATTAATGGTCAAATAATTTATGTTCGATTAATG
1 CGGTAAATAATTTTCAAATAAATTTTGGTTAGATTAATGGTCAAATAATTTAGGTTCGATTAAT-
110492 GTTAAAGAAAAAAATTCGGTTAAT
65 GTTAAAGAAAAAAATTCGGTTAAT
110516 AATTTTTAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 59 0.71
95 24 0.29
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (94 bp):
CGGTAAATAATTTTCAAATAAATTTTGGTTAGATTAATGGTCAAATAATTTAGGTTCGATTAATG
TTAAAGAAAAAAATTCGGTTAATTTGGTT
Found at i:110608 original size:146 final size:151
Alignment explanation
Indices: 110375--110826 Score: 491
Period size: 146 Copynumber: 3.0 Consensus size: 151
110365 ATTAATGGTC
* ** * * *
110375 AAAT-AATTTCGGTTCGATTAA-TGTTAAAGAAAAA-AATTCGGTTAATTTG---GTTCGGTAAA
1 AAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATT-AATTTATTTGTTAATTCGGTTAA
*
110434 TAATTTTCAAATAAATTTTGGTTAGATTAATGGTCAAATAATTTATGTTCGATTAATGGTTAAAG
65 TAATTTTCAAATAAATTTTGGTTAGATTAACGGTCAAATAATTT-TGTTCGATTAAT-GTTAAAG
110499 AAAAAAATTCGGTTAATAATTTTT
128 AAAAAAATTCGGTTAATAATTTTT
110523 AAATAAATTTCGGTTCGATTAACGGTT-AAG-AAAA-AA-TAATTTA-TT-TT-ATTCGGTTAAT
1 AAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTAATTTATTTGTTAATTCGGTTAAT
* * * *
110581 AATTTTCAAATAAATTTTGATTCGATTAACGGTCCAATAATTTCGGTTCGATTAATCGTTAAAGA
66 AATTTTCAAATAAATTTTGGTTAGATTAACGGTCAAATAATTT-TGTTCGATTAAT-GTTAAAG-
110646 AAAAAATTGTTGATTTGGTTCGGTTAATAATTTTT
128 AAAAAA------A-----TTCGGTTAATAATTTTT
* *
110681 AAATAAATTTCGGTTTGATTAACGGTTAAAGAAAAATAATTTATTTTATTTGGTTAATTCGGTTA
1 AAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAA-TTAATTTATTT-GTTAATTCGGTTA
* *
110746 ATAATTTTCAAATAAATTTGGGTTTGATTAACGGTCAAATAATTTTGGTTCGATTAATGTTAAAG
64 ATAATTTTCAAATAAATTTTGGTTAGATTAACGGTCAAATAATTTT-GTTCGATTAATGTTAAAG
110811 -AAAAAATTCGGTTAAT
128 AAAAAAATTCGGTTAAT
110827 TCGGTTTGGT
Statistics
Matches: 258, Mismatches: 20, Indels: 47
0.79 0.06 0.14
Matches are distributed among these distances:
145 2 0.01
146 69 0.27
147 7 0.03
148 10 0.04
149 20 0.08
150 3 0.01
153 11 0.04
158 44 0.17
159 3 0.01
160 4 0.02
161 2 0.01
163 6 0.02
164 7 0.03
166 9 0.03
167 61 0.24
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (151 bp):
AAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTAATTTATTTGTTAATTCGGTTAAT
AATTTTCAAATAAATTTTGGTTAGATTAACGGTCAAATAATTTTGTTCGATTAATGTTAAAGAAA
AAAATTCGGTTAATAATTTTT
Found at i:110629 original size:91 final size:93
Alignment explanation
Indices: 110528--110706 Score: 249
Period size: 93 Copynumber: 1.9 Consensus size: 93
110518 TTTTTAAATA
*
110528 AATTTCGGTTCGATTAA-CGGTT-AAGAAAAAATAAT-TT-ATTTTATTCGGTTAATAATTTTCA
1 AATTTCGGTTCGATTAATC-GTTAAAGAAAAAA-AATGTTGATTTGATTCGGTTAATAATTTTCA
*
110589 AATAAATTTTGATTCGATTAACGGTCCAAT
64 AATAAATTTCGATTCGATTAACGGTCCAAT
* * *
110619 AATTTCGGTTCGATTAATCGTTAAAGAAAAAAATTGTTGATTTGGTTCGGTTAATAATTTTTAAA
1 AATTTCGGTTCGATTAATCGTTAAAGAAAAAAAATGTTGATTTGATTCGGTTAATAATTTTCAAA
* *
110684 TAAATTTCGGTTTGATTAACGGT
66 TAAATTTCGATTCGATTAACGGT
