Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006426.1 Hibiscus syriacus cultivar Beakdansim tig00015504_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: 101946
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:4559 original size:45 final size:46
Alignment explanation
Indices: 4495--4598 Score: 142
Period size: 45 Copynumber: 2.3 Consensus size: 46
4485 AAGGAACAGG
* * *
4495 GGGTGGCGG-GGGTGGTGAGGGTGTTGTTGATGAACCAGTTGT-TGT
1 GGGTGGAGGTGGG-GGTGAGGGTGTTGTTAATGAACCAGTTGTGGGT
4540 GGGTGGAGGTGGGGGTGAGGGTGTTGTTAATGAACCAGTTGTGGGT
1 GGGTGGAGGTGGGGGTGAGGGTGTTGTTAATGAACCAGTTGTGGGT
*
4586 GGG-GGTGGTGGGG
1 GGGTGGAGGTGGGG
4599 CTGGTGCTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
45 45 0.85
46 8 0.15
ACGTcount: A:0.12, C:0.05, G:0.56, T:0.28
Consensus pattern (46 bp):
GGGTGGAGGTGGGGGTGAGGGTGTTGTTAATGAACCAGTTGTGGGT
Found at i:4667 original size:39 final size:39
Alignment explanation
Indices: 4619--4861 Score: 135
Period size: 39 Copynumber: 6.3 Consensus size: 39
4609 TGATATAGTT
* * * *
4619 GGTGATGGTGGTGGGAATGCAGATGATGTAACAGTTGGG
1 GGTGGTGGTGGTGGGAGTGCAGATGATGAAACAATTGGG
* **
4658 GGTGGTGGTGGTGGGGGTGCAGACAATGAAACAATT---
1 GGTGGTGGTGGTGGGAGTGCAGATGATGAAACAATTGGG
* *
4694 GATGGTGGTGGTGGGAGTGCTGATGATGAAACAATTGGG
1 GGTGGTGGTGGTGGGAGTGCAGATGATGAAACAATTGGG
* * * * *
4733 GTTGGTAGTGGGGATGGTGTAGGTGCTGATGATGATACAGTT---
1 GGTGGT-G-GTGG-TGG-G-A-GTGCAGATGATGAAACAATTGGG
* * * *
4775 GGAGGTGGTAG-GGG-GTGTAGATGATGAAACAGTTGGG
1 GGTGGTGGTGGTGGGAGTGCAGATGATGAAACAATTGGG
* * * * *
4812 GGAGGTGGT-GTGGGTGGTGCTGATGATGATACAGTTGGG
1 GGTGGTGGTGGTGGG-AGTGCAGATGATGAAACAATTGGG
* *
4851 GCTTGTGGTGG
1 GGTGGTGGTGG
4862 GCGTGGTGCA
Statistics
Matches: 159, Mismatches: 29, Indels: 31
0.73 0.13 0.14
Matches are distributed among these distances:
34 17 0.11
36 32 0.20
37 13 0.08
38 2 0.01
39 60 0.38
40 4 0.03
41 4 0.03
42 7 0.04
43 1 0.01
44 1 0.01
45 18 0.11
ACGTcount: A:0.21, C:0.05, G:0.47, T:0.27
Consensus pattern (39 bp):
GGTGGTGGTGGTGGGAGTGCAGATGATGAAACAATTGGG
Found at i:4744 original size:36 final size:36
Alignment explanation
Indices: 4624--4744 Score: 118
Period size: 36 Copynumber: 3.3 Consensus size: 36
4614 TAGTTGGTGA
* * *
4624 TGGTGGTGGGAATGCAGATGATGTAACAGTTGGGGGT
1 TGGTGGTGGGAGTGCAGATGATGAAACAATT-GGGGT
* ** *
4661 GGTGGTGGTGGGGGTGCAGACAATGAAACAATTGATGG-
1 --TGGTGGTGGGAGTGCAGATGATGAAACAATTG-GGGT
*
4699 TGGTGGTGGGAGTGCTGATGATGAAACAATTGGGGT
1 TGGTGGTGGGAGTGCAGATGATGAAACAATTGGGGT
*
4735 TGGTAGTGGG
1 TGGTGGTGGG
4745 GATGGTGTAG
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
35 2 0.03
36 37 0.55
38 1 0.01
39 27 0.40
ACGTcount: A:0.22, C:0.06, G:0.46, T:0.26
Consensus pattern (36 bp):
TGGTGGTGGGAGTGCAGATGATGAAACAATTGGGGT
Found at i:4751 original size:45 final size:44
Alignment explanation
Indices: 4702--4789 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 44
4692 TTGATGGTGG
4702 TGGTGG-GAGTGCTGATGATGAAACAATTGG-GGTTGGTAGTGGGGA
1 TGGTGGAG-GTGCTGATGATGAAACAATTGGAGG-TGGTAG-GGGGA
* * *
4747 TGGTGTAGGTGCTGATGATGATACAGTTGGAGGTGGTAGGGGG
1 TGGTGGAGGTGCTGATGATGAAACAATTGGAGGTGGTAGGGGG
4790 TGTAGATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
44 4 0.11
45 31 0.82
46 3 0.08
ACGTcount: A:0.20, C:0.05, G:0.48, T:0.27
Consensus pattern (44 bp):
TGGTGGAGGTGCTGATGATGAAACAATTGGAGGTGGTAGGGGGA
Found at i:4886 original size:45 final size:45
Alignment explanation
Indices: 4827--5001 Score: 197
Period size: 45 Copynumber: 3.9 Consensus size: 45
4817 TGGTGTGGGT
*
4827 GGTGCTGATGATGATACAGTTGGGGCTTGTGGTGGGCGTGGTGCA
1 GGTGCTGATGATGATACAGTTGGGGCTTGTGGTGGGGGTGGTGCA
* * * * * **
4872 GGTGCTGATAATGATATAATTAGGGCTTGTTGTGGGGGTGGTGTG
1 GGTGCTGATGATGATACAGTTGGGGCTTGTGGTGGGGGTGGTGCA
* *
4917 GGTGCTGATGATGATACAGTTGGGGCTCGAGGTGGGGGTGGTGCA
1 GGTGCTGATGATGATACAGTTGGGGCTTGTGGTGGGGGTGGTGCA
* * * * * * *
4962 GATGCTGATGAGGAAATAATTGGGGCTTCTGGTTGGGGTG
1 GGTGCTGATGATGATACAGTTGGGGCTTGTGGTGGGGGTG
5002 ATGCGACTGA
Statistics
Matches: 104, Mismatches: 26, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 104 1.00
ACGTcount: A:0.17, C:0.09, G:0.45, T:0.30
Consensus pattern (45 bp):
GGTGCTGATGATGATACAGTTGGGGCTTGTGGTGGGGGTGGTGCA
Found at i:4960 original size:39 final size:39
Alignment explanation
Indices: 4754--4970 Score: 131
Period size: 45 Copynumber: 5.4 Consensus size: 39
4744 GGATGGTGTA
*
4754 GGTGCTGATGATGATACAGTTGGAG---GTGGTAGGGGGT
1 GGTGCTGATGATGATACAGTTGGGGCTTGTGGT-GGGGGT
* * *** *
4791 -GT--AGATGATGAAACAGTTGGGGGAGGTGGTGTGGGT
1 GGTGCTGATGATGATACAGTTGGGGCTTGTGGTGGGGGT
4827 GGTGCTGATGATGATACAGTTGGGGCTTGTGGTGGGCGTGGT
1 GGTGCTGATGATGATACAGTTGGGGCTTGTGGT-GG-G-GGT
* * * * *
4869 GCAGGTGCTGATAATGATATAATTAGGGCTTGTTGTGGGGGTGGTGT
1 ---GGTGCTGATGATGATACAGTTGGGGC---TTGTGGTGG-GG-GT
* *
4916 GGGTGCTGATGATGATACAGTTGGGGCTCGAGGTGGGGGT
1 -GGTGCTGATGATGATACAGTTGGGGCTTGTGGTGGGGGT
* *
4956 GGTGCAGATGCTGAT
