Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2675
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: 74864
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Found at i:6643 original size:1 final size:1
Alignment explanation
Indices: 6637--6688 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
6627 CTTCTCTTCT
* * * * * *
6637 AAAAAAAAATAAAAACAAAAAAACAAAAAAAAAAAACAAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6689 GAGAGAAAAG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:6658 original size:13 final size:13
Alignment explanation
Indices: 6648--6686 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
6638 AAAAAAAATA
6648 AAAACAAAAAAAC
1 AAAACAAAAAAAC
*
6661 AAAAAAAAAAAAC
1 AAAACAAAAAAAC
6674 AAAACAAAGAAAA
1 AAAACAAA-AAAA
6687 AAGAGAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAACAAAAAAAC
Found at i:6658 original size:14 final size:13
Alignment explanation
Indices: 6637--6687 Score: 66
Period size: 14 Copynumber: 3.7 Consensus size: 13
6627 CTTCTCTTCT
*
6637 AAAAAAAAATAAA
1 AAAAAAAAACAAA
6650 AACAAAAAAACAAA
1 AA-AAAAAAACAAA
6664 AAAAAAAAACAAA
1 AAAAAAAAACAAA
6677 ACAAAGAAAAA
1 A-AAA-AAAAA
6688 AGAGAGAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
13 14 0.41
14 15 0.44
15 5 0.15
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (13 bp):
AAAAAAAAACAAA
Found at i:6666 original size:21 final size:22
Alignment explanation
Indices: 6639--6688 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
6629 TCTCTTCTAA
6639 AAAAAAATAAAAACAAAA-AAAC
1 AAAAAAA-AAAAACAAAACAAAC
*
6661 AAAAAAAAAAAACAAAACAAAG
1 AAAAAAAAAAAACAAAACAAAC
6683 AAAAAA
1 AAAAAA
6689 GAGAGAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAAAACAAAACAAAC
Found at i:6668 original size:18 final size:17
Alignment explanation
Indices: 6637--6688 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
6627 CTTCTCTTCT
* *
6637 AAAAAAA-AATAAAAAC
1 AAAAAAACAAAAAAAAA
6653 AAAAAAACAAAAAAAAA
1 AAAAAAACAAAAAAAAA
6670 AAACAAAACAAAGAAAAAA
1 AAA-AAAACAAA-AAAAAA
6689 GAGAGAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
16 7 0.23
17 10 0.32
18 8 0.26
19 6 0.19
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (17 bp):
AAAAAAACAAAAAAAAA
Found at i:7751 original size:61 final size:61
Alignment explanation
Indices: 7663--7803 Score: 255
Period size: 61 Copynumber: 2.3 Consensus size: 61
7653 TTCCACTTTT
*
7663 CAGTCCTCAAAAAGCAGGATGCTTTTTCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 CAGTCCTCAAAAAGCAGGATGCCTTTTCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCC
7724 CAGTCCTCAAAAAGCAGGATGCCTTTTCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCC
1 CAGTCCTCAAAAAGCAGGATGCCTTTTCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCC
* *
7785 CAATCCTCAAAGAGCAGGA
1 CAGTCCTCAAAAAGCAGGA
7804 CGCTCTCTCC
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 77 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.23
Consensus pattern (61 bp):
CAGTCCTCAAAAAGCAGGATGCCTTTTCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCC
Found at i:8011 original size:30 final size:27
Alignment explanation
Indices: 7963--8026 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 27
7953 GAGCAGGACG
7963 CCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCA
**
7990 TCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -CCTTTCAAAG-CC-CACAAGTCAGTGGCA
8020 CCTTTCA
1 CCTTTCA
8027 GTCCTCAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 10 0.31
29 9 0.28
30 13 0.41
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (27 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:8046 original size:83 final size:83
Alignment explanation
Indices: 7907--8061 Score: 310
Period size: 83 Copynumber: 1.9 Consensus size: 83
7897 GGACGCCTTT
7907 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAA
1 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAA
7972 GCCCACAAGTCAGTGGCA
66 GCCCACAAGTCAGTGGCA
7990 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAA
1 TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAA
8055 GCCCACA
66 GCCCACA
8062 CAAGTTTGTG
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 72 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (83 bp):
TCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAA
GCCCACAAGTCAGTGGCA
Found at i:8105 original size:138 final size:140
Alignment explanation
Indices: 7846--8116 Score: 404
Period size: 138 Copynumber: 1.9 Consensus size: 140
7836 GAGCAGGACG
* *
7846 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTATCTAGTCCTTAAAGAACAGGACGCCTTTTCCT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTATCTAGTCCTCAAAGAACAGGACG-----TCCT
7911 TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCC
61 TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCC
7976 ACAAGTCAGTGGCAT
126 ACAAGTCAGTGGCAT
*
7991 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TC-AGTCCTCAAAGAGCAGGACG-CCTTTCA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTATCTAGTCCTCAAAGAACAGGACGTCCTTTCA
* * * *
8053 AAGCCCACACAAGTTTGTGGCACCTTTCAGTCCTCCAAGAGCAGGACTCCTTTTAAAGCCCACA
65 AAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
8117 TAAGCCGGTG
Statistics
Matches: 118, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
138 67 0.57
144 18 0.15
145 30 0.25
146 3 0.03
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (140 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTATCTAGTCCTCAAAGAACAGGACGTCCTTTCAA
AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAAG
TCAGTGGCAT
Found at i:8232 original size:61 final size:60
Alignment explanation
Indices: 7993--8336 Score: 406
Period size: 61 Copynumber: 5.9 Consensus size: 60
7983 AGTGGCATCC
7993 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG----CC-
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTCCT
* *
8048 TTTCAAAGCCCACACAAGTTTGTGGCACCTTTCAGTCCTCCAAGAGCAGGA--C--TCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTCCT
* **
8104 TTT-AAAGCCCACATAAGCCGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG-CTT-TCCT
** * * *
8164 TTT-AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCTTCAAAGAGCAGGATGCTTTCTT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTCCT
* * * * *
8223 TTTGCAAAGCCCACAAAAGTTGGTGGCACCTTCCAGTCCTCAAAGGGCAGGACACCTTTTCT
1 TTT-CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC-GCTTTCCT
* * *
8285 TTTCAAAGCCCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGAC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC
8337 ACACTTCCTT
Statistics
Matches: 246, Mismatches: 30, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
54 22 0.09
55 70 0.28
56 3 0.01
57 1 0.00
59 6 0.02
60 30 0.12
61 106 0.43
62 8 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (60 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTCCT
Found at i:8439 original size:41 final size:42
Alignment explanation
Indices: 8319--8465 Score: 118
Period size: 41 Copynumber: 3.5 Consensus size: 42
8309 GCACTTTTCA
* * ** *
8319 GTCCTCAAAGAGTAGGACACACTTCCTTCCCTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCC--CTTTT-TCTTTT
*
8364 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTTTTT-TTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTCTTTT
* * * * * * *
8405 GTCCTTAGAGAGCAGGATGTATTTTGTTTCCCTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTCTTTT
*
8447 GTCCTCGAAA-AACAGGACG
1 GTCCTC-AAAGAGCAGGACG
8466 TACTCTTTTC
Statistics
Matches: 82, Mismatches: 18, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
41 34 0.41
42 16 0.20
43 7 0.09
45 25 0.30
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.39
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTCTTTT
Found at i:9069 original size:22 final size:21
Alignment explanation
Indices: 9044--9087 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9034 AATTTTGAAT
* *
9044 TTCAATAATTTGTATCGATACA
1 TTCAATAA-CTGTATCAATACA
*
9066 TTCAGTAACTGTATCAATACA
1 TTCAATAACTGTATCAATACA
9087 T
1 T
9088 AAGTAATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (21 bp):
TTCAATAACTGTATCAATACA
Found at i:9078 original size:21 final size:19
Alignment explanation
Indices: 9054--9105 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
9044 TTCAATAATT
*
9054 TGTATCGATACATTCAGTAA
1 TGTATCGATACA-TAAGTAA
*
9074 CTGTATCAATACATAAGTAA
1 -TGTATCGATACATAAGTAA
9094 TGTATCGATACA
1 TGTATCGATACA
9106 GTGTATCGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 11 0.39
20 6 0.21
21 11 0.39
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACATAAGTAA
Found at i:11687 original size:102 final size:104
Alignment explanation
Indices: 11529--11769 Score: 333