110707 TAAAGAAAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
91 22 0.29
92 12 0.16
93 43 0.56
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (93 bp):
AATTTCGGTTCGATTAATCGTTAAAGAAAAAAAATGTTGATTTGATTCGGTTAATAATTTTCAAA
TAAATTTCGATTCGATTAACGGTCCAAT
Found at i:110701 original size:67 final size:71
Alignment explanation
Indices: 110619--110780 Score: 208
Period size: 74 Copynumber: 2.3 Consensus size: 71
110609 ACGGTCCAAT
*
110619 AATTTCGGTTCGATTAATC-GTTAAAGAAAAA-AA-TT-GTTGATTTGG-TTCGGTTAATAATTT
1 AATTTCGGTTTGATTAA-CGGTTAAAGAAAAATAATTTAGTTGATTTGGATTCGGTTAATAATTT
*
110679 TTAAATA
65 TCAAATA
* *
110686 AATTTCGGTTTGATTAACGGTTAAAGAAAAATAATTTATTTTATTTGGTTAATTCGGTTAATAAT
1 AATTTCGGTTTGATTAACGGTTAAAGAAAAATAATTTAGTTGATTTGG---ATTCGGTTAATAAT
110751 TTTCAAATA
63 TTTCAAATA
*
110760 AATTTGGGTTTGATTAACGGT
1 AATTTCGGTTTGATTAACGGT
110781 CAAATAATTT
Statistics
Matches: 82, Mismatches: 5, Indels: 9
0.85 0.05 0.09
Matches are distributed among these distances:
66 1 0.01
67 28 0.34
68 2 0.02
69 2 0.02
70 8 0.10
74 41 0.50
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.43
Consensus pattern (71 bp):
AATTTCGGTTTGATTAACGGTTAAAGAAAAATAATTTAGTTGATTTGGATTCGGTTAATAATTTT
CAAATA
Found at i:110845 original size:167 final size:166
Alignment explanation
Indices: 110506--111082 Score: 609
Period size: 167 Copynumber: 3.4 Consensus size: 166
110496 AAGAAAAAAA
*
110506 TTCGGTTAATAATTTTTAAATAAATTTCGGTTCGATTAACGGTT-AAG-AAAA-AA--TAATTTA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTAATTTA
* *
110566 -TT--TT-ATTCGGTTAATAATTTTCAAATAAATTTTGATTCGATTAACGGTCCAATAATTTCGG
66 TTTGGTTAATTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGG
*
110627 TTCGATTAATCGTTAAAGAAAAAAATTGTTGATTTGG
131 TTCGATTAAT-GTTAAAGAAAAAAATTGTTAATTTGG
* * *
110664 TTCGGTTAATAATTTTTAAATAAATTTCGGTTTGATTAACGGTTAAAGAAAAATAATTTATTTTA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTAATTTA
* * * *
110729 TTTGGTTAATTCGGTTAATAATTTTCAAATAAATTTGGGTTTGATTAACGGTCAAATAATTTTGG
66 TTTGGTTAATTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGG
*
110794 TTCGATTAATGTTAAAG-AAAAAATTCGGTTAATTCGG
131 TTCGATTAATGTTAAAGAAAAAAATT--GTTAATTTGG
* * * * *
110831 TTTGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTAAAATAATTTTGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAA---------AAATAA
*** * *
110896 TGTTAAAGAAAAAATTCGGTTAATTTGGTTCGATTAATAATTTTCAAATAAATTTCGATTCGATT
57 T-TT----AATTTATTTGGTTAA-----TTCGGTTAATAATTTTCAAATAAATTTCGATTCGATT
* * *
110961 AACTGTAAAATAATTTCGGTTCAATTAATGTTAAAGAAAAAAATTTAGTTAATTTGG
112 AACGGTCAAATAATTTCGGTTCGATTAATGTTAAAGAAAAAAA-TT-GTTAATTTGG
* *
111018 TTCGGTTAATAATTTACAAGTAAATTTCGGTTCGATTAACGGTTAAAGAAAAAATAATTT-ATTT
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTTAAAG-AAAAATAATTTAATTT
111082 A
65 A
111083 AACAAATAAT
Statistics
Matches: 345, Mismatches: 41, Indels: 51
0.79 0.09 0.12