1 GGTGCTGATGATGAT
4971 GAGGAAATAA
Statistics
Matches: 138, Mismatches: 26, Indels: 30
0.71 0.13 0.15
Matches are distributed among these distances:
34 17 0.12
36 7 0.05
37 7 0.05
39 36 0.26
40 3 0.02
41 3 0.02
42 9 0.07
45 44 0.32
46 1 0.01
47 5 0.04
48 6 0.04
ACGTcount: A:0.18, C:0.07, G:0.47, T:0.29
Consensus pattern (39 bp):
GGTGCTGATGATGATACAGTTGGGGCTTGTGGTGGGGGT
Found at i:5000 original size:90 final size:90
Alignment explanation
Indices: 4827--5001 Score: 251
Period size: 90 Copynumber: 1.9 Consensus size: 90
4817 TGGTGTGGGT
* * * * *
4827 GGTGCTGATGATGATACAGTTGGGGCTTGTGGTGGGCGTGGTGCAGGTGCTGATAATGATATAAT
1 GGTGCTGATGATGATACAGTTGGGGCTCGAGGTGGGCGTGGTGCAGATGCTGATAAGGAAATAAT
* *
4892 TAGGGCTTGTTGTGGGGGTGGTGTG
66 TAGGGCTTCTGGTGGGGGTGGTGTG
* *
4917 GGTGCTGATGATGATACAGTTGGGGCTCGAGGTGGGGGTGGTGCAGATGCTGATGAGGAAATAAT
1 GGTGCTGATGATGATACAGTTGGGGCTCGAGGTGGGCGTGGTGCAGATGCTGATAAGGAAATAAT
* *
4982 TGGGGCTTCTGGTTGGGGTG
66 TAGGGCTTCTGGTGGGGGTG
5002 ATGCGACTGA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.17, C:0.09, G:0.45, T:0.30
Consensus pattern (90 bp):
GGTGCTGATGATGATACAGTTGGGGCTCGAGGTGGGCGTGGTGCAGATGCTGATAAGGAAATAAT
TAGGGCTTCTGGTGGGGGTGGTGTG
Found at i:5026 original size:90 final size:90
Alignment explanation
Indices: 4832--5029 Score: 234
Period size: 90 Copynumber: 2.2 Consensus size: 90
4822 TGGGTGGTGC
* * * * *
4832 TGATGATGATACAGTTGGGGCTTGTGGTGGGCGTGGTGCAGGTGCTGATAATGATATAATTAGGG
1 TGATGATGATACAGTTGGGGCTCGAGGTGGGCGTGGTGCAGATGCTGATAAGGAAATAATTAGGG
* * * * ** *
4897 CTTGTTGTGGGGGTGGTGTGGGTGC
66 CTTCTGGTGGGGGTGATGCGACTGA
* * *
4922 TGATGATGATACAGTTGGGGCTCGAGGTGGGGGTGGTGCAGATGCTGATGAGGAAATAATTGGGG
1 TGATGATGATACAGTTGGGGCTCGAGGTGGGCGTGGTGCAGATGCTGATAAGGAAATAATTAGGG
*
4987 CTTCTGGTTGGGGTGATGCGACTGA
66 CTTCTGGTGGGGGTGATGCGACTGA
* *
5012 TGATAATGAAACAGTTGG
1 TGATGATGATACAGTTGG
5030 ACCAGTTATA
Statistics
Matches: 90, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.20, C:0.09, G:0.42, T:0.29
Consensus pattern (90 bp):
TGATGATGATACAGTTGGGGCTCGAGGTGGGCGTGGTGCAGATGCTGATAAGGAAATAATTAGGG
CTTCTGGTGGGGGTGATGCGACTGA
Found at i:9343 original size:30 final size:30
Alignment explanation
Indices: 9286--9365 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 30
9276 CGTAGGTTTT
*
9286 TTTATTTCATTTATTTTATTACTTTTAAAATA
1 TTTATTT--TTTATTTTATTACCTTTAAAATA
* * **
9318 TTTATTTTTTATTTTTTTTCCTTTAATTTA
1 TTTATTTTTTATTTTATTACCTTTAAAATA
* *
9348 TTTAATATTTA-TTTATTA
1 TTTATTTTTTATTTTATTA
9366 TTTATTATGT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
29 5 0.13
30 27 0.69
32 7 0.18
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTATTTTTTATTTTATTACCTTTAAAATA
Found at i:10983 original size:6 final size:6
Alignment explanation
Indices: 10972--10996 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10962 CTAATATACA
10972 GTTTCG GTTTCG GTTTCG GTTTCG G
1 GTTTCG GTTTCG GTTTCG GTTTCG G
10997 CCTCGGATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.36, T:0.48
Consensus pattern (6 bp):
GTTTCG
Found at i:17457 original size:22 final size:23
Alignment explanation
Indices: 17432--17478 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
17422 AACTTAAAGG
17432 ATTAAAATGGC-AAAA-ACAGAAA
1 ATTAAAA-GGCTAAAATACAGAAA
*
17454 ATTAAAAGGCTAAAATAGAGAAA
1 ATTAAAAGGCTAAAATACAGAAA
17477 AT
1 AT
17479 AGAAACTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 11 0.50
23 8 0.36
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.17
Consensus pattern (23 bp):
ATTAAAAGGCTAAAATACAGAAA
Found at i:17459 original size:30 final size:30
Alignment explanation
Indices: 17425--17527 Score: 102
Period size: 30 Copynumber: 3.4 Consensus size: 30
17415 AAACATGAAC
* *
17425 TTAAAGGATTAAAATGGCAAAAACAGAAAA
1 TTAAAGGACTAAAATAGCAAAAACAGAAAA
* *
17455 TTAAAAGG-CTAAAATAG-AGAAAATAGAAAC
1 TT-AAAGGACTAAAATAGCA-AAAACAGAAAA
* *
17485 TTAAAGGACAAAAATAGCAAAAACAGAAAC
1 TTAAAGGACTAAAATAGCAAAAACAGAAAA
* *
17515 TTAGATGACTAAA
1 TTAAAGGACTAAA
17528 TAAAATATTT
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
29 6 0.10
30 48 0.80
31 6 0.10
ACGTcount: A:0.59, C:0.09, G:0.16, T:0.17
Consensus pattern (30 bp):
TTAAAGGACTAAAATAGCAAAAACAGAAAA
Found at i:35918 original size:201 final size:201
Alignment explanation
Indices: 35565--36152 Score: 644
Period size: 201 Copynumber: 2.9 Consensus size: 201
35555 TCATTTACAT
* * * * * * * * *
35565 CATAGCTTAAGTCGAGAAGAGCTATTTTTCAACCAAAGCTTTCAAGTTTGATTCCACTTAAATTG
1 CATAGCTTAAATCGAGAAGAACTATCTATCGACTAAAGCTTTCAAGTTTGATTCCACTCAACTCG
* * * * * * *
35630 AGAGCATATTGACCGCATAGTAACAACGAGGAACTACCTTCCGATTAAAATTCAAACTAAGGTCT
66 AGAGCACATTGATCGCATGGTAACAACAAGGAACTACCTTCAGATCAAAATTCAAACCAAGGTCT
*
35695 TCAAGTCTTGAAGAAGACCCAAATCGACTGCAATTTAACAACAACGAACTACTTCCCAACCCAGA
131 TCAAGTCTAGAAGAAGACCCAAATCGACTGCAATTTAACAACAACGAACTACTTCCCAACCCAGA
35760 -TTTCGA
196 CTTT-GA