Period size: 102 Copynumber: 2.3 Consensus size: 104
11519 TTAAGTTTCT
* * * * * *
11529 CAATTTTTCATAATCGGGGACACTCCAACCCTGGTTTTATTTTTAAAACACTAATTTT-CTACAA
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGTTTTTATTTTCAAAACACCAATTTTCCTACAA
* ** *
11593 TCGGGGAAACTCCAACTCTGATTTTATTTTC-GAAACAC
66 TCAGGGAAACTCCAACTCCAATTTTATTTTCAAAAACAC
* **
11631 CAATTTTCCACAATCGGGGATACTCCAACCCCGTTTTTATTTTCAAAACACCAATTTTCCTTTAA
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGTTTTTATTTTCAAAACACCAATTTTCCTACAA
*
11696 TCAGGGATACTCCAACTCCAATTTTATTTTCAAAAACAC
66 TCAGGGAAACTCCAACTCCAATTTTATTTTCAAAAACAC
*
11735 TAATTTTTCACAATCGGGGATACTCCAACCCCGTT
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGTT
11770 AATCATCGGG
Statistics
Matches: 121, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
102 51 0.42
103 31 0.26
104 39 0.32
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.34
Consensus pattern (104 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGTTTTTATTTTCAAAACACCAATTTTCCTACAA
TCAGGGAAACTCCAACTCCAATTTTATTTTCAAAAACAC
Found at i:11725 original size:52 final size:51
Alignment explanation
Indices: 11529--11763 Score: 274
Period size: 51 Copynumber: 4.6 Consensus size: 51
11519 TTAAGTTTCT
* * * * *
11529 CAATTTTTCATAATCGGGGACACTCCAAC-CCTGGTTTTATTTTTAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACAC
* * * * *
11580 TAATTTTCTACAATCGGGGAAACTCCAACTCTGATTTTATTTTCGAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACAC
* *
11631 CAATTTTCCACAATCGGGGATACTCCAACCCCGTTTTTATTTTCAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACAC
** * *
11682 CAATTTTCCTTTAATCAGGGATACTCCAACTCCAATTTTATTTTCAAAAACAC
1 CAATTTTCC-ACAATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACAC
* *
11735 TAATTTTTCACAATCGGGGATACTCCAAC
1 CAATTTTCCACAATCGGGGATACTCCAAC
11764 CCCGTTAATC
Statistics
Matches: 154, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
51 93 0.60
52 47 0.31
53 14 0.09
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACAC
Found at i:11781 original size:27 final size:27
Alignment explanation
Indices: 11747--11821 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
11737 ATTTTTCACA
11747 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
11774 ATCGGGGATACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTAATC
* *
11801 TTGAGGGGATACTCCAACCCC
1 AT-CGGGGATACTCCAACCCC
11822 CGTTTTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 26 0.60
28 17 0.40
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:11866 original size:80 final size:79
Alignment explanation
Indices: 11774--11949 Score: 262
Period size: 79 Copynumber: 2.2 Consensus size: 79
11764 CCCGTTAATC
*
11774 ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCCGTTTTTATTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAA-CCCCGGTTTTATTTCTAAAA
* * * *
11839 CATCAATTTTTCATA
65 CACCAATTCTCCACA
* * *
11854 ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATTCTCGAACCCCGGTTTTATTTTTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
11919 ACCAATTCTCCACA
66 ACCAATTCTCCACA
*
11933 ATCGGGGATATTCCAAC
1 ATCGGGGATACTCCAAC
11950 TCCGATTTTA
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 45 0.52
80 42 0.48
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
ACCAATTCTCCACA
Found at i:11873 original size:52 final size:51
Alignment explanation
Indices: 11529--11876 Score: 233
Period size: 51 Copynumber: 6.7 Consensus size: 51
11519 TTAAGTTTCT
* * * *
11529 CAATTTTTCATAATCGGGGACACTCCAACCCTGGTTTTATTTTTAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGTTTTTATTTCTAAAACAC
* * * * * * *
11580 TAA-TTTTCTACAATCGGGGAAACTCCAACTCTGATTTTATTT-TCGAAACAC
1 CAATTTTTC-ATAATCGGGGATACTCCAACCCCGTTTTTATTTCT-AAAACAC
* *
11631 CAATTTTCCACAATCGGGGATACTCCAACCCCGTTTTTATTT-TCAAAACAC
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGTTTTTATTTCT-AAAACAC
* * * * ** *
11682 CAATTTTCCTTTAATCAGGGATACTCCAACTCCAATTTTATTTTCAAAAACAC
1 CAATTTTTC-ATAATCGGGGATACTCCAACCCCGTTTTTA-TTTCTAAAACAC
* * * * * **
11735 TAATTTTTCACAATCGGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAAC-C
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGTT-TTTAT------TTCTAAAACAC
** * * *
11792 CCGTTATTT-TTGA--GGGGATACTCCAACCCCCGTTTTTATTTCTAAAACAT
1 CAATT-TTTCATAATCGGGGATACTCCAA-CCCCGTTTTTATTTCTAAAACAC
11842 CAATTTTTCATAATCGGGGATACTCCAACCCCGTT
1 CAATTTTTCATAATCGGGGATACTCCAACCCCGTT
11877 ATTTTTGAGG
Statistics
Matches: 228, Mismatches: 50, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
49 9 0.04
50 11 0.05
51 92 0.40
52 62 0.27
53 19 0.08
55 16 0.07
56 7 0.03
57 4 0.02
58 8 0.04
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
CAATTTTTCATAATCGGGGATACTCCAACCCCGTTTTTATTTCTAAAACAC
Found at i:11998 original size:237 final size:236
Alignment explanation
Indices: 11646--12274 Score: 737
Period size: 237 Copynumber: 2.6 Consensus size: 236
11636 TTCCACAATC
* * * * *
11646 GGGGATACTCCAACCCCGTTTTTATTTTCAAAACACCAATTTTCCTTTAATCAGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCC-ATAATCGGGGATATTCCAA
*
11711 CTCCAATTTTATTTTCAAAAACACTAATTTTTCACAATCGGGGATACTCCAACCCCGTTAATCAT
65 CTCCGATTTTA-TTTCAAAAACACTAATTTTTCACAATCGGGGATACTCCAACCCCGTTAATCAT
* **
11776 CGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCCCGTTTTTATTTCTAAAACA
129 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCCGGCTTTATTTCTAAAACA
* * **
11841 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTTGA
193 TCAATTTCTCATAATCGGGGATACTCCAACCCCATTATTTTCCA
* * * * *
11885 GGGGATTCTCGAACCCCGGTTTTATTTTTAAAACACCAATTCTCCACAATCGGGGATATTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCATAATCGGGGATATTCCAAC
* * ** * *
11950 TCCGATTTTATTTCCAAAACACTAATTTTTCACACTCGATGATACTCCAACCTCGTTATTTCATC
66 TCCGATTTTATTTCAAAAACACTAATTTTTCACAATCGGGGATACTCCAACCCCGTTA-ATCATC
* * * *
12015 GGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTGAAATATT
130 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATC
* * *
12080 GATTTCTCATAATCGGGGATACTCCAACCCTATTATTTTCCC
195 AATTTCTCATAATCGGGGATACTCCAACCCCATTATTTTCCA
* * * * * * *
12122 GGGGATACTCCAATCCCGACTTTATTTTTGAAACATCTATTTTCTATAATCGGGGACACTT-CAA
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCATAATCGGGGATA-TTCCAA
* * * * *
12186 C-CCTTG-TCTTATTTCTAAATCA-TCGATTTTTCACAATCGGGGATTCTCCAACCCCGTT-ATC
65 CTCC--GATTTTATTTCAAAAACACT-AATTTTTCACAATCGGGGATACTCCAACCCCGTTAATC
*
12247 TTCGAGGGGATACTCCAACCCCGTTATT
127 ATC--GGGGATACTCCAACCCCGTTATT
12275 ATCTCCAAAA
Statistics
Matches: 329, Mismatches: 54, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
235 4 0.01
236 3 0.01
237 210 0.64
238 72 0.22
239 40 0.12
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.34
Consensus pattern (236 bp):
GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCAATTTTCCATAATCGGGGATATTCCAAC
TCCGATTTTATTTCAAAAACACTAATTTTTCACAATCGGGGATACTCCAACCCCGTTAATCATCG
GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCA
ATTTCTCATAATCGGGGATACTCCAACCCCATTATTTTCCA
Found at i:12022 original size:28 final size:28
Alignment explanation
Indices: 11990--12060 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 28
11980 CACACTCGAT
*
11990 GATACTCCAACCTCGTTA-TTTC-ATCGGG
1 GATACTCCAACCCCGTTACTTTCGA--GGG
12018 GATACTCCAACCCCGTTACTTTCGAGGG
1 GATACTCCAACCCCGTTACTTTCGAGGG
12046 GATACTCCAACCCCG
1 GATACTCCAACCCCG
12061 GCTTTATTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.88
29 4 0.10
30 1 0.03
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (28 bp):
GATACTCCAACCCCGTTACTTTCGAGGG
Found at i:12095 original size:79 final size:79
Alignment explanation
Indices: 12012--12188 Score: 223
Period size: 79 Copynumber: 2.2 Consensus size: 79
12002 TCGTTATTTC
* * * *
12012 ATCGGGGATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTGAAAT
1 ATCGGGGATACTCCAACCCCATTACTTTCCAGGGGATACTCCAACCCCGACTTTATTTCTGAAAC
12077 AT-TGA-TTTCTCATA
66 ATCT-ATTTTCT-ATA
* * * * *
12091 ATCGGGGATACTCCAACCCTATTATTTTCCCGGGGATACTCCAATCCCGACTTTATTTTTGAAAC
1 ATCGGGGATACTCCAACCCCATTACTTTCCAGGGGATACTCCAACCCCGACTTTATTTCTGAAAC
12156 ATCTATTTTCTATA
66 ATCTATTTTCTATA
* *
12170 ATCGGGGACACTTCAACCC
1 ATCGGGGATACTCCAACCC
12189 TTGTCTTATT
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 79 0.93
80 6 0.07
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCATTACTTTCCAGGGGATACTCCAACCCCGACTTTATTTCTGAAAC
ATCTATTTTCTATA
Found at i:15618 original size:51 final size:50
Alignment explanation
Indices: 15541--15664 Score: 142
Period size: 51 Copynumber: 2.4 Consensus size: 50
15531 TTATTTCTGA
** * * *
15541 GGGGATACTCCAATCCCAATTTTATTTTCAAAACG-CCAATTTTTCATAATC
1 GGGGATACTCCAA-CCCCGTTATATTTCCAAAA-GACCAATTTTTCACAATC
* *
15592 GGGGATACTCCAACCCCGGTTATATTTCCAAAAGATCAATTTTTCACCATC