Matches are distributed among these distances:
158 43 0.12
159 3 0.01
160 4 0.01
161 2 0.01
163 6 0.02
164 2 0.01
165 8 0.02
166 9 0.03
167 115 0.33
173 2 0.01
176 5 0.01
177 2 0.01
178 2 0.01
179 5 0.01
181 10 0.03
186 65 0.19
187 58 0.17
188 4 0.01
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (166 bp):
TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTAATTTA
TTTGGTTAATTCGGTTAATAATTTTCAAATAAATTTCGATTCGATTAACGGTCAAATAATTTCGG
TTCGATTAATGTTAAAGAAAAAAATTGTTAATTTGG
Found at i:110852 original size:93 final size:93
Alignment explanation
Indices: 110738--111060 Score: 511
Period size: 93 Copynumber: 3.5 Consensus size: 93
110728 ATTTGGTTAA
* * *
110738 TTCGGTTAATAATTTTCAAATAAATTTGGGTTTGATTAACGGTCAAATAATTTTGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTAAAATAATTTTGGTTCGATTAA
*
110803 TGTTAAAGAAAAAATTCGGTTAATTCGG
66 TGTTAAAGAAAAAATTCGGTTAATTTGG
*
110831 TTTGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTAAAATAATTTTGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTAAAATAATTTTGGTTCGATTAA
110896 TGTTAAAGAAAAAATTCGGTTAATTTGG
66 TGTTAAAGAAAAAATTCGGTTAATTTGG
* * * * *
110924 TTCGATTAATAATTTTCAAATAAATTTCGATTCGATTAACTGTAAAATAATTTCGGTTCAATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTAAAATAATTTTGGTTCGATTAA
**
110989 TGTTAAAGAAAAAAATTTAGTTAATTTGG
66 TGTTAAAG-AAAAAATTCGGTTAATTTGG
* *
111018 TTCGGTTAATAATTTACAAGTAAATTTCGGTTCGATTAACGGT
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGT
111061 TAAAGAAAAA
Statistics
Matches: 211, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
93 155 0.73
94 56 0.27
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (93 bp):
TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTAAAATAATTTTGGTTCGATTAA
TGTTAAAGAAAAAATTCGGTTAATTTGG
Found at i:120188 original size:13 final size:13
Alignment explanation
Indices: 120172--120201 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
120162 GTCCATATGC
120172 TGGTTATTTCATT
1 TGGTTATTTCATT
120185 TGGTTATTTCATT
1 TGGTTATTTCATT
120198 TGGT
1 TGGT
120202 CTTTCTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.07, G:0.20, T:0.60
Consensus pattern (13 bp):
TGGTTATTTCATT
Found at i:121467 original size:13 final size:13
Alignment explanation
Indices: 121444--121478 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
121434 GCATCACAAC
121444 AAAATGGAATTTCG
1 AAAA-GGAATTTCG
*
121458 GAAAGGAATTTCG
1 AAAAGGAATTTCG
121471 AAAAGGAA
1 AAAAGGAA
121479 AAATCGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.49, C:0.06, G:0.26, T:0.20
Consensus pattern (13 bp):
AAAAGGAATTTCG
Found at i:139727 original size:502 final size:502
Alignment explanation
Indices: 138785--139788 Score: 1963
Period size: 502 Copynumber: 2.0 Consensus size: 502
138775 AGCTATCCTC
*
138785 CATCAGATCGACCCTAATCTTAATTTTATACGACCTCCCATTCGTGTTTATTGTAATGTATTCTG
1 CATCAGATCGACCCTAATCTTAATTTTATACGACCTCCCATTCGTGTTTATTGTAATGTATTCCG