** * *
35766 CATAGCTTAAATCGAGAAGAACTATCTATCGGGTAAAGCTTTCAAGTTTGGTTCCACTCAACTCA
1 CATAGCTTAAATCGAGAAGAACTATCTATCGACTAAAGCTTTCAAGTTTGATTCCACTCAACTCG
* *
35831 AGAGCACAATT-ATCGTATGGTAACAACAAGGAATTACCTTTCAG-TCAAAATTCAAACCAAGGT
66 AGAGCAC-ATTGATCGCATGGTAACAACAAGGAACTACC-TTCAGATCAAAATTCAAACCAAGGT
* ** * * *
35894 CTTCAAGTCTAGAAGAATACCCAAATCGGTTGCAATTTAACAACAAGGAACTACTTTCCAGCCCA
129 CTTCAAGTCTAGAAGAAGACCCAAATCGACTGCAATTTAACAACAACGAACTACTTCCCAACCCA
35959 GACTTTGA
194 GACTTTGA
* * * *
35967 CATAGCTTAAGTCGAGAAGAGCTATCTGTCGACTAAAGCTTTCAAGTTTGATCCCACTCAACTCG
1 CATAGCTTAAATCGAGAAGAACTATCTATCGACTAAAGCTTTCAAGTTTGATTCCACTCAACTCG
* * * * * * ** * *
36032 AGAGCACATTGATCGCATGGTGGA-AACAAGGAACCATCTTCTGGTTAAAATTTGAACCAATGAC
66 AGAGCACATTGATCGCATGGT-AACAACAAGGAACTACCTTCAGATCAAAATTCAAACCAAGGTC
* * * * ** * *
36096 TTTAAGTTTAGAAGAAGGCCCAAGATTGACTGTGATTTAGCAACAAGGAACTACTTC
130 TTCAAGTCTAGAAGAAGACCCAA-ATCGACTGCAATTTAACAACAACGAACTACTTC
36153 ACAGTTCAAG
Statistics
Matches: 321, Mismatches: 59, Indels: 13
0.82 0.15 0.03
Matches are distributed among these distances:
200 7 0.02
201 277 0.86
202 37 0.12
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (201 bp):
CATAGCTTAAATCGAGAAGAACTATCTATCGACTAAAGCTTTCAAGTTTGATTCCACTCAACTCG
AGAGCACATTGATCGCATGGTAACAACAAGGAACTACCTTCAGATCAAAATTCAAACCAAGGTCT
TCAAGTCTAGAAGAAGACCCAAATCGACTGCAATTTAACAACAACGAACTACTTCCCAACCCAGA
CTTTGA
Found at i:38531 original size:14 final size:15
Alignment explanation
Indices: 38489--38531 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
38479 TTAATCTATT
38489 TATTTTGATTT-TGA
1 TATTTTGATTTATGA
38503 TATTTATGCATTTATGA
1 TATTT-TG-ATTTATGA
38520 TATTTT-ATTTAT
1 TATTTTGATTTAT
38532 TTGTTACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 11 0.42
15 2 0.08
16 5 0.19
17 8 0.31
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (15 bp):
TATTTTGATTTATGA
Found at i:38587 original size:1 final size:1
Alignment explanation
Indices: 38552--38713 Score: 153
Period size: 1 Copynumber: 162.0 Consensus size: 1
38542 CATTCTACTC
* * * * * * * * * * *
38552 TTTTATTTTATTTTATTTTATTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * *
38617 TTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
38682 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
38714 ATTCCTTTTA
Statistics
Matches: 123, Mismatches: 38, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 123 1.00
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:38599 original size:7 final size:7
Alignment explanation
Indices: 38595--38712 Score: 169
Period size: 7 Copynumber: 17.7 Consensus size: 7
38585 TTTATTTTTA
*
38595 TTTTTAT
1 TTTTTCT
38602 TTTTAT-T
1 TTTT-TCT
38609 TTTTTCT
1 TTTTTCT
38616 TTTTTCT
1 TTTTTCT
38623 TTTTTCT
1 TTTTTCT
38630 TTTTTCT
1 TTTTTCT
38637 TTTTTCT
1 TTTTTCT
38644 TTTTTCT
1 TTTTTCT
38651 TTTTTCT
1 TTTTTCT
38658 TTTTTCT
1 TTTTTCT
38665 TTTTTCT
1 TTTTTCT
38672 TTTTT-T
1 TTTTTCT
38678 TTTTT-T
1 TTTTTCT
38684 TTTTT-T
1 TTTTTCT
38690 TTTTT-T
1 TTTTTCT
38696 TTTTT-T
1 TTTTTCT
38702 TTTTT-T
1 TTTTTCT
38708 TTTTT
1 TTTTT
38713 TATTCCTTTT
Statistics
Matches: 109, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
6 37 0.34
7 71 0.65
8 1 0.01
ACGTcount: A:0.02, C:0.08, G:0.00, T:0.91
Consensus pattern (7 bp):
TTTTTCT
Found at i:38618 original size:14 final size:13
Alignment explanation
Indices: 38552--38713 Score: 170
Period size: 14 Copynumber: 11.9 Consensus size: 13
38542 CATTCTACTC
*
38552 TTTTATTTTATTTT
1 TTTTCTTTT-TTTT
*
38566 ATTTTATTTTATTTT
1 -TTTTCTTTT-TTTT
38581 TATTT-TTATTTTTAT
1 T-TTTCTT-TTTTT-T
*
38596 TTTTATTTTTATTT
1 TTTTCTTTTT-TTT
38610 TTTTCTTTTTTCTT
1 TTTTCTTTTTT-TT
38624 TTTTCTTTTTTCTT
1 TTTTCTTTTTT-TT
38638 TTTTCTTTTTTCTT
1 TTTTCTTTTTT-TT
38652 TTTTCTTTTTTCTT
1 TTTTCTTTTTT-TT
38666 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
38679 TTTT-TTTTTTTT
1 TTTTCTTTTTTTT
38691 TTTT-TTTTTTTT
1 TTTTCTTTTTTTT
38703 TTTT-TTTTTTT
1 TTTTCTTTTTTT
38714 ATTCCTTTTA
Statistics
Matches: 140, Mismatches: 1, Indels: 15
0.90 0.01 0.10
Matches are distributed among these distances:
12 31 0.22
13 7 0.05
14 77 0.55
15 25 0.18
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:46571 original size:20 final size:20
Alignment explanation
Indices: 46534--46571 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46524 ATAAGCGGCT
46534 AACTATAGAGTAAAACATTC
1 AACTATAGAGTAAAACATTC
46554 AACTA-AGAGTAAAGACAT
1 AACTATAGAGTAAA-ACAT
46572 AATGACTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (20 bp):
AACTATAGAGTAAAACATTC
Found at i:46807 original size:22 final size:22
Alignment explanation
Indices: 46779--46827 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
46769 ATACACTATT
46779 CCTCTTAAAAACAAGACCGTTA
1 CCTCTTAAAAACAAGACCGTTA
46801 CCTCTTAAAAACAAGACCGTTA
1 CCTCTTAAAAACAAGACCGTTA
46823 CCTCT
1 CCTCT