1 GGGGATACTCCAACCCC-GTTATATTTCCAAAAGACCAATTTTTCACAATC
*
15643 GGGGATACTCTAACCCCGTTAT
1 GGGGATACTCCAACCCCGTTAT
15665 TTCCAATGAG
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
50 9 0.14
51 54 0.86
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGTTATATTTCCAAAAGACCAATTTTTCACAATC
Found at i:15722 original size:130 final size:129
Alignment explanation
Indices: 15484--15873 Score: 414
Period size: 130 Copynumber: 3.0 Consensus size: 129
15474 TTCATGTTTT
* * * * *
15484 TATTTCCAAAACACCATTTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATAC
1 TATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCTAACCCCGTTATTTC-CAAGGGATAC
* *** * * **
15549 TCCAATCCC-AATTTTATTT-TCAAAACGCCAATTTTTCATAATCGGGGATACTCCAACCCCGGT
65 TCCAA-CCCTAGTTTTATTTCT-AAAACATTAATTTTCCACAATCGGGGATACTCCAACCCCAAT
15612 TA
128 TA
* * * *
15614 TATTTCCAAAAGATCAATTTTTCACCATCGGGGATACTCTAACCCCGTTATTTCCAATGAGATAC
1 TATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCTAACCCCGTTATTTCCAA-GGGATAC
* * *
15679 TCCAACCCTAGTTTTATTTCTAAAACATTAATTTTCCACAATCGGGGATACTCAAACCCTAATTT
65 TCCAACCCTAGTTTTATTTCTAAAACATTAATTTTCCACAATCGGGGATACTCCAACCCCAATTA
* * * *
15744 TATTTCTAAAACACCAATTTTTCACAATCAGGGATACT-TCAACCACGTTATTTCTGAAGGGATA
1 TATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCT-AACCCCGTTATTTC-CAAGGGATA
* * * *
15808 CTCCAA-CCTCGACTTTATTTCTAAAATATTGA-TTTCTCACAATCGGGGATACTCCAACCCC-A
64 CTCCAACCCTAG-TTTTATTTCTAAAACATTAATTTTC-CACAATCGGGGATACTCCAACCCCAA
15870 TTA
127 TTA
15873 T
1 T
15874 TTTTGCAGAG
Statistics
Matches: 218, Mismatches: 35, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
129 17 0.08
130 198 0.91
131 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (129 bp):
TATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCTAACCCCGTTATTTCCAAGGGATACT
CCAACCCTAGTTTTATTTCTAAAACATTAATTTTCCACAATCGGGGATACTCCAACCCCAATTA
Found at i:15730 original size:51 final size:51
Alignment explanation
Indices: 15674--15787 Score: 165
Period size: 51 Copynumber: 2.2 Consensus size: 51
15664 TTTCCAATGA
* ** *
15674 GATACTCCAACCCTAGTTTTATTTCTAAAACATTAATTTTCCACAATCGGG
1 GATACTCCAACCCTAATTTTATTTCTAAAACACCAATTTTCCACAATCAGG
* *
15725 GATACTCAAACCCTAATTTTATTTCTAAAACACCAATTTTTCACAATCAGG
1 GATACTCCAACCCTAATTTTATTTCTAAAACACCAATTTTCCACAATCAGG
*
15776 GATACTTCAACC
1 GATACTCCAACC
15788 ACGTTATTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.33
Consensus pattern (51 bp):
GATACTCCAACCCTAATTTTATTTCTAAAACACCAATTTTCCACAATCAGG
Found at i:15806 original size:79 final size:80
Alignment explanation
Indices: 15723--16020 Score: 257
Period size: 79 Copynumber: 3.8 Consensus size: 80
15713 TCCACAATCG
* * *
15723 GGGATACT-CAAACCCTAATTTTATTTCTAAAACACCAATTTTTCACAATCAGGGATACTTCAAC
1 GGGATACTCCAAACCCTAATTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAAC
*
15787 CACGTTATTTCTGAA
66 CACGTTATTTTTGAA
* * * ** *
15802 GGGATACTCC-AA-CCTCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAA
1 GGGATACTCCAAACCCT-AATTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAA
* * *
15865 CCCCATTATTTTTGCA
65 CCACGTTATTTTTGAA
* * * * * * * *
15881 GAGATATTCCAATCCC-GATTTTATTTTTCAAACATCGA-TTTTCTATAATCGGGGATACTCCAA
1 GGGATACTCCAAACCCTAATTTTATTTCTAAAACACCGATTTTTC-ACAATCGGGGATACTCCAA
*
15944 -CACTGTTATTTTTGAG
65 CCAC-GTTATTTTTGAA
* * * * * * * *
15960 GGGATACTCCAACCCCGATTTTTATTTTTAGAACACTGATTTTCCATAATCGGGGATACTC
1 GGGATACTCCAAACCCTAATTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTC
16021 TAGTCCCGTT
Statistics
Matches: 174, Mismatches: 37, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
78 9 0.05
79 125 0.72
80 34 0.20
81 6 0.03
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (80 bp):
GGGATACTCCAAACCCTAATTTTATTTCTAAAACACCGATTTTTCACAATCGGGGATACTCCAAC
CACGTTATTTTTGAA
Found at i:23300 original size:28 final size:29
Alignment explanation
Indices: 23255--23309 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
23245 TTGATTAGAG
23255 GAAAAAAATCAGGATTGGAGTATCCCCTC
1 GAAAAAAATCAGGATTGGAGTATCCCCTC
* *
23284 GAAAATAA-CAGGGTTGGAGTATCCCC
1 GAAAAAAATCAGGATTGGAGTATCCCC
23310 AATTATGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (29 bp):
GAAAAAAATCAGGATTGGAGTATCCCCTC
Found at i:23305 original size:80 final size:79
Alignment explanation
Indices: 23189--23391 Score: 201
Period size: 79 Copynumber: 2.6 Consensus size: 79
23179 AATAACGGGG
* * * * ** * * **
23189 TTGGAGTGTTCCCTTGAAAATAACGGGGCTCAAGTATCCCCGGTTGTGAGAAATCGTTGA-TTAG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAG
*
23253 AGGAAAAAAATCAGGA
65 -GGAAAAAAACCAGGA
* * *
23269 TTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGG
* * * *
23334 GAATAAAGCCGGGG
66 GAAAAAAACCAGGA
* *
23348 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
23392 GAAATAACGA
Statistics
Matches: 100, Mismatches: 22, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
79 51 0.51
80 49 0.49
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGG
GAAAAAAACCAGGA
Found at i:23383 original size:28 final size:28
Alignment explanation
Indices: 23343--23414 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
23333 GGAATAAAGC
** *
23343 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
23371 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
23399 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
23415 TCGACTGAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:23492 original size:52 final size:51
Alignment explanation
Indices: 23436--23797 Score: 207
Period size: 52 Copynumber: 6.9 Consensus size: 51
23426 AAATTGGTAT
* * * * *
23436 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCAGATTAAAGGAAAATTGGTG
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATT-ATGGAAAATTAGTG
* *
23488 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTG
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGG-AAAATTAGTG
* * * * * *
23540 TTTTAGCAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATCAATA
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAATTAGTG
** * * * *
23591 TTTTGGAAATAAAGTCAGTGTTGGAGTATCCCC--TCA--G-AAATAACG-G
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAATTA-GTG
** * * * *
23637 GGTTGGAGTATCCCCGATGATTAA-CGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTG
1 TTTTGGA--A------AT-A-AAACCGGGGTTGGAGTATCCCCGATTATGGA-AAATTAGTG
* * * * *
23698 TTTTTTGGAAATAAAATCGGAGTTGGAGGATCCCCAATTATAGAAAATTAGTG
1 --TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAATTAGTG
* ** * * *
23751 TTTTGAAAATAAAATTGGAGTTGGAATATCCCCGATTATGGAGAATT
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAATT
23798 GAGAAACTAA
Statistics
Matches: 234, Mismatches: 54, Indels: 45
0.70 0.16 0.14
Matches are distributed among these distances:
46 10 0.04
48 1 0.00
49 2 0.01
51 76 0.32
52 78 0.33
53 10 0.04
54 24 0.10
55 19 0.08
56 1 0.00
57 1 0.00
60 1 0.00
61 6 0.03
63 5 0.02
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
TTTTGGAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAATTAGTG
Found at i:23614 original size:51 final size:52
Alignment explanation
Indices: 23494--23623 Score: 154
Period size: 51 Copynumber: 2.5 Consensus size: 52
23484 GGTGTTTTGA
* * * * *
23494 AAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAG
1 AAATAAAACCAGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
* * *
23546 CAATAAAACCGGGGTTGGAGTATCCCCGATTAT-GAAAAATCAATATTTTGG
1 AAATAAAACCAGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
** *
23597 AAATAAAGTCAGTGTTGGAGTATCCCC
1 AAATAAAACCAGGGTTGGAGTATCCCC
23624 TCAGAAATAA
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
51 36 0.54
52 31 0.46
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (52 bp):
AAATAAAACCAGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
Found at i:23616 original size:263 final size:263
Alignment explanation
Indices: 23294--23792 Score: 752
Period size: 263 Copynumber: 1.9 Consensus size: 263
23284 GAAAATAACA
* * *
23294 GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCAGGGTTGGAGTATCC
* * *
23359 CCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGACTGAG
66 CCTCAGAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGACTGAG
* *
23424 AA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTAT-CCCAGATTAAAGGAAAATTGG
130 AAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGGATCCCCA-ATTAAA-GAAAATTAG
* * *
23486 TGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATA
193 TGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTATGGAAAAATTAGTGTTTTAGCAATA
23551 AAACCG
258 AAACCG
* * *
23557 GGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCAGTGTTGGAGTATCC
1 GGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCAGGGTTGGAGTATCC
* * * *