138850 GAATATCAAATGGACTCGCCACCCTTAACACCAACCTTGCTGCACGGAAGTCTACTTTCCAGAGA
66 GAATATCAAATGGACTCGCCACCCTTAACACCAACCTTGCTGCACGGAAGTCTACTTTCCAGAGA
138915 GTCTCTTCTTAAATCTCAACCAACGATCCCCATCTCGATGCCAGTTCCGAAAAGAAGTCTTCACA
131 GTCTCTTCTTAAATCTCAACCAACGATCCCCATCTCGATGCCAGTTCCGAAAAGAAGTCTTCACA
*
138980 CCAGCAATTTAGAGGCACACTTATTAATTTGGCTGAGCAAAAAGCCATAGGCACTCCTCCCTCTT
196 CCAGCAATTTAGAGGCACACCTATTAATTTGGCTGAGCAAAAAGCCATAGGCACTCCTCCCTCTT
*
139045 GATACACGGGGACCAACTTTTCAAGCTAGAATTCTAAATCCTTCGCTCTGTTCTCCATCGCTTTT
261 GATACACGAGGACCAACTTTTCAAGCTAGAATTCTAAATCCTTCGCTCTGTTCTCCATCGCTTTT
139110 TCCTCTCCTCCTACGATGGAAAGGTGATAATGCACGCCTTCTTTGCATAACCCCATGACGCCACT
326 TCCTCTCCTCCTACGATGGAAAGGTGATAATGCACGCCTTCTTTGCATAACCCCATGACGCCACT
*
139175 TTGACATTGAAACCGTCACTCTGTCATACCTTTTGGCTAAATTCCAATTCAACAATGGACTTAAG
391 TTGACATTGAAACCGTCACTCTATCATACCTTTTGGCTAAATTCCAATTCAACAATGGACTTAAG
139240 AATACCTGTATATGACAGCTTAATCCATTCCCTTTCTTCCACAGGTA
456 AATACCTGTATATGACAGCTTAATCCATTCCCTTTCTTCCACAGGTA
139287 CATCAGATCGACCCTAATCTTAATTTTATACGACCTCCCATTCGTGTTTATTGTAATGTATTCCG
1 CATCAGATCGACCCTAATCTTAATTTTATACGACCTCCCATTCGTGTTTATTGTAATGTATTCCG
139352 GAATATCAAATGGACTCGCCACCCTTAACACCAACCTTGCTGCACGGAAGTCTACTTTCCAGAGA
66 GAATATCAAATGGACTCGCCACCCTTAACACCAACCTTGCTGCACGGAAGTCTACTTTCCAGAGA
139417 GTCTCTTCTTAAATCTCAACCAACGATCCCCATCTCGATGCCAGTTCCGAAAAGAAGTCTTCACA
131 GTCTCTTCTTAAATCTCAACCAACGATCCCCATCTCGATGCCAGTTCCGAAAAGAAGTCTTCACA
139482 CCAGCAATTTAGAGGCACACCTATTAATTTGGCTGAGCAAAAAGCCATAGGCACTCCTCCCTCTT
196 CCAGCAATTTAGAGGCACACCTATTAATTTGGCTGAGCAAAAAGCCATAGGCACTCCTCCCTCTT
139547 GATACACGAGGACCAACTTTTCAAGCTAGAATTCTAAATCCTTCGCTCTGTTCTCCATCGCTTTT
261 GATACACGAGGACCAACTTTTCAAGCTAGAATTCTAAATCCTTCGCTCTGTTCTCCATCGCTTTT
139612 TCCTCTCCTCCTACGATGGAAAGGTGATAATGCACGCCTTCTTTGCATAACCCCATGACGCCACT
326 TCCTCTCCTCCTACGATGGAAAGGTGATAATGCACGCCTTCTTTGCATAACCCCATGACGCCACT
*
139677 TTGACATTGAAACCGTCACTCTATCATACCTTTTGGCTAAATTCCAATTCAACAGTGGACTTAAG
391 TTGACATTGAAACCGTCACTCTATCATACCTTTTGGCTAAATTCCAATTCAACAATGGACTTAAG
139742 AATACCTGTATATGACAGCTTAATCCATTCCCTTTCTTCCACAGGTA
456 AATACCTGTATATGACAGCTTAATCCATTCCCTTTCTTCCACAGGTA
139789 TGAACATGTT
Statistics
Matches: 497, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
502 497 1.00
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (502 bp):
CATCAGATCGACCCTAATCTTAATTTTATACGACCTCCCATTCGTGTTTATTGTAATGTATTCCG
GAATATCAAATGGACTCGCCACCCTTAACACCAACCTTGCTGCACGGAAGTCTACTTTCCAGAGA
GTCTCTTCTTAAATCTCAACCAACGATCCCCATCTCGATGCCAGTTCCGAAAAGAAGTCTTCACA
CCAGCAATTTAGAGGCACACCTATTAATTTGGCTGAGCAAAAAGCCATAGGCACTCCTCCCTCTT
GATACACGAGGACCAACTTTTCAAGCTAGAATTCTAAATCCTTCGCTCTGTTCTCCATCGCTTTT
TCCTCTCCTCCTACGATGGAAAGGTGATAATGCACGCCTTCTTTGCATAACCCCATGACGCCACT
TTGACATTGAAACCGTCACTCTATCATACCTTTTGGCTAAATTCCAATTCAACAATGGACTTAAG
AATACCTGTATATGACAGCTTAATCCATTCCCTTTCTTCCACAGGTA
Found at i:148038 original size:57 final size:57
Alignment explanation