46828 AGGTTCTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.31, G:0.08, T:0.24
Consensus pattern (22 bp):
CCTCTTAAAAACAAGACCGTTA
Found at i:48605 original size:17 final size:17
Alignment explanation
Indices: 48577--48610 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
48567 TAACAATGTT
48577 ATTTTCTCACATCATGCA
1 ATTTTCTCACAT-ATGCA
48595 ATTTT-TCACATATGCA
1 ATTTTCTCACATATGCA
48611 TTTAGTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
ATTTTCTCACATATGCA
Found at i:54474 original size:156 final size:153
Alignment explanation
Indices: 54260--54568 Score: 591
Period size: 156 Copynumber: 2.0 Consensus size: 153
54250 AGACCGACTA
54260 AATTTAAAAGAGAAAACATGAAAAGAATATACACAGAGACATCGATAGCAAGCTATGAGAAGGAA
1 AATTTAAAAGAGAAAACATGAAAAGAATATACACAGAGACATCGATAGCAAGCTATGAGAAGGAA
54325 TAAAATCAAATGGATTAAAACATAAACTAAGACAACACTAATCCGCTACCCTAGTTCTAAGCCTT
66 TAAAATCAAATGGATTAAAACATAAACTAAGACAACACTAATCCGCTACCCTAGTTCTAAGCCTT
54390 CATAGATTCCAATGAGAGAAACG
131 CATAGATTCCAATGAGAGAAACG
54413 AATTTAAAAAGAGAAAACATGAAAAGAATGATACACAGAAGACATCGATAGCAAGCTATGAGAAG
1 AATTT-AAAAGAGAAAACATGAAAAGAAT-ATACACAG-AGACATCGATAGCAAGCTATGAGAAG
54478 GAATAAAATCAAATGGATTAAAACATAAACTAAGACAACACTAATCCGCTACCCTAGTTCTAAGC
63 GAATAAAATCAAATGGATTAAAACATAAACTAAGACAACACTAATCCGCTACCCTAGTTCTAAGC
54543 CTTCATAGATTCCAATGAGAGAAACG
128 CTTCATAGATTCCAATGAGAGAAACG
54569 TATAAATAGA
Statistics
Matches: 153, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
153 5 0.03
154 23 0.15
155 8 0.05
156 117 0.76
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (153 bp):
AATTTAAAAGAGAAAACATGAAAAGAATATACACAGAGACATCGATAGCAAGCTATGAGAAGGAA
TAAAATCAAATGGATTAAAACATAAACTAAGACAACACTAATCCGCTACCCTAGTTCTAAGCCTT
CATAGATTCCAATGAGAGAAACG
Found at i:56067 original size:3 final size:3
Alignment explanation
Indices: 56059--56114 Score: 85
Period size: 3 Copynumber: 18.0 Consensus size: 3
56049 AAATTTAAAT
*
56059 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
56105 TTA TTTA TTA
1 TTA -TTA TTA
56115 AATATTACAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 43 0.88
4 6 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:60379 original size:36 final size:36
Alignment explanation
Indices: 60318--60417 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 36
60308 TTTTCATACA
* * *
60318 TGCATTTACATTCT-TATTCTTACTTTTTACATCTT
1 TGCATTTCCATTTTGTATTATTACTTTTTACATCTT
*
60353 TGCATTTCCATTTTGTATTATTACTTTTTATATCTT
1 TGCATTTCCATTTTGTATTATTACTTTTTACATCTT
* * * *
60389 TGAATTGCACATTTTGCATTTTTA-TTTTT
1 TGCATTTC-CATTTTGTATTATTACTTTTT
60418 GGCATTTATG
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
35 12 0.22
36 30 0.55
37 13 0.24
ACGTcount: A:0.20, C:0.15, G:0.06, T:0.59
Consensus pattern (36 bp):
TGCATTTCCATTTTGTATTATTACTTTTTACATCTT
Found at i:67183 original size:22 final size:22
Alignment explanation
Indices: 67154--67208 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
67144 ATCTACACTC
67154 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
67176 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
67198 TTCAAAGATGA
1 TTCAAAGATGA
67209 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:68307 original size:184 final size:184
Alignment explanation
Indices: 67758--68683 Score: 1640
Period size: 184 Copynumber: 5.0 Consensus size: 184
67748 CCAATCAACA
* * **
67758 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCACAGTTTCTCATTTTATCTTTTCTAAAATGA
1 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGA
*
67823 AATTGTTGAAAAGTAAGAAAATGATTTCCTTAGTTTTTTTTTACTTAGTAAACTATTTCCCACAT
66 AATTGTTGAAAAGTAAGAAAACGATTTCCTTAG--TTTTTTTACTTAGTAAACTATTTCCCACAT
67888 CTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
129 CTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
**
67944 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGA
1 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGA
*
68009 AAATGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTTTACTTAGTAAACTATTTCCCACAT
66 AATTGTTGAAAAGTAAGAAAACGATTTCCTTAG--TTTTTTTACTTAGTAAACTATTTCCCACAT
* *
68074 CTGTAAGTCCTGCGGTGCATGATGTTTCCAAAAAGCCTTCGGAAGCTTTTTGATGT
129 CTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
*
68130 TGTTACTTTGAAAAATAATGAGAAAACGATTTACATAGTTTCTCATTCAATCTTTTCTAAAACTG
1 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAA-TG
68195 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAG-TTTTTTACTTAGTAAACTATTTCCCACATC
65 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
*
68259 TATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
130 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
68314 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
1 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATG
*
68379 AAATTGTTGAAAAGTAAGAAAACAATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
65 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