23622 CCTCAGAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGA
66 CCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGACTGAGA
* *
23687 AGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGGATCCCCAATTATAGAAAATTAGTGT
131 AGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGGATCCCCAATTAAAGAAAATTAGTGT
**
23752 TTTGAAAATAAAATTGGAGTTGGAATATCCCCGATTATGGA
196 TTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTATGGA
23793 GAATTGAGAA
Statistics
Matches: 211, Mismatches: 22, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
262 27 0.13
263 146 0.69
264 34 0.16
265 4 0.02
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (263 bp):
GGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCAGGGTTGGAGTATCC
CCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGACTGAGA
AGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGGATCCCCAATTAAAGAAAATTAGTGT
TTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTATGGAAAAATTAGTGTTTTAGCAATAAAA
CCG
Found at i:23644 original size:28 final size:27
Alignment explanation
Indices: 23610--23678 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
23600 TAAAGTCAGT
23610 GTTGGAGTATCCCCTCA-GAAATAACGGG
1 GTTGGAGTATCCCC-CATG-AATAACGGG
* *
23638 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCCATGAATAACGGG
23665 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
23679 GATTGTGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (27 bp):
GTTGGAGTATCCCCCATGAATAACGGG
Found at i:25911 original size:13 final size:13
Alignment explanation
Indices: 25893--25918 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25883 ACAAAGATCC
25893 ATGTATCGATACA
1 ATGTATCGATACA
25906 ATGTATCGATACA
1 ATGTATCGATACA
25919 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:25914 original size:33 final size:33
Alignment explanation
Indices: 25872--25938 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
25862 AAAATTTCCA
***
25872 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
25905 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
25938 A
1 A
25939 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:25982 original size:19 final size:18
Alignment explanation
Indices: 25958--26057 Score: 103
Period size: 19 Copynumber: 5.9 Consensus size: 18
25948 CAGTAGCTAA
25958 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
25977 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
25992 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
26009 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
26024 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
26041 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
26058 TTGTTGAATT
Statistics
Matches: 69, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.32
14 2 0.03
16 4 0.06
18 5 0.07
19 36 0.52
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:25998 original size:13 final size:13
Alignment explanation
Indices: 25980--26036 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
25970 ACAATACTTA
25980 TGTATCGATACAT
1 TGTATCGATACAT
25993 TGTATCGATACAAAACTT
1 TGTATCGATAC---A--T
26011 ATGTATCGATACAT
1 -TGTATCGATACAT
26025 TGTATCGATACA
1 TGTATCGATACA
26037 AAACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:26002 original size:32 final size:32
Alignment explanation
Indices: 25961--26055 Score: 181
Period size: 32 Copynumber: 3.0 Consensus size: 32
25951 TAGCTAATTA
*
25961 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
25993 TGTATCGATACAAAACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
26025 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
26056 AATTGTTGAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:26136 original size:21 final size:21
Alignment explanation
Indices: 26112--26169 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
26102 ACATTTGTAG
*
26112 AATGTATTGACACATTCCACA
1 AATGTATTGATACATTCCACA
*
26133 AATGTATTGATACATTCTACA
1 AATGTATTGATACATTCCACA
*
26154 AATGTATCGATACATT
1 AATGTATTGATACATT
26170 TAAATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.34
Consensus pattern (21 bp):
AATGTATTGATACATTCCACA
Found at i:27060 original size:26 final size:26
Alignment explanation
Indices: 27031--27118 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
27021 GTGGGCTTTA
27031 AAAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGGTGTCCTGCTCTTTGGGGACTG
** *
27057 AAAGGTG-CCACCAACTTGTGTGGG-CTTTG
1 AAAGGTGTCCTGC-TCTT-TG-GGGAC--TG
* *
27086 AAAGGGGTCTTGCTCTTTGGGGACTG
1 AAAGGTGTCCTGCTCTTTGGGGACTG
27112 AAAGGTG
1 AAAGGTG
27119 CCACCAACTT
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
25 3 0.07
26 18 0.39
27 6 0.13
28 6 0.13
29 11 0.24
30 2 0.04
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.28
Consensus pattern (26 bp):
AAAGGTGTCCTGCTCTTTGGGGACTG
Found at i:27087 original size:29 final size:29
Alignment explanation
Indices: 27055--27143 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
27045 CTTTGGGGAC
27055 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
* *** *
27084 TGAAAGGGGTCTTGC-TCTT-TG-GGGAC--
1 TGAAAGGTG-CCACCAACTTGTGTGGG-CTT
27110 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
27139 TGAAA
1 TGAAA
27144 AGAAAAAGCA
Statistics
Matches: 43, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
25 2 0.05
26 11 0.26
27 6 0.14
28 6 0.14
29 16 0.37
30 2 0.05
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:27233 original size:59 final size:59
Alignment explanation
Indices: 26932--27853 Score: 1451
Period size: 59 Copynumber: 15.8 Consensus size: 59
26922 AGTGTATCCT
* * *
26932 GCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTT--AAG---AGGTGTCCT
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
** * * *
26987 GCTCTTTGAGGACTAGAAAATGCCACCAACATGTGTGGGCTTT-----AAAAGGTGTCCT
1 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * **
27042 GCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGGGTCTT
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * * *
27097 GCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 GCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCC
*
27158 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* * *
27217 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGCCTTTAAAAGAAAATGCGTCCT
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
27276 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
27335 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
27394 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
* *
27453 GCTCTTTGAGGACTCAAGGTGCCACCAAATTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
27512 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTAGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
27571 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
27630 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
27689 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCCTCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
*
27748 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCC
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
27807 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
27854 GTGTCCTGCT
Statistics
Matches: 817, Mismatches: 38, Indels: 20
0.93 0.04 0.02
Matches are distributed among these distances:
54 1 0.00
55 135 0.17
56 1 0.00
59 632 0.77
60 27 0.03
61 21 0.03
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (59 bp):
GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCC
Found at i:41326 original size:13 final size:13
Alignment explanation
Indices: 41308--41333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41298 CAATTTTTGG
41308 TGTATCGATACAT
1 TGTATCGATACAT
41321 TGTATCGATACAT
1 TGTATCGATACAT
41334 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:41345 original size:32 final size:33
Alignment explanation
Indices: 41288--41351 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
41278 TACAAGCCAA
**
41288 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
41321 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
41352 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:41358 original size:19 final size:18
Alignment explanation
Indices: 41288--41358 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
41278 TACAAGCCAA
41288 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
41308 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
41321 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
41340 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
41359 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:43904 original size:13 final size:13
Alignment explanation