Indices: 147950--148066 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
147940 AGATGGAACC
147950 TCCAGCACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTGTGAAGA
1 TCCAGCACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTGTGAAGA
*
148007 TCCAGCACCTCTGCAGCAAAACCAAGAATCTGATCCTGGTCCAAGATCTTGTGAAGA
1 TCCAGCACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTGTGAAGA
148064 TCC
1 TCC
148067 TTTAGGTAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (57 bp):
TCCAGCACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTGTGAAGA
Found at i:152044 original size:17 final size:15
Alignment explanation
Indices: 152004--152035 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
151994 TGAGAATTGA
*
152004 GTTAACATTATCTTT
1 GTTAATATTATCTTT
152019 GTTAATATTATCTTT
1 GTTAATATTATCTTT
152034 GT
1 GT
152036 ATCAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.56
Consensus pattern (15 bp):
GTTAATATTATCTTT
Found at i:153615 original size:12 final size:12
Alignment explanation
Indices: 153598--153623 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
153588 GTTTAGTGAA
153598 ATGTGACACTAG
1 ATGTGACACTAG
153610 ATGTGACACTAG
1 ATGTGACACTAG
153622 AT
1 AT
153624 CCAACAAGTA
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:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (12 bp):
ATGTGACACTAG
Found at i:157850 original size:60 final size:60
Alignment explanation
Indices: 157772--157925 Score: 211
Period size: 60 Copynumber: 2.6 Consensus size: 60
157762 CGGTAATGTT
* * * * *
157772 TTGTTGAGTTCATTGACTATTAAAATTTACAAAATTATCCTTCGACTATAGGTTGTTGAA
1 TTGTTGAGTCCCTCGACTATTAAAAGTTACAAAATTATCCTTCGACTATAGGGTGTTGAA
* * * *
157832 TTGTTGAGTCCCTCGACTATTAAAAGTTACAAAATTGTCCTTTGACTATGGGGTGTTGAT
1 TTGTTGAGTCCCTCGACTATTAAAAGTTACAAAATTATCCTTCGACTATAGGGTGTTGAA
*
157892 TTGTCGAGTCCC-CGACTATTAAAAGTTACAAAAT
1 TTGTTGAGTCCCTCGACTATTAAAAGTTACAAAAT
157926 AGTCACCCGA
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 22 0.26
60 62 0.74
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (60 bp):
TTGTTGAGTCCCTCGACTATTAAAAGTTACAAAATTATCCTTCGACTATAGGGTGTTGAA
Found at i:159548 original size:2 final size:2
Alignment explanation
Indices: 159541--159567 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
159531 GATGATAAAA
159541 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
159568 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:159572 original size:2 final size:2
Alignment explanation
Indices: 159567--159591 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
159557 TCTCTCTCTC
159567 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
159592 CTTTTGGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:164193 original size:3 final size:3
Alignment explanation
Indices: 164187--164259 Score: 58
Period size: 3 Copynumber: 24.3 Consensus size: 3
164177 TAAAATTACC
* * * * * *