68444 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
130 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
68499 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
1 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATG
68564 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAG-TTTTTTACTTAGTAAACTATTTCCCACATC
65 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATC
* *
68628 TGTAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
130 TGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
68683 T
1 T
68684 TTCAAAGCCT
Statistics
Matches: 718, Mismatches: 19, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
184 258 0.36
185 186 0.26
186 239 0.33
187 35 0.05
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (184 bp):
TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGA
AATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCCACATCT
GTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
Found at i:68568 original size:369 final size:369
Alignment explanation
Indices: 67758--68683 Score: 1649
Period size: 369 Copynumber: 2.5 Consensus size: 369
67748 CCAATCAACA
* * **
67758 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCACAGTTTCTCATTTTATCTTTTCT-AAAATG
1 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
*
67822 AAATTGTTGAAAAGTAAGAAAATGATTTCCTTAGTTTTTTTTTACTTAGTAAACTATTTCCCACA
66 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAG---TTTTTTACTTAGTAAACTATTTCCCACA
67887 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTACTT
128 TCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTACTT
**
67952 TGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAAATGTTG
193 TGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAAATGTTG
*
68017 AAAAGTAAGAAAACGATTTCCTTAGTTTTTTTTTACTTAGTAAACTATTTCCCACATCTGTAAGT
258 AAAAGTAAGAAAACAATTTCCTTAG-TTTTTTTTACTTAGTAAACTATTTCCCACATCTGTAAGT
*
68082 CCTGCGGTGCATGATGTTTCCAAAAAGCCTTCGGAAGCTTTTTGATGT
322 CCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGAAGCTTTTTGATGT
* *
68130 TGTTACTTTGAAAAATAATGAGAAAACGATTTACATAGTTTCTCATTCAATCTTTTCTAAAACTG
1 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
68195 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTACTTAGTAAACTATTTCCCACATCT
66 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTACTTAGTAAACTATTTCCCACATCT
*
68260 ATAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTACTTTGA
131 GTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTACTTTGA
*
68325 AAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAA
196 AAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAAATGTTGAA
68390 AAGTAAGAAAACAATTTCCTTAG-TTTTTTTACTTAGTAAACTATTTCCCACATCTGTAAGTCCT
260 AAGTAAGAAAACAATTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCCACATCTGTAAGTCCT
*
68454 GCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
325 GCAGTGCATGATGTTTCCAAAAAGCCTTCGGAAGCTTTTTGATGT
68499 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
1 TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
68564 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTACTTAGTAAACTATTTCCCACATCT
66 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTACTTAGTAAACTATTTCCCACATCT
* *
68629 GTAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
131 GTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
68684 TTCAAAGCCT
Statistics
Matches: 533, Mismatches: 19, Indels: 7
0.95 0.03 0.01
Matches are distributed among these distances:
369 264 0.50
370 140 0.26
371 38 0.07
372 53 0.10
373 38 0.07
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (369 bp):
TGTTACTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATG
AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTACTTAGTAAACTATTTCCCACATCT
GTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTGTTACTTTGA
AAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAAATGTTGAAA
AGTAAGAAAACAATTTCCTTAGTTTTTTTTACTTAGTAAACTATTTCCCACATCTGTAAGTCCTG
CAGTGCATGATGTTTCCAAAAAGCCTTCGGAAGCTTTTTGATGT
Found at i:68848 original size:77 final size:77
Alignment explanation
Indices: 68624--69581 Score: 1591
Period size: 77 Copynumber: 12.6 Consensus size: 77
68614 CTATTTCCCA
* * * *
68624 CATCTGTAAGTCCTACAATGCATGATG-TTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
68688 AAGCCTTCGGGT
66 AAGCCTTCGGGT
* * * ** *
68700 CATCCGTAAGCCCTGCAGTGCAGGATG-TTTTCAAAAAGCCTTCAAGAGCTTTTTGATATTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
68764 AAACCTTCGGGT
66 AAGCCTTCGGGT
68776 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
68841 AAGCCTTCGGGT
66 AAGCCTTCGGGT
* *
68853 CATCTGTAATCCCTTTAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
68918 AAGCCTTCGGGT
66 AAGCCTTCGGGT
* * ** *
68930 CATATGTAAGCCCTTCAGTGCAGGATG-TTTTCAAAAAGCCTTCAAGAGCTTTTTGATATTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
68994 AAACCTTCGGGT
66 AAGCCTTCGGGT