Indices: 43886--43911 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43876 ATAATCACCC
43886 TGTATCGATACAA
1 TGTATCGATACAA
43899 TGTATCGATACAA
1 TGTATCGATACAA
43912 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:47852 original size:21 final size:21
Alignment explanation
Indices: 47823--47867 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
47813 AAGTTTTTAT
*
47823 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
47843 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
47865 TTT
1 TTT
47868 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:50105 original size:13 final size:13
Alignment explanation
Indices: 50087--50112 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50077 CAATTTTTGG
50087 TGTATCGATACAT
1 TGTATCGATACAT
50100 TGTATCGATACAT
1 TGTATCGATACAT
50113 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:50124 original size:32 final size:33
Alignment explanation
Indices: 50067--50130 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
50057 TACAAGCCAA
**
50067 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
50100 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
50131 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:50137 original size:19 final size:18
Alignment explanation
Indices: 50067--50137 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
50057 TACAAGCCAA
50067 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
50087 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
50100 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
50119 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
50138 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:51349 original size:79 final size:80
Alignment explanation
Indices: 51155--51359 Score: 243
Period size: 80 Copynumber: 2.6 Consensus size: 80
51145 GAGATAATAA
* * * * * * * *
51155 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTCGAGTATCCCCAGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
*
51220 TTAGAGGAAAAAAAT
66 TTAGAGGAAAAAAAC
* *
51235 CGGGATTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
* * *
51299 TTTTG-GGAATAAAGC
66 -TTAGAGGAAAAAAAC
* *
51314 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
51360 GATGAAATAA
Statistics
Matches: 106, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
79 50 0.47
80 56 0.53
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
TTAGAGGAAAAAAAC
Found at i:51370 original size:28 final size:28
Alignment explanation
Indices: 51314--51381 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
51304 GGAATAAAGC
** *
51314 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
51342 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
51370 CGAGGTTGGAGT
1 CGGGGTTGGAGT
51382 CTCCTCGACT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:51463 original size:52 final size:51
Alignment explanation
Indices: 51396--51546 Score: 212
Period size: 51 Copynumber: 2.9 Consensus size: 51
51386 TCGACTGTGA
* * *
51396 AAAATTGGTATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGG
1 AAAATTGGT-GTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA-G
* * *
51449 AAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATAG
1 AAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG
* *
51500 AAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATT
1 AAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATT
51547 GTGGAGAATT
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 44 0.50
52 35 0.40
53 9 0.10
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (51 bp):
AAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAG
Found at i:52946 original size:13 final size:13
Alignment explanation
Indices: 52928--52953 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52918 ACAAAGATCC
52928 ATGTATCGATACA
1 ATGTATCGATACA
52941 ATGTATCGATACA
1 ATGTATCGATACA
52954 CAAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:53017 original size:19 final size:19
Alignment explanation
Indices: 52993--53056 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
52983 CAGTAGCTAA
52993 TTATGTATCGATATAATAC
1 TTATGTATCGATATAATAC
53012 TTATGTATCG-----ATAC
1 TTATGTATCGATATAATAC
* *
53026 AT-TGTATCGATATAAAAC
1 TTATGTATCGATATAATAC
53044 TTATGTATCGATA
1 TTATGTATCGATA
53057 CAAATTGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 7 0.19
14 5 0.14
18 4 0.11
19 20 0.56
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (19 bp):
TTATGTATCGATATAATAC
Found at i:53037 original size:32 final size:32
Alignment explanation
Indices: 52996--53058 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
52986 TAGCTAATTA
*
52996 TGTATCGATATAATACTTATGTATCGATACAT
1 TGTATCGATATAAAACTTATGTATCGATACAT
53028 TGTATCGATATAAAACTTATGTATCGATACA
1 TGTATCGATATAAAACTTATGTATCGATACA
53059 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (32 bp):
TGTATCGATATAAAACTTATGTATCGATACAT
Found at i:53132 original size:21 final size:21
Alignment explanation
Indices: 53102--53147 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
53092 ACCCTGTATC
53102 CATTCCACAAATGTATCGATA
1 CATTCCACAAATGTATCGATA
*
53123 CATTCTACAAATGTATCGATA
1 CATTCCACAAATGTATCGATA
53144 CATT
1 CATT
53148 TAAATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.33
Consensus pattern (21 bp):
CATTCCACAAATGTATCGATA
Found at i:53792 original size:248 final size:247
Alignment explanation
Indices: 53346--53834 Score: 721
Period size: 248 Copynumber: 2.0 Consensus size: 247
53336 GGTGTCTACA
* *
53346 CACACTAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCGAAGCCCACA
1 CACACAAGTTGGTGGCACCCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCGAAGCCCACA
* * ** *
53411 CAAGTTGGTGGCACCCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACG
66 CAAGTTGGTGGCACCATTTTAGTCCTCAAAAAGCAAGACACCTTTTTCTTTTCAAAGCCCACACA
*
53476 AGTTGGTGGCACCTATTAGTCCTCAAAGAGCAAGACGCCTTTTTCTTTCCAAAGCCCACATAAGT
131 AGTTGGTGGCACCTATTAGTCCTCAAAGAGCAAGACGCCTTTTTCTTTCCAAAGCCCACACAAGT
*
53541 TGGTGGCACCTCTTAGTCTTCAAAGAGTAGGATGTCTTTTTCTTTTTAAAGCC
196 TGGTGGCACCTCTTAGTCTTCAAAGAGTAGGATG-CTTTTTCCTTTTAAAGCC
* * *
53594 CACACAAGTTGGTGGTA-CCTTCCAGTCCTCAAAGAGCATGATGCCTTTTCCTTTCGAAGCCCAT
1 CACACAAGTTGGTGGCACCCTT-CAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCGAAGCCCAC
* * * * *
53658 ACAATTTGGTGGC-GCATTTCTAGTCCTCAAAGAGTAAGACACTTTTTTCTTTTCAAAGCCCACA
65 ACAAGTTGGTGGCACCATTT-TAGTCCTCAAAAAGCAAGACACCTTTTTCTTTTCAAAGCCCACA
* * * * *
53722 CAAGTTGGTGGCACCTCTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCTCACACGA
129 CAAGTTGGTGGCACCTATTAGTCCTCAAAGAGCAAGACGCCTTTTTCTTTCCAAAGCCCACACAA
* *
53787 GTTGGTGGCACCTTTTAGTCTTGAAAGAGTAGGATGCTTTTTCCTTTT
194 GTTGGTGGCACCTCTTAGTCTTCAAAGAGTAGGATGCTTTTTCCTTTT
53835 CTCTCTTGTC
Statistics
Matches: 215, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
247 19 0.09
248 196 0.91
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (247 bp):
CACACAAGTTGGTGGCACCCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCGAAGCCCACA
CAAGTTGGTGGCACCATTTTAGTCCTCAAAAAGCAAGACACCTTTTTCTTTTCAAAGCCCACACA
AGTTGGTGGCACCTATTAGTCCTCAAAGAGCAAGACGCCTTTTTCTTTCCAAAGCCCACACAAGT
TGGTGGCACCTCTTAGTCTTCAAAGAGTAGGATGCTTTTTCCTTTTAAAGCC
Found at i:53834 original size:62 final size:62
Alignment explanation
Indices: 53346--53835 Score: 590
Period size: 62 Copynumber: 7.9 Consensus size: 62
53336 GGTGTCTACA
* * * *
53346 CACACTAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC-TTTTCCTTTCGAAGCC
1 CACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCC
*
53407 CACACAAGTTGGTGGCACCCTTTTAGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTCAAAGCC
1 CACACAAGTTGGTGGCA-CCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCC
* * * * *
53470 CACACGAGTTGGTGGCACCTATTAGTCCTCAAAGAGCAAGACGCCTTTTTCTTTCCAAAGCC
1 CACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCC
* * * * * *
53532 CACATAAGTTGGTGGCACCTCTTAGTCTTCAAAGAGTAGGATGTCTTTTTCTTTTTAAAGCC
1 CACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCC
* ** * * *
53594 CACACAAGTTGGTGGTACCTTCCAGTCCTCAAAGAGCATGATGCC-TTTTCCTTTCGAAGCC
1 CACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCC
* * * * * * ** *
53655 CATACAATTTGGTGGCGCATTTCTAGTCCTCAAAGAGTAAGACACTTTTTTCTTTTCAAAGCC
1 CACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCC
* * *
53718 CACACAAGTTGGTGGCACCTCTTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAAGCT
1 CACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCC
* * * *
53780 CACACGAGTTGGTGGCACCTTTTAGTCTTGAAAGAGTAGGATG-CTTTTTCCTTTTC
1 CACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTT-CTTTTC
53836 TCTCTTGTCC
Statistics
Matches: 361, Mismatches: 63, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
61 51 0.14