164187 ATT ATT ATT ATT ACTA AAT ATT AGT ATT ATT ATA ATA ATA ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
164233 ATT ATA AAT ATT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
164260 ATAAATAATT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.93
4 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (3 bp):
ATT
Found at i:164327 original size:17 final size:18
Alignment explanation
Indices: 164293--164330 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
164283 GCCCAAATAT
164293 CAAACCCAAACCCATTTA
1 CAAACCCAAACCCATTTA
*
164311 CAAACCC-AACCCGTTTA
1 CAAACCCAAACCCATTTA
164328 CAA
1 CAA
164331 CATAGGCCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.42, C:0.39, G:0.03, T:0.16
Consensus pattern (18 bp):
CAAACCCAAACCCATTTA
Found at i:165639 original size:29 final size:30
Alignment explanation
Indices: 165604--165662 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
165594 ATGACCTTTA
165604 ATTTTAATATTT-TATATTTTAATCA-TATT
1 ATTTTAAT-TTTATATATTTTAATCACTATT
* *
165633 ATTTTAATTTTATATGTTTTAGTCACTATT
1 ATTTTAATTTTATATATTTTAATCACTATT
165663 TAATTGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 19 0.73
30 4 0.15
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (30 bp):
ATTTTAATTTTATATATTTTAATCACTATT
Found at i:169150 original size:20 final size:20
Alignment explanation
Indices: 169127--169225 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 20
169117 TTACATTTTT
169127 TATTTGCATCTTTGCATTTG
1 TATTTGCATCTTTGCATTTG
** * * *
169147 TATTTTTATGTTTACTTTTG
1 TATTTGCATCTTTGCATTTG
*
169167 TA-TTGCA-CAGTTTGCATTTT
1 TATTTGCATC--TTTGCATTTG
* *
169187 TATTTTCGCATCGTTGTATTTG
1 TA-TTT-GCATCTTTGCATTTG
*
169209 CATTTGCATCTTTGCAT
1 TATTTGCATCTTTGCAT
169226 AGTTATATCT
Statistics
Matches: 56, Mismatches: 17, Indels: 12
0.66 0.20 0.14
Matches are distributed among these distances:
19 3 0.05
20 36 0.64
21 3 0.05
22 10 0.18
23 3 0.05
24 1 0.02
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.56
Consensus pattern (20 bp):
TATTTGCATCTTTGCATTTG
Found at i:171378 original size:72 final size:72
Alignment explanation
Indices: 171260--171394 Score: 216
Period size: 72 Copynumber: 1.9 Consensus size: 72
171250 ATACAATAAA
* * *
171260 GCTTGAGTTATTCCCCTAAAACAATTGGTTAATCGCCCTGGTTTTATGGATAATATTCAGCTAGT
1 GCTTGAGTTATACCCCTAAAACAATTGGTTAATCGCCCCGGCTTTATGGATAATATTCAGCTAGT
171325 CTGTTAT
66 CTGTTAT
* * *
171332 GCTTGAGTTGTACCTCTAAAGCAATTGGTTAATCGCCCCGGCTTTATGGATAATATTCAGCTA
1 GCTTGAGTTATACCCCTAAAACAATTGGTTAATCGCCCCGGCTTTATGGATAATATTCAGCTA
171395 ACCCATTATA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (72 bp):
GCTTGAGTTATACCCCTAAAACAATTGGTTAATCGCCCCGGCTTTATGGATAATATTCAGCTAGT
CTGTTAT
Found at i:175849 original size:36 final size:36
Alignment explanation
Indices: 175768--176071 Score: 196
Period size: 36 Copynumber: 8.3 Consensus size: 36
175758 GCCGGATGTT
* ** **
175768 CTCGAAACATAAATTTATCTCACTTAAGATTGTTTTT