69006 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
69071 AAGCCTTCGGG-
66 AAGCCTTCGGGT
*
69082 ----TGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* *
69143 AAACCTTCAGGT
66 AAGCCTTCGGGT
* *
69155 CATTTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGTCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
69220 AAGCCTTCGGGT
66 AAGCCTTCGGGT
69232 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
69297 AAGCCTTCGGGT
66 AAGCCTTCGGGT
69309 CATCTGTAAGCCCTTCAGTGCATGATG-TTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
69373 AAGCCTTCGGGT
66 AAGCCTTCGGGT
*
69385 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
69450 AAGCCTTCGGGT
66 AAGCCTTCGGGT
*
69462 CATCTGTAAGCCCTTCAGTGCATGATG-TTTTCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
69526 AAGCCTTCGGGT
66 AAGCCTTCGGGT
69538 CATCTGTAAGCCCTTCAGTGCATGATG-TTTTC--AAAGCCTTCGGG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGG
69582 TCATCCGTAA
Statistics
Matches: 830, Mismatches: 44, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
72 69 0.08
74 11 0.01
76 317 0.38
77 433 0.52
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (77 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAGCCTTCGGGT
Found at i:68961 original size:153 final size:153
Alignment explanation
Indices: 68624--69581 Score: 1585
Period size: 153 Copynumber: 6.3 Consensus size: 153
68614 CTATTTCCCA
* * * *
68624 CATCTGTAAGTCCTACAATGCATGATG-TTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* * * **
68688 AAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCAAGAGCTTTT
66 AAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
* *
68753 TGATATTTTCAAAACCTTCGGGT
131 TGATGTTTTCAAAGCCTTCGGGT
68776 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* *
68841 AAGCCTTCGGGTCATCTGTAATCCCTTTAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTT
66 AAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG-TTTTCAAAAAGCCTTCGGGAGCTTT
68906 TTGATGTTTTCAAAGCCTTCGGGT
130 TTGATGTTTTCAAAGCCTTCGGGT
* * ** *
68930 CATATGTAAGCCCTTCAGTGCAGGATG-TTTTCAAAAAGCCTTCAAGAGCTTTTTGATATTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
68994 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTT
66 AAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG-TTTTCAAAAAGCCTTCGGGAGCTTT
69059 TTGATGTTTTCAAAGCCTTCGGG-
130 TTGATGTTTTCAAAGCCTTCGGGT
*
69082 ----TGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
* * * *
69143 AAACCTTCAGGTCATTTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGTCTTCGGGAGCTTT
66 AAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG-TTTTCAAAAAGCCTTCGGGAGCTTT
69208 TTGATGTTTTCAAAGCCTTCGGGT
130 TTGATGTTTTCAAAGCCTTCGGGT
69232 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
69297 AAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
66 AAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
69362 TGATGTTTTCAAAGCCTTCGGGT
131 TGATGTTTTCAAAGCCTTCGGGT
*
69385 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
69450 AAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTTCGGGAGCTTTT
66 AAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
69515 TGATGTTTTCAAAGCCTTCGGGT
131 TGATGTTTTCAAAGCCTTCGGGT
69538 CATCTGTAAGCCCTTCAGTGCATGATG-TTTTC--AAAGCCTTCGGG
1 CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGG
69582 TCATCCGTAA
Statistics
Matches: 763, Mismatches: 35, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
148 22 0.03
149 120 0.16
150 11 0.01
152 29 0.04
153 415 0.54
154 166 0.22
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (153 bp):
CATCTGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
TGATGTTTTCAAAGCCTTCGGGT
Found at i:69568 original size:45 final size:45
Alignment explanation
Indices: 69515--69617 Score: 179
Period size: 45 Copynumber: 2.3 Consensus size: 45
69505 GGGAGCTTTT
* *
69515 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
69560 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
*
69605 GGATGTTTTCAAA
1 TGATGTTTTCAAA
69618 AAGCCTTCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
Found at i:69572 original size:121 final size:121
Alignment explanation
Indices: 69439--69705 Score: 426
Period size: 121 Copynumber: 2.2 Consensus size: 121
69429 GGGAGCTTTT
* * *
69439 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAACCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAACCTT
** * * *
69504 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
66 CAAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCA
*
69560 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAACCTT
69625 CAAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCA
66 CAAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCA
69681 TGATGTTTTTCAAAAAGCCTTCGGG
1 TGATG-TTTTC--AAAGCCTTCGGG
69706 AGCTTTTTGA
Statistics
Matches: 134, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