62 249 0.69
63 61 0.17
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (62 bp):
CACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCC
Found at i:53954 original size:46 final size:44
Alignment explanation
Indices: 53830--54208 Score: 300
Period size: 46 Copynumber: 8.7 Consensus size: 44
53820 ATGCTTTTTC
* * * * * *
53830 CTTTTCTCTCTTGTCCTCCAAGAGTAGGACACATTTCATTTCTTT
1 CTTTTCCCT-TTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
* * *
53875 CTTGTCCCTTTGTCCTCAAAGAGCAAGATGCACTTCATTTCCTT
1 CTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
* *
53919 CTTTTCCCTTCTAGTCCTCAAAGACCAGGACGCACTTTAATTTCC-T
1 CTTTTCCCTT-T-GTCCTCAAAGAGCAGGACGCAC-TTCATTTCCTT
* * * * * *
53965 -TTTT-CCTTTGTCTTCAAAGAGCATGACACATTTAACTTCCTT
1 CTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
*
54007 CTTTT-TCTTTGTCCTCAAAGAGCAGGACG---TGTCATTTCC-T
1 CTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACT-TCATTTCCTT
* * **
54047 -TTGT-CCTTTGTCCTCAAAGAGTAGGACATA-TTCAATTTCCTT
1 CTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTC-ATTTCCTT
* * *
54089 ATTTTCCCCTTTTGTCCTCAAAGAGCAGGATGCACTTCATTTCTTT
1 CTTTT-CCC-TTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
* *
54135 CTTTTCCCTTCTAGTTCTCAAAGAGCAGGACGCACTTTATTTTCC-T
1 CTTTTCCCTT-T-GTCCTCAAAGAGCAGGACGCACTTCA-TTTCCTT
* *
54181 -TTTT-CTTTTGTCCTCAAAGAGCAAGACG
1 CTTTTCCCTTTGTCCTCAAAGAGCAGGACG
54209 AAATTCGTTT
Statistics
Matches: 272, Mismatches: 44, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
39 24 0.09
40 4 0.01
41 21 0.08
42 36 0.13
43 29 0.11
44 46 0.17
45 22 0.08
46 75 0.28
47 15 0.06
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.40
Consensus pattern (44 bp):
CTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
Found at i:54062 original size:39 final size:44
Alignment explanation
Indices: 53840--54118 Score: 143
Period size: 44 Copynumber: 6.4 Consensus size: 44
53830 CTTTTCTCTC
* * * * * *
53840 TTGTCCTCCAAGAGTAGGACACATTTC-ATTTCTTTCTTGTCCCT
1 TTGTCCTCAAAGAGCAGGACATA-GTCAATTTCCTTATTGTCCCT
* * *
53884 TTGTCCTCAAAGAGCAAGATGCACT--TC-ATTTCCTTCTTTTCCCT
1 TTGTCCTCAAAGAGCAGGA--CA-TAGTCAATTTCCTTATTGTCCCT
* ** * *
53928 TCTAGTCCTCAAAGACCAGGACGCACTTTAATTTCCTT-TT-T-CCT
1 T-T-GTCCTCAAAGAGCAGGACATA-GTCAATTTCCTTATTGTCCCT
* * * * * * * **
53972 TTGTCTTCAAAGAGCATGACACATTTAACTTCCTTCTT-TTTCT
1 TTGTCCTCAAAGAGCAGGACATAGTCAATTTCCTTATTGTCCCT
*
54015 TTGTCCTCAAAGAGCAGGACGT-GTC-ATTTCC-T-TTGT-CCT
1 TTGTCCTCAAAGAGCAGGACATAGTCAATTTCCTTATTGTCCCT
* * *
54054 TTGTCCTCAAAGAGTAGGACATATTCAATTTCCTTATTTTCCCCTT
1 TTGTCCTCAAAGAGCAGGACATAGTCAATTTCCTTATTGT-CCC-T
54100 TTGTCCTCAAAGAGCAGGA
1 TTGTCCTCAAAGAGCAGGA
54119 TGCACTTCAT
Statistics
Matches: 186, Mismatches: 30, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
39 24 0.13
40 4 0.02
41 22 0.12
42 22 0.12
43 24 0.13
44 39 0.21
45 4 0.02
46 39 0.21
47 8 0.04
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (44 bp):
TTGTCCTCAAAGAGCAGGACATAGTCAATTTCCTTATTGTCCCT
Found at i:54064 original size:82 final size:84
Alignment explanation
Indices: 53876--54118 Score: 256
Period size: 82 Copynumber: 2.8 Consensus size: 84
53866 CATTTCTTTC
** * *
53876 TTGTCCCTTTGTCCTCAAAGAGCAAGATGCACTTCATTTCCTTCTTTTCCCTTCTAGTCCTCAAA
1 TTGT-CCTTTGTCCTCAAAGAGCAAGACACATTTAATTTCCTTCTTTTCCCTT-T-GTCCTCAAA
* *
53941 GACCAGGACGCACTTTAATTTCCT
63 GAGCAGGACG--CTGTAATTTCCT
* * * * *
53965 TTTTCCTTTGTCTTCAAAGAGCATGACACATTTAACTTCCTTCTTTT-TCTTTGTCCTCAAAGAG
1 TTGTCCTTTGTCCTCAAAGAGCAAGACACATTTAATTTCCTTCTTTTCCCTTTGTCCTCAAAGAG
*
54029 CAGGACG-TGTCATTTCCT
66 CAGGACGCTGTAATTTCCT
* * * * *
54047 TTGTCCTTTGTCCTCAAAGAGTAGGACATATTCAATTTCCTTATTTTCCCCTTTTGTCCTCAAAG
1 TTGTCCTTTGTCCTCAAAGAGCAAGACACATTTAATTTCCTTCTTTT-CCC-TTTGTCCTCAAAG
54112 AGCAGGA
64 AGCAGGA
54119 TGCACTTCAT
Statistics
Matches: 130, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
82 48 0.37
84 1 0.01
85 38 0.29
86 1 0.01
87 3 0.02
88 36 0.28
89 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (84 bp):
TTGTCCTTTGTCCTCAAAGAGCAAGACACATTTAATTTCCTTCTTTTCCCTTTGTCCTCAAAGAG
CAGGACGCTGTAATTTCCT
Found at i:54301 original size:41 final size:41
Alignment explanation
Indices: 54255--54357 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 41
54245 ATAGGACGTA
* * *
54255 CTCTTTTTCACTTTGTCCTCATGAAGCAGGACAC-TTTCCTT
1 CTCTTTTTC-CTTTGTCCTCAAGAAGCAAGACACATTTCATT
* *
54296 TTCTTTCTTCCTTTGTCCTCAAGAAGCAAGACCCATTTCATT
1 CTCTTT-TTCCTTTGTCCTCAAGAAGCAAGACACATTTCATT
54338 CTC-TTTTCCTTTGTCCTCAA
1 CTCTTTTTCCTTTGTCCTCAA
54358 AAAGTGGGAC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
40 15 0.28
41 28 0.52
42 11 0.20
ACGTcount: A:0.17, C:0.30, G:0.10, T:0.43
Consensus pattern (41 bp):
CTCTTTTTCCTTTGTCCTCAAGAAGCAAGACACATTTCATT
Found at i:54995 original size:20 final size:20
Alignment explanation
Indices: 54970--55024 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
54960 TTTTCACAAT
54970 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
54990 TTGTATCGGTACATTGTTCA
1 TTGTATCGATACATTGTTCA
55010 TTGTATCGATACATT
1 TTGTATCGATACATT
55025 CTGGGTTTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:56974 original size:13 final size:13
Alignment explanation
Indices: 56934--56986 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
56924 CCGTTACAAG
56934 CAATGTATCGATA
1 CAATGTATCGATA
56947 CAA--T-TC-AT-
1 CAATGTATCGATA
56955 C-ATGTATCGATA
1 CAATGTATCGATA
56967 CAATGTATCGATA
1 CAATGTATCGATA
*
56980 TAATGTA
1 CAATGTA
56987 CCATGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:57075 original size:19 final size:19
Alignment explanation
Indices: 57031--57118 Score: 107
Period size: 19 Copynumber: 4.9 Consensus size: 19
57021 CTGCCAATTT
**
57031 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
57051 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
57070 CATGTATCGATAC-----A
1 CATGTATCGATACAATGAA
57084 -ATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
57102 CATGTATCGATACAATG
1 CATGTATCGATACAATG
57119 TATTGATACA
Statistics
Matches: 60, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
13 12 0.20
14 1 0.02
18 1 0.02
19 31 0.52
20 15 0.25
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:57089 original size:13 final size:13
Alignment explanation
Indices: 57071--57129 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
57061 TACAATGAAC
57071 ATGTATCGATACA
1 ATGTATCGATACA
57084 ATGTATCGATAC-
1 ATGTATCGATACA
57096 A---AT-GA-AC-
1 ATGTATCGATACA
57103 ATGTATCGATACA
1 ATGTATCGATACA
*
57116 ATGTATTGATACA
1 ATGTATCGATACA
57129 A
1 A
57130 AGCATAATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 2 0.05
10 2 0.05
11 2 0.05
12 3 0.08
13 25 0.64
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:57093 original size:32 final size:32
Alignment explanation
Indices: 57052--57148 Score: 151
Period size: 32 Copynumber: 3.0 Consensus size: 32
57042 ACAATTGTCC
57052 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
57084 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
* *
57116 ATGTATTGATACAAAGCATA-ATGTATCGATACA
1 ATGTATCGATACAATG-A-ACATGTATCGATACA
57149 TCTGGGTGTG
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 46 0.75
33 14 0.23
34 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAATGAACATGTATCGATACA
Found at i:65781 original size:20 final size:20
Alignment explanation
Indices: 65756--65809 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
65746 GTTACAAGCA
*
65756 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
65776 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
*
65796 ATGCATCGATACAA
1 ATGTATCGATACAA
65810 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:65882 original size:19 final size:19
Alignment explanation
Indices: 65838--65925 Score: 89
Period size: 19 Copynumber: 4.9 Consensus size: 19
65828 CTGCTAGTTT
* **
65838 CATGAATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
65858 CATGTATCGATATAATGAA
1 CATGTATCGATACAATGAA
65877 CATGTATCGATAC-----A
1 CATGTATCGATACAATGAA
65891 -ATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
65909 CATGTATCGATACAATG
1 CATGTATCGATACAATG
65926 TATCGATACA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
13 12 0.21
14 1 0.02
18 1 0.02
19 30 0.53
20 13 0.23
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:65895 original size:32 final size:32
Alignment explanation
Indices: 65859--65955 Score: 151
Period size: 32 Copynumber: 3.0 Consensus size: 32
65849 ACAATTGTCC
*
65859 ATGTATCGATATAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
65891 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
*
65923 ATGTATCGATACAAAGCATA-ATGTATCGATACA
1 ATGTATCGATACAATG-A-ACATGTATCGATACA
65956 TTCAAGGGTT