1 CTCGAAACA-AAATTTATCTCACTTGAGACAGTTTCA
** * **
175805 CTTAAAACAAAATTTGTCTCGTTTGAGACAGTTTCA
1 CTCGAAACAAAATTTATCTCACTTGAGACAGTTTCA
* ** *
175841 CTCGAAACAGAACTTTATCTCACTTGAGATTGGTTT-T
1 CTCGAAACA-AAATTTATCTCACTTGAGA-CAGTTTCA
** * **
175878 CTTAAAACAAAATTTGTCTTGCTTGAGACAGTTTCA
1 CTCGAAACAAAATTTATCTCACTTGAGACAGTTTCA
* ** **
175914 CTCGAAACATAATTTTATCTCACTTGAGATTGTTTTT
1 CTCGAAACA-AAATTTATCTCACTTGAGACAGTTTCA
** * * *
175951 CTTAAAACAAAATTTATCTCGCTTGAAACAGATTCA
1 CTCGAAACAAAATTTATCTCACTTGAGACAGTTTCA
* ** **
175987 CTCGAAACAGAAGTTTATCTCACTTGAGATTGTTTTT
1 CTCGAAACA-AAATTTATCTCACTTGAGACAGTTTCA
** * **
176024 CTTAAAACAAGATTCGTCTCACTTGAGACAGTTTCA
1 CTCGAAACAAAATTTATCTCACTTGAGACAGTTTCA
*
176060 CTAGAAACAAAA
1 CTCGAAACAAAA
176072 ATTTCCATAA
Statistics
Matches: 191, Mismatches: 71, Indels: 11
0.70 0.26 0.04
Matches are distributed among these distances:
35 4 0.02
36 102 0.53
37 81 0.42
38 4 0.02
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (36 bp):
CTCGAAACAAAATTTATCTCACTTGAGACAGTTTCA
Found at i:175887 original size:73 final size:73
Alignment explanation
Indices: 175768--176075 Score: 463
Period size: 73 Copynumber: 4.2 Consensus size: 73
175758 GCCGGATGTT
* * *
175768 CTCGAAACATAAATTTATCTCACTTAAGATTGTTTTTCTTAAAACAAAATTTGTCTCGTTTGAGA
1 CTCGAAACAGAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGA
175833 CAGTTTCA
66 CAGTTTCA
* * *
175841 CTCGAAACAGAACTTTATCTCACTTGAGATTGGTTTTCTTAAAACAAAATTTGTCTTGCTTGAGA
1 CTCGAAACAGAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGA
175906 CAGTTTCA
66 CAGTTTCA
* * * *
175914 CTCGAAACATAATTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTATCTCGCTTGAAA
1 CTCGAAACAGAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGA
*
175979 CAGATTCA
66 CAGTTTCA
* * * *
175987 CTCGAAACAGAAGTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCGTCTCACTTGAGA
1 CTCGAAACAGAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGA
176052 CAGTTTCA
66 CAGTTTCA
* *
176060 CTAGAAACAAAAATTT
1 CTCGAAACAGAAATTT
176076 CCATAACTCG
Statistics
Matches: 211, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 211 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (73 bp):
CTCGAAACAGAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTTGTCTCGCTTGAGA
CAGTTTCA
Found at i:176222 original size:3 final size:3
Alignment explanation
Indices: 176214--176306 Score: 73
Period size: 3 Copynumber: 31.3 Consensus size: 3
176204 TTTTACTTAA
** * * *
176214 ATT ATT ATT -TT AAA ATT ACT ATT ATT ATT ATT ACTA AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * * * *
176259 ATT ATT ATA ATA ATA ATT ATT ATT ATA AAT ATT ATT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
176306 A
1 A
176307 ATAAATAATT
Statistics
Matches: 71, Mismatches: 16, Indels: 6
0.76 0.17 0.06
Matches are distributed among these distances:
2 4 0.06
3 65 0.92
4 2 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (3 bp):
ATT
Done.