121 117 0.87
122 5 0.04
124 12 0.09
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (121 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAACCTT
CAAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCA
Found at i:69582 original size:274 final size:274
Alignment explanation
Indices: 69286--69891 Score: 1095
Period size: 274 Copynumber: 2.2 Consensus size: 274
69276 GGGAGCTTTT
* *
69286 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCATGATGTTTTCAAAAAGCCTT
** * * *
69351 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTT
66 CAAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCATGATGTTTT
69416 TCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGT
131 TCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGT
69481 GCATGATGTTTTCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTA
196 GCATGATGTTTTCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTA
69546 AGCCCTTCAGTGCA
261 AGCCCTTCAGTGCA
*
69560 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCATGATGTTTTCAAAAAGCCTT
69625 CAAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCATGATGTTTT
66 CAAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCATGATGTTTT
* **
69690 TCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATTCTTCGGGTCATCTGTAAGCCCTTCAGT
131 TCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGT
*
69755 GCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTA
196 GCATGATGTTTTCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTA
69820 AGCCCTTCAGTGCA
261 AGCCCTTCAGTGCA
*
69834 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAATGCATGATGTTTTCAAA
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCATGATGTTTTCAAA
69892 CATTTTCATC
Statistics
Matches: 318, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
274 318 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (274 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCATGATGTTTTCAAAAAGCCTT
CAAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCATGATGTTTT
TCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGT
GCATGATGTTTTCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTA
AGCCCTTCAGTGCA
Found at i:69717 original size:153 final size:150
Alignment explanation
Indices: 69560--69855 Score: 475
Period size: 153 Copynumber: 2.0 Consensus size: 150
69550 CTTCAGTGCA
69560 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
69625 CAAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCATGATGTTTT
66 CAAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCATGATG-TTT
69690 TCAAAAAGCCTTCGGGAGCTTTT
130 TC--AAAGCCTTCGGGAGCTTTT
** * * *
69713 TGATGTTTTCAAATTCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
** * * *
69778 CGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTT
66 CAAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCATGATGTTTT
69843 CAAAGCCTTCGGG
131 CAAAGCCTTCGGG
69856 TCATCCGTAA
Statistics
Matches: 133, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
150 12 0.09
152 5 0.04
153 116 0.87
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (150 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
CAAGAGCTTTTTGATATTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCATGATGTTTT
CAAAGCCTTCGGGAGCTTTT
Found at i:69725 original size:77 final size:76
Alignment explanation
Indices: 69560--69855 Score: 479
Period size: 76 Copynumber: 3.9 Consensus size: 76
69550 CTTCAGTGCA
* * *
69560 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
**
69625 CAAGAGCTTTT
66 CGGGAGCTTTT
* * *
69636 TGATATTTTCAAAACCTTCGGGTCATATGTAAGCCCTTCAGTGCATGATGTTTTTCAAAAAGCCT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG-TTTTCAAAAAGCCT
69701 TCGGGAGCTTTT
65 TCGGGAGCTTTT
**
69713 TGATGTTTTCAAATTCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
69778 CGGGAGCTTTT
66 CGGGAGCTTTT
69789 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAGCCTT
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
69852 CGGG
66 CGGG
69856 TCATCCGTAA
Statistics
Matches: 205, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
74 12 0.06
76 123 0.60
77 70 0.34
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
CGGGAGCTTTT
Found at i:69838 original size:45 final size:45
Alignment explanation
Indices: 69789--69891 Score: 179
Period size: 45 Copynumber: 2.3 Consensus size: 45
69779 GGGAGCTTTT
* * *
69789 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAATGCA
69834 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAATGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAATGCA
69879 TGATGTTTTCAAA
1 TGATGTTTTCAAA
69892 CATTTTCATC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCCGTAAGCCCTGCAATGCA
Found at i:70033 original size:3 final size:3
Alignment explanation
Indices: 70025--70071 Score: 67
Period size: 3 Copynumber: 15.0 Consensus size: 3
70015 AAATTTAAAT
*