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 46 0.75
33 14 0.23
34 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAATGAACATGTATCGATACA
Found at i:65896 original size:13 final size:13
Alignment explanation
Indices: 65878--65936 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
65868 TATAATGAAC
65878 ATGTATCGATACA
1 ATGTATCGATACA
65891 ATGTATCGATAC-
1 ATGTATCGATACA
65903 A---AT-GA-AC-
1 ATGTATCGATACA
65910 ATGTATCGATACA
1 ATGTATCGATACA
65923 ATGTATCGATACA
1 ATGTATCGATACA
65936 A
1 A
65937 AGCATAATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 2 0.05
10 2 0.05
11 2 0.05
12 3 0.08
13 26 0.65
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:67547 original size:79 final size:78
Alignment explanation
Indices: 67452--67654 Score: 284
Period size: 79 Copynumber: 2.6 Consensus size: 78
67442 TCATTCATGT
* * *
67452 TTTTATTTCCAAAACACTAATTTTTTACAATTGGGGATACTCCAACCCCGTTATTTCCGAGGGGA
1 TTTTATTTTCAAAACACTAATTTTTCACAATTGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
*
67517 TACTCCAACCCCGG
66 TACTCC-ACCCCGA
* * *
67531 TTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
1 TTTTATTTTCAAAACACTAATTTTTCACAATTGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
*
67596 TACTCCACTCCGA
66 TACTCCACCCCGA
*
67609 TTTTA-TTTCTAAAACA-TCAATTTTCCACAATTGGGGATACTCCAAC
1 TTTTATTTTC-AAAACACT-AATTTTTCACAATTGGGGATACTCCAAC
67655 TCCTGTTTTA
Statistics
Matches: 110, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
77 4 0.04
78 41 0.37
79 65 0.59
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (78 bp):
TTTTATTTTCAAAACACTAATTTTTCACAATTGGGGATACTCCAACCCCGTTATTTCCAAGGGGA
TACTCCACCCCGA
Found at i:67665 original size:129 final size:129
Alignment explanation
Indices: 67512--67846 Score: 458
Period size: 130 Copynumber: 2.6 Consensus size: 129
67502 TTATTTCCGA
* * *
67512 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACTCC-GTTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
* * * *
67577 CCCGTTATTTCCAAGGGGATACTC-CACTCCGATTTTATTTCTAAAACATCAATTTTCCACAATT
65 CCTGTTATTTCCAAGGGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTCCACAATC
* * * * * *
67641 GGGGATACTCCAACTCCTGTTTTATTTCCAAAACATCGATTTTTCACCATTGAGGATACTCTAAC
1 GGGGATACTCCAACTCC-GTTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
* * *
67706 CTTGTTATTTCCAAGGGGATACTCTAACCCCGGTTTTATTTCTAAAACATCAATTTTCCATAATC
65 CCTGTTATTTCCAAGGGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTCCACAATC
* *
67771 GGGGATACTCTAACTCCGATTTTA-TTTCAAAAACATCAATTTTTCACAATCAGGGATACTCCAA
1 GGGGATACTCCAACTCCG-TTTTATTTTC-AAAACATCAATTTTTCACAATCGGGGATACTCCAA
67835 CCCTGTTATTTC
64 CCCTGTTATTTC
67847 ATCTGGGATA
Statistics
Matches: 177, Mismatches: 26, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
129 81 0.46
130 96 0.54
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (129 bp):
GGGGATACTCCAACTCCGTTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAACC
CTGTTATTTCCAAGGGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTCCACAATC
Found at i:67666 original size:51 final size:50
Alignment explanation
Indices: 67591--67701 Score: 152
Period size: 51 Copynumber: 2.2 Consensus size: 50
67581 TTATTTCCAA
*
67591 GGGGATACTCCACTCCGATTTTATTTCTAAAACATCAATTTTCCACAATT
1 GGGGATACTCCACTCCGATTTTATTTCCAAAACATCAATTTTCCACAATT
* * *
67641 GGGGATACTCCAACTCCTG-TTTTATTTCCAAAACATCGATTTTTCACCATT
1 GGGGATACTCC-ACTCC-GATTTTATTTCCAAAACATCAATTTTCCACAATT
*
67692 GAGGATACTC
1 GGGGATACTC
67702 TAACCTTGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
50 11 0.20
51 42 0.78
52 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (50 bp):
GGGGATACTCCACTCCGATTTTATTTCCAAAACATCAATTTTCCACAATT
Found at i:67776 original size:51 final size:51
Alignment explanation
Indices: 67720--67837 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 51
67710 TTATTTCCAA
* * *
67720 GGGGATACTCTAACCCCGGTTTTATTTCTAAAACATCAATTTTCCATAATC
1 GGGGATACTCTAACCCCGATTTTATTTCAAAAACATCAATTTTCCACAATC
* *
67771 GGGGATACTCTAACTCCGATTTTATTTCAAAAACATCAATTTTTCACAATC
1 GGGGATACTCTAACCCCGATTTTATTTCAAAAACATCAATTTTCCACAATC
* *
67822 AGGGATACTCCAACCC
1 GGGGATACTCTAACCC
67838 TGTTATTTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCTAACCCCGATTTTATTTCAAAAACATCAATTTTCCACAATC
Found at i:67906 original size:31 final size:28
Alignment explanation
Indices: 67823--67892 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
67813 TTCACAATCA
* **
67823 GGGATACTCCAACCCTGTTATTTCAT-CT
1 GGGATACTCCAACCCCGTTATTTC-TGAG
67851 GGGATACTCCAACCCCGTTATTTCTGAG
1 GGGATACTCCAACCCCGTTATTTCTGAG
67879 GGGATACTCCAACC
1 GGGATACTCCAACC
67893 TCGACTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTCTGAG
Found at i:67925 original size:107 final size:107
Alignment explanation
Indices: 67771--67966 Score: 252
Period size: 107 Copynumber: 1.8 Consensus size: 107
67761 TTCCATAATC
* * *
67771 GGGGATACTCTAACTCCGATTTTATTTCAAAAACATCAATTTTTCACAATCAGGGATACTCCAAC
1 GGGGATACTCCAACTCCGACTTTATTTCAAAAACATCAATTTCTCACAATCAGGGATACTCCAAC
* *
67836 CCTGTTA-TTTCATCTGGGATACTCCAACCCCGTTATTTCTGA
66 CCTATTATTTTCA-CGGGGATACTCCAACCCCGTTATTTCTGA
* * ** * *
67878 GGGGATACTCCAAC-CTCGACTTTATTTCTAAAATATTGATTTCTCACAGTCGGGGATACTCCAA
1 GGGGATACTCCAACTC-CGACTTTATTTCAAAAACATCAATTTCTCACAATCAGGGATACTCCAA
*
67942 CCTTATTATTTTCACGGGGATACTC
65 CCCTATTATTTTCACGGGGATACTC
67967 AAATCCCGAT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
106 1 0.01
107 69 0.92
108 5 0.07
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (107 bp):
GGGGATACTCCAACTCCGACTTTATTTCAAAAACATCAATTTCTCACAATCAGGGATACTCCAAC
CCTATTATTTTCACGGGGATACTCCAACCCCGTTATTTCTGA
Found at i:67936 original size:79 final size:78
Alignment explanation
Indices: 67851--68079 Score: 214
Period size: 79 Copynumber: 2.9 Consensus size: 78
67841 TATTTCATCT
* * * **
67851 GGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCTCGACTTTA-TTTCTAAAATATT
1 GGGATACTCCAACCCTGTTATTTCTAAGGGGATACTCCAACC-CGACTTTATTTTC-AAAACACC
*
67915 GA-TTTCTCACAGTCG
64 GATTTTCT-ACAATCG
* * * * *
67930 GGGATACTCCAACCTTATTATTT-TCACGGGGATACTCAAATCCCGATTTTATTTTCAAAACACC
1 GGGATACTCCAACCCTGTTATTTCT-AAGGGGATACTCCAA-CCCGACTTTATTTTCAAAACACC
*
67994 GATTTTCTATAATCG
64 GATTTTCTACAATCG
* * *
68009 GGGATACTCCAACCCTGTTATTTCCAAAGGGATACTCCAACCCTGA-TTTATATTTCTAGAACAC
1 GGGATACTCCAACCCTGTTATTTCTAAGGGGATACTCCAACCC-GACTTTAT-TTTC-AAAACAC
*
68073 TGATTTT
63 CGATTTT
68080 TCATAATCGG
Statistics
Matches: 122, Mismatches: 20, Indels: 15
0.78 0.13 0.10
Matches are distributed among these distances:
78 9 0.07
79 90 0.74
80 23 0.19
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (78 bp):
GGGATACTCCAACCCTGTTATTTCTAAGGGGATACTCCAACCCGACTTTATTTTCAAAACACCGA
TTTTCTACAATCG
Found at i:69758 original size:61 final size:61
Alignment explanation
Indices: 69562--70079 Score: 585
Period size: 61 Copynumber: 8.4 Consensus size: 61
69552 AACCTTTAAT
* * * *
69562 CCTTTCAGTCCTCAAAGAGCAAGATGCCTTCTCCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
69624 CCTTTCAGTCCTCAAAGAGCATGACGCCTTCTCTTTTTTAAAGCTCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTC-CTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
69686 CTTTTTGGTCCTCAAAGAGCAGGACGCCTTTTCATTTTAAAACCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
69747 CCTTTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
69808 CCTTTCAGTCCTTAAAGAGTAGGAAGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * * *
69869 CGTTCCAGTCCTCAAAGAGTAGGACG-C-TTTCCTTTCAAAGCCCATACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * ** *
69928 CCTTCTT-GTCCTCAAGGAGCAGGATACTTTTTCCTTGCAAAGCCCACACAAGTTGATGGCA
1 CCTT-TTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
69989 CCTTCTAGTTCC-CAAAGAGCAGGACACTTTCCTTTTTCCTCTTAAAACCCACACAAGTTGGTGG
1 CCTTTTAG-TCCTCAAAGAGCAGG--AC--GCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGG
70053 CA
60 CA
*
70055 CTTTTTAGTCCTCAAAGAGCAGGAC
1 CCTTTTAGTCCTCAAAGAGCAGGAC
70080 ACTTTATTTC
Statistics
Matches: 389, Mismatches: 55, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
59 47 0.12
60 1 0.00
61 201 0.52
62 88 0.23
63 1 0.00
64 2 0.01
65 4 0.01
66 45 0.12
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:70054 original size:66 final size:65
Alignment explanation
Indices: 69896--70085 Score: 221
Period size: 66 Copynumber: 3.0 Consensus size: 65
69886 AGTAGGACGC
* * *
69896 TTTCCTTTCAAAGCCCATACAAGTTGGTGGCACCTTCTTGTCCTCAAGGAGCAGG--A---TACT
1 TTTCCTTT-AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACTTTACT
69956 T
65 T
* * *
69957 TTTCCTTGCAAAGCCCACACAAGTTGATGGCACCTTCTAGTTCC-CAAAGAGCAGGACACTTTCC
1 TTTCCTT-TAAAGCCCACACAAGTTGGTGGCACCTTCTAG-TCCTCAAAGAGCAGGACACTTTAC
70021 TT
64 TT
* * *
70023 TTTCCTCTTAAAACCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACACTTTA
1 TTTCCT-TTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACTTTA
70086 TTTCATTTTC
Statistics
Matches: 108, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
61 45 0.42
62 3 0.03
63 1 0.01
65 3 0.03
66 55 0.51
67 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.29
Consensus pattern (65 bp):
TTTCCTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACACTTTACTT
Found at i:70125 original size:42 final size:42
Alignment explanation
Indices: 70058--70203 Score: 145
Period size: 43 Copynumber: 3.5 Consensus size: 42
70048 GGTGGCACTT
* *
70058 TTTAGTCCTCAAAGAGCAGG--ACACTTTATTTCATTTTCTCT
1 TTTA-TCCTCAAAGAGCAGGACACACTTTATTTCATTTTTTCC
* *
70099 TTTATCCTCAAAGAGCAGGACACACTTAATTTCTTTCTTTTCC
1 TTTATCCTCAAAGAGCAGGACACACTTTATTTCATT-TTTTCC
* * * * * *
70142 TTTGTCCTTAAAGAGCAAGACGCATTTTATTTCCTTTTTTCC
1 TTTATCCTCAAAGAGCAGGACACACTTTATTTCATTTTTTCC
*
70184 TTTGTCCTCGAAA-AGCAGGA
1 TTTATCCTC-AAAGAGCAGGA
70204 TGCCTCTTCC
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
40 15 0.17
41 4 0.05
42 33 0.38
43 36 0.41
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.40
Consensus pattern (42 bp):
TTTATCCTCAAAGAGCAGGACACACTTTATTTCATTTTTTCC
Found at i:70136 original size:40 final size:40
Alignment explanation
Indices: 70057--70136 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
70047 TGGTGGCACT
*
70057 TTTTAGTCCTCAAAGAGCAGGACACTTTATTTCATTTTCTC
1 TTTTAGTCCTCAAAGAGCAGGACACTTAATTTCA-TTTCTC
70098 TTTTA-TCCTCAAAGAGCAGGACACACTTAATTTC-TTTCT
1 TTTTAGTCCTCAAAGAGCAGG--ACACTTAATTTCATTTCT
70137 TTTCCTTTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
40 20 0.56
41 5 0.14
42 11 0.31
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (40 bp):
TTTTAGTCCTCAAAGAGCAGGACACTTAATTTCATTTCTC
Found at i:70827 original size:45 final size:48
Alignment explanation
Indices: 70773--70880 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 48
70763 TTTCACAATT
70773 TGTATCGATACATCCTTCATTG-T-ATACATTCTAGGTTTTACCT-GA
1 TGTATCGATACATCCTTCATTGATAATACATTCTAGGTTTTACCTAGA
* * *
70818 TGTATCGATACATTCTTCATTGTATCAATACATTTTGGGTTTTACCTAGA
1 TGTATCGATACATCCTTCATTG-AT-AATACATTCTAGGTTTTACCTAGA
70868 TGTATCGATACAT
1 TGTATCGATACAT
70881 TTCTCAATGT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
45 21 0.38
47 1 0.02
49 18 0.33
50 15 0.27
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.43
Consensus pattern (48 bp):
TGTATCGATACATCCTTCATTGATAATACATTCTAGGTTTTACCTAGA
Found at i:70892 original size:50 final size:49
Alignment explanation
Indices: 70773--70902 Score: 153
Period size: 50 Copynumber: 2.7 Consensus size: 49
70763 TTTCACAATT
* *
70773 TGTATCGATACATCCTTC-AT-TGT--ATACATTCTAGGTTTTACCTGA
1 TGTATCGATACATTCTTCAATGTATCAATACATTCTAGGTTTTACCTGA
* * *
70818 TGTATCGATACATTCTTCATTGTATCAATACATTTTGGGTTTTACCTAGA
1 TGTATCGATACATTCTTCAATGTATCAATACATTCTAGGTTTTACCT-GA
*
70868 TGTATCGATACATT-TCTCAATGTATCGATACATTC
1 TGTATCGATACATTCT-TCAATGTATCAATACATTC
70903 AAGCATTTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
45 17 0.24
46 1 0.01
47 2 0.03
49 19 0.27
50 32 0.45
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.42
Consensus pattern (49 bp):
TGTATCGATACATTCTTCAATGTATCAATACATTCTAGGTTTTACCTGA
Found at i:73320 original size:79 final size:77
Alignment explanation
Indices: 73227--73757 Score: 474
Period size: 79 Copynumber: 6.7 Consensus size: 77
73217 ACATTCATGT
* * * *
73227 TTTTATTTCTAAAATACCGATTGTCCACAATCAGGGATACTCTAACCCTATTATTTCAGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTTCACAATC-GGGATACTCCAACCCTATTATTTC-GAGGGGA
73292 TACTCCAA-CCTCGG
64 TACTCCAACCCT-GG
* * * * * * ** * *
73306 TTCTATTTTTAAAATATCGATTTTCCACCATCAACGATACTCCAACCCCATTGTTTTCGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTTCACAATC-GGGATACTCCAACCCTATT-ATTTCGAGGGGA
*
73371 TACTCCAACCCTGA
64 TACTCCAACCCTGG
* * * *
73385 TTTTATTT-TCAAAACATCGATTTTTCACAATCGGAGATACTCTAACCCCATTATTTTCGAAGGG
1 TTTTATTTCT-AAAACACCGATTTTTCACAATCGG-GATACTCCAACCCTATTA-TTTCGAGGGG
*
73449 ATACTTCAACCCTGG
63 ATACTCCAACCCTGG
** * * *
73464 TTTTATTTCTAAAACACTAATTTTTCACCATCGGGGATACTCCAATCCC-GTTGTTTGCGAGGGG
1 TTTTATTTCTAAAACACCGATTTTTCACAATC-GGGATACTCCAA-CCCTATTATTT-CGAGGGG
**
73528 ATACTCCAACCCTAA
63 ATACTCCAACCCTGG
* ** * *
73543 CTTTATTTCTAAAACATTGATTTTTCACAATCGAGGATACTCCAACCCTGTTATTTCCGAAGGGA
1 TTTTATTTCTAAAACACCGATTTTTCACAATCG-GGATACTCCAACCCTATTATTT-CGAGGGGA
*
73608 TACTCCAACCCTAG
64 TACTCCAACCCTGG
* * *
73622 TTTTATTTCTAAAACACCGATTTTTCACCATCGAGGATACTCCAACCTTGTTAATTTCGAGGGGA
1 TTTTATTTCTAAAACACCGATTTTTCACAATCG-GGATACTCCAACCCTATT-ATTTCGAGGGGA
***
73687 TACTCCAACCCCAA
64 TACTCCAACCCTGG
* * * * * * * *
73701 TTTTATTTCCAAAATATCAACTTTTCACCATCGGGGATTCTCCAACCCTATTTTTTC
1 TTTTATTTCTAAAACACCGATTTTTCACAATC-GGGATACTCCAACCCTATTATTTC
73758 TCCAAAATAT
Statistics
Matches: 381, Mismatches: 58, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
78 12 0.03
79 351 0.92
80 18 0.05
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (77 bp):
TTTTATTTCTAAAACACCGATTTTTCACAATCGGGATACTCCAACCCTATTATTTCGAGGGGATA
CTCCAACCCTGG
Found at i:73518 original size:158 final size:157
Alignment explanation
Indices: 73252--73757 Score: 585
Period size: 158 Copynumber: 3.2 Consensus size: 157
73242 ACCGATTGTC
* * *
73252 CACAATCAGG-GATACTCTAACCCTATTA-TTTCAGAGGGGATACTCCAA-CCTCGGTTCTATTT
1 CACAATC-GGAGATACTCCAACCCTATTATTTTC-GAAGGGATACTCCAACCCT-GGTTTTATTT
* * * * * *
73314 TTAAAATA-TCGATTTTCCACCATCAACGATACTCCAACCCCATTGTTTTCGAGGGGATACTCCA
63 CTAAAACACT-GATTTTTCACCATCGAGGATACTCCAA-CCCGTTGTTTTCGAGGGGATACTCCA
*
73378 ACCCTGATTTTATTTTCAAAACATCGATTTTT
126 ACCCTAATTTTATTTTCAAAACATCGATTTTT
* * *
73410 CACAATCGGAGATACTCTAACCCCATTATTTTCGAAGGGATACTTCAACCCTGGTTTTATTTCTA
1 CACAATCGGAGATACTCCAACCCTATTATTTTCGAAGGGATACTCCAACCCTGGTTTTATTTCTA
* * *
73475 AAACACTAATTTTTCACCATCGGGGATACTCCAATCCCGTTGTTTGCGAGGGGATACTCCAACCC
66 AAACACTGATTTTTCACCATCGAGGATACTCCAA-CCCGTTGTTTTCGAGGGGATACTCCAACCC
* *
73540 TAACTTTA-TTTCTAAAACATTGATTTTT
130 TAATTTTATTTTC-AAAACATCGATTTTT
* * *
73568 CACAATC-GAGGATACTCCAACCCTGTTATTTCCGAAGGGATACTCCAACCCTAGTTTTATTTCT
1 CACAATCGGA-GATACTCCAACCCTATTATTTTCGAAGGGATACTCCAACCCTGGTTTTATTTCT
* * **
73632 AAAACACCGATTTTTCACCATCGAGGATACTCCAACCTTGTTAATTTCGAGGGGATACTCCAACC
65 AAAACACTGATTTTTCACCATCGAGGATACTCCAACC-CGTTGTTTTCGAGGGGATACTCCAACC
* * * * *
73697 CCAATTTTATTTCCAAAATATCAACTTTT
129 CTAATTTTATTTTCAAAACATCGATTTTT
* * *
73726 CACCATCGGGGATTCTCCAACCCTATT-TTTTC
1 CACAATCGGAGATACTCCAACCCTATTATTTTC
73758 TCCAAAATAT
Statistics
Matches: 297, Mismatches: 42, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
157 14 0.05
158 271 0.91
159 12 0.04
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (157 bp):
CACAATCGGAGATACTCCAACCCTATTATTTTCGAAGGGATACTCCAACCCTGGTTTTATTTCTA
AAACACTGATTTTTCACCATCGAGGATACTCCAACCCGTTGTTTTCGAGGGGATACTCCAACCCT
AATTTTATTTTCAAAACATCGATTTTT
Found at i:73645 original size:237 final size:237
Alignment explanation
Indices: 73285--73745 Score: 563
Period size: 237 Copynumber: 1.9 Consensus size: 237
73275 TATTATTTCA
*** * * *
73285 GAGGGGATACTCCAACCTCGGTTCTATTTTTAAAATATCGATTTTCCACCATCAACGATACTCCA
1 GAGGGGATACTCCAACCTAACTTCTATTTCTAAAACATCGATTTTCCACAATCAACGATACTCCA
* * * *
73350 ACCCCATTGTTTTCGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACATCGATTTTTCACAA
66 ACCCCATTATTTCCGAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACCGATTTTTCACAA
* * * *** *
73415 TCG-GAGATACTCTAACCCCATTATTTTCGAAGGGATACTTCAACCCTGGTTTTATTTCTAAAAC
131 TCGAG-GATACTCCAACCCCATTAATTTCGAAGGGATACTCCAACCCCAATTTTATTTCCAAAAC
*
73479 A-CTAATTTTTCACCATCGGGGATACTCCAATCCCGTTGTTTGC
195 ATC-AACTTTTCACCATCGGGGATACTCCAATCCCGTTGTTTGC
* * * *
73522 GAGGGGATACTCCAACCCTAACTT-TATTTCTAAAACATTGATTTTTCACAATCGAGGATACTCC
1 GAGGGGATACTCCAA-CCTAACTTCTATTTCTAAAACATCGATTTTCCACAATCAACGATACTCC
**
73586 AACCCTGTTATTTCCGAAGGGATACTCCAACCCT-AGTTTTA-TTTCTAAAACACCGATTTTTCA
65 AACCCCATTATTTCCGAAGGGATACTCCAACCCTGA-TTTTATTTTC-AAAACACCGATTTTTCA
* *** *
73649 CCATCGAGGATACTCCAACCTTGTTAATTTCGAGGGGATACTCCAACCCCAATTTTATTTCCAAA
128 CAATCGAGGATACTCCAACCCCATTAATTTCGAAGGGATACTCCAACCCCAATTTTATTTCCAAA
* *
73714 ATATCAACTTTTCACCATCGGGGATTCTCCAA
193 ACATCAACTTTTCACCATCGGGGATACTCCAA
73746 CCCTATTTTT
Statistics
Matches: 188, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
236 5 0.03
237 176 0.94
238 7 0.04
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (237 bp):
GAGGGGATACTCCAACCTAACTTCTATTTCTAAAACATCGATTTTCCACAATCAACGATACTCCA
ACCCCATTATTTCCGAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACCGATTTTTCACAA
TCGAGGATACTCCAACCCCATTAATTTCGAAGGGATACTCCAACCCCAATTTTATTTCCAAAACA
TCAACTTTTCACCATCGGGGATACTCCAATCCCGTTGTTTGC
Done.