70025 TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TATA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA
70072 AATATTACAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 34 0.85
4 6 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:71444 original size:14 final size:16
Alignment explanation
Indices: 71425--71456 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
71415 TCATTGTTTA
71425 TTTATAT-TTT-AATT
1 TTTATATGTTTAAATT
71439 TTTATATGTTTAAATT
1 TTTATATGTTTAAATT
71455 TT
1 TT
71457 CATAATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 3 0.19
16 6 0.38
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTATATGTTTAAATT
Found at i:80524 original size:13 final size:13
Alignment explanation
Indices: 80506--80530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80496 CCTAAGGTAA
80506 AGATTTTGTTTTT
1 AGATTTTGTTTTT
80519 AGATTTTGTTTT
1 AGATTTTGTTTT
80531 GGTGGAGGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (13 bp):
AGATTTTGTTTTT
Found at i:81751 original size:6 final size:5
Alignment explanation
Indices: 81728--81761 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
81718 TATTTTTATT
* *
81728 TTTTA TTTTA TTTTG TTTTA GTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
81762 GTAAAAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:83425 original size:17 final size:17
Alignment explanation
Indices: 83403--83442 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
83393 TTCTTTCTTT
83403 AATGTGCATAATTATTA
1 AATGTGCATAATTATTA
83420 AATGTGCATAATTATTA
1 AATGTGCATAATTATTA
83437 AATGTG
1 AATGTG
83443 AATGTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (17 bp):
AATGTGCATAATTATTA
Found at i:83557 original size:2 final size:2
Alignment explanation
Indices: 83552--83613 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
83542 ATACTTATGT
83552 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
83594 AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC
83614 TCCTCTAACA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:83631 original size:12 final size:12
Alignment explanation
Indices: 83616--83641 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
83606 ACACACACTC
83616 CTCTAACAATTA
1 CTCTAACAATTA
83628 CTCTAACAATTA
1 CTCTAACAATTA
83640 CT
1 CT
83642 ATTTTTCTAT
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:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (12 bp):
CTCTAACAATTA
Found at i:83810 original size:10 final size:10
Alignment explanation
Indices: 83795--83827 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
83785 TGTATGTATG
*
83795 TATGTATGTA
1 TATGTATATA
83805 TATGTATATA
1 TATGTATATA
83815 TATGTATATA
1 TATGTATATA
83825 TAT
1 TAT
83828 ACATACACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (10 bp):
TATGTATATA
Found at i:84812 original size:17 final size:19
Alignment explanation
Indices: 84780--84815 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
84770 CGATAACAAT
84780 TATATTTTATCAAAACCTA
1 TATATTTTATCAAAACCTA
84799 TATATTTT-TC-AAACCTA
1 TATATTTTATCAAAACCTA
84816 AACGATTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 2 0.12
19 8 0.47
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (19 bp):
TATATTTTATCAAAACCTA
Found at i:89637 original size:15 final size:15
Alignment explanation
Indices: 89617--89649 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
89607 TTCAAGTAAC
89617 GGACGATTCTACCGA
1 GGACGATTCTACCGA
89632 GGACGATTCTACCGA
1 GGACGATTCTACCGA
89647 GGA
1 GGA
89650 GGAGGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.18
Consensus pattern (15 bp):
GGACGATTCTACCGA
Found at i:90007 original size:11 final size:11
Alignment explanation
Indices: 89964--90013 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
89954 CTGCAAGGTA
89964 ATTTTTAA-CT
1 ATTTTTAATCT
*
89974 AATTCTTTAATAT
1 -ATT-TTTAATCT
89987 ATTTTT-ATCT
1 ATTTTTAATCT
89997 ATTTTTAATCT
1 ATTTTTAATCT
90008 -TTTTTA
1 ATTTTTA
90014 TTTTTATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
10 15 0.44
11 10 0.29
12 8 0.24
13 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTTTAATCT
Found at i:90025 original size:15 final size:16
Alignment explanation
Indices: 89996--90028 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
89986 TATTTTTATC
*
89996 TATTTTTAATCTTTTT
1 TATTTTTAATATTTTT
90012 TATTTTT-ATATTTTT
1 TATTTTTAATATTTTT
90027 TA
1 TA
90029 GTTGGTGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TATTTTTAATATTTTT
Found at i:96921 original size:24 final size:24
Alignment explanation
Indices: 96889--96936 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
96879 AAATTTACTT
96889 TCAAAGGTCAATGATGATCATCAA
1 TCAAAGGTCAATGATGATCATCAA
96913 TCAAAGGTCAATGATGATCATCAA
1 TCAAAGGTCAATGATGATCATCAA
96937 AAGAAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (24 bp):
TCAAAGGTCAATGATGATCATCAA
Done.